- PDB-2gm1: Crystal structure of the mitotic kinesin eg5 in complex with mg-a... -
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基本情報
登録情報
データベース: PDB / ID: 2gm1
タイトル
Crystal structure of the mitotic kinesin eg5 in complex with mg-adp and n-(3-aminopropyl)-n-((3-benzyl-5-chloro-4-oxo-3,4-dihydropyrrolo[2,1-f][1,2,4]triazin-2-yl)(cyclopropyl)methyl)-4-methylbenzamide
要素
KINESIN-RELATED MOTOR PROTEIN EG5
キーワード
CELL CYCLE / Eg5 Mg-ADP Complex Inhibitor
機能・相同性
機能・相同性情報
spindle elongation / regulation of mitotic centrosome separation / Kinesins / plus-end-directed microtubule motor activity / mitotic centrosome separation / COPI-dependent Golgi-to-ER retrograde traffic / microtubule motor activity / kinesin complex / spindle organization / microtubule-based movement ...spindle elongation / regulation of mitotic centrosome separation / Kinesins / plus-end-directed microtubule motor activity / mitotic centrosome separation / COPI-dependent Golgi-to-ER retrograde traffic / microtubule motor activity / kinesin complex / spindle organization / microtubule-based movement / mitotic spindle assembly / MHC class II antigen presentation / mitotic spindle organization / spindle microtubule / mitotic spindle / spindle pole / spindle / mitotic cell cycle / microtubule binding / microtubule / cell division / protein kinase binding / protein-containing complex / ATP binding / membrane / nucleus / cytosol 類似検索 - 分子機能
Kinesin-associated microtubule-binding domain / Kinesin-associated microtubule-binding / : / : / Kinesin motor domain / Kinesin / Kinesin motor domain signature. / Kinesin motor domain, conserved site / Kinesin motor domain / Kinesin motor domain profile. ...Kinesin-associated microtubule-binding domain / Kinesin-associated microtubule-binding / : / : / Kinesin motor domain / Kinesin / Kinesin motor domain signature. / Kinesin motor domain, conserved site / Kinesin motor domain / Kinesin motor domain profile. / Kinesin motor, catalytic domain. ATPase. / Kinesin motor domain / Kinesin motor domain superfamily / P-loop containing nucleoside triphosphate hydrolase / 3-Layer(aba) Sandwich / Alpha Beta 類似検索 - ドメイン・相同性
Chem-2AZ / ADENOSINE-5'-DIPHOSPHATE / Kinesin-like protein KIF11 類似検索 - 構成要素
A: KINESIN-RELATED MOTOR PROTEIN EG5 B: KINESIN-RELATED MOTOR PROTEIN EG5 D: KINESIN-RELATED MOTOR PROTEIN EG5 E: KINESIN-RELATED MOTOR PROTEIN EG5 ヘテロ分子
温度: 277 K / pH: 7.5 詳細: 1:1 reservoir: 0.1 M NaHEPES pH 7.5, 0.2 M MgCl2, 28% (v/v) PEG-3350; protein: 3.69 mg/ml (90 uM) in 20 mM PIPES pH 6.8, 2 mM MgCl2, 1 mM EGTA, 25 mM DTT, 478 uM ADP, 478 uM BMS-607205, 1.0% ...詳細: 1:1 reservoir: 0.1 M NaHEPES pH 7.5, 0.2 M MgCl2, 28% (v/v) PEG-3350; protein: 3.69 mg/ml (90 uM) in 20 mM PIPES pH 6.8, 2 mM MgCl2, 1 mM EGTA, 25 mM DTT, 478 uM ADP, 478 uM BMS-607205, 1.0% DMSO , pH 7.8, vapor diffusion, hanging drop, temperature 277K
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データ収集
回折
平均測定温度: 100 K
放射光源
由来: シンクロトロン / サイト: APS / ビームライン: 17-ID / 波長: 1
検出器
タイプ: ADSC / 検出器: CCD / 日付: 2003年6月26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
Reflection
冗長度: 3.8 % / Av σ(I) over netI: 11.4 / 数: 254796 / Rmerge(I) obs: 0.067 / Χ2: 1.04 / D res high: 2.3 Å / D res low: 50 Å / Num. obs: 67500 / % possible obs: 99.7
Diffraction reflection shell
ID: 1
最高解像度 (Å)
最低解像度 (Å)
Num. obs
% possible obs (%)
Rmerge(I) obs
Chi squared
Redundancy
4.95
50
6852
99.4
0.039
1.053
3.7
3.93
4.95
6809
100
0.042
0.989
3.8
3.44
3.93
6787
100
0.053
0.991
3.8
3.12
3.44
6771
100
0.066
1.147
3.8
2.9
3.12
6759
100
0.085
1.058
3.8
2.73
2.9
6724
100
0.111
1.056
3.8
2.59
2.73
6741
99.9
0.15
1.096
3.8
2.48
2.59
6700
99.5
0.184
1.028
3.7
2.38
2.48
6697
99.1
0.227
0.998
3.7
2.3
2.38
6660
99.1
0.271
0.958
3.7
反射
解像度: 2.3→50 Å / Num. obs: 67500 / % possible obs: 99.7 % / Observed criterion σ(I): 0 / 冗長度: 3.8 % / Biso Wilson estimate: 24.6 Å2 / Rmerge(I) obs: 0.067 / Net I/σ(I): 18.2
反射 シェル
解像度: 2.3→2.38 Å / 冗長度: 3.7 % / Rmerge(I) obs: 0.271 / Mean I/σ(I) obs: 5.1 / % possible all: 99.1
構造決定の手法: 分子置換 開始モデル: EG5 TETRAMER 解像度: 2.3→49.86 Å / Rfactor Rfree error: 0.009 / Data cutoff high absF: 1956724.23 / Data cutoff low absF: 0 / Isotropic thermal model: RESTRAINED / 交差検証法: THROUGHOUT / σ(F): 0 / 立体化学のターゲット値: Engh & Huber 詳細: Due to a feature in the refinement program, the structure was refined with an OXT on a residue that is not the terminal residue of the sequence. The OXT was changed to N of the next residue ...詳細: Due to a feature in the refinement program, the structure was refined with an OXT on a residue that is not the terminal residue of the sequence. The OXT was changed to N of the next residue by the wwPDB annotation staff.