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- PDB-6tqd: D00-D0 domain of Intimin -

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基本情報

登録情報
データベース: PDB / ID: 6tqd
タイトルD00-D0 domain of Intimin
要素Intimin
キーワードCELL ADHESION / intimin / adhesion / passenger domain / bacterial Ig domain / BIG domain
機能・相同性
機能・相同性情報


cell outer membrane / cell adhesion
類似検索 - 分子機能
Intimin, C-terminal / Intimin C-type lectin domain / Intimin/invasin bacterial adhesion mediator protein / Inverse autotransporter, beta-domain / Inverse autotransporter, beta-domain superfamily / : / Inverse autotransporter, beta-domain / Bacterial Ig-like domain (group 1) / Bacterial Ig-like domain (group 1) / Big-1 (bacterial Ig-like domain 1) domain ...Intimin, C-terminal / Intimin C-type lectin domain / Intimin/invasin bacterial adhesion mediator protein / Inverse autotransporter, beta-domain / Inverse autotransporter, beta-domain superfamily / : / Inverse autotransporter, beta-domain / Bacterial Ig-like domain (group 1) / Bacterial Ig-like domain (group 1) / Big-1 (bacterial Ig-like domain 1) domain / Big-1 (bacterial Ig-like domain 1) domain profile. / Bacterial Ig-like domain 2 / Invasin/intimin cell-adhesion fragments / Bacterial Ig-like domain, group 2 / Lysin motif / LysM domain / LysM domain profile. / LysM domain / C-type lectin-like/link domain superfamily / C-type lectin fold / Immunoglobulin-like fold / Immunoglobulins / Immunoglobulin-like / Sandwich / Mainly Beta
類似検索 - ドメイン・相同性
BROMIDE ION / Intimin
類似検索 - 構成要素
生物種Escherichia coli O127:H6 str. E2348/69 (大腸菌)
手法X線回折 / シンクロトロン / 分子置換 / 解像度: 1.48 Å
データ登録者Weikum, J. / Leo, J.C. / Morth, J.P.
引用ジャーナル: Sci Rep / 年: 2020
タイトル: The extracellular juncture domains in the intimin passenger adopt a constitutively extended conformation inducing restraints to its sphere of action.
著者: Weikum, J. / Kulakova, A. / Tesei, G. / Yoshimoto, S. / Jaegerum, L.V. / Schutz, M. / Hori, K. / Skepo, M. / Harris, P. / Leo, J.C. / Morth, J.P.
履歴
登録2019年12月16日登録サイト: PDBE / 処理サイト: PDBE
改定 1.02021年1月13日Provider: repository / タイプ: Initial release
改定 1.12021年1月20日Group: Database references / カテゴリ: citation / citation_author
Item: _citation.journal_volume / _citation.page_first ..._citation.journal_volume / _citation.page_first / _citation.page_last / _citation.pdbx_database_id_PubMed / _citation.title / _citation.year / _citation_author.name
改定 1.22023年3月15日Group: Database references / Derived calculations / Source and taxonomy
カテゴリ: database_2 / entity_src_gen ...database_2 / entity_src_gen / struct_conn / struct_conn_type
Item: _database_2.pdbx_DOI / _database_2.pdbx_database_accession / _entity_src_gen.pdbx_gene_src_scientific_name
改定 1.32024年2月7日Group: Data collection / Refinement description
カテゴリ: chem_comp_atom / chem_comp_bond ...chem_comp_atom / chem_comp_bond / pdbx_initial_refinement_model / struct_ncs_dom_lim
Item: _struct_ncs_dom_lim.beg_auth_comp_id / _struct_ncs_dom_lim.beg_label_asym_id ..._struct_ncs_dom_lim.beg_auth_comp_id / _struct_ncs_dom_lim.beg_label_asym_id / _struct_ncs_dom_lim.beg_label_comp_id / _struct_ncs_dom_lim.beg_label_seq_id / _struct_ncs_dom_lim.end_auth_comp_id / _struct_ncs_dom_lim.end_label_asym_id / _struct_ncs_dom_lim.end_label_comp_id / _struct_ncs_dom_lim.end_label_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: Intimin
B: Intimin
C: Intimin
D: Intimin
E: Intimin
F: Intimin
ヘテロ分子


分子量 (理論値)分子数
合計 (水以外)131,52224
ポリマ－130,3506
非ポリマー1,17218
水36,7332039
1
A: Intimin
ヘテロ分子


分子量 (理論値)分子数
合計 (水以外)22,0147
ポリマ－21,7251
非ポリマー2896
水181
タイプ名称対称操作数
identity operation1_555x,y,z1
2
B: Intimin
ヘテロ分子


分子量 (理論値)分子数
合計 (水以外)21,9435
ポリマ－21,7251
非ポリマー2184
水181
タイプ名称対称操作数
identity operation1_555x,y,z1
3
C: Intimin
ヘテロ分子


分子量 (理論値)分子数
合計 (水以外)21,9204
ポリマ－21,7251
非ポリマー1953
水181
タイプ名称対称操作数
identity operation1_555x,y,z1
4
D: Intimin
ヘテロ分子


分子量 (理論値)分子数
合計 (水以外)22,0354
ポリマ－21,7251
非ポリマー3103
水181
タイプ名称対称操作数
identity operation1_555x,y,z1
5
E: Intimin
ヘテロ分子


分子量 (理論値)分子数
合計 (水以外)21,8052
ポリマ－21,7251
非ポリマー801
水181
タイプ名称対称操作数
identity operation1_555x,y,z1
6
F: Intimin
ヘテロ分子


分子量 (理論値)分子数
合計 (水以外)21,8052
ポリマ－21,7251
非ポリマー801
水181
タイプ名称対称操作数
identity operation1_555x,y,z1
単位格子
Length a, b, c (Å)56.039, 65.473, 79.378
Angle α, β, γ (deg.)77.776, 76.550, 84.762
Int Tables number1
Space group name H-MP1
Space group name HallP1
Symmetry operation#1: x,y,z
非結晶学的対称性 (NCS)NCSドメイン:
IDEns-ID
11
21
31
41
51
61

