7n3j - Revision history

OCA at 16:23, 18 October 2023

OCA — Wed, 18 Oct 2023 16:23:47 GMT

←Older revision		Revision as of 16:23, 18 October 2023
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	<StructureSection load='7n3j' size='340' side='right'caption='[[7n3j]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='7n3j' size='340' side='right'caption='[[7n3j]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[7n3j]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7N3J OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7N3J FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7n3j]] is a 2 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=7N3J OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7N3J FirstGlance]. <br>
-	</td></tr><tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"~~><scene name~~=~~'pdbligand=05O:'>05O</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]] 2Å</td></tr>
-	<tr id='~~activity~~'><td class="sblockLbl"><b>~~Activity~~:</b></td><td class="sblockDat"><~~span class~~='~~plainlinks'>[https~~:~~//en.wikipedia.org/wiki/Peptidylprolyl_isomerase Peptidylprolyl isomerase], with EC number~~ [~~https://www.brenda~~-~~enzymes.info/php/result_flat.php4?ecno=5.2.1.8 5.2.1.8~~] </~~span~~></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=05O:(2S)-2-amino-3-[4-(trifluoromethoxy)phenyl]propanal'>05O</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=7n3j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7n3j OCA], [https://pdbe.org/7n3j PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7n3j RCSB], [https://www.ebi.ac.uk/pdbsum/7n3j PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7n3j 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=7n3j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7n3j OCA], [https://pdbe.org/7n3j PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7n3j RCSB], [https://www.ebi.ac.uk/pdbsum/7n3j PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7n3j ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/PPIB_ECOLI PPIB_ECOLI]] PPIases accelerate the folding of proteins. It catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides.	+	[https://www.uniprot.org/uniprot/PPIB_ECOLI PPIB_ECOLI] PPIases accelerate the folding of proteins. It catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</div>		</div>
	<div class="pdbe-citations 7n3j" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 7n3j" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Cyclophilin 3D structures\|Cyclophilin 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Escherichia coli K-12]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Peptidylprolyl isomerase]]~~	+	[[Category: Frkic RL]]
-	[[Category: Frkic~~, R L~~]]	+	[[Category: Jackson CJ]]
-	[[Category: Jackson~~, C J~~]]	+	[[Category: Otting G]]
-	[[Category: Otting, G]]	+
-	~~[[Category: Isomerase]]~~	+
-	~~[[Category: Non-canonical amino acid]]~~	+
-	~~[[Category: Peptidyl-prolyl cis-trans isomerase]]~~	+
-	~~[[Category: Trifluoromethyl-tyrosine~~]]	+

OCA at 06:29, 1 December 2021

OCA — Wed, 01 Dec 2021 06:29:23 GMT

←Older revision		Revision as of 06:29, 1 December 2021
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	== Function ==		== Function ==
	[[https://www.uniprot.org/uniprot/PPIB_ECOLI PPIB_ECOLI]] PPIases accelerate the folding of proteins. It catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides.		[[https://www.uniprot.org/uniprot/PPIB_ECOLI PPIB_ECOLI]] PPIases accelerate the folding of proteins. It catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Fluorine atoms are known to display scalar (19)F-(19)F couplings in nuclear magnetic resonance (NMR) spectra when they are sufficiently close in space for nonbonding orbitals to overlap. We show that fluorinated noncanonical amino acids positioned in the hydrophobic core or on the surface of a protein can be linked by scalar through-space (19)F-(19)F ((TS)JFF) couplings even if the (19)F spins are in the time average separated by more than the van der Waals distance. Using two different aromatic amino acids featuring CF3 groups, O-trifluoromethyl-tyrosine and 4-trifluoromethyl-phenylalanine, we show that (19)F-(19)F TOCSY experiments are sufficiently sensitive to detect (TS)JFF couplings between 2.5 and 5 Hz in the 19 kDa protein PpiB measured on a two-channel 400 MHz NMR spectrometer with a regular room temperature probe. A quantitative J evolution experiment enables the measurement of (TS)JFF coupling constants that are up to five times smaller than the (19)F NMR line width. In addition, a new aminoacyl-tRNA synthetase was identified for genetic encoding of N(6)-(trifluoroacetyl)-l-lysine (TFA-Lys) and (19)F-(19)F TOCSY peaks were observed between two TFA-Lys residues incorporated into the proteins AncCDT-1 and mRFP despite high solvent exposure and flexibility of the TFA-Lys side chains. With the ready availability of systems for site-specific incorporation of fluorinated amino acids into proteins by genetic encoding, (19)F-(19)F interactions offer a straightforward way to probe the spatial proximity of selected sites without any assignments of (1)H NMR resonances.
		+
		+	Through-Space Scalar (19)F-(19)F Couplings between Fluorinated Noncanonical Amino Acids for the Detection of Specific Contacts in Proteins.,Orton HW, Qianzhu H, Abdelkader EH, Habel EI, Tan YJ, Frkic RL, Jackson CJ, Huber T, Otting G J Am Chem Soc. 2021 Nov 24;143(46):19587-19598. doi: 10.1021/jacs.1c10104. Epub, 2021 Nov 15. PMID:34780162<ref>PMID:34780162</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7n3j" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 12:55, 13 October 2021

