MolNFT v1 · #78757 · protein
Crystal structure of porcine crw-8 rotavirus VP8* in complex with aceramido-GM3_GC
3SIS · Outer capsid protein VP4: “Crystal structure of porcine crw-8 rotavirus VP8* in complex with aceramido-GM3_GC”. X-ray diffraction, 5 ligands (MN0, GLC, GAL). MolNFT v1 #78757 on GenesisL1: 3D structure, binding sites and pockets in…
- PDB
- 3SIS
- Type
- protein
- Length
- 322 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Outer capsid protein VP4
- UniProt
- P0C6Y8
- Ligands
- MN0, GLC, GAL, NGC, NA
Structure
x-ray diffraction · 2 distinct chains · 10% helix, 56% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Outer capsid protein VP4 | protein | 163 | 10% helix, 55% strand | P0C6Y8 |
| B | Outer capsid protein VP4 | protein | 159 | 10% helix, 56% strand | P0C6Y8 |
Ligands and binding sites
- MN0 · methyl 3,5-dideoxy-5-[(hydroxyacetyl)amino]-D-glycero-alpha-D-galacto-non-2-ulopyranosidonic acid · ligand · chains A
- GLC · alpha-D-glucopyranose · sugar
- GAL · beta-D-galactopyranose · sugar · chains B
- NGC · N-glycolyl-alpha-neuraminic acid · sugar · chains B
- NA · Sodium ion · metal · 2 copies · chains A, B
- MPD · (4S)-2-methyl-2,4-pentanediol · additive · chains B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Interfaces
1 interface between chains.
- A–B · 315 Ų buried · 10 hydrogen bonds · protein-protein
Compared structures
- 3SIS · Crystal structure of Porcine CRW-8 Rotavirus VP8* in complex with aceramido-GM3_Gc · 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 P0C6Y8
- Elsewhere: RCSB PDB 3SIS · PDBe 3SIS · UniProt P0C6Y8
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