› 2ymt

X-ray diffraction
1.8Å resolution

gamma 2 adaptin EAR domain crystal structure with phage peptide GEEWGPWV

Released:
DOI: 10.2210/pdb2ymt/pdb
PDB entry 2ymt coloured by chain, front view.
PDB entry 2ymt coloured by chain, side view.
PDB entry 2ymt coloured by chain, top view.
Source organisms:
Primary publication:
The hepatitis B virus preS1 domain hijacks host trafficking proteins by motif mimicry.
Jürgens MC, Vörös J, Rautureau GJ, Shepherd DA, Pye VE, Muldoon J, Johnson CM, Ashcroft AE, Freund SM, Ferguson N
Nat Chem Biol 9 540-7 (2013)
PMID: 23851574

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-131143 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
AP-1 complex subunit gamma-like 2 Chain: A
Molecule details ›
Chain: A
Length: 124 amino acids
Theoretical weight: 13.76 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: O75843 (Residues: 665-785; Coverage: 15%)
Gene name: AP1G2
Sequence domains: Adaptin C-terminal domain
Structure domains: Immunoglobulin-like
PHAGE DISPLAY DERIVED GAMMA 2 ADAPTIN EAR DOMAIN BINDING PEPTIDE Chain: B
Molecule details ›
Chain: B
Length: 9 amino acids
Theoretical weight: 957 Da
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand PDO 1 x PDO
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU MICROMAX-007
Spacegroup: P212121
Unit cell:
a: 34.803Å b: 37.772Å c: 105.471Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.188 0.185 0.242
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

5 review citations

Classification of intrinsically disordered regions and proteins.
van der Lee et al. (2014)
4 more

1 mention without citation

Detection of peptide-binding sites on protein surfaces: the first step toward the modeling and targeting of peptide-mediated interactions.
Lavi et al. (2013)