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6ov8
From Proteopedia
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<StructureSection load='6ov8' size='340' side='right'caption='[[6ov8]], [[Resolution|resolution]] 2.61Å' scene=''> | <StructureSection load='6ov8' size='340' side='right'caption='[[6ov8]], [[Resolution|resolution]] 2.61Å' scene=''> | ||
== Structural highlights == | == Structural highlights == | ||
| - | <table><tr><td colspan='2'>[[6ov8]] is a 6 chain structure with sequence from [ | + | <table><tr><td colspan='2'>[[6ov8]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6OV8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6OV8 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]] 2.61Å</td></tr> |
| - | <tr id=' | + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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=6ov8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ov8 OCA], [https://pdbe.org/6ov8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6ov8 RCSB], [https://www.ebi.ac.uk/pdbsum/6ov8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6ov8 ProSAT]</span></td></tr> | |
| - | + | ||
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| - | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[ | + | |
</table> | </table> | ||
== Function == | == Function == | ||
| - | [ | + | [https://www.uniprot.org/uniprot/PEPB_ECOLI PEPB_ECOLI] Probably plays an important role in intracellular peptide degradation (PubMed:20067529).[HAMAP-Rule:MF_00504]<ref>PMID:20067529</ref> |
| + | <div style="background-color:#fffaf0;"> | ||
| + | == Publication Abstract from PubMed == | ||
| + | Protein degradation by aminopeptidases is involved in bacterial responses to stress. Escherichia coli produces two metal-dependent M17 family leucine aminopeptidases (LAPs), aminopeptidase A (PepA) and aminopeptidase B (PepB). Several structures have been solved for PepA as well as other bacterial M17 peptidases. Herein, we report the first structures of a PepB M17 peptidase. The E. coli PepB protein structure was determined at a resolution of 2.05 and 2.6 A. One structure has both Zn(2+) and Mn(2+) , while the second structure has two Zn(2+) ions bound to the active site. A 2.75 A apo structure is also reported for PepB from Yersinia pestis. Both proteins form homohexamers, similar to the overall arrangement of PepA and other M17 peptidases. However, the divergent N-terminal domain in PepB is much larger resulting in a tertiary structure that is more expanded. Modeling of a dipeptide substrate into the C-terminal LAP domain reveals contacts that account for PepB to uniquely cleave after aspartate. | ||
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| + | Comparison of metal-bound and unbound structures of aminopeptidase B proteins from Escherichia coli and Yersinia pestis.,Minasov G, Lam MR, Rosas-Lemus M, Slawek J, Woinska M, Shabalin IG, Shuvalova L, Palsson BO, Godzik A, Minor W, Satchell KJF Protein Sci. 2020 Jul;29(7):1618-1628. doi: 10.1002/pro.3876. Epub 2020 May 8. PMID:32306515<ref>PMID:32306515</ref> | ||
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| + | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | ||
| + | </div> | ||
| + | <div class="pdbe-citations 6ov8" style="background-color:#fffaf0;"></div> | ||
| + | |||
| + | ==See Also== | ||
| + | *[[Aminopeptidase 3D structures|Aminopeptidase 3D structures]] | ||
== References == | == References == | ||
<references/> | <references/> | ||
__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
| - | [[Category: | + | [[Category: Escherichia coli K-12]] |
[[Category: Large Structures]] | [[Category: Large Structures]] | ||
| - | + | [[Category: Grimshaw S]] | |
| - | + | [[Category: Kiryukhina O]] | |
| - | [[Category: Grimshaw | + | [[Category: Kwon K]] |
| - | [[Category: Kiryukhina | + | [[Category: Minasov G]] |
| - | [[Category: Kwon | + | [[Category: Satchell KJF]] |
| - | [[Category: Minasov | + | [[Category: Shuvalova L]] |
| - | [[Category: Satchell | + | [[Category: Wawrzak Z]] |
| - | [[Category: Shuvalova | + | |
| - | [[Category: Wawrzak | + | |
| - | + | ||
| - | + | ||
| - | + | ||
Current revision
2.6 Angstrom Resolution Crystal Structure of Aminopeptidase B from Escherichia coli str. K-12 substr. MG1655
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