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- PDB-5j4d: E. coli release factor 1 bound to the 70S ribosome in response to... -

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基本情報

登録情報
データベース: PDB / ID: 5j4d
タイトルE. coli release factor 1 bound to the 70S ribosome in response to a pseudouridylated stop codon
要素
  • (30S ribosomal protein ...) x 20
  • (50S ribosomal protein ...) x 29
  • 16S ribosomal RNA
  • 25S ribosomal RNA
  • 5S ribosomal RNA
  • Peptide chain release factor 1
  • mRNA
  • tRNA
キーワードRIBOSOME / pseudouridine / post-transcriptional modification of mRNA / translation regulation / stop-codon read through / translation termination / translation
機能・相同性
機能・相同性情報


translation release factor activity, codon specific / translational termination / large ribosomal subunit / transferase activity / ribosome binding / ribosomal small subunit biogenesis / ribosomal small subunit assembly / small ribosomal subunit / 5S rRNA binding / ribosomal large subunit assembly ...translation release factor activity, codon specific / translational termination / large ribosomal subunit / transferase activity / 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 / tRNA binding / negative regulation of translation / rRNA binding / ribosome / structural constituent of ribosome / translation / ribonucleoprotein complex / mRNA binding / zinc ion binding / metal ion binding / cytosol / cytoplasm
類似検索 - 分子機能
Peptide chain release factor 1 / : / Peptide chain release factor / PCRF domain / PCRF / Peptide chain release factor class I superfamily / Prokaryotic-type class I peptide chain release factors signature. / Peptide chain release factor class I / RF-1 domain / 30S ribosomal protein Thx ...Peptide chain release factor 1 / : / Peptide chain release factor / PCRF domain / PCRF / Peptide chain release factor class I superfamily / Prokaryotic-type class I peptide chain release factors signature. / Peptide chain release factor class I / RF-1 domain / 30S ribosomal protein Thx / 30S ribosomal protein Thx / 30S ribosomal protein / Ribosomal protein L25, long-form / Ribosomal protein L25, beta domain / Ribosomal protein L25, C-terminal / Ribosomal protein TL5, C-terminal domain / : / Ribosomal protein S14, type Z / Ribosomal protein L31 type A / Ribosomal protein L31 signature. / Ribosomal protein L31 / Ribosomal protein L31 superfamily / Ribosomal protein L31 / : / Ribosomal protein L9 signature. / Ribosomal protein L9, bacteria/chloroplast / Ribosomal protein L9, C-terminal / Ribosomal protein L9, C-terminal domain / Ribosomal protein L9, C-terminal domain superfamily / Ribosomal L25p family / Ribosomal protein L25 / Ribosomal protein L36 signature. / Ribosomal protein L32p, bacterial type / Ribosomal protein L25/Gln-tRNA synthetase, N-terminal / Ribosomal protein L25/Gln-tRNA synthetase, anti-codon-binding domain superfamily / Ribosomal protein L9, N-terminal domain superfamily / Ribosomal protein L9 / Ribosomal protein L9, N-terminal / Ribosomal protein L9, N-terminal domain / Ribosomal protein L33, conserved site / Ribosomal protein L33 signature. / Ribosomal protein L35, conserved site / Ribosomal protein L35 signature. / Ribosomal protein L28 / Ribosomal protein L35, non-mitochondrial / : / Ribosomal protein L5, bacterial-type / Ribosomal protein L18, bacterial-type / : / Ribosomal protein S19, bacterial-type / Ribosomal protein S3, bacterial-type / Ribosomal protein L6, bacterial-type / Ribosomal protein S13, bacterial-type / Ribosomal protein S6, conserved site / Ribosomal protein S6 signature. / Ribosomal protein S7, bacterial/organellar-type / Ribosomal protein L9/RNase H1, N-terminal / Ribosomal protein S9, bacterial/plastid / Ribosomal protein S11, bacterial-type / Ribosomal protein S20 / Ribosomal protein S20 superfamily / Ribosomal protein S20 / Ribosomal protein L36 / Ribosomal protein S4, bacterial-type / Ribosomal protein L36 superfamily / Ribosomal protein L36 / 30S ribosomal protein S17 / Ribosomal protein S5, bacterial-type / Ribosomal protein L19, conserved site / Ribosomal protein L19 signature. / Ribosomal protein L27, conserved site / Ribosomal protein L27 signature. / Ribosomal protein S14/S29 / Ribosomal protein L20 signature. / Ribosomal protein L22, bacterial/chloroplast-type / Ribosomal protein L14P, bacterial-type / Ribosomal protein L34, conserved site / Ribosomal protein L34 signature. / Ribosomal protein S2, bacteria/mitochondria/plastid / Ribosomal protein L2, bacterial/organellar-type / Ribosomal protein L35 / Ribosomal protein L35 superfamily / Ribosomal protein L35 / Ribosomal protein L33 / Ribosomal protein L33 / Ribosomal L28 family / Ribosomal protein L33 superfamily / Ribosomal protein L16 / Ribosomal protein S18, conserved site / Ribosomal protein S18 signature. / Ribosomal protein L28/L24 / Ribosomal protein L18 / Ribosomal L18 of archaea, bacteria, mitoch. and chloroplast / Ribosomal protein S6, plastid/chloroplast / Ribosomal protein L30, bacterial-type / Ribosomal protein S16 / Ribosomal protein S16 domain superfamily / Ribosomal protein S16 / : / L28p-like
類似検索 - ドメイン・相同性
: / : / : / RNA / RNA (> 10) / RNA (> 100) / RNA (> 1000) / Peptide chain release factor RF1 / Large ribosomal subunit protein bL27 / Small ribosomal subunit protein uS12 ...: / : / : / RNA / RNA (> 10) / RNA (> 100) / RNA (> 1000) / Peptide chain release factor RF1 / Large ribosomal subunit protein bL27 / Small ribosomal subunit protein uS12 / Small ribosomal subunit protein bS16 / Small ribosomal subunit protein bTHX / Large ribosomal subunit protein bL32 / Small ribosomal subunit protein uS10 / Small ribosomal subunit protein uS11 / Small ribosomal subunit protein uS13 / Small ribosomal subunit protein uS14 / Small ribosomal subunit protein uS15 / Small ribosomal subunit protein uS17 / Small ribosomal subunit protein bS18 / Small ribosomal subunit protein uS19 / Small ribosomal subunit protein bS20 / Small ribosomal subunit protein uS2 / Small ribosomal subunit protein uS3 / Small ribosomal subunit protein uS4 / Small ribosomal subunit protein uS5 / Small ribosomal subunit protein bS6 / Small ribosomal subunit protein uS7 / Small ribosomal subunit protein uS8 / Small ribosomal subunit protein uS9 / Large ribosomal subunit protein bL34 / Large ribosomal subunit protein bL28 / Large ribosomal subunit protein bL9 / Large ribosomal subunit protein bL33 / Large ribosomal subunit protein bL21 / Large ribosomal subunit protein uL3 / Large ribosomal subunit protein uL4 / Large ribosomal subunit protein uL23 / Large ribosomal subunit protein uL2 / Large ribosomal subunit protein uL22 / Large ribosomal subunit protein uL16 / Large ribosomal subunit protein uL29 / Large ribosomal subunit protein uL14 / Large ribosomal subunit protein uL24 / Large ribosomal subunit protein uL5 / Large ribosomal subunit protein uL6 / Large ribosomal subunit protein uL18 / Large ribosomal subunit protein uL30 / Large ribosomal subunit protein uL15 / Large ribosomal subunit protein bL36 / Large ribosomal subunit protein bL17 / Large ribosomal subunit protein bL25 / Large ribosomal subunit protein uL13 / Large ribosomal subunit protein bL31 / Large ribosomal subunit protein bL19 / Large ribosomal subunit protein bL20 / Large ribosomal subunit protein bL35
類似検索 - 構成要素
生物種Escherichia coli (大腸菌)
Thermus thermophilus HB27 (バクテリア)
Escherichia coli K-12 (大腸菌)
Thermus thermophilus (バクテリア)
synthetic construct (人工物)
手法X線回折 / シンクロトロン / 分子置換 / 解像度: 3.1 Å
データ登録者Svidritskiy, E. / Korostelev, A.A.
資金援助 米国, 1件
組織認可番号国
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)GM107465 米国
引用ジャーナル: J.Mol.Biol. / 年: 2016
タイトル: Structural Basis for Translation Termination on a Pseudouridylated Stop Codon.
著者: Svidritskiy, E. / Madireddy, R. / Korostelev, A.A.
履歴
登録2016年3月31日登録サイト: RCSB / 処理サイト: RCSB
改定 1.02016年5月18日Provider: repository / タイプ: Initial release
改定 1.12016年6月8日Group: Database references
改定 1.22017年9月6日Group: Author supporting evidence / Database references / Derived calculations
カテゴリ: citation / pdbx_audit_support / pdbx_struct_oper_list
Item: _citation.journal_id_CSD / _pdbx_audit_support.funding_organization / _pdbx_struct_oper_list.symmetry_operation
改定 2.02018年7月11日Group: Data collection / Polymer sequence / カテゴリ: entity_poly / Item: _entity_poly.type
改定 2.12019年12月25日Group: Author supporting evidence / カテゴリ: pdbx_audit_support / Item: _pdbx_audit_support.funding_organization
改定 2.22025年2月19日Group: Data collection / Database references ...Data collection / Database references / Derived calculations / Structure summary
カテゴリ: chem_comp_atom / chem_comp_bond ...chem_comp_atom / chem_comp_bond / database_2 / pdbx_entry_details / pdbx_modification_feature / 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_PDB_ins_code / _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.ptnr2_symmetry / _pdbx_struct_conn_angle.ptnr3_PDB_ins_code / _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.pdbx_ptnr1_PDB_ins_code / _struct_conn.pdbx_ptnr2_PDB_ins_code / _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.ptnr1_symmetry / _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.ptnr2_symmetry / _struct_conn_type.id
改定 2.32025年3月19日Group: Data collection / カテゴリ: chem_comp_atom / chem_comp_bond
Item: _chem_comp_atom.atom_id / _chem_comp_atom.pdbx_aromatic_flag ..._chem_comp_atom.atom_id / _chem_comp_atom.pdbx_aromatic_flag / _chem_comp_bond.atom_id_1 / _chem_comp_bond.atom_id_2 / _chem_comp_bond.pdbx_aromatic_flag / _chem_comp_bond.value_order

