2pfj
From Proteopedia
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|PDB= 2pfj |SIZE=350|CAPTION= <scene name='initialview01'>2pfj</scene>, resolution 3.10Å | |PDB= 2pfj |SIZE=350|CAPTION= <scene name='initialview01'>2pfj</scene>, resolution 3.10Å | ||
|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=DG:2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE'>DG</scene>, <scene name='pdbligand=DT:THYMIDINE-5'-MONOPHOSPHATE'>DT</scene> |
| - | |ACTIVITY= [http://en.wikipedia.org/wiki/Deoxyribonuclease_IV_(phage-T(4)-induced) Deoxyribonuclease IV (phage-T(4)-induced)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.21.2 3.1.21.2] | + | |ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/Deoxyribonuclease_IV_(phage-T(4)-induced) Deoxyribonuclease IV (phage-T(4)-induced)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.21.2 3.1.21.2] </span> |
| - | |GENE= 3 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id= | + | |GENE= 3 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10760 Enterobacteria phage T7]) |
| + | |DOMAIN= | ||
| + | |RELATEDENTRY=[[1fzr|1FZR]], [[1m0d|1M0D]], [[1m0i|1M0I]] | ||
| + | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2pfj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2pfj OCA], [http://www.ebi.ac.uk/pdbsum/2pfj PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2pfj RCSB]</span> | ||
}} | }} | ||
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==About this Structure== | ==About this Structure== | ||
| - | 2PFJ is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/ | + | 2PFJ is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_t7 Enterobacteria phage t7]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PFJ OCA]. |
==Reference== | ==Reference== | ||
The structural basis of Holliday junction resolution by T7 endonuclease I., Hadden JM, Declais AC, Carr SB, Lilley DM, Phillips SE, Nature. 2007 Oct 4;449(7162):621-4. Epub 2007 Sep 16. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/17873858 17873858] | The structural basis of Holliday junction resolution by T7 endonuclease I., Hadden JM, Declais AC, Carr SB, Lilley DM, Phillips SE, Nature. 2007 Oct 4;449(7162):621-4. Epub 2007 Sep 16. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/17873858 17873858] | ||
[[Category: Deoxyribonuclease IV (phage-T(4)-induced)]] | [[Category: Deoxyribonuclease IV (phage-T(4)-induced)]] | ||
| - | [[Category: Enterobacteria phage | + | [[Category: Enterobacteria phage t7]] |
[[Category: Single protein]] | [[Category: Single protein]] | ||
[[Category: Carr, S B.]] | [[Category: Carr, S B.]] | ||
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[[Category: Lilley, D M.]] | [[Category: Lilley, D M.]] | ||
[[Category: Phillips, S E.]] | [[Category: Phillips, S E.]] | ||
| - | [[Category: CA]] | ||
[[Category: composite active site]] | [[Category: composite active site]] | ||
[[Category: domain swapped]] | [[Category: domain swapped]] | ||
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[[Category: hydrolase/dna complex]] | [[Category: hydrolase/dna complex]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 04:35:10 2008'' |
Revision as of 01:35, 31 March 2008
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| , resolution 3.10Å | |||||||
|---|---|---|---|---|---|---|---|
| Ligands: | , , , , | ||||||
| Gene: | 3 (Enterobacteria phage T7) | ||||||
| Activity: | Deoxyribonuclease IV (phage-T(4)-induced), with EC number 3.1.21.2 | ||||||
| Related: | 1FZR, 1M0D, 1M0I
| ||||||
| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
Crystal Structure of T7 Endo I resolvase in complex with a Holliday Junction
Overview
The four-way (Holliday) DNA junction is the central intermediate in homologous recombination, a ubiquitous process that is important in DNA repair and generation of genetic diversity. The penultimate stage of recombination requires resolution of the DNA junction into nicked-duplex species by the action of a junction-resolving enzyme, examples of which have been identified in a wide variety of organisms. These enzymes are nucleases that are highly selective for the structure of branched DNA. The mechanism of this selectivity has, however, been unclear in the absence of structural data. Here we present the crystal structure of the junction-resolving enzyme phage T7 endonuclease I in complex with a synthetic four-way DNA junction. Although the enzyme is structure-selective, significant induced fit occurs in the interaction, with changes in the structure of both the protein and the junction. The dimeric enzyme presents two binding channels that contact the backbones of the junction's helical arms over seven nucleotides. These interactions effectively measure the relative orientations and positions of the arms of the junction, thereby ensuring that binding is selective for branched DNA that can achieve this geometry.
About this Structure
2PFJ is a Single protein structure of sequence from Enterobacteria phage t7. Full crystallographic information is available from OCA.
Reference
The structural basis of Holliday junction resolution by T7 endonuclease I., Hadden JM, Declais AC, Carr SB, Lilley DM, Phillips SE, Nature. 2007 Oct 4;449(7162):621-4. Epub 2007 Sep 16. PMID:17873858
Page seeded by OCA on Mon Mar 31 04:35:10 2008
