MolNFT v1 · #169960 · protein
Crystal structure of human VPS29 complexed with rapid-derived cyclic peptide rt-L1
6XS9: “Crystal structure of human VPS29 complexed with rapid-derived cyclic peptide rt-L1”. X-ray diffraction, 2 ligands (48V, O4B). MolNFT v1 #169960 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6XS9
- Type
- protein
- Length
- 424 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- UniProt
- Q9UBQ0
- Ligands
- 48V, O4B
Structure
x-ray diffraction · 2 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | — | protein | 184 | — | Q9UBQ0 |
| C, D, E, F | — | protein | 14 | — | — |
Ligands and binding sites
- 48V · {[(2R)-2,3-diamino-3-oxopropyl]sulfanyl}acetic acid · ligand · 4 copies · chains C, D, E, A, B, F
- O4B · 1,4,7,10,13,16-hexaoxacyclooctadecane · ligand · chains B
- GOL · Glycerol · additive · 4 copies · chains A, E, B, F
- MLI · Malonate ion · additive · 2 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- 6XS9 · Crystal structure of human Vps29 complexed with RaPID-derived cyclic peptide RT-L1 · the same entry in another collection · chain C against C, TM-score 1.00
- Q9UBQ0 · AlphaFold monomer V2.0 prediction for vacuolar protein sorting- associated protein 29… · a predicted model of the same protein · chain A against A, TM-score 0.98
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 Q9UBQ0
- Elsewhere: RCSB PDB 6XS9 · PDBe 6XS9 · UniProt Q9UBQ0
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