ME2

gene
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Summary

ME2 (malic enzyme 2, HGNC:6984) is a protein-coding gene on chromosome 18q21.2, encoding NAD-dependent malic enzyme, mitochondrial (P23368). NAD-dependent mitochondrial malic enzyme that catalyzes the oxidative decarboxylation of malate to pyruvate.

This gene encodes a mitochondrial NAD-dependent malic enzyme, a homotetrameric protein, that catalyzes the oxidative decarboxylation of malate to pyruvate. It had previously been weakly linked to a syndrome known as Friedreich ataxia that has since been shown to be the result of mutation in a completely different gene. Certain single-nucleotide polymorphism haplotypes of this gene have been shown to increase the risk for idiopathic generalized epilepsy. Alternatively spliced transcript variants encoding different isoforms found for this gene.

Source: NCBI Gene 4200 — RefSeq curated summary.

At a glance

  • Gene–disease (curated): inborn disorder of energy metabolism (Limited, GenCC) — +1 more curated relationship
  • GWAS associations: 4
  • Clinical variants (ClinVar): 97 total — 1 likely-pathogenic
  • Druggable target: yes
  • MANE Select transcript: NM_002396

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:6984
Approved symbolME2
Namemalic enzyme 2
Location18q21.2
Locus typegene with protein product
StatusApproved
Ensembl geneENSG00000082212
Ensembl biotypeprotein_coding
OMIM154270
Entrez4200

Gene structure

Transcript identifiers

Ensembl transcripts: 25 — 13 protein_coding, 8 nonsense_mediated_decay, 4 retained_intron

ENST00000321341, ENST00000382927, ENST00000585680, ENST00000589330, ENST00000591925, ENST00000638410, ENST00000638768, ENST00000638937, ENST00000639115, ENST00000639255, ENST00000639398, ENST00000639612, ENST00000639663, ENST00000639665, ENST00000639688, ENST00000639850, ENST00000640530, ENST00000640965, ENST00000640967, ENST00000901565, ENST00000901566, ENST00000901567, ENST00000935531, ENST00000935532, ENST00000953407

RefSeq mRNA: 2 — MANE Select: NM_002396 NM_001168335, NM_002396

CCDS: CCDS11948, CCDS54187

Canonical transcript exons

ENST00000321341 — 16 exons

ExonStartEnd
ENSE000009501815092409850924212
ENSE000009501825092575650925898
ENSE000009501845093957050939640
ENSE000009968455090806350908196
ENSE000009968465091280150912950
ENSE000011516345092107450921187
ENSE000011516395092066150920758
ENSE000011516545091734750917508
ENSE000011516595091616850916243
ENSE000012229385089580950895928
ENSE000016050645094701750954257
ENSE000035267125093225850932360
ENSE000035471125091811050918213
ENSE000035645875092045650920565
ENSE000036450785094028850940386
ENSE000038086555087911850879308

Expression profiles

Bgee: expression breadth ubiquitous, 293 present calls, max score 98.23.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 45.5385 / max 937.1130, expressed in 1818 samples.

FANTOM5 promoters (3 alternative TSS)

Promoter IDTPM avgSamples expressed
17026538.66151815
1702646.19641535
2085570.6807417

Top tissues by expression

295 total, by Bgee expression score (0-100, higher = more expressed):

TissueAnatomy IDExpression scoreQuality
choroid plexus epitheliumUBERON:000391198.23gold quality
jejunal mucosaUBERON:000039997.53gold quality
cardiac muscle of right atriumUBERON:000337996.78gold quality
colonic mucosaUBERON:000031796.28gold quality
myocardiumUBERON:000234996.27gold quality
mucosa of sigmoid colonUBERON:000499396.18gold quality
monocyteCL:000057696.07gold quality
duodenumUBERON:000211496.03gold quality
mononuclear cellCL:000084295.98gold quality
heart right ventricleUBERON:000208095.89gold quality
left ventricle myocardiumUBERON:000656695.83gold quality
leukocyteCL:000073895.77gold quality
jejunumUBERON:000211595.59gold quality
rectumUBERON:000105295.40gold quality
trabecular bone tissueUBERON:000248394.82gold quality
buccal mucosa cellCL:000233694.72gold quality
ileal mucosaUBERON:000033194.66gold quality
mucosa of transverse colonUBERON:000499194.59gold quality
cardiac atriumUBERON:000208194.05gold quality
right atrium auricular regionUBERON:000663193.82gold quality
vena cavaUBERON:000408793.69gold quality
gluteal muscleUBERON:000200093.62gold quality
seminal vesicleUBERON:000099893.61gold quality
vermiform appendixUBERON:000115493.58gold quality
adrenal tissueUBERON:001830393.53gold quality
caecumUBERON:000115393.51gold quality
diaphragmUBERON:000110393.44gold quality
deltoidUBERON:000147693.36gold quality
cortical plateUBERON:000534393.35gold quality
bone marrowUBERON:000237193.34gold quality

Single-cell (SCXA)

Detected in 4 experiment(s), a significant marker in 1.

ExperimentMarker?Max mean expression
E-ANND-3yes7.60
E-CURD-97no1131.43
E-GEOD-106540no198.25
E-MTAB-6524no119.45

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

109 targeting ME2, top 30 by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific):

miRNAMax scoreAvg scoremiRNA target_count
HSA-MIR-3613-3P100.0076.367965
HSA-MIR-3120-5P100.0065.56965
HSA-MIR-4673100.0066.641490
HSA-MIR-3925-3P100.0069.951237
HSA-MIR-126-5P100.0072.713180
HSA-MIR-371B-5P99.9975.344759
HSA-MIR-428299.9975.366408
HSA-MIR-453199.9969.703181
HSA-MIR-373-5P99.9875.364753
HSA-MIR-616-5P99.9875.584775
HSA-MIR-4482-3P99.9872.503147
HSA-MIR-548N99.9871.944170
HSA-MIR-4645-5P99.9865.811284
HSA-MIR-314899.9775.066478
HSA-MIR-570-3P99.9672.414910
HSA-MIR-495-3P99.9672.814197
HSA-MIR-568899.9673.234504
HSA-MIR-205-3P99.9269.923165
HSA-MIR-10527-5P99.9172.283754
HSA-MIR-990299.8969.152250
HSA-MIR-153-5P99.8973.866317
HSA-MIR-6780A-5P99.8866.692776
HSA-MIR-4728-5P99.8569.394718
HSA-MIR-548AR-3P99.8571.263889
HSA-MIR-6785-5P99.8268.684428
HSA-MIR-3121-3P99.8271.963630
HSA-MIR-94499.8270.853042
HSA-MIR-3180-5P99.8269.122422
HSA-MIR-4760-5P99.8069.881619
HSA-MIR-4659A-3P99.8072.624248

