MolNFT v1 · #143492 · protein + RNA
Architecture of HIV-1 reverse transcriptase initiation complex core
6B19 · Reverse transcriptase P66 subunit: “Architecture of HIV-1 reverse transcriptase initiation complex core”. Electron microscopy, 16 pockets (best druggability 0.74). MolNFT v1 #143492 on GenesisL1: 3D structure, binding sites and…
- PDB
- 6B19
- Type
- protein + RNA
- Length
- 945 residues
- Chains
- 4
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Reverse transcriptase P66 subunit; Reverse transcriptase P51 subunit; RNA genome…
- EC
- 2.7.7.49
- UniProt
- P03366
- Pockets
- 16 · best druggability 0.74
Structure
electron microscopy · 4 distinct chains · 31% helix, 10% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Reverse transcriptase P66 subunit (EC 2.7.7.49) | protein | 508 | 30% helix, 11% strand | P03366 |
| B | Reverse transcriptase P51 subunit (EC 2.7.7.49) | protein | 399 | 33% helix, 8% strand | P03366 |
| C | RNA genome fragment | rna | 19 | — | — |
| D | TRNA LYSINE3 | rna | 19 | — | — |
Pockets
16 pockets found on a 1 Å grid, 11 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 583 | 0.74 | 0.82 | 75 | empty |
| 2 | 799 | 0.74 | 0.79 | 87 | empty |
| 3 | 674 | 0.74 | 0.80 | 95 | empty |
| 4 | 625 | 0.70 | 0.78 | 63 | empty |
| 5 | 316 | 0.69 | 0.83 | 66 | empty |
Interfaces
4 interfaces between chains.
- C–D · 936 Ų buried · 119 hydrogen bonds · nucleic-nucleic
- A–B · 738 Ų buried · 3 hydrogen bonds · protein-protein
- A–C · 291 Ų buried · 0 hydrogen bonds · protein-nucleic
- A–D · 180 Ų buried · 1 hydrogen bond · protein-nucleic
Compared structures
- 6B19 · Architecture of HIV-1 reverse transcriptase initiation complex core · 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 6B19 · PDBe 6B19 · UniProt P03366
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