PDBe 1ubd

X-ray diffraction
2.5Å resolution

CO-CRYSTAL STRUCTURE OF HUMAN YY1 ZINC FINGER DOMAIN BOUND TO THE ADENO-ASSOCIATED VIRUS P5 INITIATOR ELEMENT

Released:
Primary publication:
Cocrystal structure of YY1 bound to the adeno-associated virus P5 initiator.
Proc. Natl. Acad. Sci. U.S.A. 93 13577-82 (1996)
PMID: 8942976

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
Transcriptional repressor protein YY1 Chain: C
Molecule details ›
Chain: C
Length: 124 amino acids
Theoretical weight: 14.19 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P25490 (Residues: 291-414; Coverage: 30%)
Gene names: INO80S, YY1
Sequence domains: Zinc finger, C2H2 type
Structure domains: Classic Zinc Finger
DNA (5'-D(*AP*GP*GP*GP*TP*CP*TP*CP*CP*AP*TP*TP*TP*TP*GP*AP*A P*GP*CP*G)-3') Chain: A
Molecule details ›
Chain: A
Length: 20 nucleotides
Theoretical weight: 6.16 KDa
Source organism: Synthetic construct
Expression system: Not provided
DNA (5'-D(*CP*GP*CP*TP*TP*CP*AP*AP*AP*AP*TP*GP*GP*AP*GP*AP*C P*CP*CP*T)-3') Chain: B
Molecule details ›
Chain: B
Length: 20 nucleotides
Theoretical weight: 6.1 KDa
Source organism: Synthetic construct
Expression system: Not provided

Ligands and Environments

1 bound ligand:

No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X12B
Spacegroup: P212121
Unit cell:
a: 44Å b: 65.7Å c: 117.1Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.212 0.212 0.33
Expression systems:
  • Escherichia coli
  • Not provided