6erk - Revision history

OCA at 12:46, 7 November 2018

2018-11-07T12:46:56Z

←Older revision		Revision as of 12:46, 7 November 2018
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	<StructureSection load='6erk' size='340' side='right' caption='[[6erk]], [[Resolution\|resolution]] 1.60Å' scene=''>		<StructureSection load='6erk' size='340' side='right' caption='[[6erk]], [[Resolution\|resolution]] 1.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6erk]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6ERK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6ERK FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6erk]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Psyck Psyck]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6ERK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6ERK FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PLP:PYRIDOXAL-5-PHOSPHATE'>PLP</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PLP:PYRIDOXAL-5-PHOSPHATE'>PLP</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Pcryo_0361 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=335284 PSYCK])</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=6erk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6erk OCA], [http://pdbe.org/6erk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6erk RCSB], [http://www.ebi.ac.uk/pdbsum/6erk PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6erk 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=6erk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6erk OCA], [http://pdbe.org/6erk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6erk RCSB], [http://www.ebi.ac.uk/pdbsum/6erk PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6erk ProSAT]</span></td></tr>
	</table>		</table>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Psyck]]
	[[Category: Bezsudnova, E Y]]		[[Category: Bezsudnova, E Y]]
	[[Category: Boyko, K M]]		[[Category: Boyko, K M]]

OCA at 08:10, 26 September 2018

2018-09-26T08:10:00Z

←Older revision		Revision as of 08:10, 26 September 2018
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-	'''Unreleased structure'''

-	~~The entry~~ 6erk is ~~ON HOLD~~	+	==Crystal structure of diaminopelargonic acid aminotransferase from Psychrobacter cryohalolentis==
		+	<StructureSection load='6erk' size='340' side='right' caption='[[6erk]], [[Resolution\|resolution]] 1.60Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6erk]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6ERK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6ERK FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PLP:PYRIDOXAL-5-PHOSPHATE'>PLP</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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=6erk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6erk OCA], [http://pdbe.org/6erk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6erk RCSB], [http://www.ebi.ac.uk/pdbsum/6erk PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6erk ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Substrate and reaction promiscuity is a remarkable property of some enzymes and facilitates the adaptation to new metabolic demands in the evolutionary process. Substrate promiscuity is also a basis for protein engineering for biocatalysis. However, molecular principles of enzyme promiscuity are not well understood. Even for the widely studied PLP-dependent transaminases of class III, the reliable prediction of the biocatalytically important amine transaminase activity is still difficult if the desired activity is unrelated to the natural activity. Here, we show that 7,8-diaminopelargonic acid transaminase (synthase), previously considered to be highly specific, is able to convert (S)-(-)-1-phenylethylamine and a number of aldehydes and diketones. We were able to characterize the (S)-amine transaminase activity of 7,8-diaminopelargonic acid transaminase from Psychrobacter cryohalolentis (Pcryo361) and analyzed the three-dimensional structure of the enzyme. New substrate specificity for alpha-diketones was observed, though only a weak activity towards pyruvate was found. We examined the organization of the active site and binding modes of S-adenosyl-L-methionine and (S)-(-)-1-phenylethylamine using X-ray analysis and molecular docking. We suggest that the Pcryo361 affinity towards (S)-(-)-1-phenylethylamine arises from the recognition of the hydrophobic parts of the specific substrates, S-adenosyl-L-methionine and 7-keto-8-aminopelargonic acid, and from the flexibility of the active site. Our results support the observation that the conversion of amines is a promiscuous activity of many transaminases of class III and is independent from their natural function. The analysis of amine transaminase activity from among various transaminases will help to make the sequence-function prediction for biocatalysis more reliable.

-	~~Authors: Boyko~~, ~~K.M., Nikolaeva, A.Y~~., Bezsudnova~~, E.Y.~~, Stekhanova, ~~T.N.~~, Rakitina, T.V., ~~Popov, V~~.O.	+	Diaminopelargonic acid transaminase from Psychrobacter cryohalolentis is active towards (S)-(-)-1-phenylethylamine, aldehydes and alpha-diketones.,Bezsudnova EY, Stekhanova TN, Popinako AV, Rakitina TV, Nikolaeva AY, Boyko KM, Popov VO Appl Microbiol Biotechnol. 2018 Sep 3. pii: 10.1007/s00253-018-9310-0. doi:, 10.1007/s00253-018-9310-0. PMID:30178202<ref>PMID:30178202</ref>

