NADP-dependent malic enzyme - Revision history

Michal Harel at 09:11, 11 July 2023

Michal Harel — Tue, 11 Jul 2023 09:11:22 GMT

←Older revision		Revision as of 09:11, 11 July 2023
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-	[[3wja]], [[2aw5]] – ME - human<br />	+	[[3wja]], [[2aw5]] – hME - human<br />
		+	[[7x11]], [[7x12]] – hME1 + NADP<br />
		+	[[8e76]], [[8eyn]] – hME3<br />
		+	[[8e78]], [[8e8o]], [[8eyo]] – hME3 + NADP<br />
	[[1gq2]] – ME + NADP - pigeon<br />		[[1gq2]] – ME + NADP - pigeon<br />
	[[5ou5]] – ME - maize<br />		[[5ou5]] – ME - maize<br />

Michal Harel at 07:12, 10 September 2020

Michal Harel — Thu, 10 Sep 2020 07:12:48 GMT

←Older revision		Revision as of 07:12, 10 September 2020
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	== Alternative names for NADP-dependent malic enzyme ==		== Alternative names for NADP-dependent malic enzyme ==
	Molecule '''NADP-dependent malic enzyme''', also known as '''NADP-ME''', '''NADP-dependent malic enzyme''' and '''Malic enzyme 1'''.		Molecule '''NADP-dependent malic enzyme''', also known as '''NADP-ME''', '''NADP-dependent malic enzyme''' and '''Malic enzyme 1'''.
		+
		+	== 3D Structures of NADP-dependent malic enzyme ==
		+
		+	Updated on {{REVISIONDAY2}}-{{MONTHNAME\|{{REVISIONMONTH}}}}-{{REVISIONYEAR}}
		+
		+
		+	[[3wja]], [[2aw5]] – ME - human<br />
		+	[[1gq2]] – ME + NADP - pigeon<br />
		+	[[5ou5]] – ME - maize<br />

	== References ==		== References ==
	<references/>		<references/>
	[[Category:Topic Page]][[Category:PDBe]]		[[Category:Topic Page]][[Category:PDBe]]

Michal Harel at 06:59, 10 September 2020

Michal Harel — Thu, 10 Sep 2020 06:59:45 GMT

←Older revision		Revision as of 06:59, 10 September 2020
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	***2.5 A resolution		***2.5 A resolution
	== Alternative names for NADP-dependent malic enzyme ==		== Alternative names for NADP-dependent malic enzyme ==
-	Molecule NADP-dependent malic enzyme, also known as NADP-ME, NADP-dependent malic enzyme and Malic enzyme 1.	+	Molecule '''NADP-dependent malic enzyme''', also known as '''NADP-ME''', '''NADP-dependent malic enzyme''' and '''Malic enzyme 1'''.

	== References ==		== References ==
	<references/>		<references/>
	[[Category:Topic Page]][[Category:PDBe]]		[[Category:Topic Page]][[Category:PDBe]]

Michal Harel at 09:15, 16 February 2016

Michal Harel — Tue, 16 Feb 2016 09:15:05 GMT

←Older revision		Revision as of 09:15, 16 February 2016
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	== Alternative names for NADP-dependent malic enzyme ==		== Alternative names for NADP-dependent malic enzyme ==
	Molecule NADP-dependent malic enzyme, also known as NADP-ME, NADP-dependent malic enzyme and Malic enzyme 1.		Molecule NADP-dependent malic enzyme, also known as NADP-ME, NADP-dependent malic enzyme and Malic enzyme 1.
-	== 3D Structures of NADP-dependent malic enzyme==
-
-	Updated on {{REVISIONDAY2}}-{{MONTHNAME\|{{REVISIONMONTH}}}}-{{REVISIONYEAR}}
-
-	[[1gq2]] – ME + NADP + oxalate - pigeon<br />
-	[[2aw5]], [[3wja]] – ME - human<br />

	== References ==		== References ==
	<references/>		<references/>
	[[Category:Topic Page]][[Category:PDBe]]		[[Category:Topic Page]][[Category:PDBe]]

