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- PDB-5on6: Crystal structure of haemanthamine bound to the 80S ribosome -

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基本情報

登録情報
データベース: PDB / ID: 5on6
タイトルCrystal structure of haemanthamine bound to the 80S ribosome
要素
  • (40S ribosomal protein ...) x 31
  • (60S ribosomal protein ...) x 41
  • (Suppressor protein ...) x 2
  • (Ubiquitin-40S ribosomal protein ...) x 2
  • 18S ribosomal RNA
  • 25S ribosomal RNA
  • 5.8S ribosomal RNA
  • 5S ribosomal RNA
  • 60S acidic ribosomal protein P0
  • Guanine nucleotide-binding protein subunit beta-like protein
  • Ubiquitin-60S ribosomal protein L40
キーワードRIBOSOME / Inhibitor / Cancer
機能・相同性
機能・相同性情報


triplex DNA binding / ribosome hibernation / translation elongation factor binding / Platelet degranulation / regulation of translational initiation in response to stress / maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, LSU-rRNA,5S) / Negative regulators of DDX58/IFIH1 signaling / regulation of amino acid metabolic process / negative regulation of glucose mediated signaling pathway / positive regulation of translational fidelity ...triplex DNA binding / ribosome hibernation / translation elongation factor binding / Platelet degranulation / regulation of translational initiation in response to stress / maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, LSU-rRNA,5S) / Negative regulators of DDX58/IFIH1 signaling / regulation of amino acid metabolic process / negative regulation of glucose mediated signaling pathway / positive regulation of translational fidelity / RMTs methylate histone arginines / Protein methylation / mTORC1-mediated signalling / Protein hydroxylation / ribosome-associated ubiquitin-dependent protein catabolic process / GDP-dissociation inhibitor activity / positive regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay / pre-mRNA 5'-splice site binding / Formation of the ternary complex, and subsequently, the 43S complex / Translation initiation complex formation / Ribosomal scanning and start codon recognition / preribosome, small subunit precursor / nonfunctional rRNA decay / response to cycloheximide / cleavage in ITS2 between 5.8S rRNA and LSU-rRNA of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / telomeric DNA binding / Major pathway of rRNA processing in the nucleolus and cytosol / mRNA destabilization / SRP-dependent cotranslational protein targeting to membrane / GTP hydrolysis and joining of the 60S ribosomal subunit / negative regulation of translational frameshifting / Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC) / Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC) / TOR signaling / negative regulation of mRNA splicing, via spliceosome / Formation of a pool of free 40S subunits / preribosome, large subunit precursor / L13a-mediated translational silencing of Ceruloplasmin expression / endonucleolytic cleavage to generate mature 3'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / translational elongation / ribosomal large subunit export from nucleus / G-protein alpha-subunit binding / 90S preribosome / positive regulation of protein kinase activity / Ub-specific processing proteases / ribosomal subunit export from nucleus / regulation of translational fidelity / protein-RNA complex assembly / endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / translational termination / maturation of LSU-rRNA / ribosomal small subunit export from nucleus / translation regulator activity / translation repressor activity / DNA-(apurinic or apyrimidinic site) endonuclease activity / rescue of stalled ribosome / telomere maintenance / cellular response to amino acid starvation / ribosome assembly / maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / ribosomal large subunit biogenesis / protein kinase C binding / maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / maturation of SSU-rRNA / translational initiation / small-subunit processome / macroautophagy / maintenance of translational fidelity / modification-dependent protein catabolic process / protein tag activity / cytoplasmic stress granule / rRNA processing / ribosome biogenesis / ribosome binding / ribosomal small subunit biogenesis / ribosomal small subunit assembly / small ribosomal subunit / 5S rRNA binding / ribosomal large subunit assembly / cytosolic small ribosomal subunit / large ribosomal subunit rRNA binding / small ribosomal subunit rRNA binding / cytosolic large ribosomal subunit / cytoplasmic translation / negative regulation of translation / rRNA binding / protein ubiquitination / ribosome / structural constituent of ribosome / G protein-coupled receptor signaling pathway / translation / negative regulation of gene expression / response to antibiotic / mRNA binding / ubiquitin protein ligase binding / negative regulation of apoptotic process / nucleolus / perinuclear region of cytoplasm / mitochondrion / DNA binding
類似検索 - 分子機能
Stm1-like, N-terminal / Stm1 / Hyaluronan/mRNA-binding protein / Hyaluronan / mRNA binding family / 60s Acidic ribosomal protein / 60S acidic ribosomal protein P0 / : / 50S ribosomal protein L10, insertion domain superfamily / 60S ribosomal protein L10P, insertion domain / Insertion domain in 60S ribosomal protein L10P ...Stm1-like, N-terminal / Stm1 / Hyaluronan/mRNA-binding protein / Hyaluronan / mRNA binding family / 60s Acidic ribosomal protein / 60S acidic ribosomal protein P0 / : / 50S ribosomal protein L10, insertion domain superfamily / 60S ribosomal protein L10P, insertion domain / Insertion domain in 60S ribosomal protein L10P / : / : / Ribosomal protein S26e signature. / Ribosomal protein L41 / Ribosomal protein L41 / Ribosomal protein S21e, conserved site / Ribosomal protein S21e signature. / Ribosomal protein S26e / Ribosomal protein S26e superfamily / Ribosomal protein S26e / : / Ribosomal protein S12e signature. / Ribosomal protein S12e / Ribosomal protein L29e / Ribosomal L29e protein family / Ribosomal protein S19e, conserved site / Ribosomal protein S19e signature. / Small (40S) ribosomal subunit Asc1/RACK1 / Ribosomal protein S5, eukaryotic/archaeal / Ribosomal protein S21e / Ribosomal protein S21e superfamily / Ribosomal protein S21e / Ribosomal protein L13e, conserved site / Ribosomal protein L13e signature. / Ribosomal protein S2, eukaryotic / S27a-like superfamily / Ribosomal protein L22e / Ribosomal protein L22e superfamily / Ribosomal L22e protein family / Ribosomal protein L10e, conserved site / Ribosomal protein L10e signature. / Ribosomal protein L27e, conserved site / Ribosomal protein L27e signature. / Ribosomal protein L10e / 40S Ribosomal protein S10 / Ribosomal protein L38e / Ribosomal protein L38e superfamily / Ribosomal L38e protein family / : / Ribosomal protein S7e signature. / Ribosomal protein L44e signature. / Plectin/S10, N-terminal / Plectin/S10 domain / Ribosomal protein L24e, conserved site / Ribosomal protein L24e signature. / : / Ribosomal protein S10, eukaryotic/archaeal / Ribosomal protein L19, eukaryotic / Ribosomal protein L19/L19e conserved site / Ribosomal protein L19e signature. / Ribosomal protein L6e signature. / Ribosomal protein L13e / Ribosomal protein S8e subdomain, eukaryotes / Ribosomal protein L13e / 60S ribosomal protein L18a/ L20, eukaryotes / Ribosomal protein S25 / S25 ribosomal protein / Ribosomal protein S27a / Ribosomal protein S17e, conserved site / : / Ribosomal protein S27a / Ribosomal protein S17e signature. / Ribosomal protein S27a / Ribosomal protein S3Ae, conserved site / Ribosomal protein S3Ae signature. / Ribosomal protein L44e / Ribosomal protein S30 / Ribosomal protein L44 / Ribosomal protein S30 / Ribosomal protein S2, eukaryotic/archaeal / Ribosomal protein L34e, conserved site / Ribosomal protein L34e signature. / Ribosomal protein L5 eukaryotic, C-terminal / Ribosomal L18 C-terminal region / Ribosomal protein L30e signature 1. / 50S ribosomal protein L18Ae/60S ribosomal protein L20 and L18a / 40S ribosomal protein S29/30S ribosomal protein S14 type Z / Ribosomal L40e family / Ribosomal protein S27e signature. / Ribosomal protein 50S-L18Ae/60S-L20/60S-L18A / 40S ribosomal protein S4, C-terminal domain / Ribosomal proteins 50S-L18Ae/60S-L20/60S-L18A / 40S ribosomal protein S4 C-terminus / Ribosomal protein S4e, N-terminal, conserved site / Ribosomal protein S4e signature. / Ribosomal protein L23/L25, N-terminal / : / Ribosomal protein L23, N-terminal domain / Ribosomal protein S3, eukaryotic/archaeal / Ribosomal_L40e
類似検索 - ドメイン・相同性
Haemanthamine / osmium (III) hexammine / : / : / RNA / RNA (> 10) / RNA (> 100) / RNA (> 1000) / : / Small ribosomal subunit protein uS4A ...Haemanthamine / osmium (III) hexammine / : / : / RNA / RNA (> 10) / RNA (> 100) / RNA (> 1000) / : / Small ribosomal subunit protein uS4A / Large ribosomal subunit protein uL15 / Small ribosomal subunit protein eS17A / Large ribosomal subunit protein eL24A / Large ribosomal subunit protein uL23 / Large ribosomal subunit protein eL39 / Large ribosomal subunit protein uL10 / Large ribosomal subunit protein uL30A / Large ribosomal subunit protein uL6A / Large ribosomal subunit protein uL22A / Large ribosomal subunit protein uL24A / Large ribosomal subunit protein eL33A / Large ribosomal subunit protein eL36A / Large ribosomal subunit protein eL29 / Large ribosomal subunit protein eL15A / Large ribosomal subunit protein eL22A / Small ribosomal subunit protein uS3 / Small ribosomal subunit protein uS15 / Ubiquitin-ribosomal protein eS31 fusion protein / Small ribosomal subunit protein eS19A / Small ribosomal subunit protein eS21A / Small ribosomal subunit protein uS8A / Large ribosomal subunit protein eL27A / Large ribosomal subunit protein eL31A / Ubiquitin-ribosomal protein eL40A fusion protein / Large ribosomal subunit protein eL20A / Large ribosomal subunit protein eL43A / Large ribosomal subunit protein eL42A / Small ribosomal subunit protein uS12A / Small ribosomal subunit protein eS24A / Small ribosomal subunit protein eS30A / Small ribosomal subunit protein eS4A / Small ribosomal subunit protein eS6A / Small ribosomal subunit protein eS8A / Large ribosomal subunit protein uL14A / Large ribosomal subunit protein uL2A / Small ribosomal subunit protein uS17A / Large ribosomal subunit protein eL18A / Small ribosomal subunit protein uS9A / Small ribosomal subunit protein uS13A / Large ribosomal subunit protein eL19A / Large ribosomal subunit protein uL29A / Small ribosomal subunit protein eS32A / Small ribosomal subunit protein eS32B / Large ribosomal subunit protein uL4A / Large ribosomal subunit protein eL30 / Large ribosomal subunit protein uL3 / Small ribosomal subunit protein eS17B / Large ribosomal subunit protein eL8A / Small ribosomal subunit protein uS5 / Large ribosomal subunit protein uL18 / Small ribosomal subunit protein uS7 / Large ribosomal subunit protein uL13A / Small ribosomal subunit protein eS7A / Small ribosomal subunit protein uS2A / Small ribosomal subunit protein eS1A / Small ribosomal subunit protein eS27A / Large ribosomal subunit protein eL14A / Small ribosomal subunit protein RACK1 / Large ribosomal subunit protein eL32 / Small ribosomal subunit protein uS10 / Suppressor protein STM1 / Small ribosomal subunit protein uS11B / Small ribosomal subunit protein eS26B / Small ribosomal subunit protein uS14A / Large ribosomal subunit protein uL16 / Small ribosomal subunit protein eS12 / Large ribosomal subunit protein eL37A / Large ribosomal subunit protein eL38 / Large ribosomal subunit protein eL34A / Small ribosomal subunit protein uS19 / Large ribosomal subunit protein eL6A / Large ribosomal subunit protein eL21A / Small ribosomal subunit protein eS10A / Large ribosomal subunit protein eL13A / Large ribosomal subunit protein uL5B / Small ribosomal subunit protein eS25A / Small ribosomal subunit protein eS28A
類似検索 - 構成要素
生物種Saccharomyces cerevisiae (パン酵母)
手法X線回折 / シンクロトロン / 解像度: 3.10000240787 Å
データ登録者Pellegrino, S. / Meyer, M. / Yusupova, G. / Yusupov, M.
資金援助 フランス, 3件
組織認可番号国
French National Research AgencyANR-15-CE11-0021-01 フランス
FRMDBF20160635745 フランス
European Research Council294312
引用ジャーナル: Structure / 年: 2018
タイトル: The Amaryllidaceae Alkaloid Haemanthamine Binds the Eukaryotic Ribosome to Repress Cancer Cell Growth.
著者: Pellegrino, S. / Meyer, M. / Zorbas, C. / Bouchta, S.A. / Saraf, K. / Pelly, S.C. / Yusupova, G. / Evidente, A. / Mathieu, V. / Kornienko, A. / Lafontaine, D.L.J. / Yusupov, M.
履歴
登録2017年8月3日登録サイト: PDBE / 処理サイト: PDBE
改定 1.02018年2月28日Provider: repository / タイプ: Initial release
改定 1.12018年3月14日Group: Database references / カテゴリ: citation
Item: _citation.journal_volume / _citation.page_first / _citation.page_last
改定 1.22024年5月8日Group: Data collection / Database references / Derived calculations
カテゴリ: chem_comp_atom / chem_comp_bond ...chem_comp_atom / chem_comp_bond / database_2 / pdbx_struct_conn_angle / struct_conn / struct_conn_type
Item: _database_2.pdbx_DOI / _database_2.pdbx_database_accession ..._database_2.pdbx_DOI / _database_2.pdbx_database_accession / _pdbx_struct_conn_angle.ptnr1_auth_asym_id / _pdbx_struct_conn_angle.ptnr1_auth_comp_id / _pdbx_struct_conn_angle.ptnr1_auth_seq_id / _pdbx_struct_conn_angle.ptnr1_label_asym_id / _pdbx_struct_conn_angle.ptnr1_label_atom_id / _pdbx_struct_conn_angle.ptnr1_label_comp_id / _pdbx_struct_conn_angle.ptnr1_label_seq_id / _pdbx_struct_conn_angle.ptnr2_auth_asym_id / _pdbx_struct_conn_angle.ptnr2_auth_comp_id / _pdbx_struct_conn_angle.ptnr2_auth_seq_id / _pdbx_struct_conn_angle.ptnr2_label_asym_id / _pdbx_struct_conn_angle.ptnr2_label_atom_id / _pdbx_struct_conn_angle.ptnr2_label_comp_id / _pdbx_struct_conn_angle.ptnr3_auth_asym_id / _pdbx_struct_conn_angle.ptnr3_auth_comp_id / _pdbx_struct_conn_angle.ptnr3_auth_seq_id / _pdbx_struct_conn_angle.ptnr3_label_asym_id / _pdbx_struct_conn_angle.ptnr3_label_atom_id / _pdbx_struct_conn_angle.ptnr3_label_comp_id / _pdbx_struct_conn_angle.ptnr3_label_seq_id / _pdbx_struct_conn_angle.value / _struct_conn.conn_type_id / _struct_conn.id / _struct_conn.pdbx_dist_value / _struct_conn.pdbx_leaving_atom_flag / _struct_conn.ptnr1_auth_asym_id / _struct_conn.ptnr1_auth_comp_id / _struct_conn.ptnr1_auth_seq_id / _struct_conn.ptnr1_label_asym_id / _struct_conn.ptnr1_label_atom_id / _struct_conn.ptnr1_label_comp_id / _struct_conn.ptnr1_label_seq_id / _struct_conn.ptnr2_auth_asym_id / _struct_conn.ptnr2_auth_comp_id / _struct_conn.ptnr2_auth_seq_id / _struct_conn.ptnr2_label_asym_id / _struct_conn.ptnr2_label_atom_id / _struct_conn.ptnr2_label_comp_id / _struct_conn.ptnr2_label_seq_id / _struct_conn_type.id