Literature-anchored findings (GeneRIF, showing 19)

  • An ME2-centered nine-SNP haplotype, when present homozygously, increases the risk for IGE (odds ratio 6.1; 95% confidence interval 2.9-12.7) compared with any other genotype (PMID:15532013)
  • Site directed mutagenesis was used to detrmine which amino acids in the active site of human mitochondrial NAD+-dependent malic enzyme are necessary for the inhibitory effects of ATP. (PMID:16171388)
  • These findings provide a molecular rationale for the role of hS14 in TR-dependent transcriptional activation of the expression of specific genes. (PMID:17418816)
  • Schizophrenic subjects are identified with mitochondrial genes involved in oxidative metabolism as showing consistently decreased expression, including ME2. (PMID:17638511)
  • Single nucleotide polymorphism in ME2 gene is associated with acute lymphoblastic leukemia. (PMID:19066393)
  • ME2 activity in Islets of Langerhans cells was measured by a spectrophotometric enzyme assay by utilizing the distinct kinetic properties. (PMID:19691144)
  • Depletion of malic enzyme 2 induced erythroid differentiation in human erythroleukemia cells. (PMID:20824065)
  • p53 represses the expression of the tricarboxylic-acid-cycle-associated malic enzymes ME1 and ME2 in human and mouse cells (PMID:23334421)
  • Three SNP alleles in BRD2, Cx-36, and ME2 and microdeletions in 15q13.3, 15q11.2, and 16p13.11 also contribute risk to juvenile myclonic epilepsy. (PMID:23756480)
  • Data indicate that malic enzyme 2 knockdown impacts phosphatidylinositol 3-kinases/proto-oncogene protein akt (PI3K/AKT) signaling. (PMID:24957098)
  • ME2 might be an important factor in melanoma progression and a novel biomarker of invasion. (PMID:25202825)
  • ME1/ME2 expression phenotype may have a potential to be a valuable marker for sebaceous differentiation in sebaceous lesions. (PMID:26381116)
  • ME2 was involved in glioblastoma multiforme growth, invasion, migration, Reactive oxygen species and ATP production. (PMID:27166188)
  • deletion of malic enzyme 2 confers collateral lethality in pancreatic cancer (PMID:28099419)
  • The chromosome 18q21 deletion in nearly one third of pancreatic adenocarcinomas eliminates not only the tumor suppressor SMAD4, but also neighboring genes with important cellular roles, such as ME2 (PMID:28174172)
  • influences susceptibility to adolescent-onset genetic generalized epilepsy (PMID:30719716)
  • Expression levels of SIX1, ME2, and AP2M1 in adenoid cystic carcinoma and mucoepidermoid carcinoma. (PMID:32564485)
  • Malic enzyme 2 maintains protein stability of mutant p53 through 2-hydroxyglutarate. (PMID:35228743)
  • SIRT5-mediated ME2 desuccinylation promotes cancer growth by enhancing mitochondrial respiration. (PMID:38007551)

Cross-species orthologs

9 orthologs

OrganismSymbolGene ID
danio_reriome2ENSDARG00000100718
mus_musculusMe2ENSMUSG00000024556
rattus_norvegicusMe2ENSRNOG00000015582
drosophila_melanogasterMenFBGN0002719
drosophila_melanogasterMenl-2FBGN0029153
drosophila_melanogasterMenl-1FBGN0029154
drosophila_melanogasterMen-bFBGN0029155
drosophila_melanogasterCG7848FBGN0034127
caenorhabditis_elegansWBGENE00012983

Paralogs (2): ME1 (ENSG00000065833), ME3 (ENSG00000151376)

Protein

Protein identifiers

NAD-dependent malic enzyme, mitochondrialP23368 (reviewed: P23368)

Alternative names: Malic enzyme 2

All UniProt accessions (13): P23368, A0A1W2PPH1, A0A1W2PPY2, A0A1W2PQ37, A0A1W2PQF8, A0A1W2PQH3, A0A1W2PQH4, A0A1W2PQT3, A0A1W2PQY8, A0A1W2PR68, A0A1W2PRH1, A0A1W2PRS2, A0A1W2PRY9

UniProt curated annotations — full annotation on UniProt →

Function. NAD-dependent mitochondrial malic enzyme that catalyzes the oxidative decarboxylation of malate to pyruvate.

Subunit / interactions. Homotetramer.

Subcellular location. Mitochondrion matrix.

Activity regulation. Subject to allosteric activation by fumarate.

Cofactor. Divalent metal cations. Prefers magnesium or manganese.

Miscellaneous. This isoenzyme can also use NADP(+) but is more effective with NAD(+).

Similarity. Belongs to the malic enzymes family.

Isoforms (2)

UniProt IDNamesCanonical?
P23368-11yes
P23368-22

RefSeq proteins (2): NP_001161807, NP_002387* (*=MANE)

Domains & families (InterPro)

IDNameType
IPR001891Malic_OxRdtaseFamily
IPR012301Malic_N_domDomain
IPR012302Malic_NAD-bdDomain
IPR015884Malic_enzyme_CSConserved_site
IPR036291NAD(P)-bd_dom_sfHomologous_superfamily
IPR037062Malic_N_dom_sfHomologous_superfamily
IPR046346Aminoacid_DH-like_N_sfHomologous_superfamily

Pfam: PF00390, PF03949

Enzyme classification (BRENDA):

  • EC 1.1.1.38 — malate dehydrogenase (oxaloacetate-decarboxylating) (BRENDA: 31 organisms, 27 substrates, 60 inhibitors, 84 Km, 25 kcat entries)

Substrate kinetics (BRENDA)

9 substrates with measured Km, best-characterized 9. Km ranges are aggregated across organisms/conditions.

