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- PDB-3wvl: Crystal structure of the football-shaped GroEL-GroES complex (Gro... -

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基本情報

登録情報
データベース: PDB / ID: 3wvl
タイトルCrystal structure of the football-shaped GroEL-GroES complex (GroEL: GroES2:ATP14) from Escherichia coli
要素
  • 10 kDa chaperonin
  • 60 kDa chaperonin
キーワードHYDROLASE / Protein folding / ATP Hydrolysis / Denaturing proteins
機能・相同性
機能・相同性情報


GroEL-GroES complex / chaperonin ATPase / mitochondrial unfolded protein response / protein import into mitochondrial intermembrane space / virion assembly / chaperone cofactor-dependent protein refolding / positive regulation of interferon-alpha production / protein folding chaperone / isomerase activity / ATP-dependent protein folding chaperone ...GroEL-GroES complex / chaperonin ATPase / mitochondrial unfolded protein response / protein import into mitochondrial intermembrane space / virion assembly / chaperone cofactor-dependent protein refolding / positive regulation of interferon-alpha production / protein folding chaperone / isomerase activity / ATP-dependent protein folding chaperone / response to radiation / positive regulation of interleukin-6 production / positive regulation of type II interferon production / unfolded protein binding / positive regulation of T cell activation / protein folding / protein-folding chaperone binding / response to heat / protein refolding / magnesium ion binding / ATP hydrolysis activity / ATP binding / identical protein binding / membrane / metal ion binding / cytosol
類似検索 - 分子機能
10 Kd Chaperonin, Protein Cpn10; Chain O / GroES chaperonin / GROEL; domain 2 / TCP-1-like chaperonin intermediate domain / GROEL; domain 1 / GroEL-like equatorial domain / GroEL / GroEL / Chaperonin GroES, conserved site / Chaperonins cpn10 signature. ...10 Kd Chaperonin, Protein Cpn10; Chain O / GroES chaperonin / GROEL; domain 2 / TCP-1-like chaperonin intermediate domain / GROEL; domain 1 / GroEL-like equatorial domain / GroEL / GroEL / Chaperonin GroES, conserved site / Chaperonins cpn10 signature. / Chaperonin 10 Kd subunit / GroES chaperonin family / GroES chaperonin superfamily / Chaperonin 10 Kd subunit / Chaperonin Cpn60, conserved site / Chaperonins cpn60 signature. / Chaperonin Cpn60/GroEL / GroEL-like equatorial domain superfamily / TCP-1-like chaperonin intermediate domain superfamily / GroEL-like apical domain superfamily / TCP-1/cpn60 chaperonin family / Chaperonin Cpn60/GroEL/TCP-1 family / GroES-like superfamily / 3-Layer(bba) Sandwich / Roll / 2-Layer Sandwich / Orthogonal Bundle / Mainly Beta / Mainly Alpha / Alpha Beta
類似検索 - ドメイン・相同性
ADENOSINE-5'-TRIPHOSPHATE / : / Chaperonin GroEL / Co-chaperonin GroES
類似検索 - 構成要素
生物種Escherichia coli (大腸菌)
手法X線回折 / シンクロトロン / 分子置換 / 解像度: 3.788 Å
データ登録者Koike-Takeshita, A. / Arakawa, T. / Taguchi, H. / Shimamura, T.
引用ジャーナル: J.Mol.Biol. / 年: 2014
タイトル: Crystal structure of a symmetric football-shaped GroEL:GroES2-ATP14 complex determined at 3.8 angstrom reveals rearrangement between two GroEL rings.
著者: Koike-Takeshita, A. / Arakawa, T. / Taguchi, H. / Shimamura, T.
履歴
登録2014年5月23日登録サイト: PDBJ / 処理サイト: PDBJ
改定 1.02014年9月17日Provider: repository / タイプ: Initial release
改定 1.12022年8月24日Group: Database references / Derived calculations
カテゴリ: citation / database_2 ...citation / database_2 / pdbx_struct_conn_angle / struct_conn / struct_ref_seq_dif / struct_site
Item: _citation.journal_volume / _citation.page_first ..._citation.journal_volume / _citation.page_first / _citation.page_last / _citation.title / _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.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_ref_seq_dif.details / _struct_site.pdbx_auth_asym_id / _struct_site.pdbx_auth_comp_id / _struct_site.pdbx_auth_seq_id
改定 1.22023年11月8日Group: Data collection / Refinement description
カテゴリ: chem_comp_atom / chem_comp_bond / pdbx_initial_refinement_model

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構造の表示

構造ビューア分子:
MolmilJmol/JSmol

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集合体

登録構造単位
A: 60 kDa chaperonin
B: 60 kDa chaperonin
C: 60 kDa chaperonin
D: 60 kDa chaperonin
E: 60 kDa chaperonin
F: 60 kDa chaperonin
G: 60 kDa chaperonin
H: 60 kDa chaperonin
I: 60 kDa chaperonin
J: 60 kDa chaperonin
K: 60 kDa chaperonin
L: 60 kDa chaperonin
M: 60 kDa chaperonin
N: 60 kDa chaperonin
O: 10 kDa chaperonin
P: 10 kDa chaperonin
Q: 10 kDa chaperonin
R: 10 kDa chaperonin
S: 10 kDa chaperonin
T: 10 kDa chaperonin
U: 10 kDa chaperonin
V: 10 kDa chaperonin
W: 10 kDa chaperonin
X: 10 kDa chaperonin
Y: 10 kDa chaperonin
Z: 10 kDa chaperonin
a: 10 kDa chaperonin
b: 10 kDa chaperonin
ヘテロ分子


