Research workbench
+1 extended HIV-1 reverse transcriptase initiation complex core (pre- translocation state)
Analyse +1 extended HIV-1 reverse transcriptase initiation complex core (pre… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6WAZ
- Type
- protein + RNA
- Length
- 1,009 residues
- Chains
- 4
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Reverse TRANSCRIPTASE/RIBONUCLEASE H; Reverse transcriptase P51 subunit; HIV-1 viral RNA…
- EC
- 2.7.7.49, 2.7.7.7, 3.1.26.13
- UniProt
- P03366
- Pockets
- 19 · best druggability 0.83
Structure
electron microscopy · 4 distinct chains · 32% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Reverse TRANSCRIPTASE/RIBONUCLEASE H (EC 2.7.7.49, 2.7.7.7, 3.1.26.13) | protein | 550 | 29% helix, 15% strand | P03366 |
| B | Reverse transcriptase P51 subunit | protein | 405 | 36% helix, 14% strand | P03366 |
| C | HIV-1 viral RNA genome fragment | rna | 23 | — | — |
| D | TRNA lysine 3 | rna | 31 | — | — |
Pockets
19 pockets found on a 1 Å grid, 12 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1183 | 0.83 | 0.84 | 101 | empty |
| 2 | 834 | 0.79 | 0.82 | 77 | empty |
| 3 | 171 | 0.74 | 0.91 | 22 | empty |
| 4 | 200 | 0.69 | 0.87 | 36 | empty |
| 5 | 143 | 0.67 | 0.88 | 28 | empty |
Interfaces
5 interfaces between chains.
- A–B · 2630 Ų buried · 17 hydrogen bonds · protein-protein
- C–D · 1210 Ų buried · 101 hydrogen bonds · nucleic-nucleic
- A–D · 619 Ų buried · 7 hydrogen bonds · protein-nucleic
- A–C · 590 Ų buried · 9 hydrogen bonds · protein-nucleic
- B–D · 53 Ų buried · 1 hydrogen bond · protein-nucleic
Compared structures
- 6WAZ · +1 extended HIV-1 reverse transcriptase initiation complex core (pre-translocation state) · 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 P03366
- Elsewhere: RCSB PDB 6WAZ · PDBe 6WAZ · UniProt P03366
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