1dyw

From Proteopedia

(Difference between revisions)

Current revision

Biochemical and structural characterization of a divergent loop cyclophilin from Caenorhabditis elegans

Structural highlights

1dyw is a 1 chain structure with sequence from Caenorhabditis elegans. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 1.8Å
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

CYP3_CAEEL PPIases accelerate the folding of proteins. It catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides.

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

Cyclophilin 3 (CYP-3) is one of the most abundantly expressed cyclophilin isoforms in the free living nematode Caenorhabditis elegans. The detailed post-embryonic expression pattern of the cyp-3 transcript is unusual, peaking during early larval development. The spatial expression pattern was examined via reporter gene analysis demonstrating that the cyp-3 transcript is exclusively expressed in the single anterior excretory cell. Recombinant cyclophilin 3 has been purified, crystallized and solved to a resolution of 1.8 A. The peptidyl-prolyl isomerase activity of CYP-3 has been characterized against the substrate N-succinyl-Ala-Ala-Pro-Phe-p-nitroanilide, and gives a k(cat)/K(m) value of 2.4 x 10(6) M(-1) s(-1). The immunosuppressive drug cyclosporin A binds and inhibits CYP-3 with an IC(50) value of 16 nM, comparable with the range of values found for human cyclophilin A. The x-ray structure shows that the overall fold and active site geometry is similar to other cyclophilin structures. There are however a number of distinctive features, and we use this structure and amino acid sequence alignment analysis to identify a subgroup of "divergent-loop cyclophilins". This subgroup has a number of uniquely conserved features: an additional loop between residues 48 and 54 (KSGKPLH); two cysteine residues (Cys(40) and Cys(168)) that are in close proximity but remain in the unoxidized form, and two other conserved residues, His(54) and Glu(83). We suggest that these features are functionally important for the role played by this class of cyclophilins during cellular responses to stress caused by changes in the redox environment or by up-regulation of cellular activity. This study represents a detailed biological, biochemical, and structural characterization of a single cyclophilin isoform in the model organism Caenorhabditis elegans.

Biochemical and structural characterization of a divergent loop cyclophilin from Caenorhabditis elegans.,Dornan J, Page AP, Taylor P, Wu S, Winter AD, Husi H, Walkinshaw MD J Biol Chem. 1999 Dec 3;274(49):34877-83. PMID:10574961^[1]

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

References

↑ Dornan J, Page AP, Taylor P, Wu S, Winter AD, Husi H, Walkinshaw MD. Biochemical and structural characterization of a divergent loop cyclophilin from Caenorhabditis elegans. J Biol Chem. 1999 Dec 3;274(49):34877-83. PMID:10574961

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/1dyw"

@@ Line 1: / Line 1: @@
 ==Biochemical and structural characterization of a divergent loop cyclophilin from Caenorhabditis elegans==
-<StructureSection load='1dyw' size='340' side='right' caption='[[1dyw]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
+<StructureSection load='1dyw' size='340' side='right'caption='[[1dyw]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[1dyw]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DYW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DYW FirstGlance]. <br>
+<table><tr><td colspan='2'>[[1dyw]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Caenorhabditis_elegans Caenorhabditis elegans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DYW OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1DYW FirstGlance]. <br>
-</td></tr><tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Peptidylprolyl_isomerase Peptidylprolyl isomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.2.1.8 5.2.1.8] </span></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]] 1.8&#8491;</td></tr>
-<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1dyw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dyw OCA], [http://pdbe.org/1dyw PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1dyw RCSB], [http://www.ebi.ac.uk/pdbsum/1dyw PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1dyw 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=1dyw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dyw OCA], [https://pdbe.org/1dyw PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1dyw RCSB], [https://www.ebi.ac.uk/pdbsum/1dyw PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1dyw ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/CYP3_CAEEL CYP3_CAEEL]] PPIases accelerate the folding of proteins. It catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides.
+[https://www.uniprot.org/uniprot/CYP3_CAEEL CYP3_CAEEL] PPIases accelerate the folding of proteins. It catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides.
 == 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/dy/1dyw_consurf.spt"</scriptWhenChecked>
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/dy/1dyw_consurf.spt"</scriptWhenChecked>
     <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
     <text>to colour the structure by Evolutionary Conservation</text>
@@ Line 28: / Line 28: @@
 </div>
 <div class="pdbe-citations 1dyw" style="background-color:#fffaf0;"></div>
+==See Also==
+*[[Cyclophilin 3D structures|Cyclophilin 3D structures]]
 == References ==
 <references/>
 __TOC__
 </StructureSection>
-[[Category: Peptidylprolyl isomerase]]
+[[Category: Caenorhabditis elegans]]
-[[Category: Dornan, J]]
+[[Category: Large Structures]]
-[[Category: Husi, H]]
+[[Category: Dornan J]]
-[[Category: Page, A P]]
+[[Category: Husi H]]
-[[Category: Taylor, P]]
+[[Category: Page AP]]
-[[Category: Walkinshaw, M D]]
+[[Category: Taylor P]]
-[[Category: Winter, A D]]
+[[Category: Walkinshaw MD]]
-[[Category: Wu, S Y]]
+[[Category: Winter AD]]
-[[Category: Isomerase]]
+[[Category: Wu SY]]
-[[Category: Rotamase]]

1dyw

From Proteopedia

Current revision

Biochemical and structural characterization of a divergent loop cyclophilin from Caenorhabditis elegans

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

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