MolNFT v1 · #183705 · protein + DNA + RNA
Structure of the foamy viral protease-reverse transcriptase in complex with RNA/DNA hybrid.
7O0G · PR125POL: “Structure of the foamy viral protease-reverse transcriptase in complex with RNA/DNA hybrid.”. X-ray diffraction, 9 pockets (best druggability 0.77). MolNFT v1 #183705 on GenesisL1: 3D structure, binding sites and pockets…
- PDB
- 7O0G
- Type
- protein + DNA + RNA
- Length
- 765 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- PR125POL; RNA (5'- R(*UP*UP*CP*UP*UP*GP*UP*CP*CP*AP*GP*GP*AP*GP*AP*GP*G)-3'); DNA…
- EC
- 2.7.7.49, 2.7.7.7, 3.1.26.4
- UniProt
- D5JWV1
- Pockets
- 9 · best druggability 0.77
Structure
x-ray diffraction · 3 distinct chains · 34% helix, 24% 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 | 733 | 34% helix, 24% strand | D5JWV1 |
| E | RNA (5'- R(*UP*UP*CP*UP*UP*GP*UP*CP*CP*AP*GP*GP*AP*GP*AP*GP*G)-3') | rna | 17 | — | — |
| F | DNA (5'-D(*CP*CP*TP*CP*TP*CP*CP*TP*GP*GP*AP*CP*AP*AP*G)- 3') | dna | 15 | — | — |
Pockets
9 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 535 | 0.77 | 0.84 | 50 | empty |
| 2 | 604 | 0.75 | 0.81 | 53 | empty |
| 3 | 548 | 0.67 | 0.78 | 48 | empty |
| 4 | 342 | 0.57 | 0.75 | 38 | empty |
| 5 | 317 | 0.53 | 0.75 | 25 | empty |
Interfaces
3 interfaces between chains.
- E–F · 847 Ų buried · 80 hydrogen bonds · nucleic-nucleic
- A–E · 739 Ų buried · 17 hydrogen bonds · protein-nucleic
- A–F · 679 Ų buried · 7 hydrogen bonds · protein-nucleic
Compared structures
- 7O0G · Structure of the foamy viral protease-reverse transcriptase in complex with RNA/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 7O0G · PDBe 7O0G · UniProt D5JWV1
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