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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
A: 16S ribosomal RNA
B: 25S ribosomal RNA
C: 5S ribosomal RNA
D: tRNA
E: 50S ribosomal protein L2
F: 50S ribosomal protein L3
G: 50S ribosomal protein L4
H: 50S ribosomal protein L5
I: 50S ribosomal protein L6
J: 50S ribosomal protein L9
K: 50S ribosomal protein L13
L: 50S ribosomal protein L14
M: 50S ribosomal protein L15
N: 50S ribosomal protein L16
O: 50S ribosomal protein L17
P: 50S ribosomal protein L18
Q: 50S ribosomal protein L19
R: 50S ribosomal protein L20
S: 50S ribosomal protein L21
T: 50S ribosomal protein L22
U: 50S ribosomal protein L23
V: 50S ribosomal protein L24
W: 50S ribosomal protein L25
X: 50S ribosomal protein L27
Y: 50S ribosomal protein L28
Z: 50S ribosomal protein L29
AA: 50S ribosomal protein L30
BA: 50S ribosomal protein L31
CA: 50S ribosomal protein L32
DA: 50S ribosomal protein L33
EA: 50S ribosomal protein L34
FA: 50S ribosomal protein L35
GA: 50S ribosomal protein L36
HA: mRNA
IA: tRNA
JA: Peptide chain release factor 1
KA: 30S ribosomal protein S2
LA: 30S ribosomal protein S3
MA: 30S ribosomal protein S4
NA: 30S ribosomal protein S5
OA: 30S ribosomal protein S6
PA: 30S ribosomal protein S7
QA: 30S ribosomal protein S8
RA: 30S ribosomal protein S9
SA: 30S ribosomal protein S10
TA: 30S ribosomal protein S11
UA: 30S ribosomal protein S12
VA: 30S ribosomal protein S13
WA: 30S ribosomal protein S14 type Z
XA: 30S ribosomal protein S15
YA: 30S ribosomal protein S16
ZA: 30S ribosomal protein S17
AB: 30S ribosomal protein S18
BB: 30S ribosomal protein S19
CB: 30S ribosomal protein S20
DB: 30S ribosomal protein Thx
FB: 16S ribosomal RNA
GB: 25S ribosomal RNA
HB: 5S ribosomal RNA
IB: tRNA
JB: 50S ribosomal protein L2
KB: 50S ribosomal protein L3
LB: 50S ribosomal protein L4
MB: 50S ribosomal protein L5
NB: 50S ribosomal protein L6
OB: 50S ribosomal protein L9
PB: 50S ribosomal protein L13
QB: 50S ribosomal protein L14
RB: 50S ribosomal protein L15
SB: 50S ribosomal protein L16
TB: 50S ribosomal protein L17
UB: 50S ribosomal protein L18
VB: 50S ribosomal protein L19
WB: 50S ribosomal protein L20
XB: 50S ribosomal protein L21
YB: 50S ribosomal protein L22
ZB: 50S ribosomal protein L23
AC: 50S ribosomal protein L24
BC: 50S ribosomal protein L25
CC: 50S ribosomal protein L27
DC: 50S ribosomal protein L28
EC: 50S ribosomal protein L29
FC: 50S ribosomal protein L30
GC: 50S ribosomal protein L31
HC: 50S ribosomal protein L32
IC: 50S ribosomal protein L33
JC: 50S ribosomal protein L34
KC: 50S ribosomal protein L35
LC: 50S ribosomal protein L36
MC: mRNA
NC: tRNA
OC: Peptide chain release factor 1
PC: 30S ribosomal protein S2
QC: 30S ribosomal protein S3
RC: 30S ribosomal protein S4
SC: 30S ribosomal protein S5
TC: 30S ribosomal protein S6
UC: 30S ribosomal protein S7
VC: 30S ribosomal protein S8
WC: 30S ribosomal protein S9
XC: 30S ribosomal protein S10
YC: 30S ribosomal protein S11
ZC: 30S ribosomal protein S12
AD: 30S ribosomal protein S13
BD: 30S ribosomal protein S14 type Z
CD: 30S ribosomal protein S15
DD: 30S ribosomal protein S16
ED: 30S ribosomal protein S17
FD: 30S ribosomal protein S18
GD: 30S ribosomal protein S19
HD: 30S ribosomal protein S20
ID: 30S ribosomal protein Thx
ヘテロ分子


分子量 (理論値)分子数
合計 (水以外)4,575,4643015
ポリマ－4,504,496112
非ポリマー70,9682903
水00
1
A: 16S ribosomal RNA
B: 25S ribosomal RNA
C: 5S ribosomal RNA
D: tRNA
E: 50S ribosomal protein L2
F: 50S ribosomal protein L3
G: 50S ribosomal protein L4
H: 50S ribosomal protein L5
I: 50S ribosomal protein L6
J: 50S ribosomal protein L9
K: 50S ribosomal protein L13
L: 50S ribosomal protein L14
M: 50S ribosomal protein L15
N: 50S ribosomal protein L16
O: 50S ribosomal protein L17
P: 50S ribosomal protein L18
Q: 50S ribosomal protein L19
R: 50S ribosomal protein L20
S: 50S ribosomal protein L21
T: 50S ribosomal protein L22
U: 50S ribosomal protein L23
V: 50S ribosomal protein L24
W: 50S ribosomal protein L25
X: 50S ribosomal protein L27
Y: 50S ribosomal protein L28
Z: 50S ribosomal protein L29
AA: 50S ribosomal protein L30
BA: 50S ribosomal protein L31
CA: 50S ribosomal protein L32
DA: 50S ribosomal protein L33
EA: 50S ribosomal protein L34
FA: 50S ribosomal protein L35
GA: 50S ribosomal protein L36
HA: mRNA
IA: tRNA
JA: Peptide chain release factor 1
KA: 30S ribosomal protein S2
LA: 30S ribosomal protein S3
MA: 30S ribosomal protein S4
NA: 30S ribosomal protein S5
OA: 30S ribosomal protein S6
PA: 30S ribosomal protein S7
QA: 30S ribosomal protein S8
RA: 30S ribosomal protein S9
SA: 30S ribosomal protein S10
TA: 30S ribosomal protein S11
UA: 30S ribosomal protein S12
VA: 30S ribosomal protein S13
WA: 30S ribosomal protein S14 type Z
XA: 30S ribosomal protein S15
YA: 30S ribosomal protein S16
ZA: 30S ribosomal protein S17
AB: 30S ribosomal protein S18
BB: 30S ribosomal protein S19
CB: 30S ribosomal protein S20
DB: 30S ribosomal protein Thx
ヘテロ分子


分子量 (理論値)分子数
合計 (水以外)2,289,2751571
ポリマ－2,252,24856
非ポリマー37,0281515
水0
タイプ名称対称操作数
identity operation1_555x,y,z1
2
FB: 16S ribosomal RNA
GB: 25S ribosomal RNA
HB: 5S ribosomal RNA
IB: tRNA
JB: 50S ribosomal protein L2
KB: 50S ribosomal protein L3
LB: 50S ribosomal protein L4
MB: 50S ribosomal protein L5
NB: 50S ribosomal protein L6
OB: 50S ribosomal protein L9
PB: 50S ribosomal protein L13
QB: 50S ribosomal protein L14
RB: 50S ribosomal protein L15
SB: 50S ribosomal protein L16
TB: 50S ribosomal protein L17
UB: 50S ribosomal protein L18
VB: 50S ribosomal protein L19
WB: 50S ribosomal protein L20
XB: 50S ribosomal protein L21
YB: 50S ribosomal protein L22
ZB: 50S ribosomal protein L23
AC: 50S ribosomal protein L24
BC: 50S ribosomal protein L25
CC: 50S ribosomal protein L27
DC: 50S ribosomal protein L28
EC: 50S ribosomal protein L29
FC: 50S ribosomal protein L30
GC: 50S ribosomal protein L31
HC: 50S ribosomal protein L32
IC: 50S ribosomal protein L33
JC: 50S ribosomal protein L34
KC: 50S ribosomal protein L35
LC: 50S ribosomal protein L36
MC: mRNA
NC: tRNA
OC: Peptide chain release factor 1
PC: 30S ribosomal protein S2
QC: 30S ribosomal protein S3
RC: 30S ribosomal protein S4
SC: 30S ribosomal protein S5
TC: 30S ribosomal protein S6
UC: 30S ribosomal protein S7
VC: 30S ribosomal protein S8
WC: 30S ribosomal protein S9
XC: 30S ribosomal protein S10
YC: 30S ribosomal protein S11
ZC: 30S ribosomal protein S12
AD: 30S ribosomal protein S13
BD: 30S ribosomal protein S14 type Z
CD: 30S ribosomal protein S15
DD: 30S ribosomal protein S16
ED: 30S ribosomal protein S17
FD: 30S ribosomal protein S18
GD: 30S ribosomal protein S19
HD: 30S ribosomal protein S20
ID: 30S ribosomal protein Thx
ヘテロ分子


