MolNFT v1 · #10647 · protein
Structure of ruvb complexed with ruva domain III
1IXS · Holliday junction DNA helicase ruva: “Structure of ruvb complexed with ruva domain III”. X-ray diffraction, 1 ligand (ANP), 2 pockets (best druggability 0.60). MolNFT v1 #10647 on GenesisL1: 3D structure, binding sites and pockets…
- PDB
- 1IXS
- Type
- protein
- Length
- 365 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Holliday junction DNA helicase ruva; Ruvb
- EC
- 3.6.1.3
- UniProt
- Q9F1Q3, Q5SL87
- Ligands
- ANP
- Pockets
- 2 · best druggability 0.60
Structure
x-ray diffraction · 2 distinct chains · 49% helix, 12% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Holliday junction DNA helicase ruva | protein | 50 | 70% helix, 0% strand | Q9F1Q3 |
| B | Ruvb (EC 3.6.1.3) | protein | 315 | 46% helix, 13% strand | Q5SL87 |
Ligands and binding sites
- ANP · Phosphoaminophosphonic acid-adenylate ester · ligand · chains B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 363 | 0.60 | 0.77 | 36 | ANP |
| 2 | 199 | 0.49 | 0.76 | 26 | empty |
Interfaces
1 interface between chains.
- A–B · 696 Ų buried · 7 hydrogen bonds · protein-protein
Compared structures
- 1IXS · Structure of RuvB complexed with RuvA domain III · the same entry in another collection · chain A against A, TM-score 1.00
- Q9F1Q3 · AlphaFold monomer V2.0 prediction for holliday junction ATP-dependent DNA helicase ruva… · a predicted model of the same protein · chain A against A, TM-score 0.95
- Q5SL87 · AlphaFold monomer V2.0 prediction for holliday junction ATP-dependent DNA helicase ruvb… · a predicted model of the same protein · chain B against A, TM-score 0.93
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 Q9F1Q3
- Every structure of UniProt Q5SL87
- Elsewhere: RCSB PDB 1IXS · PDBe 1IXS · UniProt Q9F1Q3 · UniProt Q5SL87
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