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- PDB-5qu6: Crystal Structure of swapped human Nck SH3.1 domain, 1.8A, triclinic -

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基本情報

登録情報
データベース: PDB / ID: 5qu6
タイトルCrystal Structure of swapped human Nck SH3.1 domain, 1.8A, triclinic
要素Cytoplasmic protein NCK1
キーワードSIGNALING PROTEIN / SH3 DOMAIN / ADAPTOR / PEPTIDE BINDING / DOMAIN SWAP
機能・相同性
機能・相同性情報


positive regulation of cap-dependent translational initiation / regulation of translation initiation in response to endoplasmic reticulum stress / eukaryotic initiation factor eIF2 binding / positive regulation of translation in response to endoplasmic reticulum stress / protein phosphatase type 1 complex / positive regulation of endoplasmic reticulum stress-induced intrinsic apoptotic signaling pathway / positive regulation of cap-independent translational initiation / cytoskeletal anchor activity / substrate-dependent cell migration, cell extension / signal complex assembly ...positive regulation of cap-dependent translational initiation / regulation of translation initiation in response to endoplasmic reticulum stress / eukaryotic initiation factor eIF2 binding / positive regulation of translation in response to endoplasmic reticulum stress / protein phosphatase type 1 complex / positive regulation of endoplasmic reticulum stress-induced intrinsic apoptotic signaling pathway / positive regulation of cap-independent translational initiation / cytoskeletal anchor activity / substrate-dependent cell migration, cell extension / signal complex assembly / Activation of RAC1 / Nephrin family interactions / DCC mediated attractive signaling / vesicle membrane / lamellipodium assembly / RHOV GTPase cycle / negative regulation of T cell receptor signaling pathway / protein kinase inhibitor activity / positive regulation of actin filament polymerization / negative regulation of PERK-mediated unfolded protein response / RHOU GTPase cycle / Generation of second messenger molecules / RHO GTPases Activate WASPs and WAVEs / ephrin receptor signaling pathway / ephrin receptor binding / signaling adaptor activity / positive regulation of T cell proliferation / antiviral innate immune response / Downstream signal transduction / negative regulation of insulin receptor signaling pathway / protein sequestering activity / Antigen activates B Cell Receptor (BCR) leading to generation of second messengers / regulation of cell migration / response to endoplasmic reticulum stress / T cell activation / actin filament organization / FCGR3A-mediated phagocytosis / molecular condensate scaffold activity / positive regulation of neuron projection development / PKR-mediated signaling / receptor tyrosine kinase binding / Regulation of actin dynamics for phagocytic cup formation / VEGFA-VEGFR2 Pathway / cell-cell junction / cell migration / signaling receptor complex adaptor activity / protein-macromolecule adaptor activity / Potential therapeutics for SARS / ribosome / cadherin binding / protein domain specific binding / signaling receptor binding / endoplasmic reticulum / negative regulation of transcription by RNA polymerase II / positive regulation of transcription by RNA polymerase II / nucleus / plasma membrane / cytosol / cytoplasm
類似検索 - 分子機能
Nck1, SH3 domain 1 / Nck1, SH3 domain 2 / Nck1, SH3 domain 3 / Nck1, SH2 domain / Cytoplasmic protein NCK / : / SH3 domain / SH2 domain / Src homology 2 (SH2) domain profile. / Src homology 2 domains ...Nck1, SH3 domain 1 / Nck1, SH3 domain 2 / Nck1, SH3 domain 3 / Nck1, SH2 domain / Cytoplasmic protein NCK / : / SH3 domain / SH2 domain / Src homology 2 (SH2) domain profile. / Src homology 2 domains / SH2 domain / Src homology 3 domains / SH2 domain superfamily / SH3-like domain superfamily / Src homology 3 (SH3) domain profile. / SH3 domain
類似検索 - ドメイン・相同性
SH2/SH3 adapter protein NCK1
類似検索 - 構成要素
生物種Homo sapiens (ヒト)
手法X線回折 / シンクロトロン / 分子置換 / 解像度: 1.816 Å
データ登録者Rudolph, M.G.
引用ジャーナル: J.Biol.Chem. / 年: 2020
タイトル: Small molecule AX-024 reduces T cell proliferation independently of CD3ε/Nck1 interaction, which is governed by a domain swap in the Nck1-SH3.1 domain.
著者: Richter, K. / Rufer, A.C. / Muller, M. / Burger, D. / Casagrande, F. / Grossenbacher, T. / Huber, S. / Hug, M.N. / Koldewey, P. / D'Osualdo, A. / Schlatter, D. / Stoll, T. / Rudolph, M.G.
履歴
登録2019年12月13日登録サイト: RCSB / 処理サイト: RCSB
改定 1.02020年2月12日Provider: repository / タイプ: Initial release
改定 1.12021年5月12日Group: Structure summary / カテゴリ: pdbx_deposit_group
Item: _pdbx_deposit_group.group_description / _pdbx_deposit_group.group_type
改定 1.22021年6月30日Group: Database references / カテゴリ: citation / citation_author
Item: _citation.country / _citation.journal_abbrev ..._citation.country / _citation.journal_abbrev / _citation.journal_id_ASTM / _citation.journal_id_CSD / _citation.journal_id_ISSN / _citation.journal_volume / _citation.page_first / _citation.page_last / _citation.pdbx_database_id_DOI / _citation.pdbx_database_id_PubMed / _citation.title / _citation.year
改定 1.32024年3月6日Group: Data collection / Database references / カテゴリ: chem_comp_atom / chem_comp_bond / database_2
Item: _database_2.pdbx_DOI / _database_2.pdbx_database_accession
改定 1.42024年4月3日Group: Database references / Refinement description / カテゴリ: citation / pdbx_initial_refinement_model / Item: _citation.title

