› 7cli

X-ray diffraction
3Å resolution

Structure of NF-kB p52 homodimer bound to P-Selectin kB DNA fragment

Released:
DOI: 10.2210/pdb7cli/pdb
PDB entry 7cli coloured by chain, front view.
PDB entry 7cli coloured by chain, side view.
PDB entry 7cli coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structures of NF-κB p52 homodimer-DNA complexes rationalize binding mechanisms and transcription activation.
Pan W, Meshcheryakov VA, Li T, Wang Y, Ghosh G, Wang VY
Elife 12 (2023)
PMID: 36779700

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-121155 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
Nuclear factor NF-kappa-B p52 subunit Chains: A, B
Molecule details ›
Chains: A, B
Length: 398 amino acids
Theoretical weight: 43.73 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q00653 (Residues: 1-398; Coverage: 44%)
Gene names: LYT10, NFKB2
Sequence domains:
DNA (5'-D(*CP*AP*AP*GP*GP*GP*GP*TP*CP*AP*CP*CP*CP*CP*CP*TP*TP*C)-3') Chain: C
Molecule details ›
Chain: C
Length: 18 nucleotides
Theoretical weight: 5.44 KDa
Source organism: Homo sapiens
Expression system: Not provided
DNA (5'-D(*GP*AP*AP*GP*GP*GP*GP*GP*TP*GP*AP*CP*CP*CP*CP*TP*TP*G)-3') Chain: D
Molecule details ›
Chain: D
Length: 18 nucleotides
Theoretical weight: 5.6 KDa
Source organism: Homo sapiens
Expression system: Not provided

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL19U1
Spacegroup: P212121
Unit cell:
a: 84.495Å b: 85.37Å c: 140.29Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.238 0.236 0.275
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

2 mentions without citation

Origin of the Functional Distinctiveness of NF-κB/p52.
Ghosh et al. (2021)
1 more