MolNFT v1 · #167201 · protein + DNA
Cryoem structure of HIV-1 conserved intasome core
6VDK: “Cryoem structure of HIV-1 conserved intasome core”. Electron microscopy, 2 ligands (DLU, MG). MolNFT v1 #167201 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6VDK
- Type
- protein + DNA
- Length
- 1,378 residues
- Chains
- 12
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- UniProt
- F2WR39
- Ligands
- DLU, MG
Structure
electron microscopy · 8 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C | — | protein | 270 | — | F2WR39 |
| B | — | protein | 264 | — | F2WR39 |
| D | — | protein | 262 | — | F2WR39 |
| E, G | — | dna | 27 | — | — |
| F, H | — | dna | 25 | — | — |
| I, J | — | protein | 56 | — | F2WR39 |
| M | — | protein | 49 | — | F2WR39 |
| P | — | protein | 47 | — | F2WR39 |
Ligands and binding sites
- DLU · (4r,12as)-N-(2,4-difluorobenzyl)-7-hydroxy-4-methyl-6, 8-dioxo-3,4,6,8,12,12A-hexahydro-2H-pyrido[1',2':4, 5]pyrazino[2,1-b][1,3]oxazine-9-carboxamide · ligand · 2 copies · chains A, G, H, P, C, E, F, M
- MG · Magnesium ion · metal · 4 copies · chains A, C, F
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- 6VDK · CryoEM structure of HIV-1 conserved Intasome 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 F2WR39
- Elsewhere: RCSB PDB 6VDK · PDBe 6VDK · UniProt F2WR39
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