-	~~Description: Crystal structure~~ of ~~diaminopelargonic acid aminotransferase from Psychrobacter cryohalolentis~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
-	[[Category: Boyko, K.M]]	+	<div class="pdbe-citations 6erk" style="background-color:#fffaf0;"></div>
-	[[Category: Popov, V.O]]	+	== References ==
-	[[Category: Stekhanova, T.N]]	+	<references/>
-	[[Category: ~~Nikolaeva, A.Y~~]]	+	__TOC__
-	[[Category: ~~Rakitina, T.V~~]]	+	</StructureSection>
-	[[Category: ~~Bezsudnova, E.Y~~]]	+	[[Category: Bezsudnova, E Y]]
		+	[[Category: Boyko, K M]]
		+	[[Category: Nikolaeva, A Y]]
		+	[[Category: Popov, V O]]
		+	[[Category: Rakitina, T V]]
		+	[[Category: Stekhanova, T N]]
		+	[[Category: Aminotransferase]]
		+	[[Category: Diaminopelargonic acid]]
		+	[[Category: Dimer]]
		+	[[Category: Plp]]
		+	[[Category: Psychrophilic]]
		+	[[Category: Transaminase]]
		+	[[Category: Transferase]]

OCA at 05:26, 15 February 2018

2018-02-15T05:26:00Z

←Older revision		Revision as of 05:26, 15 February 2018
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6erk is ON HOLD ~~until Paper Publication~~	+	The entry 6erk is ON HOLD

	Authors: Boyko, K.M., Nikolaeva, A.Y., Bezsudnova, E.Y., Stekhanova, T.N., Rakitina, T.V., Popov, V.O.		Authors: Boyko, K.M., Nikolaeva, A.Y., Bezsudnova, E.Y., Stekhanova, T.N., Rakitina, T.V., Popov, V.O.
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	Description: Crystal structure of diaminopelargonic acid aminotransferase from Psychrobacter cryohalolentis		Description: Crystal structure of diaminopelargonic acid aminotransferase from Psychrobacter cryohalolentis
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
		+	[[Category: Boyko, K.M]]
	[[Category: Popov, V.O]]		[[Category: Popov, V.O]]
	[[Category: Stekhanova, T.N]]		[[Category: Stekhanova, T.N]]
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	[[Category: Rakitina, T.V]]		[[Category: Rakitina, T.V]]
	[[Category: Bezsudnova, E.Y]]		[[Category: Bezsudnova, E.Y]]
-	[[Category: Boyko, K.M]]

OCA at 05:04, 1 November 2017

2017-11-01T05:04:01Z

←Older revision		Revision as of 05:04, 1 November 2017
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6erk is ON HOLD	+	The entry 6erk is ON HOLD until Paper Publication

	Authors: Boyko, K.M., Nikolaeva, A.Y., Bezsudnova, E.Y., Stekhanova, T.N., Rakitina, T.V., Popov, V.O.		Authors: Boyko, K.M., Nikolaeva, A.Y., Bezsudnova, E.Y., Stekhanova, T.N., Rakitina, T.V., Popov, V.O.
Line 7:		Line 7:
	Description: Crystal structure of diaminopelargonic acid aminotransferase from Psychrobacter cryohalolentis		Description: Crystal structure of diaminopelargonic acid aminotransferase from Psychrobacter cryohalolentis
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Boyko, K.M]]
	[[Category: Popov, V.O]]		[[Category: Popov, V.O]]
	[[Category: Stekhanova, T.N]]		[[Category: Stekhanova, T.N]]
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	[[Category: Rakitina, T.V]]		[[Category: Rakitina, T.V]]
	[[Category: Bezsudnova, E.Y]]		[[Category: Bezsudnova, E.Y]]
		+	[[Category: Boyko, K.M]]

OCA: Protected "6erk" [edit=sysop:move=sysop]

2017-10-25T06:02:44Z

Protected "6erk" [edit=sysop:move=sysop]

←Older revision

Revision as of 06:02, 25 October 2017

OCA: New page: '''Unreleased structure''' The entry 6erk is ON HOLD Authors: Boyko, K.M., Nikolaeva, A.Y., Bezsudnova, E.Y., Stekhanova, T.N., Rakitina, T.V., Popov, V.O. Description: Crystal structu...

2017-10-25T06:02:43Z

New page: '''Unreleased structure''' The entry 6erk is ON HOLD Authors: Boyko, K.M., Nikolaeva, A.Y., Bezsudnova, E.Y., Stekhanova, T.N., Rakitina, T.V., Popov, V.O. Description: Crystal structu...

New page

'''Unreleased structure'''

The entry 6erk is ON HOLD

Authors: Boyko, K.M., Nikolaeva, A.Y., Bezsudnova, E.Y., Stekhanova, T.N., Rakitina, T.V., Popov, V.O.

Description: Crystal structure of diaminopelargonic acid aminotransferase from Psychrobacter cryohalolentis
[[Category: Unreleased Structures]]
[[Category: Boyko, K.M]]
[[Category: Popov, V.O]]
[[Category: Stekhanova, T.N]]
[[Category: Nikolaeva, A.Y]]
[[Category: Rakitina, T.V]]
[[Category: Bezsudnova, E.Y]]