NCSドメイン領域:

Ens-ID: 1

Dom-IDComponent-IDBeg auth comp-IDBeg label comp-IDEnd auth comp-IDEnd label comp-IDSelection detailsAuth asym-IDLabel asym-IDAuth seq-IDLabel seq-ID
11ILEILELEULEU(chain 'A' and (resid 453 through 456 or resid 458...AA453 - 4565 - 8
12ILEILEGLUGLU(chain 'A' and (resid 453 through 456 or resid 458...AA458 - 46610 - 18
13SERSERGLNGLN(chain 'A' and (resid 453 through 456 or resid 458...AA468 - 47020 - 22
14ILEILELEULEU(chain 'A' and (resid 453 through 456 or resid 458...AA472 - 47424 - 26
15VALVALVALVAL(chain 'A' and (resid 453 through 456 or resid 458...AA47628
16SERSERILEILE(chain 'A' and (resid 453 through 456 or resid 458...AA478 - 48530 - 37
17TRPTRPASPASP(chain 'A' and (resid 453 through 456 or resid 458...AA487 - 48939 - 41
18ALAALAARGARG(chain 'A' and (resid 453 through 456 or resid 458...AA491 - 49343 - 45
19GLNGLNGLNGLN(chain 'A' and (resid 453 through 456 or resid 458...AA495 - 49847 - 50
110GLNGLNGLNGLN(chain 'A' and (resid 453 through 456 or resid 458...AA50052
111SERSERSERSER(chain 'A' and (resid 453 through 456 or resid 458...AA502 - 50454 - 56
112SERSERGLNGLN(chain 'A' and (resid 453 through 456 or resid 458...AA506 - 50858 - 60
113TYRTYRVALVAL(chain 'A' and (resid 453 through 456 or resid 458...AA510 - 51862 - 70
114GLYGLYASPASP(chain 'A' and (resid 453 through 456 or resid 458...AA520 - 53372 - 85
115ASNASNVALVAL(chain 'A' and (resid 453 through 456 or resid 458...AA535 - 54887 - 100
116SERSERSERSER(chain 'A' and (resid 453 through 456 or resid 458...AA550102
117GLYGLYSERSER(chain 'A' and (resid 453 through 456 or resid 458...AA552 - 569104 - 121
118ALAALAGLNGLN(chain 'A' and (resid 453 through 456 or resid 458...AA572 - 591124 - 143
119VALVALVALVAL(chain 'A' and (resid 453 through 456 or resid 458...AA594 - 596146 - 148
120PHEPHEPHEPHE(chain 'A' and (resid 453 through 456 or resid 458...AA598150
121ILEILESERSER(chain 'A' and (resid 453 through 456 or resid 458...AA600 - 608152 - 160
122ALAALAASPASP(chain 'A' and (resid 453 through 456 or resid 458...AA612 - 627164 - 179
123PROPROASNASN(chain 'A' and (resid 453 through 456 or resid 458...AA629 - 646181 - 198
124ALAALAASPASP(chain 'A' and (resid 453 through 456 or resid 458...AA649 - 654201 - 206
225ILEILELEULEU(chain 'B' and (resid 453 through 456 or resid 458...BB453 - 4565 - 8
226ILEILEGLUGLU(chain 'B' and (resid 453 through 456 or resid 458...BB458 - 46610 - 18
227SERSERGLNGLN(chain 'B' and (resid 453 through 456 or resid 458...BB468 - 47020 - 22
228ILEILELEULEU(chain 'B' and (resid 453 through 456 or resid 458...BB472 - 47424 - 26
229VALVALVALVAL(chain 'B' and (resid 453 through 456 or resid 458...BB47628
230SERSERILEILE(chain 'B' and (resid 453 through 456 or resid 458...BB478 - 48530 - 37
231TRPTRPASPASP(chain 'B' and (resid 453 through 456 or resid 458...BB487 - 48939 - 41
232ALAALAARGARG(chain 'B' and (resid 453 through 456 or resid 458...BB491 - 49343 - 45
233GLNGLNGLNGLN(chain 'B' and (resid 453 through 456 or resid 458...BB495 - 49847 - 50
234GLNGLNGLNGLN(chain 'B' and (resid 453 through 456 or resid 458...BB50052
235SERSERSERSER(chain 'B' and (resid 453 through 456 or resid 458...BB502 - 50454 - 56
236SERSERGLNGLN(chain 'B' and (resid 453 through 456 or resid 458...BB506 - 50858 - 60
237TYRTYRVALVAL(chain 'B' and (resid 453 through 456 or resid 458...BB510 - 51862 - 70
238GLYGLYASPASP(chain 'B' and (resid 453 through 456 or resid 458...BB520 - 53372 - 85
239ASNASNVALVAL(chain 'B' and (resid 453 through 456 or resid 458...BB535 - 54887 - 100
240SERSERSERSER(chain 'B' and (resid 453 through 456 or resid 458...BB550102
241GLYGLYSERSER(chain 'B' and (resid 453 through 456 or resid 458...BB552 - 569104 - 121
242ALAALAGLNGLN(chain 'B' and (resid 453 through 456 or resid 458...BB572 - 591124 - 143
243VALVALVALVAL(chain 'B' and (resid 453 through 456 or resid 458...BB594 - 596146 - 148
244PHEPHEPHEPHE(chain 'B' and (resid 453 through 456 or resid 458...BB598150
245ILEILESERSER(chain 'B' and (resid 453 through 456 or resid 458...BB600 - 608152 - 160
246ALAALAASPASP(chain 'B' and (resid 453 through 456 or resid 458...BB612 - 627164 - 179
247PROPROASNASN(chain 'B' and (resid 453 through 456 or resid 458...BB629 - 646181 - 198
