› 7pdy

X-ray diffraction
2.54Å resolution

A viral peptide from Marek's disease virus bound to chicken MHC-II molecule

Released:
DOI: 10.2210/pdb7pdy/pdb
PDB entry 7pdy coloured by chain, front view.
PDB entry 7pdy coloured by chain, side view.
PDB entry 7pdy coloured by chain, top view.
Source organisms:
Entry authors: Goryanin A, Cook AG, Kaufman J, Halabi S

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-159366 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (3 distinct):
Ig-like domain-containing protein Chains: A, C, E
Molecule details ›
Chains: A, C, E
Length: 191 amino acids
Theoretical weight: 21.97 KDa
Source organism: Gallus gallus
Expression system: Trichoplusia ni
UniProt:
  • Canonical: Q4U5Z6 (Residues: 27-214; Coverage: 81%)
Gene name: B-LA
Sequence domains:
38 kDa phosphoprotein; Ig-like domain-containing protein Chains: B, D, F
Molecule details ›
Chains: B, D, F
Length: 225 amino acids
Theoretical weight: 25.16 KDa
Source organisms: Expression system: Trichoplusia ni
UniProt:
  • Canonical: P68348 (Residues: 171-185; Coverage: 5%)
  • Canonical: Q4U5Z9 (Residues: 33-224; Coverage: 81%)
Gene names: B-LB, PP38
Sequence domains:

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
4 bound ligands:
Ligand NAG 4 x NAG
Ligand GOL 5 x GOL
Ligand ACT 7 x ACT
Ligand PEG 2 x PEG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I04-1
Spacegroup: P3221
Unit cell:
a: 238.538Å b: 238.538Å c: 76.521Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.218 0.216 0.252
Expression system: Trichoplusia ni

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