MolNFT v1 · #170391 · protein

Structure of new jersey polyomavirus VP1 in complex with 3'- sialyllactose

6Y5Y: “Structure of new jersey polyomavirus VP1 in complex with 3'- sialyllactose”. X-ray diffraction, 5 ligands (GAL, SIA, BGC). MolNFT v1 #170391 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6Y5Y
Type: protein
Length: 2,791 residues
Chains: 10
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
UniProt: A0A024B5J2
Ligands: GAL, SIA, BGC, GLC, MG

Structure

x-ray diffraction · 8 distinct chains.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	—	protein	279	—	A0A024B5J2
B	—	protein	283	—	A0A024B5J2
C, E	—	protein	281	—	A0A024B5J2
D	—	protein	285	—	A0A024B5J2
F, J	—	protein	274	—	A0A024B5J2
G	—	protein	285	—	A0A024B5J2
H	—	protein	274	—	A0A024B5J2
I	—	protein	275	—	A0A024B5J2

Ligands and binding sites

GAL · beta-D-galactopyranose · sugar · 10 copies · chains A, B, C, D, E, F, G, H, I, J
SIA · N-acetyl-alpha-neuraminic acid · sugar · 10 copies · chains A, B, C, D, E, F, G, H, I, J
BGC · beta-D-glucopyranose · sugar · 6 copies
GLC · alpha-D-glucopyranose · sugar · 4 copies
MG · Magnesium ion · metal · 10 copies · chains A, B, E, C, D, F, J, G, H, I
GOL · Glycerol · additive · 39 copies · chains A, E, B, C, D, F, G, H, I, J

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Compared structures

6Y5Y · Structure of New Jersey Polyomavirus VP1 in complex with 3'-Sialyllactose · 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 A0A024B5J2
Elsewhere: RCSB PDB 6Y5Y · PDBe 6Y5Y · UniProt A0A024B5J2

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