MolNFT v2 · #155413 · protein
Crystal structure of tubulin in complex with inhibitor D64
6K9V: “Crystal structure of tubulin in complex with inhibitor D64”. X-ray diffraction at 2.543, 6 ligands (GTP, D3L, GDP). MolNFT v2 #155413 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6K9V
- Type
- protein
- Length
- 2,180 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 2.543
- Source
- Bos taurus; Gallus gallus; Rattus norvegicus
- UniProt
- P81947, Q6B856, P63043, E1BQ43
- Ligands
- GTP, D3L, GDP, ACP, MG, CA
Structure
x-ray diffraction · resolution 2.543 · 6 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | — | protein | 437 | — | P81947 |
| B | — | protein | 427 | — | Q6B856 |
| C | — | protein | 440 | — | P81947 |
| D | — | protein | 421 | — | Q6B856 |
| E | — | protein | 121 | — | P63043 |
| F | — | protein | 334 | — | E1BQ43 |
Ligands and binding sites
- GTP · Guanosine-5'-triphosphate · ligand · 3 copies · chains A, C, D
- D3L · (5-methoxy-1H-indol-2-yl)-phenyl-methanone · ligand · 2 copies · chains A, B, C, D
- GDP · Guanosine-5'-diphosphate · ligand · chains B
- ACP · Phosphomethylphosphonic acid adenylate ester · ligand · chains F
- MG · Magnesium ion · metal · 5 copies · chains A, B, C, D
- CA · Calcium ion · metal · chains C
- MES · 2-(N-morpholino)-ethanesulfonic acid · additive · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- 6K9V · Crystal structure of tubulin in complex with inhibitor D64 · the same entry in another collection · chain F against F, TM-score 1.00
- P81947 · AlphaFold monomer V2.0 prediction for tubulin alpha-1B chain (P81947) · a predicted model of the same protein · chain C against A, TM-score 0.96
- P63043 · AlphaFold monomer V2.0 prediction for stathmin-4 (P63043) · a predicted model of the same protein · chain E against A, TM-score 0.77
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt P81947
- Every structure of UniProt Q6B856
- Every structure of UniProt P63043
- Every structure of UniProt E1BQ43
- Elsewhere: RCSB PDB 6K9V · PDBe 6K9V · UniProt P81947 · UniProt Q6B856 · UniProt P63043 · UniProt E1BQ43
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