分子量 (理論値)分子数
合計 (水以外)2,286,1891444
ポリマ－2,252,24856
非ポリマー33,9411388
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)211.541, 454.397, 619.473
Angle α, β, γ (deg.)90.0, 90.0, 90.0
Int Tables number19
Space group name H-MP212121
Space group name HallP2ac2ab
非結晶学的対称性 (NCS)NCSドメイン:
IDEns-ID
11
21
12
22
13
23
14
24
15
25
16
26
17
27
18
28
19
29
110
210
111
211
112
212
113
213
114
214
115
215
116
216
117
217

NCSドメイン領域:
Dom-IDComponent-IDEns-IDSelection details
111(chain GB or chain HB or chain JB or chain...
211(chain B or chain C or chain E or chain...
112chain GB and resid 1051:1108
212chain B and resid 1051:1108
113chain GB and resid 2093:2196
213chain B and resid 2093:2196
114(chain FB or chain PC or chain QC or chain...
214(chain A or chain KA or chain LA or chain...
115(chain FB and resid 925:1391) or chain QC or chain...
215(chain A and resid 925:1391) or chain LA or chain...
116chain OB
216chain J
117chain LB
217chain G
118chain RC
218chain MA
119chain BD
219chain WA
1110chain NC and resid 32:38
2110chain IA and resid 32:38
1111chain NC and resid 73:78
2111chain IA and resid 73:78
1112chain NC and not resi 32:38 and not resid 73:78
2112chain IA and not resi 32:38 and not resid 73:78
1113chain IB and resid 32:38
2113chain D and resid 32:38
1114chain IB and resid 73:78
2114chain D and resid 73:78
1115chain IB and not resid 32:38 and not resid 73:78
2115chain D and not resid 32:38 and not resid 73:78
1116chain MC
2116chain HA
1117chain OC
2117chain JA

NCSアンサンブル:
ID
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17

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要素

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RNA鎖 , 5種, 12分子 AFBBGBCHBDIAIBNCHAMC

#1: RNA鎖 16S ribosomal RNA


分子量: 489561.188 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus HB27 (バクテリア)
参照: GenBank: AE017221.1
#2: RNA鎖 25S ribosomal RNA


分子量: 936785.625 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus HB27 (バクテリア)
参照: GenBank: 46197919
#3: RNA鎖 5S ribosomal RNA


分子量: 38882.207 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus HB27 (バクテリア)
参照: GenBank: 46197919
#4: RNA鎖
tRNA


分子量: 24846.902 Da / 分子数: 4 / 由来タイプ: 天然 / 由来: (天然) Escherichia coli K-12 (大腸菌) / 参照: GenBank: CP010445.1
#34: RNA鎖 mRNA


分子量: 8862.456 Da / 分子数: 2 / 由来タイプ: 合成 / 由来: (合成) synthetic construct (人工物)

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50S ribosomal protein ... , 29種, 58分子 EJBFKBGLBHMBINBJOBKPBLQBMRBNSBOTBPUBQVBRWBSXB...

#5: タンパク質 50S ribosomal protein L2


分子量: 30401.355 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) (バクテリア)
株: HB27 / ATCC BAA-163 / DSM 7039 / 参照: UniProt: Q72I07
#6: タンパク質 50S ribosomal protein L3


分子量: 22450.213 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) (バクテリア)
株: HB27 / ATCC BAA-163 / DSM 7039 / 参照: UniProt: Q72I04
#7: タンパク質 50S ribosomal protein L4


分子量: 22744.279 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) (バクテリア)
株: HB27 / ATCC BAA-163 / DSM 7039 / 参照: UniProt: Q72I05
#8: タンパク質 50S ribosomal protein L5


分子量: 21075.623 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) (バクテリア)
株: HB27 / ATCC BAA-163 / DSM 7039 / 参照: UniProt: Q72I16
#9: タンパク質 50S ribosomal protein L6


分子量: 19568.926 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) (バクテリア)
株: HB27 / ATCC BAA-163 / DSM 7039 / 参照: UniProt: Q72I19
#10: タンパク質 50S ribosomal protein L9


分子量: 16436.205 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) (バクテリア)
株: HB27 / ATCC BAA-163 / DSM 7039 / 参照: UniProt: Q72GV5
#11: タンパク質 50S ribosomal protein L13


分子量: 15927.903 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) (バクテリア)
株: HB27 / ATCC BAA-163 / DSM 7039 / 参照: UniProt: Q72IN1
#12: タンパク質 50S ribosomal protein L14


分子量: 13309.586 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) (バクテリア)
株: HB27 / ATCC BAA-163 / DSM 7039 / 参照: UniProt: Q72I14
#13: タンパク質 50S ribosomal protein L15


分子量: 16319.142 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) (バクテリア)
株: HB27 / ATCC BAA-163 / DSM 7039 / 参照: UniProt: Q72I23
#14: タンパク質 50S ribosomal protein L16


分子量: 15977.909 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) (バクテリア)
株: HB27 / ATCC BAA-163 / DSM 7039 / 参照: UniProt: Q72I11
#15: タンパク質 50S ribosomal protein L17


分子量: 13750.148 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) (バクテリア)
株: HB27 / ATCC BAA-163 / DSM 7039 / 参照: UniProt: Q72I33
#16: タンパク質 50S ribosomal protein L18


分子量: 12639.845 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) (バクテリア)
株: HB27 / ATCC BAA-163 / DSM 7039 / 参照: UniProt: Q72I20
#17: タンパク質 50S ribosomal protein L19


分子量: 17217.867 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) (バクテリア)
株: HB27 / ATCC BAA-163 / DSM 7039 / 参照: UniProt: Q72JU9
#18: タンパク質 50S ribosomal protein L20


分子量: 13779.275 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) (バクテリア)
株: HB27 / ATCC BAA-163 / DSM 7039 / 参照: UniProt: Q72L76
#19: タンパク質 50S ribosomal protein L21


分子量: 11069.153 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) (バクテリア)
株: HB27 / ATCC BAA-163 / DSM 7039 / 参照: UniProt: Q72HR2
#20: タンパク質 50S ribosomal protein L22


分子量: 12808.055 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) (バクテリア)
株: HB27 / ATCC BAA-163 / DSM 7039 / 参照: UniProt: Q72I09
#21: タンパク質 50S ribosomal protein L23


分子量: 10759.808 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) (バクテリア)
株: HB27 / ATCC BAA-163 / DSM 7039 / 参照: UniProt: Q72I06
#22: タンパク質 50S ribosomal protein L24


分子量: 12085.611 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) (バクテリア)
株: HB27 / ATCC BAA-163 / DSM 7039 / 参照: UniProt: Q72I15
#23: タンパク質 50S ribosomal protein L25 / General stress protein CTC


分子量: 23238.572 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) (バクテリア)
株: HB27 / ATCC BAA-163 / DSM 7039 / 参照: UniProt: Q72IA7
#24: タンパク質 50S ribosomal protein L27


分子量: 9529.074 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (バクテリア)
株: HB8 / ATCC 27634 / DSM 579 / 参照: UniProt: P60493
#25: タンパク質 50S ribosomal protein L28


分子量: 11032.174 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) (バクテリア)
株: HB27 / ATCC BAA-163 / DSM 7039 / 参照: UniProt: Q72G84
#26: タンパク質 50S ribosomal protein L29


分子量: 8670.258 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) (バクテリア)
株: HB27 / ATCC BAA-163 / DSM 7039 / 参照: UniProt: Q72I12
#27: タンパク質 50S ribosomal protein L30


分子量: 6799.126 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) (バクテリア)
株: HB27 / ATCC BAA-163 / DSM 7039 / 参照: UniProt: Q72I22
#28: タンパク質 50S ribosomal protein L31


分子量: 8300.543 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) (バクテリア)
株: HB27 / ATCC BAA-163 / DSM 7039 / 参照: UniProt: Q72JR0
#29: タンパク質 50S ribosomal protein L32


分子量: 6734.104 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) (バクテリア)
株: HB27 / ATCC BAA-163 / DSM 7039 / 参照: UniProt: P62652
#30: タンパク質 50S ribosomal protein L33


分子量: 6632.896 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) (バクテリア)
株: HB27 / ATCC BAA-163 / DSM 7039 / 参照: UniProt: Q72GW3
#31: タンパク質・ペプチド 50S ribosomal protein L34


分子量: 6132.449 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (バクテリア)
株: HB8 / ATCC 27634 / DSM 579 / 参照: UniProt: P80340
#32: タンパク質 50S ribosomal protein L35


分子量: 7506.178 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) (バクテリア)
株: HB27 / ATCC BAA-163 / DSM 7039 / 参照: UniProt: Q72L77
#33: タンパク質・ペプチド 50S ribosomal protein L36


分子量: 4435.411 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) (バクテリア)
株: HB27 / ATCC BAA-163 / DSM 7039 / 参照: UniProt: Q72I28

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タンパク質 , 1種, 2分子 JAOC

#35: タンパク質 Peptide chain release factor 1 / RF-1


分子量: 41644.449 Da / 分子数: 2 / 由来タイプ: 組換発現
由来: (組換発現) Escherichia coli (strain K12) (大腸菌)
株: K12 / 遺伝子: prfA, sueB, uar, b1211, JW1202 / 発現宿主: Escherichia coli (大腸菌) / 参照: UniProt: P0A7I0

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30S ribosomal protein ... , 20種, 40分子 KAPCLAQCMARCNASCOATCPAUCQAVCRAWCSAXCTAYCUAZCVAADWABDXACDYADD...