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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: Cytoplasmic protein NCK1
B: Cytoplasmic protein NCK1
C: Cytoplasmic protein NCK1
D: Cytoplasmic protein NCK1
E: Cytoplasmic protein NCK1
F: Cytoplasmic protein NCK1
G: Cytoplasmic protein NCK1
H: Cytoplasmic protein NCK1
I: Cytoplasmic protein NCK1
J: Cytoplasmic protein NCK1
K: Cytoplasmic protein NCK1
L: Cytoplasmic protein NCK1
M: Cytoplasmic protein NCK1
N: Cytoplasmic protein NCK1
O: Cytoplasmic protein NCK1
P: Cytoplasmic protein NCK1
Q: Cytoplasmic protein NCK1
R: Cytoplasmic protein NCK1
S: Cytoplasmic protein NCK1
T: Cytoplasmic protein NCK1
U: Cytoplasmic protein NCK1
V: Cytoplasmic protein NCK1
W: Cytoplasmic protein NCK1
X: Cytoplasmic protein NCK1
Y: Cytoplasmic protein NCK1
Z: Cytoplasmic protein NCK1
1: Cytoplasmic protein NCK1
2: Cytoplasmic protein NCK1


分子量 (理論値)分子数
合計 (水以外)288,38328
ポリマ－288,38328
非ポリマー00
水3,837213
1
A: Cytoplasmic protein NCK1
C: Cytoplasmic protein NCK1


分子量 (理論値)分子数
合計 (水以外)20,5992
ポリマ－20,5992
非ポリマー00
水362
タイプ名称対称操作数
identity operation1_555x,y,z1
Buried area4070 Å2
ΔGint-21 kcal/mol
Surface area7030 Å2
手法PISA
2
B: Cytoplasmic protein NCK1
D: Cytoplasmic protein NCK1


分子量 (理論値)分子数
合計 (水以外)20,5992
ポリマ－20,5992
非ポリマー00
水362
タイプ名称対称操作数
identity operation1_555x,y,z1
Buried area4100 Å2
ΔGint-25 kcal/mol
Surface area6910 Å2
手法PISA
3
E: Cytoplasmic protein NCK1
F: Cytoplasmic protein NCK1


分子量 (理論値)分子数
合計 (水以外)20,5992
ポリマ－20,5992
非ポリマー00
水362
タイプ名称対称操作数
identity operation1_555x,y,z1
Buried area4200 Å2
ΔGint-25 kcal/mol
Surface area7140 Å2
手法PISA
4
G: Cytoplasmic protein NCK1
H: Cytoplasmic protein NCK1


分子量 (理論値)分子数
合計 (水以外)20,5992
ポリマ－20,5992
非ポリマー00
水362
タイプ名称対称操作数
identity operation1_555x,y,z1
Buried area4170 Å2
ΔGint-23 kcal/mol
Surface area7190 Å2
手法PISA
5
I: Cytoplasmic protein NCK1
J: Cytoplasmic protein NCK1


分子量 (理論値)分子数
合計 (水以外)20,5992
ポリマ－20,5992
非ポリマー00
水362
タイプ名称対称操作数
identity operation1_555x,y,z1
Buried area4030 Å2
ΔGint-27 kcal/mol
Surface area7100 Å2
手法PISA
6
K: Cytoplasmic protein NCK1
L: Cytoplasmic protein NCK1


分子量 (理論値)分子数
合計 (水以外)20,5992
ポリマ－20,5992
非ポリマー00
水362
タイプ名称対称操作数
identity operation1_555x,y,z1
Buried area4110 Å2
ΔGint-22 kcal/mol
Surface area7310 Å2
手法PISA
7
M: Cytoplasmic protein NCK1
N: Cytoplasmic protein NCK1


分子量 (理論値)分子数
合計 (水以外)20,5992
ポリマ－20,5992
非ポリマー00
水362
タイプ名称対称操作数
identity operation1_555x,y,z1
Buried area4040 Å2
ΔGint-23 kcal/mol
Surface area6760 Å2
手法PISA
8
O: Cytoplasmic protein NCK1
P: Cytoplasmic protein NCK1


分子量 (理論値)分子数
合計 (水以外)20,5992
ポリマ－20,5992
非ポリマー00
水362
タイプ名称対称操作数
identity operation1_555x,y,z1
Buried area4090 Å2
ΔGint-23 kcal/mol
Surface area7070 Å2
手法PISA
9
Q: Cytoplasmic protein NCK1
R: Cytoplasmic protein NCK1


分子量 (理論値)分子数
合計 (水以外)20,5992
ポリマ－20,5992
非ポリマー00
水362
タイプ名称対称操作数
identity operation1_555x,y,z1
Buried area4190 Å2
ΔGint-21 kcal/mol
Surface area6750 Å2
手法PISA
10
S: Cytoplasmic protein NCK1
T: Cytoplasmic protein NCK1


分子量 (理論値)分子数
合計 (水以外)20,5992
ポリマ－20,5992
非ポリマー00
水362
タイプ名称対称操作数
identity operation1_555x,y,z1
Buried area4200 Å2
ΔGint-25 kcal/mol
Surface area6930 Å2
手法PISA
11
U: Cytoplasmic protein NCK1
V: Cytoplasmic protein NCK1


分子量 (理論値)分子数
合計 (水以外)20,5992
ポリマ－20,5992
非ポリマー00
水362
タイプ名称対称操作数
identity operation1_555x,y,z1
Buried area4040 Å2
ΔGint-20 kcal/mol
Surface area6740 Å2
手法PISA
12
W: Cytoplasmic protein NCK1
X: Cytoplasmic protein NCK1


分子量 (理論値)分子数
合計 (水以外)20,5992
ポリマ－20,5992
非ポリマー00
水362
タイプ名称対称操作数
identity operation1_555x,y,z1
Buried area3980 Å2
ΔGint-24 kcal/mol
Surface area6900 Å2
手法PISA
13
Y: Cytoplasmic protein NCK1
Z: Cytoplasmic protein NCK1


分子量 (理論値)分子数
合計 (水以外)20,5992
ポリマ－20,5992
非ポリマー00
水0
タイプ名称対称操作数
identity operation1_555x,y,z1
Buried area3690 Å2
ΔGint-24 kcal/mol
Surface area6880 Å2
手法PISA
14
1: Cytoplasmic protein NCK1
2: Cytoplasmic protein NCK1


分子量 (理論値)分子数
合計 (水以外)20,5992
ポリマ－20,5992
非ポリマー00
水0
タイプ名称対称操作数
identity operation1_555x,y,z1
Buried area3610 Å2
ΔGint-22 kcal/mol
Surface area6330 Å2
手法PISA
単位格子
Length a, b, c (Å)49.083, 92.053, 114.748
Angle α, β, γ (deg.)103.020, 91.630, 88.570
Int Tables number1
Space group name H-MP1

