1kkh

From Proteopedia

(Difference between revisions)

Current revision

Crystal Structure of the Methanococcus jannaschii Mevalonate Kinase

Structural highlights

1kkh is a 1 chain structure with sequence from Methanocaldococcus jannaschii. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 2.4Å
Ligands:
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

MVK_METJA Catalyzes the phosphorylation of (R)-mevalonate (MVA) to (R)-mevalonate 5-phosphate (MVAP). Functions in the mevalonate (MVA) pathway leading to isopentenyl diphosphate (IPP), a key precursor for the biosynthesis of isoprenoid compounds such as archaeal membrane lipids.[HAMAP-Rule:MF_00217]^[1] ^[2]

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 mevalonate-dependent pathway is used by many organisms to synthesize isopentenyl pyrophosphate, the building block for the biosynthesis of many biologically important compounds, including farnesyl pyrophosphate, dolichol, and many sterols. Mevalonate kinase (MVK) catalyzes a critical phosphoryl transfer step, producing mevalonate 5'-phosphate. The crystal structure of thermostable MVK from Methanococcus jannaschii has been determined at 2.4 A, revealing an overall fold similar to the homoserine kinase from M. jannaschii. In addition, the enzyme shows structural similarity with mevalonate 5-diphosphate decarboxylase and domain IV of elongation factor G. The active site of MVK is in the cleft between its N- and C-terminal domains. Several structural motifs conserved among species, including a phosphate-binding loop, have been found in this cavity. Asp(155), an invariant residue among MVK sequences, is located close to the putative phosphate-binding site and has been assumed to play the catalytic role. Analysis of the MVK model in the context of the other members of the GHMP kinase family offers the opportunity to understand both the mechanism of these enzymes and the structural details that may lead to the design of novel drugs.

Structure of the Methanococcus jannaschii mevalonate kinase, a member of the GHMP kinase superfamily.,Yang D, Shipman LW, Roessner CA, Scott AI, Sacchettini JC J Biol Chem. 2002 Mar 15;277(11):9462-7. Epub 2001 Dec 19. PMID:11751891^[3]

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

References

↑ Huang KX, Scott AI, Bennett GN. Overexpression, purification, and characterization of the thermostable mevalonate kinase from Methanococcus jannaschii. Protein Expr Purif. 1999 Oct;17(1):33-40. PMID:10497066 doi:10.1006/prep.1999.1106
↑ Chu X, Liu X, Yau M, Leung YC, Li D. Expression and purification of Arg196 and Lys272 mutants of mevalonate kinase from Methanococcus jannaschii. Protein Expr Purif. 2003 Aug;30(2):210-8. PMID:12880770 doi:10.1016/s1046-5928(03)00101-3
↑ Yang D, Shipman LW, Roessner CA, Scott AI, Sacchettini JC. Structure of the Methanococcus jannaschii mevalonate kinase, a member of the GHMP kinase superfamily. J Biol Chem. 2002 Mar 15;277(11):9462-7. Epub 2001 Dec 19. PMID:11751891 doi:10.1074/jbc.M110787200

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/1kkh"

@@ Line 1: / Line 1: @@
 ==Crystal Structure of the Methanococcus jannaschii Mevalonate Kinase==
-<StructureSection load='1kkh' size='340' side='right' caption='[[1kkh]], [[Resolution|resolution]] 2.40&Aring;' scene=''>
+<StructureSection load='1kkh' size='340' side='right'caption='[[1kkh]], [[Resolution|resolution]] 2.40&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[1kkh]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_43067 Atcc 43067]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KKH OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1KKH FirstGlance]. <br>
+<table><tr><td colspan='2'>[[1kkh]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Methanocaldococcus_jannaschii Methanocaldococcus jannaschii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KKH OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1KKH FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DIO:1,4-DIETHYLENE+DIOXIDE'>DIO</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]] 2.4&#8491;</td></tr>
-<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Mevalonate_kinase Mevalonate kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.36 2.7.1.36] </span></td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DIO:1,4-DIETHYLENE+DIOXIDE'>DIO</scene></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=1kkh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kkh OCA], [http://pdbe.org/1kkh PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1kkh RCSB], [http://www.ebi.ac.uk/pdbsum/1kkh PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1kkh 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=1kkh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kkh OCA], [https://pdbe.org/1kkh PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1kkh RCSB], [https://www.ebi.ac.uk/pdbsum/1kkh PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1kkh ProSAT]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/MVK_METJA MVK_METJA] Catalyzes the phosphorylation of (R)-mevalonate (MVA) to (R)-mevalonate 5-phosphate (MVAP). Functions in the mevalonate (MVA) pathway leading to isopentenyl diphosphate (IPP), a key precursor for the biosynthesis of isoprenoid compounds such as archaeal membrane lipids.[HAMAP-Rule:MF_00217]<ref>PMID:10497066</ref> <ref>PMID:12880770</ref>
 == Evolutionary Conservation ==
 [[Image:Consurf_key_small.gif|200px|right]]
@@ Line 13: / Line 15: @@
   <jmolCheckbox>
     <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/kk/1kkh_consurf.spt"</scriptWhenChecked>
-    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked>
     <text>to colour the structure by Evolutionary Conservation</text>
   </jmolCheckbox>
@@ Line 27: / Line 29: @@
 </div>
 <div class="pdbe-citations 1kkh" style="background-color:#fffaf0;"></div>
+==See Also==
+*[[Mevalonate kinase|Mevalonate kinase]]
 == References ==
 <references/>
 __TOC__
 </StructureSection>
-[[Category: Atcc 43067]]
+[[Category: Large Structures]]
-[[Category: Mevalonate kinase]]
+[[Category: Methanocaldococcus jannaschii]]
-[[Category: Roessner, C A]]
+[[Category: Roessner CA]]
-[[Category: Sacchettini, J C]]
+[[Category: Sacchettini JC]]
-[[Category: Scott, A I]]
+[[Category: Scott AI]]
-[[Category: Shipman, L W]]
+[[Category: Shipman LW]]
-[[Category: Yang, D]]
+[[Category: Yang D]]
-[[Category: Beta-alpha-beta]]
-[[Category: Mixed beta sheet]]
-[[Category: Phosphate-binding loop]]
-[[Category: Transferase]]

1kkh

From Proteopedia

Current revision

Crystal Structure of the Methanococcus jannaschii Mevalonate Kinase

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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