#36: タンパク質 30S ribosomal protein S2


分子量: 29317.703 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) (バクテリア)
株: HB27 / ATCC BAA-163 / DSM 7039 / 参照: UniProt: P62662
#37: タンパク質 30S ribosomal protein S3


分子量: 26751.076 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) (バクテリア)
株: HB27 / ATCC BAA-163 / DSM 7039 / 参照: UniProt: P62663
#38: タンパク質 30S ribosomal protein S4


分子量: 24373.447 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) (バクテリア)
株: HB27 / ATCC BAA-163 / DSM 7039 / 参照: UniProt: P62664
#39: タンパク質 30S ribosomal protein S5


分子量: 17583.416 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) (バクテリア)
株: HB27 / ATCC BAA-163 / DSM 7039 / 参照: UniProt: P62665
#40: タンパク質 30S ribosomal protein S6


分子量: 11988.753 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) (バクテリア)
株: HB27 / ATCC BAA-163 / DSM 7039 / 参照: UniProt: P62666
#41: タンパク質 30S ribosomal protein S7


分子量: 18050.973 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) (バクテリア)
株: HB27 / ATCC BAA-163 / DSM 7039 / 参照: UniProt: P62667
#42: タンパク質 30S ribosomal protein S8


分子量: 15868.570 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) (バクテリア)
株: HB27 / ATCC BAA-163 / DSM 7039 / 参照: UniProt: P62668
#43: タンパク質 30S ribosomal protein S9


分子量: 14429.661 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) (バクテリア)
株: HB27 / ATCC BAA-163 / DSM 7039 / 参照: UniProt: P62669
#44: タンパク質 30S ribosomal protein S10


分子量: 11954.968 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) (バクテリア)
株: HB27 / ATCC BAA-163 / DSM 7039 / 参照: UniProt: P62653
#45: タンパク質 30S ribosomal protein S11


分子量: 13737.868 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) (バクテリア)
株: HB27 / ATCC BAA-163 / DSM 7039 / 参照: UniProt: P62654
#46: タンパク質 30S ribosomal protein S12


分子量: 14683.476 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) (バクテリア)
株: HB27 / ATCC BAA-163 / DSM 7039 / 参照: UniProt: P61941
#47: タンパク質 30S ribosomal protein S13


分子量: 14338.861 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) (バクテリア)
株: HB27 / ATCC BAA-163 / DSM 7039 / 参照: UniProt: P62655
#48: タンパク質 30S ribosomal protein S14 type Z


分子量: 7158.725 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) (バクテリア)
株: HB27 / ATCC BAA-163 / DSM 7039 / 参照: UniProt: P62656
#49: タンパク質 30S ribosomal protein S15


分子量: 10578.407 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) (バクテリア)
株: HB27 / ATCC BAA-163 / DSM 7039 / 参照: UniProt: P62657
#50: タンパク質 30S ribosomal protein S16


分子量: 10409.983 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) (バクテリア)
株: HB27 / ATCC BAA-163 / DSM 7039 / 参照: UniProt: P62238
#51: タンパク質 30S ribosomal protein S17


分子量: 12324.670 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) (バクテリア)
株: HB27 / ATCC BAA-163 / DSM 7039 / 参照: UniProt: P62658
#52: タンパク質 30S ribosomal protein S18


分子量: 10258.299 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) (バクテリア)
株: HB27 / ATCC BAA-163 / DSM 7039 / 参照: UniProt: P62659
#53: タンパク質 30S ribosomal protein S19


分子量: 10605.464 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) (バクテリア)
株: HB27 / ATCC BAA-163 / DSM 7039 / 参照: UniProt: P62660
#54: タンパク質 30S ribosomal protein S20


分子量: 11722.116 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) (バクテリア)
株: HB27 / ATCC BAA-163 / DSM 7039 / 参照: UniProt: P62661
#55: タンパク質・ペプチド 30S ribosomal protein Thx


分子量: 3350.030 Da / 分子数: 2 / 由来タイプ: 天然
由来: (天然) Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) (バクテリア)
株: HB27 / ATCC BAA-163 / DSM 7039 / 参照: UniProt: P62613

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非ポリマー , 2種, 2903分子

#56: 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: 2893 / 由来タイプ: 合成 / 式: Mg
#57: 化合物
ChemComp-ZN / ZINC ION


分子量: 65.409 Da / 分子数: 10 / 由来タイプ: 合成 / 式: Zn

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詳細

Has protein modificationY

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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

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試料調製

結晶マシュー密度: 3.3 Å3/Da / 溶媒含有率: 62.78 %
結晶化温度: 289 K / 手法: 蒸気拡散法, ハンギングドロップ法 / pH: 7.5
詳細: 3.1 uL 70S*mRNA*tRNAfMet complex + 3.1 uL crystallization buffer (0.1 M Tris-HCl, pH 7.5, 4% v/v PEG20000, 8% v/v MPD, 0.2 M potassium thiocyanate), reservoir: 300 uL 0.5-0.7 M sodium ...詳細: 3.1 uL 70S*mRNA*tRNAfMet complex + 3.1 uL crystallization buffer (0.1 M Tris-HCl, pH 7.5, 4% v/v PEG20000, 8% v/v MPD, 0.2 M potassium thiocyanate), reservoir: 300 uL 0.5-0.7 M sodium chloride, 4-fold molar excess of E. coli release factor 1 added during complex formation

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データ収集

回折
ID平均測定温度 (K)Crystal-ID
11001
21001
31001
41001
51001
61001
71001
放射光源
由来サイトビームラインID波長 (Å)
シンクロトロンSSRL BL12-210.9795
シンクロトロンSSRL BL12-220.9795
シンクロトロンSSRL BL12-230.9795
シンクロトロンSSRL BL12-240.9795
シンクロトロンAPS 23-ID-D51.033
シンクロトロンAPS 23-ID-D61.033
シンクロトロンAPS 23-ID-D71.033
検出器
タイプID検出器日付
DECTRIS PILATUS 6M1PIXEL2015年7月26日
DECTRIS PILATUS 6M2PIXEL2015年7月26日
DECTRIS PILATUS 6M3PIXEL2015年7月26日
DECTRIS PILATUS 6M4PIXEL2015年7月26日
DECTRIS PILATUS3 6M5PIXEL2015年7月1日
DECTRIS PILATUS3 6M6PIXEL2015年7月1日
DECTRIS PILATUS3 6M7PIXEL2015年7月1日
放射
IDプロトコル単色(M)・ラウエ(L)散乱光タイプWavelength-ID
1SINGLE WAVELENGTHMx-ray1
2SINGLE WAVELENGTHMx-ray2
3SINGLE WAVELENGTHMx-ray3
4SINGLE WAVELENGTHMx-ray4
5SINGLE WAVELENGTHMx-ray5
6SINGLE WAVELENGTHMx-ray6
7SINGLE WAVELENGTHMx-ray7
放射波長
ID波長 (Å)相対比
10.97951
21.0331
31
41
51
61
71
反射解像度: 3.1→70 Å / Num. obs: 1174254 / % possible obs: 100 % / 冗長度: 37.4 % / Net I/σ(I): 8.28

