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- PDB-4dr1: Crystal structure of the apo 30S ribosomal subunit from Thermus t... -

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基本情報

登録情報
データベース: PDB / ID: 4dr1
タイトルCrystal structure of the apo 30S ribosomal subunit from Thermus thermophilus (HB8)
要素
  • (30S ribosomal protein ...) x 20
  • 16S rRNA
キーワードRIBOSOME / decoding / Streptomycin / RNA structure / antibiotic resistance
機能・相同性
機能・相同性情報


ribosomal small subunit biogenesis / ribosomal small subunit assembly / small ribosomal subunit / small ribosomal subunit rRNA binding / cytosolic small ribosomal subunit / tRNA binding / rRNA binding / structural constituent of ribosome / ribosome / translation ...ribosomal small subunit biogenesis / ribosomal small subunit assembly / small ribosomal subunit / small ribosomal subunit rRNA binding / cytosolic small ribosomal subunit / tRNA binding / rRNA binding / structural constituent of ribosome / ribosome / translation / ribonucleoprotein complex / mRNA binding / zinc ion binding / metal ion binding / cytosol / cytoplasm
類似検索 - 分子機能
S16 Ribosomal Protein; Chain: A; / Ribosomal protein S16 / Ribosomal protein S18 / 30s Ribosomal Protein S18 / 30s ribosomal protein s13; domain 2 / Ribosomal protein S13/S18, C-terminal domain / Ribosomal protein S20 / 30s Ribosomal Protein S19; Chain A / Ribosomal protein S19/S15 / Ribosomal protein S3, C-terminal domain ...S16 Ribosomal Protein; Chain: A; / Ribosomal protein S16 / Ribosomal protein S18 / 30s Ribosomal Protein S18 / 30s ribosomal protein s13; domain 2 / Ribosomal protein S13/S18, C-terminal domain / Ribosomal protein S20 / 30s Ribosomal Protein S19; Chain A / Ribosomal protein S19/S15 / Ribosomal protein S3, C-terminal domain / Ribosomal Protein S14/S29 / 30s Ribosomal Protein S14; Chain N / Ribosomal protein S4/S9, N-terminal domain / Ribosomal Protein S4 Delta 41; Chain A, domain 1 / Ribosomal Protein S8; Chain: A, domain 1 - #30 / Ribosomal protein S3 C-terminal domain / Ribosomal protein S6/Translation elongation factor EF1B / Dna Ligase; domain 1 - #10 / Ribosomal protein S11/S14 / Ribosomal protein S10 / S15/NS1, RNA-binding / Helix hairpin bin / Ribosomal Protein S7 / Ribosomal protein S7/S5 / RNA-binding S4 domain / Structural Genomics Hypothetical 15.5 Kd Protein In mrcA-pckA Intergenic Region; Chain A / K homology (KH) domain / Helicase, Ruva Protein; domain 3 - #50 / Double Stranded RNA Binding Domain - #20 / Glucose-6-phosphate isomerase like protein; domain 1 / Ribosomal Protein S8; Chain: A, domain 1 / Ribosomal Protein S5; domain 2 - #10 / 30S ribosomal protein Thx / 30S ribosomal protein Thx / 30S ribosomal protein / GMP Synthetase; Chain A, domain 3 / Ribosomal Protein S5; domain 2 / Ribosomal protein S14, type Z / Double Stranded RNA Binding Domain / Helicase, Ruva Protein; domain 3 / Nucleic acid-binding proteins / Dna Ligase; domain 1 / Methane Monooxygenase Hydroxylase; Chain G, domain 1 / Ribosomal protein S3, bacterial-type / Ribosomal protein S19, bacterial-type / Ribosomal protein S13, bacterial-type / Ribosomal protein S6, conserved site / Ribosomal protein S6 signature. / Ribosomal protein S7, bacterial/organellar-type / Ribosomal protein S11, bacterial-type / Ribosomal protein S20 / Ribosomal protein S20 superfamily / Ribosomal protein S20 / Ribosomal protein S4, bacterial-type / 30S ribosomal protein S17 / Ribosomal protein S5, bacterial-type / Ribosomal protein S14/S29 / Ribosomal protein S6, plastid/chloroplast / Ribosomal protein S2, bacteria/mitochondria/plastid / Ribosomal protein S9, bacterial/plastid / Ribosomal protein S18, conserved site / Ribosomal protein S18 signature. / Ribosomal protein S16 / Ribosomal protein S16 domain superfamily / Ribosomal protein S16 / Ribosomal protein S15, bacterial-type / Ribosomal protein S6 / Ribosomal protein S6 / Ribosomal protein S6 superfamily / Ribosomal protein S12, bacterial-type / Translation elongation factor EF1B/ribosomal protein S6 / Ribosomal protein S18 / Ribosomal protein S18 / Ribosomal protein S18 superfamily / Few Secondary Structures / Irregular / K Homology domain / K homology RNA-binding domain / OB fold (Dihydrolipoamide Acetyltransferase, E2P) / Ribosomal protein S3, conserved site / Ribosomal protein S3 signature. / Ribosomal protein S10, conserved site / Ribosomal protein S10 signature. / Ribosomal protein S14, conserved site / Ribosomal protein S14 signature. / Nucleotidyltransferase; domain 5 / Ribosomal protein S2 signature 1. / KH domain / Type-2 KH domain profile. / K Homology domain, type 2 / Helix Hairpins / Ribosomal protein S3, C-terminal / Ribosomal protein S3, C-terminal domain / Ribosomal protein S3, C-terminal domain superfamily / Ribosomal protein S15/S19, conserved site / Ribosomal protein S19 signature. / Ribosomal protein S10 / Ribosomal protein S5, N-terminal, conserved site / Ribosomal protein S5 signature. / Ribosomal protein S19/S15
類似検索 - ドメイン・相同性
: / RNA / RNA (> 10) / RNA (> 100) / RNA (> 1000) / Small ribosomal subunit protein uS12 / Small ribosomal subunit protein uS14 / Small ribosomal subunit protein uS17 / Small ribosomal subunit protein uS8 / Small ribosomal subunit protein uS7 ...: / RNA / RNA (> 10) / RNA (> 100) / RNA (> 1000) / Small ribosomal subunit protein uS12 / Small ribosomal subunit protein uS14 / Small ribosomal subunit protein uS17 / Small ribosomal subunit protein uS8 / Small ribosomal subunit protein uS7 / Small ribosomal subunit protein uS2 / Small ribosomal subunit protein uS3 / Small ribosomal subunit protein uS4 / Small ribosomal subunit protein uS9 / Small ribosomal subunit protein uS11 / Small ribosomal subunit protein uS13 / Small ribosomal subunit protein bS20 / Small ribosomal subunit protein uS12 / Small ribosomal subunit protein uS10 / Small ribosomal subunit protein uS19 / 30S ribosomal protein S17 / 30S ribosomal protein S14 type Z / 30S ribosomal protein S8 / Small ribosomal subunit protein uS5 / Small ribosomal subunit protein bTHX / Small ribosomal subunit protein uS15 / Small ribosomal subunit protein bS16 / Small ribosomal subunit protein bS6 / Small ribosomal subunit protein bS18
類似検索 - 構成要素
生物種Thermus thermophilus (バクテリア)
手法X線回折 / シンクロトロン / フーリエ合成 / 解像度: 3.6 Å
データ登録者Demirci, H. / Murphy IV, F. / Murphy, E. / Gregory, S.T. / Dahlberg, A.E. / Jogl, G.
引用ジャーナル: Nat Commun / 年: 2013
タイトル: A structural basis for streptomycin-induced misreading of the genetic code.
著者: Demirci, H. / Murphy, F. / Murphy, E. / Gregory, S.T. / Dahlberg, A.E. / Jogl, G.
履歴
登録2012年2月16日登録サイト: RCSB / 処理サイト: RCSB
改定 1.02012年11月14日Provider: repository / タイプ: Initial release
改定 1.12013年1月23日Group: Database references
改定 1.22013年1月30日Group: Database references
改定 1.32025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_ref_seq_dif / struct_site
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.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_ref_seq_dif.details / _struct_site.pdbx_auth_asym_id / _struct_site.pdbx_auth_comp_id / _struct_site.pdbx_auth_seq_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
A: 16S rRNA
B: 30S ribosomal protein S2
C: 30S ribosomal protein S3
D: 30S ribosomal protein S4
E: 30S ribosomal protein S5
F: 30S ribosomal protein S6
G: 30S ribosomal protein S7
H: 30S ribosomal protein S8
I: 30S ribosomal protein S9
J: 30S ribosomal protein S10
K: 30S ribosomal protein S11
L: 30S ribosomal protein S12
M: 30S ribosomal protein S13
N: 30S ribosomal protein S14
O: 30S ribosomal protein S15
P: 30S ribosomal protein S16
Q: 30S ribosomal protein S17
R: 30S ribosomal protein S18
S: 30S ribosomal protein S19
T: 30S ribosomal protein S20
U: 30S ribosomal protein THX
ヘテロ分子