SubstrateKm (mM)Measurements
L-MALATE0.19–5031
NAD+0.004–17.228
NICOTINAMIDE CYTOSINE DINUCLEOTIDE0.13–1028
(S)-MALATE0.42–15.65
NADH0.025–1.45
OXALOACETATE2.1–53
MN2+0.12–0.322
NADP+2.31
PYRUVATE0

Catalyzed reactions (Rhea), 2 shown:

  • (S)-malate + NAD(+) = pyruvate + CO2 + NADH (RHEA:12653)
  • oxaloacetate + H(+) = pyruvate + CO2 (RHEA:15641)

UniProt features (86 total): helix 32, strand 18, binding site 13, turn 8, modified residue 5, active site 2, sequence variant 2, mutagenesis site 2, transit peptide 1, chain 1, splice variant 1, sequence conflict 1

Structure

Experimental structures (PDB)

18 structures.

PDBMethodResolution (Å)
9AYIX-RAY DIFFRACTION1.89
1PJ3X-RAY DIFFRACTION2.1
1QR6X-RAY DIFFRACTION2.1
1DO8X-RAY DIFFRACTION2.2
1GZ4X-RAY DIFFRACTION2.2
1GZ3X-RAY DIFFRACTION2.3
1PJ2X-RAY DIFFRACTION2.3
1PJ4X-RAY DIFFRACTION2.3
9MYFX-RAY DIFFRACTION2.45
7BSJX-RAY DIFFRACTION2.48
7BSKX-RAY DIFFRACTION2.55
7BSLX-RAY DIFFRACTION2.55
1EFKX-RAY DIFFRACTION2.6
1EFLX-RAY DIFFRACTION2.6
7XDEELECTRON MICROSCOPY2.72
7XDFELECTRON MICROSCOPY2.72
7XDGELECTRON MICROSCOPY2.84
1PJLX-RAY DIFFRACTION2.9

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-P23368-F194.550.91

Functional residue map

Curated UniProt residues grouped by drug-discovery relevance — catalytic, ligand-binding, modification, and mutation-validated positions. Source: UniProtKB sequence features.

Catalytic / active sites (2): 112 (proton donor); 183 (proton acceptor)

Ligand- & substrate-binding residues (13): 259; 279; 312; 314; 315; 421; 466; 67; 91; 165; 165; 255

Post-translational modifications (5): 156, 224, 240, 272, 346

Mutagenesis-validated functional residues (2):

PositionPhenotype
67abolishes activation by fumarate.
91abolishes activation by fumarate.

Function

Pathways and Gene Ontology

Reactome pathways

5 pathways

IDPathway
R-HSA-70268Pyruvate metabolism
R-HSA-9837999Mitochondrial protein degradation
R-HSA-1428517Aerobic respiration and respiratory electron transport
R-HSA-1430728Metabolism
R-HSA-392499Metabolism of proteins

MSigDB gene sets: 181 (showing top): RODRIGUES_THYROID_CARCINOMA_POORLY_DIFFERENTIATED_UP, GOBP_NADPPLUS_METABOLIC_PROCESS, CHIANG_LIVER_CANCER_SUBCLASS_UNANNOTATED_DN, GRAESSMANN_APOPTOSIS_BY_DOXORUBICIN_DN, GRAESSMANN_RESPONSE_TO_MC_AND_DOXORUBICIN_DN, SHAFFER_IRF4_TARGETS_IN_ACTIVATED_B_LYMPHOCYTE, THEILGAARD_NEUTROPHIL_AT_SKIN_WOUND_DN, GOBP_ORGANOPHOSPHATE_METABOLIC_PROCESS, MODULE_528, MODULE_16, GOBP_MONOCARBOXYLIC_ACID_METABOLIC_PROCESS, SHIPP_DLBCL_CURED_VS_FATAL_DN, MODULE_503, GOBP_DICARBOXYLIC_ACID_METABOLIC_PROCESS, GOBP_NUCLEOBASE_CONTAINING_SMALL_MOLECULE_METABOLIC_PROCESS

GO Biological Process (2): malate metabolic process (GO:0006108), regulation of NADP metabolic process (GO:1902031)

GO Molecular Function (10): malic enzyme activity (GO:0004470), malate dehydrogenase (decarboxylating) (NAD+) activity (GO:0004471), malate dehydrogenase (decarboxylating) (NADP+) activity (GO:0004473), oxaloacetate decarboxylase activity (GO:0008948), electron transfer activity (GO:0009055), metal ion binding (GO:0046872), NAD binding (GO:0051287), catalytic activity (GO:0003824), oxidoreductase activity (GO:0016491), oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor (GO:0016616)

GO Cellular Component (2): mitochondrion (GO:0005739), mitochondrial matrix (GO:0005759)

Reactome top-level categories

Rollup of top-3 pathways:

CategoryPathways
Aerobic respiration and respiratory electron transport1
Metabolism of proteins1
Metabolism1

GO top-level categories

Rollup of top GO terms by namespace:

CategoryTerms
malic enzyme activity2
oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor2
molecular_function2
dicarboxylic acid metabolic process1
NADP+ metabolic process1
regulation of purine nucleotide metabolic process1
malate dehydrogenase activity1
carboxy-lyase activity1
cation binding1
adenyl nucleotide binding1
catalytic activity1
oxidoreductase activity, acting on CH-OH group of donors1
cytoplasm1
intracellular membrane-bounded organelle1
mitochondrion1
intracellular organelle lumen1

Protein interactions and networks

STRING

1742 interactions, top by confidence (×1000):

Protein AProtein BPartner UniProtScore
ME2JRKO75564825
ME2LDHAP00338756
ME2F13A1P00488669
ME2MDH2P40926647
ME2OPRM1P35372634
ME2PCK2Q16822550
ME2CSO75390549
ME2CACNA1AP78510549
ME2KCNQ3O43525538
ME2FHP07954534
ME2H6PDO95479526
ME2PGDP52209524
ME2POGKQ9P215517
ME2PCP11498511
ME2RPEL1Q2QD12496

IntAct

37 interactions, top by confidence:

