› 4cyc

X-ray diffraction
2.36Å resolution

CRYSTAL STRUCTURE OF A UBX-EXD-DNA COMPLEX INCLUDING THE HEXAPEPTIDE AND UBDA MOTIFS

Released:
DOI: 10.2210/pdb4cyc/pdb
PDB entry 4cyc coloured by chain, front view.
PDB entry 4cyc coloured by chain, side view.
PDB entry 4cyc coloured by chain, top view.
Source organism: Drosophila melanogaster
Primary publication:
A flexible extension of the Drosophila ultrabithorax homeodomain defines a novel Hox/PBC interaction mode.
Foos N, Maurel-Zaffran C, Maté MJ, Vincentelli R, Hainaut M, Berenger H, Pradel J, Saurin AJ, Ortiz-Lombardía M, Graba Y
Structure 23 270-9 (2015)
PMID: 25651060

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-117301 (preferred)
Entry contents:
2 distinct polypeptide molecules
2 distinct DNA molecules
Macromolecules (4 distinct):
Homeotic protein ultrabithorax Chain: A
Molecule details ›
Chain: A
Length: 93 amino acids
Theoretical weight: 11.46 KDa
Source organism: Drosophila melanogaster
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P83949 (Residues: 233-367; Coverage: 24%)
Gene names: CG10388, Ubx
Sequence domains: Homeodomain
Structure domains: Homeodomain-like
Homeobox protein extradenticle Chain: B
Molecule details ›
Chain: B
Length: 76 amino acids
Theoretical weight: 8.86 KDa
Source organism: Drosophila melanogaster
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P40427 (Residues: 238-312; Coverage: 20%)
Gene names: CG8933, exd
Sequence domains: Homeobox KN domain
Structure domains: Homeodomain-like
5'-D(*GP*TP*CP*GP*CP*CP*AP*TP*AP*AP*AP*TP*CP*AP*CP)-3' Chain: C
Molecule details ›
Chain: C
Length: 15 nucleotides
Theoretical weight: 4.54 KDa
5'-D(*AP*CP*GP*TP*GP*AP*TP*TP*TP*AP*TP*GP*GP*CP*GP)-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: SOLEIL BEAMLINE PROXIMA 1
Spacegroup: P3221
Unit cell:
a: 97.707Å b: 97.707Å c: 73.735Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.213 0.212 0.227
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

6 review citations

Homeodomain proteins: an update.
Bürglin et al. (2016)
5 more

1 mention without citation

Atomistic molecular dynamics simulations of bioactive engrailed 1 interference peptides (EN1-iPeps).
Gandhi et al. (2018)