MolNFT v1 · #158928 · protein + DNA
Huaa 19BP sym DNA pH 4.5
6O8Q · DNA-binding protein hu-alpha: “Huaa 19BP sym DNA pH 4.5”. X-ray diffraction, 11 pockets (best druggability 0.83). MolNFT v1 #158928 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6O8Q
- Type
- protein + DNA
- Length
- 961 residues
- Chains
- 12
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA-binding protein hu-alpha; DNA (57-mer)
- UniProt
- P0ACF0
- Pockets
- 11 · best druggability 0.83
Structure
x-ray diffraction · 6 distinct chains · 49% helix, 25% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, D | DNA-binding protein hu-alpha | protein | 75 | 52% helix, 21% strand | P0ACF0 |
| B, C, F, G, H, J | DNA-binding protein hu-alpha | protein | 91 | 42% helix, 31% strand | P0ACF0 |
| E | DNA-binding protein hu-alpha | protein | 73 | 55% helix, 22% strand | P0ACF0 |
| I | DNA-binding protein hu-alpha | protein | 78 | 50% helix, 23% strand | P0ACF0 |
| K | DNA (57-mer) | dna | 57 | — | — |
| L | DNA (57-mer) | dna | 57 | — | — |
Pockets
11 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 510 | 0.83 | 0.90 | 52 | empty |
| 2 | 56 | 0.73 | 0.98 | 20 | empty |
| 3 | 639 | 0.65 | 0.75 | 47 | empty |
| 4 | 88 | 0.60 | 0.88 | 24 | empty |
| 5 | 77 | 0.59 | 0.89 | 15 | empty |
Interfaces
34 interfaces between chains.
- K–L · 2341 Ų buried · 112 hydrogen bonds · nucleic-nucleic
- E–F · 1918 Ų buried · 8 hydrogen bonds · protein-protein
- G–H · 1908 Ų buried · 13 hydrogen bonds · protein-protein
- I–J · 1906 Ų buried · 10 hydrogen bonds · protein-protein
- C–D · 1898 Ų buried · 5 hydrogen bonds · protein-protein
Compared structures
- 6O8Q · HUaa 19bp SYM DNA pH 4.5 · the same entry in another collection · chain L against L, 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 P0ACF0
- Elsewhere: RCSB PDB 6O8Q · PDBe 6O8Q · UniProt P0ACF0
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