This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.

Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.

3hnh

From Proteopedia

(Difference between revisions)

Jump to: navigation, search

Current revision

Crystal Structure of PqqC Active Site Mutant Y175S,R179S in complex with a reaction intermediate

Structural highlights

3hnh is a 1 chain structure with sequence from Klebsiella pneumoniae subsp. pneumoniae MGH 78578. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 1.8Å
Ligands:
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

PQQC_KLEP7 Ring cyclization and eight-electron oxidation of 3a-(2-amino-2-carboxyethyl)-4,5-dioxo-4,5,6,7,8,9-hexahydroquinoline-7,9-dicarboxylic-acid to PQQ.[HAMAP-Rule:MF_00654]

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

Pyrroloquinoline quinone [4,5-dihydro-4,5-dioxo-1H-pyrrolo[2,3-f]quinoline-2,7,9-tricarboxylic acid (PQQ)] is a bacterial cofactor in numerous alcohol dehydrogenases including methanol dehydrogenase and glucose dehydrogenase. Its biosynthesis in Klebsiella pneumoniae is facilitated by six genes, pqqABCDEF and proceeds by an unknown pathway. PqqC is one of two metal free oxidases of known structure and catalyzes the last step of PQQ biogenesis which involves a ring closure and an eight-electron oxidation of the substrate [3a-(2-amino-2-carboxyethyl)-4,5-dioxo-4,5,6,7,8,9-hexahydroquinoline-7,9- dicarboxylic acid (AHQQ)]. PqqC has 14 conserved active site residues, which have previously been shown to be in close contact with bound PQQ. Herein, we describe the structures of three PqqC active site variants, H154S, Y175F, and the double mutant R179S/Y175S. The H154S crystal structure shows that, even with PQQ bound, the enzyme is still in the "open" conformation with helices alpha5b and alpha6 unfolded and the active site solvent accessible. The Y175F PQQ complex crystal structure reveals the closed conformation indicating that Y175 is not required for the conformational change. The R179S/Y175S AHQQ complex crystal structure is the most mechanistically informative, indicating an open conformation with a reaction intermediate trapped in the active site. The intermediate seen in R179S/Y175S is tricyclic but nonplanar, implying that it has not undergone oxidation. These studies implicate a stepwise process in which substrate binding leads to the generation of the closed protein conformation, with the latter playing a critical role in O(2) binding and catalysis. Proteins 2010. (c) 2010 Wiley-Liss, Inc.

Structural studies of mutant forms of the PQQ-forming enzyme PqqC in the presence of product and substrate.,Puehringer S, Rosefigura J, Metlitzky M, Toyama H, Klinman JP, Schwarzenbacher R Proteins. 2010 Aug 15;78(11):2554-62. PMID:20602352^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Puehringer S, Rosefigura J, Metlitzky M, Toyama H, Klinman JP, Schwarzenbacher R. Structural studies of mutant forms of the PQQ-forming enzyme PqqC in the presence of product and substrate. Proteins. 2010 Aug 15;78(11):2554-62. PMID:20602352 doi:10.1002/prot.22769

1 Structural highlights
2 Function
3 Evolutionary Conservation
4 Publication Abstract from PubMed
5 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/3hnh"

Categories: Klebsiella pneumoniae subsp. pneumoniae MGH 78578 | Large Structures | Puehringer S | Schwarzenbacher R

@@ Line 1: / Line 1: @@
 ==Crystal Structure of PqqC Active Site Mutant Y175S,R179S in complex with a reaction intermediate==
-<StructureSection load='3hnh' size='340' side='right' caption='[[3hnh]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
+<StructureSection load='3hnh' size='340' side='right'caption='[[3hnh]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[3hnh]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Klep7 Klep7]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3HNH OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3HNH FirstGlance]. <br>
+<table><tr><td colspan='2'>[[3hnh]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Klebsiella_pneumoniae_subsp._pneumoniae_MGH_78578 Klebsiella pneumoniae subsp. pneumoniae MGH 78578]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3HNH OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3HNH FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=AHQ:(2S,7R,9R)-4,5-DIHYDROXY-2,3,6,7,8,9-HEXAHYDRO-1H-PYRROLO[2,3-F]QUINOLINE-2,7,9-TRICARBOXYLIC+ACID'>AHQ</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]] 1.8&#8491;</td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[1otw|1otw]], [[1otv|1otv]], [[3hlx|3hlx]], [[3hml|3hml]]</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AHQ:(2S,7R,9R)-4,5-DIHYDROXY-2,3,6,7,8,9-HEXAHYDRO-1H-PYRROLO[2,3-F]QUINOLINE-2,7,9-TRICARBOXYLIC+ACID'>AHQ</scene></td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">PqqC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=272620 KLEP7])</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=3hnh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3hnh OCA], [https://pdbe.org/3hnh PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3hnh RCSB], [https://www.ebi.ac.uk/pdbsum/3hnh PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3hnh ProSAT]</span></td></tr>
-<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Pyrroloquinoline-quinone_synthase Pyrroloquinoline-quinone synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.3.11 1.3.3.11] </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=3hnh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3hnh OCA], [http://pdbe.org/3hnh PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3hnh RCSB], [http://www.ebi.ac.uk/pdbsum/3hnh PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3hnh ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/PQQC_KLEP7 PQQC_KLEP7]] Ring cyclization and eight-electron oxidation of 3a-(2-amino-2-carboxyethyl)-4,5-dioxo-4,5,6,7,8,9-hexahydroquinoline-7,9-dicarboxylic-acid to PQQ.[HAMAP-Rule:MF_00654]
+[https://www.uniprot.org/uniprot/PQQC_KLEP7 PQQC_KLEP7] Ring cyclization and eight-electron oxidation of 3a-(2-amino-2-carboxyethyl)-4,5-dioxo-4,5,6,7,8,9-hexahydroquinoline-7,9-dicarboxylic-acid to PQQ.[HAMAP-Rule:MF_00654]
 == Evolutionary Conservation ==
 [[Image:Consurf_key_small.gif|200px|right]]
 Check<jmol>
   <jmolCheckbox>
-    <scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/hn/3hnh_consurf.spt"</scriptWhenChecked>
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/hn/3hnh_consurf.spt"</scriptWhenChecked>
     <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
     <text>to colour the structure by Evolutionary Conservation</text>
@@ Line 35: / Line 33: @@
 __TOC__
 </StructureSection>
-[[Category: Klep7]]
+[[Category: Klebsiella pneumoniae subsp. pneumoniae MGH 78578]]
-[[Category: Pyrroloquinoline-quinone synthase]]
+[[Category: Large Structures]]
-[[Category: Puehringer, S]]
+[[Category: Puehringer S]]
-[[Category: Schwarzenbacher, R]]
+[[Category: Schwarzenbacher R]]
-[[Category: All helical]]
-[[Category: Complex]]
-[[Category: Oxidase]]
-[[Category: Oxidoreductase]]
-[[Category: Pqq biosynthesis]]
-[[Category: Pqqc]]

3hnh

From Proteopedia

Current revision

Crystal Structure of PqqC Active Site Mutant Y175S,R179S in complex with a reaction intermediate

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

Personal tools

Navigation

Search

Toolbox