Research workbench
X-ray crystal structure of the N4 mini-vrnap P1 promoter complex
Analyse X-ray crystal structure of the N4 mini-vrnap P1 promoter complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3C2P
- Type
- protein + DNA
- Length
- 2,225 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- P1 promoter DNA; Virion RNA polymerase
- EC
- 2.7.7.6
- UniProt
- Q859P9
- Pockets
- 20 · best druggability 0.85
Structure
x-ray diffraction · 4 distinct chains · 56% helix, 11% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| C | P1 promoter DNA | dna | 20 | — | — |
| D | P1 promoter DNA | dna | 19 | — | — |
| A | Virion RNA polymerase (EC 2.7.7.6) | protein | 1093 | 57% helix, 11% strand | Q859P9 |
| B | Virion RNA polymerase (EC 2.7.7.6) | protein | 1093 | 56% helix, 10% strand | Q859P9 |
Pockets
20 pockets found on a 1 Å grid, 16 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 760 | 0.85 | 0.88 | 86 | empty |
| 2 | 1186 | 0.84 | 0.85 | 108 | empty |
| 3 | 1091 | 0.77 | 0.79 | 82 | empty |
| 4 | 241 | 0.69 | 0.85 | 34 | empty |
| 5 | 443 | 0.65 | 0.78 | 47 | empty |
Interfaces
3 interfaces between chains.
- C–A · 2002 Ų buried · 32 hydrogen bonds · protein-nucleic
- D–B · 1891 Ų buried · 32 hydrogen bonds · protein-nucleic
- A–B · 1083 Ų buried · 27 hydrogen bonds · protein-protein
Compared structures
- 3C2P · X-ray crystal structure of the N4 mini-vRNAP P1 promoter complex · 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 Q859P9
- Elsewhere: RCSB PDB 3C2P · PDBe 3C2P · UniProt Q859P9
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.