3e1s: Difference between revisions

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[[Image:3e1s.png|left|200px]]


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==Structure of an N-terminal truncation of Deinococcus radiodurans RecD2==
The line below this paragraph, containing "STRUCTURE_3e1s", creates the "Structure Box" on the page.
<StructureSection load='3e1s' size='340' side='right'caption='[[3e1s]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
You may change the PDB parameter (which sets the PDB file loaded into the applet)  
== Structural highlights ==
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
<table><tr><td colspan='2'>[[3e1s]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Deinococcus_radiodurans Deinococcus radiodurans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3E1S OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3E1S FirstGlance]. <br>
or leave the SCENE parameter empty for the default display.
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.2&#8491;</td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3e1s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3e1s OCA], [https://pdbe.org/3e1s PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3e1s RCSB], [https://www.ebi.ac.uk/pdbsum/3e1s PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3e1s ProSAT]</span></td></tr>
{{STRUCTURE_3e1s| PDB=3e1s |  SCENE= }}
</table>
== Function ==
[https://www.uniprot.org/uniprot/RECDL_DEIRA RECDL_DEIRA] DNA-dependent ATPase (ssDNA better than dsDNA) and ATP-dependent 5'-3' DNA helicase. Appears to move along DNA in single base steps, powered by hydrolysis of 1 molecule of ATP. Has low processivity; short (20 bp) substrates with 5'-overhangs or forked ends are the best substrates, is much less efficient on 52 or 76 bp substrates with 5'- overhangs. The presence of single-stranded DNA-binding protein (SSB) increases unwinding 4-5 fold. Has no activity on blunt DNA or DNA with 3'-overhangs. Requires at least 10 bases of 5'-ssDNA for helicase activity.<ref>PMID:15466873</ref> <ref>PMID:19490894</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/e1/3e1s_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=3e1s ConSurf].
<div style="clear:both"></div>


===Structure of an N-terminal truncation of Deinococcus radiodurans RecD2===
==See Also==
 
*[[Exonuclease 3D structures|Exonuclease 3D structures]]
 
== References ==
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{{ABSTRACT_PUBMED_18668125}}
 
==About this Structure==
3E1S is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Deinococcus_radiodurans Deinococcus radiodurans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3E1S OCA].
 
==Reference==
<ref group="xtra">PMID:18668125</ref><references group="xtra"/>
[[Category: Deinococcus radiodurans]]
[[Category: Deinococcus radiodurans]]
[[Category: Cook, N.]]
[[Category: Large Structures]]
[[Category: Court, R.]]
[[Category: Cook N]]
[[Category: Griffiths, S P.]]
[[Category: Court R]]
[[Category: Saikrishnan, K.]]
[[Category: Griffiths SP]]
[[Category: Wigley, D B.]]
[[Category: Saikrishnan K]]
[[Category: Alpha and beta protein]]
[[Category: Wigley DB]]
[[Category: Atp-binding]]
[[Category: Hydrolase]]
[[Category: Nucleotide-binding]]
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 22:04:45 2009''

Latest revision as of 12:44, 21 February 2024

Structure of an N-terminal truncation of Deinococcus radiodurans RecD2Structure of an N-terminal truncation of Deinococcus radiodurans RecD2

Structural highlights

3e1s is a 1 chain structure with sequence from Deinococcus radiodurans. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 2.2Å
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

RECDL_DEIRA DNA-dependent ATPase (ssDNA better than dsDNA) and ATP-dependent 5'-3' DNA helicase. Appears to move along DNA in single base steps, powered by hydrolysis of 1 molecule of ATP. Has low processivity; short (20 bp) substrates with 5'-overhangs or forked ends are the best substrates, is much less efficient on 52 or 76 bp substrates with 5'- overhangs. The presence of single-stranded DNA-binding protein (SSB) increases unwinding 4-5 fold. Has no activity on blunt DNA or DNA with 3'-overhangs. Requires at least 10 bases of 5'-ssDNA for helicase activity.[1] [2]

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. ↑ Wang J, Julin DA. DNA helicase activity of the RecD protein from Deinococcus radiodurans. J Biol Chem. 2004 Dec 10;279(50):52024-32. Epub 2004 Oct 4. PMID:15466873 doi:http://dx.doi.org/10.1074/jbc.M408645200
  2. ↑ Saikrishnan K, Powell B, Cook NJ, Webb MR, Wigley DB. Mechanistic basis of 5'-3' translocation in SF1B helicases. Cell. 2009 May 29;137(5):849-59. PMID:19490894 doi:10.1016/j.cell.2009.03.036

3e1s, resolution 2.20Å

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