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要素

#1: タンパク質 ...
Cytoplasmic protein NCK1 / NCK adaptor protein 1 / Nck-1 / SH2/SH3 adaptor protein NCK-alpha


分子量: 10299.410 Da / 分子数: 28 / 断片: SH3 1 / 由来タイプ: 組換発現 / 由来: (組換発現) Homo sapiens (ヒト) / 遺伝子: NCK1, NCK / プラスミド: PET28a(+) / 発現宿主: Escherichia coli (大腸菌) / 株 (発現宿主): BL21(DE3) / 参照: UniProt: P16333
#2: 水 ChemComp-HOH / water


分子量: 18.015 Da / 分子数: 213 / 由来タイプ: 天然 / 式: H2O

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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: 1.75 Å3/Da / 溶媒含有率: 29.74 %
結晶化温度: 293 K / 手法: 蒸気拡散法, シッティングドロップ法 / pH: 6.5
詳細: 0.1 M Bis-Tris/HCl pH 6.5, 2% tacsimate pH 6.0, 20% PEG 3350

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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: SLS / ビームライン: X10SA / 波長: 1 Å
検出器タイプ: PSI PILATUS 6M / 検出器: PIXEL / 日付: 2018年4月10日
放射プロトコル: SINGLE WAVELENGTH / 単色(M)・ラウエ(L): M / 散乱光タイプ: x-ray
放射波長波長: 1 Å / 相対比: 1
反射解像度: 1.81→53.083 Å / Num. obs: 170464 / % possible obs: 95.6 % / 冗長度: 1.98 % / Biso Wilson estimate: 32.62 Å2 / CC1/2: 0.999 / Rmerge(I) obs: 0.052 / Rrim(I) all: 0.07 / Χ2: 0.856 / Net I/σ(I): 8.43 / Num. measured all: 337282 / Scaling rejects: 82
反射 シェル

Diffraction-ID: 1

解像度 (Å)冗長度 (%)Rmerge(I) obsMean I/σ(I) obsNum. measured obsNum. possibleNum. unique obsCC1/2Rrim(I) all% possible all
1.81-1.861.9682.950.272439313114123970.1223.99894.5
1.86-1.911.8661.9010.42274912958121900.1972.57894.1
1.91-1.961.931.4580.582285512511118400.2631.97994.6
1.96-2.022.0591.0320.882396812114116420.3521.39896.1
2.02-2.092.0540.781.132304011755112180.4591.05795.4
2.09-2.162.0390.5581.62221711406108950.630.75495.5
2.16-2.252.0180.4092.122135611051105840.7480.55495.8
2.25-2.341.9940.2723.092020610590101310.8820.36795.7
2.34-2.441.8460.1933.91180341009597690.9280.26196.8
2.44-2.561.9650.1714.6818437969693810.940.23296.8
2.56-2.72.0670.1246.6518403920389030.9680.16796.7
2.7-2.862.0490.0899.2217316873084500.9830.11996.8
2.86-3.062.0250.05713.4115867819778350.9930.07795.6
3.06-3.31.9510.04217.8514017762871840.9960.05794.2
3.3-3.621.7860.0321.9911821695966190.9980.0495.1
3.62-4.052.0090.02428.712239637160920.9980.03395.6
4.05-4.672.040.01835.710912558053480.9990.02595.8
4.67-5.721.970.01735.258934473745350.9990.02495.7
5.72-8.091.820.01834.396393365835120.9990.02496
8.09-53.0832.1270.01343.294125198719390.9990.01797.6

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解析

ソフトウェア
名称バージョン分類NB
XSCALEデータスケーリング
PHENIX1.12rc1_2801精密化
PDB_EXTRACT3.24データ抽出
XDS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: inhouse model

解像度: 1.816→53.083 Å / SU ML: 0.3 / 交差検証法: THROUGHOUT / σ(F): 1.96 / 位相誤差: 39.29 / 立体化学のターゲット値: ML / 詳細: DIMERIC
Rfactor反射数%反射Selection details
Rfree0.263 5422 4.94 %random
Rwork0.2082 104229 --
obs0.211 109651 62.14 %-
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 max: 179.46 Å2 / Biso mean: 57.935 Å2 / Biso min: 12.03 Å2
精密化ステップサイクル: final / 解像度: 1.816→53.083 Å
タンパク質核酸リガンド溶媒全体
原子数13132 0 0 213 13345
Biso mean---40.83 -
残基数----1546
拘束条件
Refine-IDタイプDev ideal数
X-RAY DIFFRACTIONf_bond_d0.00813417
X-RAY DIFFRACTIONf_angle_d0.90718113
X-RAY DIFFRACTIONf_chiral_restr0.0621909
X-RAY DIFFRACTIONf_plane_restr0.0052286
X-RAY DIFFRACTIONf_dihedral_angle_d16.3348045
LS精密化 シェル

Refine-ID: X-RAY DIFFRACTION / Rfactor Rfree error: 0 / Total num. of bins used: 30

