NADP-dependent malic enzyme: Difference between revisions

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== 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 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>
Or the decarboxylation of malate to pyruvate<ref>PMID:8187880</ref>.


== Disease ==
== Relevance ==
== Structural highlights ==
== 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 the PDB for NADP-dependent malic enzyme from Homo sapiens]
**<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]
== Alternative names for NADP-dependent malic enzyme ==
**<b>Mus musculus</b> (1 PDB entries): <br>
Molecule '''NADP-dependent malic enzyme''', also known as '''NADP-ME''', '''NADP-dependent malic enzyme''' and '''Malic enzyme 1'''.
***[[1iak]] <div class="pdb-prints 1iak"></div>
 
***Title: HISTOCOMPATIBILITY ANTIGEN I-AK
== 3D Structures of NADP-dependent malic enzyme ==
***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.
Updated on {{REVISIONDAY2}}-{{MONTHNAME|{{REVISIONMONTH}}}}-{{REVISIONYEAR}}
*<b>Bacteria</b> (1 PDB entries): <br>
**<b>Escherichia coli</b> (1 PDB entries): <br>
 
***[[2qb0]] <div class="pdb-prints 2qb0"></div>
[[3wja]], [[2aw5]] – hME - human<br />
***Title: Structure of the 2TEL crystallization module fused to T4 lysozyme with an Ala-Gly-Pro linker.
[[7x11]], [[7x12]] – hME1 + NADP<br />
***2.56 A resolution
[[8e76]], [[8eyn]] – hME3<br />
***Other macromolecules also in this entry: Transcription factor ETV6, .
[[8e78]], [[8e8o]], [[8eyo]] – hME3 + NADP<br />
[[1gq2]] – ME + NADP - pigeon<br />
[[5ou5]] – maME 62-636 - maize<br />
[[9e6m]] – maME 62-636 (mutant) + pyruvate <br />
[[9ks0]] – EcME PTA domain 429-759 – ''Eschericia coli''<br />
[[8jzo]], [[9krw]] – EcME – Cryo EM<br />
[[9m2i]] – EcME ME domain 1-440 – Cryo EM<br />
[[9krt]] – EcME + NADP – Cryo EM<br />
[[9m35]] – EcME ME domain + NADP – Cryo EM<br />
[[9l4n]] – EcME + acetyl CoA + NADP - Cryo EM<br />
[[9kru]] – BbME + NADP – ''Bdellovibrio bacteriovorus'' - Cryo EM<br />
[[9krv]] – BbME + acetyl CoA + NADP - Cryo EM<br />
 
 
== References ==
<references/>
[[Category:Topic Page]][[Category:PDBe]]
[[Category:Topic Page]][[Category:PDBe]]

Latest revision as of 10:30, 24 March 2026

<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.

Catalytic Activity

Oxaloacetate = pyruvate + CO(2).Data source: Uniprot P48163
Or the decarboxylation of malate to pyruvate[1].

Biological process

Is involved in the following biological processes:
malate metabolic process
oxidation-reduction process
response to carbohydrate
response to hormone
carbohydrate metabolic process
protein tetramerization
regulation of NADP metabolic process
NADP biosynthetic process
small molecule metabolic process
cellular lipid metabolic process

In structures

NADP-dependent malic enzyme is found in 3 PDB entries

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.

3D Structures of NADP-dependent malic enzyme

Updated on 24-March-2026


3wja, 2aw5 – hME - human
7x11, 7x12 – hME1 + NADP
8e76, 8eyn – hME3
8e78, 8e8o, 8eyo – hME3 + NADP
1gq2 – ME + NADP - pigeon
5ou5 – maME 62-636 - maize
9e6m – maME 62-636 (mutant) + pyruvate
9ks0 – EcME PTA domain 429-759 – Eschericia coli
8jzo, 9krw – EcME – Cryo EM
9m2i – EcME ME domain 1-440 – Cryo EM
9krt – EcME + NADP – Cryo EM
9m35 – EcME ME domain + NADP – Cryo EM
9l4n – EcME + acetyl CoA + NADP - Cryo EM
9kru – BbME + NADP – Bdellovibrio bacteriovorus - Cryo EM
9krv – BbME + acetyl CoA + NADP - Cryo EM


References

  1. ↑ Loeber G, Dworkin MB, Infante A, Ahorn H. Characterization of cytosolic malic enzyme in human tumor cells. FEBS Lett. 1994 May 16;344(2-3):181-6. PMID:8187880

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