Michal Harel at 09:12, 16 February 2016

Michal Harel — Tue, 16 Feb 2016 09:12:09 GMT

←Older revision		Revision as of 09:12, 16 February 2016
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-	<StructureSection load='~~1gq2~~' size='340' side='right' caption='The best structure for NADP-dependent malic enzyme shown: [[3wja]]' scene=''>	+	<StructureSection load='3wja' size='340' side='right' caption='The best structure for NADP-dependent malic enzyme shown: [[3wja]]' scene=''>
	Best example is PDB entry [[3wja]] and is shown in the viewer.<br>		Best example is PDB entry [[3wja]] and is shown in the viewer.<br>
	==Catalytic Activity ==		==Catalytic Activity ==
	Oxaloacetate = pyruvate + CO(2).Data source: Uniprot [http://www.uniprot.org/uniprot/P48163 P48163]<br>		Oxaloacetate = pyruvate + CO(2).Data source: Uniprot [http://www.uniprot.org/uniprot/P48163 P48163]<br>
-	Or ~~teh~~ decarboxylation of malate to pyruvate.	+	Or the decarboxylation of malate to pyruvate<ref>PMID:8187880</ref>.

	== Biological process ==		== Biological process ==
Line 31:		Line 31:
	== Alternative names for NADP-dependent malic enzyme ==		== Alternative names for NADP-dependent malic enzyme ==
	Molecule NADP-dependent malic enzyme, also known as NADP-ME, NADP-dependent malic enzyme and Malic enzyme 1.		Molecule NADP-dependent malic enzyme, also known as NADP-ME, NADP-dependent malic enzyme and Malic enzyme 1.
		+	== 3D Structures of NADP-dependent malic enzyme==
		+
		+	Updated on {{REVISIONDAY2}}-{{MONTHNAME\|{{REVISIONMONTH}}}}-{{REVISIONYEAR}}
		+
		+	[[1gq2]] – ME + NADP + oxalate - pigeon<br />
		+	[[2aw5]], [[3wja]] – ME - human<br />
		+
		+	== References ==
		+	<references/>
	[[Category:Topic Page]][[Category:PDBe]]		[[Category:Topic Page]][[Category:PDBe]]

Michal Harel at 09:07, 16 February 2016

Michal Harel — Tue, 16 Feb 2016 09:07:49 GMT

←Older revision		Revision as of 09:07, 16 February 2016
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	==Catalytic Activity ==		==Catalytic Activity ==
	Oxaloacetate = pyruvate + CO(2).Data source: Uniprot [http://www.uniprot.org/uniprot/P48163 P48163]<br>		Oxaloacetate = pyruvate + CO(2).Data source: Uniprot [http://www.uniprot.org/uniprot/P48163 P48163]<br>
		+	Or teh decarboxylation of malate to pyruvate.

-	== Disease ==
-
-	== Relevance ==
-
-	== Structural highlights ==
	== Biological process ==		== Biological process ==
	Is involved in the following biological processes:<br>		Is involved in the following biological processes:<br>

Michal Harel at 09:03, 16 February 2016

Michal Harel — Tue, 16 Feb 2016 09:03:02 GMT

←Older revision		Revision as of 09:03, 16 February 2016
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-	<StructureSection load='~~3wja~~' size='340' side='right' caption='The best structure for NADP-dependent malic enzyme shown: [[3wja]]' scene=''>	+	<StructureSection load='1gq2' size='340' side='right' caption='The best structure for NADP-dependent malic enzyme shown: [[3wja]]' scene=''>
	Best example is PDB entry [[3wja]] and is shown in the viewer.<br>		Best example is PDB entry [[3wja]] and is shown in the viewer.<br>
	==Catalytic Activity ==		==Catalytic Activity ==