分子量 (理論値)分子数
合計 (水以外)955,85370
ポリマ－947,86528
非ポリマー7,98842
水00
1
A: 60 kDa chaperonin
B: 60 kDa chaperonin
C: 60 kDa chaperonin
D: 60 kDa chaperonin
E: 60 kDa chaperonin
F: 60 kDa chaperonin
G: 60 kDa chaperonin
O: 10 kDa chaperonin
P: 10 kDa chaperonin
Q: 10 kDa chaperonin
R: 10 kDa chaperonin
S: 10 kDa chaperonin
T: 10 kDa chaperonin
U: 10 kDa chaperonin
ヘテロ分子


分子量 (理論値)分子数
合計 (水以外)477,92635
ポリマ－473,93214
非ポリマー3,99421
水0
タイプ名称対称操作数
identity operation1_555x,y,z1
Buried area43320 Å2
ΔGint-208 kcal/mol
Surface area183090 Å2
手法PISA
2
H: 60 kDa chaperonin
I: 60 kDa chaperonin
J: 60 kDa chaperonin
K: 60 kDa chaperonin
L: 60 kDa chaperonin
M: 60 kDa chaperonin
N: 60 kDa chaperonin
V: 10 kDa chaperonin
W: 10 kDa chaperonin
X: 10 kDa chaperonin
Y: 10 kDa chaperonin
Z: 10 kDa chaperonin
a: 10 kDa chaperonin
b: 10 kDa chaperonin
ヘテロ分子


分子量 (理論値)分子数
合計 (水以外)477,92635
ポリマ－473,93214
非ポリマー3,99421
水0
タイプ名称対称操作数
identity operation1_555x,y,z1
Buried area43580 Å2
ΔGint-208 kcal/mol
Surface area183380 Å2
手法PISA
単位格子
Length a, b, c (Å)160.280, 217.117, 198.481
Angle α, β, γ (deg.)90.00, 98.02, 90.00
Int Tables number4
Space group name H-MP1211
非結晶学的対称性 (NCS)NCSドメイン:
IDEns-ID詳細
11CHAIN A AND (RESID 2:136 OR RESID 411:602)
21CHAIN B AND (RESID 2:136 OR RESID 411:602)
31CHAIN C AND (RESID 2:136 OR RESID 411:602)
41CHAIN D AND (RESID 2:136 OR RESID 411:602)
51CHAIN E AND (RESID 2:136 OR RESID 411:602)
61CHAIN F AND (RESID 2:136 OR RESID 411:602)
71CHAIN G AND (RESID 2:136 OR RESID 411:602)
81CHAIN H AND (RESID 2:136 OR RESID 411:602)
91CHAIN I AND (RESID 2:136 OR RESID 411:602)
101CHAIN J AND (RESID 2:136 OR RESID 411:602)
111CHAIN K AND (RESID 2:136 OR RESID 411:602)
121CHAIN L AND (RESID 2:136 OR RESID 411:602)
131CHAIN M AND (RESID 2:136 OR RESID 411:602)
141CHAIN N AND (RESID 2:136 OR RESID 411:602)
12CHAIN A AND (RESID 137:192 OR RESID 375:410)
22CHAIN B AND (RESID 137:192 OR RESID 375:410)
32CHAIN C AND (RESID 137:192 OR RESID 375:410)
42CHAIN D AND (RESID 137:192 OR RESID 375:410)
52CHAIN E AND (RESID 137:192 OR RESID 375:410)
62CHAIN F AND (RESID 137:192 OR RESID 375:410)
72CHAIN G AND (RESID 137:192 OR RESID 375:410)
82CHAIN H AND (RESID 137:192 OR RESID 375:410)
92CHAIN I AND (RESID 137:192 OR RESID 375:410)
102CHAIN J AND (RESID 137:192 OR RESID 375:410)
112CHAIN K AND (RESID 137:192 OR RESID 375:410)
122CHAIN L AND (RESID 137:192 OR RESID 375:410)
132CHAIN M AND (RESID 137:192 OR RESID 375:410)
142CHAIN N AND (RESID 137:192 OR RESID 375:410)
13CHAIN A RESID 193:374
23CHAIN B RESID 193:374
33CHAIN C RESID 193:374
43CHAIN D RESID 193:374
53CHAIN E RESID 193:374
63CHAIN F RESID 193:374
73CHAIN G RESID 193:374
83CHAIN H RESID 193:374
93CHAIN I RESID 193:374
103CHAIN J RESID 193:374
113CHAIN K RESID 193:374
123CHAIN L RESID 193:374
133CHAIN M RESID 193:374
143CHAIN N RESID 193:374
14CHAIN O RESID 1:97
24CHAIN P RESID 1:97
34CHAIN Q RESID 1:97
44CHAIN R RESID 1:97
54CHAIN S RESID 1:97
64CHAIN T RESID 1:97
74CHAIN U RESID 1:97
84CHAIN V RESID 1:97
94CHAIN W RESID 1:97
104CHAIN X RESID 1:97
114CHAIN Y RESID 1:97
124CHAIN Z RESID 1:97
134CHAIN a RESID 1:97
144CHAIN b RESID 1:97

