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CRYSTAL STRUCTURE OF ESCHERICHIA COLI ENDONUCLEASE IV IN COMPLEX WITH DAMAGED DNA

X-ray diffraction
1.55Å resolution
PDB entry 1qum coloured by chain, front view.
PDB entry 1qum coloured by chain, side view.
PDB entry 1qum coloured by chain, top view.
Source organism: Escherichia coli
Assembly composition:
hetero tetramer (preferred)
Entry contents: 1 distinct polypeptide molecule
3 distinct DNA molecules

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Assemblies

Assembly 1 (preferred)
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Assembly Name: Endonuclease 4 and DNA
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Multimeric state: hetero tetramer
Accessible surface area: 14164.39 Å2
Buried surface area: 4386.81 Å2
Dissociation area: 612.99 Å2
Dissociation energy (ΔGdiss): 19.37 kcal/mol
Dissociation entropy (TΔSdiss): 8.27 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-114473

Macromolecules

Endonuclease 4
Chain: A
Length: 285 amino acids
Theoretical weight: 31.52 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0A6C1 (Residues: 1-285; Coverage: 100%)
Gene names: JW2146, b2159, nfo
Pfam: Xylose isomerase-like TIM barrel
InterPro:
CATH: Divalent-metal-dependent TIM barrel enzymes
SCOP: Endonuclease IV
Endonuclease 4 in PDB entry 1qum, assembly 1, front view.
Endonuclease 4 in PDB entry 1qum, assembly 1, side view.
Endonuclease 4 in PDB entry 1qum, assembly 1, top view.
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DNA chain B
Name: 5'-D(*CP*GP*TP*CP*C)-3'
Representative chains: B
Source organism: Escherichia coli [562]
Expression system: Not provided
Length: 6 nucleotides
Theoretical weight: 1.79 KDa
5'-D(*CP*GP*TP*CP*C)-3' in PDB entry 1qum, assembly 1, front view.
5'-D(*CP*GP*TP*CP*C)-3' in PDB entry 1qum, assembly 1, side view.
5'-D(*CP*GP*TP*CP*C)-3' in PDB entry 1qum, assembly 1, top view.
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DNA chain C
Name: 5'-D(*(3DR)P*CP*GP*AP*CP*GP*A)-3'
Representative chains: C
Source organism: Escherichia coli [562]
Expression system: Not provided
Length: 7 nucleotides
Theoretical weight: 2 KDa
5'-D(*(3DR)P*CP*GP*AP*CP*GP*A)-3' in PDB entry 1qum, assembly 1, front view.
5'-D(*(3DR)P*CP*GP*AP*CP*GP*A)-3' in PDB entry 1qum, assembly 1, side view.
5'-D(*(3DR)P*CP*GP*AP*CP*GP*A)-3' in PDB entry 1qum, assembly 1, top view.
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DNA chain D
Name: 5'-D(*TP*CP*GP*TP*CP*GP*GP*GP*GP*AP*CP*G)-3'
Representative chains: D
Source organism: Escherichia coli [562]
Expression system: Not provided
Length: 13 nucleotides
Theoretical weight: 4.01 KDa
5'-D(*TP*CP*GP*TP*CP*GP*GP*GP*GP*AP*CP*G)-3' in PDB entry 1qum, assembly 1, front view.
5'-D(*TP*CP*GP*TP*CP*GP*GP*GP*GP*AP*CP*G)-3' in PDB entry 1qum, assembly 1, side view.
5'-D(*TP*CP*GP*TP*CP*GP*GP*GP*GP*AP*CP*G)-3' in PDB entry 1qum, assembly 1, top view.
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