› 2i9t

X-ray diffraction
2.8Å resolution

Structure of NF-kB p65-p50 heterodimer bound to PRDII element of B-interferon promoter

Released:
DOI: 10.2210/pdb2i9t/pdb
PDB entry 2i9t coloured by chain, front view.
PDB entry 2i9t coloured by chain, side view.
PDB entry 2i9t coloured by chain, top view.
Source organism: Mus musculus
Primary publication:
Structure of NF-kappaB p50/p65 heterodimer bound to the PRDII DNA element from the interferon-beta promoter.
Escalante CR, Shen L, Thanos D, Aggarwal AK
Structure 10 383-91 (2002)
PMID: 12005436

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-115388 (preferred)
Entry contents:
2 distinct polypeptide molecules
2 distinct DNA molecules
Macromolecules (4 distinct):
Transcription factor p65 Chain: A
Molecule details ›
Chain: A
Length: 279 amino acids
Theoretical weight: 31.63 KDa
Source organism: Mus musculus
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q04207 (Residues: 19-291; Coverage: 50%)
Gene names: Nfkb3, Rela
Sequence domains:
Structure domains:
Nuclear factor NF-kappa-B p50 subunit Chain: B
Molecule details ›
Chain: B
Length: 313 amino acids
Theoretical weight: 35.06 KDa
Source organism: Mus musculus
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P25799 (Residues: 39-350; Coverage: 32%)
Gene name: Nfkb1
Sequence domains:
Structure domains:
5'-D(*AP*GP*TP*GP*GP*GP*AP*AP*AP*TP*TP*CP*CP*TP*CP*TP*G)-3' Chain: C
Molecule details ›
Chain: C
Length: 17 nucleotides
Theoretical weight: 5.24 KDa
5'-D(*CP*AP*GP*AP*GP*GP*AP*AP*TP*TP*TP*CP*CP*CP*AP*CP*T)-3' Chain: D
Molecule details ›
Chain: D
Length: 17 nucleotides
Theoretical weight: 5.17 KDa

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X25
Spacegroup: P21212
Unit cell:
a: 97.62Å b: 166.11Å c: 60.05Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.233 0.233 0.288
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

6 review citations

The enhanceosome.
Panne D. (2008)
5 more

7 mentions without citation

Structural basis of SETD6-mediated regulation of the NF-kB network via methyl-lysine signaling.
Chang et al. (2011)
6 more