› 2x6v

X-ray diffraction
2.2Å resolution

Crystal structure of human TBX5 in the DNA-bound and DNA-free form

Released:
DOI: 10.2210/pdb2x6v/pdb
PDB entry 2x6v coloured by chain, front view.
PDB entry 2x6v coloured by chain, side view.
PDB entry 2x6v coloured by chain, top view.
Source organisms:
Primary publication:
Structural basis of TBX5-DNA recognition: the T-box domain in its DNA-bound and -unbound form.
Stirnimann CU, Ptchelkine D, Grimm C, Müller CW
J Mol Biol 400 71-81 (2010)
PMID: 20450920

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-115919 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
T-box transcription factor TBX5 Chains: A, B
Molecule details ›
Chains: A, B
Length: 203 amino acids
Theoretical weight: 23.41 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q99593 (Residues: 50-251; Coverage: 39%)
Gene name: TBX5
Sequence domains: T-box
Structure domains: Transcription factor, T-box
5'-D(*TP*CP*TP*CP*AP*CP*AP*CP*CP*TP*TP)-3' Chain: C
Molecule details ›
Chain: C
Length: 11 nucleotides
Theoretical weight: 3.24 KDa
Source organism: synthetic construct
Expression system: Not provided
5'-D(*TP*AP*AP*GP*GP*TP*GP*TP*GP*AP*GP)-3' Chain: D
Molecule details ›
Chain: D
Length: 11 nucleotides
Theoretical weight: 3.45 KDa
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

2 bound ligands:
Ligand MG 2 x MG
Ligand PE4 1 x PE4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID14-1
Spacegroup: P6122
Unit cell:
a: 118.24Å b: 118.24Å c: 243Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.199 0.197 0.225
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

5 review citations

TBX5: A Key Regulator of Heart Development.
Steimle et al. (2017)
4 more

12 mentions without citation

The T-box gene family: emerging roles in development, stem cells and cancer.
Papaioannou VE. (2014)
11 more