2var

From Proteopedia

(Difference between revisions)

Revision as of 23:44, 9 February 2016

CRYSTAL STRUCTURE OF SULFOLOBUS SOLFATARICUS 2-KETO-3-DEOXYGLUCONATE KINASE COMPLEXED WITH 2-KETO-3-DEOXYGLUCONATE

Structural highlights

2var is a 3 chain structure with sequence from Atcc 35091. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:	, , ,
Related:	2v78
Activity:	Fructokinase, with EC number 2.7.1.4
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum

Function

[KDGK_SULSO] Involved in the degradation of glucose and galactose via the semi-phosphorylative Entner-Doudoroff pathway. Catalyzes the phosphorylation of 2-keto-3-deoxygluconate (KDG) and 2-keto-3-deoxygalactonate (KDGal) to produce 2-keto-3-deoxy-6-phosphogluconate (KDPG) and 2-keto-3-deoxy-6-phosphogalactonate (KDPGal), respectively.^[1] ^[2] ^[3]

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

The hyperthermophilic archaeon Sulfolobus solfataricus grows optimally above 353 K and utilizes an unusual promiscuous nonphosphorylative Entner-Doudoroff pathway to metabolize both glucose and galactose. It has been proposed that a part-phosphorylative Entner-Doudoroff pathway occurs in parallel in S. solfataricus, in which the 2-keto-3-deoxygluconate kinase (KDGK) is promiscuous for both glucose and galactose metabolism. Recombinant S. solfataricus KDGK protein was expressed in Escherichia coli, purified and crystallized in 0.1 M sodium acetate pH 4.1 and 1.4 M NaCl. The crystal structure of apo S. solfataricus KDGK was solved by molecular replacement to a resolution of 2.0 A and a ternary complex with 2-keto-3-deoxygluconate (KDGlu) and an ATP analogue was resolved at 2.1 A. The complex suggests that the structural basis for the enzyme's ability to phosphorylate KDGlu and 2-keto-3-deoxygalactonate (KDGal) is derived from a subtle repositioning of residues that are conserved in homologous nonpromiscuous kinases.

The structure of Sulfolobus solfataricus 2-keto-3-deoxygluconate kinase.,Potter JA, Kerou M, Lamble HJ, Bull SD, Hough DW, Danson MJ, Taylor GL Acta Crystallogr D Biol Crystallogr. 2008 Dec;64(Pt 12):1283-7. Epub 2008, Nov 18. PMID:19018105^[4]

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

References

↑ Ahmed H, Ettema TJ, Tjaden B, Geerling AC, van der Oost J, Siebers B. The semi-phosphorylative Entner-Doudoroff pathway in hyperthermophilic archaea: a re-evaluation. Biochem J. 2005 Sep 1;390(Pt 2):529-40. PMID:15869466 doi:http://dx.doi.org/10.1042/BJ20041711
↑ Lamble HJ, Theodossis A, Milburn CC, Taylor GL, Bull SD, Hough DW, Danson MJ. Promiscuity in the part-phosphorylative Entner-Doudoroff pathway of the archaeon Sulfolobus solfataricus. FEBS Lett. 2005 Dec 19;579(30):6865-9. Epub 2005 Dec 1. PMID:16330030 doi:http://dx.doi.org/10.1016/j.febslet.2005.11.028
↑ Kim S, Lee SB. Characterization of Sulfolobus solfataricus 2-keto-3-deoxy-D-gluconate kinase in the modified Entner-Doudoroff pathway. Biosci Biotechnol Biochem. 2006 Jun;70(6):1308-16. PMID:16794308 doi:http://dx.doi.org/10.1271/bbb.50566
↑ Potter JA, Kerou M, Lamble HJ, Bull SD, Hough DW, Danson MJ, Taylor GL. The structure of Sulfolobus solfataricus 2-keto-3-deoxygluconate kinase. Acta Crystallogr D Biol Crystallogr. 2008 Dec;64(Pt 12):1283-7. Epub 2008, Nov 18. PMID:19018105 doi:10.1107/S0907444908036111