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解析

ソフトウェア
名称バージョン分類
PHENIX1.9_1692精密化
XDSデータ削減
XSCALEデータスケーリング
PHENIX位相決定
Blu-Iceデータ収集
精密化構造決定の手法: 分子置換 / 解像度: 3.1→49.977 Å / SU ML: 0.47 / 交差検証法: FREE R-VALUE / σ(F): 1.35 / 位相誤差: 25.75 / 立体化学のターゲット値: ML
Rfactor反射数%反射
Rfree0.2563 21298 2 %
Rwork0.2214 --
obs0.2221 1064934 99.81 %
溶媒の処理減衰半径: 0.9 Å / VDWプローブ半径: 1.11 Å / 溶媒モデル: FLAT BULK SOLVENT MODEL
精密化ステップサイクル: LAST / 解像度: 3.1→49.977 Å
タンパク質核酸リガンド溶媒全体
原子数97108 201010 2903 0 301021
拘束条件
Refine-IDタイプDev ideal数
X-RAY DIFFRACTIONf_bond_d0.007323784
X-RAY DIFFRACTIONf_angle_d1.072483828
X-RAY DIFFRACTIONf_dihedral_angle_d18.944176114
X-RAY DIFFRACTIONf_chiral_restr0.04561172
X-RAY DIFFRACTIONf_plane_restr0.00526522
Refine LS restraints NCS
Ens-IDDom-ID数Refine-IDタイプRms dev position (Å)
1185821X-RAY DIFFRACTIONPOSITIONAL
1285821X-RAY DIFFRACTIONPOSITIONAL0.043
211241X-RAY DIFFRACTIONPOSITIONAL
221241X-RAY DIFFRACTIONPOSITIONAL0.02
312239X-RAY DIFFRACTIONPOSITIONAL
322239X-RAY DIFFRACTIONPOSITIONAL0.022
4132916X-RAY DIFFRACTIONPOSITIONAL
4232916X-RAY DIFFRACTIONPOSITIONAL0.037
5116395X-RAY DIFFRACTIONPOSITIONAL
5216395X-RAY DIFFRACTIONPOSITIONAL0.024
611137X-RAY DIFFRACTIONPOSITIONAL
621137X-RAY DIFFRACTIONPOSITIONAL0.057
711587X-RAY DIFFRACTIONPOSITIONAL
721587X-RAY DIFFRACTIONPOSITIONAL0.043
811703X-RAY DIFFRACTIONPOSITIONAL
821703X-RAY DIFFRACTIONPOSITIONAL0.034
91492X-RAY DIFFRACTIONPOSITIONAL
92492X-RAY DIFFRACTIONPOSITIONAL0.024
101147X-RAY DIFFRACTIONPOSITIONAL
102147X-RAY DIFFRACTIONPOSITIONAL0.029
11184X-RAY DIFFRACTIONPOSITIONAL
11284X-RAY DIFFRACTIONPOSITIONAL0.038
1211411X-RAY DIFFRACTIONPOSITIONAL
1221411X-RAY DIFFRACTIONPOSITIONAL0.031
131147X-RAY DIFFRACTIONPOSITIONAL
132147X-RAY DIFFRACTIONPOSITIONAL0.022
14184X-RAY DIFFRACTIONPOSITIONAL
14284X-RAY DIFFRACTIONPOSITIONAL0.032
1511411X-RAY DIFFRACTIONPOSITIONAL
1521411X-RAY DIFFRACTIONPOSITIONAL0.017
161220X-RAY DIFFRACTIONPOSITIONAL
162220X-RAY DIFFRACTIONPOSITIONAL0.027
1712006X-RAY DIFFRACTIONPOSITIONAL
1722006X-RAY DIFFRACTIONPOSITIONAL0.03
LS精密化 シェル
解像度 (Å)Rfactor RfreeNum. reflection RfreeRfactor RworkNum. reflection RworkRefine-ID% reflection obs (%)
3.1-3.13520.37847070.36134661X-RAY DIFFRACTION100
3.1352-3.17210.37157070.348434600X-RAY DIFFRACTION100
3.1721-3.21080.37717060.340534669X-RAY DIFFRACTION100
3.2108-3.25140.35487080.329334654X-RAY DIFFRACTION100
3.2514-3.29420.34497060.320434605X-RAY DIFFRACTION100
3.2942-3.33930.35337070.310234655X-RAY DIFFRACTION100
3.3393-3.3870.33547070.302534651X-RAY DIFFRACTION100
3.387-3.43750.31737080.291934681X-RAY DIFFRACTION100
3.4375-3.49120.32687070.286934663X-RAY DIFFRACTION100
3.4912-3.54850.32667090.281734738X-RAY DIFFRACTION100
3.5485-3.60960.31837070.27634647X-RAY DIFFRACTION100
3.6096-3.67530.30297090.257434728X-RAY DIFFRACTION100
3.6753-3.74590.29647090.247834743X-RAY DIFFRACTION100
3.7459-3.82240.26977090.235534739X-RAY DIFFRACTION100
3.8224-3.90540.26377090.22534717X-RAY DIFFRACTION100
3.9054-3.99630.25627090.218234763X-RAY DIFFRACTION100
3.9963-4.09610.25237090.215234737X-RAY DIFFRACTION100
4.0961-4.20680.2447100.208734785X-RAY DIFFRACTION100
4.2068-4.33060.23847110.200934849X-RAY DIFFRACTION100
4.3306-4.47030.24637100.200934776X-RAY DIFFRACTION100
4.4703-4.62990.22017110.190634831X-RAY DIFFRACTION100
4.6299-4.81520.23627120.189934924X-RAY DIFFRACTION100
4.8152-5.03410.22727130.184734898X-RAY DIFFRACTION100
5.0341-5.29920.21527120.173434901X-RAY DIFFRACTION100
5.2992-5.63080.2127130.167634954X-RAY DIFFRACTION100
5.6308-6.06490.22277140.174835012X-RAY DIFFRACTION100
6.0649-6.6740.2257170.183235124X-RAY DIFFRACTION100
6.674-7.63680.21087180.179635191X-RAY DIFFRACTION100
7.6368-9.61030.2117230.192835444X-RAY DIFFRACTION100
9.6103-49.98330.21837010.207134296X-RAY DIFFRACTION95
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)
10.2616-0.02290.07250.24520.00630.2671-0.00980.00750.00890.02790.01660.0180.01810.0013-00.4017-0.028-0.01740.47050.05240.492974.8261-57.2403-21.7109
20.216-0.06670.05210.38450.07260.3892-0.0113-0.04590.03280.06590.0607-0.09690.0134-0.0424-00.6015-0.0238-0.12440.6273-0.05030.5729194.7959-91.9116-142.3447
30.05480.0487-0.00750.0778-0.04280.0149-0.09070.08930.5858-0.4344-0.1922-0.5145-0.36180.3156-0.00041.5308-0.19370.2811.37030.30471.9912105.33821.974-83.7204
40.0822-0.05830.02960.02120.00190.08730.02560.57320.2388-0.53710.2210.3686-0.0639-0.56750.00012.03040.1303-0.37212.00440.2031.5555158.8176-33.0434-221.9518
50.05070.01920.01280.03710.03380.05460.0729-0.07830.44240.08040.0516-0.0831-0.2743-0.03-0.00011.869-0.146-0.31911.9966-0.25462.1997149.5937-48.824256.319
60.08190.01410.04720.092-0.00640.060.04630.11070.0551-0.0192-0.01010.01840.16510.03160.00022.5091-0.23840.04582.7966-0.30992.8311120.9554-171.128-143.032
70.7446-0.0118-0.15030.18960.17940.6140.0197-0.12440.18720.05870.0582-0.2379-0.37280.63150.0061.0828-0.542-0.1921.2529-0.14121.4581149.399645.20027.2652
80.8474-0.129-0.05930.52150.15360.14280.0985-0.0373-0.174-0.3875-0.14420.59170.0274-0.2549-0.00121.1317-0.0297-0.60161.2233-0.14031.371114.1231-125.5621-238.2723
90.25830.00010.07620.37550.1070.3725-0.0812-0.2040.19560.31060.02530.0424-0.2008-0.1230.00020.99530.1305-0.110.6969-0.20070.880467.947616.537742.5323
100.171-0.0101-0.0230.52520.11120.22970.01990.0753-0.096-0.12830.0173-0.11830.08530.022500.9305-0.0584-0.10560.6767-0.10870.6891198.0793-158.5887-214.2046
110.1208-0.0420.07060.14490.12360.1851-0.0401-0.00010.1894-0.0004-0.0750.0729-0.1254-0.011400.47950.0361-0.0830.44270.05330.647953.1704-5.368-32.7155
120.1343-0.05850.0530.09510.03410.09-0.0531-0.1458-0.05480.26120.09490.06220.151-0.0051-00.71540.0260.00070.64660.0990.526271.4853-81.531841.7472
130.26540.16850.06870.1452-0.050.1418-0.01610.1914-0.1802-0.25990.0503-0.04170.06650.1078-0.00020.57630.0296-0.04430.6046-0.08090.575579.4675-97.909-69.6897
140.06730.0106-0.02790.07450.0460.09620.0584-0.03440.24130.02350.05920.0753-0.18110.0178-00.5808-0.1301-0.03171.1820.05841.2015175.7534-13.4043-34.0768
150.12530.00470.06310.1052-0.08950.1152-0.032-0.0434-0.14760.1021-0.0725-0.0655-0.0396-0.1605-00.8760.1645-0.11440.62010.01680.6951126.9302-80.348457.3793
160.0104-0.01440.00820.0103-0.01830.02650.09640.11230.0028-0.1662-0.07240.07440.01260.0193-01.23530.1648-0.07220.85550.14090.69748.16199.0902-107.9211
170.0365-0.03540.00160.03730.01810.0281-0.0632-0.2699-0.14890.1791-0.0270.01770.2203-0.08780.00010.66560.0752-0.08210.52650.06620.6175104.2166-104.352821.4816
180.0380.0288-0.01630.02880.01540.0410.0656-0.15050.12070.2184-0.05210.0266-0.20090.034500.74140.03070.01210.7102-0.02660.482974.7401-37.761846.1154
190.1339-0.07670.08110.0454-0.0380.03950.02760.3389-0.0637-0.2438-0.01080.02140.18840.2566-0.00010.60170.05780.01660.846-0.01280.5953105.4711-72.1008-72.1534
200.05320.0067-0.0680.0777-0.01770.0860.0317-0.03660.16770.1602-0.0378-0.1026-0.01590.15140.00010.4894-0.0225-0.08810.7574-0.03290.6645140.2406-52.11684.7235
210.0201-0.0158-0.00440.0167-0.0030.0509-0.0391-0.27-0.12570.31640.08650.1820.0141-0.16880.00030.5539-0.03060.1720.7870.22840.650131.6878-76.789725.7427