248ALAALAASPASP(chain 'B' and (resid 453 through 456 or resid 458...BB649 - 654201 - 206
349ILEILELEULEU(chain 'C' and (resid 453 through 456 or resid 458...CC453 - 4565 - 8
350ILEILEGLUGLU(chain 'C' and (resid 453 through 456 or resid 458...CC458 - 46610 - 18
351SERSERGLNGLN(chain 'C' and (resid 453 through 456 or resid 458...CC468 - 47020 - 22
352ILEILELEULEU(chain 'C' and (resid 453 through 456 or resid 458...CC472 - 47424 - 26
353VALVALVALVAL(chain 'C' and (resid 453 through 456 or resid 458...CC47628
354SERSERILEILE(chain 'C' and (resid 453 through 456 or resid 458...CC478 - 48530 - 37
355TRPTRPASPASP(chain 'C' and (resid 453 through 456 or resid 458...CC487 - 48939 - 41
356ALAALAARGARG(chain 'C' and (resid 453 through 456 or resid 458...CC491 - 49343 - 45
357GLNGLNGLNGLN(chain 'C' and (resid 453 through 456 or resid 458...CC495 - 49847 - 50
358GLNGLNGLNGLN(chain 'C' and (resid 453 through 456 or resid 458...CC50052
359SERSERSERSER(chain 'C' and (resid 453 through 456 or resid 458...CC502 - 50454 - 56
360SERSERGLNGLN(chain 'C' and (resid 453 through 456 or resid 458...CC506 - 50858 - 60
361TYRTYRVALVAL(chain 'C' and (resid 453 through 456 or resid 458...CC510 - 51862 - 70
362GLYGLYASPASP(chain 'C' and (resid 453 through 456 or resid 458...CC520 - 53372 - 85
363ASNASNVALVAL(chain 'C' and (resid 453 through 456 or resid 458...CC535 - 54887 - 100
364SERSERSERSER(chain 'C' and (resid 453 through 456 or resid 458...CC550102
365GLYGLYSERSER(chain 'C' and (resid 453 through 456 or resid 458...CC552 - 569104 - 121
366ALAALAGLNGLN(chain 'C' and (resid 453 through 456 or resid 458...CC572 - 591124 - 143
367VALVALVALVAL(chain 'C' and (resid 453 through 456 or resid 458...CC594 - 596146 - 148
368PHEPHEPHEPHE(chain 'C' and (resid 453 through 456 or resid 458...CC598150
369ILEILESERSER(chain 'C' and (resid 453 through 456 or resid 458...CC600 - 608152 - 160
370ALAALAASPASP(chain 'C' and (resid 453 through 456 or resid 458...CC612 - 627164 - 179
371PROPROASNASN(chain 'C' and (resid 453 through 456 or resid 458...CC629 - 646181 - 198
372ALAALAASPASP(chain 'C' and (resid 453 through 456 or resid 458...CC649 - 654201 - 206
473ILEILELEULEU(chain 'D' and (resid 453 through 456 or resid 458...DD453 - 4565 - 8
474ILEILEGLUGLU(chain 'D' and (resid 453 through 456 or resid 458...DD458 - 46610 - 18
475SERSERGLNGLN(chain 'D' and (resid 453 through 456 or resid 458...DD468 - 47020 - 22
476ILEILELEULEU(chain 'D' and (resid 453 through 456 or resid 458...DD472 - 47424 - 26
477VALVALVALVAL(chain 'D' and (resid 453 through 456 or resid 458...DD47628
478SERSERILEILE(chain 'D' and (resid 453 through 456 or resid 458...DD478 - 48530 - 37
479TRPTRPASPASP(chain 'D' and (resid 453 through 456 or resid 458...DD487 - 48939 - 41
480ALAALAARGARG(chain 'D' and (resid 453 through 456 or resid 458...DD491 - 49343 - 45
481GLNGLNGLNGLN(chain 'D' and (resid 453 through 456 or resid 458...DD495 - 49847 - 50
482GLNGLNGLNGLN(chain 'D' and (resid 453 through 456 or resid 458...DD50052
483SERSERSERSER(chain 'D' and (resid 453 through 456 or resid 458...DD502 - 50454 - 56
484SERSERGLNGLN(chain 'D' and (resid 453 through 456 or resid 458...DD506 - 50858 - 60
485TYRTYRVALVAL(chain 'D' and (resid 453 through 456 or resid 458...DD510 - 51862 - 70
486GLYGLYASPASP(chain 'D' and (resid 453 through 456 or resid 458...DD520 - 53372 - 85
487ASNASNVALVAL(chain 'D' and (resid 453 through 456 or resid 458...DD535 - 54887 - 100
488SERSERSERSER(chain 'D' and (resid 453 through 456 or resid 458...DD550102
489GLYGLYSERSER(chain 'D' and (resid 453 through 456 or resid 458...DD552 - 569104 - 121
490ALAALAGLNGLN(chain 'D' and (resid 453 through 456 or resid 458...DD572 - 591124 - 143
491VALVALVALVAL(chain 'D' and (resid 453 through 456 or resid 458...DD594 - 596146 - 148
492PHEPHEPHEPHE(chain 'D' and (resid 453 through 456 or resid 458...DD598150
493ILEILESERSER(chain 'D' and (resid 453 through 456 or resid 458...DD600 - 608152 - 160
494ALAALAASPASP(chain 'D' and (resid 453 through 456 or resid 458...DD612 - 627164 - 179
495PROPROASNASN(chain 'D' and (resid 453 through 456 or resid 458...DD629 - 646181 - 198
496ALAALAASPASP(chain 'D' and (resid 453 through 456 or resid 458...DD649 - 654201 - 206
