› 4p6z

X-ray diffraction
3Å resolution

Crystal structure of the human BST2 cytoplasmic domain and the HIV-1 Vpu cytoplasmic domain bound to the clathrin adaptor protein complex 1 (AP1) core

Released:
DOI: 10.2210/pdb4p6z/pdb
PDB entry 4p6z coloured by chain, front view.
PDB entry 4p6z coloured by chain, side view.
PDB entry 4p6z coloured by chain, top view.
Source organisms:
Primary publication:
Structural basis of HIV-1 Vpu-mediated BST2 antagonism via hijacking of the clathrin adaptor protein complex 1.
Jia X, Weber E, Tokarev A, Lewinski M, Rizk M, Suarez M, Guatelli J, Xiong Y
Elife 3 e02362 (2014)
PMID: 24843023

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero hexamer (preferred)
PDBe Complex ID:
PDB-CPX-148641 (preferred)
Entry contents:
6 distinct polypeptide molecules
Macromolecules (6 distinct):
AP-1 complex subunit gamma-1 Chain: G
Molecule details ›
Chain: G
Length: 627 amino acids
Theoretical weight: 70.94 KDa
Source organism: Mus musculus
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P22892 (Residues: 1-613; Coverage: 75%)
Gene names: Adtg, Ap1g1, Clapg1
Sequence domains: Adaptin N terminal region
Structure domains: Leucine-rich Repeat Variant
AP-1 complex subunit sigma-1A Chain: S
Molecule details ›
Chain: S
Length: 158 amino acids
Theoretical weight: 18.79 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P61966 (Residues: 1-158; Coverage: 100%)
Gene names: AP19, AP1S1, CLAPS1
Sequence domains: Clathrin adaptor complex small chain
Structure domains: Beta-Lactamase
AP-1 complex subunit mu-1 Chain: M
Molecule details ›
Chain: M
Length: 423 amino acids
Theoretical weight: 48.61 KDa
Source organism: Mus musculus
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P35585 (Residues: 1-423; Coverage: 100%)
Gene names: Ap1m1, Cltnm
Sequence domains:
Structure domains: Beta-Lactamase
AP-1 complex subunit beta-1 Chain: B
Molecule details ›
Chain: B
Length: 600 amino acids
Theoretical weight: 67.77 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q10567 (Residues: 1-584; Coverage: 62%)
Gene names: ADTB1, AP1B1, BAM22, CLAPB2
Sequence domains: Adaptin N terminal region
Structure domains: Leucine-rich Repeat Variant
Protein Vpu Chain: V
Molecule details ›
Chain: V
Length: 63 amino acids
Theoretical weight: 7.12 KDa
Source organism: Human immunodeficiency virus type 1 (SF162 ISOLATE)
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P19554 (Residues: 29-81; Coverage: 65%)
Gene name: vpu
Sequence domains: Vpu protein
Bone marrow stromal antigen 2 Chain: T
Molecule details ›
Chain: T
Length: 25 amino acids
Theoretical weight: 2.82 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q10589 (Residues: 1-21; Coverage: 12%)
Gene name: BST2

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 24-ID-E
Spacegroup: P43
Unit cell:
a: 160.536Å b: 160.536Å c: 118.393Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.188 0.186 0.229
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

18 review citations

Forty Years of Clathrin-coated Vesicles.
Robinson MS. (2015)
17 more

13 mentions without citation

HIV suppression by host restriction factors and viral immune evasion.
Jia et al. (2015)
12 more