6hkz - Revision history

OCA at 11:32, 24 January 2024

OCA — Wed, 24 Jan 2024 11:32:17 GMT

←Older revision		Revision as of 11:32, 24 January 2024
Line 1:		Line 1:

	==X-ray structure of human glutamate carboxypeptidase II (GCPII) in complex with a inhibitor RNA 2-49-1==		==X-ray structure of human glutamate carboxypeptidase II (GCPII) in complex with a inhibitor RNA 2-49-1==
-	<StructureSection load='6hkz' size='340' side='right' caption='[[6hkz]], [[Resolution\|resolution]] 2.09Å' scene=''>	+	<StructureSection load='6hkz' size='340' side='right'caption='[[6hkz]], [[Resolution\|resolution]] 2.09Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6hkz]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6HKZ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6HKZ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6hkz]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6HKZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6HKZ FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GBZ:(2~{S})-2-[[(2~{S})-6-[2-[(6-fluoranylpyridin-3-yl)carbonylamino]ethyl-phenyl-amino]-1-oxidanyl-1,6-bis(oxidanylidene)hexan-2-yl]carbamoylamino]pentanedioic+acid'>GBZ</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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]] 2.09Å</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glutamate_carboxypeptidase_II Glutamate carboxypeptidase II], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.17.21 3.4.17.21] </span></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GBZ:(2~{S})-2-[[(2~{S})-6-[2-[(6-fluoranylpyridin-3-yl)carbonylamino]ethyl-phenyl-amino]-1-oxidanyl-1,6-bis(oxidanylidene)hexan-2-yl]carbamoylamino]pentanedioic+acid'>GBZ</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</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'>[~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6hkz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6hkz OCA], [~~http~~://pdbe.org/6hkz PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6hkz RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6hkz PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6hkz 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=6hkz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6hkz OCA], [https://pdbe.org/6hkz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6hkz RCSB], [https://www.ebi.ac.uk/pdbsum/6hkz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6hkz ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/FOLH1_HUMAN FOLH1_HUMAN]] Has both folate hydrolase and N-acetylated-alpha-linked-acidic dipeptidase (NAALADase) activity. Has a preference for tri-alpha-glutamate peptides. In the intestine, required for the uptake of folate. In the brain, modulates excitatory neurotransmission through the hydrolysis of the neuropeptide, N-aceylaspartylglutamate (NAAG), thereby releasing glutamate. Isoform PSM-4 and isoform PSM-5 would appear to be physiologically irrelevant. Involved in prostate tumor progression. Also exhibits a dipeptidyl-peptidase IV type activity. In vitro, cleaves Gly-Pro-AMC.	+	[https://www.uniprot.org/uniprot/FOLH1_HUMAN FOLH1_HUMAN] Has both folate hydrolase and N-acetylated-alpha-linked-acidic dipeptidase (NAALADase) activity. Has a preference for tri-alpha-glutamate peptides. In the intestine, required for the uptake of folate. In the brain, modulates excitatory neurotransmission through the hydrolysis of the neuropeptide, N-aceylaspartylglutamate (NAAG), thereby releasing glutamate. Isoform PSM-4 and isoform PSM-5 would appear to be physiologically irrelevant. Involved in prostate tumor progression. Also exhibits a dipeptidyl-peptidase IV type activity. In vitro, cleaves Gly-Pro-AMC.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 19:		Line 19:
	</div>		</div>
	<div class="pdbe-citations 6hkz" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6hkz" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Carboxypeptidase 3D structures\|Carboxypeptidase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Glutamate carboxypeptidase II~~]]	+	[[Category: Homo sapiens]]
-	[[Category: ~~Barinka, C~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Motlova, L~~]]	+	[[Category: Barinka C]]
-	[[Category: ~~Novakova, Z~~]]	+	[[Category: Motlova L]]
-	[[Category: ~~Hydrolase]]~~	+	[[Category: Novakova Z]]
-	~~[[Category: Naaladase]]~~	+
-	~~[[Category: Prostate-specific membrane antigen]]~~	+
-	~~[[Category: Urea based inhibitor~~]]	+

