MolNFT v1 · #170393 · protein

Structure of sheep polyomavirus VP1 in complex with 6'- sialyllactosamine

6Y64: “Structure of sheep polyomavirus VP1 in complex with 6'- sialyllactosamine”. X-ray diffraction, 4 ligands (SIA, GAL, NAG). MolNFT v1 #170393 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6Y64
Type: protein
Length: 2,538 residues
Chains: 10
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
UniProt: A0A0E3ZCF3
Ligands: SIA, GAL, NAG, MG

Structure

x-ray diffraction · 8 distinct chains.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, H	—	protein	257	—	A0A0E3ZCF3
B	—	protein	250	—	A0A0E3ZCF3
C, E	—	protein	258	—	A0A0E3ZCF3
D	—	protein	248	—	A0A0E3ZCF3
F	—	protein	258	—	A0A0E3ZCF3
G	—	protein	249	—	A0A0E3ZCF3
I	—	protein	254	—	A0A0E3ZCF3
J	—	protein	249	—	A0A0E3ZCF3

Ligands and binding sites

SIA · N-acetyl-alpha-neuraminic acid · sugar · 6 copies · chains C, D, F, J, G, I, A, B
GAL · beta-D-galactopyranose · sugar · 4 copies
NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · chains G
MG · Magnesium ion · metal · 14 copies · chains A, B, E, C, D, F, G, J, H, I
GOL · Glycerol · additive · 20 copies · chains A, E, B, D, F, G, H, I, J
EDO · 1,2-ethanediol · additive · 12 copies · chains A, B, C, D, E, F, G, H, I, J

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

Compared structures

6Y64 · Structure of Sheep Polyomavirus VP1 in complex with 6'-Sialyllactosamine · 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 A0A0E3ZCF3
Elsewhere: RCSB PDB 6Y64 · PDBe 6Y64 · UniProt A0A0E3ZCF3

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