Research workbench
Cryo-EM structure of recbcd with undocked recbnuc and flexible recd
Analyse Cryo-EM structure of recbcd with undocked recbnuc and flexible recd in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7MR2
- Type
- protein
- Length
- 2,075 residues
- Chains
- 3
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Recbcd enzyme subunit recb; Recbcd enzyme subunit recc; Recbcd enzyme subunit recd
- EC
- 3.1.11.5
- UniProt
- P08394, P07648, P04993
- Pockets
- 20 · best druggability 0.81
Structure
electron microscopy · 3 distinct chains · 47% helix, 9% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B | Recbcd enzyme subunit recb (EC 3.1.11.5) | protein | 855 | 48% helix, 9% strand | P08394 |
| C | Recbcd enzyme subunit recc (EC 3.1.11.5) | protein | 1097 | 46% helix, 10% strand | P07648 |
| D | Recbcd enzyme subunit recd (EC 3.1.11.5) | protein | 123 | 55% helix, 8% strand | P04993 |
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1016 | 0.81 | 0.82 | 95 | empty |
| 2 | 300 | 0.77 | 0.89 | 31 | empty |
| 3 | 138 | 0.77 | 0.94 | 25 | empty |
| 4 | 120 | 0.76 | 0.95 | 25 | empty |
| 5 | 766 | 0.75 | 0.80 | 80 | empty |
Interfaces
2 interfaces between chains.
- B–C · 4811 Ų buried · 47 hydrogen bonds · protein-protein
- C–D · 811 Ų buried · 6 hydrogen bonds · protein-protein
Compared structures
- 7MR2 · Cryo-EM structure of RecBCD with undocked RecBNuc and flexible RecD · the same entry in another collection · chain B against B, TM-score 1.00
- P07648 · AlphaFold monomer V2.0 prediction for recbcd enzyme subunit recc (P07648) · a predicted model of the same protein · chain C against A, TM-score 0.93
- P08394 · AlphaFold monomer V2.0 prediction for recbcd enzyme subunit recb (P08394) · a predicted model of the same protein · chain B against A, TM-score 0.92
- P04993 · AlphaFold monomer V2.0 prediction for recbcd enzyme subunit recd (P04993) · a predicted model of the same protein · chain D against A, TM-score 0.83
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 P08394
- Every structure of UniProt P07648
- Every structure of UniProt P04993
- Elsewhere: RCSB PDB 7MR2 · PDBe 7MR2 · UniProt P08394 · UniProt P07648 · UniProt P04993
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.