Research workbench
Cryo-EM structure of recbcd with docked recbnuc and flexible recd
Analyse Cryo-EM structure of recbcd with docked 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
- 7MR0
- Type
- protein
- Length
- 2,400 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, 10% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B | Recbcd enzyme subunit recb (EC 3.1.11.5) | protein | 1156 | 47% helix, 10% strand | P08394 |
| C | Recbcd enzyme subunit recc (EC 3.1.11.5) | protein | 1121 | 47% helix, 10% strand | P07648 |
| D | Recbcd enzyme subunit recd (EC 3.1.11.5) | protein | 123 | 54% helix, 7% 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 | 894 | 0.81 | 0.83 | 98 | empty |
| 2 | 601 | 0.77 | 0.83 | 65 | empty |
| 3 | 674 | 0.77 | 0.82 | 76 | empty |
| 4 | 138 | 0.76 | 0.94 | 34 | empty |
| 5 | 415 | 0.75 | 0.84 | 45 | empty |
Interfaces
3 interfaces between chains.
- B–C · 7965 Ų buried · 63 hydrogen bonds · protein-protein
- C–D · 966 Ų buried · 3 hydrogen bonds · protein-protein
- B–D · 38 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 7MR0 · Cryo-EM structure of RecBCD with docked 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
- 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 0.87
- 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 0.79
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 7MR0 · PDBe 7MR0 · UniProt P08394 · UniProt P07648 · UniProt P04993
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