Research workbench
+3 extended HIV-1 reverse transcriptase initiation complex core (pre- translocation state)
Analyse +3 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
- 6WB0
- Type
- protein + RNA
- Length
- 1,025 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
- 20 · best druggability 0.83
Structure
electron microscopy · 4 distinct chains · 34% helix, 13% 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 | 545 | 31% helix, 13% strand | P03366 |
| B | Reverse transcriptase P51 subunit | protein | 403 | 37% helix, 12% strand | P03366 |
| C | HIV-1 viral RNA genome fragment | rna | 35 | — | — |
| D | TRNA lysine 3 | rna | 42 | — | — |
Pockets
20 pockets found on a 1 Å grid, 18 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 841 | 0.83 | 0.85 | 85 | empty |
| 2 | 834 | 0.81 | 0.84 | 76 | empty |
| 3 | 813 | 0.78 | 0.81 | 85 | empty |
| 4 | 182 | 0.75 | 0.90 | 32 | empty |
| 5 | 282 | 0.74 | 0.87 | 46 | empty |
Interfaces
6 interfaces between chains.
- A–B · 2356 Ų buried · 12 hydrogen bonds · protein-protein
- C–D · 1382 Ų buried · 109 hydrogen bonds · nucleic-nucleic
- A–C · 1004 Ų buried · 15 hydrogen bonds · protein-nucleic
- A–D · 435 Ų buried · 0 hydrogen bonds · protein-nucleic
- B–D · 25 Ų buried · 0 hydrogen bonds · protein-nucleic
Compared structures
- 6WB0 · +3 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 6WB0 · PDBe 6WB0 · UniProt P03366
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