MolNFT v1 · #185070 · protein

A viral peptide from MAREK'S disease virus bound to chicken MHC-II molecule

7PDY: “A viral peptide from MAREK'S disease virus bound to chicken MHC-II molecule”. X-ray diffraction, 1 ligand (NAG). MolNFT v1 #185070 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 7PDY
Type: protein
Length: 1,165 residues
Chains: 6
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
UniProt: Q4U5Z6, P68348, Q4U5Z9
Ligands: NAG

Structure

x-ray diffraction · 6 distinct chains.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	—	protein	187	—	Q4U5Z6
B	—	protein	204	—	P68348, Q4U5Z9
C	—	protein	184	—	Q4U5Z6
D	—	protein	202	—	P68348, Q4U5Z9
E	—	protein	184	—	Q4U5Z6
F	—	protein	204	—	P68348, Q4U5Z9

Ligands and binding sites

NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 6 copies · chains E, F, A, C, D
ACT · Acetate ion · additive · 7 copies · chains A, B, C, E, D, F
GOL · Glycerol · additive · 5 copies · chains A, B, C, E
PEG · Di(hydroxyethyl)ether · additive · 2 copies · chains A, B

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

Compared structures

7PDY · A viral peptide from Marek's disease virus bound to chicken MHC-II molecule · 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 Q4U5Z6
Every structure of UniProt P68348
Every structure of UniProt Q4U5Z9
Elsewhere: RCSB PDB 7PDY · PDBe 7PDY · UniProt Q4U5Z6 · UniProt P68348 · UniProt Q4U5Z9

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