MolNFT v1 · #26581 · protein + DNA
Hyperthermophile chromosomal protein SAC7D double mutant V26F/M29F in complex with DNA gcgatcgc
1WTO · 5'-D(*GP*CP*GP*AP*TP*CP*GP*C)-3': “Hyperthermophile chromosomal protein SAC7D double mutant V26F/M29F in complex with DNA gcgatcgc”. X-ray diffraction, 2 pockets (best druggability 0.31). MolNFT v1 #26581 on GenesisL1: 3D structure…
- PDB
- 1WTO
- Type
- protein + DNA
- Length
- 81 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 5'-D(*GP*CP*GP*AP*TP*CP*GP*C)-3'; DNA-binding proteins 7A/7B/7D
- UniProt
- P13123
- Pockets
- 2 · best druggability 0.31
Structure
x-ray diffraction · 2 distinct chains · 28% helix, 54% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B, C | 5'-D(*GP*CP*GP*AP*TP*CP*GP*C)-3' | dna | 8 | — | — |
| A | DNA-binding proteins 7A/7B/7D | protein | 65 | 28% helix, 54% strand | P13123 |
Pockets
2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 63 | 0.31 | 0.75 | 16 | empty |
| 2 | 51 | 0.27 | 0.75 | 10 | empty |
Interfaces
3 interfaces between chains.
- B–A · 460 Ų buried · 11 hydrogen bonds · protein-nucleic
- C–A · 383 Ų buried · 5 hydrogen bonds · protein-nucleic
- B–C · 358 Ų buried · 32 hydrogen bonds · nucleic-nucleic
Compared structures
- 1WTO · Hyperthermophile chromosomal protein SAC7D double mutant V26F/M29F in complex with DNA… · the same entry in another collection · chain B against B, TM-score 1.00
- P13123 · AlphaFold monomer V2.0 prediction for DNA-binding protein 7D (P13123) · a predicted model of the same protein · chain A against A, TM-score 0.94
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 P13123
- Elsewhere: RCSB PDB 1WTO · PDBe 1WTO · UniProt P13123
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