MolNFT v1 · #179118 · protein + DNA
Crystal structure of a lambda-186 hybrid repressor
7JVT · Repressor protein ci: “Crystal structure of a lambda-186 hybrid repressor”. X-ray diffraction, 3 pockets (best druggability 0.67). MolNFT v1 #179118 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 7JVT
- Type
- protein + DNA
- Length
- 435 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Repressor protein ci; OL1 bottom; OL1 top
- UniProt
- P03034, P08707
- Pockets
- 3 · best druggability 0.67
Structure
x-ray diffraction · 4 distinct chains · 34% helix, 35% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| C | Repressor protein ci | protein | 198 | 34% helix, 36% strand | P03034, P08707 |
| D | Repressor protein ci | protein | 199 | 33% helix, 35% strand | P03034, P08707 |
| E | OL1 bottom | dna | 19 | — | — |
| F | OL1 top | dna | 19 | — | — |
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 702 | 0.67 | 0.76 | 85 | empty |
| 2 | 81 | 0.35 | 0.75 | 17 | empty |
| 3 | 55 | 0.27 | 0.74 | 15 | empty |
Interfaces
6 interfaces between chains.
- C–D · 1852 Ų buried · 27 hydrogen bonds · protein-protein
- E–F · 857 Ų buried · 76 hydrogen bonds · nucleic-nucleic
- D–E · 472 Ų buried · 8 hydrogen bonds · protein-nucleic
- C–F · 402 Ų buried · 12 hydrogen bonds · protein-nucleic
- D–F · 400 Ų buried · 10 hydrogen bonds · protein-nucleic
Compared structures
- 7JVT · Crystal structure of a lambda-186 hybrid repressor · the same entry in another collection · chain C against C, 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 P03034
- Every structure of UniProt P08707
- Elsewhere: RCSB PDB 7JVT · PDBe 7JVT · UniProt P03034 · UniProt P08707
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