NCSドメイン領域:
Dom-IDComponent-IDEns-IDSelection detailsAuth asym-IDAuth seq-ID
111CHAIN A AND (RESID 2:136 OR RESID 411:602)A2 - 136
121CHAIN A AND (RESID 2:136 OR RESID 411:602)A411 - 602
211CHAIN B AND (RESID 2:136 OR RESID 411:602)B2 - 136
221CHAIN B AND (RESID 2:136 OR RESID 411:602)B411 - 602
311CHAIN C AND (RESID 2:136 OR RESID 411:602)C2 - 136
321CHAIN C AND (RESID 2:136 OR RESID 411:602)C411 - 602
411CHAIN D AND (RESID 2:136 OR RESID 411:602)D2 - 136
421CHAIN D AND (RESID 2:136 OR RESID 411:602)D411 - 602
511CHAIN E AND (RESID 2:136 OR RESID 411:602)E2 - 136
521CHAIN E AND (RESID 2:136 OR RESID 411:602)E411 - 602
611CHAIN F AND (RESID 2:136 OR RESID 411:602)F2 - 136
621CHAIN F AND (RESID 2:136 OR RESID 411:602)F411 - 602
711CHAIN G AND (RESID 2:136 OR RESID 411:602)G2 - 136
721CHAIN G AND (RESID 2:136 OR RESID 411:602)G411 - 602
811CHAIN H AND (RESID 2:136 OR RESID 411:602)H2 - 136
821CHAIN H AND (RESID 2:136 OR RESID 411:602)H411 - 602
911CHAIN I AND (RESID 2:136 OR RESID 411:602)I2 - 136
921CHAIN I AND (RESID 2:136 OR RESID 411:602)I411 - 602
1011CHAIN J AND (RESID 2:136 OR RESID 411:602)J2 - 136
1021CHAIN J AND (RESID 2:136 OR RESID 411:602)J411 - 602
1111CHAIN K AND (RESID 2:136 OR RESID 411:602)K2 - 136
1121CHAIN K AND (RESID 2:136 OR RESID 411:602)K411 - 602
1211CHAIN L AND (RESID 2:136 OR RESID 411:602)L2 - 136
1221CHAIN L AND (RESID 2:136 OR RESID 411:602)L411 - 602
1311CHAIN M AND (RESID 2:136 OR RESID 411:602)M2 - 136
1321CHAIN M AND (RESID 2:136 OR RESID 411:602)M411 - 602
1411CHAIN N AND (RESID 2:136 OR RESID 411:602)N2 - 136
1421CHAIN N AND (RESID 2:136 OR RESID 411:602)N411 - 602
112CHAIN A AND (RESID 137:192 OR RESID 375:410)A137 - 192
122CHAIN A AND (RESID 137:192 OR RESID 375:410)A375 - 410
212CHAIN B AND (RESID 137:192 OR RESID 375:410)B137 - 192
222CHAIN B AND (RESID 137:192 OR RESID 375:410)B375 - 410
312CHAIN C AND (RESID 137:192 OR RESID 375:410)C137 - 192
322CHAIN C AND (RESID 137:192 OR RESID 375:410)C375 - 410
412CHAIN D AND (RESID 137:192 OR RESID 375:410)D137 - 192
422CHAIN D AND (RESID 137:192 OR RESID 375:410)D375 - 410
512CHAIN E AND (RESID 137:192 OR RESID 375:410)E137 - 192
522CHAIN E AND (RESID 137:192 OR RESID 375:410)E375 - 410
612CHAIN F AND (RESID 137:192 OR RESID 375:410)F137 - 192
622CHAIN F AND (RESID 137:192 OR RESID 375:410)F375 - 410
712CHAIN G AND (RESID 137:192 OR RESID 375:410)G137 - 192
722CHAIN G AND (RESID 137:192 OR RESID 375:410)G375 - 410
812CHAIN H AND (RESID 137:192 OR RESID 375:410)H137 - 192
822CHAIN H AND (RESID 137:192 OR RESID 375:410)H375 - 410
912CHAIN I AND (RESID 137:192 OR RESID 375:410)I137 - 192
922CHAIN I AND (RESID 137:192 OR RESID 375:410)I375 - 410
1012CHAIN J AND (RESID 137:192 OR RESID 375:410)J137 - 192
1022CHAIN J AND (RESID 137:192 OR RESID 375:410)J375 - 410
1112CHAIN K AND (RESID 137:192 OR RESID 375:410)K137 - 192
1122CHAIN K AND (RESID 137:192 OR RESID 375:410)K375 - 410
1212CHAIN L AND (RESID 137:192 OR RESID 375:410)L137 - 192
1222CHAIN L AND (RESID 137:192 OR RESID 375:410)L375 - 410
1312CHAIN M AND (RESID 137:192 OR RESID 375:410)M137 - 192
1322CHAIN M AND (RESID 137:192 OR RESID 375:410)M375 - 410
1412CHAIN N AND (RESID 137:192 OR RESID 375:410)N137 - 192
1422CHAIN N AND (RESID 137:192 OR RESID 375:410)N375 - 410
113CHAIN A AND RESID 193:374A0
213CHAIN B AND RESID 193:374B0
313CHAIN C AND RESID 193:374C0
413CHAIN D AND RESID 193:374D0
513CHAIN E AND RESID 193:374E0
613CHAIN F AND RESID 193:374F0
713CHAIN G AND RESID 193:374G0
813CHAIN H AND RESID 193:374H0
913CHAIN I AND RESID 193:374I0
1013CHAIN J AND RESID 193:374J0
1113CHAIN K AND RESID 193:374K0
1213CHAIN L AND RESID 193:374L0
1313CHAIN M AND RESID 193:374M0
1413CHAIN N AND RESID 193:374N0
114CHAIN O AND RESID 1:97O0
214CHAIN P AND RESID 1:97P0
314CHAIN Q AND RESID 1:97Q0
414CHAIN R AND RESID 1:97R0
514CHAIN S AND RESID 1:97S0
614CHAIN T AND RESID 1:97T0
714CHAIN U AND RESID 1:97U0
814CHAIN V AND RESID 1:97V0
914CHAIN W AND RESID 1:97W0
1014CHAIN X AND RESID 1:97X0
1114CHAIN Y AND RESID 1:97Y0
1214CHAIN Z AND RESID 1:97Z0
1314CHAIN a AND RESID 1:97a0
1414CHAIN b AND RESID 1:97b0