ABTypeScore
HSPD1NUDT19psi-mi:“MI:0914”(association)0.710
IFT25IFT56psi-mi:“MI:0914”(association)0.690
GNAT3psi-mi:“MI:0915”(physical association)0.400
SIRT4VWA8psi-mi:“MI:0914”(association)0.350
HSCBRBP5psi-mi:“MI:0914”(association)0.350
LRRK2psi-mi:“MI:0914”(association)0.350
TMEM184ANRDCpsi-mi:“MI:0914”(association)0.350
KDM4CSMCHD1psi-mi:“MI:0914”(association)0.350
MYLKACOT7psi-mi:“MI:0914”(association)0.350
MAPTSHTN1psi-mi:“MI:0914”(association)0.350
CAPZBENAHpsi-mi:“MI:0914”(association)0.350
GTPBP10psi-mi:“MI:0914”(association)0.350
VCPSHTN1psi-mi:“MI:0914”(association)0.350
VCPFAM171A2psi-mi:“MI:0914”(association)0.350
FECHGTPBP10psi-mi:“MI:0914”(association)0.350
DDX28UBA6psi-mi:“MI:0914”(association)0.350
GAB2UBA6psi-mi:“MI:0914”(association)0.350
MRPL49UBA6psi-mi:“MI:0914”(association)0.350
USP46UBA6psi-mi:“MI:0914”(association)0.350
EIF3Fpsi-mi:“MI:0914”(association)0.350
MRPL58psi-mi:“MI:0914”(association)0.350
VWA8psi-mi:“MI:2364”(proximity)0.270
HSPD1VWA8psi-mi:“MI:2364”(proximity)0.270
MGST3VWA8psi-mi:“MI:2364”(proximity)0.270
PDK1VWA8psi-mi:“MI:2364”(proximity)0.270
TRMT61BVWA8psi-mi:“MI:2364”(proximity)0.270

BioGRID (115): ME2 (Affinity Capture-MS), ME2 (Affinity Capture-MS), ME2 (Affinity Capture-MS), ME2 (Affinity Capture-RNA), ME2 (Affinity Capture-MS), ME2 (Proximity Label-MS), ME2 (Affinity Capture-MS), ME2 (Affinity Capture-MS), ME2 (Affinity Capture-MS), ME2 (Proximity Label-MS), ME2 (Proximity Label-MS), ME2 (Proximity Label-MS), ME2 (Proximity Label-MS), ME2 (Affinity Capture-MS), SHMT2 (Co-fractionation)

ESM2 similar proteins: A0A1D8PHA3, D5ANZ4, O13966, O14321, O31216, O59680, O74198, O94609, P07142, P07143, P08574, P0CY49, P16243, P19414, P20114, P22178, P23135, P23368, P25087, P27443, P30594, P30595, P36444, P37222, P51615, P54385, P81379, P87111, Q00988, Q02760, Q08822, Q11190, Q12166, Q12632, Q4QAU9, Q54D07, Q54KB7, Q54XM6, Q55C16, Q6BRB7

Diamond homologs: A0KHR8, A0KT69, A1JTY5, A1RNF8, A1S8W7, A3D0E1, A3QH80, A4SKE9, A4TKN8, A4WAJ3, A4Y3I1, A5F1Z0, A6V1V5, A6WSH0, A7FJK4, A7N025, A7ZLS1, A8AGN6, A8FZ49, A8GC31, A8H7G5, A9L2F4, A9MR05, A9MYU8, B0TRQ2, B1JPZ6, B1KFN0, B2JZJ5, B4ESY2, B4T5V6, B4TII8, B4TW15, B5F5W5, B5FHJ6, B5QTN6, B5RAB4, B5Z1T9, B7L7H9, B7UWK9, B8CQT6

SIGNOR signaling

1 interactions.

AEffectBMechanism
ME2“up-regulates quantity”NADPH(4-)“chemical modification”

Disease & clinical

Clinical variants and AI predictions

ClinVar

97 variants total. Per-class counts are floors (≥ shown; pagination cap):

ClassificationCount (floor)
Pathogenic0
Likely pathogenic1
Uncertain significance71
Likely benign5
Benign3

Top pathogenic / likely-pathogenic (1)

Variant IDHGVSClassification
3390850NM_002396.5(ME2):c.1379_1380del (p.Phe460fs)Likely pathogenic

SpliceAI

0 predictions. Top by Δscore:

AlphaMissense

3814 scored. Top likely-pathogenic:

VariantProtein changeam_pathogenicity
18:50908088:G:CR45P1.000
18:50920557:A:CD279A1.000
18:50920557:A:TD279V1.000
18:50895928:G:CK36N0.999
18:50895928:G:TK36N0.999
18:50908072:T:CF40L0.999
18:50908074:T:AF40L0.999
18:50908074:T:GF40L0.999
18:50917426:A:TK183I0.999
18:50920489:C:AD256E0.999
18:50920489:C:GD256E0.999
18:50920552:T:AN277K0.999
18:50920552:T:GN277K0.999
18:50920557:A:GD279G0.999
18:50920558:T:AD279E0.999
18:50920558:T:GD279E0.999
18:50925847:T:AN421K0.999
18:50925847:T:GN421K0.999
18:50932344:T:AN467K0.999
18:50932344:T:GN467K0.999
18:50932354:T:CF471L0.999
18:50932356:T:AF471L0.999
18:50932356:T:GF471L0.999
18:50908108:G:AG52R0.998
18:50908108:G:CG52R0.998
18:50908109:G:AG52E0.998
18:50912857:T:CL100P0.998
18:50917351:T:AV158D0.998
18:50917422:G:AG182R0.998
18:50917422:G:CG182R0.998

dbSNP variants (sampled 300 via entrez): RS1000032741 (18:50942019 A>T), RS1000073826 (18:50940655 G>A,C), RS1000101839 (18:50933016 C>G), RS1000125627 (18:50943091 A>G), RS1000193565 (18:50910852 TC>T), RS1000218525 (18:50912977 T>C), RS1000255347 (18:50948763 C>T), RS1000264885 (18:50899809 T>A,G), RS1000355387 (18:50906285 T>G), RS1000359320 (18:50953927 T>C,G), RS1000371307 (18:50910546 G>A,T), RS1000405265 (18:50940282 C>G,T), RS1000427586 (18:50906459 C>G,T), RS1000547901 (18:50942254 C>G,T), RS1000550532 (18:50902046 A>G)

Disease associations

OMIM: gene MIM:154270 | disease phenotypes:

