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3l2b

From Proteopedia

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Current revision

Crystal structure of the CBS and DRTGG domains of the regulatory region of Clostridium perfringens pyrophosphatase complexed with activator, diadenosine tetraphosphate

Structural highlights

3l2b is a 2 chain structure with sequence from Clostridium perfringens str. 13. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 2.27Å
Ligands:
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

IPYR_CLOPE

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

Nucleotide-binding cystathionine beta-synthase (CBS) domains serve as regulatory units in numerous proteins distributed in all kingdoms of life. However, the underlying regulatory mechanisms remain to be established. Recently, we described a subfamily of CBS domain-containing pyrophosphatases (PPases) within family II PPases. Here, we express a novel CBS-PPase from Clostridium perfringens (CPE2055) and show that the enzyme is inhibited by AMP and activated by a novel effector, diadenosine 5',5-P1,P4-tetraphosphate (AP(4)A). The structures of the AMP and AP(4)A complexes of the regulatory region of C. perfringens PPase (cpCBS), comprising a pair of CBS domains interlinked by a DRTGG domain, were determined at 2.3 A resolution using X-ray crystallography. The structures obtained are the first structures of a DRTGG domain as part of a larger protein structure. The AMP complex contains two AMP molecules per cpCBS dimer, each bound to a single monomer, whereas in the activator-bound complex, one AP(4)A molecule bridges two monomers. In the nucleotide-bound structures, activator binding induces significant opening of the CBS domain interface, compared with the inhibitor complex. These results provide structural insight into the mechanism of CBS-PPase regulation by nucleotides.

Crystal structures of the CBS and DRTGG domains of the regulatory region of Clostridiumperfringens pyrophosphatase complexed with the inhibitor, AMP, and activator, diadenosine tetraphosphate.,Tuominen H, Salminen A, Oksanen E, Jamsen J, Heikkila O, Lehtio L, Magretova NN, Goldman A, Baykov AA, Lahti R J Mol Biol. 2010 May 7;398(3):400-13. Epub 2010 Mar 19. PMID:20303981^[1]

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

References

↑ Tuominen H, Salminen A, Oksanen E, Jamsen J, Heikkila O, Lehtio L, Magretova NN, Goldman A, Baykov AA, Lahti R. Crystal structures of the CBS and DRTGG domains of the regulatory region of Clostridiumperfringens pyrophosphatase complexed with the inhibitor, AMP, and activator, diadenosine tetraphosphate. J Mol Biol. 2010 May 7;398(3):400-13. Epub 2010 Mar 19. PMID:20303981 doi:10.1016/j.jmb.2010.03.019

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

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/3l2b"

@@ Line 1: / Line 1: @@
 ==Crystal structure of the CBS and DRTGG domains of the regulatory region of Clostridium perfringens pyrophosphatase complexed with activator, diadenosine tetraphosphate==
-<StructureSection load='3l2b' size='340' side='right' caption='[[3l2b]], [[Resolution|resolution]] 2.27&Aring;' scene=''>
+<StructureSection load='3l2b' size='340' side='right'caption='[[3l2b]], [[Resolution|resolution]] 2.27&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[3l2b]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Clope Clope]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3L2B OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3L2B FirstGlance]. <br>
+<table><tr><td colspan='2'>[[3l2b]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Clostridium_perfringens_str._13 Clostridium perfringens str. 13]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3L2B OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3L2B FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=B4P:BIS(ADENOSINE)-5-TETRAPHOSPHATE'>B4P</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]] 2.27&#8491;</td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">CPE2055 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=195102 CLOPE])</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=B4P:BIS(ADENOSINE)-5-TETRAPHOSPHATE'>B4P</scene></td></tr>
-<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Inorganic_diphosphatase Inorganic diphosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.1.1 3.6.1.1] </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=3l2b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3l2b OCA], [https://pdbe.org/3l2b PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3l2b RCSB], [https://www.ebi.ac.uk/pdbsum/3l2b PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3l2b ProSAT]</span></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=3l2b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3l2b OCA], [http://pdbe.org/3l2b PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3l2b RCSB], [http://www.ebi.ac.uk/pdbsum/3l2b PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3l2b ProSAT]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/IPYR_CLOPE IPYR_CLOPE]
 == 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/l2/3l2b_consurf.spt"</scriptWhenChecked>
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/l2/3l2b_consurf.spt"</scriptWhenChecked>
     <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
     <text>to colour the structure by Evolutionary Conservation</text>
@@ Line 32: / Line 33: @@
 __TOC__
 </StructureSection>
-[[Category: Clope]]
+[[Category: Clostridium perfringens str. 13]]
-[[Category: Inorganic diphosphatase]]
+[[Category: Large Structures]]
-[[Category: Baykov, A A]]
+[[Category: Baykov AA]]
-[[Category: Goldman, A]]
+[[Category: Goldman A]]
-[[Category: Heikkila, O]]
+[[Category: Heikkila O]]
-[[Category: Jamsen, J]]
+[[Category: Jamsen J]]
-[[Category: Lahti, R]]
+[[Category: Lahti R]]
-[[Category: Lehtio, L]]
+[[Category: Lehtio L]]
-[[Category: Magretova, N N]]
+[[Category: Magretova NN]]
-[[Category: Oksanen, E]]
+[[Category: Oksanen E]]
-[[Category: Salminen, A]]
+[[Category: Salminen A]]
-[[Category: Tuominen, H]]
+[[Category: Tuominen H]]
-[[Category: Ap4a]]
-[[Category: Bateman domain]]
-[[Category: Cbs domain]]
-[[Category: Clostridium perfringen]]
-[[Category: Diadenosine polyphosphate]]
-[[Category: Drtgg]]
-[[Category: Family ii]]
-[[Category: Hydrolase]]
-[[Category: Inorganic]]
-[[Category: Pyrophosphatase]]

3l2b

From Proteopedia

Current revision

Crystal structure of the CBS and DRTGG domains of the regulatory region of Clostridium perfringens pyrophosphatase complexed with activator, diadenosine tetraphosphate

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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