220.0301-0.0272-0.00170.0212-0.00040.01030.02680.1297-0.0808-0.2082-0.0076-0.07820.03090.0305-0.00010.49080.02270.08981.23010.12910.8936173.0128-48.819-58.6227
230.0878-0.02080.02430.15010.01680.0256-0.0969-0.2389-0.03090.29670.09710.1146-0.1451-0.38450.00020.8480.04880.15560.8872-0.00310.548450.2252-50.680957.0122
240.0596-0.0043-0.0880.10980.02780.1334-0.03540.0068-0.00090.16320.022-0.06470.10120.1435-00.57970.099-0.0290.46190.03480.5694103.3658-109.4573-9.3
250.01840.0367-0.00870.0542-0.02270.02220.1189-0.0379-0.17830.00210.0519-0.05670.25240.0909-0.00030.62030.1584-0.14130.5069-0.01190.7701108.0054-122.9727-18.6045
260.1301-0.0798-0.02970.05290.03790.11130.0414-0.0586-0.05390.07180.03760.00160.1889-0.1353-00.5334-0.0981-0.03320.48410.14070.573949.4441-99.7288-5.8623
270.0180.0112-0.02170.0747-0.00780.065-0.002-0.0079-0.0864-0.00730.04940.23520.24780.0018-00.4289-0.1026-0.06840.65470.04280.775212.8627-66.0503-37.85
280.1137-0.01330.04670.07290.00890.0189-0.05210.0442-0.1236-0.008-0.04880.2358-0.0812-0.23090.00010.6898-0.1609-0.15310.68410.05780.712135.022-110.4177-56.9512
290.11420.08520.03370.0957-0.0360.1135-0.0792-0.25650.12630.0597-0.0064-0.2299-0.15720.2958-00.61770.0621-0.24551.0327-0.00561.0055166.1729-62.05825.392
300.17120.14310.11710.26050.00760.13070.1302-0.19870.03480.1322-0.11420.12780.19140.08810.00120.4246-0.04270.01980.94080.0060.6494141.6183-58.6174-40.5955
310.0186-0.0048-0.05780.19620.01440.17290.1097-0.00090.0782-0.077-0.07140.0833-0.2078-0.013800.6035-0.0146-0.05280.61070.14970.557665.0833-26.7817-69.8674
320.0272-0.0012-0.01910.03380.01030.0117-0.02120.0961-0.17970.1125-0.0510.20520.0457-0.15880.00010.5382-0.0687-0.04670.6649-0.04590.783912.632-77.0222-59.3432
330.02930.0208-0.00140.01640.00770.02050.0278-0.0554-0.1776-0.1539-0.0776-0.13180.10090.2121-00.49650.11580.00690.63280.06290.7766134.4015-96.5157-24.623
340.1302-0.0157-0.01160.0609-0.0170.0115-0.018-0.08570.0490.06710.041-0.0964-0.06390.050101.42220.13190.02331.663-0.00781.637185.23533.539-26.7631
350.00740.01020.00540.0345-0.01850.0349-0.0082-0.1509-0.09340.06430.04950.20890.0615-0.14300.544-0.0570.05750.6690.15490.583750.553-94.25279.945
360.01610.0060.00550.0166-0.01250.01510.02940.0316-0.0026-0.1113-0.08070.00870.03630.00720.00010.5395-0.08780.06621.07290.21780.7678131.855-30.0694-63.9909
370.02660.0031-0.0110.02250.00390.0277-0.0368-0.1614-0.0603-0.0667-0.0697-0.02810.1943-0.1190.00010.3866-0.0174-0.03510.54470.0660.53547.3517-54.2469-39.1253
380.0359-0.01780.03610.0189-0.02060.0369-0.1363-0.00610.02460.11420.0106-0.1846-0.00180.1952-00.4025-0.02710.06530.74370.04820.5799114.1513-57.4084-60.0917
390.0052-0.0030.00070.00090.00240.0086-0.0619-0.0162-0.03560.051-0.0385-0.08090.05370.0409-0.00010.6937-0.0027-0.25770.6193-0.06180.6151128.9919-64.393935.2164
400.0420.02710.06690.1505-0.00940.11910.13910.18510.257-0.05490.0995-0.0468-0.30340.1676-0.00011.6489-0.0505-0.03670.5654-0.1041.736289.899386.00212.8402
410.0302-0.0264-0.00250.0370.01480.01980.0272-0.21850.11440.0605-0.0808-0.1856-0.13510.221501.2131-0.3679-0.22451.0575-0.28831.4911141.027561.599732.5399
420.0493-0.02620.01170.0473-0.00850.05740.0408-0.25080.10680.2279-0.0731-0.0694-0.06450.1644-0.00111.4480.0282-0.37760.7413-0.37321.033696.968747.181975.3047
430.06040.05560.03690.0826-0.00110.0375-0.03810.06160.15660.0780.0373-0.0262-0.29970.0053-0.00011.2775-0.0095-0.23470.5679-0.23181.14689.741957.305639.0482
440.059-0.02890.04340.0393-0.01810.0316-0.02630.09580.240.00450.02920.154-0.1769-0.188300.95020.199-0.17050.77990.23210.925448.558137.1512-38.9719
450.0483-0.01860.06030.0691-0.00870.06560.0051-0.08580.1359-0.130.0305-0.118-0.0520.0144-01.0881-0.4844-0.02750.94540.06971.3149134.606544.8336-35.1029
460.0425-0.0002-0.03180.0590.01410.0587-0.01510.0540.17380.05330.0901-0.0356-0.02330.06190.00011.27820.2674-0.24460.6064-0.27511.157457.969159.408633.054
470.028-0.0216-0.02820.02570.00010.03940.07840.25940.1157-0.0372-0.1157-0.1034-0.22360.0143-0.00221.3373-0.6971-0.06851.14410.1031.6362153.153566.6913-21.2466
480.00670.0129-0.00080.00560.01480.06160.0221-0.02530.1407-0.00320.0974-0.0685-0.1740.0827-01.2657-0.6591-0.15451.3758-0.21281.6107161.917771.571913.2587
490.01370.0035-0.01870.01680.00150.0134-0.01340.05660.2582-0.15060.0054-0.1384-0.06690.0206-01.0719-0.201-0.08540.55240.20760.98592.67133.7813-43.4041
500.0372-0.0113-0.03570.0413-0.00210.04040.03590.03090.03880.145-0.0562-0.1345-0.0034-0.0777-0.00010.95290.072-0.21390.6845-0.18510.930996.785611.456344.6983
510.0556-0.00530.02510.048-0.00610.00880.08750.1740.0652-0.1308-0.0219-0.0874-0.00610.163300.6819-0.1325-0.1181.4313-0.18071.5532171.347415.6501-17.5151
520.03020.0149-0.00640.02880.02210.037-0.0681-0.0020.0526-0.0954-0.0549-0.03020.00520.0107-0.00011.0264-0.43-0.2341.1834-0.24041.2925155.713245.887822.1353
530.02290.0053-0.00420.0194-0.00180.0090.03590.08670.1730.0017-0.02040.1882-0.1523-0.0894-00.90320.2278-0.1610.7328-0.01310.983336.434233.25531.2762
540.0097-0.00120.00570.00920.0160.01970.1105-0.06470.19510.16010.1281-0.0595-0.0483-0.0555-0.00011.50920.10240.12671.1276-0.41030.864755.06923.763386.2391
550.02040.006-0.00040.0261-0.0170.0078-0.18340.06610.03030.01970.0060.1563-0.0499-0.1333-0.00010.87340.22390.01350.9947-0.19490.938537.393521.08235.7787
560.02310.00330.01460.0093-0.00840.0240.1360.02260.12550.0364-0.01120.0413-0.19910.09060.00011.1570.0174-0.11660.52810.17881.077166.401949.9508-31.5033
570.0213-0.0045-0.01440.03290.00620.02490.06340.01860.0499-0.02820.0182-0.02780.08060.0298-00.9988-0.0507-0.28471.4471-0.19241.5378175.484511.063716.4011
580.0170.00350.01240.027-0.02190.00180.05740.02150.04780.0515-0.02950.3666-0.1232-0.2571-0.00011.12570.22090.2511.1962-0.14240.982124.5772-10.90167.0457
590.00930.0017-0.00060.00830.00110.00540.04390.0054-0.0244-0.01430.0761-0.00620.0090.03310.00020.835-0.3647-0.06341.2153-0.09621.4471168.299936.6946-11.9626
600.04410.048-0.01820.1269-0.06560.10820.05040.10380.0275-0.08310.0446-0.1067-0.07960.1118-00.735-0.04850.05370.6018-0.0410.6479212.6847-82.7307-195.9727
610.1279-0.0162-0.07080.1109-0.05560.0581-0.0519-0.0543-0.09450.26620.1086-0.04280.3149-0.04220.00011.1758-0.02-0.3020.56280.01720.668200.6409-154.3293-115.9101
620.19450.01170.04830.0877-0.08450.1034-0.0378-0.0990.16510.1489-0.0264-0.058-0.2588-0.10650.00010.88690.085-0.2060.6925-0.21630.7511192.5311-42.3085-103.488
630.05250.0020.04380.08150.03670.0481-0.0377-0.0794-0.1117-0.2146-0.09940.2479-0.0123-0.362800.7765-0.1077-0.18581.5169-0.05271.307490.9356-82.3477-179.5333
640.0650.0689-0.01810.0935-0.06950.0714-0.0189-0.3675-0.03990.469-0.01560.28670.0845-0.129101.9353-0.29330.28781.11360.24161.4107145.4468-170.5772-112.6402
650.08040.0580.08480.06430.06710.0820.16410.31220.07440.0494-0.1110.03990.06230.1679-0.00011.5876-0.00270.10120.78120.00871.0662213.6119-6.0826-209.7009
660.0262-0.0173-0.01280.0004-0.0090.0442-0.1038-0.2289-0.16380.25660.1670.00640.1068-0.0834-0.00011.1333-0.0777-0.01820.95960.09030.5446169.2895-133.526-91.6746
670.0222-0.01130.01440.04190.02230.02160.11180.0743-0.0298-0.0913-0.0403-0.08520.2072-0.0381-00.9802-0.0555-0.25360.5455-0.05580.6872194.4416-160.4499-159.1516
