Research workbench
Adeno-associated virus helicase domain heptamer with ssdna
Analyse Adeno-associated virus helicase domain heptamer with ssdna in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7JSF
- Type
- protein + DNA
- Length
- 1,936 residues
- Chains
- 8
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein REP68; DNA (5'-D(P*TP*TP*TP*T)-3')
- EC
- 3.6.4.12
- UniProt
- P03132
- Pockets
- 18 · best druggability 0.58
Structure
electron microscopy · 2 distinct chains · 35% helix, 11% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F, G | Protein REP68 (EC 3.6.4.12) | protein | 276 | 35% helix, 11% strand | P03132 |
| H | DNA (5'-D(P*TP*TP*TP*T)-3') | dna | 4 | — | — |
Pockets
18 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 549 | 0.58 | 0.73 | 68 | empty |
| 2 | 502 | 0.57 | 0.73 | 63 | empty |
| 3 | 514 | 0.56 | 0.73 | 61 | empty |
| 4 | 504 | 0.55 | 0.73 | 70 | empty |
| 5 | 479 | 0.55 | 0.73 | 62 | empty |
Interfaces
7 interfaces between chains.
- C–D · 99 Ų buried · 0 hydrogen bonds · protein-protein
- F–G · 96 Ų buried · 0 hydrogen bonds · protein-protein
- B–C · 93 Ų buried · 0 hydrogen bonds · protein-protein
- D–E · 90 Ų buried · 0 hydrogen bonds · protein-protein
- A–G · 88 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 7JSF · Adeno-Associated Virus Helicase domain Heptamer with ssDNA · the same entry in another collection · chain A against A, 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 P03132
- Elsewhere: RCSB PDB 7JSF · PDBe 7JSF · UniProt P03132
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