分子量 (理論値)分子数
合計 (水以外)790,240277
ポリマ－783,93621
非ポリマー6,304256
水4,306239
1


  • 登録構造と同一
  • 登録者が定義した集合体
タイプ名称対称操作数
identity operation1_555x,y,z1
単位格子
Length a, b, c (Å)403.038, 403.038, 174.361
Angle α, β, γ (deg.)90.000, 90.000, 90.000
Int Tables number92
Space group name H-MP41212

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要素

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RNA鎖 , 1種, 1分子 A

#1: RNA鎖 16S rRNA


分子量: 494170.781 Da / 分子数: 1 / 由来タイプ: 天然 / 由来: (天然) Thermus thermophilus (バクテリア) / 株: HB8 / 参照: GenBank: M26923.1

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30S ribosomal protein ... , 20種, 20分子 BCDEFGHIJKLMNOPQRSTU

#2: タンパク質 30S ribosomal protein S2


分子量: 29317.703 Da / 分子数: 1 / 由来タイプ: 天然 / 由来: (天然) Thermus thermophilus (バクテリア) / 株: HB8 / 参照: UniProt: P80371
#3: タンパク質 30S ribosomal protein S3


分子量: 26751.076 Da / 分子数: 1 / 由来タイプ: 天然 / 由来: (天然) Thermus thermophilus (バクテリア) / 株: HB8 / 参照: UniProt: P80372
#4: タンパク質 30S ribosomal protein S4


分子量: 24373.447 Da / 分子数: 1 / 由来タイプ: 天然 / 由来: (天然) Thermus thermophilus (バクテリア) / 株: HB8 / 参照: UniProt: P80373
#5: タンパク質 30S ribosomal protein S5


分子量: 17583.416 Da / 分子数: 1 / 由来タイプ: 天然 / 由来: (天然) Thermus thermophilus (バクテリア) / 株: HB8 / 参照: UniProt: Q5SHQ5
#6: タンパク質 30S ribosomal protein S6


分子量: 11988.753 Da / 分子数: 1 / 由来タイプ: 天然 / 由来: (天然) Thermus thermophilus (バクテリア) / 株: HB8 / 参照: UniProt: Q5SLP8
#7: タンパク質 30S ribosomal protein S7


分子量: 18050.973 Da / 分子数: 1 / 由来タイプ: 天然 / 由来: (天然) Thermus thermophilus (バクテリア) / 株: HB8 / 参照: UniProt: P17291
#8: タンパク質 30S ribosomal protein S8


分子量: 15868.570 Da / 分子数: 1 / 由来タイプ: 天然 / 由来: (天然) Thermus thermophilus (バクテリア) / 株: HB8 / 参照: UniProt: Q5SHQ2, UniProt: P0DOY9*PLUS
#9: タンパク質 30S ribosomal protein S9


分子量: 14410.614 Da / 分子数: 1 / 由来タイプ: 天然 / 由来: (天然) Thermus thermophilus (バクテリア) / 株: HB8 / 参照: UniProt: P80374
#10: タンパク質 30S ribosomal protein S10


分子量: 11954.968 Da / 分子数: 1 / 由来タイプ: 天然 / 由来: (天然) Thermus thermophilus (バクテリア) / 株: HB8 / 参照: UniProt: Q5SHN7
#11: タンパク質 30S ribosomal protein S11


分子量: 13737.868 Da / 分子数: 1 / 由来タイプ: 天然 / 由来: (天然) Thermus thermophilus (バクテリア) / 株: HB8 / 参照: UniProt: P80376
#12: タンパク質 30S ribosomal protein S12


分子量: 14966.846 Da / 分子数: 1 / 由来タイプ: 天然 / 由来: (天然) Thermus thermophilus (バクテリア) / 株: HB8 / 参照: UniProt: F6DEQ7, UniProt: Q5SHN3*PLUS
#13: タンパク質 30S ribosomal protein S13


分子量: 14338.861 Da / 分子数: 1 / 由来タイプ: 天然 / 由来: (天然) Thermus thermophilus (バクテリア) / 株: HB8 / 参照: UniProt: P80377
#14: タンパク質 30S ribosomal protein S14


分子量: 7158.725 Da / 分子数: 1 / 由来タイプ: 天然 / 由来: (天然) Thermus thermophilus (バクテリア) / 株: HB8 / 参照: UniProt: Q5SHQ1, UniProt: P0DOY6*PLUS
#15: タンパク質 30S ribosomal protein S15


分子量: 10578.407 Da / 分子数: 1 / 由来タイプ: 天然 / 由来: (天然) Thermus thermophilus (バクテリア) / 株: HB8 / 参照: UniProt: Q5SJ76
#16: タンパク質 30S ribosomal protein S16


分子量: 10409.983 Da / 分子数: 1 / 由来タイプ: 天然 / 由来: (天然) Thermus thermophilus (バクテリア) / 株: HB8 / 参照: UniProt: Q5SJH3
#17: タンパク質 30S ribosomal protein S17


分子量: 12324.670 Da / 分子数: 1 / 由来タイプ: 天然 / 由来: (天然) Thermus thermophilus (バクテリア) / 株: HB8 / 参照: UniProt: Q5SHP7, UniProt: P0DOY7*PLUS
#18: タンパク質 30S ribosomal protein S18


分子量: 10258.299 Da / 分子数: 1 / 由来タイプ: 天然 / 由来: (天然) Thermus thermophilus (バクテリア) / 株: HB8 / 参照: UniProt: Q5SLQ0
#19: タンパク質 30S ribosomal protein S19


