MolNFT v1 · #171050 · protein
P140-P110 complex fitted into the cryo-electron density MAP of the heterodimer
6YRK · Mgp-operon protein 3: “P140-P110 complex fitted into the cryo-electron density MAP of the heterodimer”. Electron microscopy, 20 pockets (best druggability 0.82). MolNFT v1 #171050 on GenesisL1: 3D structure, binding sites and…
- PDB
- 6YRK
- Type
- protein
- Length
- 1,937 residues
- Chains
- 2
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Mgp-operon protein 3; Adhesin P1
- UniProt
- P22747, P20796
- Pockets
- 20 · best druggability 0.82
Structure
electron microscopy · 2 distinct chains · 17% helix, 25% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Mgp-operon protein 3 | protein | 777 | 15% helix, 33% strand | P22747 |
| B | Adhesin P1 | protein | 1160 | 19% helix, 20% strand | P20796 |
Pockets
20 pockets found on a 1 Å grid, 13 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 307 | 0.82 | 0.93 | 35 | empty |
| 2 | 1053 | 0.82 | 0.83 | 125 | empty |
| 3 | 1133 | 0.80 | 0.81 | 108 | empty |
| 4 | 288 | 0.76 | 0.89 | 39 | empty |
| 5 | 207 | 0.75 | 0.90 | 51 | empty |
Interfaces
1 interface between chains.
- A–B · 2906 Ų buried · 36 hydrogen bonds · protein-protein
Compared structures
- 6YRK · P140-P110 complex fitted into the cryo-electron density map of the heterodimer · the same entry in another collection · chain A against A, TM-score 1.00
- P20796 · AlphaFold monomer V2.0 prediction for adhesin P1 (P20796) · a predicted model of the same protein · chain B against A, TM-score 1.00
- P22747 · AlphaFold monomer V2.0 prediction for mgp-operon protein 3 (P22747) · a predicted model of the same protein · 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 P22747
- Every structure of UniProt P20796
- Elsewhere: RCSB PDB 6YRK · PDBe 6YRK · UniProt P22747 · UniProt P20796
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