This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.

Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.

2clk

From Proteopedia

(Difference between revisions)

Jump to: navigation, search

Revision as of 08:33, 23 May 2018

Tryptophan Synthase in complex with D-glyceraldehyde 3-phosphate (G3P)

Structural highlights

2clk is a 2 chain structure. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:	, ,
Related:	1a50, 1a5a, 1a5b, 1a5s, 1bks, 1c29, 1c8v, 1c9d, 1cw2, 1cx9, 1fuy, 1geq, 1k3u, 1k7e, 1k7f, 1k7x, 1k8y, 1k8z, 1kfj, 1kfk, 1qop, 1qoq, 1rd5, 1tjp, 1ttp, 1ttq, 1ubs, 1ujp, 1v7y, 1v8z, 1wbj, 1wq5, 1wxj, 1xc4, 1xcf, 2cle, 2clf, 2clh, 2cli, 2cll, 2clm, 2clo, 2trs, 2tsy, 2tys, 2wsy
Activity:	Tryptophan synthase, with EC number 4.2.1.20
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

[TRPA_SALTY] The alpha subunit is responsible for the aldol cleavage of indoleglycerol phosphate to indole and glyceraldehyde 3-phosphate. [TRPB_SALTY] The beta subunit is responsible for the synthesis of L-tryptophan from indole and L-serine.

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

Allosteric interactions regulate substrate channeling in Salmonella typhimurium tryptophan synthase. The channeling of indole between the alpha- and beta-sites via the interconnecting 25 A tunnel is regulated by allosteric signaling arising from binding of ligand to the alpha-site, and covalent reaction of l-Ser at the beta-site. This signaling switches the alpha- and beta-subunits between open conformations of low activity and closed conformations of high activity. Our objective is to synthesize and characterize new classes of alpha-site ligands (ASLs) that mimic the binding of substrates, 3-indole-d-glycerol 3'-phosphate (IGP) or d-glyceraldehyde 3-phosphate (G3P), for use in the investigation of alpha-site-beta-site interactions. The new synthesized IGP analogues contain an aryl group linked to an O-phosphoethanolamine moiety through amide, sulfonamide, or thiourea groups. The G3P analogue, thiophosphoglycolohydroxamate, contains a hydroxamic acid group linked to a thiophosphate moiety. Crystal structures of the internal aldimine complexed with G3P and with three of the new ASLs are presented. These structural and solution studies of the ASL complexes with the internal aldimine form of the enzyme establish the following. (1) ASL binding occurs with high specificity and relatively high affinities at the alpha-site. (2) Binding of the new ASLs slows the entry of indole analogues into the beta-site by blocking the tunnel opening at the alpha-site. (3) ASL binding stabilizes the closed conformations of the beta-subunit for the alpha-aminoacrylate and quinonoid forms of the enzyme. (4) The new ASLs exhibit allosteric properties that parallel the behaviors of IGP and G3P.

Synthesis and characterization of allosteric probes of substrate channeling in the tryptophan synthase bienzyme complex.,Ngo H, Harris R, Kimmich N, Casino P, Niks D, Blumenstein L, Barends TR, Kulik V, Weyand M, Schlichting I, Dunn MF Biochemistry. 2007 Jul 3;46(26):7713-27. Epub 2007 Jun 9. PMID:17559195^[1]

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

References

↑ Ngo H, Harris R, Kimmich N, Casino P, Niks D, Blumenstein L, Barends TR, Kulik V, Weyand M, Schlichting I, Dunn MF. Synthesis and characterization of allosteric probes of substrate channeling in the tryptophan synthase bienzyme complex. Biochemistry. 2007 Jul 3;46(26):7713-27. Epub 2007 Jun 9. PMID:17559195 doi:10.1021/bi700385f

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/2clk"

@@ Line 1: / Line 1: @@
-==TRYPTOPHAN SYNTHASE IN COMPLEX WITH D-GLYCERALDEHYDE 3-PHOSPHATE (G3P)==
+==Tryptophan Synthase in complex with D-glyceraldehyde 3-phosphate (G3P)==
 <StructureSection load='2clk' size='340' side='right' caption='[[2clk]], [[Resolution|resolution]] 1.50&Aring;' scene=''>
 == Structural highlights ==
@@ Line 6: / Line 7: @@
 <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[1a50|1a50]], [[1a5a|1a5a]], [[1a5b|1a5b]], [[1a5s|1a5s]], [[1bks|1bks]], [[1c29|1c29]], [[1c8v|1c8v]], [[1c9d|1c9d]], [[1cw2|1cw2]], [[1cx9|1cx9]], [[1fuy|1fuy]], [[1geq|1geq]], [[1k3u|1k3u]], [[1k7e|1k7e]], [[1k7f|1k7f]], [[1k7x|1k7x]], [[1k8y|1k8y]], [[1k8z|1k8z]], [[1kfj|1kfj]], [[1kfk|1kfk]], [[1qop|1qop]], [[1qoq|1qoq]], [[1rd5|1rd5]], [[1tjp|1tjp]], [[1ttp|1ttp]], [[1ttq|1ttq]], [[1ubs|1ubs]], [[1ujp|1ujp]], [[1v7y|1v7y]], [[1v8z|1v8z]], [[1wbj|1wbj]], [[1wq5|1wq5]], [[1wxj|1wxj]], [[1xc4|1xc4]], [[1xcf|1xcf]], [[2cle|2cle]], [[2clf|2clf]], [[2clh|2clh]], [[2cli|2cli]], [[2cll|2cll]], [[2clm|2clm]], [[2clo|2clo]], [[2trs|2trs]], [[2tsy|2tsy]], [[2tys|2tys]], [[2wsy|2wsy]]</td></tr>
 <tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Tryptophan_synthase Tryptophan synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.1.20 4.2.1.20] </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=2clk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2clk OCA], [http://pdbe.org/2clk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2clk RCSB], [http://www.ebi.ac.uk/pdbsum/2clk PDBsum]</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=2clk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2clk OCA], [http://pdbe.org/2clk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2clk RCSB], [http://www.ebi.ac.uk/pdbsum/2clk PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2clk ProSAT]</span></td></tr>
 </table>
 == Function ==
@@ Line 14: / Line 15: @@
 Check<jmol>
   <jmolCheckbox>
-    <scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/cl/2clk_consurf.spt"</scriptWhenChecked>
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/cl/2clk_consurf.spt"</scriptWhenChecked>
     <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
     <text>to colour the structure by Evolutionary Conservation</text>

2clk

From Proteopedia

Revision as of 08:33, 23 May 2018

Tryptophan Synthase in complex with D-glyceraldehyde 3-phosphate (G3P)

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

Personal tools

Navigation

Search

Toolbox