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MutM (Fpg) bound to 5,6-dihydrouracil (DHU) containing DNA

X-ray diffraction
1.63Å resolution
PDB entry 1r2z coloured by chain, front view.
PDB entry 1r2z coloured by chain, side view.
PDB entry 1r2z coloured by chain, top view.
Source organism: Geobacillus stearothermophilus
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: Formamidopyrimidine-DNA glycosylase and DNA
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Multimeric state: hetero trimer
Accessible surface area: 14345.17 Å2
Buried surface area: 3465.47 Å2
Dissociation area: 1,142.52 Å2
Dissociation energy (ΔGdiss): 4.49 kcal/mol
Dissociation entropy (TΔSdiss): 11.25 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-114489

Macromolecules

Formamidopyrimidine-DNA glycosylase
Chain: A
Length: 274 amino acids
Theoretical weight: 30.74 KDa
Source organism: Geobacillus stearothermophilus
Expression system: Escherichia coli
UniProt:
  • Canonical: P84131 (Residues: 1-274; Coverage: 100%)
Gene names: fpg, mutM
Pfam:
InterPro:
CATH:
SCOP:
Formamidopyrimidine-DNA glycosylase in PDB entry 1r2z, assembly 1, front view.
Formamidopyrimidine-DNA glycosylase in PDB entry 1r2z, assembly 1, side view.
Formamidopyrimidine-DNA glycosylase in PDB entry 1r2z, assembly 1, top view.
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DNA chain B
Name: 5'-D(*AP*GP*GP*TP*AP*GP*AP*CP*CP*TP*GP*GP*AP*CP*GP*C)-3'
Representative chains: B
Source organism: Geobacillus stearothermophilus [1422]
Expression system: Not provided
Length: 12 nucleotides
Theoretical weight: 3.69 KDa
5'-D(*AP*GP*GP*TP*AP*GP*AP*CP*CP*TP*GP*GP*AP*CP*GP*C)-3' in PDB entry 1r2z, assembly 1, front view.
5'-D(*AP*GP*GP*TP*AP*GP*AP*CP*CP*TP*GP*GP*AP*CP*GP*C)-3' in PDB entry 1r2z, assembly 1, side view.
5'-D(*AP*GP*GP*TP*AP*GP*AP*CP*CP*TP*GP*GP*AP*CP*GP*C)-3' in PDB entry 1r2z, assembly 1, top view.
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DNA chain C
Name: 5'-D(*TP*GP*CP*GP*TP*CP*CP*AP*(DHU)P*GP*TP*CP*TP*AP*CP*C)-3'
Representative chains: C
Source organism: Geobacillus stearothermophilus [1422]
Expression system: Not provided
Length: 12 nucleotides
Theoretical weight: 3.6 KDa
5'-D(*TP*GP*CP*GP*TP*CP*CP*AP*(DHU)P*GP*TP*CP*TP*AP*CP*C)-3' in PDB entry 1r2z, assembly 1, front view.
5'-D(*TP*GP*CP*GP*TP*CP*CP*AP*(DHU)P*GP*TP*CP*TP*AP*CP*C)-3' in PDB entry 1r2z, assembly 1, side view.
5'-D(*TP*GP*CP*GP*TP*CP*CP*AP*(DHU)P*GP*TP*CP*TP*AP*CP*C)-3' in PDB entry 1r2z, assembly 1, top view.
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