分子量: 10605.464 Da / 分子数: 1 / 由来タイプ: 天然 / 由来: (天然) Thermus thermophilus (バクテリア) / 株: HB8 / 参照: UniProt: Q5SHP2
#20: タンパク質 30S ribosomal protein S20


分子量: 11736.143 Da / 分子数: 1 / 由来タイプ: 天然 / 由来: (天然) Thermus thermophilus (バクテリア) / 株: HB8 / 参照: UniProt: P80380
#21: タンパク質・ペプチド 30S ribosomal protein THX


分子量: 3350.030 Da / 分子数: 1 / 由来タイプ: 天然 / 由来: (天然) Thermus thermophilus (バクテリア) / 株: HB8 / 参照: UniProt: Q5SIH3

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非ポリマー , 3種, 495分子

#22: 化合物...
ChemComp-MG / MAGNESIUM ION


分子量: 24.305 Da / 分子数: 254 / 由来タイプ: 合成 / 式: Mg
#23: 化合物 ChemComp-ZN / ZINC ION


分子量: 65.409 Da / 分子数: 2 / 由来タイプ: 合成 / 式: Zn
#24: 水 ChemComp-HOH / water


分子量: 18.015 Da / 分子数: 239 / 由来タイプ: 天然 / 式: H2O

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詳細

Has protein modificationY

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実験情報

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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: 4.52 Å3/Da / 溶媒含有率: 72.76 %
結晶化温度: 277 K / 手法: ハンギングドロップ法 / pH: 6.5 / 詳細: MPD, pH 6.5, HANGING DROP, temperature 277K

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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: APS / ビームライン: 24-ID-C / 波長: 0.98 Å
検出器タイプ: ADSC QUANTUM 315 / 検出器: CCD / 日付: 2010年11月7日
放射モノクロメーター: Kohzu HLD8-24 / 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: 0.98 Å / 相対比: 1
Reflection冗長度: 4.8 % / Av σ(I) over netI: 15.85 / 数: 783690 / Rmerge(I) obs: 0.085 / Χ2: 1.09 / D res high: 3.6 Å / D res low: 35 Å / Num. obs: 163468 / % possible obs: 99.2
Diffraction reflection shell
最高解像度 (Å)最低解像度 (Å)% possible obs (%)IDRmerge(I) obsChi squaredRedundancy
7.733597.210.0381.0334.6
6.157.7399.310.0571.0834.7
5.376.1599.510.0741.1084.8
4.885.3799.510.0931.1024.8
4.534.8899.510.1251.0764.8
4.274.5399.610.1811.1144.9
4.054.2799.510.2781.1174.9
3.884.0599.510.4031.094.8
3.733.8899.410.5951.0944.8
3.63.7399.210.9231.0714.8
反射解像度: 3.6→35 Å / Num. all: 163468 / Num. obs: 163468 / % possible obs: 99.2 % / Observed criterion σ(F): -3 / Observed criterion σ(I): -3 / 冗長度: 4.8 % / Rmerge(I) obs: 0.085 / Χ2: 1.089 / Net I/σ(I): 12
反射 シェル
解像度 (Å)冗長度 (%)Rmerge(I) obsNum. unique allΧ2Diffraction-ID% possible all
3.6-3.734.80.923161461.071199.2
3.73-3.884.80.595162151.094199.4
3.88-4.054.80.403162351.09199.5
4.05-4.274.90.278162551.117199.5
4.27-4.534.90.181162571.114199.6
4.53-4.884.80.125163511.076199.5
4.88-5.374.80.093163761.102199.5
5.37-6.154.80.074164181.108199.5
6.15-7.734.70.057165451.083199.3
7.73-354.60.038166701.033197.2

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解析

ソフトウェア
名称バージョン分類NB
DENZOデータ削減
SCALEPACKデータスケーリング
PHENIXdev_978精密化
PDB_EXTRACT3.1データ抽出
HKL-2000データ収集
PHENIXdev_978位相決定
精密化構造決定の手法: フーリエ合成 / 解像度: 3.6→34.644 Å / Occupancy max: 1 / Occupancy min: 0.38 / FOM work R set: 0.8746 / SU ML: 0.32 / σ(F): 1.33 / 位相誤差: 19.5 / 立体化学のターゲット値: ML
Rfactor反射数%反射Selection details
Rfree0.2066 8155 4.99 %FROM PDB ENTRY 2VQE
Rwork0.1568 ---
obs0.1594 163397 99.21 %-
all-163397 --
溶媒の処理減衰半径: 0.86 Å / VDWプローブ半径: 1.1 Å / 溶媒モデル: FLAT BULK SOLVENT MODEL / Bsol: 105.279 Å2 / ksol: 0.251 e/Å3
原子変位パラメータBiso max: 531.36 Å2 / Biso mean: 167.8544 Å2 / Biso min: 11.11 Å2
Baniso -1Baniso -2Baniso -3
1--4.2438 Å2-0 Å20 Å2
2---4.2438 Å20 Å2
3---8.4876 Å2
精密化ステップサイクル: LAST / 解像度: 3.6→34.644 Å
タンパク質核酸リガンド溶媒全体
原子数19088 32507 256 239 52090
拘束条件
Refine-IDタイプDev ideal数
X-RAY DIFFRACTIONf_bond_d0.01256177
X-RAY DIFFRACTIONf_angle_d1.49583300
X-RAY DIFFRACTIONf_chiral_restr0.08610413
X-RAY DIFFRACTIONf_plane_restr0.0094888
X-RAY DIFFRACTIONf_dihedral_angle_d19.48426123
LS精密化 シェル

