4w5h: Difference between revisions
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<StructureSection load='4w5h' size='340' side='right' caption='[[4w5h]], [[Resolution|resolution]] 1.96Å' scene=''> | <StructureSection load='4w5h' size='340' side='right' caption='[[4w5h]], [[Resolution|resolution]] 1.96Å' scene=''> | ||
== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>[[4w5h]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4W5H OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4W5H FirstGlance]. <br> | <table><tr><td colspan='2'>[[4w5h]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Strp2 Strp2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4W5H OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4W5H FirstGlance]. <br> | ||
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></td></tr> | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></td></tr> | ||
<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[4ntz|4ntz]], [[4w5j|4w5j]]</td></tr> | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[4ntz|4ntz]], [[4w5j|4w5j]]</td></tr> | ||
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">adk, SPD_0214 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=373153 STRP2])</td></tr> | |||
<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Adenylate_kinase Adenylate kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.4.3 2.7.4.3] </span></td></tr> | <tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Adenylate_kinase Adenylate kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.4.3 2.7.4.3] </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=4w5h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4w5h OCA], [http://pdbe.org/4w5h PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4w5h RCSB], [http://www.ebi.ac.uk/pdbsum/4w5h PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4w5h ProSAT]</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=4w5h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4w5h OCA], [http://pdbe.org/4w5h PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4w5h RCSB], [http://www.ebi.ac.uk/pdbsum/4w5h PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4w5h ProSAT]</span></td></tr> | ||
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</StructureSection> | </StructureSection> | ||
[[Category: Adenylate kinase]] | [[Category: Adenylate kinase]] | ||
[[Category: Strp2]] | |||
[[Category: Lee, S H]] | [[Category: Lee, S H]] | ||
[[Category: Thach, T T]] | [[Category: Thach, T T]] | ||
Revision as of 04:11, 16 November 2017
New structural conformations of adenylate kinase from Streptococcus pneumoniae D39New structural conformations of adenylate kinase from Streptococcus pneumoniae D39
Structural highlights
Function[KAD_STRP2] Catalyzes the reversible transfer of the terminal phosphate group between ATP and AMP. Plays an important role in cellular energy homeostasis and in adenine nucleotide metabolism (By similarity). Publication Abstract from PubMedAdenylate kinases (AdKs; EC 2.7.3.4) play a critical role in intercellular homeostasis by the interconversion of ATP and AMP to two ADP molecules. Crystal structures of adenylate kinase from Streptococcus pneumoniae D39 (SpAdK) have recently been determined using ligand-free and inhibitor-bound crystals belonging to space groups P21 and P1, respectively. Here, new crystal structures of SpAdK in ligand-free and inhibitor-bound states determined at 1.96 and 1.65 A resolution, respectively, are reported. The new ligand-free crystal belonged to space group C2, with unit-cell parameters a = 73.5, b = 54.3, c = 62.7 A, beta = 118.8 degrees . The new ligand-free structure revealed an open conformation that differed from the previously determined conformation, with an r.m.s.d on C(alpha) atoms of 1.4 A. The new crystal of the complex with the two-substrate-mimicking inhibitor P(1),P(5)-bis(adenosine-5'-)pentaphosphate (Ap5A) belonged to space group P1, with unit-cell parameters a = 53.9, b = 62.3, c = 63.0 A, alpha = 101.9, beta = 112.6, gamma = 89.9 degrees . Despite belonging to the same space group as the previously reported crystal, the new Ap5A-bound crystal contains four molecules in the asymmetric unit, compared with two in the previous crystal, and shows slightly different lattice contacts. These results demonstrate that SpAdK can crystallize promiscuously in different forms and that the open structure is flexible in conformation. New crystal structures of adenylate kinase from Streptococcus pneumoniae D39 in two conformations.,Thach TT, Lee S Acta Crystallogr F Struct Biol Commun. 2014 Nov;70(Pt 11):1468-71. doi:, 10.1107/S2053230X14020718. Epub 2014 Oct 25. PMID:25372811[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. References
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