1s10
From Proteopedia
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|PDB= 1s10 |SIZE=350|CAPTION= <scene name='initialview01'>1s10</scene>, resolution 2.1Å | |PDB= 1s10 |SIZE=350|CAPTION= <scene name='initialview01'>1s10</scene>, resolution 2.1Å | ||
|SITE= | |SITE= | ||
| - | |LIGAND= <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene> | + | |LIGAND= <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=DA:2'-DEOXYADENOSINE-5'-MONOPHOSPHATE'>DA</scene>, <scene name='pdbligand=DC:2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE'>DC</scene>, <scene name='pdbligand=DCP:2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE'>DCP</scene>, <scene name='pdbligand=DG:2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE'>DG</scene>, <scene name='pdbligand=DT:THYMIDINE-5'-MONOPHOSPHATE'>DT</scene> |
| - | |ACTIVITY= [http://en.wikipedia.org/wiki/DNA-directed_DNA_polymerase DNA-directed DNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.7 2.7.7.7] | + | |ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/DNA-directed_DNA_polymerase DNA-directed DNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.7 2.7.7.7] </span> |
|GENE= dpo4 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2287 Sulfolobus solfataricus]) | |GENE= dpo4 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2287 Sulfolobus solfataricus]) | ||
| + | |DOMAIN= | ||
| + | |RELATEDENTRY=[[1jx4|1JX4]], [[1ryr|1RYR]], [[1rys|1RYS]], [[1s0m|1S0M]], [[1s0n|1S0N]], [[1s0o|1S0O]] | ||
| + | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1s10 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1s10 OCA], [http://www.ebi.ac.uk/pdbsum/1s10 PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1s10 RCSB]</span> | ||
}} | }} | ||
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[[Category: Woodgate, R.]] | [[Category: Woodgate, R.]] | ||
[[Category: Yang, W.]] | [[Category: Yang, W.]] | ||
| - | [[Category: CA]] | ||
| - | [[Category: DCP]] | ||
[[Category: abaic lesion]] | [[Category: abaic lesion]] | ||
[[Category: lesion bypass]] | [[Category: lesion bypass]] | ||
[[Category: polymerase]] | [[Category: polymerase]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 23 | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 23:35:48 2008'' |
Revision as of 20:35, 30 March 2008
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| , resolution 2.1Å | |||||||
|---|---|---|---|---|---|---|---|
| Ligands: | , , , , , | ||||||
| Gene: | dpo4 (Sulfolobus solfataricus) | ||||||
| Activity: | DNA-directed DNA polymerase, with EC number 2.7.7.7 | ||||||
| Related: | 1JX4, 1RYR, 1RYS, 1S0M, 1S0N, 1S0O
| ||||||
| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
Snapshots of replication through an abasic lesion: structural basis for base substitution and frameshift
Overview
Dpo4 from S. Solfataricus, a DinB-like Y family polymerase, efficiently replicates DNA past an abasic lesion. We have determined crystal structures of Dpo4 complexed with five different abasic site-containing DNA substrates and find that translesion synthesis is template directed with the abasic site looped out and the incoming nucleotide is opposite the base 5' to the lesion. The ensuing DNA synthesis generates a -1 frameshift when the abasic site remains extrahelical. Template realignment during primer extension is also observed, resulting in base substitutions or even +1 frameshifts. In the case of a +1 frameshift, the extra nucleotide is accommodated in the solvent-exposed minor groove. In addition, the structure of an unproductive Dpo4 ternary complex suggests that the flexible little finger domain facilitates DNA orientation and translocation during translesion synthesis.
About this Structure
1S10 is a Single protein structure of sequence from Sulfolobus solfataricus. Full crystallographic information is available from OCA.
Reference
Snapshots of replication through an abasic lesion; structural basis for base substitutions and frameshifts., Ling H, Boudsocq F, Woodgate R, Yang W, Mol Cell. 2004 Mar 12;13(5):751-62. PMID:15023344
Page seeded by OCA on Sun Mar 30 23:35:48 2008