解像度 (Å)Rfactor RfreeNum. reflection RfreeRfactor RworkNum. reflection RworkNum. reflection all% reflection obs (%)
1.8161-1.83670.280220.318956581
1.8367-1.85830.248950.26551001052
1.8583-1.8810.2646130.29431861993
1.881-1.90480.4167170.27353143316
1.9048-1.92990.3629240.28384915159
1.9299-1.95630.3854310.296369472512
1.9563-1.98430.3884430.285186190416
1.9843-2.01390.3358630.29531177124021
2.0139-2.04530.3436790.29111529160827
2.0453-2.07890.33731160.28661844196034
2.0789-2.11470.32531170.2842276239341
2.1147-2.15320.32461550.28592786294150
2.1532-2.19460.35591910.2723311350259
2.1946-2.23940.32952060.2793748395467
2.2394-2.28810.3462090.27754469467880
2.2881-2.34130.32022570.26595170542792
2.3413-2.39990.28712620.26415396565897
2.3999-2.46470.34312330.27725461569496
2.4647-2.53730.30292540.28295413566797
2.5373-2.61920.28542920.28265428572097
2.6192-2.71280.32913250.27685408573397
2.7128-2.82140.33072880.27735352564097
2.8214-2.94980.32872760.26675448572496
2.9498-3.10530.27952740.24195277555195
3.1053-3.29980.29232940.22385267556194
3.2998-3.55450.27712970.1935279557695
3.5545-3.91220.27532890.17465332562196
3.9122-4.4780.17792710.1315395566696
4.478-5.64080.18192560.13535347560396
5.6408-53.10620.20372830.17465414569797
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)
14.9961-1.1849-0.80817.49766.89956.72830.18810.0044-0.1873-0.32920.2373-0.375-0.20160.0293-0.38830.1232-0.0838-0.05640.31910.11790.2966-19.672728.9686-8.9467
22.78111.492-1.8583.3018-3.89114.59110.6946-1.04691.12021.323-0.32450.2483-1.4429-0.0708-0.52310.4079-0.06210.10510.5389-0.17420.4962-19.211643.1138-1.2406
34.98263.55141.29845.46821.16182.77930.1696-0.35310.11520.2620.04820.14470.0929-0.5937-0.17680.1215-0.0531-0.05990.34510.12120.2393-22.145433.1506-9.2113
47.58354.38496.75182.94154.02196.8130.14592.5594-1.7578-0.63350.5569-0.42521.3751.495-0.6080.43140.07610.04560.7801-0.21880.604-8.417732.8047-15.7915
56.43323.53370.63584.43220.83334.76830.0736-0.2892-0.1210.00170.0448-0.1720.3371-0.0378-0.12420.088-0.02050.01960.2346-0.02910.4181-2.398842.8519-5.2769
67.59760.4371-1.18155.0251-0.13958.15030.22650.3299-0.1317-0.0416-0.02910.0152-0.23410.015-0.1220.07390.0408-0.00290.07470.0060.154222.35597.6138-2.4485
77.5212-0.7356-4.97623.48480.64685.34260.20240.48030.713-0.20010.0307-0.51060.02640.0815-0.2060.15260.07510.05210.28850.11840.31356.502417.6029-3.2516
88.2231.472-0.86645.2716-1.24988.1752-0.0444-0.22960.1875-0.31080.5004-0.1891-0.01390.1722-0.38590.1507-0.06810.03290.1687-0.07050.42870.463344.7285-7.2362
90.23820.46940.79771.05481.61732.6829-0.32070.2830.9614-0.35780.3098-0.2138-0.15321.15490.09890.3256-0.0768-0.04060.39130.02640.5599-7.396335.81421.481
108.78651.52924.28943.59410.97966.703-0.00870.27730.0312-0.0876-0.0391-0.32980.25760.19660.03150.1474-0.008-0.03580.15850.07980.1975-17.234234.2886-10.391
116.2309-2.4504-0.19948.50862.1045.29170.14650.77330.7017-0.1796-0.267-0.5295-0.17580.4793-0.07090.15930.04270.0610.31320.09480.40571.711823.2207-2.7906
125.7269-5.56590.97975.59080.14156.83290.58291.301-0.5381-0.8109-0.47210.24120.33460.1545-0.06260.33110.0992-0.00210.4554-0.01750.35472.218410.788-7.583
134.8897-5.43034.69656.6243-5.1144.5355-0.15880.11580.4716-0.27950.31-0.1311-0.1462-0.547-0.04620.18520.01940.02310.32250.12930.2543-1.905722.8133-0.0986
149.9611-5.902-7.49285.14023.83535.96460.927-3.59871.98911.75470.2149-0.6899-2.65650.8693-1.10370.85160.0324-0.06760.8152-0.19840.557213.014519.71434.4596
157.5622-2.5205-0.94762.07812.06467.61130.10510.37130.2949-0.3508-0.1257-0.0394-0.44320.09450.06520.131-0.00320.04650.17060.06030.200619.78189.5731-5.2632
166.19120.461-0.3854.9327-0.38216.5958-0.1482-0.320.02080.34410.14030.0828-0.04330.0237-0.03760.14080.0254-0.01290.05660.00350.1201-25.15452.710229.5113
172.12031.21331.35593.93165.71528.9913-0.1004-0.2334-0.07110.3082-0.1532-0.2986-0.26980.07640.20750.4211-0.0817-0.10860.35740.09750.1384-12.848515.38633.8387
184.449-2.0492.88143.11360.00646.27050.0166-0.0851-0.21070.4963-0.14230.1195-0.9273-0.10920.0610.5014-0.1397-0.1590.45250.04420.0275-11.58820.84234.1644
197.61710.7149-0.07934.16840.97325.5379-0.2628-0.1578-0.10.422-0.0047-0.54950.16930.45010.1640.2278-0.0026-0.05270.14160.04380.1839-21.27684.407730.3387
205.29040.81420.22477.56480.07975.70320.1169-0.21780.08770.0967-0.13610.0583-0.0196-0.25340.03530.09750.0228-0.01810.20920.03890.088-14.750819.469810.0018
