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Isoreticular, interpenetrating co-crystal of Replication Initiator Protein REPE54 and symmetrical expanded duplex (31mer) containing the cognate REPE54 sequence and an additional G-C rich sequence grown in a calcium chloride crystallization solution.

X-ray diffraction
3.1Å resolution
PDB entry 8d8m coloured by chain, front view.
PDB entry 8d8m coloured by chain, side view.
PDB entry 8d8m 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: Replication initiation protein and DNA
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Multimeric state: hetero trimer
Accessible surface area: 19907.8 Å2
Buried surface area: 6092.4 Å2
Dissociation area: 1,601.61 Å2
Dissociation energy (ΔGdiss): 22.89 kcal/mol
Dissociation entropy (TΔSdiss): 12.84 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-219054

Macromolecules

Replication initiation protein
Chain: C
Length: 263 amino acids
Theoretical weight: 30.75 KDa
Source organism: Escherichia coli K-12
Expression system: Escherichia coli
UniProt:
  • Canonical: P03856 (Residues: 1-251; Coverage: 100%)
Gene names: E, ECOK12F045, rep, repE
Pfam:
Replication initiation protein in PDB entry 8d8m, assembly 1, front view.
Replication initiation protein in PDB entry 8d8m, assembly 1, side view.
Replication initiation protein in PDB entry 8d8m, assembly 1, top view.
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DNA chain A
Name: DNA (5'-D(CP*CP*CP*GP*GP*AP*CP*CP*TP*GP*TP*GP*AP*CP*AP*AP*AP*TP*TP*GP*CP*CP*CP*TP*CP*AP*GP*AP*CP*GP*GP*A)-3')
Representative chains: A
Source organism: Escherichia coli [562]
Expression system: Not provided
Length: 32 nucleotides
Theoretical weight: 9.8 KDa
DNA (5'-D(CP*CP*CP*GP*GP*AP*CP*CP*TP*GP*TP*GP*AP*CP*AP*AP*AP*TP*TP*GP*CP*CP*CP*TP*CP*AP*GP*AP*CP*GP*GP*A)-3') in PDB entry 8d8m, assembly 1, front view.
DNA (5'-D(CP*CP*CP*GP*GP*AP*CP*CP*TP*GP*TP*GP*AP*CP*AP*AP*AP*TP*TP*GP*CP*CP*CP*TP*CP*AP*GP*AP*CP*GP*GP*A)-3') in PDB entry 8d8m, assembly 1, side view.
DNA (5'-D(CP*CP*CP*GP*GP*AP*CP*CP*TP*GP*TP*GP*AP*CP*AP*AP*AP*TP*TP*GP*CP*CP*CP*TP*CP*AP*GP*AP*CP*GP*GP*A)-3') in PDB entry 8d8m, assembly 1, top view.
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DNA chain B
Name: DNA (5'-D(GP*CP*CP*GP*TP*CP*TP*GP*AP*GP*GP*GP*CP*AP*AP*TP*TP*TP*GP*TP*CP*AP*CP*AP*GP*GP*TP*CP*CP*GP*GP*A)-3')
Representative chains: B
Source organism: Escherichia coli [562]
Expression system: Not provided
Length: 32 nucleotides
Theoretical weight: 9.9 KDa
DNA (5'-D(GP*CP*CP*GP*TP*CP*TP*GP*AP*GP*GP*GP*CP*AP*AP*TP*TP*TP*GP*TP*CP*AP*CP*AP*GP*GP*TP*CP*CP*GP*GP*A)-3') in PDB entry 8d8m, assembly 1, front view.
DNA (5'-D(GP*CP*CP*GP*TP*CP*TP*GP*AP*GP*GP*GP*CP*AP*AP*TP*TP*TP*GP*TP*CP*AP*CP*AP*GP*GP*TP*CP*CP*GP*GP*A)-3') in PDB entry 8d8m, assembly 1, side view.
DNA (5'-D(GP*CP*CP*GP*TP*CP*TP*GP*AP*GP*GP*GP*CP*AP*AP*TP*TP*TP*GP*TP*CP*AP*CP*AP*GP*GP*TP*CP*CP*GP*GP*A)-3') in PDB entry 8d8m, assembly 1, top view.
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