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Homo sapiens CCCTC-binding factor (CTCF) ZnF5-8 and DNA complex structure in space group P41212

X-ray diffraction
2.287Å resolution
PDB entry 5k5j coloured by chain, front view.
PDB entry 5k5j coloured by chain, side view.
PDB entry 5k5j coloured by chain, top view.
Source organisms:
Assembly composition:
hetero trimer (preferred)
Entry contents: 1 distinct polypeptide molecule
2 distinct DNA molecules

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Assemblies

Assembly 1 (preferred)
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Assembly Name: Transcriptional repressor CTCF and DNA
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Multimeric state: hetero trimer
Accessible surface area: 11084.6 Å2
Buried surface area: 4167.63 Å2
Dissociation area: 970.62 Å2
Dissociation energy (ΔGdiss): 25.49 kcal/mol
Dissociation entropy (TΔSdiss): 10.37 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-118893

Macromolecules

Transcriptional repressor CTCF
Chain: A
Length: 117 amino acids
Theoretical weight: 13.72 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P49711 (Residues: 378-489; Coverage: 15%)
Gene name: CTCF
Pfam: Zinc finger, C2H2 type
InterPro:
Transcriptional repressor CTCF in PDB entry 5k5j, assembly 1, front view.
Transcriptional repressor CTCF in PDB entry 5k5j, assembly 1, side view.
Transcriptional repressor CTCF in PDB entry 5k5j, assembly 1, top view.
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DNA chain B
Name: DNA (5'-D(*CP*CP*CP*TP*GP*CP*TP*GP*GP*CP*AP*AP*C)-3')
Representative chains: B
Source organism: synthetic construct [32630]
Expression system: Not provided
Length: 13 nucleotides
Theoretical weight: 3.91 KDa
DNA (5'-D(*CP*CP*CP*TP*GP*CP*TP*GP*GP*CP*AP*AP*C)-3') in PDB entry 5k5j, assembly 1, front view.
DNA (5'-D(*CP*CP*CP*TP*GP*CP*TP*GP*GP*CP*AP*AP*C)-3') in PDB entry 5k5j, assembly 1, side view.
DNA (5'-D(*CP*CP*CP*TP*GP*CP*TP*GP*GP*CP*AP*AP*C)-3') in PDB entry 5k5j, assembly 1, top view.
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DNA chain C
Name: DNA (5'-D(*TP*TP*GP*CP*CP*AP*GP*CP*AP*GP*GP*GP*G)-3')
Representative chains: C
Source organism: synthetic construct [32630]
Expression system: Not provided
Length: 13 nucleotides
Theoretical weight: 4.03 KDa
DNA (5'-D(*TP*TP*GP*CP*CP*AP*GP*CP*AP*GP*GP*GP*G)-3') in PDB entry 5k5j, assembly 1, front view.
DNA (5'-D(*TP*TP*GP*CP*CP*AP*GP*CP*AP*GP*GP*GP*G)-3') in PDB entry 5k5j, assembly 1, side view.
DNA (5'-D(*TP*TP*GP*CP*CP*AP*GP*CP*AP*GP*GP*GP*G)-3') in PDB entry 5k5j, assembly 1, top view.
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