597ILEILELEULEU(chain 'E' and (resid 453 through 456 or resid 458...EE453 - 4565 - 8
598ILEILEGLUGLU(chain 'E' and (resid 453 through 456 or resid 458...EE458 - 46610 - 18
599SERSERGLNGLN(chain 'E' and (resid 453 through 456 or resid 458...EE468 - 47020 - 22
5100ILEILELEULEU(chain 'E' and (resid 453 through 456 or resid 458...EE472 - 47424 - 26
5101VALVALVALVAL(chain 'E' and (resid 453 through 456 or resid 458...EE47628
5102SERSERILEILE(chain 'E' and (resid 453 through 456 or resid 458...EE478 - 48530 - 37
5103TRPTRPASPASP(chain 'E' and (resid 453 through 456 or resid 458...EE487 - 48939 - 41
5104ALAALAARGARG(chain 'E' and (resid 453 through 456 or resid 458...EE491 - 49343 - 45
5105GLNGLNGLNGLN(chain 'E' and (resid 453 through 456 or resid 458...EE495 - 49847 - 50
5106GLNGLNGLNGLN(chain 'E' and (resid 453 through 456 or resid 458...EE50052
5107SERSERSERSER(chain 'E' and (resid 453 through 456 or resid 458...EE502 - 50454 - 56
5108SERSERGLNGLN(chain 'E' and (resid 453 through 456 or resid 458...EE506 - 50858 - 60
5109TYRTYRVALVAL(chain 'E' and (resid 453 through 456 or resid 458...EE510 - 51862 - 70
5110GLYGLYASPASP(chain 'E' and (resid 453 through 456 or resid 458...EE520 - 53372 - 85
5111ASNASNVALVAL(chain 'E' and (resid 453 through 456 or resid 458...EE535 - 54887 - 100
5112SERSERSERSER(chain 'E' and (resid 453 through 456 or resid 458...EE550102
5113GLYGLYSERSER(chain 'E' and (resid 453 through 456 or resid 458...EE552 - 569104 - 121
5114ALAALAGLNGLN(chain 'E' and (resid 453 through 456 or resid 458...EE572 - 591124 - 143
5115VALVALVALVAL(chain 'E' and (resid 453 through 456 or resid 458...EE594 - 596146 - 148
5116PHEPHEPHEPHE(chain 'E' and (resid 453 through 456 or resid 458...EE598150
5117ILEILESERSER(chain 'E' and (resid 453 through 456 or resid 458...EE600 - 608152 - 160
5118ALAALAASPASP(chain 'E' and (resid 453 through 456 or resid 458...EE612 - 627164 - 179
5119PROPROASNASN(chain 'E' and (resid 453 through 456 or resid 458...EE629 - 646181 - 198
5120ALAALAASPASP(chain 'E' and (resid 453 through 456 or resid 458...EE649 - 654201 - 206
6121ILEILELEULEU(chain 'F' and (resid 453 through 456 or resid 458...FF453 - 4565 - 8
6122ILEILEGLUGLU(chain 'F' and (resid 453 through 456 or resid 458...FF458 - 46610 - 18
6123SERSERGLNGLN(chain 'F' and (resid 453 through 456 or resid 458...FF468 - 47020 - 22
6124ILEILELEULEU(chain 'F' and (resid 453 through 456 or resid 458...FF472 - 47424 - 26
6125VALVALVALVAL(chain 'F' and (resid 453 through 456 or resid 458...FF47628
6126SERSERILEILE(chain 'F' and (resid 453 through 456 or resid 458...FF478 - 48530 - 37
6127TRPTRPASPASP(chain 'F' and (resid 453 through 456 or resid 458...FF487 - 48939 - 41
6128ALAALAARGARG(chain 'F' and (resid 453 through 456 or resid 458...FF491 - 49343 - 45
6129GLNGLNGLNGLN(chain 'F' and (resid 453 through 456 or resid 458...FF495 - 49847 - 50
6130GLNGLNGLNGLN(chain 'F' and (resid 453 through 456 or resid 458...FF50052
6131SERSERSERSER(chain 'F' and (resid 453 through 456 or resid 458...FF502 - 50454 - 56
6132SERSERGLNGLN(chain 'F' and (resid 453 through 456 or resid 458...FF506 - 50858 - 60
6133TYRTYRVALVAL(chain 'F' and (resid 453 through 456 or resid 458...FF510 - 51862 - 70
6134GLYGLYASPASP(chain 'F' and (resid 453 through 456 or resid 458...FF520 - 53372 - 85
6135ASNASNVALVAL(chain 'F' and (resid 453 through 456 or resid 458...FF535 - 54887 - 100
6136SERSERSERSER(chain 'F' and (resid 453 through 456 or resid 458...FF550102
6137GLYGLYSERSER(chain 'F' and (resid 453 through 456 or resid 458...FF552 - 569104 - 121
6138ALAALAGLNGLN(chain 'F' and (resid 453 through 456 or resid 458...FF572 - 591124 - 143
6139VALVALVALVAL(chain 'F' and (resid 453 through 456 or resid 458...FF594 - 596146 - 148
6140PHEPHEPHEPHE(chain 'F' and (resid 453 through 456 or resid 458...FF598150
6141ILEILESERSER(chain 'F' and (resid 453 through 456 or resid 458...FF600 - 608152 - 160
6142ALAALAASPASP(chain 'F' and (resid 453 through 456 or resid 458...FF612 - 627164 - 179
6143PROPROASNASN(chain 'F' and (resid 453 through 456 or resid 458...FF629 - 646181 - 198
6144ALAALAASPASP(chain 'F' and (resid 453 through 456 or resid 458...FF649 - 654201 - 206