NCSアンサンブル:
ID
1
2
3
4

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要素

#1: タンパク質
60 kDa chaperonin / GroEL protein / Protein Cpn60


分子量: 57303.688 Da / 分子数: 14 / 変異: D52A, D398A / 由来タイプ: 組換発現 / 由来: (組換発現) Escherichia coli (大腸菌) / 株: K12 / 遺伝子: groL, groEL, mopA, b4143, JW4103 / 発現宿主: Escherichia coli (大腸菌) / 参照: UniProt: P0A6F5, EC: 3.6.4.9
#2: タンパク質
10 kDa chaperonin / GroES protein / Protein Cpn10


分子量: 10400.938 Da / 分子数: 14 / 由来タイプ: 組換発現 / 由来: (組換発現) Escherichia coli (大腸菌) / 株: K12 / 遺伝子: groS, groES, mopB, b4142, JW4102 / 発現宿主: Escherichia coli (大腸菌) / 参照: UniProt: P0A6F9, EC: 3.6.4.9
#3: 化合物
ChemComp-ATP / ADENOSINE-5'-TRIPHOSPHATE / ATP


分子量: 507.181 Da / 分子数: 14 / 由来タイプ: 合成 / 式: C10H16N5O13P3 / コメント: ATP, エネルギー貯蔵分子*YM
#4: 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: 14 / 由来タイプ: 合成 / 式: Mg
#5: 化合物
ChemComp-K / POTASSIUM ION / カリウムカチオン


分子量: 39.098 Da / 分子数: 14 / 由来タイプ: 合成 / 式: K

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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: 3.61 Å3/Da / 溶媒含有率: 65.89 %
結晶化温度: 293 K / 手法: 蒸気拡散法, ハンギングドロップ法 / pH: 7.5
詳細: 35% PEG 550 MME, 0.1M HEPES, 1mM ATP, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K

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データ収集

回折平均測定温度: 95 K
放射光源由来: シンクロトロン / サイト: SPring-8 / ビームライン: BL32XU / 波長: 1 Å
検出器タイプ: RAYONIX MX225HE / 検出器: CCD / 日付: 2012年6月28日
放射モノクロメーター: liquid-nitrogen-cooled double crystal monochromator
プロトコル: SINGLE WAVELENGTH / 単色(M)・ラウエ(L): M / 散乱光タイプ: x-ray
放射波長波長: 1 Å / 相対比: 1
反射解像度: 3.7→50 Å / Num. all: 134954 / Num. obs: 129961 / % possible obs: 96.3 % / Observed criterion σ(F): 3 / Observed criterion σ(I): 3 / 冗長度: 2.9 % / Rmerge(I) obs: 0.161 / Net I/σ(I): 4.6
反射 シェル解像度: 3.77→3.91 Å / 冗長度: 1.4 % / Rmerge(I) obs: 0.542 / Mean I/σ(I) obs: 1.4 / % possible all: 82.6

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解析

ソフトウェア
名称バージョン分類
BSSデータ収集
PHASER位相決定
PHENIX(phenix.refine: dev_1589)精密化
HKL-2000データ削減
HKL-2000データスケーリング
精密化構造決定の手法: 分子置換
開始モデル: PDB ENTRY 1PCQ