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構造の表示

構造ビューア分子:
MolmilJmol/JSmol

ダウンロードとリンク

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集合体

登録構造単位
1: 25S ribosomal RNA
3: 5S ribosomal RNA
4: 5.8S ribosomal RNA
j: 60S ribosomal protein L2-A
k: 60S ribosomal protein L3
l: 60S ribosomal protein L4-A
m: 60S ribosomal protein L5
n: 60S ribosomal protein L6-A
o: 60S ribosomal protein L7-A
p: 60S ribosomal protein L8-A
q: 60S ribosomal protein L9-A
r: 60S ribosomal protein L10
s: 60S ribosomal protein L11-B
t: 60S ribosomal protein L13-A
u: 60S ribosomal protein L14-A
v: 60S ribosomal protein L15-A
w: 60S ribosomal protein L16-A
x: 60S ribosomal protein L17-A
y: 60S ribosomal protein L18-A
z: 60S ribosomal protein L19-A
0: 60S ribosomal protein L20-A
2: 60S ribosomal protein L21-A
5: 60S ribosomal protein L22-A
lR: 60S ribosomal protein L23-A
6: 18S ribosomal RNA
7: 60S ribosomal protein L24-A
8: 60S ribosomal protein L25
9: 60S ribosomal protein L26-A
AA: 60S ribosomal protein L27-A
AB: 60S ribosomal protein L28
AC: 60S ribosomal protein L29
AD: 60S ribosomal protein L30
AE: 60S ribosomal protein L31-A
AF: 60S ribosomal protein L32
AG: 60S ribosomal protein L33-A
AH: 60S ribosomal protein L34-A
AI: 60S ribosomal protein L35-A
AJ: 60S ribosomal protein L36-A
AK: 60S ribosomal protein L37-A
AL: 60S ribosomal protein L38
AM: 60S ribosomal protein L39
AN: Ubiquitin-60S ribosomal protein L40
AO: 60S ribosomal protein L41-B
AP: 60S ribosomal protein L42-A
AQ: 60S ribosomal protein L43-A
i: Suppressor protein STM1
AR: 25S ribosomal RNA
AS: 5S ribosomal RNA
AT: 5.8S ribosomal RNA
CD: 60S ribosomal protein L2-A
CE: 60S ribosomal protein L3
CF: 60S ribosomal protein L4-A
CG: 60S ribosomal protein L5
CH: 60S ribosomal protein L6-A
CI: 60S ribosomal protein L7-A
CJ: 60S ribosomal protein L8-A
CK: 60S ribosomal protein L9-A
CL: 60S ribosomal protein L10
CM: 60S ribosomal protein L11-B
m2: 60S ribosomal protein L12
CN: 60S ribosomal protein L13-A
CO: 60S ribosomal protein L14-A
CP: 60S ribosomal protein L15-A
CQ: 60S ribosomal protein L16-A
CR: 60S ribosomal protein L17-A
CS: 60S ribosomal protein L18-A
CT: 60S ribosomal protein L19-A
CU: 60S ribosomal protein L20-A
CV: 60S ribosomal protein L21-A
CW: 60S ribosomal protein L22-A
CX: 60S ribosomal protein L23-A
CY: 60S ribosomal protein L24-A
CZ: 60S ribosomal protein L25
DA: 60S ribosomal protein L26-A
DB: 60S ribosomal protein L27-A
DC: 60S ribosomal protein L28
DD: 60S ribosomal protein L29
DE: 60S ribosomal protein L30
DF: 60S ribosomal protein L31-A
DG: 60S ribosomal protein L32
DH: 60S ribosomal protein L33-A
DI: 60S ribosomal protein L34-A
DJ: 60S ribosomal protein L35-A
DK: 60S ribosomal protein L36-A
DL: 60S ribosomal protein L37-A
DM: 60S ribosomal protein L38
DN: 60S ribosomal protein L39
DO: Ubiquitin-60S ribosomal protein L40
DP: 60S ribosomal protein L41-B
DQ: 60S ribosomal protein L42-A
DR: 60S ribosomal protein L43-A
sM: Suppressor protein STM1,Suppressor protein STM1
p0: 60S acidic ribosomal protein P0
A: 18S ribosomal RNA
B: 40S ribosomal protein S0-A
C: 40S ribosomal protein S1-A
D: 40S ribosomal protein S2
E: 40S ribosomal protein S3
F: 40S ribosomal protein S4-A
G: 40S ribosomal protein S5
H: 40S ribosomal protein S6-A
I: 40S ribosomal protein S7-A
J: 40S ribosomal protein S8-A
K: 40S ribosomal protein S9-A
L: 40S ribosomal protein S10-A
M: 40S ribosomal protein S11-A
N: 40S ribosomal protein S12
O: 40S ribosomal protein S13
P: 40S ribosomal protein S14-B
Q: 40S ribosomal protein S15
R: 40S ribosomal protein S16-A
S: 40S ribosomal protein S17-A
T: 40S ribosomal protein S18-A
U: 40S ribosomal protein S19-A
V: 40S ribosomal protein S20
W: 40S ribosomal protein S21-A
X: 40S ribosomal protein S22-A
Y: 40S ribosomal protein S23-A
Z: 40S ribosomal protein S24-A
a: 40S ribosomal protein S25-A
b: 40S ribosomal protein S26-B
c: 40S ribosomal protein S27-A
d: 40S ribosomal protein S28-A
e: 40S ribosomal protein S29-A
f: 40S ribosomal protein S30-A
g: Ubiquitin-40S ribosomal protein S31
h: Guanine nucleotide-binding protein subunit beta-like protein
s0: 40S ribosomal protein S0-A
s1: 40S ribosomal protein S1-A
s2: 40S ribosomal protein S2
s3: 40S ribosomal protein S3
s4: 40S ribosomal protein S4-A
s5: 40S ribosomal protein S5
s6: 40S ribosomal protein S6-A
s7: 40S ribosomal protein S7-A
s8: 40S ribosomal protein S8-A
s9: 40S ribosomal protein S9-A
c0: 40S ribosomal protein S10-A
c1: 40S ribosomal protein S11-A
c2: 40S ribosomal protein S12
c3: 40S ribosomal protein S13
c4: 40S ribosomal protein S14-B
c5: 40S ribosomal protein S15
c6: 40S ribosomal protein S16-A
c7: 40S ribosomal protein S17-A
c8: 40S ribosomal protein S18-A
c9: 40S ribosomal protein S19-A
d0: 40S ribosomal protein S20
d1: 40S ribosomal protein S21-A
d2: 40S ribosomal protein S22-A
d3: 40S ribosomal protein S23-A
d4: 40S ribosomal protein S24-A
d5: 40S ribosomal protein S25-A
d6: 40S ribosomal protein S26-B
d7: 40S ribosomal protein S27-A
d8: 40S ribosomal protein S28-A
d9: 40S ribosomal protein S29-A
e0: 40S ribosomal protein S30-A
e1: Ubiquitin-40S ribosomal protein S31
sR: Guanine nucleotide-binding protein subunit beta-like protein
ヘテロ分子


分子量 (理論値)分子数
合計 (水以外)6,484,5232708
ポリマ－6,142,211160
非ポリマー342,3122548
水00
1
1: 25S ribosomal RNA
3: 5S ribosomal RNA
4: 5.8S ribosomal RNA
j: 60S ribosomal protein L2-A
k: 60S ribosomal protein L3
l: 60S ribosomal protein L4-A
m: 60S ribosomal protein L5
n: 60S ribosomal protein L6-A
o: 60S ribosomal protein L7-A
p: 60S ribosomal protein L8-A
q: 60S ribosomal protein L9-A
r: 60S ribosomal protein L10
s: 60S ribosomal protein L11-B
t: 60S ribosomal protein L13-A
u: 60S ribosomal protein L14-A
v: 60S ribosomal protein L15-A
w: 60S ribosomal protein L16-A
x: 60S ribosomal protein L17-A
y: 60S ribosomal protein L18-A
z: 60S ribosomal protein L19-A
0: 60S ribosomal protein L20-A
2: 60S ribosomal protein L21-A
5: 60S ribosomal protein L22-A
lR: 60S ribosomal protein L23-A
7: 60S ribosomal protein L24-A
8: 60S ribosomal protein L25
9: 60S ribosomal protein L26-A
AA: 60S ribosomal protein L27-A
AB: 60S ribosomal protein L28
AC: 60S ribosomal protein L29
AD: 60S ribosomal protein L30
AE: 60S ribosomal protein L31-A
AF: 60S ribosomal protein L32
AG: 60S ribosomal protein L33-A
AH: 60S ribosomal protein L34-A
AI: 60S ribosomal protein L35-A
AJ: 60S ribosomal protein L36-A
AK: 60S ribosomal protein L37-A
AL: 60S ribosomal protein L38
AM: 60S ribosomal protein L39
AN: Ubiquitin-60S ribosomal protein L40
AO: 60S ribosomal protein L41-B
AP: 60S ribosomal protein L42-A
AQ: 60S ribosomal protein L43-A
i: Suppressor protein STM1
A: 18S ribosomal RNA
B: 40S ribosomal protein S0-A
C: 40S ribosomal protein S1-A
D: 40S ribosomal protein S2
E: 40S ribosomal protein S3
F: 40S ribosomal protein S4-A
G: 40S ribosomal protein S5
H: 40S ribosomal protein S6-A
I: 40S ribosomal protein S7-A
J: 40S ribosomal protein S8-A
K: 40S ribosomal protein S9-A
L: 40S ribosomal protein S10-A
M: 40S ribosomal protein S11-A
N: 40S ribosomal protein S12
O: 40S ribosomal protein S13
P: 40S ribosomal protein S14-B
Q: 40S ribosomal protein S15
R: 40S ribosomal protein S16-A
S: 40S ribosomal protein S17-A
T: 40S ribosomal protein S18-A
U: 40S ribosomal protein S19-A
V: 40S ribosomal protein S20
W: 40S ribosomal protein S21-A
X: 40S ribosomal protein S22-A
Y: 40S ribosomal protein S23-A
Z: 40S ribosomal protein S24-A
a: 40S ribosomal protein S25-A
b: 40S ribosomal protein S26-B
c: 40S ribosomal protein S27-A
d: 40S ribosomal protein S28-A
e: 40S ribosomal protein S29-A
f: 40S ribosomal protein S30-A
g: Ubiquitin-40S ribosomal protein S31
h: Guanine nucleotide-binding protein subunit beta-like protein
ヘテロ分子