680.08420.06390.06040.06330.07690.0739-0.0714-0.07620.28450.2548-0.0442-0.0114-0.2946-0.131600.90050.1757-0.09970.8319-0.12210.7937164.5718-41.2467-127.3455
690.0531-0.04210.01730.0768-0.01820.05360.06720.0559-0.20040.09670.00020.17040.1961-0.267100.6662-0.23650.00411.13710.0080.8227129.5407-119.223-141.8997
700.03120.0203-0.00320.0509-0.03180.03050.0143-0.13140.01460.0770.0237-0.19670.24260.0874-00.89730.1658-0.37360.6316-0.09110.9031239.8013-138.1066-124.0141
710.02240.0076-0.02990.0172-0.00350.0275-0.0243-0.11710.09820.0716-0.0645-0.0218-0.1591-0.05800.71130.2336-0.00941.4357-0.0651.040195.7705-56.3987-145.3654
720.04510.0122-0.0140.05090.00490.0497-0.0026-0.0033-0.1893-0.0011-0.0225-0.21490.2270.06190.00011.01260.112-0.28930.624-0.04680.8932219.9281-170.5734-147.553
730.0247-0.0292-0.01650.05960.04940.06230.0531-0.0901-0.02770.25780.04340.01310.1172-0.1657-0.00010.911-0.0121-0.10990.9322-0.04410.4913170.0792-102.5603-87.8295
740.0258-0.01060.00260.01820.00960.0162-0.091-0.33630.05480.2826-0.00580.16090.0869-0.14980.00021.06180.06850.01841.0450.00870.4858166.1959-92.6498-74.4994
750.0650.0324-0.0320.0391-0.00110.0209-0.1282-0.15920.02260.40160.0325-0.1560.052-0.00550.00010.87050.1054-0.37720.6074-0.1340.7173223.2461-105.8119-101.1376
760.01650.0087-0.00740.06230.01570.0394-0.0119-0.09780.04030.05570.126-0.09840.02580.1969-0.00010.6113-0.1462-0.150.9063-0.20551.139257.0035-74.7832-138.4783
770.1240.0719-0.01570.0372-0.00180.03760.0197-0.0341-0.1054-0.05630.0543-0.1227-0.08110.1851-00.95280.0539-0.46140.7786-0.15451.2499237.7064-54.1774-93.47
780.07910.01140.0240.0282-0.01750.0410.00960.135-0.1964-0.03290.08560.4147-0.026-0.264400.8754-0.25590.08671.55720.05141.0525104.3639-119.7686-130.1723
790.12580.08990.09390.1065-0.01450.17790.1377-0.0385-0.1740.1088-0.0136-0.07080.1406-0.01170.00020.6390.1167-0.02971.2883-0.0740.7972128.0051-73.6993-137.0751
800.0401-0.07830.03180.1435-0.04820.0927-0.01580.11740.1272-0.21370.0997-0.1405-0.4061-0.0345-0.00010.9988-0.10440.01040.5323-0.06450.8057201.7701-44.894-175.2336
810.0269-0.0020.00170.0162-0.00520.0072-0.0209-0.11820.08340.0449-0.0346-0.039-0.07030.1172-00.8704-0.1229-0.22321.0147-0.29591.1925257.7133-52.8649-128.3986
820.00860.00570.00520.0129-0.00170.0063-0.0236-0.04590.01010.1245-0.00610.0973-0.0678-0.034700.84740.11020.09961.16930.00050.5344138.0349-88.0953-99.1802
830.146-0.0033-0.03620.0199-0.04180.1237-0.0343-0.0801-0.06950.0041-0.03760.02910.01660.01360.00011.6835-0.00860.02841.7803-0.15451.801280.4105-90.4244-195.4775
840.0154-0.01180.0333-0.003-0.01050.02840.0046-0.1177-0.09260.22420.1161-0.17660.08540.2022-0.00020.95210.1835-0.24250.7762-0.10110.6451221.9754-121.8269-105.911
850.0108-0.00470.0130.0043-0.00460.0153-0.0297-0.00360.207-0.00090.00510.039-0.1231-0.0760.00010.86650.2223-0.09551.1015-0.01210.8828135.4767-51.3401-167.1064
860.0031-0.00040.00040.01390.0010.01420.05160.01040.06890.02630.1037-0.12040.0440.0429-0.00010.6237-0.029-0.16580.6561-0.1130.7629221.7632-74.3359-147.9022
870.0233-0.0014-0.02450.0347-0.00820.02560.02540.01560.08130.00710.11050.09210.1046-0.1834-00.61660.2159-0.10650.9124-0.05930.7198155.0623-53.9741-140.9235
880.0062-0.00110.00010.010200.0043-0.0157-0.0213-0.01080.00370.0307-0.01380.01990.01-00.9882-0.2834-0.00110.95940.15121.0575142.0065-149.0871-129.2607
890.03440.0025-0.00670.0689-0.01420.16350.02570.27390.186-0.2967-0.10950.0596-0.14880.039701.8211-0.0158-0.23881.3539-0.09960.7334171.1652-131.5983-283.0175
900.03490.02370.01990.07170.03010.04040.05990.1915-0.2558-0.1357-0.01680.34340.113-0.2756-0.00021.3488-0.0398-0.68441.103-0.2451.3392121.6817-151.3971-254.1888
910.05620.0170.05630.0797-0.01820.1240.0011-0.062-0.2359-0.07620.01650.05870.0463-0.1199-0.00011.1169-0.2102-0.19380.7068-0.15380.762168.0993-193.1135-242.0117
920.0564-0.00390.05120.0775-0.02020.0417-0.03220.01060.0894-0.2859-0.00490.0553-0.0068-0.0995-01.2009-0.0558-0.27370.7386-0.14440.6921173.7001-156.8625-253.5913
930.03560.0293-0.01790.0395-0.02010.0285-0.06580.21990.1024-0.2209-0.0353-0.1223-0.06760.095701.2331-0.21760.23520.69470.08941.1462214.3404-77.4121-238.5073
940.03360.05390.00540.0715-0.00790.09650.0170.06660.0519-0.1771-0.04420.00740.1199-0.0965-01.24750.2172-0.44761.1157-0.07851.106128.3164-83.0539-240.6492
950.0119-0.00450.01490.02880.02670.04170.12910.08930.0022-0.1708-0.0063-0.0697-0.03110.0596-01.3877-0.07540.14660.7403-0.12360.6811205.137-150.294-257.8897
960.07860.0364-0.05590.035-0.00960.03040.1981-0.0280.1589-0.32270.05410.2263-0.1034-0.03240.00011.40750.1184-0.60561.2390.07681.3464108.4857-98.0013-260.5772
970.0453-0.008-0.0440.07580.00660.0317-0.03060.17970.0189-0.1346-0.11820.1153-0.0253-0.0959-0.00011.3590.0079-0.6351.3193-0.251.362499.8824-132.7741-263.4384
980.0405-0.01980.00460.01170.00520.01430.05670.15310.2135-0.0896-0.04470.0263-0.1699-0.182601.22630.059-0.25720.89510.12160.7086170.428-73.7645-232.4969
990.0438-0.04070.01290.0401-0.01760.0476-0.0020.02240.0832-0.067-0.06550.0639-0.0701-0.094400.9452-0.0453-0.0760.7616-0.10530.6955169.6725-161.1878-207.2432
1000.07230.02110.03690.01850.02730.03110.1317-0.06610.12170.0275-0.03110.1703-0.0472-0.13840.00010.8356-0.1005-0.16031.4279-0.30421.66193.9447-99.8307-208.2746
1010.025-0.00290.00990.02650.02580.03290.0843-0.0744-0.03650.03790.04060.0718-0.0787-0.12380.00011.0937-0.0289-0.56461.2698-0.08231.2882108.0136-140.5188-237.9107
1020.02120.0114-0.01060.01760.01260.0217-0.05340.0263-0.0305-0.1563-0.0608-0.19430.11130.11020.00011.0014-0.08310.21510.70270.0370.8817227.5615-117.2642-234.1469
1030.02340.0109-0.00540.01960.00540.0121-0.11060.0212-0.1103-0.1267-0.0808-0.10620.2051-0.06420.00011.0520.0525-0.13020.651-0.21730.8821211.4555-202.2324-220.8827
1040.02960.01710.02410.016-0.01740.04-0.0403-0.04940.0640.14040.0949-0.1634-0.09450.16230.00010.8833-0.07840.04910.5953-0.03271.0097228.128-151.3594-220.8727
1050.01080.00920.00260.01840.00570.01580.08560.1101-0.0285-0.18690.00260.06790.0887-0.0593-0.00011.3738-0.06290.15690.78510.11270.7061195.8928-85.646-249.9135
1060.01790.00050.00690.03690.0050.02670.0032-0.0908-0.03340.0031-0.0380.1058-0.0391-0.0523-00.9666-0.1537-0.09591.6312-0.09151.741390.6076-133.5743-202.0474
1070.01850.0050.02350.0017-0.02630.04040.1102-0.07540.1538-0.10170.093-0.2676-0.11220.2884-0.00010.9425-0.0068-0.14850.8993-0.13461.062243.6161-181.3158-188.8192
1080.007-0.001-0.00440.0102-0.00070.0080.0048-0.00170.0244-0.0275-0.02840.0309-0.00920.038301.1642-0.0372-0.28951.3947-0.04911.335995.4844-106.8062-229.6327
1090.19320.10670.15030.2154-0.01560.2050.0019-0.0116-0.00620.0077-0.0843-0.24510.04760.248100.50380.0041-0.01611.09850.03041.036170.9676-54.5799-31.4735
1100.0385-0.0221-0.00180.05770.08280.1226-0.14520.0433-0.15540.15690.0915-0.23560.08880.1855-00.7125-0.1328-0.00670.9462-0.10981.2873126.3361-12.7741-15.0028
1110.00310.00020.00160.0002-0.00040.001-0.04260.01190.01030.0081-0.0483-0.026-0.02180.0503-0.00020.8274-0.0589-0.13930.9638-0.05941.0755121.626922.7559-1.0688
1120.0053-0.0001-0.00190.0041-0.00050.0035-0.0335-0.02970.030.02030.0053-0.0218-0.0244-0.01720.00010.763-0.0335-0.04710.54340.04810.67796.977-41.7882-10.3948