1pcq


解像度: 3.788→49.557 Å / SU ML: 0.44 / σ(F): 1.34 / 位相誤差: 29.78 / 立体化学のターゲット値: ML
Rfactor反射数%反射
Rfree0.2496 6081 5.01 %
Rwork0.2114 --
obs0.2134 121466 91.03 %
all-134900 -
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: 3.788→49.557 Å
タンパク質核酸リガンド溶媒全体
原子数64078 0 462 0 64540
拘束条件
Refine-IDタイプDev ideal数
X-RAY DIFFRACTIONf_bond_d0.00464988
X-RAY DIFFRACTIONf_angle_d0.73387808
X-RAY DIFFRACTIONf_dihedral_angle_d13.92924556
X-RAY DIFFRACTIONf_chiral_restr0.03310668
X-RAY DIFFRACTIONf_plane_restr0.00311396
Refine LS restraints NCS
Ens-IDDom-IDAuth asym-ID数Refine-IDRmsタイプ
11A16005X-RAY DIFFRACTION15.559TORSIONAL
12B16005X-RAY DIFFRACTION15.559TORSIONAL
13C16005X-RAY DIFFRACTION15.559TORSIONAL
14D16005X-RAY DIFFRACTION15.559TORSIONAL
15E16005X-RAY DIFFRACTION15.559TORSIONAL
16F16005X-RAY DIFFRACTION15.559TORSIONAL
17G16005X-RAY DIFFRACTION15.559TORSIONAL
18H16005X-RAY DIFFRACTION15.559TORSIONAL
19I16005X-RAY DIFFRACTION15.559TORSIONAL
110J16005X-RAY DIFFRACTION15.559TORSIONAL
111K16005X-RAY DIFFRACTION15.559TORSIONAL
112L16005X-RAY DIFFRACTION15.559TORSIONAL
113M16005X-RAY DIFFRACTION15.559TORSIONAL
114N16005X-RAY DIFFRACTION15.559TORSIONAL
21A5748X-RAY DIFFRACTION15.559TORSIONAL
22B5748X-RAY DIFFRACTION15.559TORSIONAL
23C5748X-RAY DIFFRACTION15.559TORSIONAL
24D5748X-RAY DIFFRACTION15.559TORSIONAL
25E5748X-RAY DIFFRACTION15.559TORSIONAL
26F5748X-RAY DIFFRACTION15.559TORSIONAL
27G5748X-RAY DIFFRACTION15.559TORSIONAL
28H5748X-RAY DIFFRACTION15.559TORSIONAL
29I5748X-RAY DIFFRACTION15.559TORSIONAL
210J5748X-RAY DIFFRACTION15.559TORSIONAL
211K5748X-RAY DIFFRACTION15.559TORSIONAL
212L5748X-RAY DIFFRACTION15.559TORSIONAL
213M5748X-RAY DIFFRACTION15.559TORSIONAL
214N5748X-RAY DIFFRACTION15.559TORSIONAL
31A11946X-RAY DIFFRACTION15.559TORSIONAL
32B11946X-RAY DIFFRACTION15.559TORSIONAL
33C11946X-RAY DIFFRACTION15.559TORSIONAL
34D11946X-RAY DIFFRACTION15.559TORSIONAL
35E11946X-RAY DIFFRACTION15.559TORSIONAL
36F11946X-RAY DIFFRACTION15.559TORSIONAL
37G11946X-RAY DIFFRACTION15.559TORSIONAL
38H11946X-RAY DIFFRACTION15.559TORSIONAL
39I11946X-RAY DIFFRACTION15.559TORSIONAL
310J11946X-RAY DIFFRACTION15.559TORSIONAL
311K11946X-RAY DIFFRACTION15.559TORSIONAL
312L11946X-RAY DIFFRACTION15.559TORSIONAL
313M11946X-RAY DIFFRACTION15.559TORSIONAL
314N11946X-RAY DIFFRACTION15.559TORSIONAL
41O6247X-RAY DIFFRACTION15.559TORSIONAL
42P6247X-RAY DIFFRACTION15.559TORSIONAL
43Q6247X-RAY DIFFRACTION15.559TORSIONAL
44R6247X-RAY DIFFRACTION15.559TORSIONAL
45S6247X-RAY DIFFRACTION15.559TORSIONAL
46T6247X-RAY DIFFRACTION15.559TORSIONAL
47U6247X-RAY DIFFRACTION15.559TORSIONAL
48V6247X-RAY DIFFRACTION15.559TORSIONAL
49W6247X-RAY DIFFRACTION15.559TORSIONAL
410X6247X-RAY DIFFRACTION15.559TORSIONAL
411Y6247X-RAY DIFFRACTION15.559TORSIONAL
412Z6247X-RAY DIFFRACTION15.559TORSIONAL
413a6247X-RAY DIFFRACTION15.559TORSIONAL
414b6247X-RAY DIFFRACTION15.559TORSIONAL
LS精密化 シェル
解像度 (Å)Rfactor RfreeNum. reflection RfreeRfactor RworkNum. reflection RworkRefine-ID% reflection obs (%)
3.7881-3.83110.2987360.2492703X-RAY DIFFRACTION17
3.8311-3.87620.30991310.27922459X-RAY DIFFRACTION59
3.8762-3.92340.32541950.28153613X-RAY DIFFRACTION87
3.9234-3.97310.32112100.26863997X-RAY DIFFRACTION95
3.9731-4.02530.28942070.27244079X-RAY DIFFRACTION96
4.0253-4.08050.32092030.26183995X-RAY DIFFRACTION96
4.0805-4.13870.30362240.24693995X-RAY DIFFRACTION95
4.1387-4.20050.25612340.24594016X-RAY DIFFRACTION96
4.2005-4.26610.30412210.24434034X-RAY DIFFRACTION96
4.2661-4.3360.30382210.24914032X-RAY DIFFRACTION96
4.336-4.41070.28282140.25384009X-RAY DIFFRACTION95
4.4107-4.49080.28412080.23364020X-RAY DIFFRACTION96
4.4908-4.57720.29962000.22864115X-RAY DIFFRACTION96
4.5772-4.67050.26492200.22733977X-RAY DIFFRACTION96
4.6705-4.7720.25342330.21454042X-RAY DIFFRACTION96
4.772-4.88290.26211790.21474087X-RAY DIFFRACTION96
4.8829-5.00490.27371930.21714096X-RAY DIFFRACTION96
5.0049-5.14010.24922120.21074061X-RAY DIFFRACTION96
5.1401-5.29120.27292300.22264036X-RAY DIFFRACTION96
5.2912-5.46180.26792220.22934034X-RAY DIFFRACTION96
5.4618-5.65670.24222050.22624079X-RAY DIFFRACTION96
5.6567-5.88290.26882220.21994087X-RAY DIFFRACTION97