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要素

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タンパク質 , 1種, 6分子 ABCDEF

#1: タンパク質
Intimin / Attaching and effacing protein / Eae protein


分子量: 21725.047 Da / 分子数: 6 / 由来タイプ: 組換発現
由来: (組換発現) Escherichia coli O127:H6 str. E2348/69 (大腸菌)
遺伝子: eae, eaeA, E2348C_3939 / 発現宿主: Escherichia coli (大腸菌) / 参照: UniProt: P19809

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非ポリマー , 5種, 2057分子

#2: 化合物
ChemComp-BR / BROMIDE ION / ブロミド


分子量: 79.904 Da / 分子数: 9 / 由来タイプ: 合成 / 式: Br
#3: 化合物 ChemComp-NA / SODIUM ION / ナトリウムカチオン


分子量: 22.990 Da / 分子数: 2 / 由来タイプ: 天然 / 式: Na
#4: 化合物
ChemComp-CL / CHLORIDE ION / クロリド


分子量: 35.453 Da / 分子数: 6 / 由来タイプ: 合成 / 式: Cl
#5: 化合物 ChemComp-PG4 / TETRAETHYLENE GLYCOL / テトラエチレングリコ-ル


分子量: 194.226 Da / 分子数: 1 / 由来タイプ: 合成 / 式: C8H18O5 / コメント: 沈殿剤*YM
#6: 水 ChemComp-HOH / water


分子量: 18.015 Da / 分子数: 2039 / 由来タイプ: 天然 / 式: H2O

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詳細

研究の焦点であるリガンドがあるかN

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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: 2.15 Å3/Da / 溶媒含有率: 42.77 %
結晶化温度: 291 K / 手法: 蒸気拡散法, ハンギングドロップ法 / pH: 7.5
詳細: D00-D0 50 mg/ml. in 400mM NaCl 10 mM Hepes pH 7.5. Reservoir solution 150 mM KBr. 30% PEG2000mme

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データ収集

回折平均測定温度: 100 K / Serial crystal experiment: N
放射光源由来: シンクロトロン / サイト: PETRA III, EMBL c/o DESY / ビームライン: P14 (MX2) / 波長: 0.9763 Å
検出器タイプ: DECTRIS PILATUS 6M / 検出器: PIXEL / 日付: 2018年3月31日
放射プロトコル: SINGLE WAVELENGTH / 単色(M)・ラウエ(L): M / 散乱光タイプ: x-ray
放射波長波長: 0.9763 Å / 相対比: 1
反射解像度: 1.479→24.83 Å / Num. obs: 175969 / % possible obs: 98.18 % / 冗長度: 4.6 % / Biso Wilson estimate: 10.72 Å2 / CC1/2: 0.979 / Rmerge(I) obs: 0.1293 / Net I/σ(I): 6.4
反射 シェル解像度: 1.479→1.532 Å / Rmerge(I) obs: 0.5734 / Mean I/σ(I) obs: 1.54 / Num. unique obs: 16162 / CC1/2: 0.354 / Rrim(I) all: 0.6962

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解析

ソフトウェア
名称バージョン分類
PHENIX1.16_3549精密化
PHENIX1.16_3549精密化
xia2データ削減
XSCALEデータスケーリング
PHASER位相決定
精密化構造決定の手法: 分子置換
開始モデル: 1f00

