4fbu Summary


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

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