5.8829-6.15010.24562090.21554059X-RAY DIFFRACTION96
6.1501-6.47370.26811990.22744079X-RAY DIFFRACTION96
6.4737-6.87830.27362130.20274071X-RAY DIFFRACTION96
6.8783-7.40780.25822150.19154072X-RAY DIFFRACTION96
7.4078-8.15030.20732140.17424057X-RAY DIFFRACTION96
8.1503-9.32290.1672180.15034048X-RAY DIFFRACTION95
9.3229-11.72020.16232240.13993854X-RAY DIFFRACTION91
11.7202-49.56150.24011690.20833579X-RAY DIFFRACTION82
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)
11.807-0.0254-0.02043.2641-0.1360.7276-0.191-0.60590.19980.4620.11770.0175-0.1947-0.19740.07260.99670.1010.01390.7716-0.16510.537514.29363.580991.7482
22.01661.2566-0.62961.7953-0.43771.0029-0.0246-0.0670.40190.3087-0.0015-0.1622-0.5912-0.16510.0230.96570.099-0.05030.4971-0.11240.791734.466231.369570.0728
33.34890.05-0.62991.45070.62411.9348-0.1010.25580.6165-0.1388-0.05430.1967-0.71380.26440.15960.8618-0.09530.01760.59210.16530.765662.231925.789741.0145
42.7191.03840.53553.7145-0.07491.1292-0.04110.3860.0735-0.09370.2334-0.002-0.16630.3438-0.21561.02660.0260.15310.85160.05710.543276.7743-9.157926.5005
54.29310.2470.40472.734-0.87760.86740.0410.508-0.7114-0.09040.0629-0.29810.49590.2456-0.08430.92050.12290.02470.6936-0.15260.627767.1797-47.029237.2882
63.2238-0.2003-0.33081.10650.06512.14740.1059-0.1595-1.0740.02580.00320.1590.3003-0.0151-0.08541.0116-0.0531-0.0160.4790.10880.909440.5785-59.260365.3868
72.1441-0.2619-0.83241.82850.92492.2545-0.0554-0.66-0.46790.4853-0.00280.17730.1985-0.38120.08340.8956-0.06560.07240.83790.16650.550916.9819-36.817989.6339
81.3856-0.1287-0.15533.5621-0.40493.2607-0.12950.58730.0625-0.25530.1037-0.1518-0.21410.20920.01860.7435-0.00660.14540.9160.12750.53751.97712.19385.847
93.1768-0.2853-1.02131.7197-0.35694.6095-0.0030.05260.6558-0.19070.0066-0.0031-0.53330.17020.02790.80450.05540.06010.50480.14490.756731.677130.587626.5725
103.21430.3043-0.73121.1484-0.65031.6475-0.0177-0.04930.5978-0.12050.00820.0893-0.3386-0.253-0.03910.93410.1508-0.03560.5779-0.05830.76043.907825.875855.8916
110.846-0.63530.18325.05990.92731.0148-0.0529-0.0506-0.07440.15320.07030.14510.0353-0.4177-0.0370.5839-0.01340.14860.85290.06310.5839-10.4426-8.627471.5525
124.068-0.2522-1.09671.98780.48012.13470.0408-0.1891-0.50760.00850.09860.22460.109-0.1593-0.08660.9573-0.13370.03750.7220.05850.7155-0.7563-46.811162.0517
133.31090.2437-0.80452.79090.0683.12850.07450.3719-1.0219-0.25280.0285-0.11190.45340.0627-0.08960.9631-0.0034-0.05640.5854-0.14190.831525.8859-59.822734.3602
141.62351.10790.051.6697-0.97121.5517-0.1330.8634-0.4239-0.37190.0871-0.19260.130.10030.07930.99330.09260.11090.9694-0.17620.637949.4082-38.05929.4158
156.6479-3.0606-0.22888.09742.99594.79770.1478-1.7828-0.06181.25910.1199-0.6255-0.4853-1.6231-0.22081.3413-0.02440.08511.3637-0.0280.569122.4341-13.9463111.3366
165.47241.86452.156410.0037-2.89365.3789-0.227-0.81340.42870.7223-0.0036-0.5134-0.9816-0.05390.27541.1380.09260.03050.8313-0.38750.746735.470726.950597.1483
177.3771.1527-1.26465.5183-0.6794.2916-0.6866-0.24540.94210.04710.6317-0.6277-0.28910.66130.05570.7885-0.0528-0.03290.6141-0.07371.270265.531237.943665.4247
183.6953-2.372-0.27088.87214.98433.8691-0.43150.56520.17810.65490.4035-0.5747-0.42190.9835-0.06750.8099-0.07890.18521.07160.06180.884890.287510.417640.0356
199.284-1.28060.44783.4751-1.47994.5585-0.60290.2902-0.17250.78190.3405-1.1504-1.21660.69640.05621.01720.1180.0930.9666-0.05490.997891.2828-34.399539.8561
209.16534.9898-0.58063.8093-1.5375.92860.7439-0.7293-1.73280.2225-0.7363-0.70810.90490.77260.01271.11270.1176-0.07450.54090.10491.266367.6731-62.946965.0505
216.0561-0.2527-1.97947.5528-1.8416.5102-0.0453-0.8047-0.70280.20950.2029-0.37720.5469-0.005-0.11931.448-0.1017-0.12850.95820.28970.923737.194-53.806896.845
227.23844.46811.47498.87220.74015.7392-0.08671.36420.0921-1.23780.08360.3627-0.51750.85-0.00911.00770.2020.10781.1873-0.02170.545443.8444-15.8504-13.1532
235.991-2.40732.68855.7718-1.4212.388-0.39971.5671.1051-0.14810.2610.09-1.01850.19960.23551.4477-0.05660.04061.16150.46360.988630.73225.3294-0.3578