215.513-2.8128-0.2524.10030.06134.33680.2564-0.5150.75520.31620.09780.0672-0.8927-0.3827-0.23520.45240.09370.05710.2822-0.02420.3073-23.159332.213221.0588
228.3837-0.4243-0.47416.80370.83847.8416-0.0342-0.52161.5665-0.17540.3123-0.8685-1.15390.042-0.28790.69020.09890.06840.3233-0.08150.641-23.753536.985721.8366
236.7238-1.9952-0.36028.11272.35896.40160.0254-0.30721.11250.0763-0.10480.3165-0.966-0.41160.07070.48590.1360.14450.3748-0.02540.479-27.26833.527722.0194
245.3182-0.1913-3.95282.81861.27597.03650.1615-0.07340.10850.2199-0.1248-0.0468-0.40370.0293-0.04590.16730.0193-0.03460.13290.05460.1529-14.686324.279611.0787
258.6483-2.614-0.28616.71683.07167.30020.0161-1.1192-0.62221.21640.1673-0.94520.5191.0784-0.07040.4317-0.0552-0.1580.63380.19970.3452-6.096817.359318.9932
267.3911-0.4822-0.29684.75811.61492.384-0.26690.48230.0132-0.63020.19710.230.2797-0.00860.07050.309-0.0345-0.0220.22920.0190.12411.887750.3395-41.3661
272.6463-1.5901-3.11985.16543.36554.362-0.00110.21970.1596-0.0788-0.2589-0.23080.0034-0.06570.20040.41950.16260.02750.45880.01420.156313.948337.4611-44.3999
287.43331.7153-5.06544.8215-0.68615.71060.15960.02680.2347-0.2367-0.10970.23770.7118-0.0284-0.04240.46990.14810.00760.4721-0.04780.162315.564532.139-44.8427
298.6351-1.4453-0.84847.22581.90087.204-0.059-0.0453-0.0485-0.4574-0.01-0.7511-0.18130.635-0.0240.27670.0150.01260.17120.02350.14926.287448.8662-40.8618
304.5062-4.1526-2.63619.562-1.24163.89170.23590.7783-0.1926-0.8603-0.3503-0.65820.33510.4710.06030.29980.01540.08530.5191-0.0190.308115.7831-0.34188.1293
316.63572.8421.6076.96870.47622.3709-0.1131-0.3183-0.50540.2172-0.0630.47060.1916-0.76490.17350.1605-0.12120.03360.3505-0.05020.35144.88180.463520.6412
327.26953.55760.71445.30270.51990.7633-0.0279-0.28920.1853-0.33210.169-0.3205-0.22860.1735-0.13410.0374-0.29560.00790.6035-0.07120.3466-6.3118-11.250511.9298
333.7177-0.8281-2.93716.87082.76714.0955-0.146-0.111-0.11730.12860.3038-0.61480.05850.2162-0.10350.1844-0.0974-0.00930.2863-0.09770.2984-7.5052-13.44779.6191
348.29452.44623.50994.4345-0.35124.8715-0.15220.0256-0.5188-0.27520.10860.66240.0776-0.74720.01060.1752-0.06190.02740.3356-0.1440.36322.7919-1.069417.545
357.02511.04632.10589.18922.77622.01720.3285-0.4275-1.45140.4608-0.34830.08590.45-0.25970.05690.3456-0.09910.01160.41690.06310.6045-20.892763.744913.3135
367.89696.93273.89627.51391.51516.00180.3803-0.2412-1.49580.32210.133-0.43580.22020.3476-0.50810.2213-0.0969-0.0470.4275-0.01340.6661-18.25466.578912.5756
375.37986.0682.89546.9293.09311.90910.6181-0.73372.87991.6884-0.23952.4528-0.8958-1.041-0.28150.51470.00530.19940.6868-0.0520.9601-31.896872.477610.9153
381.22911.08870.85852.0990.81561.12760.2365-0.1074-0.52680.2714-0.0419-0.24890.0706-0.04220.11950.015-0.30240.00830.3033-0.29170.7517-37.848759.1055.2424
391.6071-1.1610.90271.5516-0.46790.55010.1428-0.32431.06110.4608-0.285-1.0398-0.0706-0.01550.0380.3023-0.21340.03680.3088-0.10180.8485-41.195350.6439.4112
406.33981.79530.44765.2754-0.79753.3380.10510.44990.0357-0.2968-0.1027-0.2195-0.63590.46340.10080.3161-0.17120.02950.383-0.15340.4938-38.12765.22530.1418
417.75420.87222.46938.6696-2.26213.78270.2273-0.2471-0.3590.4597-0.2708-0.1259-0.00380.01240.10750.1747-0.1163-0.00980.3566-0.19520.7283-45.196356.86483.4788
426.97325.38020.85978.52210.41440.11991.318-1.2692-1.1312.6962-0.84771.53591.7715-1.1722-0.39741.0417-0.3877-0.02640.81740.10651.2745-33.225555.698313.9037
438.94823.8501-2.26665.0878-1.77993.6050.1949-0.4877-0.98190.20950.15460.47980.1212-0.2013-0.17880.1399-0.1644-0.03670.3904-0.02580.5198-22.934466.667210.7087
445.0155-0.3450.29662.47210.64913.160.09360.0280.00640.10980.2013-0.66280.08860.2557-0.18730.21610.0523-0.00310.3128-0.19420.472-29.539466.3175-20.323
456.4169-3.8588-2.01753.4938-0.6645.2499-0.2219-0.34340.14250.0450.11590.69910.0206-0.82840.04290.17360.01490.0090.4207-0.17250.6069-19.257754.7518-29.1318
468.1461-1.1528-0.36054.15411.54716.784-0.06560.6961-0.3438-0.1798-0.28440.9074-0.0774-0.6880.30940.1983-0.0085-0.00290.378-0.12440.4262-16.725751.7425-33.806
470.4452-0.9014-0.69752.00460.99112.0354-0.07910.103-0.6290.8861-0.35890.6133-0.2519-1.00450.43340.6250.07490.00320.8691-0.17930.6715-14.778155.9473-20.3136
487.1123-3.0742-0.18175.4785-0.43394.1502-0.10720.1664-0.35970.36450.14380.09520.19480.0765-0.06910.1950.07380.00160.4164-0.18190.4461-28.715564.0812-22.0521
497.3757-4.512-0.74738.53690.97525.20680.36450.84390.029-0.5297-0.60930.18540.0348-0.04790.29580.22760.1311-0.03320.3491-0.10170.2861-20.6604-32.938997.3631
