4dqi Summary


Ternary complex of Bacillus DNA Polymerase I Large Fragment, DNA duplex, and dCTP (paired with dG of template)

The structure was published by Wang, W., Wu, E.Y., Hellinga, H.W., and Beese, L.S., in 2012 in a paper entitled "Structural factors that determine selectivity of a high fidelity DNA polymerase for deoxy-, dideoxy-, and ribonucleotides." (abstract).

This crystal structure was determined using X-ray diffraction at a resolution of 1.69 Å and deposited in 2012.

The experimental data on which the structure is based was also deposited.

This PDB entry contains a complex of 3 biomacromolecules, namely DNA polymerase I, DNA (5'-D(*CP*CP*TP*GP*AP*CP*TP*CP*(DOC))-3'), and DNA (5'-D(*C*AP*TP*GP*GP*GP*AP*GP*TP*CP*AP*GP*G)-3').

It also contains one or more heterogenic compounds (e.g., ligands, co-factors, ions, modified amino acids, etc.); see here for a complete list.

The molecule has more than one probable quaternary state observed. For more details see the quaternary structure page.

The following tables show cross-reference information to other databases (to obtain a list of all PDB entries sharing the same property or classification, click on the magnifying glass icon):

Chain Name UniProt Name of source organism % of UniProt sequence present in the sample Residues in the sample molecules % of residues observed
A DNA polymerase I Q5KWC1 (287-878) (Q5KWC1_GEOKA)search Geobacillus kaustophilus HTA426search < 90% 592 97%
D DNA polymerase I Not available
Geobacillus kaustophilus HTA426search < 90% 592 97%

This entry contains 1 unique UniProt protein:

UniProt accession Name Organism PDB
Q5KWC1 (287 - 878) DNA polymerase I Geobacillus kaustophilus HTA426

Chain Sequence family (Pfam)
A, D DNA polymerase family Asearch

Chain ID Molecular function (GO) Biological process (GO)
A, D (Q5KWC1) DNA-directed DNA polymerase activitysearch nucleic acid bindingsearch DNA bindingsearch 3'-5' exonuclease activitysearch DNA replicationsearch DNA-dependent DNA replicationsearch nucleobase-containing compound metabolic processsearch

Chain InterPro annotation
A, D DNA-directed DNA polymerase, family A, palm domainsearch DNA polymerase Asearch 3'-5' exonuclease domainsearch Ribonuclease H-like domainsearch DNA polymerase 1search DNA-directed DNA polymerase, family A, conserved sitesearch