Refine-ID: X-RAY DIFFRACTION / Total num. of bins used: 30

解像度 (Å)Rfactor RfreeNum. reflection RfreeRfactor RworkNum. reflection RworkNum. reflection all% reflection obs (%)
3.6-3.64130.32412520.27995075532798
3.6413-3.68410.29832960.262751165412100
3.6841-3.7290.30632800.25355111539199
3.729-3.77610.28413020.235951335435100
3.7761-3.82580.27782210.22035130535199
3.8258-3.87810.25492750.21015143541899
3.8781-3.93340.24892670.200251535420100
3.9334-3.99210.23492700.19285142541299
3.9921-4.05430.23762840.18675125540999
4.0543-4.12070.22193050.170350945399100
4.1207-4.19160.23032560.16475174543099
4.1916-4.26770.25742420.1675178542099
4.2677-4.34970.2053090.156451465455100
4.3497-4.43830.19072640.149651375401100
4.4383-4.53460.19112960.14265107540399
4.5346-4.63980.19372580.13665197545599
4.6398-4.75560.19282530.12995180543399
4.7556-4.88380.20242590.12895199545899
4.8838-5.02710.17212890.12385151544099
5.0271-5.18890.17172520.119752015453100
5.1889-5.37370.17162630.112752165479100
5.3737-5.5880.16982770.116651885465100
5.588-5.84110.18552750.11785208548399
5.8411-6.14750.1792460.122352175463100
6.1475-6.53030.17642630.13025235549899
6.5303-7.03060.18982770.13415242551999
7.0306-7.7310.19362810.13155240552199
7.731-8.83340.17682730.13235296556999
8.8334-11.06860.19332810.14845299558099
11.0686-34.64560.23622890.21655209549894
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)
10.57940.0467-0.19310.683-0.00910.6401-0.0336-0.0942-0.18510.2260.10180.17770.29140.1098-0.09270.83840.17370.1240.72580.02731.114143.644783.3498-12.6066
23.156-0.48450.87230.62530.17780.43910.0093-1.76470.48510.43610.2146-0.39470.0185-0.1046-0.20741.251-0.22560.07112.568-0.76131.8411222.9176129.11689.8037
32.50251.3442-0.80231.0201-0.43020.48950.022-0.5402-0.68910.0508-0.033-0.49550.28950.29410.0481.17190.229-0.00691.28750.04531.549166.954571.615-26.0792
41.55990.42641.09980.8703-0.70542.1344-1.27930.1211-0.3015-0.03710.97740.1663-0.77840.90290.29741.8031-0.10550.44750.96340.10872.1001156.5265157.7486-34.264
52.2194-0.05861.40195.37482.44176.0185-0.1145-0.53580.3733-0.31-0.52610.81610.29140.17380.66681.3434-0.25450.58920.95310.04711.5588156.2915158.3979-24.1387
64.26012.01670.29642.767-1.22072.0540.3792-0.30720.5508-0.00890.8591-0.7711-1.00171.1199-1.05811.2849-0.28210.57921.2803-0.7332.0381177.8257158.1965-7.0666
70.75930.21221.08134.819-0.28982.24550.15690.21120.0034-0.79420.4247-0.7357-0.51310.2854-0.18451.6936-0.27170.93580.4943-0.18611.8938158.669155.8895-20.8818
83.0038-1.0519-3.37070.37241.22144.3647-0.42540.03240.45230.11990.6625-0.61280.05690.1161-0.15934.23-0.29470.36211.05850.05612.9824162.8375174.1637-21.3354
90.1808-0.1653-0.12120.12680.05210.34130.2025-0.610.37410.3507-0.50570.5523-0.4096-0.77690.10481.5774-0.25950.24844.1937-1.61081.8475207.4196140.494630.6132
100.0538-0.16830.12741.8392-0.21970.4957-0.0937-1.43820.25920.990.39120.2149-0.0334-0.4249-0.04311.1195-0.04850.20143.95-0.64391.1483193.0687135.080724.5496
112.5387-2.3363-1.10032.7519-0.36143.6779-0.074-0.6752-0.3590.5050.6284-0.0552-0.0845-0.0341-0.472.29930.0503-0.42041.4901-0.20711.2952153.4714111.132237.5189
129.12030.8011-0.83682.4412-1.32142.34480.5005-0.73940.34060.5053-0.40420.2154-0.0410.5596-0.15951.43030.310.07211.0595-0.35830.9363150.1871109.506823.026
133.8612-1.18562.2164.07590.00235.2470.4358-0.97610.47250.91420.09860.05060.0058-0.8915-0.41441.75030.04310.56451.2268-0.03180.9034132.3141105.809941.1543
145.32615.3004-1.78935.3583-1.01887.4948-0.6431.03580.871-0.91260.22310.3093-0.9754-0.60040.35481.70420.62920.03641.35770.1310.9035132.0279116.26127.0529
155.96810.18861.32612.0491.74161.90930.21560.68560.5094-0.1423-0.6049-0.2837-1.05990.66380.39441.1804-0.04720.52390.96930.35121.1787147.1293112.740317.2764
168.1791-5.527-1.67667.09360.41883.84730.31440.15220.43790.5206-0.23330.0653-0.04691.0807-0.17050.8381-0.2561-0.03382.0381-0.65171.394164.8245125.09537.0876
171.89341.30511.87461.50321.76632.2623-0.209-0.4447-0.54710.3198-0.1717-0.48-0.48290.66680.34131.2179-0.08260.17782.1675-0.37931.4266185.522122.0472-3
182.8249-1.4034-2.89252.431-0.22084.58020.2148-0.49840.59060.490.1952-0.3989-0.28090.5184-0.37181.0431-0.41350.22791.399-0.62791.2544162.3002128.93824.8812
194.2589-5.96223.21278.725-3.97643.1264-0.359-0.06930.563-0.17420.3167-0.9073-0.60160.14590.10011.4324-0.16370.51551.2061-0.17441.1143168.1059132.72585.7049
205.2724.55162.10373.9181.79275.31740.437-0.241.2550.1784-0.62640.5178-0.4571-0.10690.18320.72140.06270.32661.16360.14891.5792145.5544128.86940.7457
214.11080.3387-5.95783.5558-0.41098.9127-0.70770.2789-0.1516-0.4830.1116-0.3769-0.3488-0.80510.29120.96410.25420.22680.7218-0.31231.2477148.1655117.4009-2.6948
227.20020.5998-0.66953.5539-0.40731.2251-0.4971-1.32150.02771.04840.06710.47530.85190.27450.47280.8119-0.1710.14490.8868-0.27260.803152.1623118.0262.216
233.5851-3.5941-0.66124.73061.62263.04810.10490.46510.6368-0.02020.215-0.4605-0.35040.7005-0.14411.0682-0.27740.14831.2133-0.14730.3992155.5112124.4939-4.7483
245.2177-4.73765.20624.8881-5.03515.35680.2635-0.43581.03250.8045-1.03571.3333-1.0571-1.02380.70241.14560.31530.28090.9306-0.12161.1202135.8314134.0134-8.8544
253.5873-0.0888-3.15546.16560.40682.8865-0.05760.15770.30940.5605-0.03170.6154-0.82471.61890.16491.78750.1213-0.25662.0459-0.13410.7513167.8476117.3533-84.8188