分子量 (理論値)分子数
合計 (水以外)3,224,4871308
ポリマ－3,058,91379
非ポリマー165,5731229
水0
タイプ名称対称操作数
identity operation1_555x,y,z1
2
6: 18S ribosomal RNA
AR: 25S ribosomal RNA
AS: 5S ribosomal RNA
AT: 5.8S ribosomal RNA
CD: 60S ribosomal protein L2-A
CE: 60S ribosomal protein L3
CF: 60S ribosomal protein L4-A
CG: 60S ribosomal protein L5
CH: 60S ribosomal protein L6-A
CI: 60S ribosomal protein L7-A
CJ: 60S ribosomal protein L8-A
CK: 60S ribosomal protein L9-A
CL: 60S ribosomal protein L10
CM: 60S ribosomal protein L11-B
m2: 60S ribosomal protein L12
CN: 60S ribosomal protein L13-A
CO: 60S ribosomal protein L14-A
CP: 60S ribosomal protein L15-A
CQ: 60S ribosomal protein L16-A
CR: 60S ribosomal protein L17-A
CS: 60S ribosomal protein L18-A
CT: 60S ribosomal protein L19-A
CU: 60S ribosomal protein L20-A
CV: 60S ribosomal protein L21-A
CW: 60S ribosomal protein L22-A
CX: 60S ribosomal protein L23-A
CY: 60S ribosomal protein L24-A
CZ: 60S ribosomal protein L25
DA: 60S ribosomal protein L26-A
DB: 60S ribosomal protein L27-A
DC: 60S ribosomal protein L28
DD: 60S ribosomal protein L29
DE: 60S ribosomal protein L30
DF: 60S ribosomal protein L31-A
DG: 60S ribosomal protein L32
DH: 60S ribosomal protein L33-A
DI: 60S ribosomal protein L34-A
DJ: 60S ribosomal protein L35-A
DK: 60S ribosomal protein L36-A
DL: 60S ribosomal protein L37-A
DM: 60S ribosomal protein L38
DN: 60S ribosomal protein L39
DO: Ubiquitin-60S ribosomal protein L40
DP: 60S ribosomal protein L41-B
DQ: 60S ribosomal protein L42-A
DR: 60S ribosomal protein L43-A
sM: Suppressor protein STM1,Suppressor protein STM1
p0: 60S acidic ribosomal protein P0
s0: 40S ribosomal protein S0-A
s1: 40S ribosomal protein S1-A
s2: 40S ribosomal protein S2
s3: 40S ribosomal protein S3
s4: 40S ribosomal protein S4-A
s5: 40S ribosomal protein S5
s6: 40S ribosomal protein S6-A
s7: 40S ribosomal protein S7-A
s8: 40S ribosomal protein S8-A
s9: 40S ribosomal protein S9-A
c0: 40S ribosomal protein S10-A
c1: 40S ribosomal protein S11-A
c2: 40S ribosomal protein S12
c3: 40S ribosomal protein S13
c4: 40S ribosomal protein S14-B
c5: 40S ribosomal protein S15
c6: 40S ribosomal protein S16-A
c7: 40S ribosomal protein S17-A
c8: 40S ribosomal protein S18-A
c9: 40S ribosomal protein S19-A
d0: 40S ribosomal protein S20
d1: 40S ribosomal protein S21-A
d2: 40S ribosomal protein S22-A
d3: 40S ribosomal protein S23-A
d4: 40S ribosomal protein S24-A
d5: 40S ribosomal protein S25-A
d6: 40S ribosomal protein S26-B
d7: 40S ribosomal protein S27-A
d8: 40S ribosomal protein S28-A
d9: 40S ribosomal protein S29-A
e0: 40S ribosomal protein S30-A
e1: Ubiquitin-40S ribosomal protein S31
sR: Guanine nucleotide-binding protein subunit beta-like protein
ヘテロ分子


分子量 (理論値)分子数
合計 (水以外)3,260,0361400
ポリマ－3,083,29881
非ポリマー176,7381319
水0
タイプ名称対称操作数
identity operation1_555x,y,z1
単位格子
Length a, b, c (Å)303.130, 286.500, 435.660
Angle α, β, γ (deg.)90.000, 98.866, 90.000
Int Tables number4
Space group name H-MP1211
Space group name HallP2yb

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要素

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RNA鎖 , 4種, 8分子 1AR3AS4AT6A

#1: RNA鎖 25S ribosomal RNA


分子量: 1097493.875 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: REF: 831416132
#2: RNA鎖 5S ribosomal RNA


分子量: 38951.105 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: GenBank: 1039024380
#3: RNA鎖 5.8S ribosomal RNA


分子量: 50682.922 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: GenBank: 1214879358
#25: RNA鎖 18S ribosomal RNA


分子量: 579761.938 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: REF: 831416132

+
60S ribosomal protein ... , 41種, 81分子 jCDkCElCFmCGnCHoCIpCJqCKrCLsCMtCNuCOvCPwCQxCR...

#4: タンパク質 60S ribosomal protein L2-A / L5 / Large ribosomal subunit protein uL2-A / RP8 / YL6


分子量: 27217.289 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P0CX45
#5: タンパク質 60S ribosomal protein L3 / Large ribosomal subunit protein uL3 / Maintenance of killer protein 8 / RP1 / Trichodermin ...Large ribosomal subunit protein uL3 / Maintenance of killer protein 8 / RP1 / Trichodermin resistance protein / YL1


分子量: 43719.602 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P14126
#6: タンパク質 60S ribosomal protein L4-A / L2 / Large ribosomal subunit protein uL4-A / RP2 / YL2


分子量: 39027.926 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P10664
#7: タンパク質 60S ribosomal protein L5 / L1 / L1a / Large ribosomal subunit protein uL18 / Ribosomal 5S RNA-binding protein / YL3


分子量: 33633.633 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P26321
#8: タンパク質 60S ribosomal protein L6-A / L17 / Large ribosomal subunit protein eL6-A / RP18 / YL16


分子量: 19869.369 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: Q02326
#9: タンパク質 60S ribosomal protein L7-A / L6 / Large ribosomal subunit protein uL30-A / RP11 / YL8


分子量: 25240.377 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P05737
#10: タンパク質 60S ribosomal protein L8-A / L4 / L4-2 / L7a-1 / Large ribosomal subunit protein eL8-A / Maintenance of killer protein 7 / RP6 / YL5


分子量: 25814.998 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P17076
#11: タンパク質 60S ribosomal protein L9-A / L8 / Large ribosomal subunit protein uL6-A / RP24 / YL11


分子量: 21605.061 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P05738
#12: タンパク質 60S ribosomal protein L10 / L9 / Large ribosomal subunit protein uL16 / Ubiquinol-cytochrome C reductase complex subunit VI- ...L9 / Large ribosomal subunit protein uL16 / Ubiquinol-cytochrome C reductase complex subunit VI-requiring protein


分子量: 25279.271 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P41805
#13: タンパク質 60S ribosomal protein L11-B / L16 / Large ribosomal subunit protein uL5-B / RP39 / YL22


分子量: 19266.082 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: Q3E757
#14: タンパク質 60S ribosomal protein L13-A / Large ribosomal subunit protein eL13-A


分子量: 21885.234 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: Q12690
#15: タンパク質 60S ribosomal protein L14-A / Large ribosomal subunit protein eL14-A


分子量: 14976.794 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P36105
#16: タンパク質 60S ribosomal protein L15-A / L13 / Large ribosomal subunit protein eL15-A / RP15R / YL10 / YP18


分子量: 24351.162 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P05748
#17: タンパク質 60S ribosomal protein L16-A / L13a / L21 / Large ribosomal subunit protein uL13-A / RP22 / YL15


分子量: 22028.951 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P26784
#18: タンパク質 60S ribosomal protein L17-A / L20A / Large ribosomal subunit protein uL22-A / YL17


分子量: 20458.322 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P05740
#19: タンパク質 60S ribosomal protein L18-A / Large ribosomal subunit protein eL18-A / RP28


分子量: 20478.059 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P0CX49
#20: タンパク質 60S ribosomal protein L19-A / L23 / Large ribosomal subunit protein eL19-A / RP15L / RP33 / YL14


分子量: 21631.121 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P0CX82
#21: タンパク質 60S ribosomal protein L20-A / L18a / Large ribosomal subunit protein eL20-A


分子量: 20478.852 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P0CX23
#22: タンパク質 60S ribosomal protein L21-A / Large ribosomal subunit protein eL21-A


分子量: 18148.066 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: Q02753
#23: タンパク質 60S ribosomal protein L22-A / L1c / Large ribosomal subunit protein eL22-A / RP4 / YL31


分子量: 11263.863 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P05749
#24: タンパク質 60S ribosomal protein L23-A / L17a / Large ribosomal subunit protein uL14-A / YL32


分子量: 14362.755 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P0CX41
#26: タンパク質 60S ribosomal protein L24-A / L30 / Large ribosomal subunit protein eL24-A / RP29 / YL21


分子量: 11369.424 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P04449
#27: タンパク質 60S ribosomal protein L25 / Large ribosomal subunit protein uL23 / RP16L / YL25 / YP42'


分子量: 13771.176 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P04456
#28: タンパク質 60S ribosomal protein L26-A / L33 / Large ribosomal subunit protein uL24-A / YL33


分子量: 14134.588 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P05743
#29: タンパク質 60S ribosomal protein L27-A / Large ribosomal subunit protein eL27-A


分子量: 15437.166 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P0C2H6
#30: タンパク質 60S ribosomal protein L28 / L27a / L29 / Large ribosomal subunit protein uL15 / RP44 / RP62 / YL24


分子量: 16630.471 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P02406
#31: タンパク質 60S ribosomal protein L29 / Large ribosomal subunit protein eL29 / YL43


分子量: 6560.688 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P05747
#32: タンパク質 60S ribosomal protein L30 / L32 / Large ribosomal subunit protein eL30 / RP73 / YL38


分子量: 10558.344 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P14120
#33: タンパク質 60S ribosomal protein L31-A / L34 / Large ribosomal subunit protein eL31-A / YL28


分子量: 12649.754 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P0C2H8
#34: タンパク質 60S ribosomal protein L32 / Large ribosomal subunit protein eL32


分子量: 14478.054 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P38061
#35: タンパク質 60S ribosomal protein L33-A / L37 / Large ribosomal subunit protein eL33-A / RP47 / YL37


分子量: 12045.935 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P05744
#36: タンパク質 60S ribosomal protein L34-A / Large ribosomal subunit protein eL34-A


分子量: 12608.831 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P87262
#37: タンパク質 60S ribosomal protein L35-A / Large ribosomal subunit protein uL29-A


分子量: 13811.444 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P0CX84
#38: タンパク質 60S ribosomal protein L36-A / L39 / Large ribosomal subunit protein eL36-A / YL39