GenCC curated gene-disease

DiseaseClassificationInheritance
inborn disorder of energy metabolismLimitedAutosomal recessive
Tourette syndromeNo Known Disease RelationshipUnknown

Mondo (2): Tourette syndrome (MONDO:0007661), inborn disorder of energy metabolism (MONDO:0019243)

Orphanet (0):

HPO phenotypes

0 total (0 of 0 shown, HPO-id order):

GWAS associations

4 associations (top):

StudyTraitp-value
GCST000894_5Entorhinal cortical thickness7.000000e-06
GCST009086_3Pneumococcal meningitis8.000000e-08
GCST009391_65Metabolite levels6.000000e-06
GCST90002382_487Eosinophil percentage of white cells4.000000e-09

EFO canonical traits (3, from GWAS)

EFO IDTrait name
EFO:0004840cortical thickness
EFO:0010352diacylglycerol 34:1 measurement
EFO:0007991eosinophil percentage of leukocytes

MeSH disease descriptors (1)

DescriptorNameTree numbers
D005879Tourette SyndromeC10.228.140.079.898; C10.228.662.825.800; C10.574.500.850; C16.320.400.820; F03.625.992.850

Drugs & pharmacology

Drug and pharmacology data

Is drug target: yes

ChEMBL targets (1): CHEMBL5291602 (SINGLE PROTEIN)

PharmGKB: 1 entry (VIP=true, CPIC=false)

ChEMBL bioactivities

31 potent at pChembl≥5 of 31 total, top 31 by pChembl (potency: 10 = 0.1 nM, 6 = 1 µM).

pChemblTypeValueUnitMolecule
7.48Kd32.97nMCHEMBL5653589
7.48ED5032.97nMCHEMBL5653589
6.82IC50150nMCHEMBL5279096
6.72IC50190nMCHEMBL5284469
6.70IC50200nMCHEMBL372408
6.70IC50200nMCHEMBL5267207
6.68IC50210nMCHEMBL5287773
6.66IC50220nMCHEMBL5278951
6.64IC50230nMCHEMBL5275653
6.57IC50270nMCHEMBL5289840
6.57IC50270nMCHEMBL5277536
6.46IC50350nMCHEMBL5284610
6.44IC50360nMCHEMBL5289950
6.41IC50390nMCHEMBL5279230
6.39IC50410nMCHEMBL5283020
6.38IC50420nMCHEMBL5218866
6.01IC50980nMCHEMBL5278596
5.96IC501110nMCHEMBL5274945
5.89IC501290nMCHEMBL5279589
5.86IC501370nMCHEMBL5267542
5.80IC501590nMCHEMBL5273550
5.79IC501630nMCHEMBL5286488
5.78IC501660nMCHEMBL5282439
5.77IC501700nMCHEMBL5283717
5.76IC501720nMCHEMBL5281297
5.71IC501970nMCHEMBL5290463
5.60IC502500nMCHEMBL5270965
5.58IC502600nMCHEMBL5281258
5.55IC502800nMCHEMBL5277143
5.55IC502800nMCHEMBL5286064
5.41IC503900nMCHEMBL5291081

PubChem BioAssay actives

30 with measured affinity, of 34 total; 30 most potent distinct compounds. Largely complementary to BindingDB; screening values are coarse (µM, 4 dp), so sub-nM hits tie at the floor.

