4oid: Difference between revisions
New page: '''Unreleased structure''' The entry 4oid is ON HOLD Authors: Nguyen, D.D., Pandian, R., Kim, D.D., Ha, S.C., Yoon, H.J., Kim, K.S., Yun, K.H., Kim, J.H., Kim, K.K. Description: Struct... |
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The | ==Structural and kinetic bases for the metal preference of the M18 aminopeptidase from Pseudomonas aeruginosa== | ||
<StructureSection load='4oid' size='340' side='right'caption='[[4oid]], [[Resolution|resolution]] 2.30Å' scene=''> | |||
== Structural highlights == | |||
<table><tr><td colspan='2'>[[4oid]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseudomonas_aeruginosa_PAO1 Pseudomonas aeruginosa PAO1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4OID OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4OID FirstGlance]. <br> | |||
</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='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=4oid FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4oid OCA], [https://pdbe.org/4oid PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4oid RCSB], [https://www.ebi.ac.uk/pdbsum/4oid PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4oid ProSAT]</span></td></tr> | |||
</table> | |||
== Function == | |||
[https://www.uniprot.org/uniprot/APEB_PSEAE APEB_PSEAE] | |||
<div style="background-color:#fffaf0;"> | |||
== Publication Abstract from PubMed == | |||
The peptidases in clan MH are known as cocatalytic zinc peptidases that have two zinc ions in the active site, but their metal preference has not been rigorously investigated. In this study, the molecular basis for metal preference is provided from the structural and biochemical analyses. Kinetic studies of Pseudomonas aeruginosa aspartyl aminopeptidase (PaAP) which belongs to peptidase family M18 in clan MH revealed that its peptidase activity is dependent on Co2+ rather than Zn2+: the kcat (s-1) values of PaAP were 0.006, 5.10 and 0.43 in no-metal, Co2+, and Zn2+conditions, respectively. Consistently, addition of low concentrations of Co2+ to PaAP previously saturated with Zn2+ greatly enhanced the enzymatic activity, suggesting that Co2+may be the physiologically relevant cocatalytic metal ion of PaAP. The crystal structures of PaAP complexes with Co2+ or Zn2+ commonly showed two metal ions in the active site coordinated with three conserved residues and a bicarbonate ion in a tetragonal geometry. However, Co2+- and Zn2+-bound structures showed no noticeable alterations relevant to differential effects of metal species, except the relative orientation of Glu-265, a general base in the active site. The characterization of mutant PaAP revealed that the first metal binding site is primarily responsible for metal preference. Similar to PaAP, Streptococcus pneumonia glutamyl aminopeptidase (SpGP), belonging to aminopeptidase family M42 in clan MH, also showed requirement for Co2+ for maximum activity. These results proposed that clan MH peptidases might be a cocatalytic cobalt peptidase rather than a zinc-dependent peptidase. | |||
Structural and kinetic bases for the metal preference of the M18 aminopeptidase from Pseudomonas aeruginosa.,Nguyen DD, Pandian R, Kim D, Ha SC, Yoon HJ, Kim KS, Yun KH, Kim JH, Kim KK Biochem Biophys Res Commun. 2014 Apr 1. pii: S0006-291X(14)00561-0. doi:, 10.1016/j.bbrc.2014.03.109. PMID:24704201<ref>PMID:24704201</ref> | |||
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |||
</div> | |||
<div class="pdbe-citations 4oid" style="background-color:#fffaf0;"></div> | |||
== References == | |||
<references/> | |||
__TOC__ | |||
</StructureSection> | |||
[[Category: Large Structures]] | |||
[[Category: Pseudomonas aeruginosa PAO1]] | |||
[[Category: Ha SC]] | |||
[[Category: Kim DD]] | |||
[[Category: Kim JH]] | |||
[[Category: Kim KK]] | |||
[[Category: Kim KS]] | |||
[[Category: Nguyen DD]] | |||
[[Category: Pandian R]] | |||
[[Category: Yoon HJ]] | |||
[[Category: Yun KH]] | |||
Latest revision as of 17:55, 8 November 2023
Structural and kinetic bases for the metal preference of the M18 aminopeptidase from Pseudomonas aeruginosaStructural and kinetic bases for the metal preference of the M18 aminopeptidase from Pseudomonas aeruginosa
Structural highlights
FunctionPublication Abstract from PubMedThe peptidases in clan MH are known as cocatalytic zinc peptidases that have two zinc ions in the active site, but their metal preference has not been rigorously investigated. In this study, the molecular basis for metal preference is provided from the structural and biochemical analyses. Kinetic studies of Pseudomonas aeruginosa aspartyl aminopeptidase (PaAP) which belongs to peptidase family M18 in clan MH revealed that its peptidase activity is dependent on Co2+ rather than Zn2+: the kcat (s-1) values of PaAP were 0.006, 5.10 and 0.43 in no-metal, Co2+, and Zn2+conditions, respectively. Consistently, addition of low concentrations of Co2+ to PaAP previously saturated with Zn2+ greatly enhanced the enzymatic activity, suggesting that Co2+may be the physiologically relevant cocatalytic metal ion of PaAP. The crystal structures of PaAP complexes with Co2+ or Zn2+ commonly showed two metal ions in the active site coordinated with three conserved residues and a bicarbonate ion in a tetragonal geometry. However, Co2+- and Zn2+-bound structures showed no noticeable alterations relevant to differential effects of metal species, except the relative orientation of Glu-265, a general base in the active site. The characterization of mutant PaAP revealed that the first metal binding site is primarily responsible for metal preference. Similar to PaAP, Streptococcus pneumonia glutamyl aminopeptidase (SpGP), belonging to aminopeptidase family M42 in clan MH, also showed requirement for Co2+ for maximum activity. These results proposed that clan MH peptidases might be a cocatalytic cobalt peptidase rather than a zinc-dependent peptidase. Structural and kinetic bases for the metal preference of the M18 aminopeptidase from Pseudomonas aeruginosa.,Nguyen DD, Pandian R, Kim D, Ha SC, Yoon HJ, Kim KS, Yun KH, Kim JH, Kim KK Biochem Biophys Res Commun. 2014 Apr 1. pii: S0006-291X(14)00561-0. doi:, 10.1016/j.bbrc.2014.03.109. PMID:24704201[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. References
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