260.1552-0.3666-0.07360.86470.1740.03490.01611.26940.4493-0.98060.3836-0.4093-0.77020.6133-0.34051.5195-0.03020.7242.89810.61631.6045187.1092117.388-96.6488
275.9350.5343-4.31611.4533-0.70465.0368-0.75351.5527-0.3885-1.27860.09560.10280.29870.06430.57932.29740.21780.03532.0989-0.55610.5597173.3176112.3488-97.8822
285.26721.8871-0.5526.29591.55472.66640.8006-0.47360.6447-0.21090.00910.405-1.2288-0.5482-0.75682.20150.62820.29392.69460.43361.417165.7323121.6003-91.6736
294.5239-4.57345.24694.9405-5.15146.513-0.05930.73140.207-0.71910.1166-0.0832-0.6849-0.3861-0.10492.5995-0.07370.36642.16930.74451.3419184.2701126.7278-89.0726
302.0653-0.81292.96882.007-1.097.67730.04191.6597-1.0982-1.1906-0.5353-1.14570.2520.73810.43891.16260.00820.32751.9379-0.23051.5434190.2793118.1162-83.3904
312.0569-1.34181.6062.58870.62963.2545-0.332-0.1365-0.0689-0.6362-0.33930.1649-1.3817-0.3590.64441.76190.38240.29241.66280.22520.8379171.7944119.6625-88.5726
323.2404-2.139-2.94812.4924-0.3118.97950.2547-0.1406-1.73720.1506-0.10810.34860.8712-0.2405-0.12742.2130.03440.32430.55970.0921.811168.891106.5628-85.3721
333.14352.34812.15677.4037-1.33713.1090.9406-0.3608-0.2141-0.165-0.5837-0.46510.61220.3502-0.43471.04460.34110.02791.9672-0.26530.8627177.6555112.9263-85.9045
348.05720.39273.34282.95842.42933.1285-0.4256-0.10231.0662-0.0897-0.27180.2257-0.6962-0.24650.66681.81610.1915-0.40071.82081.01741.8489165.7265131.5-73.5546
353.55613.52981.38173.50911.35260.5899-0.18621.03841.78040.437-0.751.0723-0.42720.06550.80151.3158-0.28010.08291.6351-0.24053.1534217.6253143.4819-22.3325
360.1894-0.01260.19740.0009-0.01390.20660.1684-0.21240.37280.67050.30170.4962-0.0169-0.4091-0.39421.91350.04920.47781.070.29223.9842239.4481153.3494-23.8119
376.6467-1.42190.61653.139-2.25912.0501-0.4111-0.7629-0.28220.3647-0.12090.31810.41490.22230.40650.9612-0.17410.78091.8917-0.55892.0728239.674142.1376-20.6759
382.18762.4824-1.33728.3036-1.54292.3312-0.10751.43871.5470.41680.61450.4333-1.11791.424-0.46551.5167-0.21870.11521.8417-0.36022.8294250.2515145.6977-23.0589
392.30080.5723-0.12650.7638-0.53540.8827-0.25740.244-0.172-0.4679-0.1644-0.7526-0.72550.77310.41351.9879-0.25630.43772.70510.68072.0756245.8695145.9376-36.4014
404.1215.7264-0.1118.0192-0.30633.39050.23880.3030.10130.44260.4155-0.47571.97440.8874-0.64342.07020.4328-0.38693.03980.01591.7808222.3147126.9597-37.6239
415.36441.661.69852.76990.72422.9178-0.04330.3440.1723-0.2689-0.30770.35190.1658-0.34860.08260.9431-0.62280.20051.61830.03882.2939230.6932134.5376-33.5601
423.0467-1.0352-1.99677.3776-3.83238.3883-0.21240.4988-0.5121-0.51450.381-0.6080.84470.90530.19431.0518-0.23760.80061.75740.06662.0333250.9566135.2693-29.0107
434.8028-3.34925.64999.4573-0.17158.6383-0.63871.6194-1.3648-0.7965-0.4583-0.53330.84360.31980.93181.5173-0.15520.34862.0821-0.40931.5745239.3526130.8001-40.1586
444.4648-1.10163.16846.32050.49652.54990.3904-0.43230.8297-0.10310.23520.2855-0.3443-0.1657-0.54632.3733-0.40871.58381.9494-0.11443.917220.1549126.2609-44.6777
458.19731.543-1.11218.2131-1.53372.1565-0.04570.0213-0.3923-0.66360.0481-0.06190.52830.67720.11930.74910.29940.6830.902-0.15740.9581140.5801123.2322-30.4191
463.14292.34482.66595.90685.34554.9643-0.41420.17880.6811-0.6005-0.01220.4132-1.0731-0.05270.30381.10.32920.35620.68050.08820.8752138.5584132.2922-31.9259
474.56621.57160.73571.92831.77751.961-0.2935-0.74360.19710.48710.10481.7142-0.1331-1.61590.1480.66060.28120.21621.0230.33511.4433126.8847125.9952-26.4709
484.86040.8902-0.13662.96111.96762.0146-0.59270.06750.3149-0.2048-0.02552.1166-0.4764-0.51950.55081.6650.3737-0.02450.77110.04071.3435130.9151133.4931-31.0631
496.92290.94944.16167.74851.96332.7594-0.42170.7564-0.0227-0.16460.4856-0.9007-0.46050.2948-0.08230.77720.23670.39170.97090.30881.3451133.6551132.0091-38.4924
504.14941.42184.96681.4061.5145.97840.0065-0.68080.71011.04070.6624-0.0883-0.22290.0608-0.49081.00510.13040.35510.9826-0.19361.3379145.7182139.9142-16.699
518.44724.44372.82295.52791.90435.00340.4169-1.0067-0.04490.52770.5008-1.0563-0.28460.376-0.8451.05160.31080.17550.8414-0.23231.2248143.5354129.2663-18.5196
524.87953.1705-0.95944.9036-0.63336.3223-0.50210.5851-0.1229-0.38850.2306-0.04950.44720.1050.19871.01640.10720.14130.92680.27950.4865134.0808108.7145-24.5167
536.44140.01033.7085.8073-1.40982.4796-0.6364-0.4203-1.61620.45870.28860.11851.00960.53490.3851.32790.63240.85890.9610.47161.6157125.5697109.4969-12.3876
542.47183.33073.39044.63344.58914.655-0.3253-0.5153-0.56180.4308-0.6896-0.41790.7389-0.25280.90840.86680.00230.13011.387-0.15050.7425134.4806119.1875-8.3684
559.27523.98752.23253.36781.80824.9956-0.2095-0.6225-0.54480.54120.08740.21770.1851-0.1036-0.02271.0880.27960.47730.76820.32630.92126.4173118.5906-18.9532
563.26463.2028-2.71078.8713-0.49163.07460.0325-0.52041.32140.83-0.7221-0.8174-1.0465-0.4740.62830.92580.10920.21540.9225-0.08041.4808122.598119.7575-15.5437
575.04122.9882-1.95992.3942-0.05832.80370.2643-0.2386-0.80330.3053-0.2471-0.34020.3798-0.0076-0.38590.91710.32080.05060.80330.41780.7644131.3514117.0394-18.8993
580.74761.49150.9275.61971.29141.46750.4416-0.15970.3086-0.0260.2646-0.41140.02330.4693-0.47991.4818-0.3487-0.20111.8164-1.02742.7879241.2788166.3066-3.1155
593.82690.1115-0.83260.6698-0.33853.4791-0.67680.90410.8524-0.2619-0.10430.1222-0.53480.6290.65031.3334-0.88170.32892.6047-0.483.357248.4731155.33-8.7754
