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| | <StructureSection load='1xkv' size='340' side='right'caption='[[1xkv]], [[Resolution|resolution]] 2.20Å' scene=''> | | <StructureSection load='1xkv' size='340' side='right'caption='[[1xkv]], [[Resolution|resolution]] 2.20Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[1xkv]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Thet8 Thet8]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1wg9 1wg9]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XKV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1XKV FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[1xkv]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus_HB8 Thermus thermophilus HB8]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1wg9 1wg9]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XKV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1XKV FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</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]] 2.2Å</td></tr> |
| - | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[1j3b|1j3b]]</td></tr>
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr> |
| - | <tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Phosphoenolpyruvate_carboxykinase_(ATP) Phosphoenolpyruvate carboxykinase (ATP)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.1.49 4.1.1.49] </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=1xkv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xkv OCA], [https://pdbe.org/1xkv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1xkv RCSB], [https://www.ebi.ac.uk/pdbsum/1xkv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1xkv ProSAT], [https://www.topsan.org/Proteins/RSGI/1xkv TOPSAN]</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=1xkv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xkv OCA], [http://pdbe.org/1xkv PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1xkv RCSB], [http://www.ebi.ac.uk/pdbsum/1xkv PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1xkv ProSAT], [http://www.topsan.org/Proteins/RSGI/1xkv TOPSAN]</span></td></tr> | + | |
| | </table> | | </table> |
| | == Function == | | == Function == |
| - | [[http://www.uniprot.org/uniprot/PCKA_THET8 PCKA_THET8]] Involved in gluconeogenesis. Catalyzes the conversion of oxaloacetate (OAA) to phosphoenolpyruvate (PEP) through direct phosphoryl transfer between the nucleoside triphosphate and OAA (By similarity).<ref>PMID:16239727</ref> | + | [https://www.uniprot.org/uniprot/PCKA_THET8 PCKA_THET8] Involved in gluconeogenesis. Catalyzes the conversion of oxaloacetate (OAA) to phosphoenolpyruvate (PEP) through direct phosphoryl transfer between the nucleoside triphosphate and OAA (By similarity).<ref>PMID:16239727</ref> |
| | == Evolutionary Conservation == | | == Evolutionary Conservation == |
| | [[Image:Consurf_key_small.gif|200px|right]] | | [[Image:Consurf_key_small.gif|200px|right]] |
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| | </StructureSection> | | </StructureSection> |
| | [[Category: Large Structures]] | | [[Category: Large Structures]] |
| - | [[Category: Thet8]] | + | [[Category: Thermus thermophilus HB8]] |
| - | [[Category: Kunishima, N]] | + | [[Category: Kunishima N]] |
| - | [[Category: Structural genomic]]
| + | [[Category: Sugahara M]] |
| - | [[Category: Sugahara, M]] | + | |
| - | [[Category: Adenosine triphosphate]]
| + | |
| - | [[Category: Lyase]]
| + | |
| - | [[Category: Phosphoenolpyruvate carboxykinase]]
| + | |
| - | [[Category: Rsgi]]
| + | |
| - | [[Category: Thermus thermophilus]]
| + | |
| Structural highlights
1xkv is a 2 chain structure with sequence from Thermus thermophilus HB8. This structure supersedes the now removed PDB entry 1wg9. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
| | Method: | X-ray diffraction, Resolution 2.2Å |
| Ligands: | , , , |
| Resources: | FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT, TOPSAN |
Function
PCKA_THET8 Involved in gluconeogenesis. Catalyzes the conversion of oxaloacetate (OAA) to phosphoenolpyruvate (PEP) through direct phosphoryl transfer between the nucleoside triphosphate and OAA (By similarity).[1]
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
In order to understand the induced fit and the thermostabilization mechanisms of ATP-dependent phosphoenolpyruvate carboxykinase, the crystal structure of the enzyme from the extreme thermophile Thermus thermophilus HB8 (TtPEPCK) was determined and compared with those of orthologues of known structure from two mesophilic organisms. The protomer structures in these orthologues, which exhibit open/closed interdomain conformations, are similar. Isomorphous crystals of unliganded and ATP-bound TtPEPCK were obtained. The asymmetric units of both crystal forms contain two protomers A and B with closed and open conformations, respectively. ATP was only observed in the interdomain cleft of the closed protomer, suggesting that the induced fit of TtPEPCK agrees with the so-called ;conformational selection' mechanism where ligand binding is not essential for domain closure although its binding leads to the stabilization of the closed state. A bound calcium observed in the N-terminal domain of TtPEPCK probably contributes to the thermal stability. A combination of hydrophobic effects, ion pairs and entropic effects might also contribute to the thermostability of TtPEPCK.
Structure of ATP-dependent phosphoenolpyruvate carboxykinase from Thermus thermophilus HB8 showing the structural basis of induced fit and thermostability.,Sugahara M, Ohshima N, Ukita Y, Sugahara M, Kunishima N Acta Crystallogr D Biol Crystallogr. 2005 Nov;61(Pt 11):1500-7. Epub 2005, Oct 19. PMID:16239727[2]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
See Also
References
- ↑ Sugahara M, Ohshima N, Ukita Y, Sugahara M, Kunishima N. Structure of ATP-dependent phosphoenolpyruvate carboxykinase from Thermus thermophilus HB8 showing the structural basis of induced fit and thermostability. Acta Crystallogr D Biol Crystallogr. 2005 Nov;61(Pt 11):1500-7. Epub 2005, Oct 19. PMID:16239727 doi:10.1107/S090744490502651X
- ↑ Sugahara M, Ohshima N, Ukita Y, Sugahara M, Kunishima N. Structure of ATP-dependent phosphoenolpyruvate carboxykinase from Thermus thermophilus HB8 showing the structural basis of induced fit and thermostability. Acta Crystallogr D Biol Crystallogr. 2005 Nov;61(Pt 11):1500-7. Epub 2005, Oct 19. PMID:16239727 doi:10.1107/S090744490502651X
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