1lwx
From Proteopedia
(Difference between revisions)
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<StructureSection load='1lwx' size='340' side='right'caption='[[1lwx]], [[Resolution|resolution]] 2.30Å' scene=''> | <StructureSection load='1lwx' size='340' side='right'caption='[[1lwx]], [[Resolution|resolution]] 2.30Å' scene=''> | ||
== Structural highlights == | == Structural highlights == | ||
| - | <table><tr><td colspan='2'>[[1lwx]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/ | + | <table><tr><td colspan='2'>[[1lwx]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Dictyostelium_discoideum Dictyostelium discoideum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LWX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1LWX FirstGlance]. <br> |
| - | </td></tr><tr id=' | + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.3Å</td></tr> |
| - | <tr id=' | + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AZD:3-AZIDO-3-DEOXYTHYMIDINE-5-DIPHOSPHATE'>AZD</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></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=1lwx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1lwx OCA], [https://pdbe.org/1lwx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1lwx RCSB], [https://www.ebi.ac.uk/pdbsum/1lwx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1lwx 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=1lwx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1lwx OCA], [https://pdbe.org/1lwx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1lwx RCSB], [https://www.ebi.ac.uk/pdbsum/1lwx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1lwx ProSAT]</span></td></tr> | ||
</table> | </table> | ||
| + | == Function == | ||
| + | [https://www.uniprot.org/uniprot/NDKC_DICDI NDKC_DICDI] | ||
== Evolutionary Conservation == | == Evolutionary Conservation == | ||
[[Image:Consurf_key_small.gif|200px|right]] | [[Image:Consurf_key_small.gif|200px|right]] | ||
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</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=1lwx 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=1lwx ConSurf]. | ||
<div style="clear:both"></div> | <div style="clear:both"></div> | ||
| - | <div style="background-color:#fffaf0;"> | ||
| - | == Publication Abstract from PubMed == | ||
| - | To be effective as antiviral agent, AZT (3'-azido-3'-deoxythymidine) must be converted to a triphosphate derivative by cellular kinases. The conversion is inefficient and, to understand why AZT diphosphate is a poor substrate of nucleoside diphosphate (NDP) kinase, we determined a 2.3-A x-ray structure of a complex with the N119A point mutant of Dictyostelium NDP kinase. It shows that the analog binds at the same site and, except for the sugar ring pucker which is different, binds in the same way as the natural substrate thymidine diphosphate. However, the azido group that replaces the 3'OH of the deoxyribose in AZT displaces a lysine side chain involved in catalysis. Moreover, it is unable to make an internal hydrogen bond to the oxygen bridging the beta- and gamma-phosphate, which plays an important part in phosphate transfer. | ||
| - | |||
| - | X-ray analysis of azido-thymidine diphosphate binding to nucleoside diphosphate kinase.,Xu Y, Sellam O, Morera S, Sarfati S, Biondi R, Veron M, Janin J Proc Natl Acad Sci U S A. 1997 Jul 8;94(14):7162-5. PMID:9207061<ref>PMID:9207061</ref> | ||
| - | |||
| - | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | ||
| - | </div> | ||
| - | <div class="pdbe-citations 1lwx" style="background-color:#fffaf0;"></div> | ||
==See Also== | ==See Also== | ||
*[[Nucleoside diphosphate kinase 3D structures|Nucleoside diphosphate kinase 3D structures]] | *[[Nucleoside diphosphate kinase 3D structures|Nucleoside diphosphate kinase 3D structures]] | ||
| - | == References == | ||
| - | <references/> | ||
__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
| - | [[Category: | + | [[Category: Dictyostelium discoideum]] |
[[Category: Large Structures]] | [[Category: Large Structures]] | ||
| - | + | [[Category: Janin J]] | |
| - | [[Category: Janin | + | [[Category: Xu Y]] |
| - | [[Category: Xu | + | |
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Current revision
AZT DIPHOSPHATE BINDING TO NUCLEOSIDE DIPHOSPHATE KINASE
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