248.7089-1.0723-0.21476.78911.25378.9037-0.58060.66131.733-0.19160.12010.2096-0.5963-0.61810.48160.97440.1243-0.04810.76150.20550.99160.530237.08931.0765
259.34961.18261.96728.5899-3.65088.476-0.5079-0.17540.7962-0.0430.3119-0.1087-0.1814-0.8810.28840.85950.16450.07630.96860.00450.8011-24.100610.41957.4061
268.70892.4699-0.03356.4281-1.28144.03080.9874-1.0131-0.72820.376-0.7330.52111.2505-0.5782-0.33841.1205-0.188-0.00170.9801-0.00950.9103-24.9304-34.360159.0591
279.2029-4.1446-2.59819.23150.76425.49380.49140.5958-1.6335-0.3569-0.21140.44270.8859-0.4819-0.25041.1533-0.0824-0.21950.6326-0.08441.119-1.2319-63.618934.7782
283.0286-0.0267-2.37035.29012.28036.51840.30860.9317-0.1527-0.72970.4447-0.11660.5180.4218-0.71571.28970.06490.06381.0638-0.18570.67229.2111-55.25772.8073
293.5776-0.28673.31997.32332.34497.7461-0.5244-0.5091.05930.54560.0831-0.87470.01541.56540.40091.7676-0.2721-0.44122.51340.16551.5650.0135-13.4702128.643
308.5196-0.88892.76614.9841-1.51194.61690.5460.3973-0.17050.7138-0.3721-0.9136-0.16720.0823-0.2372.1250.01-0.71061.67570.09962.590161.452519.117114.2369
318.78462.1647-4.88898.21652.02973.9241-0.2792-0.84870.49881.56070.26870.59670.58760.1639-0.04861.72480.2042-0.39691.4262-0.39592.065887.454629.653686.5838
327.9832.25565.19517.95180.61694.295-0.0923-1.0456-0.41050.31360.825-0.30330.57770.3411-0.80091.4320.3638-0.05721.8688-0.18371.4566106.66317.463967.5358
334.3192-1.1235-3.10645.4152-0.75877.24670.4861-1.89130.80010.8897-0.58290.7556-0.999-0.76480.17651.4921-0.0595-0.20961.8742-0.06411.7793107.345-31.763766.9726
349.9040.54720.78846.50874.13585.02730.3246-0.8325-0.48350.8923-0.1184-0.21250.38390.5233-0.19081.9715-0.3277-0.26421.56540.27661.429888.674-53.578987.5484
358.22370.25822.27834.5918-3.0587.2763-1.4206-0.20652.8594-0.30570.296-1.3498-1.5596-0.19721.11582.1938-0.4581-0.62311.64730.09242.299662.2431-46.0882114.4618
369.04553.13391.61038.1249-3.79073.9474-0.130.3770.53960.6665-0.4363-0.8973-0.0938-0.09680.74952.02020.204-0.46642.6116-0.48491.987716.1714-15.8915-30.3845
374.4134.35472.10664.93335.08219.95340.19641.14110.0686-0.70320.38220.1658-0.2091.3086-0.62631.7353-0.0746-0.64642.0039-0.1392.62824.796817.6921-17.64
384.06480.9759-1.00474.71370.44374.02580.10030.2932-0.2253-0.59640.4053-0.0112.4738-0.9674-0.51061.938-0.2053-0.48791.71710.73472.3923-21.410528.31710.0233
396.4647-1.9892.17674.87730.75345.1973-0.32241.15150.0711-1.54980.93020.72940.6458-1.3279-0.70471.6677-0.3985-0.10462.23190.34961.5166-40.47416.645729.9205
409.0162-1.8634-0.34394.48222.05824.24740.52282.30990.1882-0.5732-0.2202-0.2324-0.41380.6227-0.39521.5212-0.0974-0.11.9095-0.04731.5819-41.0353-32.487531.9169
416.5493-0.3436-1.35855.1938-0.66872.61860.26030.342-0.7149-0.4482-0.0494-0.27790.4391-0.1347-0.16892.0090.2796-0.35831.8757-0.44781.4865-22.0953-54.579611.9065
427.5507-0.87723.58476.06472.51888.0368-1.5971.78862.9212-0.16540.13180.1205-2.63531.13721.33971.9770.171-0.76492.0945-0.08112.52314.2431-47.609-14.8058
434.26492.33724.4884.0844.2865.2015-0.2367-0.02940.0457-0.46670.0058-0.00370.0333-2.03460.40222.0297-0.29060.28782.4405-0.06011.6874125.0191-5.5791101.3959
447.86660.85080.48175.5982-1.04566.9141-0.00380.5980.3133-0.36110.49330.5377-0.29730.5216-0.48642.0756-0.227-0.00182.17420.13831.9491122.8913-28.4286104.7143
453.14012.9309-2.40627.43783.69458.0201-1.57740.26690.0615-0.85160.20352.5695-0.1722-1.52461.34531.8056-0.0367-0.28011.8840.3022.2282108.2797-38.3786118.5836
469.4115-1.1948-4.74867.30981.26874.7312-0.16370.70161.7866-0.58510.7187-0.0851-1.71950.1934-0.66412.4952-0.3285-0.11212.40780.52361.821593.4758-29.2256133.6066
478.4868-3.59113.66446.74244.53727.9570.6510.755-0.2761-1.7177-0.5570.3708-1.3021-0.3535-0.13552.6691-0.0499-0.0472.27770.37171.312289.1884-6.9007137.7445
487.4542-2.78183.35338.129-8.16488.1268-0.1338-1.7092-0.0657-0.47430.11720.39730.5512-1.6290.22922.92550.0679-0.12422.362-0.44211.918398.827711.1367127.1794
493.34541.0893-2.1958.3829-3.90236.1042-0.624-0.2037-1.29230.29731.28940.8896-0.0571-0.8947-0.61912.4437-0.08820.04262.11870.05671.7842115.862912.7937111.4282
504.47521.84841.5376.3693-3.79438.1522-0.01-1.37450.17971.1874-0.262-0.00561.07272.25410.12232.02960.7010.13722.6109-0.10961.414-58.7983-7.4457-3.3242