分子量: 11020.063 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P05745
#39: タンパク質 60S ribosomal protein L37-A / L43 / Large ribosomal subunit protein eL37-A / YL35 / YP55


分子量: 9746.199 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P49166
#40: タンパク質 60S ribosomal protein L38 / Large ribosomal subunit protein eL38


分子量: 8714.363 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P49167
#41: タンパク質・ペプチド 60S ribosomal protein L39 / L46 / Large ribosomal subunit protein eL39 / YL40


分子量: 6227.444 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P04650
#43: タンパク質・ペプチド 60S ribosomal protein L41-B / L47 / Large ribosomal subunit protein eL41-B / YL41


分子量: 3354.243 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P0CX87, UniProt: P0CX86*PLUS
#44: タンパク質 60S ribosomal protein L42-A / L41 / Large ribosomal subunit protein eL42-A / YL27 / YP44


分子量: 12115.462 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P0CX27
#45: タンパク質 60S ribosomal protein L43-A / L37a / Large ribosomal subunit protein eL43-A / YL35


分子量: 9981.756 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P0CX25
#47: タンパク質 60S ribosomal protein L12


分子量: 12783.750 Da / 分子数: 1 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)

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タンパク質 , 3種, 5分子 ANDOp0hsR

#42: タンパク質 Ubiquitin-60S ribosomal protein L40


分子量: 6032.321 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P0CH08
#49: タンパク質 60S acidic ribosomal protein P0 / A0 / L10e / Large ribosomal subunit protein uL10


分子量: 33617.930 Da / 分子数: 1 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P05317
#82: タンパク質 Guanine nucleotide-binding protein subunit beta-like protein / Receptor for activated C kinase / Receptor of activated protein kinase C 1 / RACK1 / Small ...Receptor for activated C kinase / Receptor of activated protein kinase C 1 / RACK1 / Small ribosomal subunit protein RACK1


分子量: 34710.023 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P38011

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Suppressor protein ... , 2種, 2分子 isM

#46: タンパク質 Suppressor protein STM1 / 3BP1 / GU4 nucleic-binding protein 2 / G4p2 protein / POP2 multicopy suppressor protein 4 / ...3BP1 / GU4 nucleic-binding protein 2 / G4p2 protein / POP2 multicopy suppressor protein 4 / Ribosomal subunits association factor / AF / TOM1 suppressor protein 1 / Triplex-binding protein 1


分子量: 29916.814 Da / 分子数: 1 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P39015
#48: タンパク質 Suppressor protein STM1,Suppressor protein STM1 / 3BP1 / GU4 nucleic-binding protein 2 / G4p2 protein / POP2 multicopy suppressor protein 4 / ...3BP1 / GU4 nucleic-binding protein 2 / G4p2 protein / POP2 multicopy suppressor protein 4 / Ribosomal subunits association factor / AF / TOM1 suppressor protein 1 / Triplex-binding protein 1


分子量: 10296.888 Da / 分子数: 1 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P39015

+
40S ribosomal protein ... , 31種, 62分子 Bs0Cs1Ds2Es3Fs4Gs5Hs6Is7Js8Ks9Lc0Mc1Nc2Oc3Pc4...

#50: タンパク質 40S ribosomal protein S0-A / Nucleic acid-binding protein NAB1A / Small ribosomal subunit protein uS2-A


分子量: 22811.074 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P32905
#51: タンパク質 40S ribosomal protein S1-A / RP10A / Small ribosomal subunit protein eS1-A


分子量: 24498.365 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P33442
#52: タンパク質 40S ribosomal protein S2 / Omnipotent suppressor protein SUP44 / RP12 / S4 / Small ribosomal subunit protein uS5 / YS5


分子量: 23212.979 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P25443
#53: タンパク質 40S ribosomal protein S3 / RP13 / Small ribosomal subunit protein uS3 / YS3


分子量: 24702.791 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P05750
#54: タンパク質 40S ribosomal protein S4-A / RP5 / S7 / Small ribosomal subunit protein eS4-A / YS6


分子量: 29338.133 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P0CX35
#55: タンパク質 40S ribosomal protein S5 / RP14 / S2 / Small ribosomal subunit protein uS7 / YS8


分子量: 22908.338 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P26783
#56: タンパク質 40S ribosomal protein S6-A / RP9 / S10 / Small ribosomal subunit protein eS6-A / YS4


分子量: 25895.072 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P0CX37
#57: タンパク質 40S ribosomal protein S7-A / RP30 / RP40 / Small ribosomal subunit protein eS7-A


分子量: 21158.648 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P26786
#58: タンパク質 40S ribosomal protein S8-A / RP19 / S14 / Small ribosomal subunit protein eS8-A / YS9


分子量: 22406.609 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P0CX39
#59: タンパク質 40S ribosomal protein S9-A / RP21 / S13 / Small ribosomal subunit protein uS4-A / YP28 / YS11


分子量: 21210.662 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: O13516
#60: タンパク質 40S ribosomal protein S10-A / Small ribosomal subunit protein eS10-A


分子量: 12757.445 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: Q08745
#61: タンパク質 40S ribosomal protein S11-A / RP41 / S18 / Small ribosomal subunit protein uS17-A / YS12


分子量: 17654.738 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P0CX47
#62: タンパク質 40S ribosomal protein S12 / Small ribosomal subunit protein eS12


分子量: 13327.331 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P48589
#63: タンパク質 40S ribosomal protein S13 / S27a / Small ribosomal subunit protein uS15 / YS15


分子量: 16928.748 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P05756
#64: タンパク質 40S ribosomal protein S14-B / RP59B / Small ribosomal subunit protein uS11-B


分子量: 13560.528 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P39516
#65: タンパク質 40S ribosomal protein S15 / RIG protein / RP52 / S21 / Small ribosomal subunit protein uS19 / YS21


分子量: 15900.712 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: Q01855
#66: タンパク質 40S ribosomal protein S16-A / RP61R / Small ribosomal subunit protein uS9-A


分子量: 15746.292 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P0CX51
#67: タンパク質 40S ribosomal protein S17-A / RP51A / Small ribosomal subunit protein eS17-A


分子量: 14268.545 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P02407, UniProt: P14127*PLUS
#68: タンパク質 40S ribosomal protein S18-A / Small ribosomal subunit protein uS13-A


分子量: 16940.443 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P0CX55
#69: タンパク質 40S ribosomal protein S19-A / RP55A / S16a / Small ribosomal subunit protein eS19-A / YP45 / YS16A


分子量: 15810.930 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P07280
#70: タンパク質 40S ribosomal protein S20 / Small ribosomal subunit protein uS10


分子量: 12575.547 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P38701
#71: タンパク質 40S ribosomal protein S21-A / S26 / Small ribosomal subunit protein eS21-A / YS25


分子量: 9758.829 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P0C0V8
#72: タンパク質 40S ribosomal protein S22-A / RP50 / S24 / Small ribosomal subunit protein uS8-A / YP58 / YS22


分子量: 14518.867 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P0C0W1
#73: タンパク質 40S ribosomal protein S23-A / RP37 / S28 / Small ribosomal subunit protein uS12-A / YS14


分子量: 15942.699 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P0CX29
#74: タンパク質 40S ribosomal protein S24-A / RP50 / Small ribosomal subunit protein eS24-A


分子量: 15231.650 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P0CX31
#75: タンパク質 40S ribosomal protein S25-A / RP45 / S31 / Small ribosomal subunit protein eS25-A / YS23


分子量: 8001.377 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: Q3E792
#76: タンパク質 40S ribosomal protein S26-B / Small ribosomal subunit protein eS26-B


分子量: 11022.989 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P39939
#77: タンパク質 40S ribosomal protein S27-A / RP61 / Small ribosomal subunit protein eS27-A / YS20


分子量: 8762.195 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P35997
#78: タンパク質 40S ribosomal protein S28-A / S33 / Small ribosomal subunit protein eS28-A / YS27


分子量: 7116.281 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: Q3E7X9
#79: タンパク質 40S ribosomal protein S29-A / S36 / Small ribosomal subunit protein uS14-A / YS29


分子量: 6335.303 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P41057
#80: タンパク質 40S ribosomal protein S30-A / Small ribosomal subunit protein eS30-A


分子量: 7006.346 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P0CX33

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Ubiquitin-40S ribosomal protein ... , 2種, 2分子 ge1

#81: タンパク質 Ubiquitin-40S ribosomal protein S31


分子量: 8101.675 Da / 分子数: 1 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P05759
#83: タンパク質 Ubiquitin-40S ribosomal protein S31


分子量: 5704.610 Da / 分子数: 1 / 由来タイプ: 天然
由来: (天然) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (パン酵母)
参照: UniProt: P05759

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非ポリマー , 5種, 2548分子

#84: 化合物...
ChemComp-OHX / osmium (III) hexammine / osmium(6+) hexaazanide


分子量: 286.365 Da / 分子数: 1064 / 由来タイプ: 合成 / 式: H12N6Os
#85: 化合物...
ChemComp-MG / MAGNESIUM ION / マグネシウムジカチオン


分子量: 24.305 Da / 分子数: 1461 / 由来タイプ: 合成 / 式: Mg
#86: 化合物 ChemComp-HN8 / Haemanthamine / Haemanthamin / Natalensin / 3-Epicrinamine / ヘマンタミン


