› 5byg

X-ray diffraction
2.5Å resolution

X-ray structure of AAV2 OBD-AAVS1 complex 2:1

Released:
DOI: 10.2210/pdb5byg/pdb
PDB entry 5byg coloured by chain, front view.
PDB entry 5byg coloured by chain, side view.
PDB entry 5byg coloured by chain, top view.
Source organisms:
Primary publication:
Structural Insights into the Assembly of the Adeno-associated Virus Type 2 Rep68 Protein on the Integration Site AAVS1.
Musayev FN, Zarate-Perez F, Bishop C, Burgner JW, Escalante CR
J Biol Chem 290 27487-99 (2015)
PMID: 26370092

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-118450 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
Protein Rep78 Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 213 amino acids
Theoretical weight: 24.55 KDa
Source organism: Adeno-associated virus 2 Srivastava/1982
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q89268 (Residues: 1-210; Coverage: 34%)
Gene name: Rep78
Sequence domains: Rep protein catalytic domain like
Structure domains: Replication Protein E1; Chain: A,
DNA (5'-D(*CP*TP*CP*GP*GP*CP*GP*CP*TP*CP*GP*CP*TP*CP*GP*CP*TP*CP*GP*CP*T)-3') Chains: E, G
Molecule details ›
Chains: E, G
Length: 21 nucleotides
Theoretical weight: 6.34 KDa
Source organism: Homo sapiens
Expression system: Not provided
DNA (5'-D(*GP*AP*GP*CP*GP*AP*GP*CP*GP*AP*GP*CP*GP*AP*GP*CP*GP*CP*CP*GP*A)-3') Chains: F, H
Molecule details ›
Chains: F, H
Length: 21 nucleotides
Theoretical weight: 6.55 KDa
Source organism: Homo sapiens
Expression system: Not provided

Ligands and Environments

2 bound ligands:
Ligand MG 3 x MG
Ligand CIT 2 x CIT
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X6A
Spacegroup: C2
Unit cell:
a: 183.136Å b: 79.595Å c: 139.502Å
α: 90° β: 98.12° γ: 90°
R-values:
R R work R free
0.191 0.189 0.227
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

4 review citations

Current Landscape of Heart Failure Gene Therapy.
Kieserman et al. (2019)
3 more

2 mentions without citation

Structural Insights into the Assembly of the Adeno-associated Virus Type 2 Rep68 Protein on the Integration Site AAVS1.
Musayev et al. (2015)
1 more