Research workbench
Structure of the foamy viral protease-reverse transcriptase drh in complex with ds DNA.
Analyse Structure of the foamy viral protease-reverse transcriptase drh in complex with… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7O0H
- Type
- protein + DNA
- Length
- 1,117 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- PR125POL; DNA (5'-D(*AP*AP*CP*AP*GP*AP*GP*TP*GP*CP*GP*AP*CP*AP*C)- 3'); DNA…
- EC
- 2.7.7.49, 2.7.7.7, 3.1.26.4
- UniProt
- D5JWV1
- Pockets
- 16 · best druggability 0.86
Structure
x-ray diffraction · 4 distinct chains · 33% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | PR125POL (EC 2.7.7.49, 2.7.7.7, 3.1.26.4) | protein | 566 | 33% helix, 24% strand | D5JWV1 |
| B | PR125POL (EC 2.7.7.49, 2.7.7.7, 3.1.26.4) | protein | 523 | 33% helix, 20% strand | D5JWV1 |
| E | DNA (5'-D(*AP*AP*CP*AP*GP*AP*GP*TP*GP*CP*GP*AP*CP*AP*C)- 3') | dna | 15 | — | — |
| F | DNA (5'-D(*GP*TP*GP*TP*CP*GP*CP*AP*CP*TP*CP*TP*G)-3') | dna | 13 | — | — |
Pockets
16 pockets found on a 1 Å grid, 13 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1015 | 0.86 | 0.88 | 92 | empty |
| 2 | 110 | 0.78 | 0.97 | 21 | empty |
| 3 | 358 | 0.77 | 0.87 | 41 | empty |
| 4 | 1079 | 0.75 | 0.77 | 96 | empty |
| 5 | 251 | 0.74 | 0.88 | 33 | empty |
Interfaces
6 interfaces between chains.
- A–B · 1970 Ų buried · 24 hydrogen bonds · protein-protein
- A–E · 1083 Ų buried · 6 hydrogen bonds · protein-nucleic
- A–F · 686 Ų buried · 8 hydrogen bonds · protein-nucleic
- E–F · 607 Ų buried · 63 hydrogen bonds · nucleic-nucleic
- B–F · 214 Ų buried · 3 hydrogen bonds · protein-nucleic
Compared structures
- 7O0H · Structure of the foamy viral protease-reverse transcriptase dRH in complex with ds DNA. · 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 D5JWV1
- Elsewhere: RCSB PDB 7O0H · PDBe 7O0H · UniProt D5JWV1
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