1130.11620.1446-0.02490.2190.07070.20560.0382-0.1672-0.10140.02410.10990.43670.0718-0.5151-00.6732-0.02050.04071.7054-0.01211.208798.5713-83.2788-138.7236
1140.0591-0.0157-0.01720.04680.01620.03730.0047-0.1269-0.0504-0.04290.04830.20040.0654-0.1604-0.00010.7968-0.0108-0.12521.3913-0.16491.0005140.5502-100.9442-182.9417
1150.00290.0006-0.00130.0021-0.00320.0043-0.04450.0157-0.0404-0.011-0.04610.01440.0197-0.025700.80710.0183-0.00110.88570.08930.6247171.678-104.0616-155.722
1160.002-0.00140.00210.0012-0.00140.00120.0179-0.02990.0250.0195-0.00910.01080.01370.0037-00.9531-0.1564-0.15850.8956-0.04850.8698143.2313-116.0842-218.1487
1170.01190.02680.01860.03380.02590.0132-0.11550.06650.1459-0.20320.1373-0.16550.08950.136201.7486-0.2692-0.08761.37480.08831.9308120.86445.3927-52.6338
1180.0065-0.00150.00040.0046-0.00250.0048-0.0044-0.02090.01520.0224-0.0022-0.0133-0.0104-0.00360.00011.62390.0232-0.04171.7976-0.07051.9283117.913624.9535-21.2552
1190.0029-0.0019-0.00290.0036-0.00170.0038-0.0179-0.02190.09880.0099-0.0340.061-0.0218-0.0202-0.00020.96710.04690.08810.80450.00590.8677105.0138-29.5528-53.4394
1200.0566-0.01870.00180.02390.03420.02650.00610.11950.15860.06570.01910.1611-0.12730.003701.73420.0026-0.29841.9541-0.02941.5134144.4515-63.7606-203.2075
1210.0066-0.0021-0.00020.00430.00060.0214-0.01380.0298-0.0068-0.0122-0.0138-0.00590.00740.01590.00011.03790.0612-0.06461.1605-0.05920.8369162.134-61.6009-169.0267
1220.0042-0.0011-0.00080.0056-0.00360.0030.00280.01120.0007-0.0179-0.00860.02680.0167-0.0133-0.00011.85840.1332-0.00711.9133-0.1841.9053146.5724-95.9451-221.3754
1230.0589-0.0292-0.02160.05220.020.010.0275-0.01170.1255-0.0912-0.0238-0.1388-0.0953-0.001200.90960.0093-0.18991.0067-0.14531.2177112.192324.49236.3363
1240.0613-0.021-0.01850.0110.02170.0671-0.04680.0732-0.1123-0.0750.03680.0149-0.039-0.0538-0.00021.1099-0.0226-0.1151.1106-0.18931.1922152.7017-123.5736-220.3854
1250.06610.0565-0.01370.08920.0530.0294-0.0506-0.12160.05730.217-0.0076-0.2899-0.07370.071201.0106-0.0224-0.31680.9721-0.12911.1547122.6093-7.486620.6216
1260.0558-0.060.01160.10270.06680.0791-0.0306-0.0721-0.14440.1035-0.00490.19240.2385-0.2855-01.2457-0.1368-0.10031.2981-0.06251.2729144.754-136.9389-187.2196
精密化 TLSグループ
IDRefine-IDRefine TLS-IDSelection details
1X-RAY DIFFRACTION1(chain B and not resid 2094:2190 and not resid 1050:1104)
2X-RAY DIFFRACTION2(chain GB and not resid 2094:2190 and not resid 1050:1104)
3X-RAY DIFFRACTION3(chain B and resid 2094:2190)
4X-RAY DIFFRACTION4(chain GB and resid 2094:2190)
5X-RAY DIFFRACTION5(chain B and resid 1050:1104)
6X-RAY DIFFRACTION6(chain GB and resid 1050:1104)
7X-RAY DIFFRACTION7((chain A and resid 925:1391))
8X-RAY DIFFRACTION8((chain FB and resid 925:1391))
9X-RAY DIFFRACTION9(chain A and not resid 925:1391)
10X-RAY DIFFRACTION10(chain FB and not resid 925:1391)
11X-RAY DIFFRACTION11(chain E)
12X-RAY DIFFRACTION12(chain F)
13X-RAY DIFFRACTION13(chain G)
14X-RAY DIFFRACTION14(chain H)
15X-RAY DIFFRACTION15(chain I)
16X-RAY DIFFRACTION16(chain J)
17X-RAY DIFFRACTION17(chain K)
18X-RAY DIFFRACTION18(chain L)
19X-RAY DIFFRACTION19(chain M)
20X-RAY DIFFRACTION20(chain N)
21X-RAY DIFFRACTION21(chain O)
22X-RAY DIFFRACTION22(chain P)
23X-RAY DIFFRACTION23(chain Q)
24X-RAY DIFFRACTION24(chain R)
25X-RAY DIFFRACTION25(chain S)
26X-RAY DIFFRACTION26(chain T)
27X-RAY DIFFRACTION27(chain U)
28X-RAY DIFFRACTION28(chain V)
29X-RAY DIFFRACTION29(chain W)
30X-RAY DIFFRACTION30(chain X)
31X-RAY DIFFRACTION31(chain Y)
32X-RAY DIFFRACTION32(chain Z)
33X-RAY DIFFRACTION33(chain AA)
34X-RAY DIFFRACTION34(chain BA)
35X-RAY DIFFRACTION35(chain CA)
36X-RAY DIFFRACTION36(chain DA)
37X-RAY DIFFRACTION37(chain EA)
38X-RAY DIFFRACTION38(chain FA)
39X-RAY DIFFRACTION39(chain GA)
40X-RAY DIFFRACTION40(chain KA)
41X-RAY DIFFRACTION41(chain LA)
42X-RAY DIFFRACTION42(chain MA)
43X-RAY DIFFRACTION43(chain NA)
44X-RAY DIFFRACTION44(chain OA)
45X-RAY DIFFRACTION45(chain PA)
46X-RAY DIFFRACTION46(chain QA)
47X-RAY DIFFRACTION47(chain RA)
48X-RAY DIFFRACTION48(chain SA)
49X-RAY DIFFRACTION49(chain TA)
50X-RAY DIFFRACTION50(chain UA)
51X-RAY DIFFRACTION51(chain VA)
52X-RAY DIFFRACTION52(chain WA)
53X-RAY DIFFRACTION53(chain XA)
54X-RAY DIFFRACTION54(chain YA)
55X-RAY DIFFRACTION55(chain ZA)
56X-RAY DIFFRACTION56(chain AB)
57X-RAY DIFFRACTION57(chain BB)
58X-RAY DIFFRACTION58(chain CB)
59X-RAY DIFFRACTION59(chain DB)
60X-RAY DIFFRACTION60(chain JB)
61X-RAY DIFFRACTION61(chain KB)
62X-RAY DIFFRACTION62(chain LB)
63X-RAY DIFFRACTION63(chain MB)
64X-RAY DIFFRACTION64(chain NB)
65X-RAY DIFFRACTION65(chain OB)
66X-RAY DIFFRACTION66(chain PB)
67X-RAY DIFFRACTION67(chain QB)
68X-RAY DIFFRACTION68(chain RB)
69X-RAY DIFFRACTION69(chain SB)
70X-RAY DIFFRACTION70(chain TB)
71X-RAY DIFFRACTION71(chain UB)
72X-RAY DIFFRACTION72(chain VB)
73X-RAY DIFFRACTION73(chain WB)
74X-RAY DIFFRACTION74(chain XB)
75X-RAY DIFFRACTION75(chain YB)
76X-RAY DIFFRACTION76(chain ZB)
77X-RAY DIFFRACTION77(chain AC)
78X-RAY DIFFRACTION78(chain BC)
79X-RAY DIFFRACTION79(chain CC)
80X-RAY DIFFRACTION80(chain DC)
81X-RAY DIFFRACTION81(chain EC)
82X-RAY DIFFRACTION82(chain FC)
83X-RAY DIFFRACTION83(chain GC)
84X-RAY DIFFRACTION84(chain HC)
85X-RAY DIFFRACTION85(chain IC)
86X-RAY DIFFRACTION86(chain JC)
87X-RAY DIFFRACTION87(chain KC)
88X-RAY DIFFRACTION88(chain LC)
89X-RAY DIFFRACTION89(chain PC)
90X-RAY DIFFRACTION90(chain QC)
91X-RAY DIFFRACTION91(chain RC)
92X-RAY DIFFRACTION92(chain SC)
93X-RAY DIFFRACTION93(chain TC)
94X-RAY DIFFRACTION94(chain UC)
95X-RAY DIFFRACTION95(chain VC)
96X-RAY DIFFRACTION96(chain WC)
97X-RAY DIFFRACTION97(chain XC)
98X-RAY DIFFRACTION98(chain YC)
99X-RAY DIFFRACTION99(chain ZC)
100X-RAY DIFFRACTION100(chain AD)
101X-RAY DIFFRACTION101(chain BD)
102X-RAY DIFFRACTION102(chain CD)
103X-RAY DIFFRACTION103(chain DD)
104X-RAY DIFFRACTION104(chain ED)
105X-RAY DIFFRACTION105(chain FD)
106X-RAY DIFFRACTION106(chain GD)
107X-RAY DIFFRACTION107(chain HD)
108X-RAY DIFFRACTION108(chain ID)
109X-RAY DIFFRACTION109(chain C)
110X-RAY DIFFRACTION110(chain IA and not resid 32:38 and not resid 73:76)
111X-RAY DIFFRACTION111(chain IA and resid 32:38)
112X-RAY DIFFRACTION112(chain IA and resid 73:76)
113X-RAY DIFFRACTION113(chain HB)
114X-RAY DIFFRACTION114(chain NC and not resid 32:38 and not resid 73:76)
115X-RAY DIFFRACTION115(chain NC and resid 73:76)
116X-RAY DIFFRACTION116(chain NC and resid 32:38)
117X-RAY DIFFRACTION117(chain D and not resid 32:38 and not resid 73:76)
118X-RAY DIFFRACTION118(chain D and resid 32:38)
119X-RAY DIFFRACTION119(chain D and resid 73:76)
120X-RAY DIFFRACTION120(chain IB and not resid 32:38 and not resid 73:76)
121X-RAY DIFFRACTION121(chain IB and resid 73:76)
122X-RAY DIFFRACTION122(chain IB and resid 32:38)
123X-RAY DIFFRACTION123(chain HA)
124X-RAY DIFFRACTION124(chain MC)
125X-RAY DIFFRACTION125(chain JA)
126X-RAY DIFFRACTION126(chain OC)

+
万見について

-
お知らせ

-
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

-
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

+
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

+
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。

-
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