CompoundAssayTypeValueUnit
4-methyl-3-[(2-methyl-6-pyridin-3-ylpyrazolo[3,4-d]pyrimidin-4-yl)amino]-N-[3-(trifluoromethyl)phenyl]benzamide2148740: Binding affinity to human ME2 incubated for 45 mins by Kinobead based pull down assaykd0.0330uM
2-(4-chlorophenyl)-1-[4-(4-hydroxyphenyl)piperazin-1-yl]ethanone1922683: Inhibition of His-tagged human recombinant full length ME2 using L-malate and beta-NAD+ as substrate preincubated with enzyme for 5 mins followed by beta-NAD+ challenge and incubated under shaking for 5 mins followed by incubation for 2 hrs without shaking by resorufin dye based fluorescence analysisic500.1500uM
1-[4-(4-hydroxyphenyl)piperazin-1-yl]-2-phenylethanone1922683: Inhibition of His-tagged human recombinant full length ME2 using L-malate and beta-NAD+ as substrate preincubated with enzyme for 5 mins followed by beta-NAD+ challenge and incubated under shaking for 5 mins followed by incubation for 2 hrs without shaking by resorufin dye based fluorescence analysisic500.1900uM
N-(2H-tetrazol-5-yl)-9,9a-dihydro-4aH-xanthene-9-carboxamide1922683: Inhibition of His-tagged human recombinant full length ME2 using L-malate and beta-NAD+ as substrate preincubated with enzyme for 5 mins followed by beta-NAD+ challenge and incubated under shaking for 5 mins followed by incubation for 2 hrs without shaking by resorufin dye based fluorescence analysisic500.2000uM
3-[4-(4-hydroxyphenyl)piperazin-1-yl]-1-phenylpyrrolidine-2,5-dione1922683: Inhibition of His-tagged human recombinant full length ME2 using L-malate and beta-NAD+ as substrate preincubated with enzyme for 5 mins followed by beta-NAD+ challenge and incubated under shaking for 5 mins followed by incubation for 2 hrs without shaking by resorufin dye based fluorescence analysisic500.2000uM
2-(4-fluorophenyl)-1-[4-(4-hydroxyphenyl)piperazin-1-yl]ethanone1922683: Inhibition of His-tagged human recombinant full length ME2 using L-malate and beta-NAD+ as substrate preincubated with enzyme for 5 mins followed by beta-NAD+ challenge and incubated under shaking for 5 mins followed by incubation for 2 hrs without shaking by resorufin dye based fluorescence analysisic500.2100uM
4-(4-hydroxyphenyl)-N-phenylpiperazine-1-carboxamide1922683: Inhibition of His-tagged human recombinant full length ME2 using L-malate and beta-NAD+ as substrate preincubated with enzyme for 5 mins followed by beta-NAD+ challenge and incubated under shaking for 5 mins followed by incubation for 2 hrs without shaking by resorufin dye based fluorescence analysisic500.2200uM
(E)-1-[4-(4-hydroxyphenyl)piperazin-1-yl]-3-phenylprop-2-en-1-one1922683: Inhibition of His-tagged human recombinant full length ME2 using L-malate and beta-NAD+ as substrate preincubated with enzyme for 5 mins followed by beta-NAD+ challenge and incubated under shaking for 5 mins followed by incubation for 2 hrs without shaking by resorufin dye based fluorescence analysisic500.2300uM
1-[4-(4-hydroxyphenyl)piperazin-1-yl]-3-methyl-3-phenylbutan-1-one1922683: Inhibition of His-tagged human recombinant full length ME2 using L-malate and beta-NAD+ as substrate preincubated with enzyme for 5 mins followed by beta-NAD+ challenge and incubated under shaking for 5 mins followed by incubation for 2 hrs without shaking by resorufin dye based fluorescence analysisic500.2700uM
1-[4-(4-hydroxyphenyl)piperazin-1-yl]-3-phenylpropan-1-one1922683: Inhibition of His-tagged human recombinant full length ME2 using L-malate and beta-NAD+ as substrate preincubated with enzyme for 5 mins followed by beta-NAD+ challenge and incubated under shaking for 5 mins followed by incubation for 2 hrs without shaking by resorufin dye based fluorescence analysisic500.2700uM
3-(4-butoxyphenyl)-1-[4-(4-hydroxyphenyl)piperazin-1-yl]propan-1-one1922683: Inhibition of His-tagged human recombinant full length ME2 using L-malate and beta-NAD+ as substrate preincubated with enzyme for 5 mins followed by beta-NAD+ challenge and incubated under shaking for 5 mins followed by incubation for 2 hrs without shaking by resorufin dye based fluorescence analysisic500.3500uM
2-[4-(4-hydroxyphenyl)piperazin-1-yl]-N-phenylacetamide1922683: Inhibition of His-tagged human recombinant full length ME2 using L-malate and beta-NAD+ as substrate preincubated with enzyme for 5 mins followed by beta-NAD+ challenge and incubated under shaking for 5 mins followed by incubation for 2 hrs without shaking by resorufin dye based fluorescence analysisic500.3600uM
1-[4-(4-hydroxyphenyl)piperazin-1-yl]-2-phenoxyethanone1922683: Inhibition of His-tagged human recombinant full length ME2 using L-malate and beta-NAD+ as substrate preincubated with enzyme for 5 mins followed by beta-NAD+ challenge and incubated under shaking for 5 mins followed by incubation for 2 hrs without shaking by resorufin dye based fluorescence analysisic500.3900uM
1-[4-(4-hydroxyphenyl)piperazin-1-yl]-2-[4-(trifluoromethyl)phenyl]ethanone1922683: Inhibition of His-tagged human recombinant full length ME2 using L-malate and beta-NAD+ as substrate preincubated with enzyme for 5 mins followed by beta-NAD+ challenge and incubated under shaking for 5 mins followed by incubation for 2 hrs without shaking by resorufin dye based fluorescence analysisic500.4100uM
2,5-dihydroxy-3,6-bis(4-methoxyphenyl)cyclohexa-2,5-diene-1,4-dione1922683: Inhibition of His-tagged human recombinant full length ME2 using L-malate and beta-NAD+ as substrate preincubated with enzyme for 5 mins followed by beta-NAD+ challenge and incubated under shaking for 5 mins followed by incubation for 2 hrs without shaking by resorufin dye based fluorescence analysisic500.4200uM
1-[4-(5-hydroxy-2-pyridinyl)piperazin-1-yl]-2-phenylethanone1922683: Inhibition of His-tagged human recombinant full length ME2 using L-malate and beta-NAD+ as substrate preincubated with enzyme for 5 mins followed by beta-NAD+ challenge and incubated under shaking for 5 mins followed by incubation for 2 hrs without shaking by resorufin dye based fluorescence analysisic500.9800uM
3-(4-fluorophenyl)-1-[4-(5-hydroxy-2-pyridinyl)piperazin-1-yl]-3-methylbutan-1-one1922683: Inhibition of His-tagged human recombinant full length ME2 using L-malate and beta-NAD+ as substrate preincubated with enzyme for 5 mins followed by beta-NAD+ challenge and incubated under shaking for 5 mins followed by incubation for 2 hrs without shaking by resorufin dye based fluorescence analysisic501.1100uM
1-[4-(5-hydroxy-2-pyridinyl)piperazin-1-yl]-3-thiophen-2-ylpropan-1-one1922683: Inhibition of His-tagged human recombinant full length ME2 using L-malate and beta-NAD+ as substrate preincubated with enzyme for 5 mins followed by beta-NAD+ challenge and incubated under shaking for 5 mins followed by incubation for 2 hrs without shaking by resorufin dye based fluorescence analysisic501.2900uM
1-[4-(5-hydroxy-2-pyridinyl)piperazin-1-yl]-3-methyl-3-phenylbutan-1-one1922683: Inhibition of His-tagged human recombinant full length ME2 using L-malate and beta-NAD+ as substrate preincubated with enzyme for 5 mins followed by beta-NAD+ challenge and incubated under shaking for 5 mins followed by incubation for 2 hrs without shaking by resorufin dye based fluorescence analysisic501.3700uM
3-(4-chlorophenyl)-1-[4-(5-hydroxy-2-pyridinyl)piperazin-1-yl]propan-1-one1922683: Inhibition of His-tagged human recombinant full length ME2 using L-malate and beta-NAD+ as substrate preincubated with enzyme for 5 mins followed by beta-NAD+ challenge and incubated under shaking for 5 mins followed by incubation for 2 hrs without shaking by resorufin dye based fluorescence analysisic501.5900uM
3-(1-benzothiophen-2-yl)-1-[4-(5-hydroxy-2-pyridinyl)piperazin-1-yl]propan-1-one1922683: Inhibition of His-tagged human recombinant full length ME2 using L-malate and beta-NAD+ as substrate preincubated with enzyme for 5 mins followed by beta-NAD+ challenge and incubated under shaking for 5 mins followed by incubation for 2 hrs without shaking by resorufin dye based fluorescence analysisic501.6300uM
3-(4-fluorophenyl)-1-[4-(5-hydroxy-2-pyridinyl)piperazin-1-yl]propan-1-one1922683: Inhibition of His-tagged human recombinant full length ME2 using L-malate and beta-NAD+ as substrate preincubated with enzyme for 5 mins followed by beta-NAD+ challenge and incubated under shaking for 5 mins followed by incubation for 2 hrs without shaking by resorufin dye based fluorescence analysisic501.6600uM
2-phenyl-N-(2H-tetrazol-5-yl)quinoline-4-carboxamide1922683: Inhibition of His-tagged human recombinant full length ME2 using L-malate and beta-NAD+ as substrate preincubated with enzyme for 5 mins followed by beta-NAD+ challenge and incubated under shaking for 5 mins followed by incubation for 2 hrs without shaking by resorufin dye based fluorescence analysisic501.7000uM
1-[4-(5-hydroxy-2-pyridinyl)piperazin-1-yl]-3-phenylpropan-1-one1922683: Inhibition of His-tagged human recombinant full length ME2 using L-malate and beta-NAD+ as substrate preincubated with enzyme for 5 mins followed by beta-NAD+ challenge and incubated under shaking for 5 mins followed by incubation for 2 hrs without shaking by resorufin dye based fluorescence analysisic501.7200uM
1-[4-(5-hydroxy-2-pyridinyl)piperazin-1-yl]-3-(5-phenylthiophen-2-yl)propan-1-one1922683: Inhibition of His-tagged human recombinant full length ME2 using L-malate and beta-NAD+ as substrate preincubated with enzyme for 5 mins followed by beta-NAD+ challenge and incubated under shaking for 5 mins followed by incubation for 2 hrs without shaking by resorufin dye based fluorescence analysisic501.9700uM
1-[4-(5-hydroxy-2-pyridinyl)piperazin-1-yl]-3-(4-methoxyphenyl)propan-1-one1922683: Inhibition of His-tagged human recombinant full length ME2 using L-malate and beta-NAD+ as substrate preincubated with enzyme for 5 mins followed by beta-NAD+ challenge and incubated under shaking for 5 mins followed by incubation for 2 hrs without shaking by resorufin dye based fluorescence analysisic502.5000uM
1-[4-(5-hydroxy-2-pyridinyl)piperazin-1-yl]-3-[4-(2-methoxyethoxy)phenyl]propan-1-one1922683: Inhibition of His-tagged human recombinant full length ME2 using L-malate and beta-NAD+ as substrate preincubated with enzyme for 5 mins followed by beta-NAD+ challenge and incubated under shaking for 5 mins followed by incubation for 2 hrs without shaking by resorufin dye based fluorescence analysisic502.6000uM
3-(4-chlorophenyl)-1-[4-(5-hydroxy-2-pyridinyl)piperazin-1-yl]-3-methylbutan-1-one1922683: Inhibition of His-tagged human recombinant full length ME2 using L-malate and beta-NAD+ as substrate preincubated with enzyme for 5 mins followed by beta-NAD+ challenge and incubated under shaking for 5 mins followed by incubation for 2 hrs without shaking by resorufin dye based fluorescence analysisic502.8000uM
3-[(3-carboxy-2-hydroxynaphthalen-1-yl)methyl]-2-hydroxynaphthalene-1-carboxylic acid1922683: Inhibition of His-tagged human recombinant full length ME2 using L-malate and beta-NAD+ as substrate preincubated with enzyme for 5 mins followed by beta-NAD+ challenge and incubated under shaking for 5 mins followed by incubation for 2 hrs without shaking by resorufin dye based fluorescence analysisic502.8000uM
3-(4-butoxyphenyl)-1-[4-(5-hydroxy-2-pyridinyl)piperazin-1-yl]propan-1-one1922683: Inhibition of His-tagged human recombinant full length ME2 using L-malate and beta-NAD+ as substrate preincubated with enzyme for 5 mins followed by beta-NAD+ challenge and incubated under shaking for 5 mins followed by incubation for 2 hrs without shaking by resorufin dye based fluorescence analysisic503.9000uM