分子量: 301.337 Da / 分子数: 2 / 由来タイプ: 合成 / 式: C17H19NO4 / コメント: alkaloid*YM
#87: 化合物
ChemComp-GOL / GLYCEROL / GLYCERIN / PROPANE-1,2,3-TRIOL / グリセロ-ル


分子量: 92.094 Da / 分子数: 5 / 由来タイプ: 合成 / 式: C3H8O3
#88: 化合物
ChemComp-ZN / ZINC ION


分子量: 65.409 Da / 分子数: 16 / 由来タイプ: 合成 / 式: Zn

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実験情報

-
実験

実験手法: X線回折 / 使用した結晶の数: 1

-
試料調製

結晶マシュー密度: 3.16 Å3/Da / 溶媒含有率: 61.02 %
結晶化温度: 277 K / 手法: 蒸気拡散法, ハンギングドロップ法 / pH: 7
詳細: PEG 20K, KSCN, Mg Acetate, Tris-Acetate, Glycerol, Spermidine

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データ収集

回折平均測定温度: 100 K
放射光源由来: シンクロトロン / サイト: SOLEIL / ビームライン: PROXIMA 1 / 波長: 1.148 Å
検出器タイプ: DECTRIS PILATUS 6M / 検出器: PIXEL / 日付: 2016年1月20日
放射プロトコル: SINGLE WAVELENGTH / 単色(M)・ラウエ(L): M / 散乱光タイプ: x-ray
放射波長波長: 1.148 Å / 相対比: 1
反射解像度: 3.1→100 Å / Num. obs: 1317777 / % possible obs: 99.5 % / 冗長度: 7.48 % / Biso Wilson estimate: 67.2869062598 Å2 / Rrim(I) all: 0.304 / Net I/σ(I): 9.74
反射 シェル

Diffraction-ID: 1

解像度 (Å)冗長度 (%)Rmerge(I) obsMean I/σ(I) obsNum. unique obsCC1/2Rrim(I) all% possible all
3.1-3.26.4582.0591.361188380.5172.23499
3.2-3.36.3971.4551.861052090.631.5899.2
3.3-3.46.3171.1052.43931350.7061.20299.3
3.4-3.56.5410.8653.16830300.7870.93799.5
3.5-3.66.4810.6933.93740760.8420.75299.5
3.6-3.756.2780.5414.94965360.8880.58999.2
3.75-46.4010.3636.931308380.9420.39499.5
4-56.4140.1911.472994600.9810.20799.6
5-66.5140.11116.731326080.9910.12199.5
6-814.2070.39620.241060410.9880.411100
8-1013.980.18627.08378490.9960.193100
10-2013.660.09934.58350230.9980.103100
20-3013.7070.04750.6336040.9990.049100
30-4013.0660.04761.728810.9990.04999.8
40-5011.620.05563.63260.9990.058100
50-759.3620.04558.212320.9980.04896.3
75-1006.0360.03945.12550.9990.04288.7
99.836-1002.750.03610.31360.9990.04175

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解析

ソフトウェア
名称バージョン分類
PHENIXdev_2450精密化
XSCALEデータスケーリング
XDSデータ削減
PHENIX位相決定
精密化解像度: 3.10000240787→99.8360192825 Å / SU ML: 0.42485159433 / 交差検証法: FREE R-VALUE / σ(F): 1.3453222355 / 位相誤差: 25.8770924525
立体化学のターゲット値: GeoStd + Monomer Library + CDL v1.2
Rfactor反射数%反射
Rfree0.252006497329 26196 1.98825837644 %
Rwork0.221759672393 1291339 -
obs0.222362191325 1317535 99.4564199961 %
溶媒の処理減衰半径: 0.8 Å / VDWプローブ半径: 1.1 Å / 溶媒モデル: FLAT BULK SOLVENT MODEL
原子変位パラメータBiso mean: 72.5330409972 Å2
精密化ステップサイクル: LAST / 解像度: 3.10000240787→99.8360192825 Å
タンパク質核酸リガンド溶媒全体
原子数178888 222512 8993 0 410393
拘束条件
Refine-IDタイプDev ideal数
X-RAY DIFFRACTIONf_bond_d0.00562734859114437386
X-RAY DIFFRACTIONf_angle_d0.934912120925648733
X-RAY DIFFRACTIONf_chiral_restr0.045380452720779379
X-RAY DIFFRACTIONf_plane_restr0.0055069153758441681
X-RAY DIFFRACTIONf_dihedral_angle_d17.7039013546237047
LS精密化 シェル
解像度 (Å)Rfactor RfreeNum. reflection RfreeRfactor RworkNum. reflection RworkRefine-ID% reflection obs (%)
3.1-3.13520.4101298108718470.38382121005642722X-RAY DIFFRACTION98.8766339869
3.1352-3.17210.3900226749198700.35582741616942684X-RAY DIFFRACTION99.0403856649
3.1721-3.21080.3770134697688680.33294471593142874X-RAY DIFFRACTION99.1679702555
3.2108-3.25150.3212169862028530.3123851651142885X-RAY DIFFRACTION99.1948835416
3.2515-3.29420.3309662466128740.3030922256342810X-RAY DIFFRACTION99.2051596494
3.2942-3.33940.3375008552238770.29886457023342875X-RAY DIFFRACTION99.2288850585
3.3394-3.38710.3274402831218740.28655817487442841X-RAY DIFFRACTION99.311645236
3.3871-3.43760.308732788798440.28081669044342893X-RAY DIFFRACTION99.4158294313
3.4376-3.49140.3045504716468810.27801048025143066X-RAY DIFFRACTION99.4636067355
3.4914-3.54860.3143028799648440.26829446360542885X-RAY DIFFRACTION99.5039479373
3.5486-3.60980.2754553513018800.24501809926142996X-RAY DIFFRACTION99.4402012556
3.6098-3.67540.255412184159300.23610002662342904X-RAY DIFFRACTION99.3923178087
3.6754-3.74610.2610938481159000.22181970373642694X-RAY DIFFRACTION98.9378602878
3.7461-3.82260.2545542022278660.21662074896342874X-RAY DIFFRACTION99.2602006082
3.8226-3.90570.248350192728970.2110469445942960X-RAY DIFFRACTION99.5279700443
3.9057-3.99660.2389919763368670.20529758084843135X-RAY DIFFRACTION99.5745643811
3.9966-4.09650.239944281918470.20217427436443054X-RAY DIFFRACTION99.5036264733
4.0965-4.20730.2472689848539150.20083717015543086X-RAY DIFFRACTION99.5700481999
4.2073-4.33110.2285046535788170.18825876679743064X-RAY DIFFRACTION99.6570675872
4.3311-4.47090.2242383902558880.18615205972843162X-RAY DIFFRACTION99.6944664479
4.4709-4.63070.2230251819828250.18728310561843192X-RAY DIFFRACTION99.6897223355
4.6307-4.81610.207963627748940.17962508230542966X-RAY DIFFRACTION99.4512720512
4.8161-5.03530.220398186168640.18176522125743069X-RAY DIFFRACTION99.4026743897
5.0353-5.30070.2076127765598640.18105343730843135X-RAY DIFFRACTION99.5903123585
5.3007-5.63280.2182182277648850.1852465814543179X-RAY DIFFRACTION99.5369219996
5.6328-6.06770.2105591921918730.18787089507443145X-RAY DIFFRACTION99.502689995
6.0677-6.67820.227075477898910.20020868051943350X-RAY DIFFRACTION99.9796610169
6.6782-7.64420.2311272376678850.20455927613543435X-RAY DIFFRACTION99.9887196842
7.6442-9.62960.2468319411848720.21704254995243598X-RAY DIFFRACTION100
9.6296-99.88780.2278683475529040.22855389983443806X-RAY DIFFRACTION99.5746197189
精密化 TLS