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/2var"

@@ Line 2: / Line 2: @@
 <StructureSection load='2var' size='340' side='right' caption='[[2var]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[2var]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Sulfolobus_solfataricus Sulfolobus solfataricus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VAR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2VAR FirstGlance]. <br>
+<table><tr><td colspan='2'>[[2var]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_35091 Atcc 35091]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VAR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2VAR FirstGlance]. <br>
 </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=AMP:ADENOSINE+MONOPHOSPHATE'>AMP</scene>, <scene name='pdbligand=ANP:PHOSPHOAMINOPHOSPHONIC+ACID-ADENYLATE+ESTER'>ANP</scene>, <scene name='pdbligand=KDF:3-DEOXY-ALPHA-D-ERYTHRO-HEX-2-ULOFURANOSONIC+ACID'>KDF</scene>, <scene name='pdbligand=KDG:2-KETO-3-DEOXYGLUCONATE'>KDG</scene></td></tr>
 <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[2v78|2v78]]</td></tr>
 <tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Fructokinase Fructokinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.4 2.7.1.4] </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=2var FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2var OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2var RCSB], [http://www.ebi.ac.uk/pdbsum/2var 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=2var FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2var OCA], [http://pdbe.org/2var PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2var RCSB], [http://www.ebi.ac.uk/pdbsum/2var PDBsum]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/Q97U29_SULSO Q97U29_SULSO]] Involved in the degradation of glucose and galactose via the semi-phosphorylative Entner-Doudoroff pathway. Catalyzes the phosphorylation of 2-keto-3-deoxygluconate (KDG) and 2-keto-3-deoxygalactonate (KDGal) to produce 2-keto-3-deoxy-6-phosphogluconate (KDPG) and 2-keto-3-deoxy-6-phosphogalactonate (KDPGal), respectively.<ref>PMID:15869466</ref> <ref>PMID:16330030</ref> <ref>PMID:16794308</ref>
+[[http://www.uniprot.org/uniprot/KDGK_SULSO KDGK_SULSO]] Involved in the degradation of glucose and galactose via the semi-phosphorylative Entner-Doudoroff pathway. Catalyzes the phosphorylation of 2-keto-3-deoxygluconate (KDG) and 2-keto-3-deoxygalactonate (KDGal) to produce 2-keto-3-deoxy-6-phosphogluconate (KDPG) and 2-keto-3-deoxy-6-phosphogalactonate (KDPGal), respectively.<ref>PMID:15869466</ref> <ref>PMID:16330030</ref> <ref>PMID:16794308</ref>
 == Evolutionary Conservation ==
 [[Image:Consurf_key_small.gif|200px|right]]
@@ Line 18: / Line 18: @@
     <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/chain_selection.php?pdb_ID=2ata ConSurf].
+</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=2var ConSurf].
 <div style="clear:both"></div>
 <div style="background-color:#fffaf0;">
@@ Line 28: / Line 28: @@
 From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 </div>
+<div class="pdbe-citations 2var" style="background-color:#fffaf0;"></div>
 ==See Also==
@@ Line 35: / Line 36: @@
 __TOC__
 </StructureSection>
+[[Category: Atcc 35091]]
 [[Category: Fructokinase]]
-[[Category: Sulfolobus solfataricus]]
 [[Category: Bull, S D]]
 [[Category: Danson, M J]]
@@ Line 49: / Line 50: @@
 [[Category: Kinase]]
 [[Category: Pfkb family carbohydrate kinase]]
+[[Category: Sulfolobus solfataricus]]
 [[Category: Transferase]]

2var

From Proteopedia

Revision as of 23:44, 9 February 2016

CRYSTAL STRUCTURE OF SULFOLOBUS SOLFATARICUS 2-KETO-3-DEOXYGLUCONATE KINASE COMPLEXED WITH 2-KETO-3-DEOXYGLUCONATE

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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