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765.87580.4873-3.27617.0738-0.98661.9010.98640.21480.56060.3362-0.9218-1.6652-0.11121.0584-0.05350.6395-0.07840.02661.87340.08741.6617221.3679122.2426-64.9225
778.86941.04130.37574.26984.27896.5171-1.05610.6758-0.6519-1.75-0.5237-0.35370.1870.05121.41451.1979-0.1520.33251.55480.44231.9415211.8236125.4662-72.3559
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863.5693-0.30790.67914.8799-0.50811.10060.3318-0.62280.3579-0.3658-0.5153-0.5885-0.0088-0.06860.22751.51190.3149-0.31131.6480.1891.3949170.20181.148124.0116
872.35451.00370.48172.9366-2.60943.5139-0.6329-0.5973-0.8876-0.4129-0.27141.66282.3183-0.0920.73621.71590.40320.08052.2667-0.65341.9701274.4577116.481-8.0184
883.72481.9912-0.1044.2726-1.56166.15080.4507-0.07811.3466-0.0874-0.99820.1953-0.61350.29530.66930.86160.3226-0.18541.8864-0.40692.1369275.2825122.1115-1.19
896.2627-4.08782.87022.6831-1.90791.3957-0.4165-0.80410.47191.2116-0.0408-1.1959-0.550.78190.36481.8877-0.3716-0.48162.9888-0.75841.8578273.7731113.40357.9875
908.75276.126-6.85059.8971-6.93896.18930.0457-0.7654-0.39150.1704-0.2726-0.39570.26370.27630.22651.659-0.0246-0.23272.01380.0211.241262.9674101.30699.1081
914.13992.44894.69412.68331.39826.86390.1469-0.5326-0.51090.4502-0.6181.17120.5887-0.80830.44011.8648-0.2752-0.04092.9474-0.20322.2746249.417698.088913.0769
921.9284-0.8936-2.24765.8186-0.21256.1238-1.0274-0.33660.6895-0.1511-0.63140.3986-0.9497-0.32431.36461.4991-0.0564-0.40082.1835-0.04192.0957241.44106.57376.5222
938.7255.6795-2.56014.3868-1.48040.7997-0.16950.6465-0.5846-0.60140.32180.5970.33920.0723-0.1361.1238-0.59050.03082.4558-0.00482.3437240.3433100.973-3.2893
944.802-2.1192-2.20636.2312-2.65083.49170.5377-1.33770.11631.1016-0.6498-0.11270.1934-0.55610.19342.34590.4052-0.373.8663-0.62531.8146220.2581117.089734.2644
952.1803-1.65272.67638.1283-1.97553.5483-0.2747-1.55070.6891.31880.4970.8474-0.6209-0.3542-0.20011.81240.3114-0.06973.411-0.25111.9922232.4977118.896935.0702
964.45894.3008-0.51484.23380.01494.1231-0.2970.93880.7166-0.7079-1.53890.4308-0.5162-0.63371.5931.7137-0.68720.02932.9718-0.43191.8861218.4432124.937328.5664
972.05261.91291.99397.29795.69134.6003-0.4064-0.47550.2489-0.244-0.56830.43470.05850.13460.79852.69990.8326-0.46851.8105-0.58791.9163219.5202120.700423.7134
980.4923-0.13581.11471.6852-1.01283.1955-0.722-0.15340.63410.0004-0.2242-0.1096-0.39770.31890.56311.1463-0.1785-0.31932.8097-0.80331.7114216.3598134.896220.3375
991.67071.5457-3.12686.08231.08969.80260.1152.16230.4657-1.89130.67530.2434-0.26810.36-0.60491.68510.2725-0.08621.61710.33611.0306141.6291111.0278-74.1783
1002.7052-2.85480.3494.82222.06043.43780.62240.6141-0.1924-0.91720.49180.3617-0.1249-0.1479-0.95771.123-0.1571-0.05471.11090.4270.9679145.0396104.5301-66.6044
1011.9748-0.58710.50135.44490.78981.05260.0978-0.9454-0.25130.3650.96650.18160.59210.6793-0.98540.89170.0875-0.1451.77350.07240.8351143.8157101.9762-56.4064
1023.8349-1.6203-4.5082.4991.90445.2998-0.63170.6123-0.4552-0.5218-0.52461.9210.8901-1.58351.08181.3191-0.3639-0.39381.5088-0.01372.1131131.10998.3049-63.6148
1035.565-1.75621.12283.8042-1.46296.40410.1066-0.2414-0.16-0.36680.0201-0.2510.47430.197-0.14361.40450.50090.60690.9920.34051.1744112.27272.42049.7249
1045.1719-0.01353.00171.2402-0.52181.9675-0.04770.1675-0.04790.61940.3285-0.48640.04170.7326-0.40091.16230.23990.64741.1213-0.10931.6751118.513878.531215.1032
1052.2761-2.92960.1357.1871-2.49211.7373-0.59140.1927-0.14070.7212-0.1281-0.24011.01750.38510.69961.76310.16370.52880.8970.03041.3739117.775873.26414.6142
1062.83040.93171.79941.91093.45476.24220.1784-0.53271.33530.33820.45620.9176-1.01130.0292-0.45531.5802-0.3380.70781.1496-0.00282.0184110.979284.309518.6348
1073.21480.7420.37192.1396-0.17271.693-0.20870.13860.5158-0.4669-0.12580.4917-0.34570.0130.18821.44540.35150.50631.13790.752.766100.660579.73785.065
1081.40271.24720.74784.2858-0.34845.41140.3436-0.3883-0.21250.704-0.46050.04450.4132-0.0535-0.021.9394-0.34310.67880.58420.24641.7652104.063473.145514.6048
1091.66391.55573.63614.14023.08467.9838-0.1162-1.0497-0.29760.8237-0.85841.21960.6551-1.55750.70041.9967-0.21520.97211.36040.11261.833293.840879.025915.9146
1103.04421.64491.07222.9726-0.14830.63180.02120.8086-0.0431-0.18020.3178-0.4990.4032-0.6011-0.1810.8007-0.11860.27511.13810.24991.4414120.646780.6132-38.6932
1114.05755.213.50276.79294.08394.7702-0.5247-0.23170.1379-0.36010.03791.24150.3183-0.19180.4250.6089-0.06910.07680.85030.24421.5743129.555589.3461-31.0169
1125.96721.7745-4.76144.3888-2.57815.5720.40650.83140.055-1.49980.79811.53340.652-1.4641-0.92741.123-0.053-0.5071.05420.31621.7684116.223681.6764-42.2255
1133.5393-0.2960.82934.6092-0.20693.17540.2828-0.16530.8380.6233-0.2140.5491-0.2291-0.0233-0.02411.0299-0.34220.01491.08420.38431.5696117.827279.9973-36.5495
1144.52110.75194.65087.6175-3.02226.73620.44350.4435-0.58610.1898-0.07180.0760.26290.4831-0.47011.1869-0.10730.1580.9377-0.21641.0554138.069985.8103-44.8862
1151.8862-1.40090.78842.2221-0.14037.7984-0.5712-0.28911.4105-0.65050.32520.7426-1.1764-0.15310.42582.2314-0.21660.490.8623-0.43982.5818177.8874140.8111-67.5147
1168.4748-4.1066-7.71823.46553.13147.3475-0.76820.3388-0.2873-0.3483-1.25170.1602-0.0941-0.46941.79351.2260.3381-0.07722.5240.24961.6413172.5436129.2352-76.8942