手法: refined / Refine-ID: X-RAY DIFFRACTION

IDL11 (°2)L12 (°2)L13 (°2)L22 (°2)L23 (°2)L33 (°2)S11 (Å °)S12 (Å °)S13 (Å °)S21 (Å °)S22 (Å °)S23 (Å °)S31 (Å °)S32 (Å °)S33 (Å °)T11 (Å2)T12 (Å2)T13 (Å2)T22 (Å2)T23 (Å2)T33 (Å2)Origin x (Å)Origin y (Å)Origin z (Å)
10.2193364292480.0238620613355-0.04131741607250.1781707983930.007730629717770.247022988558-0.000150325465469-0.000181524672597-0.0294308529074-0.00354252855604-0.0414455609608-0.06010405204450.004187667822630.06615453731180.03600491561550.367292332725-0.0169148838126-0.001980153896380.3542003385070.0644730706730.30216202792568.2830280065-1.3081460266747.9179580725
20.2553449844560.03909883744860.1640757054190.874238263914-0.3740372031470.430956738516-0.04150749915150.08129670062570.270797183533-0.1501187518710.09848479122180.40502247837-0.226912929429-0.192685217769-0.05594897478730.6967511457910.197689544688-0.05230878644060.5913698049240.1255207721710.65558026244712.924771407867.61473061526.2605517088
30.5660301954630.1509894868860.001768414958910.2769169755750.04809707574740.3600683260430.0168940188892-0.215888351242-0.1472297186140.107294584045-0.042204892818-0.2260775253860.08659449543950.3245562749810.03075168562330.4625734831890.00991386312057-0.08395730225620.7012286892810.1487460553150.533893846295114.929682687-7.2452523721982.4276352226
40.8482078692780.124581291318-0.346541365440.4980560118520.02693696412850.260027536525-0.02006033612070.07353207790010.0126728326658-0.14605160464-0.0456128492346-0.246817946873-0.07950353055460.1924668140190.06258070226360.463452412034-0.001428551988840.07997725978430.5874858694540.1189070326140.454475414328123.2158210014.3359817268816.5706329164
50.4705768056450.0783310732618-0.03577321138080.5773108122890.08408073213070.395981629096-0.0361315219560.0462162096555-0.3149978567310.0224651457953-0.06257925708040.04547593107560.304694181962-0.1149348811780.09478170489260.536882516659-0.09516061630530.07583003260860.372936603398-0.04099377406810.51898712614633.1299749181-60.569917677137.584221164
60.4046320778330.00291402013787-0.08385932061120.1925237625050.02388581483980.2625512110810.0501937908658-0.2248228786550.07354328351430.185229215826-0.0461619446469-0.0323102396294-0.08759470743410.0572767590957-0.004726262570880.534348794333-0.1003217460090.01188164996730.4819904092580.02237074001920.30645551322858.068590249725.1422396518102.916944883
70.416492901884-0.123748145884-0.02111503691750.90530565749-0.1680687860880.360907159892-0.1702440642130.05446844669620.523460659037-0.0438679161935-0.02628045927390.104319947602-0.397950409045-0.1150620200350.1691737415470.9435189652540.208347280313-0.1386503174640.4689285517380.108278346940.79857939013526.226594452893.856678654728.9465607073
80.6104846468190.263024576010.110776102710.5756433832160.003815175291710.1744068386990.0349851081396-0.131959111938-0.03528583512060.187006556294-0.05677469806980.0391859233644-0.0587377077982-0.01367342225010.02173446205630.46866732864-0.09198796252010.1041764255130.573805813929-0.0323570538680.326616325504-4.21739166601-11.6283758318106.414056536
91.43411942331-0.0821781009061-0.1754135665471.05107856516-0.08312992339860.757951428156-0.0247777943678-0.07690781532420.2621612348290.235411639322-0.01379579721410.17231271393-0.181238864743-0.177541590490.04759980481530.338596622670.0401584481360.03569772627390.322863054527-0.02452598432770.3260924322634.8754926212731.902012813777.4262234729
100.388895920755-0.22625015323-0.172811435970.9406915020530.3616061277010.5225861429840.0957322609542-0.05558612865090.0715134850943-0.04350854469690.00198449894824-0.427625066169-0.2161030634030.359776319338-0.1182095987070.545021074609-0.2747951133460.04983134266390.9824267825950.09855930953310.831030484663154.62688188540.123562779953.5283972257
110.63343657513-0.0766687870846-0.3864064097740.6847889949520.497983699960.973416315169-0.08237763760680.236355333101-0.24048005604-0.0204394199332-0.07812896749850.2060870915040.29284701907-0.3697584281780.1565441273230.592561433976-0.204577136953-0.004777557084480.744869837905-0.1216024853910.467563797575-11.9096554371-32.314597326618.6612727071
120.5637590030080.2723270949650.007579248336840.55584969850.08412842145270.8321419744470.09060163562340.1500200319380.0627020818294-0.239108405853-0.001248066209630.215242031365-0.0918529280451-0.238888930226-0.0788401300350.5562750161140.0325426463656-0.0743452539470.5767919936020.07416086230280.33828315197510.445659860327.832164232213.1968835959
130.523652290608-0.088230157309-0.04214304511540.524108962566-0.04468847931990.576378535241-0.02286997170380.4995666691820.250549400314-0.419906796158-0.07930074095130.0106568821627-0.35772781877-0.01104164895780.1092930471191.207128876790.074592633636-0.0790113979870.8337348539860.2436901569420.63625558415731.446286495579.4996411114-7.62237945951
140.9180551754980.1631326478650.1481523957870.8908844710390.1227398780480.2191043333940.0715748136775-0.1683884770590.2186980457710.143571044284-0.00119573789228-0.209876575-0.1722263529360.150447941999-0.06428928563970.555804825486-0.257921277919-0.03133737830610.605309161425-0.04379466622240.44877780988599.108088515855.397359603187.8726077892
150.4299226096040.1115854633580.1135892433410.226989173612-0.1770577086760.880502295792-0.0145795569729-0.03259147559130.005415859506530.033550840579-0.004428612054020.1261303126690.102478910764-0.344489327623-0.00208372205480.350955460376-0.07654285384750.06831904687790.5599880946670.0008976549431680.420349709352-26.2214789648-13.619198155465.0637421963
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1530.6158240671470.02726899956850.09888085316750.0159764120428-0.07381542138850.44634824533-0.0540171781336-0.1889793923240.2405621633090.3868362875280.1050530490590.0668416164051-0.319214738638-0.271679272422-0.05079341662220.9697719895230.04131171761560.2213916620570.669813587649-0.1679859801860.57870870888167.58544543818.9184988699276.127335505
1540.0287705131074-0.128163933816-0.04029012157230.799808407068-0.1425270386850.890383409893-0.000736326253421-0.27340378332-0.143959199030.147879146559-0.04581359142540.4087881275370.0384108689172-0.5358549584870.04083459549530.915282147136-0.08696242090460.4298052729951.02194483784-0.03262192520370.88767701969135.274976344-20.8978432452295.632769677
1550.633410452690.06534952779220.1962128269590.0510483254647-0.1057663701010.453514039031-0.0241352456479-0.0374386465383-0.128587828421-0.0407309310756-0.05580144249560.3159400367580.0176025797006-0.2967538454960.07536589267950.954176501538-0.2529400680650.1636884119641.28581824180.1127746035511.47585215571171.90253435650.2517739628288.576807235
