MolNFT v2 · #159312 · protein
Tubulin-RB3_SLD-TTL in complex with compound DJ95
6NNG: “Tubulin-RB3_SLD-TTL in complex with compound DJ95”. X-ray diffraction at 2.397, 6 ligands (GTP, GDP, DJ9). MolNFT v2 #159312 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6NNG
- Type
- protein
- Length
- 2,187 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 2.397
- Source
- Gallus gallus; Homo sapiens; Sus scrofa
- UniProt
- Q2XVP4, A0A287AGU7, Q9H169, E1BQ43
- Ligands
- GTP, GDP, DJ9, ACP, MG, CA
Structure
x-ray diffraction · resolution 2.397 · 6 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | — | protein | 439 | — | Q2XVP4 |
| B | — | protein | 427 | — | A0A287AGU7 |
| C | — | protein | 440 | — | Q2XVP4 |
| D | — | protein | 421 | — | A0A287AGU7 |
| E | — | protein | 121 | — | Q9H169 |
| F | — | protein | 339 | — | E1BQ43 |
Ligands and binding sites
- GTP · Guanosine-5'-triphosphate · ligand · 3 copies · chains A, B, C, D
- GDP · Guanosine-5'-diphosphate · ligand · chains B
- DJ9 · 2-(1H-indol-6-yl)-4-(3,4,5-trimethoxyphenyl)-1H-imidazo[4,5-c]pyridine · ligand · chains A, B
- ACP · Phosphomethylphosphonic acid adenylate ester · ligand · chains F
- MG · Magnesium ion · metal · 4 copies · chains A, B, C, D, F
- CA · Calcium ion · metal · 2 copies · chains A, C
- MES · 2-(N-morpholino)-ethanesulfonic acid · additive · 2 copies · chains B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- 6NNG · Tubulin-RB3_SLD-ttl in complex with compound DJ95 · the same entry in another collection · chain F against F, TM-score 1.00
- Q2XVP4 · AlphaFold monomer V2.0 prediction for tubulin alpha-1B chain (Q2XVP4) · a predicted model of the same protein · chain C against A, TM-score 0.96
- Q9H169 · AlphaFold monomer V2.0 prediction for stathmin-4 (Q9H169) · a predicted model of the same protein · chain E against A, TM-score 0.76
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 Q2XVP4
- Every structure of UniProt A0A287AGU7
- Every structure of UniProt Q9H169
- Every structure of UniProt E1BQ43
- Elsewhere: RCSB PDB 6NNG · PDBe 6NNG · UniProt Q2XVP4 · UniProt A0A287AGU7 · UniProt Q9H169 · UniProt E1BQ43
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