MolNFT v1 · #149868 · protein
Met receptor in complex with inlb internalin domain and darpin A3A
6GCU · Hepatocyte growth factor receptor: “Met receptor in complex with inlb internalin domain and darpin A3A”. X-ray diffraction, 20 pockets (best druggability 0.74). MolNFT v1 #149868 on GenesisL1: 3D structure, binding sites and pockets…
- PDB
- 6GCU
- Type
- protein
- Length
- 2,232 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Hepatocyte growth factor receptor; Internalin B; Darpin A3A
- EC
- 2.7.10.1
- UniProt
- P08581, P25147
- Pockets
- 20 · best druggability 0.74
Structure
x-ray diffraction · 3 distinct chains · 16% helix, 34% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, D | Hepatocyte growth factor receptor (EC 2.7.10.1) | protein | 675 | 6% helix, 46% strand | P08581 |
| B, E | Internalin B | protein | 286 | 17% helix, 25% strand | P25147 |
| C, F | Darpin A3A | protein | 155 | 57% helix, 0% strand | — |
Pockets
20 pockets found on a 1 Å grid, 18 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1171 | 0.74 | 0.77 | 83 | empty |
| 2 | 838 | 0.72 | 0.77 | 54 | empty |
| 3 | 902 | 0.71 | 0.76 | 69 | empty |
| 4 | 780 | 0.69 | 0.76 | 66 | empty |
| 5 | 72 | 0.61 | 0.90 | 20 | empty |
Interfaces
6 interfaces between chains.
- D–E · 1716 Ų buried · 32 hydrogen bonds · protein-protein
- A–B · 1675 Ų buried · 29 hydrogen bonds · protein-protein
- D–F · 895 Ų buried · 15 hydrogen bonds · protein-protein
- A–C · 823 Ų buried · 9 hydrogen bonds · protein-protein
- B–E · 634 Ų buried · 8 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 20 disulfide, 1 isopeptide (disulfide, isopeptide).
Compared structures
- 6GCU · MET receptor in complex with InlB internalin domain and DARPin A3A · the same entry in another collection · chain A against A, TM-score 1.00
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 P08581
- Every structure of UniProt P25147
- Elsewhere: RCSB PDB 6GCU · PDBe 6GCU · UniProt P08581 · UniProt P25147
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