MolNFT v1 · #191068 · protein
Crystal structure of human RECQL5 helicase apo form in complex with engineered nanobody (gluebody) G3-052
7ZMO · ATP-dependent DNA helicase Q5: “Crystal structure of human RECQL5 helicase apo form in complex with engineered nanobody (gluebody) G3-052”. X-ray diffraction, 2 ligands (ZN, SO4), 11 pockets (best druggability 0.64). MolNFT v1…
- PDB
- 7ZMO
- Type
- protein
- Length
- 1,130 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- ATP-dependent DNA helicase Q5; Gluebody G3-052
- EC
- 3.6.4.12
- UniProt
- O94762
- Ligands
- ZN, SO4
- Pockets
- 11 · best druggability 0.64
Structure
x-ray diffraction · 2 distinct chains · 38% helix, 25% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | ATP-dependent DNA helicase Q5 (EC 3.6.4.12) | protein | 441 | 49% helix, 14% strand | O94762 |
| K, C | Gluebody G3-052 | protein | 124 | 0% helix, 63% strand | — |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
11 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 548 | 0.64 | 0.76 | 71 | empty |
| 2 | 507 | 0.63 | 0.75 | 52 | empty |
| 3 | 136 | 0.45 | 0.77 | 25 | SO4 |
| 4 | 53 | 0.41 | 0.82 | 19 | empty |
| 5 | 88 | 0.40 | 0.78 | 21 | empty |
Interfaces
3 interfaces between chains.
- A–K · 746 Ų buried · 12 hydrogen bonds · protein-protein
- B–C · 693 Ų buried · 6 hydrogen bonds · protein-protein
- K–C · 527 Ų buried · 10 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 7ZMO · Crystal structure of human RECQL5 helicase APO form in complex with engineered nanobody… · the same entry in another collection · chain A against A, TM-score 1.00
- O94762 · AlphaFold monomer V2.0 prediction for ATP-dependent DNA helicase Q5 (O94762) · a predicted model of the same protein · chain A against A, TM-score 0.73
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 O94762
- Elsewhere: RCSB PDB 7ZMO · PDBe 7ZMO · UniProt O94762
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.