515.8568-2.99510.32128.3928-4.957.10330.3888-0.3379-0.28670.91970.47130.1964-0.161-0.1312-0.78342.13650.272-0.06742.1077-0.1231.7432-56.6854-30.3992-5.635
529.1595-3.3948-3.32759.5402-1.59113.70630.1261-0.6051.9585-0.5461-0.9509-0.9672-0.13130.22011.12521.88520.0915-0.53671.7257-0.07442.1603-41.9348-41.0341-19.1212
535.17763.5375-3.39764.71612.10127.410.138-1.92131.4550.82770.18830.3628-0.0230.5763-0.29892.22110.4376-0.17091.8046-0.22072.2019-27.1823-32.5074-34.6577
542.01687.12781.5514.87051.1827.94511.2736-0.5984-1.31221.26-0.2858-1.9664-1.02210.9673-0.99922.4542-0.13010.17172.3506-0.25352.3171-23.2765-10.6843-39.4751
556.46450.434-0.77693.49175.17766.10221.1578-0.4916-0.75472.2492-0.6324-0.5496-0.21170.1602-0.45792.68170.0131-0.13561.91080.23651.8433-33.18328.148-30.376
568.32950.6748-4.02385.99653.90764.13820.2951-0.1149-1.1252-0.07550.7198-0.7921-0.63711.0307-12.7490.5941-0.16122.1811-0.01992.0102-49.826410.2507-14.3199
精密化 TLSグループ
IDRefine-IDRefine TLS-IDSelection details
1X-RAY DIFFRACTION1CHAIN A AND (RESID 2:136 OR RESID 411:602)
2X-RAY DIFFRACTION2CHAIN B AND (RESID 2:136 OR RESID 411:602)
3X-RAY DIFFRACTION3CHAIN C AND (RESID 2:136 OR RESID 411:602)
4X-RAY DIFFRACTION4CHAIN D AND (RESID 2:136 OR RESID 411:602)
5X-RAY DIFFRACTION5CHAIN E AND (RESID 2:136 OR RESID 411:602)
6X-RAY DIFFRACTION6CHAIN F AND (RESID 2:136 OR RESID 411:602)
7X-RAY DIFFRACTION7CHAIN G AND (RESID 2:136 OR RESID 411:602)
8X-RAY DIFFRACTION8CHAIN H AND (RESID 2:136 OR RESID 411:602)
9X-RAY DIFFRACTION9CHAIN I AND (RESID 2:136 OR RESID 411:602)
10X-RAY DIFFRACTION10CHAIN J AND (RESID 2:136 OR RESID 411:602)
11X-RAY DIFFRACTION11CHAIN K AND (RESID 2:136 OR RESID 411:602)
12X-RAY DIFFRACTION12CHAIN L AND (RESID 2:136 OR RESID 411:602)
13X-RAY DIFFRACTION13CHAIN M AND (RESID 2:136 OR RESID 411:602)
14X-RAY DIFFRACTION14CHAIN N AND (RESID 2:136 OR RESID 411:602)
15X-RAY DIFFRACTION15CHAIN A AND (RESID 137:192 OR RESID 375:410)
16X-RAY DIFFRACTION16CHAIN B AND (RESID 137:192 OR RESID 375:410)
17X-RAY DIFFRACTION17CHAIN C AND (RESID 137:192 OR RESID 375:410)
18X-RAY DIFFRACTION18CHAIN D AND (RESID 137:192 OR RESID 375:410)
19X-RAY DIFFRACTION19CHAIN E AND (RESID 137:192 OR RESID 375:410)
20X-RAY DIFFRACTION20CHAIN F AND (RESID 137:192 OR RESID 375:410)
21X-RAY DIFFRACTION21CHAIN G AND (RESID 137:192 OR RESID 375:410)
22X-RAY DIFFRACTION22CHAIN H AND (RESID 137:192 OR RESID 375:410)
23X-RAY DIFFRACTION23CHAIN I AND (RESID 137:192 OR RESID 375:410)
24X-RAY DIFFRACTION24CHAIN J AND (RESID 137:192 OR RESID 375:410)
25X-RAY DIFFRACTION25CHAIN K AND (RESID 137:192 OR RESID 375:410)
26X-RAY DIFFRACTION26CHAIN L AND (RESID 137:192 OR RESID 375:410)
27X-RAY DIFFRACTION27CHAIN M AND (RESID 137:192 OR RESID 375:410)
28X-RAY DIFFRACTION28CHAIN N AND (RESID 137:192 OR RESID 375:410)
29X-RAY DIFFRACTION29CHAIN A AND RESID 193:374
30X-RAY DIFFRACTION30CHAIN B AND RESID 193:374
31X-RAY DIFFRACTION31CHAIN C AND RESID 193:374
32X-RAY DIFFRACTION32CHAIN D AND RESID 193:374
33X-RAY DIFFRACTION33CHAIN E AND RESID 193:374
34X-RAY DIFFRACTION34CHAIN F AND RESID 193:374
35X-RAY DIFFRACTION35CHAIN G AND RESID 193:374
36X-RAY DIFFRACTION36CHAIN H AND RESID 193:374
37X-RAY DIFFRACTION37CHAIN I AND RESID 193:374
38X-RAY DIFFRACTION38CHAIN J AND RESID 193:374
39X-RAY DIFFRACTION39CHAIN K AND RESID 193:374
40X-RAY DIFFRACTION40CHAIN L AND RESID 193:374
41X-RAY DIFFRACTION41CHAIN M AND RESID 193:374
42X-RAY DIFFRACTION42CHAIN N AND RESID 193:374
43X-RAY DIFFRACTION43CHAIN O
44X-RAY DIFFRACTION44CHAIN P
45X-RAY DIFFRACTION45CHAIN Q
46X-RAY DIFFRACTION46CHAIN R
47X-RAY DIFFRACTION47CHAIN S
48X-RAY DIFFRACTION48CHAIN T
49X-RAY DIFFRACTION49CHAIN U
50X-RAY DIFFRACTION50CHAIN V
51X-RAY DIFFRACTION51CHAIN W
52X-RAY DIFFRACTION52CHAIN X
53X-RAY DIFFRACTION53CHAIN Y
54X-RAY DIFFRACTION54CHAIN Z
55X-RAY DIFFRACTION55CHAIN a
56X-RAY DIFFRACTION56CHAIN b

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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://pdbjlvh1.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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