509.353-4.4004-0.9616.8202-0.10644.40690.59650.67670.3084-0.7765-0.1543-0.2131-0.2647-0.6746-0.190.25040.11930.0840.4165-0.09450.4338-4.0771-40.362489.8828
514.2823-2.72060.10036.46811.21175.35540.77540.40081.3598-0.5344-0.1519-0.7768-0.74570.1154-0.55220.32530.05780.21060.3971-0.02170.7663-0.3317-37.589288.5212
523.5028-3.7636-1.6927.82121.26121.18050.74911.0475-3.0117-1.1078-1.02721.70330.8912-0.46720.38960.48170.0749-0.04490.5812-0.2660.9679-11.4002-45.13190.7584
535.5088-3.7228-1.1678.68331.04733.29470.35090.8852-0.2941-0.7213-0.37670.1069-0.1632-0.3077-0.04930.16420.0586-0.02190.3629-0.13270.3692-19.0084-32.146896.4839
543.1107-0.5544-1.60988.11331.39774.2870.0449-0.1408-0.95270.50950.2557-0.96750.1688-0.4281-0.13460.8283-0.1332-0.24140.666-0.0060.52823.645215.53-31.8324
555.48371.65782.1993.1020.40114.4295-0.05840.4882-0.315-0.6968-0.01260.16720.1993-0.28530.1690.34230.0365-0.10550.4259-0.05260.21538.008426.0994-28.0161
567.11340.6879-1.41156.7716-1.1781.99280.220.44680.2856-0.6626-0.49010.3643-0.3066-0.30350.32970.32410.1234-0.06510.3774-0.01490.17515.300934.9491-24.045
571.98872.11360.19146.5797-2.21246.9781-0.01350.0518-0.20330.1665-0.01941.76310.3263-1.5633-0.06810.1964-0.041-0.00590.5621-0.09160.5685.081329.269-17.6548
586.1242-1.5609-1.25221.98270.39018.27510.19890.1870.1971-0.1606-0.5946-0.3373-0.41540.58690.41960.26510.0049-0.07860.29860.0740.214818.108234.8111-20.5254
593.60282.00542.32663.6452-0.3822.6178-0.03551.1303-1.1626-0.06160.6261-0.971.10151.303-0.80750.5550.2767-0.18720.7374-0.40750.487616.084522.2026-29.8258
603.33543.64212.05956.94090.68952.4829-0.10450.7242-0.7586-0.08350.25670.11910.8597-0.3656-0.28470.4577-0.0272-0.06990.4827-0.17220.3941.994722.5889-30.6516
613.47523.2159-2.10127.8143-0.69441.59270.402-0.327-1.32980.3520.09310.50031.8038-1.7116-0.50121.0959-0.5183-0.12560.84210.16250.6053-7.68214.6093-28.5677
625.45312.68473.04052.83891.3448.5346-0.03141.7337-0.978-0.64210.4448-0.68151.07510.3648-0.54020.7832-0.032-0.11540.6919-0.14370.61025.123520.2315-35.2217
637.4403-0.0530.375.17144.25939.0091-0.6855-0.8209-0.1068-0.35080.2312-1.080.4533-0.05770.3080.99750.23150.28810.50950.09990.7157-14.9285-15.714142.7915
642.5079-2.2986-2.65813.99782.80093.2125-0.7612-0.5268-0.59860.10130.3946-0.64140.74140.25260.38691.23140.2910.44530.57520.16030.9029-16.7238-18.814341.5089
652.7441-0.4929-2.87820.95871.09695.6279-0.4683-0.5588-0.46360.31020.1543-0.20741.1875-0.00980.40920.89390.16650.10730.40830.04790.263-27.7361-4.59453.3068
665.5359-0.62120.35118.865-1.74777.1073-0.35360.0168-0.2276-0.1667-0.24080.45321.4839-0.60970.5530.69140.02050.11050.3621-0.04960.2854-32.4607-4.370545.5542
672.1967-0.2786-0.94377.2114-0.5643.2116-0.6282-0.0219-0.95040.4454-0.2110.64261.8437-0.5050.4990.9926-0.00770.380.5458-0.0050.3161-34.2433-6.218351.0454
680.8962-1.9569-0.08734.23980.183-0-0.5047-0.2175-0.6204-0.26920.1406-0.45181.28960.59840.16820.99520.28830.25310.38340.06120.5275-19.8821-13.824843.6514
692.1259-2.1021-1.09056.12014.34355.09980.67070.4560.0245-0.6124-0.1168-1.0736-0.12910.237-0.74731.6503-0.519-0.50510.99050.26190.93415.811767.2843-54.8803
700.7062-0.38520.85140.56780.37242.9826-0.34670.45580.68820.5945-0.2449-0.7633-2.07750.45050.6182.3935-0.5794-0.44041.32870.1180.836813.532868.7497-60.0074
714.16914.19332.47564.21912.4681.54370.2913-0.85731.35490.7305-0.58670.4757-0.54890.41310.29541.3735-0.5205-0.34680.82030.17381.07110.902971.6753-49.4457
720.71581.05680.97762.8010.38374.5034-0.41370.13050.4671-0.0384-0.11590.1725-1.2425-0.03930.18671.1449-0.3757-0.23310.62330.06180.2285-1.043857.3981-60.3139
735.92983.07861.95138.89964.41776.3271-0.6772-0.29761.3592-0.7424-0.45550.9439-2.069-0.64620.98860.87590.0476-0.25150.5266-0.13880.3686-6.134355.8639-58.8457
745.46181.40623.42222.75840.70224.4864-0.2703-0.20660.23620.48120.31330.0564-1.1363-0.46820.24361.5319-0.2817-0.75510.85610.38070.9927-3.695371.2024-62.6548
751.9177-0.7474-2.27730.35430.79512.8381-0.2159-0.0610.3775-0.13550.1624-0.2129-0.70330.61970.07112.0142-0.4046-0.58670.64360.0960.7528-1.713564.9601-64.165
764.38841.0481-0.25063.59353.04288.2233-0.24510.26920.3376-0.3506-0.430.2835-1.2375-0.15680.4890.6999-0.2167-0.20650.5433-0.01760.1385-2.68953.7813-61.1146
773.58013.1102-0.34495.1284-0.66181.843-0.32010.36330.5667-0.0915-0.0767-0.0745-0.57530.1928-0.12531.2766-0.6403-0.2160.8090.27960.53117.704466.5709-53.543
