1fzr: Difference between revisions

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New page: left|200px<br /><applet load="1fzr" size="450" color="white" frame="true" align="right" spinBox="true" caption="1fzr, resolution 2.10Å" /> '''CRYSTAL STRUCTURE OF...
 
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[[Image:1fzr.gif|left|200px]]<br /><applet load="1fzr" size="450" color="white" frame="true" align="right" spinBox="true"
caption="1fzr, resolution 2.10&Aring;" />
'''CRYSTAL STRUCTURE OF BACTERIOPHAGE T7 ENDONUCLEASE I'''<br />


==Overview==
==CRYSTAL STRUCTURE OF BACTERIOPHAGE T7 ENDONUCLEASE I==
We have solved the crystal structure of the Holliday junction resolving, enzyme T7 endonuclease I at 2.1 A resolution using the multiwavelength, anomalous dispersion (MAD) technique. Endonuclease I exhibits strong, structural specificity for four-way DNA junctions. The structure shows, that it forms a symmetric homodimer arranged in two well-separated, domains. Each domain, however, is composed of elements from both subunits, and amino acid side chains from both protomers contribute to the active, site. While no significant structural similarity could be detected with, any other junction resolving enzyme, the active site is similar to that, found in several restriction endonucleases. T7 endonuclease I therefore, represents the first crystal structure of a junction resolving enzyme that, is a member of the nuclease superfamily of enzymes.
<StructureSection load='1fzr' size='340' side='right'caption='[[1fzr]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[1fzr]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_phage_T7 Escherichia phage T7]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1FZR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1FZR FirstGlance]. <br>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.1&#8491;</td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1fzr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1fzr OCA], [https://pdbe.org/1fzr PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1fzr RCSB], [https://www.ebi.ac.uk/pdbsum/1fzr PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1fzr ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/ENDO_BPT7 ENDO_BPT7] Junction-resolving enzyme that selectively binds and cleaves four-way (Holliday) DNA junctions present after viral genomic replication. These intermediates are created during DNA repair, processing of stalled replication forks and homologous genetic recombination. Introduces two nicks on the two non-crossing strands, at 5' sides of the junction. Participates also together with gp6 in the degradation of host chromosome to provide nucleotides for phage DNA synthesis.<ref>PMID:12628932</ref> <ref>PMID:23207296</ref> <ref>PMID:3972821</ref> <ref>PMID:9236119</ref>
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
Check<jmol>
  <jmolCheckbox>
    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/fz/1fzr_consurf.spt"</scriptWhenChecked>
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
    <text>to colour the structure by Evolutionary Conservation</text>
  </jmolCheckbox>
</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1fzr ConSurf].
<div style="clear:both"></div>


==About this Structure==
==See Also==
1FZR is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Bacteriophage_t7 Bacteriophage t7]. Active as [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] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1FZR OCA].
*[[Endonuclease 3D structures|Endonuclease 3D structures]]
 
== References ==
==Reference==
<references/>
Crystal structure of the Holliday junction resolving enzyme T7 endonuclease I., Hadden JM, Convery MA, Declais AC, Lilley DM, Phillips SE, Nat Struct Biol. 2001 Jan;8(1):62-7. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=11135673 11135673]
__TOC__
[[Category: Bacteriophage t7]]
</StructureSection>
[[Category: Deoxyribonuclease IV (phage-T(4)-induced)]]
[[Category: Escherichia phage T7]]
[[Category: Single protein]]
[[Category: Large Structures]]
[[Category: Convery, M.A.]]
[[Category: Convery MA]]
[[Category: Declais, A.C.]]
[[Category: Declais AC]]
[[Category: Hadden, J.M.]]
[[Category: Hadden JM]]
[[Category: Lilley, D.M.J.]]
[[Category: Lilley DMJ]]
[[Category: Phillips, S.E.V.]]
[[Category: Phillips SEV]]
[[Category: composite active site]]
[[Category: domain swapped]]
[[Category: holliday junction resolvase]]
[[Category: homodimer]]
 
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Nov 20 15:33:31 2007''

Latest revision as of 10:21, 7 February 2024

CRYSTAL STRUCTURE OF BACTERIOPHAGE T7 ENDONUCLEASE ICRYSTAL STRUCTURE OF BACTERIOPHAGE T7 ENDONUCLEASE I

Structural highlights

1fzr is a 4 chain structure with sequence from Escherichia phage T7. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 2.1Å
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

ENDO_BPT7 Junction-resolving enzyme that selectively binds and cleaves four-way (Holliday) DNA junctions present after viral genomic replication. These intermediates are created during DNA repair, processing of stalled replication forks and homologous genetic recombination. Introduces two nicks on the two non-crossing strands, at 5' sides of the junction. Participates also together with gp6 in the degradation of host chromosome to provide nucleotides for phage DNA synthesis.[1] [2] [3] [4]

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

See Also

References

  1. ↑ Declais AC, Fogg JM, Freeman AD, Coste F, Hadden JM, Phillips SE, Lilley DM. The complex between a four-way DNA junction and T7 endonuclease I. EMBO J. 2003 Mar 17;22(6):1398-409. PMID:12628932 doi:http://dx.doi.org/10.1093/emboj/cdg132
  2. ↑ Freeman AD, Declais AC, Lilley DM. The importance of the N-terminus of T7 endonuclease I in the interaction with DNA junctions. J Mol Biol. 2013 Jan 23;425(2):395-410. doi: 10.1016/j.jmb.2012.11.029. Epub 2012, Dec 1. PMID:23207296 doi:http://dx.doi.org/10.1016/j.jmb.2012.11.029
  3. ↑ Panayotatos N, Fontaine A. An endonuclease specific for single-stranded DNA selectively damages the genomic DNA and induces the SOS response. J Biol Chem. 1985 Mar 10;260(5):3173-7. PMID:3972821
  4. ↑ Parkinson MJ, Lilley DM. The junction-resolving enzyme T7 endonuclease I: quaternary structure and interaction with DNA. J Mol Biol. 1997 Jul 11;270(2):169-78. PMID:9236119 doi:http://dx.doi.org/10.1006/jmbi.1997.1128

1fzr, resolution 2.10Å

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