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Implications of the HIV-1 rev dimer structure at 3.2A resolution for multimeric binding to the rev response element
Analyse Implications of the HIV-1 rev dimer structure at 3.2A resolution for multimeric… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2X7L
- Type
- protein
- Length
- 2,964 residues
- Chains
- 18
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Fab heavy chain; Fab light chain; Protein rev
- UniProt
- P04616
- Pockets
- 20 · best druggability 0.81
Structure
x-ray diffraction · 3 distinct chains · 12% helix, 40% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C, E, G, H, J | Fab heavy chain | protein | 220 | 4% helix, 41% strand | — |
| B, D, F, I, K, L | Fab light chain | protein | 217 | 4% helix, 49% strand | — |
| M, N, O, P, Q, R | Protein rev | protein | 57 | 68% helix, 0% strand | P04616 |
Pockets
20 pockets found on a 1 Å grid, 9 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1099 | 0.81 | 0.83 | 128 | empty |
| 2 | 1072 | 0.81 | 0.83 | 128 | empty |
| 3 | 296 | 0.63 | 0.80 | 34 | empty |
| 4 | 534 | 0.62 | 0.75 | 54 | empty |
| 5 | 270 | 0.62 | 0.80 | 35 | empty |
Interfaces
28 interfaces between chains.
- G–I · 2064 Ų buried · 14 hydrogen bonds · protein-protein
- C–D · 2049 Ų buried · 15 hydrogen bonds · protein-protein
- J–K · 2048 Ų buried · 13 hydrogen bonds · protein-protein
- E–F · 2048 Ų buried · 15 hydrogen bonds · protein-protein
- H–L · 2046 Ų buried · 12 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 30 disulfide (disulfide).
Compared structures
- 2X7L · Implications of the HIV-1 Rev dimer structure at 3.2A resolution for multimeric binding… · the same entry in another collection · chain F against F, 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 P04616
- Elsewhere: RCSB PDB 2X7L · PDBe 2X7L · UniProt P04616
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