782.11421.49490.83343.36150.68370.8880.02010.0537-0.38990.23190.065-0.38650.09660.0557-0.06731.41-0.7994-0.41960.83260.20990.769112.412870.4225-53.9478
792.48030.37261.15784.34580.61530.8663-0.240.0930.1474-0.94620.2228-0.72080.760.0102-0.00621.5516-0.5443-0.17860.85390.17230.985-34.2763-28.114457.6808
807.64726.18553.42976.08393.27781.77290.6673-1.4860.83730.7114-0.97240.54950.0563-0.54090.45051.5644-0.785-0.26620.9783-0.00670.9659-36.7541-28.547168.9181
817.09915.11814.56349.51965.84274.1688-0.7751.0354-0.418-1.06851.1442-0.22920.44330.0277-0.51151.2818-0.3389-0.4210.8488-0.00361.0309-18.4431-17.32570.7199
827.19120.8857-0.05917.8845-0.54175.46850.3711-0.1229-0.98550.28060.34950.46140.9495-0.8938-0.820.8291-0.3894-0.21790.89810.0930.7206-25.6915-16.596775.4256
834.4683-2.16212.66327.74190.49014.78830.3476-0.1248-0.2948-0.1669-0.28580.12590.3756-0.33840.25871.2612-0.5078-0.07480.8012-0.00360.5857-22.2652-14.129278.2095
848.3826.25356.72845.08015.40215.7532-0.00880.2597-0.90140.0723-0.44160.39542.1188-0.7570.3831.659-0.3107-0.1510.6723-0.01851.1943-20.0961-29.703974.3047
853.5698-2.6688-4.27164.38970.17568.91420.47930.1304-1.01660.5034-0.50710.3582.1178-0.89620.0591.4999-0.2193-0.37770.82710.120.9722-19.3536-24.035673.7878
861.01120.20160.15332.5225-2.59137.19160.3431-0.3048-0.04940.6477-0.157-0.02320.0095-0.0585-0.14211.0092-0.4789-0.19870.84770.06480.6301-17.9866-12.957678.5661
871.98991.95930.25362.34920.60330.317-0.00280.1563-0.4662-0.38680.3361-0.17620.1458-0.0531-0.00421.338-0.6781-0.38670.70510.17741.1771-31.2231-24.955564.2407
889.0319-1.51610.98394.948-1.35034.19240.52920.73020.74390.4546-0.47470.8046-0.44230.2788-0.03191.09780.35040.25430.60820.09560.65.912471.2722-89.2886
899.3021-3.0274-0.28052.785-0.80497.03930.3261-0.04621.523-0.33530.1317-0.3065-0.89760.0516-0.24660.90120.43140.26870.74880.07030.88799.60269.6357-89.6123
906.5124-5.48871.80764.8852-2.74526.23680.1888-0.4279-1.34980.01140.35551.44911.2433-0.0991-0.61541.25540.30920.28260.71760.24990.96661.217964.7295-78.4038
916.6657-2.6194-1.70197.25991.14593.91980.3805-0.02330.06640.51540.193-0.382-0.7304-0.0423-0.38911.06250.37510.36240.51650.12530.976-3.600380.2785-76.1156
923.27572.2448-1.43766.16012.46436.99280.39040.06970.17070.84410.3495-0.1819-0.9630.0236-0.61511.10640.18890.43580.44430.12661.0994-6.061381.2561-69.5178
936.5311-5.8168-4.22339.27547.17495.58580.330.6528-0.4716-0.2656-0.3971.427-0.3861-0.52920.13951.02320.50160.39930.68010.28521.0104-3.571476.3436-81.5213
946.6683-4.1229-4.64038.69762.17963.30660.346300.2569-0.41450.3616-0.0717-0.5805-0.1078-0.59490.69560.3560.08420.58850.02290.72787.758970.7875-85.8748
精密化 TLSグループ
IDRefine-IDRefine TLS-IDSelection detailsAuth asym-IDAuth seq-ID
1X-RAY DIFFRACTION1chain 'A' and (resid 5 through 14 )A5 - 14
2X-RAY DIFFRACTION2chain 'A' and (resid 15 through 19 )A15 - 19
3X-RAY DIFFRACTION3chain 'A' and (resid 20 through 32 )A20 - 32
4X-RAY DIFFRACTION4chain 'A' and (resid 33 through 38 )A33 - 38
5X-RAY DIFFRACTION5chain 'A' and (resid 39 through 59 )A39 - 59
6X-RAY DIFFRACTION6chain 'B' and (resid 5 through 32 )B5 - 32
7X-RAY DIFFRACTION7chain 'B' and (resid 33 through 59 )B33 - 59
8X-RAY DIFFRACTION8chain 'C' and (resid 4 through 32 )C4 - 32
9X-RAY DIFFRACTION9chain 'C' and (resid 33 through 38 )C33 - 38
10X-RAY DIFFRACTION10chain 'C' and (resid 39 through 59 )C39 - 59
11X-RAY DIFFRACTION11chain 'D' and (resid 5 through 14 )D5 - 14
12X-RAY DIFFRACTION12chain 'D' and (resid 15 through 24 )D15 - 24
13X-RAY DIFFRACTION13chain 'D' and (resid 25 through 32 )D25 - 32
14X-RAY DIFFRACTION14chain 'D' and (resid 33 through 38 )D33 - 38
15X-RAY DIFFRACTION15chain 'D' and (resid 39 through 59 )D39 - 59
16X-RAY DIFFRACTION16chain 'E' and (resid 1 through 33 )E1 - 33
17X-RAY DIFFRACTION17chain 'E' and (resid 34 through 59 )E34 - 59
18X-RAY DIFFRACTION18chain 'F' and (resid 5 through 32 )F5 - 32
19X-RAY DIFFRACTION19chain 'F' and (resid 33 through 61 )F33 - 61
20X-RAY DIFFRACTION20chain 'G' and (resid 5 through 32 )G5 - 32
21X-RAY DIFFRACTION21chain 'G' and (resid 33 through 60 )G33 - 60
22X-RAY DIFFRACTION22chain 'H' and (resid 5 through 19 )H5 - 19
23X-RAY DIFFRACTION23chain 'H' and (resid 20 through 38 )H20 - 38
24X-RAY DIFFRACTION24chain 'H' and (resid 39 through 56 )H39 - 56
25X-RAY DIFFRACTION25chain 'H' and (resid 57 through 62 )H57 - 62
26X-RAY DIFFRACTION26chain 'I' and (resid 3 through 33 )I3 - 33
27X-RAY DIFFRACTION27chain 'I' and (resid 34 through 58 )I34 - 58
28X-RAY DIFFRACTION28chain 'J' and (resid 5 through 32 )J5 - 32