PDBe at 19:05, 20 September 2015

PDBe — Sun, 20 Sep 2015 19:05:43 GMT

←Older revision		Revision as of 19:05, 20 September 2015
Line 1:		Line 1:
-	<StructureSection load='3wja' size='340' side='right' caption='The best structure for NADP-dependent malic enzyme shown: 3wja' scene=''>	+	<StructureSection load='3wja' size='340' side='right' caption='The best structure for NADP-dependent malic enzyme shown: [[3wja]]' scene=''>
	Best example is PDB entry [[3wja]] and is shown in the viewer.<br>		Best example is PDB entry [[3wja]] and is shown in the viewer.<br>
-	Molecule NADP-dependent malic enzyme, also known as NADP-ME, NADP-dependent malic enzyme and Malic enzyme 1.
	==Catalytic Activity ==		==Catalytic Activity ==
	Oxaloacetate = pyruvate + CO(2).Data source: Uniprot [http://www.uniprot.org/uniprot/P48163 P48163]<br>		Oxaloacetate = pyruvate + CO(2).Data source: Uniprot [http://www.uniprot.org/uniprot/P48163 P48163]<br>
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	***Title: The crystal structure of human cytosolic NADP(+)-dependent malic enzyme in apo form		***Title: The crystal structure of human cytosolic NADP(+)-dependent malic enzyme in apo form
	***2.548 A resolution		***2.548 A resolution
-	***[http://www.ebi.ac.uk/pdbe/entry/search/index?organism_scientific_name:%22Homo%20sapiens%22&all_molecule_names:%22NADP-dependent%20malic%20enzyme%22&!chimera:y Search ~~for other~~ PDB ~~entries~~]	+	***[http://www.ebi.ac.uk/pdbe/entry/search/index?organism_scientific_name:%22Homo%20sapiens%22&all_molecule_names:%22NADP-dependent%20malic%20enzyme%22&!chimera:y Search the PDB for NADP-dependent malic enzyme from Homo sapiens]
	**<b>Columba livia</b> (1 PDB entries): <br>		**<b>Columba livia</b> (1 PDB entries): <br>
	***[[1gq2]] <div class="pdb-prints 1gq2"></div>		***[[1gq2]] <div class="pdb-prints 1gq2"></div>
	***Title: MALIC ENZYME FROM PIGEON LIVER		***Title: MALIC ENZYME FROM PIGEON LIVER
	***2.5 A resolution		***2.5 A resolution
		+	== Alternative names for NADP-dependent malic enzyme ==
		+	Molecule NADP-dependent malic enzyme, also known as NADP-ME, NADP-dependent malic enzyme and Malic enzyme 1.
	[[Category:Topic Page]][[Category:PDBe]]		[[Category:Topic Page]][[Category:PDBe]]

PDBe at 19:41, 15 September 2015

PDBe — Tue, 15 Sep 2015 19:41:35 GMT

←Older revision		Revision as of 19:41, 15 September 2015
Line 1:		Line 1:
-	~~== Lysozyme ==~~	+	<StructureSection load='3wja' size='340' side='right' caption='The best structure for NADP-dependent malic enzyme shown: 3wja' scene=''>
-	<StructureSection load='~~1swy~~' size='340' side='right' caption='The best structure for ~~Lysozyme~~ shown: ~~1swy~~' scene=''>	+	Best example is PDB entry [[3wja]] and is shown in the viewer.<br>
-	Best example is PDB entry [[~~1swy~~]] and is shown in the viewer.<br>	+	Molecule NADP-dependent malic enzyme, also known as NADP-ME, NADP-dependent malic enzyme and Malic enzyme 1.
-	Molecule ~~Lysozyme~~, also known as ~~Lysozyme, CP~~-~~7 lysin~~, ~~Muramidase, Endolysin, 1,4-beta-N-acetylmuramidase, Lysis protein, CP~~-1 ~~lysin, Lysozyme murein hydrolase, Protein gp17, Transglycosylase, Hevamine-A, Chitinase and L-alanyl-D-glutamate peptidase~~.	+
-	~~== Function ==~~	+
-	Endolysin with lysozyme activity that degrades host peptidoglycans and participates with the holin and spanin proteins in the sequential events which lead to the programmed host cell lysis releasing the mature viral particles. Once the holin has permeabilized the host cell membrane, the endolysin can reach the periplasm and break down the peptidoglycan layer.Data source: Uniprot [http://www.uniprot.org/uniprot/P00720 P00720]<br>	+
	==Catalytic Activity ==		==Catalytic Activity ==
-	~~Hydrolysis of~~ (~~1->4~~)~~-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues in a peptidoglycan and between N-acetyl-D-glucosamine residues in chitodextrins~~.Data source: Uniprot [http://www.uniprot.org/uniprot/~~P00720 P00720~~]<br>	+	Oxaloacetate = pyruvate + CO(2).Data source: Uniprot [http://www.uniprot.org/uniprot/P48163 P48163]<br>