CTD chemical–gene interactions

55 total (human), top 30 by PubMed support.

ChemicalActions (top 5)PubMed papers
Valproic Acidaffects cotreatment, increases expression, affects expression4
bisphenol Adecreases expression, increases expression2
Acetaminophendecreases expression, increases expression2
Nickelincreases expression2
Cyclosporineincreases expression2
aristolochic acid Iincreases expression1
bufotalindecreases expression1
alpha-pineneaffects cotreatment, increases expression, increases abundance1
pyrogallol 1,3-dimethyl etheraffects cotreatment, increases expression1
tris(2-butoxyethyl) phosphateaffects expression1
methotrexate polyglutamateaffects abundance1
beta-lapachonedecreases expression1
tris(1,3-dichloro-2-propyl)phosphateincreases expression1
perfluorooctanoic acidincreases expression1
methacrylaldehydeaffects cotreatment, increases expression, increases abundance1
beta-methylcholineaffects expression1
deguelinincreases expression1
4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamideaffects cotreatment, decreases expression1
bisphenol Bincreases expression1
abrineincreases expression1
dorsomorphinaffects cotreatment, decreases expression1
jinfukangdecreases expression1
picoxystrobinincreases expression1
bisphenol AFincreases expression1
Resveratrolaffects cotreatment, increases expression1
Sunitinibincreases expression1
Acroleinaffects cotreatment, increases expression, increases abundance1
Air Pollutantsincreases expression, affects cotreatment, increases abundance1
Atrazineincreases expression1
Vehicle Emissionsincreases abundance, decreases expression1

ChEMBL screening assays

2 unique, capped per target: 2 binding

Representative assays (with source publication via chembl_document):

Assay IDTypeDescriptionSource paper
CHEMBL5225648BindingInhibition of His-tagged human recombinant full length ME2 using L-malate and beta-NAD+ as substrate preincubated with enzyme for 5 mins followed by beta-NAD+ challenge and incubated under shaking for 5 mins followed by incubation for 2 hrsIn the Quest for Potent and Selective Malic Enzyme 3 Inhibitors for the Treatment of Pancreatic Ductal Adenocarcinoma. — ACS Med Chem Lett

Cellosaurus cell lines

5 cell lines: 5 cancer cell line

First 10 cell lines (id-ordered, not curated):

CellosaurusNameCategorySex
CVCL_D1NSAbcam K-562 ME2 KOCancer cell lineFemale
CVCL_D2KDAbcam Raji ME2 KOCancer cell lineMale
CVCL_SX70HAP1 ME2 (-) 1Cancer cell lineMale
CVCL_UQ94Abcam Jurkat ME2 KOCancer cell lineMale
CVCL_XQ38HAP1 ME2 (-) 2Cancer cell lineMale

Clinical trials (associated diseases)

183 trials via MONDO — disease-level, not drug-specific.