1560.4544482789560.586837330283-0.3293553717960.772651011524-0.3628978381131.05469948218-0.0736805059832-0.0547267687787-0.135636805648-0.07538067353-0.0654613916657-0.05123584123880.1709099757050.2423934405080.1431535793480.8911255379220.01039727958210.05130077349860.70376619385-0.1325387267841.01525966853242.34506853540.514818645293.07132728
1570.529473260467-0.114857301383-0.1619416670840.799942516179-0.8812757768061.202058882610.0818422570372-0.3435613228670.1623316180070.3637888174950.0485500101572-0.0886541891008-0.1943457601050.135458582087-0.1166772011351.05336257733-0.195992421765-0.1998712395480.767307640186-0.01768335185540.796025472202239.057060232-20.2485884945289.860180044
1580.05175262150740.0787687343892-0.05268496783580.123918709662-0.05075413883220.153568753087-0.00260169374424-0.105162434192-0.06098220819330.068648355660.0375695425714-0.08798510648670.1202045583940.129161894299-0.02927784096051.415690207840.1474055669310.1263936722521.999409471730.1952737508811.90092410797294.53635540639.7761707183279.363469895
1590.5436249319080.128070643418-0.08693848622250.626230296161-0.005637033366430.772349130737-0.0257383976637-0.6316273463760.3613513509920.706098379850.02583173357310.1848354419180.000471647293643-0.22441103183-0.009949354546991.63116503652-0.07271492596330.3060528404271.43824904172-0.5117905567791.0912698201191.46609065753.4406528567344.397035094
1600.834491725850.721926373518-0.2755218476570.651989896663-0.3273158569071.706531690310.03964985173340.0494682070958-0.1368104242830.05748888407950.083906979056-0.2676658180140.2510916384850.350896046568-0.1041678149270.9912112244480.0149858968476-0.05346614403270.9885439974330.2157557742511.53746164813324.365627611-14.8559969522187.014097794
精密化 TLSグループ
IDRefine-IDRefine TLS-IDSelection details
1X-RAY DIFFRACTION1chain 1
2X-RAY DIFFRACTION2chain 3
3X-RAY DIFFRACTION3chain 4
4X-RAY DIFFRACTION4chain j
5X-RAY DIFFRACTION5chain k
6X-RAY DIFFRACTION6chain l
7X-RAY DIFFRACTION7chain m
8X-RAY DIFFRACTION8chain n
9X-RAY DIFFRACTION9chain o
10X-RAY DIFFRACTION10chain p
11X-RAY DIFFRACTION11chain q
12X-RAY DIFFRACTION12chain r
13X-RAY DIFFRACTION13chain s
14X-RAY DIFFRACTION14chain t
15X-RAY DIFFRACTION15chain u
16X-RAY DIFFRACTION16chain v
17X-RAY DIFFRACTION17chain w
18X-RAY DIFFRACTION18chain x
19X-RAY DIFFRACTION19chain y
20X-RAY DIFFRACTION20chain z
21X-RAY DIFFRACTION21chain 0
22X-RAY DIFFRACTION22chain 2
23X-RAY DIFFRACTION23chain 5
24X-RAY DIFFRACTION24chain lR
25X-RAY DIFFRACTION25chain 6
26X-RAY DIFFRACTION26chain 7
27X-RAY DIFFRACTION27chain 8
28X-RAY DIFFRACTION28chain 9
29X-RAY DIFFRACTION29chain AA
30X-RAY DIFFRACTION30chain AB
31X-RAY DIFFRACTION31chain AC
32X-RAY DIFFRACTION32chain AD
33X-RAY DIFFRACTION33chain AE
34X-RAY DIFFRACTION34chain AF
35X-RAY DIFFRACTION35chain AG
36X-RAY DIFFRACTION36chain AH
37X-RAY DIFFRACTION37chain AI
38X-RAY DIFFRACTION38chain AJ
39X-RAY DIFFRACTION39chain AK
40X-RAY DIFFRACTION40chain AL
41X-RAY DIFFRACTION41chain AM
42X-RAY DIFFRACTION42chain AN
43X-RAY DIFFRACTION43chain AO
44X-RAY DIFFRACTION44chain AP
45X-RAY DIFFRACTION45chain AQ
46X-RAY DIFFRACTION46chain o1
47X-RAY DIFFRACTION47chain i
48X-RAY DIFFRACTION48chain AR
49X-RAY DIFFRACTION49chain AS
50X-RAY DIFFRACTION50chain AT
51X-RAY DIFFRACTION51chain CD
52X-RAY DIFFRACTION52chain CE
53X-RAY DIFFRACTION53chain CF
54X-RAY DIFFRACTION54chain CG
55X-RAY DIFFRACTION55chain CH
56X-RAY DIFFRACTION56chain CI
57X-RAY DIFFRACTION57chain CJ
58X-RAY DIFFRACTION58chain CK
59X-RAY DIFFRACTION59chain CL
60X-RAY DIFFRACTION60chain CM
61X-RAY DIFFRACTION61chain CN
62X-RAY DIFFRACTION62chain CO
63X-RAY DIFFRACTION63chain CP
64X-RAY DIFFRACTION64chain CQ
65X-RAY DIFFRACTION65chain CR
66X-RAY DIFFRACTION66chain CS
67X-RAY DIFFRACTION67chain CT
68X-RAY DIFFRACTION68chain CU
69X-RAY DIFFRACTION69chain CV
70X-RAY DIFFRACTION70chain CW
71X-RAY DIFFRACTION71chain CX
72X-RAY DIFFRACTION72chain CY
73X-RAY DIFFRACTION73chain CZ
74X-RAY DIFFRACTION74chain DA
75X-RAY DIFFRACTION75chain DB
76X-RAY DIFFRACTION76chain DC
77X-RAY DIFFRACTION77chain DD
78X-RAY DIFFRACTION78chain DE
79X-RAY DIFFRACTION79chain DF
80X-RAY DIFFRACTION80chain DG
81X-RAY DIFFRACTION81chain DH
82X-RAY DIFFRACTION82chain DI
83X-RAY DIFFRACTION83chain DJ
84X-RAY DIFFRACTION84chain DK
85X-RAY DIFFRACTION85chain DL
86X-RAY DIFFRACTION86chain DM
87X-RAY DIFFRACTION87chain DN
88X-RAY DIFFRACTION88chain DO
89X-RAY DIFFRACTION89chain DP
90X-RAY DIFFRACTION90chain DQ
91X-RAY DIFFRACTION91chain DR
92X-RAY DIFFRACTION92chain sM
93X-RAY DIFFRACTION93chain A
94X-RAY DIFFRACTION94chain B
95X-RAY DIFFRACTION95chain C
96X-RAY DIFFRACTION96chain D
97X-RAY DIFFRACTION97chain E
98X-RAY DIFFRACTION98chain F
99X-RAY DIFFRACTION99chain G
100X-RAY DIFFRACTION100chain H
101X-RAY DIFFRACTION101chain I
102X-RAY DIFFRACTION102chain J
103X-RAY DIFFRACTION103chain K
104X-RAY DIFFRACTION104chain L
105X-RAY DIFFRACTION105chain M
106X-RAY DIFFRACTION106chain N
107X-RAY DIFFRACTION107chain O
108X-RAY DIFFRACTION108chain P
109X-RAY DIFFRACTION109chain Q
110X-RAY DIFFRACTION110chain R
111X-RAY DIFFRACTION111chain S
112X-RAY DIFFRACTION112chain T
113X-RAY DIFFRACTION113chain U
114X-RAY DIFFRACTION114chain V
115X-RAY DIFFRACTION115chain W
116X-RAY DIFFRACTION116chain X
117X-RAY DIFFRACTION117chain Y
118X-RAY DIFFRACTION118chain Z
119X-RAY DIFFRACTION119chain a
120X-RAY DIFFRACTION120chain b
121X-RAY DIFFRACTION121chain c
122X-RAY DIFFRACTION122chain d
123X-RAY DIFFRACTION123chain e
124X-RAY DIFFRACTION124chain f
125X-RAY DIFFRACTION125chain g
126X-RAY DIFFRACTION126chain h
127X-RAY DIFFRACTION127chain s0
128X-RAY DIFFRACTION128chain s1
129X-RAY DIFFRACTION129chain s2
130X-RAY DIFFRACTION130chain s3
131X-RAY DIFFRACTION131chain s4
132X-RAY DIFFRACTION132chain s5
133X-RAY DIFFRACTION133chain s6
134X-RAY DIFFRACTION134chain s7
135X-RAY DIFFRACTION135chain s8
136X-RAY DIFFRACTION136chain s9
137X-RAY DIFFRACTION137chain c1
138X-RAY DIFFRACTION138chain c2
139X-RAY DIFFRACTION139chain c3
140X-RAY DIFFRACTION140chain c4
141X-RAY DIFFRACTION141chain c5
142X-RAY DIFFRACTION142chain c6
143X-RAY DIFFRACTION143chain c7
144X-RAY DIFFRACTION144chain c8
145X-RAY DIFFRACTION145chain c9
146X-RAY DIFFRACTION146chain c0
147X-RAY DIFFRACTION147chain d0
148X-RAY DIFFRACTION148chain d1
149X-RAY DIFFRACTION149chain d2
150X-RAY DIFFRACTION150chain d3
151X-RAY DIFFRACTION151chain d4
152X-RAY DIFFRACTION152chain d5
153X-RAY DIFFRACTION153chain d6
154X-RAY DIFFRACTION154chain d7
155X-RAY DIFFRACTION155chain d8
156X-RAY DIFFRACTION156chain d9
157X-RAY DIFFRACTION157chain e0
158X-RAY DIFFRACTION158chain e1
159X-RAY DIFFRACTION159chain sR
160X-RAY DIFFRACTION160chain p0

