5wja - Revision history

OCA at 14:14, 4 October 2023

OCA — Wed, 04 Oct 2023 14:14:57 GMT

←Older revision		Revision as of 14:14, 4 October 2023
Line 3:		Line 3:
	<StructureSection load='5wja' size='340' side='right'caption='[[5wja]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='5wja' size='340' side='right'caption='[[5wja]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5wja]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Buffalo_rat Buffalo rat~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WJA OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5WJA FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5wja]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WJA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5WJA FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=FLC:CITRATE+ANION'>FLC</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</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]] 2.3Å</td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Pam ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Buffalo rat])~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=FLC:CITRATE+ANION'>FLC</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene></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=5wja FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5wja OCA], [~~http~~://pdbe.org/5wja PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5wja RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5wja PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5wja 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=5wja FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5wja OCA], [https://pdbe.org/5wja PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5wja RCSB], [https://www.ebi.ac.uk/pdbsum/5wja PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5wja ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/AMD_RAT AMD_RAT]] Bifunctional enzyme that catalyzes 2 sequential steps in C-terminal alpha-amidation of peptides. The monooxygenase part produces an unstable peptidyl(2-hydroxyglycine) intermediate that is dismutated to glyoxylate and the corresponding desglycine peptide amide by the lyase part. C-terminal amidation of peptides such as neuropeptides is essential for full biological activity.	+	[https://www.uniprot.org/uniprot/AMD_RAT AMD_RAT] Bifunctional enzyme that catalyzes 2 sequential steps in C-terminal alpha-amidation of peptides. The monooxygenase part produces an unstable peptidyl(2-hydroxyglycine) intermediate that is dismutated to glyoxylate and the corresponding desglycine peptide amide by the lyase part. C-terminal amidation of peptides such as neuropeptides is essential for full biological activity.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 26:		Line 26:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Buffalo rat]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Amzel, L M~~]]	+	[[Category: Rattus norvegicus]]
-	[[Category: ~~Gabelli, S B~~]]	+	[[Category: Amzel LM]]
-	[[Category: ~~Maheshwari, S~~]]	+	[[Category: Gabelli SB]]
-	[[Category: ~~Rudzka, K~~]]	+	[[Category: Maheshwari S]]
-	[[Category: ~~Lyase]]~~	+	[[Category: Rudzka K]]
-	~~[[Category: Metal binding protein]]~~	+
-	~~[[Category: Oxidoreductase]]~~	+
-	~~[[Category: Peptidylglycine 2-hydroxylase]]~~	+
-	~~[[Category: Peptidylglycine monooxygenase]]~~	+
-	~~[[Category: Phm~~]]	+

OCA at 08:11, 27 November 2019

OCA — Wed, 27 Nov 2019 08:11:59 GMT

←Older revision		Revision as of 08:11, 27 November 2019
Line 1:		Line 1:

	==Crystal structure of H107A peptidylglycine alpha-hydroxylating monooxygenase (PHM) in complex with citrate==		==Crystal structure of H107A peptidylglycine alpha-hydroxylating monooxygenase (PHM) in complex with citrate==
-	<StructureSection load='5wja' size='340' side='right' caption='[[5wja]], [[Resolution\|resolution]] 2.30Å' scene=''>	+	<StructureSection load='5wja' size='340' side='right'caption='[[5wja]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5wja]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Buffalo_rat Buffalo rat]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WJA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5WJA FirstGlance]. <br>		<table><tr><td colspan='2'>[[5wja]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Buffalo_rat Buffalo rat]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WJA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5WJA FirstGlance]. <br>
Line 21:		Line 21:

	==See Also==		==See Also==
-	*[[Monooxygenase\|Monooxygenase]]	+	*[[Monooxygenase 3D structures\|Monooxygenase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 27:		Line 27:
	</StructureSection>		</StructureSection>
	[[Category: Buffalo rat]]		[[Category: Buffalo rat]]
		+	[[Category: Large Structures]]
	[[Category: Amzel, L M]]		[[Category: Amzel, L M]]
	[[Category: Gabelli, S B]]		[[Category: Gabelli, S B]]