29X-RAY DIFFRACTION29chain 'J' and (resid 33 through 62 )J33 - 62
30X-RAY DIFFRACTION30chain 'K' and (resid 1 through 6 )K1 - 6
31X-RAY DIFFRACTION31chain 'K' and (resid 7 through 38 )K7 - 38
32X-RAY DIFFRACTION32chain 'K' and (resid 39 through 58 )K39 - 58
33X-RAY DIFFRACTION33chain 'L' and (resid 1 through 32 )L1 - 32
34X-RAY DIFFRACTION34chain 'L' and (resid 33 through 59 )L33 - 59
35X-RAY DIFFRACTION35chain 'M' and (resid 5 through 19 )M5 - 19
36X-RAY DIFFRACTION36chain 'M' and (resid 20 through 32 )M20 - 32
37X-RAY DIFFRACTION37chain 'M' and (resid 33 through 38 )M33 - 38
38X-RAY DIFFRACTION38chain 'M' and (resid 39 through 59 )M39 - 59
39X-RAY DIFFRACTION39chain 'N' and (resid 3 through 9 )N3 - 9
40X-RAY DIFFRACTION40chain 'N' and (resid 10 through 24 )N10 - 24
41X-RAY DIFFRACTION41chain 'N' and (resid 25 through 32 )N25 - 32
42X-RAY DIFFRACTION42chain 'N' and (resid 33 through 38 )N33 - 38
43X-RAY DIFFRACTION43chain 'N' and (resid 39 through 58 )N39 - 58
44X-RAY DIFFRACTION44chain 'O' and (resid 1 through 32 )O1 - 32
45X-RAY DIFFRACTION45chain 'O' and (resid 33 through 58 )O33 - 58
46X-RAY DIFFRACTION46chain 'P' and (resid 5 through 31 )P5 - 31
47X-RAY DIFFRACTION47chain 'P' and (resid 32 through 38 )P32 - 38
48X-RAY DIFFRACTION48chain 'P' and (resid 39 through 59 )P39 - 59
49X-RAY DIFFRACTION49chain 'Q' and (resid 5 through 38 )Q5 - 38
50X-RAY DIFFRACTION50chain 'Q' and (resid 39 through 60 )Q39 - 60
51X-RAY DIFFRACTION51chain 'R' and (resid 5 through 31 )R5 - 31
52X-RAY DIFFRACTION52chain 'R' and (resid 32 through 38 )R32 - 38
53X-RAY DIFFRACTION53chain 'R' and (resid 39 through 59 )R39 - 59
54X-RAY DIFFRACTION54chain 'S' and (resid 5 through 24 )S5 - 24
55X-RAY DIFFRACTION55chain 'S' and (resid 25 through 60 )S25 - 60
56X-RAY DIFFRACTION56chain 'T' and (resid 5 through 14 )T5 - 14
57X-RAY DIFFRACTION57chain 'T' and (resid 15 through 24 )T15 - 24
58X-RAY DIFFRACTION58chain 'T' and (resid 25 through 32 )T25 - 32
59X-RAY DIFFRACTION59chain 'T' and (resid 33 through 38 )T33 - 38
60X-RAY DIFFRACTION60chain 'T' and (resid 39 through 43 )T39 - 43
61X-RAY DIFFRACTION61chain 'T' and (resid 44 through 48 )T44 - 48
62X-RAY DIFFRACTION62chain 'T' and (resid 49 through 59 )T49 - 59
63X-RAY DIFFRACTION63chain 'U' and (resid 5 through 19 )U5 - 19
64X-RAY DIFFRACTION64chain 'U' and (resid 20 through 38 )U20 - 38
65X-RAY DIFFRACTION65chain 'U' and (resid 39 through 48 )U39 - 48
66X-RAY DIFFRACTION66chain 'U' and (resid 49 through 60 )U49 - 60
67X-RAY DIFFRACTION67chain 'V' and (resid 5 through 31 )V5 - 31
68X-RAY DIFFRACTION68chain 'V' and (resid 32 through 57 )V32 - 57
69X-RAY DIFFRACTION69chain 'W' and (resid 6 through 19 )W6 - 19
70X-RAY DIFFRACTION70chain 'W' and (resid 20 through 24 )W20 - 24
71X-RAY DIFFRACTION71chain 'W' and (resid 25 through 38 )W25 - 38
72X-RAY DIFFRACTION72chain 'W' and (resid 39 through 60 )W39 - 60
73X-RAY DIFFRACTION73chain 'X' and (resid 5 through 14 )X5 - 14
74X-RAY DIFFRACTION74chain 'X' and (resid 15 through 19 )X15 - 19
75X-RAY DIFFRACTION75chain 'X' and (resid 20 through 24 )X20 - 24
76X-RAY DIFFRACTION76chain 'X' and (resid 25 through 36 )X25 - 36
77X-RAY DIFFRACTION77chain 'X' and (resid 37 through 43 )X37 - 43
78X-RAY DIFFRACTION78chain 'X' and (resid 44 through 58 )X44 - 58
79X-RAY DIFFRACTION79chain 'Y' and (resid 5 through 28 )Y5 - 28
80X-RAY DIFFRACTION80chain 'Y' and (resid 29 through 38 )Y29 - 38
81X-RAY DIFFRACTION81chain 'Y' and (resid 39 through 48 )Y39 - 48
82X-RAY DIFFRACTION82chain 'Y' and (resid 49 through 59 )Y49 - 59
83X-RAY DIFFRACTION83chain 'Z' and (resid 5 through 14 )Z5 - 14
84X-RAY DIFFRACTION84chain 'Z' and (resid 15 through 19 )Z15 - 19
85X-RAY DIFFRACTION85chain 'Z' and (resid 20 through 24 )Z20 - 24
86X-RAY DIFFRACTION86chain 'Z' and (resid 25 through 32 )Z25 - 32
87X-RAY DIFFRACTION87chain 'Z' and (resid 33 through 58 )Z33 - 58
88X-RAY DIFFRACTION88chain '1' and (resid 5 through 19 )15 - 19
89X-RAY DIFFRACTION89chain '1' and (resid 20 through 31 )120 - 31
90X-RAY DIFFRACTION90chain '1' and (resid 32 through 38 )132 - 38
91X-RAY DIFFRACTION91chain '1' and (resid 39 through 58 )139 - 58
92X-RAY DIFFRACTION92chain '2' and (resid 5 through 28 )25 - 28
93X-RAY DIFFRACTION93chain '2' and (resid 29 through 43 )229 - 43
94X-RAY DIFFRACTION94chain '2' and (resid 44 through 57 )244 - 57

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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