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万見について

-
お知らせ

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2022年2月9日: EMDBエントリの付随情報ファイルのフォーマットが新しくなりました

EMDBエントリの付随情報ファイルのフォーマットが新しくなりました

  • EMDBのヘッダファイルのバージョン3が、公式のフォーマットとなりました。
  • これまでは公式だったバージョン1.9は、アーカイブから削除されます。

関連情報:EMDBヘッダ

外部リンク:wwPDBはEMDBデータモデルのバージョン3へ移行します

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2020年8月12日: 新型コロナ情報

新型コロナ情報

URL: https://pdbj.org/emnavi/covid19.php

新ページ: EM Navigatorに新型コロナウイルスの特設ページを開設しました。

関連情報:Covid-19情報 / 2020年3月5日: 新型コロナウイルスの構造データ

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2020年3月5日: 新型コロナウイルスの構造データ

新型コロナウイルスの構造データ

関連情報:万見生物種 / 2020年8月12日: 新型コロナ情報

外部リンク:COVID-19特集ページ - PDBj / 今月の分子2020年2月：コロナウイルスプロテーアーゼ

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2019年1月31日: EMDBのIDの桁数の変更

EMDBのIDの桁数の変更

  • EMDBエントリに付与されているアクセスコード(EMDB-ID)は4桁の数字(例、EMD-1234)でしたが、間もなく枯渇します。これまでの4桁のID番号は4桁のまま変更されませんが、4桁の数字を使い切った後に発行されるIDは5桁以上の数字(例、EMD-12345)になります。5桁のIDは2019年の春頃から発行される見通しです。
  • EM Navigator/万見では、接頭語「EMD-」は省略されています。

関連情報:Q: 「EMD」とは何ですか？ / 万見/EM NavigatorにおけるID/アクセスコードの表記

外部リンク:EMDB Accession Codes are Changing Soon! / PDBjへお問い合わせ

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2017年7月12日: PDB大規模アップデート

PDB大規模アップデート

  • 新バージョンのPDBx/mmCIF辞書形式に基づくデータがリリースされました。
  • 今回の更新はバージョン番号が4から5になる大規模なもので、全エントリデータの書き換えが行われる「Remediation」というアップデートに該当します。
  • このバージョンアップで、電子顕微鏡の実験手法に関する多くの項目の書式が改定されました(例：em_softwareなど)。
  • EM NavigatorとYorodumiでも、この改定に基づいた表示内容になります。

外部リンク:wwPDB Remediation / OneDepデータ基準に準拠した、より強化された内容のモデル構造ファイルが、PDBアーカイブで公開されました。

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万見 (Yorodumi)

幾万の構造データを、幾万の視点から

  • 万見(Yorodumi)は、EMDB/PDB/SASBDBなどの構造データを閲覧するためのページです。
  • EM Navigatorの詳細ページの後継、Omokage検索のフロントエンドも兼ねています。

関連情報:EMDB / PDB / SASBDB / 3つのデータバンクの比較 / 万見検索 / 2016年8月31日: 新しいEM Navigatorと万見 / 万見文献 / Jmol/JSmol / 機能・相同性情報 / 新しいEM Navigatorと万見の変更点

他の情報も見る