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2ixs

From Proteopedia

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Current revision

Structure of SdaI restriction endonuclease

Structural highlights

2ixs is a 2 chain structure with sequence from Streptomyces diastaticus. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 2Å
Ligands:	, ,
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

C4P954_STRDI

Evolutionary Conservation

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

Publication Abstract from PubMed

Rare-cutting restriction enzymes are important tools in genome analysis. We report here the crystal structure of SdaI restriction endonuclease, which is specific for the 8 bp sequence CCTGCA/GG ("/" designates the cleavage site). Unlike orthodox Type IIP enzymes, which are single domain proteins, the SdaI monomer is composed of two structural domains. The N domain contains a classical winged helix-turn-helix (wHTH) DNA binding motif, while the C domain shows a typical restriction endonuclease fold. The active site of SdaI is located within the C domain and represents a variant of the canonical PD-(D/E)XK motif. SdaI determinants of sequence specificity are clustered on the recognition helix of the wHTH motif at the N domain. The modular architecture of SdaI, wherein one domain mediates DNA binding while the other domain is predicted to catalyze hydrolysis, distinguishes SdaI from previously characterized restriction enzymes interacting with symmetric recognition sequences.

The crystal structure of the rare-cutting restriction enzyme SdaI reveals unexpected domain architecture.,Tamulaitiene G, Jakubauskas A, Urbanke C, Huber R, Grazulis S, Siksnys V Structure. 2006 Sep;14(9):1389-400. PMID:16962970^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Tamulaitiene G, Jakubauskas A, Urbanke C, Huber R, Grazulis S, Siksnys V. The crystal structure of the rare-cutting restriction enzyme SdaI reveals unexpected domain architecture. Structure. 2006 Sep;14(9):1389-400. PMID:16962970 doi:10.1016/j.str.2006.07.002

1 Structural highlights
2 Function
3 Evolutionary Conservation
4 Publication Abstract from PubMed
5 See Also
6 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/2ixs"

@@ Line 3: / Line 3: @@
 <StructureSection load='2ixs' size='340' side='right'caption='[[2ixs]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[2ixs]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"actinomyces_diastaticus"_krainsky_1914 "actinomyces diastaticus" krainsky 1914]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2IXS OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=2IXS FirstGlance]. <br>
+<table><tr><td colspan='2'>[[2ixs]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptomyces_diastaticus Streptomyces diastaticus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2IXS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2IXS FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></td></tr>
+</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&#8491;</td></tr>
-<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Type_II_site-specific_deoxyribonuclease Type II site-specific deoxyribonuclease], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.21.4 3.1.21.4] </span></td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></td></tr>
-<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=2ixs FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ixs OCA], [http://pdbe.org/2ixs PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2ixs RCSB], [http://www.ebi.ac.uk/pdbsum/2ixs PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2ixs ProSAT]</span></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=2ixs FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ixs OCA], [https://pdbe.org/2ixs PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ixs RCSB], [https://www.ebi.ac.uk/pdbsum/2ixs PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ixs ProSAT]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/C4P954_STRDI C4P954_STRDI]
 == Evolutionary Conservation ==
 [[Image:Consurf_key_small.gif|200px|right]]
@@ Line 34: / Line 36: @@
 __TOC__
 </StructureSection>
-[[Category: Actinomyces diastaticus krainsky 1914]]
 [[Category: Large Structures]]
-[[Category: Type II site-specific deoxyribonuclease]]
+[[Category: Streptomyces diastaticus]]
-[[Category: Grazulis, S]]
+[[Category: Grazulis S]]
-[[Category: Huber, R]]
+[[Category: Huber R]]
-[[Category: Jakubauskas, A]]
+[[Category: Jakubauskas A]]
-[[Category: Siksnys, V]]
+[[Category: Siksnys V]]
-[[Category: Tamulaitiene, G]]
+[[Category: Tamulaitiene G]]
-[[Category: Urbanke, C]]
+[[Category: Urbanke C]]
-[[Category: Domain architecture]]
-[[Category: Endonuclease]]
-[[Category: Hydrolase]]
-[[Category: Restriction endonuclease]]
-[[Category: Sdai]]

2ixs

From Proteopedia

Current revision

Structure of SdaI restriction endonuclease

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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