OCA at 06:46, 5 December 2018

OCA — Wed, 05 Dec 2018 06:46:35 GMT

←Older revision		Revision as of 06:46, 5 December 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6hkz is ~~ON HOLD~~ ~~until Paper~~ Publication	+	==X-ray structure of human glutamate carboxypeptidase II (GCPII) in complex with a inhibitor RNA 2-49-1==
		+	<StructureSection load='6hkz' size='340' side='right' caption='[[6hkz]], [[Resolution\|resolution]] 2.09Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6hkz]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6HKZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6HKZ FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GBZ:(2~{S})-2-[[(2~{S})-6-[2-[(6-fluoranylpyridin-3-yl)carbonylamino]ethyl-phenyl-amino]-1-oxidanyl-1,6-bis(oxidanylidene)hexan-2-yl]carbamoylamino]pentanedioic+acid'>GBZ</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glutamate_carboxypeptidase_II Glutamate carboxypeptidase II], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.17.21 3.4.17.21] </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=6hkz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6hkz OCA], [http://pdbe.org/6hkz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6hkz RCSB], [http://www.ebi.ac.uk/pdbsum/6hkz PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6hkz ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/FOLH1_HUMAN FOLH1_HUMAN]] Has both folate hydrolase and N-acetylated-alpha-linked-acidic dipeptidase (NAALADase) activity. Has a preference for tri-alpha-glutamate peptides. In the intestine, required for the uptake of folate. In the brain, modulates excitatory neurotransmission through the hydrolysis of the neuropeptide, N-aceylaspartylglutamate (NAAG), thereby releasing glutamate. Isoform PSM-4 and isoform PSM-5 would appear to be physiologically irrelevant. Involved in prostate tumor progression. Also exhibits a dipeptidyl-peptidase IV type activity. In vitro, cleaves Gly-Pro-AMC.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The design and synthesis of prostate specific membrane antigen (PSMA) ligands derived from 2-aminoadipic acid, a building block that has not previously been used to construct PSMA ligands, are reported. The effects of both the linker length and of an N-substituent of our PSMA ligands were probed, and X-ray structures of five of these ligands bound to PSMA were obtained. Among the ligands disclosed herein, 13b showed the highest inhibitory activity for PSMA. As ligand 13b can readily be radiolabeled since its fluorine atom is adjacent to the nitrogen atom of its pyridine ring, the use of this and related compounds as theranostics can be pursued.

-	~~Authors: Motlova, L~~., ~~Novakova~~, Z., ~~Barinka~~, C.	+	2-Aminoadipic Acid-C(O)-Glutamate Based Prostate-Specific Membrane Antigen Ligands for Potential Use as Theranostics.,Nakajima R, Novakova Z, Tueckmantel W, Motlova L, Barinka C, Kozikowski AP ACS Med Chem Lett. 2018 Oct 24;9(11):1099-1104. doi:, 10.1021/acsmedchemlett.8b00318. eCollection 2018 Nov 8. PMID:30429952<ref>PMID:30429952</ref>

-	~~Description: X-ray structure of human glutamate carboxypeptidase II (GCPII) in complex with~~ a ~~inhibitor RNA 2~~-49-1	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category~~: ~~Unreleased Structures]]~~	+	</div>
-	[[Category: ~~Motlova, L~~]]	+	<div class="pdbe-citations 6hkz" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Glutamate carboxypeptidase II]]
	[[Category: Barinka, C]]		[[Category: Barinka, C]]
		+	[[Category: Motlova, L]]
	[[Category: Novakova, Z]]		[[Category: Novakova, Z]]
		+	[[Category: Hydrolase]]
		+	[[Category: Naaladase]]
		+	[[Category: Prostate-specific membrane antigen]]
		+	[[Category: Urea based inhibitor]]

OCA at 06:10, 10 October 2018

OCA — Wed, 10 Oct 2018 06:10:44 GMT

←Older revision		Revision as of 06:10, 10 October 2018
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Motlova, L., Novakova, Z., Barinka, C.		Authors: Motlova, L., Novakova, Z., Barinka, C.
Line 7:		Line 7:
	Description: X-ray structure of human glutamate carboxypeptidase II (GCPII) in complex with a inhibitor RNA 2-49-1		Description: X-ray structure of human glutamate carboxypeptidase II (GCPII) in complex with a inhibitor RNA 2-49-1
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Barinka, C]]
	[[Category: Motlova, L]]		[[Category: Motlova, L]]
		+	[[Category: Barinka, C]]
	[[Category: Novakova, Z]]		[[Category: Novakova, Z]]

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

OCA — Wed, 19 Sep 2018 18:09:58 GMT

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

←Older revision

Revision as of 18:09, 19 September 2018

OCA: New page: '''Unreleased structure''' The entry 6hkz is ON HOLD Authors: Motlova, L., Novakova, Z., Barinka, C. Description: X-ray structure of human glutamate carboxypeptidase II (GCPII) in comp...

OCA — Wed, 19 Sep 2018 18:09:56 GMT

New page: '''Unreleased structure''' The entry 6hkz is ON HOLD Authors: Motlova, L., Novakova, Z., Barinka, C. Description: X-ray structure of human glutamate carboxypeptidase II (GCPII) in comp...

New page

'''Unreleased structure'''

The entry 6hkz is ON HOLD

Authors: Motlova, L., Novakova, Z., Barinka, C.

Description: X-ray structure of human glutamate carboxypeptidase II (GCPII) in complex with a inhibitor RNA 2-49-1
[[Category: Unreleased Structures]]
[[Category: Barinka, C]]
[[Category: Motlova, L]]
[[Category: Novakova, Z]]