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DDATP-Trapped closed ternary complex of the large fragment of DNA Polymerase I from thermus aquaticus

X-ray diffraction
2.3Å resolution
PDB entry 1qsy coloured by chain, front view.
PDB entry 1qsy coloured by chain, side view.
PDB entry 1qsy coloured by chain, top view.
Source organism: Thermus aquaticus
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: DNA polymerase I, thermostable and DNA
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Multimeric state: hetero trimer
Accessible surface area: 24146.14 Å2
Buried surface area: 5446.93 Å2
Dissociation area: 1,989.68 Å2
Dissociation energy (ΔGdiss): 20.51 kcal/mol
Dissociation entropy (TΔSdiss): 11.88 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-114471

Macromolecules

DNA polymerase I, thermostable
Chain: A
Length: 539 amino acids
Theoretical weight: 60.87 KDa
Source organism: Thermus aquaticus
Expression system: Escherichia coli
UniProt:
  • Canonical: P19821 (Residues: 293-831; Coverage: 65%)
Gene names: pol1, polA
Pfam:
InterPro:
CATH:
SCOP:
DNA polymerase I, thermostable in PDB entry 1qsy, assembly 1, front view.
DNA polymerase I, thermostable in PDB entry 1qsy, assembly 1, side view.
DNA polymerase I, thermostable in PDB entry 1qsy, assembly 1, top view.
PDBe-KB: UniProt Coverage View: P19821  
153950100150200250300350400450500
 
200400
UniProt
P19821
Chains
Domains
Secondary structure
Flexibility predictions
Early folding residue predictions
Ligand binding sites
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DNA chain B
Name: 5'-D(*GP*AP*CP*CP*AP*CP*GP*GP*CP*GP*CP*(2DA))-3'
Representative chains: B
Source organism: Thermus aquaticus [271]
Expression system: Not provided
Length: 12 nucleotides
Theoretical weight: 3.64 KDa
5'-D(*GP*AP*CP*CP*AP*CP*GP*GP*CP*GP*CP*(2DA))-3' in PDB entry 1qsy, assembly 1, front view.
5'-D(*GP*AP*CP*CP*AP*CP*GP*GP*CP*GP*CP*(2DA))-3' in PDB entry 1qsy, assembly 1, side view.
5'-D(*GP*AP*CP*CP*AP*CP*GP*GP*CP*GP*CP*(2DA))-3' in PDB entry 1qsy, assembly 1, top view.
112123456789101112
 
510GACCACGGCGC*
Chains
Chain A (auth B)
Ligand binding sites
Interaction interfaces
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DNA chain C
Name: 5'-D(*AP*TP*TP*GP*CP*GP*CP*CP*TP*P*GP*GP*TP*C)-3'
Representative chains: C
Source organism: Thermus aquaticus [271]
Expression system: Not provided
Length: 14 nucleotides
Theoretical weight: 4.29 KDa
5'-D(*AP*TP*TP*GP*CP*GP*CP*CP*TP*P*GP*GP*TP*C)-3' in PDB entry 1qsy, assembly 1, front view.
5'-D(*AP*TP*TP*GP*CP*GP*CP*CP*TP*P*GP*GP*TP*C)-3' in PDB entry 1qsy, assembly 1, side view.
5'-D(*AP*TP*TP*GP*CP*GP*CP*CP*TP*P*GP*GP*TP*C)-3' in PDB entry 1qsy, assembly 1, top view.
1141234567891011121314
 
51015ATTGCGCCGTGGTC
Chains
Chain B (auth C)
Ligand binding sites
Interaction interfaces
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