› 7apz

X-ray diffraction
1.97Å resolution

CLIP peptide bound to chicken MHC class II molecule (BL-2) from B2 haplotype with a decamer mode of binding

Released:
DOI: 10.2210/pdb7apz/pdb
PDB entry 7apz coloured by chain, front view.
PDB entry 7apz coloured by chain, side view.
PDB entry 7apz coloured by chain, top view.
Source organism: Gallus gallus
Entry authors: Halabi S, Kaufman J

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-110180 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Ig-like domain-containing protein Chain: A
Molecule details ›
Chain: A
Length: 184 amino acids
Theoretical weight: 21.23 KDa
Source organism: Gallus gallus
Expression system: Trichoplusia ni
UniProt:
  • Canonical: Q4U5Z6 (Residues: 27-207; Coverage: 78%)
Gene name: B-LA
Sequence domains:
Ig-like domain-containing protein Chain: B
Molecule details ›
Chain: B
Length: 225 amino acids
Theoretical weight: 25.01 KDa
Source organism: Gallus gallus
Expression system: Trichoplusia ni
UniProt:
  • Canonical: B5BSA0 (Residues: 30-224; Coverage: 82%)
Gene name: BLB2
Sequence domains:

Ligands and Environments

6 bound ligands:
Ligand IMD 2 x IMD
Ligand ACE 10 x ACE
Ligand ZN 10 x ZN
Ligand PEG 1 x PEG
Ligand NAG 2 x NAG
Ligand NI 1 x NI
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I24
Spacegroup: P6522
Unit cell:
a: 82.803Å b: 82.803Å c: 263.071Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.212 0.21 0.255
Expression system: Trichoplusia ni

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