MolNFT v1 · #169237 · protein
Asymmetric model of CD4-bound B41 HIV-1 env sosip in complex with small molecule GO52
6X5C: “Asymmetric model of CD4-bound B41 HIV-1 env sosip in complex with small molecule GO52”. Electron microscopy, 4 ligands (UOV, NAG, MAN). MolNFT v1 #169237 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6X5C
- Type
- protein
- Length
- 1,776 residues
- Chains
- 9
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- UniProt
- B3UES2, B3UEZ6, P01730
- Ligands
- UOV, NAG, MAN, BMA
Structure
electron microscopy · 7 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | — | protein | 350 | — | B3UES2 |
| B | — | protein | 149 | — | B3UEZ6 |
| C, I, J | — | protein | 96 | — | P01730 |
| D | — | protein | 350 | — | B3UES2 |
| F | — | protein | 144 | — | B3UEZ6 |
| E | — | protein | 347 | — | B3UES2 |
| G | — | protein | 148 | — | B3UEZ6 |
Ligands and binding sites
- UOV · N-(4'-methyl[1,1'-biphenyl]-4-yl)-1-oxa-7-azaspiro[3.5]nonane-7-carboxamide · ligand · 3 copies · chains B, G, F
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 31 copies · chains A, D, E
- MAN · alpha-D-mannopyranose · sugar · 6 copies · chains A, D, E
- BMA · beta-D-mannopyranose · sugar · 3 copies
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- 6X5C · Asymmetric model of CD4-bound B41 HIV-1 Env SOSIP in complex with small molecule GO52 · the same entry in another collection · chain J against J, TM-score 1.00
- P01730 · AlphaFold monomer V2.0 prediction for T-cell surface glycoprotein CD4 (P01730) · a predicted model of the same protein · chain I against A, TM-score 0.96
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 B3UES2
- Every structure of UniProt B3UEZ6
- Every structure of UniProt P01730
- Elsewhere: RCSB PDB 6X5C · PDBe 6X5C · UniProt B3UES2 · UniProt B3UEZ6 · UniProt P01730
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