OCA at 08:28, 17 October 2018

OCA — Wed, 17 Oct 2018 08:28:39 GMT

←Older revision		Revision as of 08:28, 17 October 2018
Line 3:		Line 3:
	<StructureSection load='5wja' size='340' side='right' caption='[[5wja]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='5wja' size='340' side='right' caption='[[5wja]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5wja]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WJA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5WJA FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5wja]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Buffalo_rat Buffalo rat]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WJA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5WJA FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=FLC:CITRATE+ANION'>FLC</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=FLC:CITRATE+ANION'>FLC</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Pam ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Buffalo rat])</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=5wja FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5wja OCA], [http://pdbe.org/5wja PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5wja RCSB], [http://www.ebi.ac.uk/pdbsum/5wja PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5wja 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=5wja FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5wja OCA], [http://pdbe.org/5wja PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5wja RCSB], [http://www.ebi.ac.uk/pdbsum/5wja PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5wja ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/AMD_RAT AMD_RAT]] Bifunctional enzyme that catalyzes 2 sequential steps in C-terminal alpha-amidation of peptides. The monooxygenase part produces an unstable peptidyl(2-hydroxyglycine) intermediate that is dismutated to glyoxylate and the corresponding desglycine peptide amide by the lyase part. C-terminal amidation of peptides such as neuropeptides is essential for full biological activity.		[[http://www.uniprot.org/uniprot/AMD_RAT AMD_RAT]] Bifunctional enzyme that catalyzes 2 sequential steps in C-terminal alpha-amidation of peptides. The monooxygenase part produces an unstable peptidyl(2-hydroxyglycine) intermediate that is dismutated to glyoxylate and the corresponding desglycine peptide amide by the lyase part. C-terminal amidation of peptides such as neuropeptides is essential for full biological activity.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The structures of metalloproteins that use redox-active metals for catalysis are usually exquisitely folded in a way that they are prearranged to accept their metal cofactors. Peptidylglycine alpha-hydroxylating monooxygenase (PHM) is a dicopper enzyme that catalyzes hydroxylation of the alpha-carbon of glycine-extended peptides for the formation of des-glycine amidated peptides. Here, we present the structures of apo-PHM and of mutants of one of the copper sites (H107A, H108A, and H172A) determined in the presence and absence of citrate. Together, these structures show that the absence of one copper changes the conformational landscape of PHM. In one of these structures, a large interdomain rearrangement brings residues from both copper sites to coordinate a single copper (closed conformation) indicating that full copper occupancy is necessary for locking the catalytically competent conformation (open). These data suggest that in addition to their required participation in catalysis, the redox-active metals play an important structural role.
		+
		+	Effects of copper occupancy on the conformational landscape of peptidylglycine alpha-hydroxylating monooxygenase.,Maheshwari S, Shimokawa C, Rudzka K, Kline CD, Eipper BA, Mains RE, Gabelli SB, Blackburn N, Amzel LM Commun Biol. 2018 Jun 25;1:74. doi: 10.1038/s42003-018-0082-y. eCollection 2018. PMID:30271955<ref>PMID:30271955</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5wja" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Monooxygenase\|Monooxygenase]]
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Buffalo rat]]
	[[Category: Amzel, L M]]		[[Category: Amzel, L M]]
	[[Category: Gabelli, S B]]		[[Category: Gabelli, S B]]

