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Crystal structure of MET184ILE mutant of HIV-1 reverse transcriptase in complex with double stranded DNA template-primer
Analyse Crystal structure of MET184ILE mutant of HIV-1 reverse transcriptase in complex… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1J5O
- Type
- protein + DNA
- Length
- 1,459 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 5'-D(*AP*TP*GP*GP*CP*GP*CP*CP*CP*GP*AP*AP*CP*AP*GP*GP*GP*AP *C)-3'…
- EC
- 2.7.7.49
- UniProt
- P03366
- Pockets
- 20 · best druggability 0.84
Structure
x-ray diffraction · 6 distinct chains · 24% helix, 26% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| T | 5'-D(*AP*TP*GP*GP*CP*GP*CP*CP*CP*GP*AP*AP*CP*AP*GP*GP*GP*AP *C)-3' | dna | 19 | — | — |
| P | 5'-D(*GP*TP*CP*CP*CP*TP*GP*TP*TP*CP*GP*GP*GP*CP*GP*CP*CP*A) -3' | dna | 18 | — | — |
| A | Reverse transcriptase (EC 2.7.7.49) | protein | 558 | 31% helix, 18% strand | P03366 |
| B | Reverse transcriptase (EC 2.7.7.49) | protein | 430 | 35% helix, 14% strand | P03366 |
| L | Antibody (light chain) | protein | 214 | 5% helix, 46% strand | — |
| H | Antibody (heavy chain) | protein | 220 | 6% helix, 51% strand | — |
Pockets
20 pockets found on a 1 Å grid, 13 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1164 | 0.84 | 0.85 | 98 | empty |
| 2 | 541 | 0.81 | 0.87 | 50 | empty |
| 3 | 996 | 0.79 | 0.81 | 70 | empty |
| 4 | 454 | 0.73 | 0.82 | 39 | empty |
| 5 | 58 | 0.64 | 0.94 | 15 | empty |
Interfaces
9 interfaces between chains.
- A–B · 2859 Ų buried · 38 hydrogen bonds · protein-protein
- L–H · 1822 Ų buried · 10 hydrogen bonds · protein-protein
- T–A · 839 Ų buried · 12 hydrogen bonds · protein-nucleic
- T–P · 834 Ų buried · 97 hydrogen bonds · nucleic-nucleic
- P–A · 819 Ų buried · 13 hydrogen bonds · protein-nucleic
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
- 1J5O · Crystal structure of MET184ILE mutant of HIV-1 reverse transcriptase in complex with… · the same entry in another collection · chain T against T, 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 1J5O · PDBe 1J5O · UniProt P03366
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