1177.0559-3.24332.27912.5243-0.75624.43510.3550.60371.3803-0.8888-0.408-1.6773-0.83260.2247-0.03411.19410.43730.62871.03450.57411.9732181.1993133.2253-74.6705
1185.6102-0.9847-0.99862.80033.9145.49510.8083-0.44350.72030.20720.8513-1.9453-0.91810.9845-1.31180.97850.18050.43881.6023-0.18111.274182.7026131.1759-63.784
1199.5395-2.6615-6.85922.6741.97048.91390.7367-0.32440.3671-0.42620.07520.31960.3476-0.5079-0.58091.2880.06860.23331.19130.34410.6789175.0969124.3182-69.8039
1207.26541.47321.86363.59591.82126.38490.0873-0.19860.6609-0.5519-0.1046-0.9092-0.05620.5512-0.05911.48550.23860.42361.55740.31561.6905193.1012126.1157-71.1793
1212.5674-0.4367-0.47035.0085-3.76863.9783-0.29760.7257-0.4573-0.1652-0.09090.8871.1958-1.2270.30252.10810.3194-0.8253.3864-0.76011.9307252.7552112.7528.1109
1222.98822.8252-0.61374.50571.14935.5522-0.4985-1.2840.2121.2261-0.0134-0.66450.02930.53060.35832.68240.8192-1.19193.645-0.81692.1175251.98799.801442.2599
1230.77360.30670.25680.12840.0340.6992-0.0194-0.08211.00410.20960.1802-0.7393-0.7450.8741-0.14911.9496-0.0013-0.58393.36250.61473.0853252.761888.635238.9108
1240.0180.0182-0.0080.085-0.24470.9414-0.5653-1.6804-0.39530.2739-0.20010.9688-0.4336-1.00740.58721.412-0.1865-0.59313.78380.44272.462244.8933100.938932.1107
1254.21335.1042.53857.7780.80334.78810.3637-1.4744-0.33730.5097-0.6631-0.461-0.00861.2290.29412.15680.0325-0.72133.56050.46762.8106251.941796.257332.5135
1260.10120.17710.02770.31080.041.0980.119-0.3566-0.0136-0.17510.2504-0.0219-0.06810.0693-0.36552.40660.0821-0.05222.28330.19831.9917242.690892.061227.2454
1272.98822.24950.15182.38482.03585.34850.4820.8086-0.977-0.1033-0.0152-0.47690.48610.9183-0.39961.8374-0.1549-0.87573.96510.91042.4906256.883799.213225.6524
1282.9022-1.6173.17260.9053-1.76653.4637-0.37470.04710.038-0.3062-0.1216-0.37090.06080.50960.3182.11140.2701-0.69712.84620.45062.0229242.460196.333117.8377
1292.4083-0.19723.24291.94820.75577.18960.3329-0.35050.06170.13770.66120.7644-0.0094-0.1715-0.54781.1534-0.15930.28130.63210.42971.5473108.033341.8518-20.175
1302.8067-0.26761.97231.93550.21892.0664-0.12810.03260.3772-0.38530.19770.26760.5002-0.4173-0.14481.3043-0.46590.15581.11330.46921.6305100.871150.5063-31.644
1314.4432-3.65962.39035.93631.09254.48960.4131-0.797-1.28220.4446-0.13870.09720.40540.1848-0.28261.3067-0.56170.07772.5113-0.82513.3763251.863124.6872.8064
1324.04010.559-0.45612.5354-0.14131.31070.3758-0.64030.37710.057-0.19550.0443-0.45280.2851-0.10582.0077-0.4453-0.4192.1567-0.97642.3227251.8997131.39468.2776
精密化 TLSグループ
IDRefine-IDRefine TLS-IDSelection detailsAuth asym-IDAuth seq-ID
1X-RAY DIFFRACTION1chain 'A' and (resseq 5:920)A5 - 920
2X-RAY DIFFRACTION2chain 'A' and (resseq 921:1400)A921 - 1400
3X-RAY DIFFRACTION3chain 'A' and (resseq 1401:1544)A0
4X-RAY DIFFRACTION4chain 'B' and (resseq 7:25)B7 - 25
5X-RAY DIFFRACTION5chain 'B' and (resseq 26:87)B26 - 87
6X-RAY DIFFRACTION6chain 'B' and (resseq 88:170)B88 - 170
7X-RAY DIFFRACTION7chain 'B' and (resseq 171:225)B171 - 225
8X-RAY DIFFRACTION8chain 'B' and (resseq 226:240)B226 - 240
9X-RAY DIFFRACTION9chain 'C' and (resseq 2:78)C2 - 78
10X-RAY DIFFRACTION10chain 'C' and (resseq 79:207)C79 - 207
11X-RAY DIFFRACTION11chain 'D' and (resseq 2:34)D2 - 34
12X-RAY DIFFRACTION12chain 'D' and (resseq 35:99)D35 - 99
13X-RAY DIFFRACTION13chain 'D' and (resseq 100:184)D100 - 184
14X-RAY DIFFRACTION14chain 'D' and (resseq 185:194)D185 - 194
15X-RAY DIFFRACTION15chain 'D' and (resseq 195:209)D195 - 209
16X-RAY DIFFRACTION16chain 'E' and (resseq 5:16)E5 - 16
17X-RAY DIFFRACTION17chain 'E' and (resseq 17:27)E17 - 27
18X-RAY DIFFRACTION18chain 'E' and (resseq 28:50)E28 - 50
19X-RAY DIFFRACTION19chain 'E' and (resseq 51:63)E51 - 63
20X-RAY DIFFRACTION20chain 'E' and (resseq 64:79)E64 - 79
21X-RAY DIFFRACTION21chain 'E' and (resseq 80:103)E80 - 103
22X-RAY DIFFRACTION22chain 'E' and (resseq 104:127)E104 - 127
23X-RAY DIFFRACTION23chain 'E' and (resseq 128:141)E128 - 141
24X-RAY DIFFRACTION24chain 'E' and (resseq 142:154)E142 - 154
25X-RAY DIFFRACTION25chain 'F' and (resseq 1:10)F1 - 10
26X-RAY DIFFRACTION26chain 'F' and (resseq 11:15)F11 - 15
27X-RAY DIFFRACTION27chain 'F' and (resseq 16:33)F16 - 33
28X-RAY DIFFRACTION28chain 'F' and (resseq 34:42)F34 - 42
29X-RAY DIFFRACTION29chain 'F' and (resseq 43:47)F43 - 47
30X-RAY DIFFRACTION30chain 'F' and (resseq 48:56)F48 - 56
31X-RAY DIFFRACTION31chain 'F' and (resseq 57:68)F57 - 68
32X-RAY DIFFRACTION32chain 'F' and (resseq 69:81)F69 - 81
33X-RAY DIFFRACTION33chain 'F' and (resseq 82:92)F82 - 92
34X-RAY DIFFRACTION34chain 'F' and (resseq 93:101)F93 - 101
35X-RAY DIFFRACTION35chain 'G' and (resseq 2:11)G2 - 11
36X-RAY DIFFRACTION36chain 'G' and (resseq 12:20)G12 - 20
37X-RAY DIFFRACTION37chain 'G' and (resseq 21:35)G21 - 35
38X-RAY DIFFRACTION38chain 'G' and (resseq 36:52)G36 - 52
39X-RAY DIFFRACTION39chain 'G' and (resseq 53:69)G53 - 69
40X-RAY DIFFRACTION40chain 'G' and (resseq 70:84)G70 - 84
41X-RAY DIFFRACTION41chain 'G' and (resseq 85:108)G85 - 108
42X-RAY DIFFRACTION42chain 'G' and (resseq 109:128)G109 - 128
43X-RAY DIFFRACTION43chain 'G' and (resseq 129:144)G129 - 144
44X-RAY DIFFRACTION44chain 'G' and (resseq 145:156)G145 - 156
45X-RAY DIFFRACTION45chain 'H' and (resseq 1:19)H1 - 19
46X-RAY DIFFRACTION46chain 'H' and (resseq 20:29)H20 - 29
