MolNFT v1 · #61647 · protein
HIV reverse transcriptase in complex with inhibitor R8E
3DRP · Reverse TRANSCRIPTASE/RIBONUCLEASE H: “HIV reverse transcriptase in complex with inhibitor R8E”. X-ray diffraction, 1 ligand (R8E), 14 pockets (best druggability 0.75). MolNFT v1 #61647 on GenesisL1: 3D structure, binding sites and…
- PDB
- 3DRP
- Type
- protein
- Length
- 962 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Reverse TRANSCRIPTASE/RIBONUCLEASE H; P51 rt
- EC
- 2.7.7.49, 2.7.7.7, 3.1.26.4
- UniProt
- P04585
- Ligands
- R8E
- Pockets
- 14 · best druggability 0.75
Structure
x-ray diffraction · 2 distinct chains · 33% helix, 21% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Reverse TRANSCRIPTASE/RIBONUCLEASE H (EC 2.7.7.49, 2.7.7.7, 3.1.26.4) | protein | 558 | 30% helix, 22% strand | P04585 |
| B | P51 rt | protein | 404 | 37% helix, 20% strand | P04585 |
Ligands and binding sites
- R8E · 3-{5-[(6-amino-1H-pyrazolo[3,4-b]pyridin-3-yl)methoxy]-2-chlorophenoxy}-5-chlorobenzonitrile · ligand · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
14 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 763 | 0.75 | 0.79 | 76 | empty |
| 2 | 745 | 0.74 | 0.80 | 63 | empty |
| 3 | 276 | 0.72 | 0.85 | 41 | R8E |
| 4 | 288 | 0.67 | 0.82 | 39 | empty |
| 5 | 286 | 0.57 | 0.77 | 31 | empty |
Interfaces
1 interface between chains.
- A–B · 2682 Ų buried · 34 hydrogen bonds · protein-protein
Compared structures
- 3DRP · HIV reverse transcriptase in complex with inhibitor R8e · 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 P04585
- Elsewhere: RCSB PDB 3DRP · PDBe 3DRP · UniProt P04585
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.