4fbu Summary

pdbe.org/4fbu
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Dpo4 polymerase pre-insertion binary complex with the N-(deoxyguanosin-8-yl)-1-aminopyrene lesion

The structure was published by Kirouac, K.N., Basu, A.K., and Ling, H., in 2013 in a paper entitled "Structural mechanism of replication stalling on a bulky amino-polycyclic aromatic hydrocarbon DNA adduct by a y family DNA polymerase." (abstract).

This crystal structure was determined using X-ray diffraction at a resolution of 2.6 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 IV, DNA primer, and DNA template.

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 IV Q97W02 (1-341) (DPO4_SULSO)search Sulfolobus solfataricus P2search 97% 341 100%
B DNA polymerase IV Q97W02 (1-341) (DPO4_SULSO)search Sulfolobus solfataricus P2search 97% 341 100%


This entry contains 1 unique UniProt protein:

UniProt accession Name Organism PDB
Q97W02 (1 - 341) DNA polymerase IV Sulfolobus solfataricus P2

Chain Sequence family (Pfam)
A, B (Q97W02) PF00817: impB/mucB/samB familysearch, PF11798: IMS family HHH motifsearch, PF11799: impB/mucB/samB family C-terminal domainsearch

Chain ID Biological process (GO) Molecular function (GO) Cellular component (GO)
A, B (Q97W02) DNA repairsearch DNA-dependent DNA replicationsearch DNA replicationsearch cellular response to DNA damage stimulussearch DNA-directed DNA polymerase activitysearch DNA bindingsearch metal ion bindingsearch transferase activitysearch damaged DNA bindingsearch magnesium ion bindingsearch nucleotidyltransferase activitysearch cytoplasmsearch

Chain InterPro annotation
A, B DNA-repair protein, UmuC-likesearch DNA polymerase, Y-family, little finger domainsearch DNA-repair protein, UmuC-like, N-terminalsearch DNA polymerase IVsearch DNA polymerase type-Y, HhH motifsearch