OCA at 07:28, 18 July 2018

OCA — Wed, 18 Jul 2018 07:28:12 GMT

←Older revision		Revision as of 07:28, 18 July 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5wja is ~~ON HOLD until Paper Publication~~	+	==Crystal structure of H107A peptidylglycine alpha-hydroxylating monooxygenase (PHM) in complex with citrate==
-		+	<StructureSection load='5wja' size='340' side='right' caption='[[5wja]], [[Resolution\|resolution]] 2.30Å' scene=''>
-	~~Authors~~: ~~Maheshwari~~, S., ~~Rudzka~~, K., ~~Gabelli, S~~.B., ~~Amzel, L~~.M.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5wja]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WJA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5WJA FirstGlance]. <br>
-	~~Description~~: ~~Crystal structure of H107A peptidylglycine~~ alpha-~~hydroxylating~~ monooxygenase (~~PHM~~) ~~in complex with citrate~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=FLC:CITRATE+ANION'>FLC</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	<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=5wja FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5wja OCA], [http://pdbe.org/5wja PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5wja RCSB], [http://www.ebi.ac.uk/pdbsum/5wja PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5wja ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/AMD_RAT AMD_RAT]] Bifunctional enzyme that catalyzes 2 sequential steps in C-terminal alpha-amidation of peptides. The monooxygenase part produces an unstable peptidyl(2-hydroxyglycine) intermediate that is dismutated to glyoxylate and the corresponding desglycine peptide amide by the lyase part. C-terminal amidation of peptides such as neuropeptides is essential for full biological activity.
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Amzel, L M]]
		+	[[Category: Gabelli, S B]]
	[[Category: Maheshwari, S]]		[[Category: Maheshwari, S]]
	[[Category: Rudzka, K]]		[[Category: Rudzka, K]]
-	[[Category: ~~Gabelli, S.B~~]]	+	[[Category: Lyase]]
-	[[Category: ~~Amzel, L.M~~]]	+	[[Category: Metal binding protein]]
		+	[[Category: Oxidoreductase]]
		+	[[Category: Peptidylglycine 2-hydroxylase]]
		+	[[Category: Peptidylglycine monooxygenase]]
		+	[[Category: Phm]]

OCA at 05:33, 25 October 2017

OCA — Wed, 25 Oct 2017 05:33:16 GMT

←Older revision		Revision as of 05:33, 25 October 2017
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5wja is ON HOLD	+	The entry 5wja is ON HOLD until Paper Publication

	Authors: Maheshwari, S., Rudzka, K., Gabelli, S.B., Amzel, L.M.		Authors: Maheshwari, S., Rudzka, K., Gabelli, S.B., Amzel, L.M.
Line 7:		Line 7:
	Description: Crystal structure of H107A peptidylglycine alpha-hydroxylating monooxygenase (PHM) in complex with citrate		Description: Crystal structure of H107A peptidylglycine alpha-hydroxylating monooxygenase (PHM) in complex with citrate
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Rudzka, K]]
-	[[Category: Amzel, L.M]]
	[[Category: Maheshwari, S]]		[[Category: Maheshwari, S]]
		+	[[Category: Rudzka, K]]
	[[Category: Gabelli, S.B]]		[[Category: Gabelli, S.B]]
		+	[[Category: Amzel, L.M]]

OCA: Protected "5wja" [edit=sysop:move=sysop]

OCA — Wed, 27 Sep 2017 14:53:23 GMT

Protected "5wja" [edit=sysop:move=sysop]

←Older revision

Revision as of 14:53, 27 September 2017

OCA: New page: '''Unreleased structure''' The entry 5wja is ON HOLD Authors: Maheshwari, S., Rudzka, K., Gabelli, S.B., Amzel, L.M. Description: Crystal structure of H107A peptidylglycine alpha-hydro...

OCA — Wed, 27 Sep 2017 14:53:22 GMT

New page: '''Unreleased structure''' The entry 5wja is ON HOLD Authors: Maheshwari, S., Rudzka, K., Gabelli, S.B., Amzel, L.M. Description: Crystal structure of H107A peptidylglycine alpha-hydro...

New page

'''Unreleased structure'''

The entry 5wja is ON HOLD

Authors: Maheshwari, S., Rudzka, K., Gabelli, S.B., Amzel, L.M.

Description: Crystal structure of H107A peptidylglycine alpha-hydroxylating monooxygenase (PHM) in complex with citrate
[[Category: Unreleased Structures]]
[[Category: Rudzka, K]]
[[Category: Amzel, L.M]]
[[Category: Maheshwari, S]]
[[Category: Gabelli, S.B]]