1f00


解像度: 1.48→24.83 Å / SU ML: 0.1644 / 交差検証法: FREE R-VALUE / σ(F): 1.97 / 位相誤差: 23.1479
立体化学のターゲット値: GeoStd + Monomer Library + CDL v1.2
Rfactor反射数%反射
Rfree0.2155 8656 4.93 %
Rwork0.1789 167067 -
obs0.1807 175723 98.2 %
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
原子変位パラメータBiso mean: 18.88 Å2
精密化ステップサイクル: LAST / 解像度: 1.48→24.83 Å
タンパク質核酸リガンド溶媒全体
原子数9045 0 30 2039 11114
拘束条件
Refine-IDタイプDev ideal数
X-RAY DIFFRACTIONf_bond_d0.0059443
X-RAY DIFFRACTIONf_angle_d0.70812891
X-RAY DIFFRACTIONf_chiral_restr0.07841560
X-RAY DIFFRACTIONf_plane_restr0.00441713
X-RAY DIFFRACTIONf_dihedral_angle_d15.88773394
LS精密化 シェル
解像度 (Å)Rfactor RfreeNum. reflection RfreeRfactor RworkNum. reflection RworkRefine-ID% reflection obs (%)
1.48-1.50.34082410.33084921X-RAY DIFFRACTION85.8
1.5-1.510.41222650.37515045X-RAY DIFFRACTION89.45
1.51-1.530.29242600.27995411X-RAY DIFFRACTION95.36
1.53-1.550.2853160.2665397X-RAY DIFFRACTION94.68
1.55-1.570.31382630.28065436X-RAY DIFFRACTION97.02
1.57-1.590.27312760.24085596X-RAY DIFFRACTION98.26
1.59-1.620.28482530.22895632X-RAY DIFFRACTION98.87
1.62-1.640.26012880.22235681X-RAY DIFFRACTION99.24
1.64-1.670.2543150.21855590X-RAY DIFFRACTION99.21
1.67-1.690.26752940.20975581X-RAY DIFFRACTION99.22
1.69-1.720.24933090.19855646X-RAY DIFFRACTION99.33
1.72-1.750.23782920.19835641X-RAY DIFFRACTION99.2
1.75-1.790.23612770.19785638X-RAY DIFFRACTION99.11
1.79-1.820.24682930.1975614X-RAY DIFFRACTION98.94
1.82-1.860.20733010.17575642X-RAY DIFFRACTION99.35
1.86-1.910.19482960.1695592X-RAY DIFFRACTION99.59
1.91-1.950.20693040.1685667X-RAY DIFFRACTION99.5
1.95-2.010.21443080.17035611X-RAY DIFFRACTION99.63
2.01-2.070.1992850.16425630X-RAY DIFFRACTION99.6
2.07-2.130.19443060.1645660X-RAY DIFFRACTION99.52
2.13-2.210.19132830.16135610X-RAY DIFFRACTION99.23
2.21-2.30.21823120.16465647X-RAY DIFFRACTION99.67
2.3-2.40.22133090.16295642X-RAY DIFFRACTION99.56
2.4-2.530.20792860.15995649X-RAY DIFFRACTION99.58
2.53-2.690.20913050.16035623X-RAY DIFFRACTION99.75
2.69-2.890.19322870.16065654X-RAY DIFFRACTION99.7
2.89-3.180.1822680.15945679X-RAY DIFFRACTION99.7
3.18-3.640.19622690.15215684X-RAY DIFFRACTION99.7
3.64-4.590.18143050.14195655X-RAY DIFFRACTION99.72
4.59-24.830.17862900.16745593X-RAY DIFFRACTION98.66
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)
10.4454117720.1805557066880.05713629128490.390477423298-0.02616141704160.02005282780550.0545971426705-0.06917578001330.1444674983510.0849957221642-0.03404556335860.107460442023-0.08966755255310.04001781999870.02090203593530.080225445673-0.02998681597250.01051319160490.109485772104-0.02475653077250.0619623038425-11.722894280931.07110545573.47559838808
20.2429796652770.0730591736923-0.01296263905350.0514691586719-0.00253130534170.268944919181-0.03807002863070.0919483601810.164743371837-0.08453632972210.02427124074270.117500947704-0.123546839321-0.1561195088580.07319878309890.09128598316720.000765383008406-0.01885625093740.1434866278160.01421882581980.139124071362-16.81848080728.6116996835-3.13450868361
31.498718576441.026648095680.542678710381.044776548640.4939565708190.65662039804-0.1916286826960.1561289431260.195881613071-0.2376134800620.03662137181940.125483339194-0.195523048880.00754395001727-0.7367542117460.101696757476-0.01126545593450.00333091499010.08818855383760.01204797819640.0432313730687-9.6724636270227.0405817711-7.34743293505
40.8007312548160.09932588260710.03401984356360.122283242616-0.07440727197860.125044551796-0.01366646837280.00769695196264-0.4344736133980.10167853083-0.00436001416283-0.02553202331710.258387164458-0.2734419127630.006068538360290.122628561278-0.03721338700920.01105552370130.114949051719-0.003260032639620.141845565131-22.250172054711.1379790567-0.699479372377
50.2152362294620.0557197764909-0.04791651563010.6137170662150.2201828488930.248188848167-0.001341166953330.0507338907618-0.026354309719-0.00816653761691-0.05552462637630.0784084400254-0.0238275460426-0.0223043746599-0.8824176041650.0632653298795-0.02334707082630.004224280679140.0806331191435-0.00467882338839-0.00443001287276-6.7214746308926.43206169870.177679405219
60.962139076109-0.05340836224810.006003124517620.552362890199-0.3578150510070.6993587423220.000156866648793-0.0337488922017-0.299144349695-0.1931564159110.0715600145060.1396036103160.1872574831950.07746087544830.8630549082330.116157557994-0.00284136438008-0.002724719278050.09042068141060.04814526264670.112499703104-37.43003053256.7317144277611.6722326117
70.319569466978-0.3586486156940.03747269551450.4130550502210.02978444488160.4019061914020.0385445415714-0.114630641984-0.270018603431-0.01583794553990.04401916088420.2724735934190.171961648266-0.02895791373730.2524033597440.12616618354-0.0223364664341-0.02727744384450.1202069250050.1080993851420.181501408642-39.45468280152.9708450467616.534728642
80.306642772462-0.0793107087828-0.2036704061810.1689022474490.07615164373490.158988026840.00465399818640.0620099838453-0.187923545789-0.2670897486740.09028386508390.26903140140.264515979285-0.1081885814790.3149661552030.265994984308-0.0324822545034-0.08545636517110.09294125613880.03038951030060.184782079516-42.31532242713.608383455186.92878647751
90.5590833224970.1745839292790.06848949310550.384496577458-0.1236662374940.101128909320.0836011703901-0.09663516968460.1146300235190.0726676989442-0.03378493594940.136227368647-0.04713896175440.06019946775010.04980516739190.0750163147759-0.03266405533890.01967405239030.109019466081-0.01968429006110.0872123478771-3.1023967672737.944434720928.9707125643
100.0806331613372-0.0947607209927-0.0144597989260.1096799181650.02023903940210.003884837701820.0343756373041-0.1329026851640.113584177916-0.0295604276876-0.07014856713590.123177252385-0.0756784215215-0.07529981832790.01831153614410.0831999104858-0.00881994315180.01059696324350.0981092886156-0.006735875714780.129746436645-9.8619246399134.218330722621.1622480333
110.7664531893020.0278909938502-0.1325758483320.239991870644-0.08501827361460.089240952268-0.03702671001490.0447968836954-0.21447381556-0.0852749782175-0.004503700236180.0451071147348-0.030473658689-0.00498215554474-0.1878992456440.105380421168-0.0207956905747-0.01603881366480.06199075939160.001793368187030.0894485763129-5.41523370529.212666330918.2137265142