47X-RAY DIFFRACTION47chain 'H' and (resseq 30:42)H30 - 42
48X-RAY DIFFRACTION48chain 'H' and (resseq 43:53)H43 - 53
49X-RAY DIFFRACTION49chain 'H' and (resseq 54:62)H54 - 62
50X-RAY DIFFRACTION50chain 'H' and (resseq 63:72)H63 - 72
51X-RAY DIFFRACTION51chain 'H' and (resseq 73:85)H73 - 85
52X-RAY DIFFRACTION52chain 'H' and (resseq 86:95)H86 - 95
53X-RAY DIFFRACTION53chain 'H' and (resseq 96:100)H96 - 100
54X-RAY DIFFRACTION54chain 'H' and (resseq 101:106)H101 - 106
55X-RAY DIFFRACTION55chain 'H' and (resseq 107:116)H107 - 116
56X-RAY DIFFRACTION56chain 'H' and (resseq 117:127)H117 - 127
57X-RAY DIFFRACTION57chain 'H' and (resseq 128:138)H128 - 138
58X-RAY DIFFRACTION58chain 'I' and (resseq 2:32)I2 - 32
59X-RAY DIFFRACTION59chain 'I' and (resseq 33:42)I33 - 42
60X-RAY DIFFRACTION60chain 'I' and (resseq 43:69)I43 - 69
61X-RAY DIFFRACTION61chain 'I' and (resseq 70:88)I70 - 88
62X-RAY DIFFRACTION62chain 'I' and (resseq 89:106)I89 - 106
63X-RAY DIFFRACTION63chain 'I' and (resseq 107:128)I107 - 128
64X-RAY DIFFRACTION64chain 'J' and (resseq 3:12)J3 - 12
65X-RAY DIFFRACTION65chain 'J' and (resseq 13:42)J13 - 42
66X-RAY DIFFRACTION66chain 'J' and (resseq 43:62)J43 - 62
67X-RAY DIFFRACTION67chain 'J' and (resseq 63:71)J63 - 71
68X-RAY DIFFRACTION68chain 'J' and (resseq 72:78)J72 - 78
69X-RAY DIFFRACTION69chain 'J' and (resseq 79:85)J79 - 85
70X-RAY DIFFRACTION70chain 'J' and (resseq 86:94)J86 - 94
71X-RAY DIFFRACTION71chain 'J' and (resseq 95:100)J95 - 100
72X-RAY DIFFRACTION72chain 'K' and (resseq 11:23)K11 - 23
73X-RAY DIFFRACTION73chain 'K' and (resseq 24:33)K24 - 33
74X-RAY DIFFRACTION74chain 'K' and (resseq 34:38)K34 - 38
75X-RAY DIFFRACTION75chain 'K' and (resseq 39:57)K39 - 57
76X-RAY DIFFRACTION76chain 'K' and (resseq 58:75)K58 - 75
77X-RAY DIFFRACTION77chain 'K' and (resseq 76:85)K76 - 85
78X-RAY DIFFRACTION78chain 'K' and (resseq 86:99)K86 - 99
79X-RAY DIFFRACTION79chain 'K' and (resseq 100:110)K100 - 110
80X-RAY DIFFRACTION80chain 'K' and (resseq 111:126)K111 - 126
81X-RAY DIFFRACTION81chain 'L' and (resseq 5:12)L5 - 12
82X-RAY DIFFRACTION82chain 'L' and (resseq 13:22)L13 - 22
83X-RAY DIFFRACTION83chain 'L' and (resseq 23:32)L23 - 32
84X-RAY DIFFRACTION84chain 'L' and (resseq 33:69)L33 - 69
85X-RAY DIFFRACTION85chain 'L' and (resseq 70:101)L70 - 101
86X-RAY DIFFRACTION86chain 'L' and (resseq 102:128)L102 - 128
87X-RAY DIFFRACTION87chain 'M' and (resseq 2:14)M2 - 14
88X-RAY DIFFRACTION88chain 'M' and (resseq 15:61)M15 - 61
89X-RAY DIFFRACTION89chain 'M' and (resseq 62:66)M62 - 66
90X-RAY DIFFRACTION90chain 'M' and (resseq 67:83)M67 - 83
91X-RAY DIFFRACTION91chain 'M' and (resseq 84:94)M84 - 94
92X-RAY DIFFRACTION92chain 'M' and (resseq 95:107)M95 - 107
93X-RAY DIFFRACTION93chain 'M' and (resseq 108:119)M108 - 119
94X-RAY DIFFRACTION94chain 'N' and (resseq 2:11)N2 - 11
95X-RAY DIFFRACTION95chain 'N' and (resseq 12:21)N12 - 21
96X-RAY DIFFRACTION96chain 'N' and (resseq 22:26)N22 - 26
97X-RAY DIFFRACTION97chain 'N' and (resseq 27:31)N27 - 31
98X-RAY DIFFRACTION98chain 'N' and (resseq 32:61)N32 - 61
99X-RAY DIFFRACTION99chain 'O' and (resseq 2:15)O2 - 15
100X-RAY DIFFRACTION100chain 'O' and (resseq 16:49)O16 - 49
101X-RAY DIFFRACTION101chain 'O' and (resseq 50:73)O50 - 73
102X-RAY DIFFRACTION102chain 'O' and (resseq 74:88)O74 - 88
103X-RAY DIFFRACTION103chain 'P' and (resseq 1:8)P1 - 8
104X-RAY DIFFRACTION104chain 'P' and (resseq 9:23)P9 - 23
105X-RAY DIFFRACTION105chain 'P' and (resseq 24:33)P24 - 33
106X-RAY DIFFRACTION106chain 'P' and (resseq 34:52)P34 - 52
107X-RAY DIFFRACTION107chain 'P' and (resseq 53:61)P53 - 61
108X-RAY DIFFRACTION108chain 'P' and (resseq 62:76)P62 - 76
109X-RAY DIFFRACTION109chain 'P' and (resseq 77:83)P77 - 83
110X-RAY DIFFRACTION110chain 'Q' and (resseq 2:17)Q2 - 17
111X-RAY DIFFRACTION111chain 'Q' and (resseq 18:45)Q18 - 45
112X-RAY DIFFRACTION112chain 'Q' and (resseq 46:61)Q46 - 61
113X-RAY DIFFRACTION113chain 'Q' and (resseq 62:81)Q62 - 81
114X-RAY DIFFRACTION114chain 'Q' and (resseq 82:100)Q82 - 100
115X-RAY DIFFRACTION115chain 'R' and (resseq 19:28)R19 - 28
116X-RAY DIFFRACTION116chain 'R' and (resseq 29:36)R29 - 36
117X-RAY DIFFRACTION117chain 'R' and (resseq 37:43)R37 - 43
118X-RAY DIFFRACTION118chain 'R' and (resseq 44:59)R44 - 59
119X-RAY DIFFRACTION119chain 'R' and (resseq 60:76)R60 - 76
120X-RAY DIFFRACTION120chain 'R' and (resseq 77:88)R77 - 88
121X-RAY DIFFRACTION121chain 'S' and (resseq 2:12)S2 - 12
122X-RAY DIFFRACTION122chain 'S' and (resseq 13:25)S13 - 25
123X-RAY DIFFRACTION123chain 'S' and (resseq 26:30)S26 - 30
124X-RAY DIFFRACTION124chain 'S' and (resseq 31:40)S31 - 40
125X-RAY DIFFRACTION125chain 'S' and (resseq 41:52)S41 - 52
126X-RAY DIFFRACTION126chain 'S' and (resseq 53:61)S53 - 61
127X-RAY DIFFRACTION127chain 'S' and (resseq 62:70)S62 - 70
128X-RAY DIFFRACTION128chain 'S' and (resseq 71:81)S71 - 81
129X-RAY DIFFRACTION129chain 'T' and (resseq 8:68)T8 - 68
130X-RAY DIFFRACTION130chain 'T' and (resseq 69:106)T69 - 106
131X-RAY DIFFRACTION131chain 'U' and (resseq 2:8)U2 - 8
132X-RAY DIFFRACTION132chain 'U' and (resseq 9:25)U9 - 25

+
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

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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

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