› 1b8i

X-ray diffraction
2.4Å resolution

STRUCTURE OF THE HOMEOTIC UBX/EXD/DNA TERNARY COMPLEX

Released:
DOI: 10.2210/pdb1b8i/pdb
PDB entry 1b8i coloured by chain, front view.
PDB entry 1b8i coloured by chain, side view.
PDB entry 1b8i coloured by chain, top view.
Source organism: Drosophila melanogaster
Primary publication:
Structure of a DNA-bound Ultrabithorax-Extradenticle homeodomain complex.
Passner JM, Ryoo HD, Shen L, Mann RS, Aggarwal AK
Nature 397 714-9 (1999)
PMID: 10067897

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-113465 (preferred)
Entry contents:
2 distinct polypeptide molecules
2 distinct DNA molecules
Macromolecules (4 distinct):
Homeotic protein ultrabithorax Chain: A
Molecule details ›
Chain: A
Length: 81 amino acids
Theoretical weight: 10 KDa
Source organism: Drosophila melanogaster
Expression system: Escherichia coli
UniProt:
  • Canonical: P83949 (Residues: 233-356; Coverage: 21%)
Gene names: CG10388, Ubx
Sequence domains: Homeodomain
Structure domains: Homeodomain-like
Homeobox protein extradenticle Chain: B
Molecule details ›
Chain: B
Length: 63 amino acids
Theoretical weight: 7.55 KDa
Source organism: Drosophila melanogaster
Expression system: Escherichia coli
UniProt:
  • Canonical: P40427 (Residues: 238-300; Coverage: 17%)
Gene names: CG8933, exd
Sequence domains: Homeobox KN domain
Structure domains: Homeodomain-like
DNA (5'-D(*GP*TP*CP*GP*CP*CP*AP*TP*AP*AP*AP*TP*CP*AP*C)-3') Chain: C
Molecule details ›
Chain: C
Length: 15 nucleotides
Theoretical weight: 4.54 KDa
DNA (5'-D(*AP*CP*GP*TP*GP*AP*TP*TP*TP*AP*TP*GP*GP*CP*G)-3') Chain: D
Molecule details ›
Chain: D
Length: 15 nucleotides
Theoretical weight: 4.64 KDa

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: CHESS BEAMLINE F1
Spacegroup: P43212
Unit cell:
a: 69.43Å b: 69.43Å c: 100.7Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.224 0.224 0.304
Expression system: Escherichia coli

Quick links

Citations

31 review citations

Origins of specificity in protein-DNA recognition.
Rohs et al. (2010)
30 more

26 mentions without citation

An overview of the structures of protein-DNA complexes.
Luscombe et al. (2000)
25 more