› 5flv

X-ray diffraction
3Å resolution

Crystal structure of NKX2-5 and TBX5 bound to the Nppa promoter region

Released:
DOI: 10.2210/pdb5flv/pdb
PDB entry 5flv coloured by chain, front view.
PDB entry 5flv coloured by chain, side view.
PDB entry 5flv coloured by chain, top view.
Source organism: Mus musculus
Primary publication:
Complex Interdependence Regulates Heterotypic Transcription Factor Distribution and Coordinates Cardiogenesis.
Luna-Zurita L, Stirnimann CU, Glatt S, Kaynak BL, Thomas S, Baudin F, Samee MA, He D, Small EM, Mileikovsky M, Nagy A, Holloway AK, Pollard KS, Müller CW, Bruneau BG
Cell 164 999-1014 (2016)
PMID: 26875865

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-118682 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
Homeobox protein Nkx-2.5; T-box transcription factor TBX5 Chains: A, E, I, M
Molecule details ›
Chains: A, E, I, M
Length: 285 amino acids
Theoretical weight: 32.95 KDa
Source organism: Mus musculus
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P42582 (Residues: 134-197; Coverage: 20%)
  • Canonical: P70326 (Residues: 51-251; Coverage: 39%)
Gene names: Csx, Nkx-2.5, Nkx2-5, Nkx2e, Tbx5
Sequence domains:
Structure domains:
5'-D(*TP*CP*TP*TP*CP*TP*CP*AP*CP*AP*CP*CP*TP*TP *TP*GP*AP*AP*GP*TP*GP*G)-3' Chains: B, F, J, N
Molecule details ›
Chains: B, F, J, N
Length: 22 nucleotides
Theoretical weight: 6.69 KDa
5'-D(*AP*CP*CP*AP*CP*TP*TP*CP*AP*AP*AP*GP*GP*TP *GP*TP*GP*AP*GP*AP*AP*G)-3' Chains: C, G, K, O
Molecule details ›
Chains: C, G, K, O
Length: 22 nucleotides
Theoretical weight: 6.81 KDa

Ligands and Environments

1 bound ligand:
Ligand PG4 2 x PG4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID14-4
Spacegroup: P21
Unit cell:
a: 58.08Å b: 158.62Å c: 87.86Å
α: 90° β: 89.95° γ: 90°
R-values:
R R work R free
0.196 0.19 0.241
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

32 review citations

Cardiac fibrosis in myocardial infarction-from repair and remodeling to regeneration.
Talman et al. (2016)
31 more

2 mentions without citation

Glycomimetics for the inhibition and modulation of lectins.
Leusmann et al. (2023)
1 more