TrialPhaseStatusTitle
NCT00152750PHASE4UNKNOWNStudy of Clonidine on Sleep Architecture in Children With Tourette’s Syndrome (TS) and Comorbid ADHD
NCT00226824PHASE4TERMINATEDSafety Study of Galantamine in Tic Disorders
NCT00241176PHASE4COMPLETEDOpen Label Trial of Aripiprazole in Children and Adolescents With Tourette’s Disorder
NCT00370838PHASE4COMPLETEDComparison of Keppra and Clonidine in the Treatment of Tics
NCT01018056PHASE4COMPLETEDDeveloping New Treatments for Tourette Syndrome: Therapeutic Trials With Modulators of Glutamatergic Neurotransmission
NCT01547000PHASE4COMPLETEDGuanfacine in Children With Tic Disorders
NCT03239210PHASE4COMPLETEDEffects of Ondansetron in Obsessive-compulsive and Tic Disorders
NCT00004376PHASE3COMPLETEDPhase III Randomized, Double-Blind, Placebo-Controlled Study of Guanfacine for Tourette Syndrome and Attention Deficit Hyperactivity Disorder
NCT00206323PHASE3COMPLETEDA Randomized, Placebo-controlled, Tourette Syndrome Study.
NCT00206336PHASE3COMPLETEDAn Open-label Study to Determine the Efficacy and Safety of Topiramate in the Treatment of Tourette Syndrome.
NCT00478842PHASE3COMPLETEDPallidal Stimulation and Gilles de la Tourette Syndrome
NCT00681863PHASE3TERMINATEDOpen-label Extension Study of Pramipexole in the Treatment of Children and Adolescents With Tourette Syndrome
NCT01501695PHASE3COMPLETEDPhase III Study of 5LGr to Treat Tic Disorder
NCT03087201PHASE3COMPLETEDCANNAbinoids in the Treatment of TICS (CANNA-TICS)
NCT03487783PHASE3COMPLETEDAripiprazole Oral Solution in the Treatment of Children and Adolescents With Tourette’s Syndrome
NCT03567291PHASE3TERMINATEDEvaluation of Safety and Tolerability of Long-term TEV-50717 (Deutetrabenazine) for Treatment of Tourette Syndrome in Children and Adolescents
NCT03571256PHASE3COMPLETEDA Study to Test if TEV-50717 is Effective in Relieving Tics Associated With Tourette Syndrome (TS)
NCT06021522PHASE3ACTIVE_NOT_RECRUITINGA Study to Evaluate Long-term Safety of Ecopipam Tablets in Children, Adolescents and Adults With Tourette’s Disorder
NCT00004393PHASE2COMPLETEDPhase II Double Blind Placebo Controlled Trial of Risperidone in Tourette Syndrome
NCT00004652PHASE2COMPLETEDPhase II Pilot Controlled Study of Short Vs Longer Term Pimozide (Orap) Therapy in Tourette Syndrome
NCT00231985PHASE2COMPLETEDEffectiveness of Behavior Therapy and Psychosocial Therapy for the Treatment of Tourette Syndrome and Chronic Tic Disorder
NCT00311909PHASE2COMPLETEDThalamic Deep Brain Stimulation for Tourette Syndrome
NCT00529308PHASE2COMPLETEDTranscranial Magnetic Stimulation (TMS) for Individuals With Tourette’s Syndrome
NCT00558467PHASE2COMPLETEDPramipexole Pilot Phase II Study in Children and Adolescents With Tourette Disorder According to DSM-IV Criteria
NCT01043549PHASE2TERMINATEDRepetitive Transcranial Magnetic Stimulation of the Posterior Parietal Cortex in Patients Suffering From Gilles de la Tourette Syndrome
NCT01133353PHASE2WITHDRAWNA Study of the Effectiveness and Safety of Tetrabenazine MR in Pediatric Subjects With Tourette’s Syndrome
NCT01475383PHASE2WITHDRAWNStudy Evaluating The Safety And Efficacy Of PF-03654746 In Adult Subjects With Tourette’s Syndrome
NCT01647269PHASE2COMPLETEDA Trial of Bilateral Deep Brain Stimulation to the Globus Pallidus Internum in Tourette Syndrome
NCT01904773PHASE2COMPLETEDSafety, Tolerability, Pharmacokinetic, and Efficacy Study of AZD5213 in Adolescents With Tourette’s Disorder
NCT02102698PHASE2COMPLETEDEcopipam Treatment of Tourette’s Syndrome in Subjects 7-17 Years
NCT02217007PHASE2WITHDRAWNA Trial Evaluating the Efficacy, Safety, and Pharmacokinetics of SNC-102 in Subjects With Tourette Syndrome
NCT02247206PHASE2COMPLETEDVoIP Delivered Behavior Therapy for Tourette Syndrome
NCT02581865PHASE2COMPLETEDSafety and Efficacy Study of NBI-98854 in Adults With Tourette Syndrome
NCT02619084PHASE2COMPLETEDSubthalamic Stimulation in Tourette’s Syndrome
NCT02679079PHASE2COMPLETEDSafety and Efficacy Study of NBI-98854 in Children and Adolescents With Tourette Syndrome
NCT02879578PHASE2COMPLETEDSafety and Tolerability Study of NBI-98854 for the Treatment of Subjects With Tourette Syndrome
NCT03066193PHASE2COMPLETEDEfficacy of a Therapeutic Combination of Dronabinol and PEA for Tourette Syndrome
NCT03247244PHASE2TERMINATEDSafety and Efficacy of Cannabis in Tourette Syndrome
NCT03325010PHASE2COMPLETEDSafety, Tolerability, and Efficacy of NBI-98854 for the Treatment of Pediatric Subjects With Tourette Syndrome
NCT03444038PHASE2COMPLETEDOpen-Label Safety and Tolerability Study of NBI-98854 for the Treatment of Pediatric Subjects With Tourette Syndrome