OCA — Wed, 13 Oct 2021 12:55:37 GMT

←Older revision		Revision as of 12:55, 13 October 2021
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	==E. coli peptidyl-prolyl cis-trans isomerase, mutant Phe27CF3-Tyr/Phe98CF3-Tyr==		==E. coli peptidyl-prolyl cis-trans isomerase, mutant Phe27CF3-Tyr/Phe98CF3-Tyr==
-	<StructureSection load='7n3j' size='340' side='right'caption='[[7n3j]]' scene=''>	+	<StructureSection load='7n3j' size='340' side='right'caption='[[7n3j]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7N3J OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7N3J FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7n3j]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7N3J OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7N3J FirstGlance]. <br>
-	</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=7n3j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7n3j OCA], [https://pdbe.org/7n3j PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7n3j RCSB], [https://www.ebi.ac.uk/pdbsum/7n3j PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7n3j ProSAT]</span></td></tr>	+	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=05O:'>05O</scene></td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Peptidylprolyl_isomerase Peptidylprolyl isomerase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.2.1.8 5.2.1.8] </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=7n3j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7n3j OCA], [https://pdbe.org/7n3j PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7n3j RCSB], [https://www.ebi.ac.uk/pdbsum/7n3j PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7n3j ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[https://www.uniprot.org/uniprot/PPIB_ECOLI PPIB_ECOLI]] PPIases accelerate the folding of proteins. It catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides.
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Frkic RL]]	+	[[Category: Peptidylprolyl isomerase]]
-	[[Category: Jackson CJ]]	+	[[Category: Frkic, R L]]
-	[[Category: Otting G]]	+	[[Category: Jackson, C J]]
		+	[[Category: Otting, G]]
		+	[[Category: Isomerase]]
		+	[[Category: Non-canonical amino acid]]
		+	[[Category: Peptidyl-prolyl cis-trans isomerase]]
		+	[[Category: Trifluoromethyl-tyrosine]]

OCA at 08:50, 29 September 2021

OCA — Wed, 29 Sep 2021 08:50:52 GMT

←Older revision		Revision as of 08:50, 29 September 2021
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-	'''Unreleased structure'''

-	~~The entry~~ 7n3j is ~~ON HOLD until Paper Publication~~	+	==E. coli peptidyl-prolyl cis-trans isomerase, mutant Phe27CF3-Tyr/Phe98CF3-Tyr==
-		+	<StructureSection load='7n3j' size='340' side='right'caption='[[7n3j]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7N3J OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7N3J FirstGlance]. <br>
-	~~Description~~:	+	</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=7n3j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7n3j OCA], [https://pdbe.org/7n3j PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7n3j RCSB], [https://www.ebi.ac.uk/pdbsum/7n3j PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7n3j ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Frkic RL]]
		+	[[Category: Jackson CJ]]
		+	[[Category: Otting G]]

OCA at 06:13, 25 June 2021

OCA — Fri, 25 Jun 2021 06:13:44 GMT

←Older revision		Revision as of 06:13, 25 June 2021
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7n3j is ON HOLD	+	The entry 7n3j is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "7n3j" [edit=sysop:move=sysop]

OCA — Wed, 09 Jun 2021 11:09:36 GMT

Protected "7n3j" [edit=sysop:move=sysop]

←Older revision

Revision as of 11:09, 9 June 2021

OCA: New page: '''Unreleased structure''' The entry 7n3j is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 09 Jun 2021 11:09:35 GMT

New page: '''Unreleased structure''' The entry 7n3j is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 7n3j is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]