	== Disease ==		== Disease ==
Line 15:		Line 12:
	== Biological process ==		== Biological process ==
	Is involved in the following biological processes:<br>		Is involved in the following biological processes:<br>
-	~~cell wall macromolecule catabolic~~ process<br>	+	malate metabolic process<br>
-	~~peptidoglycan catabolic~~ process<br>	+	oxidation-reduction process<br>
-	~~metabolic process~~<br>	+	response to carbohydrate<br>
-	~~defense~~ response to ~~bacterium<br>~~	+	response to hormone<br>
-	~~cytolysis<br>~~	+
-	~~viral release from host cell~~<br>	+
	carbohydrate metabolic process<br>		carbohydrate metabolic process<br>
-	~~chitin catabolic~~ process<br>	+	protein tetramerization<br>
-	~~polysaccharide catabolic~~ process<br>	+	regulation of NADP metabolic process<br>
-	~~cytolysis by virus of host cell~~<br>	+	NADP biosynthetic process<br>
-	~~cell wall organization~~<br>	+	small molecule metabolic process<br>
		+	cellular lipid metabolic process<br>
	== In structures ==		== In structures ==
-	~~Lysozyme~~ is found in ~~595~~ PDB entries<br>	+	NADP-dependent malic enzyme is found in 3 PDB entries<br>
-	*<b>~~Viruses</b> (578 PDB entries): <br>~~	+	*<b>Eukaryota</b> (3 PDB entries): <br>
-	**<b>Enterobacteria phage T4</b> (561 PDB entries): <br>	+	**<b>Homo sapiens</b> (2 PDB entries): <br>
-	***[[1swy]] <div class="pdb-prints 1swy"></div>	+	***[[3wja]] <div class="pdb-prints 3wja"></div>
-	***Title: Use of a Halide Binding Site to Bypass the 1000-atom Limit to Ab initio Structure Determination	+	***Title: The crystal structure of human cytosolic NADP(+)-dependent malic enzyme in apo form
-	***1.06 A resolution	+	***2.548 A resolution
-	***[http://www.ebi.ac.uk/pdbe/entry/search/index?organism_scientific_name:%22Enterobacteria%20phage%20T4%22&all_molecule_names:%22Lysozyme%22&!chimera:y Search for other PDB entries]	+	***[http://www.ebi.ac.uk/pdbe/entry/search/index?organism_scientific_name:%22Homo%20sapiens%22&all_molecule_names:%22NADP-dependent%20malic%20enzyme%22&!chimera:y Search for other PDB entries]
-	**<b>Streptococcus phage Cp-1</b> (6 PDB entries): <br>	+	**<b>Columba livia</b> (1 PDB entries): <br>
-	***[[2j8g]] <div class="pdb-prints 2j8g"></div>	+	***[[1gq2]] <div class="pdb-prints 1gq2"></div>
-	***Title: Crystal structure of the modular Cpl-1 endolysin complexed with a peptidoglycan analogue (E94Q mutant in complex with a tetrasaccharide- pentapeptide)	+	***Title: MALIC ENZYME FROM PIGEON LIVER
-	***1.69 A resolution	+
-	***[http://www.ebi.ac.uk/pdbe/entry/search/index?organism_scientific_name:%22Streptococcus%20phage%20Cp-1%22&all_molecule_names:%22Lysozyme%22&!chimera:y Search for other PDB entries]	+
-	**<b>Enterobacteria phage lambda</b> (3 PDB entries): <br>	+
-	***[[1am7]] <div class="pdb-prints 1am7"></div>	+
-	***Title: Lysozyme from bacteriophage lambda	+
-	***2.3 A resolution	+
-	***[http://www.ebi.ac.uk/pdbe/entry/search/index?organism_scientific_name:%22Enterobacteria%20phage%20lambda%22&all_molecule_names:%22Lysozyme%22&!chimera:y Search for other PDB entries]	+
-	**<b>~~Enterobacteria phage P1~~</b> (2 PDB entries): <br>	+
-	***[[~~1xju~~]] <div class="pdb-prints ~~1xju~~"></div>	+
-	***Title: ~~Crystal~~ structure of ~~secreted inactive form of P1 phage endolysin Lyz~~	+
-	***1.07 A resolution	+
-	***[http://www.ebi.ac.uk/pdbe/entry/search/index?organism_scientific_name:%22Enterobacteria%20phage%20P1%22&all_molecule_names:%22Lysozyme%22&!chimera:y Search for other PDB entries]	+
-	**<b>Streptococcus phage CP-7</b> (~~1 PDB entries~~)~~: <br>~~	+
-	***[[4cvd]] <div class="pdb-~~prints 4cvd"></div>~~	+
-	***Title: Crystal structure of the central repeat of cell wall binding module of Cpl7	+
-	***1.666 A resolution	+
-	*<b>Eukaryota</b> (16 PDB entries): <br>	+
-	**<b>Hevea brasiliensis</b> (7 PDB entries): <br>	+
-	***[[1kqy]] <div class="pdb-prints 1kqy"></div>	+
-	***Title: Hevamine Mutant D125A/E127A/Y183F in ~~Complex with Penta-NAG~~	+
-	***1.92 A resolution	+
-	***[http://www.ebi.ac.uk/pdbe/entry/search/index?organism_scientific_name:%~~22Hevea~~%~~20brasiliensis~~%22&all_molecule_names:%~~22Lysozyme%22&!chimera:y Search for other PDB entries]~~	+
-	**<b>Meretrix lusoria</b> (3 PDB entries): <br>	+
-	***[[4pj2]] <div class="pdb-~~prints 4pj2"></div>~~	+
-	***Title: Crystal structure of Aeromonas hydrophila PliI in complex with Meretrix lusoria lysozyme	+
-	***1.24 A resolution	+
-	***Other macromolecules also in this entry: Putative exported protein, .	+
-	***[http://www.ebi.ac.uk/pdbe/entry/search/index?organism_scientific_name:%~~22Meretrix%20lusoria%22&all_molecule_names:~~%~~22Lysozyme~~%22&!chimera:y Search for other PDB entries]	+
-	**<b>~~Bombyx mori~~</b> (2 PDB entries): <br>	+
-	***[[~~1gd6~~]] <div class="pdb-prints ~~1gd6~~"></div>	+
-	***Title: ~~STRUCTURE OF THE BOMBYX MORI LYSOZYME~~	+
	***2.5 A resolution		***2.5 A resolution
-	***[http://www.ebi.ac.uk/pdbe/entry/search/index?organism_scientific_name:%22Bombyx%20mori%22&all_molecule_names:%22Lysozyme%22&!chimera:y Search for other PDB entries]
-	**<b>Mus musculus</b> (1 PDB entries): <br>
-	***[[1iak]] <div class="pdb-prints 1iak"></div>
-	***Title: HISTOCOMPATIBILITY ANTIGEN I-AK
-	***1.9 A resolution
-	***Other macromolecules also in this entry: H-2 class II histocompatibility antigen, A-K beta chain, H-2 class II histocompatibility antigen, A-K alpha chain.
-	*<b>Bacteria</b> (1 PDB entries): <br>
-	**<b>Escherichia coli</b> (1 PDB entries): <br>
-	***[[2qb0]] <div class="pdb-prints 2qb0"></div>
-	***Title: Structure of the 2TEL crystallization module fused to T4 lysozyme with an Ala-Gly-Pro linker.
-	***2.56 A resolution
-	***Other macromolecules also in this entry: Transcription factor ETV6, .
	[[Category:Topic Page]][[Category:PDBe]]		[[Category:Topic Page]][[Category:PDBe]]