120.429571407866-0.194436877924-0.07205588824970.08718782855850.03016578045710.0255015358946-0.00318493347545-0.0457166493949-0.1418539926950.00957334599631-0.01321310969890.0236415521843-0.03147897481050.041991376939-0.1107738350470.0388514063014-0.0254031332355-0.005782356856260.05945956262150.005183447289460.0404965685052-0.98419880325730.868163208324.7458117361
130.524566063632-0.0426774823131-0.4030616928870.459129572426-0.3015384546280.557744091539-0.1418068571-0.4276799689-0.188541342584-0.02256179844660.00454422297476-0.1764694202010.1029332936370.213126419906-0.7447193623830.08018131471730.0279765574610.04062896629080.1287450682250.0668511919880.104555059125-32.08849809111.02464754935.3766267845
140.8327881289640.31820896561-0.01935049942980.3612496868090.122275823230.32982772733-0.124041529376-0.263015884065-0.0567087897218-0.12361576404-0.106354648087-0.1112596646920.2783408426570.0996770104841-2.039962242450.1775781665810.01986246912450.04159950877660.1292394990380.06157517798450.0863909415995-35.9246778697.6370489446334.7211801315
150.02678256025980.02292863801250.007043746429020.0182820480168-0.00372377719820.01489516674460.153293789154-0.1209005460140.1449132010320.120182926546-0.1395033941610.14373788449-0.06098342983770.007437370016280.004731615317730.17540414133-0.03888085121340.03717916196790.146785325089-0.01181706752530.16806673029-0.5962887515941.116528353252.3295005445
160.05043066737940.0325071767667-0.02024342785440.0216443853659-0.01850528223490.0199232506320.00729405016309-0.0505705135350.199976935684-0.107500711586-0.08560383668060.190986751207-0.0933908121848-0.08075870502450.0005901074197990.121424595586-0.007162519909890.01212290681630.1078640727830.008306675090720.213466654804-4.6314781070839.082516801245.3136836074
170.210226153259-0.0549823781063-0.03800986014210.01625839041850.02538563501940.159781708316-0.1100487757440.0707872001368-0.0910279333083-0.1228518335430.00715837617510.07832889467320.0003876048663810.153333162544-0.70762317620.0882625251591-0.0239297864658-0.009469383794560.05610457552620.006761766810060.09310512286614.6744921335235.386554556943.1911323836
180.0109187018177-0.014826921791-0.003881465157230.01808860015820.003623761111240.0008633138291680.04826446449690.07157448510450.232480505154-0.329526313445-0.08273842287230.0282358403089-0.5037779277770.1555197886720.03716047038410.267071777031-0.0402496402982-0.004369173158360.1091369939050.01497959464920.192154254993-1.0128109310441.893152687639.1692205346
190.673858929327-0.3456288238850.08393645340520.8593574380420.2617243351650.151609236159-0.02786430449540.0240345061968-0.2472608953120.0447570845139-0.02162301146630.172166624697-0.002752538297790.0176003138937-0.1256935696270.0850861712522-0.01835301509430.007536389300760.08045950350560.008531398537350.051057090817-1.9689751749628.428032415448.5079039972
200.4741183266340.05284962267930.2012757312720.6483802982110.1675493735640.1154068974980.0935712210295-0.0206162829995-0.0171866074850.145939256344-0.0948004269890.1040016610310.03384687037990.00647932662221-0.07200870110870.0889349004011-0.03245839639510.0005276781838830.1097693037870.003376223638610.05783918772914.5512247624937.712268909450.0238485753
210.503856777965-0.207484849890.02818637250470.247511597999-0.1065068311730.3844800457350.0308971796961-0.1501214943120.04454589484520.1342153671630.01226456102690.126351288101-0.09281423001490.02002188354010.008244048760160.1476565545070.02310979195060.04986418404760.150684133791-0.0004204258596090.1387433625-26.821081323216.018958280559.3388834123
220.488833097154-0.2421035633090.2284723566820.239514943154-0.3488288933620.574240140541-0.0643424361708-0.228296501973-0.1774284271280.1427590487270.06964522047510.0854155637125-0.1453218262050.1233674093020.003830366778070.1206785141770.01993786516930.0418199091530.1922477752070.01137440527340.109094946718-29.191519981312.516349814564.7596814335
230.8484003350840.2842563206380.3311942878470.09836000651850.1286655801910.461363619468-0.07155204822840.07792786979140.239283731512-0.04115232009190.02337410303790.203423332981-0.134272128043-0.11582226643-0.08295812013570.1298909168490.03158650051770.02421540367630.1372141008960.01236517354050.119635775064-31.690846171912.518292767154.8046526317
240.698998376254-0.181372825537-0.3625434275490.1048117147440.1573127975370.7206323485230.1048497535920.07432004160820.1753835773270.0228370988673-0.00516071748407-0.05054467476390.0906568315497-0.01767163972591.646907576250.0759801262413-0.01129266116650.01074797041240.1301291870370.04847137418930.0378587781948-28.093642729245.710101675853.0716685105
250.760373113434-0.026562924321-0.130845039360.565990045237-0.04074158455150.348479822334-0.0248510399832-0.002907811105560.06974739530870.01114879639050.006209449443560.0289595624785-0.0423461422294-0.0473218638973-0.09807681082420.06239685377430.00337663156423-0.003255272563350.0402282011182-0.02199217665030.07389722502531.9467143992368.311130148543.4491923298
260.7342521683070.484027901141-0.2381690774640.5615237448250.1183686433540.425327563160.14694024436-0.200828104039-0.3806346870660.03795480458710.0566315597764-0.1500387224040.0951717795679-0.05608400869052.057272317140.0858202968909-0.0149764589298-0.01560813728130.1885889355460.08872710747870.205122741426-28.592062817638.125454307628.9993355427
270.5378821637890.267338061842-0.002645662291080.6994129645020.08447252040120.583848543722-0.00182888098802-0.08308560325290.0916391684524-0.152316919334-0.0288633472139-0.0218902168319-0.00623864855904-0.0513169557251-0.3180366957250.0573727742018-0.0121873855385-0.008298034111580.0685708833510.0390775497010.0975741442733-38.252566208640.697856345925.5709959875
280.9514598950020.1651807470360.9382798608080.1192733625380.1557408760210.9288258654030.1427492850.00186832496618-0.353790800423-0.1274856786610.0608590412870.1348360789380.494212879839-0.07618906688520.2699213425580.215108834288-0.006120446785680.01608918603930.0944587797231-0.0183966573230.207532954087-33.992059954732.86681045322.2321457017
290.547672305277-0.250776018555-0.1473553158020.5610874347050.3220174631030.2149833427640.0463180899066-0.07454335138080.1539564902-0.06574375651390.065753997102-0.0528578338076-0.0211861406085-0.1404343459820.8501156460580.0477929529873-0.0266199746229-0.02092645518970.1637475897080.02611647122920.0492704977742-32.760015299745.34018878728.6300237939
300.2206860400690.2104967581990.1480610357660.2127463389560.1189440087660.133039004881-0.178102569046-0.1265067063950.387928956544-0.111063118185-0.05153029093410.105166453525-0.110637937054-0.108468878107-2.351585321350.0975460050817-0.0570943613821-0.08965013797260.0129201772825-0.03943655879060.37970716738-4.5144716110462.195280829420.1599705372
310.4493561317250.263445649590.2212643907770.536171401337-0.2778724933070.657916333827-0.188522322366-0.08442930879110.348934222373-0.233171427949-0.1091524647570.243552435367-0.190030391676-0.0219695103623-3.003061350810.204220943296-0.0148425769804-0.1187316673840.0266974941198-0.03422517081880.342276371477-1.5365493938264.0601977217.4371742439
320.21386858409-0.04203324152170.05881860842360.2805795128710.1130228493410.07213158932430.0244530861156-0.0387496563029-0.07022567694070.0463548442277-0.105458473682-0.133066947332-0.03163406608590.08026303199248.39254375638E-50.098479417061-0.01035045394650.01050107161570.1066128462150.03341841613170.122366648175-35.802968277133.110932033.55426752652
330.625366818328-0.425406971910.1035123941710.725402315182-0.1808589197560.6853614787350.04434067366510.06708905562320.246297418125-0.0955942577323-0.133998554433-0.2130716635850.02227494052130.0601890096183-0.8624103453380.0818333982543-0.01001142593680.03433356271260.03839764615860.02538718904920.0110293767294-41.504561019237.0244848923-0.864809836822
340.6011199277770.149368553474-0.2112475851450.646230999431-0.4127457960670.2907032620930.0102082393302-0.0632513820670.0657967889523-0.00689408564559-0.12855898935-0.0746642602565-0.09225110001680.108940173207-0.8601704788380.107966958862-0.03848320141630.02085333777260.110491356052-0.00804557347460.064138544453-41.671383451836.24687422736.64598792988
350.204765951817-0.115757040189-0.1331085850090.461665958840.2904664406590.1914065050460.00729661386258-0.0624916605598-0.09717518817080.02309261089690.0507070344552-0.2345999202670.04759544011370.01419934453390.0001080510900050.155155770194-0.00690650963624-0.03023440062140.166031791328-0.002324891099390.198347256865-11.799213773757.3791362487-7.12420372924
361.35964244232-1.01318758406-0.3827800415461.049934537190.09103543735140.2514197716270.182972175849-0.1121281287180.1783174396080.00222973602851-0.00996372458068-0.3201449325590.08149519393210.1669657057880.4473869597010.209818874561-0.0530037735926-0.04893275327590.167894492241-0.04838678837330.165490072564-7.8630318229262.3135004327-5.06346498723
370.486632206527-0.0831674746923-0.1892430649210.02536318573730.05683327220750.122529380633-0.04487647243070.148168233827-0.15922392624-0.2811502401990.0281659057621-0.003488185802410.11735578352-0.0443394444939-0.01701203486840.2765564370850.00154463294396-0.01819611091650.194389181646-0.02148033764110.147375338715-10.105075767859.0715044995-14.2447612405
精密化 TLSグループ
IDRefine-IDRefine TLS-IDSelection details
1X-RAY DIFFRACTION1chain 'A' and (resid 452 through 465 )
2X-RAY DIFFRACTION2chain 'A' and (resid 466 through 478 )
3X-RAY DIFFRACTION3chain 'A' and (resid 479 through 513 )
4X-RAY DIFFRACTION4chain 'A' and (resid 514 through 523 )
5X-RAY DIFFRACTION5chain 'A' and (resid 524 through 549 )
6X-RAY DIFFRACTION6chain 'A' and (resid 550 through 610 )
7X-RAY DIFFRACTION7chain 'A' and (resid 611 through 629 )
8X-RAY DIFFRACTION8chain 'A' and (resid 630 through 655 )
9X-RAY DIFFRACTION9chain 'B' and (resid 450 through 465 )
10X-RAY DIFFRACTION10chain 'B' and (resid 466 through 478 )
11X-RAY DIFFRACTION11chain 'B' and (resid 479 through 523 )
12X-RAY DIFFRACTION12chain 'B' and (resid 524 through 549 )
13X-RAY DIFFRACTION13chain 'B' and (resid 550 through 610 )
14X-RAY DIFFRACTION14chain 'B' and (resid 611 through 655 )
15X-RAY DIFFRACTION15chain 'C' and (resid 452 through 465 )
16X-RAY DIFFRACTION16chain 'C' and (resid 466 through 478 )
17X-RAY DIFFRACTION17chain 'C' and (resid 479 through 501 )
18X-RAY DIFFRACTION18chain 'C' and (resid 502 through 513 )
19X-RAY DIFFRACTION19chain 'C' and (resid 514 through 533 )
20X-RAY DIFFRACTION20chain 'C' and (resid 534 through 549 )
21X-RAY DIFFRACTION21chain 'C' and (resid 550 through 610 )
22X-RAY DIFFRACTION22chain 'C' and (resid 611 through 629 )
23X-RAY DIFFRACTION23chain 'C' and (resid 630 through 655 )
24X-RAY DIFFRACTION24chain 'D' and (resid 450 through 549 )
25X-RAY DIFFRACTION25chain 'D' and (resid 550 through 655 )
26X-RAY DIFFRACTION26chain 'E' and (resid 453 through 478 )
27X-RAY DIFFRACTION27chain 'E' and (resid 479 through 501 )
28X-RAY DIFFRACTION28chain 'E' and (resid 502 through 513 )
29X-RAY DIFFRACTION29chain 'E' and (resid 514 through 549 )
30X-RAY DIFFRACTION30chain 'E' and (resid 550 through 610 )
31X-RAY DIFFRACTION31chain 'E' and (resid 611 through 655 )
32X-RAY DIFFRACTION32chain 'F' and (resid 451 through 478 )
33X-RAY DIFFRACTION33chain 'F' and (resid 479 through 533 )
34X-RAY DIFFRACTION34chain 'F' and (resid 534 through 549 )
35X-RAY DIFFRACTION35chain 'F' and (resid 550 through 610 )
36X-RAY DIFFRACTION36chain 'F' and (resid 611 through 629 )
37X-RAY DIFFRACTION37chain 'F' and (resid 630 through 655 )

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万見について

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お知らせ

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

EMDBエントリの付随情報ファイルのフォーマットが新しくなりました

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

関連情報:EMDBヘッダ

外部リンク:wwPDBはEMDBデータモデルのバージョン3へ移行します

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2020年8月12日: 新型コロナ情報

新型コロナ情報

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

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

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

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2020年3月5日: 新型コロナウイルスの構造データ

新型コロナウイルスの構造データ

関連情報:万見生物種 / 2020年8月12日: 新型コロナ情報

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

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2019年1月31日: EMDBのIDの桁数の変更

EMDBのIDの桁数の変更

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

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

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

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2017年7月12日: PDB大規模アップデート

PDB大規模アップデート

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

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

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万見 (Yorodumi)

幾万の構造データを、幾万の視点から

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

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

他の情報も見る