PDBe at 20:45, 12 September 2015

PDBe — Sat, 12 Sep 2015 20:45:26 GMT

←Older revision		Revision as of 20:45, 12 September 2015
Line 1:		Line 1:
	== Lysozyme ==		== Lysozyme ==
	<StructureSection load='1swy' size='340' side='right' caption='The best structure for Lysozyme shown: 1swy' scene=''>		<StructureSection load='1swy' size='340' side='right' caption='The best structure for Lysozyme shown: 1swy' scene=''>
-	Best example is 1swy and is shown in the viewer.<br>	+	Best example is PDB entry [[1swy]] and is shown in the viewer.<br>
	Molecule Lysozyme, also known as Lysozyme, CP-7 lysin, Muramidase, Endolysin, 1,4-beta-N-acetylmuramidase, Lysis protein, CP-1 lysin, Lysozyme murein hydrolase, Protein gp17, Transglycosylase, Hevamine-A, Chitinase and L-alanyl-D-glutamate peptidase.		Molecule Lysozyme, also known as Lysozyme, CP-7 lysin, Muramidase, Endolysin, 1,4-beta-N-acetylmuramidase, Lysis protein, CP-1 lysin, Lysozyme murein hydrolase, Protein gp17, Transglycosylase, Hevamine-A, Chitinase and L-alanyl-D-glutamate peptidase.
	== Function ==		== Function ==
		+	Endolysin with lysozyme activity that degrades host peptidoglycans and participates with the holin and spanin proteins in the sequential events which lead to the programmed host cell lysis releasing the mature viral particles. Once the holin has permeabilized the host cell membrane, the endolysin can reach the periplasm and break down the peptidoglycan layer.Data source: Uniprot [http://www.uniprot.org/uniprot/P00720 P00720]<br>
	==Catalytic Activity ==		==Catalytic Activity ==
		+	Hydrolysis of (1->4)-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues in a peptidoglycan and between N-acetyl-D-glucosamine residues in chitodextrins.Data source: Uniprot [http://www.uniprot.org/uniprot/P00720 P00720]<br>

	== Disease ==		== Disease ==