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IDH3A Gene

protein-coding   GIFtS: 65

GC15P076228
isocitrate dehydrogenase 3 (NAD+) alpha
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
Services    
(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
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Aliases
EC 1.1.1.41 3
Descriptions
H-IDH alpha 2
Isocitric dehydrogenase 2, 3
NAD(+)-specific ICDH 3
NAD(H)-specific isocitrate dehydrogenase alpha subunit 2
NAD+-specific ICDH 2
isocitrate dehydrogenase (NAD+) alpha chain 2
isocitrate dehydrogenase 3 (NAD+) alpha 2
isocitrate dehydrogenase [NAD] subunit alpha, mitochondrial 2
External Ids
HGNC: 53841
Entrez Gene: 34192
UniProtKB: P502133
Ensembl: ENSG000001664117
Search outside databases for aliases for IDH3A gene

Previous GC identifers: GC15P074520 GC15P071531 GC15P076017 GC15P076157

(According to Entrez Gene, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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EntrezGene summary for IDH3A:
Isocitrate dehydrogenases catalyze the oxidative decarboxylation of isocitrate to 2-oxoglutarate.
These enzymes belong to two distinct subclasses, one of which utilizes NAD(+) as the electron
acceptor and the other NADP(+). Five isocitrate dehydrogenases have been reported: three
NAD(+)-dependent isocitrate dehydrogenases, which localize to the mitochondrial matrix, and two
NADP(+)-dependent isocitrate dehydrogenases, one of which is mitochondrial and the other
predominantly cytosolic. NAD(+)-dependent isocitrate dehydrogenases catalyze the allosterically
regulated rate-limiting step of the tricarboxylic acid cycle. Each isozyme is a heterotetramer
that is composed of two alpha subunits, one beta subunit, and one gamma subunit. The protein
encoded by this gene is the alpha subunit of one isozyme of NAD(+)-dependent isocitrate
dehydrogenase. [provided by RefSeq]

Gene Wiki entry for IDH3A
(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 36),
and/or miRBase,
Genomic Views according to UCSC and Ensembl, Transcription factor binding sites according to SABiosciences)
About This Section

Genomic View:
UCSC Golden Path with GeneCards custom track

 Transcription factor binding sites upstream to the IDH3A gene  

Entrez Gene cytogenetic band: 15q25.1-q25.2   Ensembl cytogenetic band:  15q25.1   HGNC cytogenetic band: 15q25.1-q25.2

IDH3A Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)

GeneLoc gene densities for chromosome 15         GeneLoc Exon Structure

GeneLoc location for GC15P076228:     (about GC identifiers)

Start:
76,228,774 bp from pter
End:
76,249,939 bp from pter
Size:
21,166 bases
Orientation:
plus strand
RefSeq DNA sequence:
NC_000015.8  NT_010194.16  
(According to 1UniProtKB, and/or Ensembl, Phosphorylation sites according to 2Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Enzo Life Sciences, Abnova, OriGene and/or, Abcam,
Biochemical Assays by Invitrogen, Millipore, R&D Systems, Cell Signaling Technology, and/or Enzo Life Sciences, Ontologies according to Gene Ontology Consortium 01 Apr 2009 and Entrez Gene, Antibodies by Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Cell Signaling Technology, Abcam, Abnova, and/or Novus Biologicals)
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UniProtKB/Swiss-Prot: IDH3A_HUMAN, P50213 (See protein sequence)
Recommended Name: Isocitrate dehydrogenase [NAD] subunit alpha, mitochondrial precursor  
Size: 366 amino acids; 39592 Da
Cofactor: Binds 1 magnesium or manganese ion per subunit (By similarity)
Subunit: Heterooligomer of subunits alpha, beta, and gamma in the apparent ratio of 2:1:1 (By
similarity)
Subcellular location: Mitochondrion
Secondary accessions: Q9H3X0
Alternative splicing: 2 isoforms:  P50213-1   P50213-2   

Post-translational modifications:

  • View phosphorylation sites using PhosphoSite2


  • REFSEQ proteins: NP_005521.1  

    ENSEMBL proteins: 
    ENSP00000299518 ENSP00000368895 


    Human Recombinant Proteins 
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    Recombinant Proteins from Abcam (IDH3A)
    Human Recombinant Proteins from Abnova (IDH3A)
                  OriGene Purified Recombinant Human Protein: IDH3A 

    2 Gene Ontology (GO) cellular component terms (links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005739 mitochondrion IEA--
    GO:0005759 mitochondrial matrix EXP14555658
    About this table

    Antibodies for IDH3A: 
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    Monoclonal and Polyclonal Antibodies from Abnova (IDH3A)
    Novus Biologicals Antibodies for IDH3A

    Assays for IDH3A: 
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    Browse R&D Systems for biochemical assays
    Browse biochemical assays available from Enzo Life Sciences

    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section

    3 InterPro domains/families:
     IPR001804 Isocitrate/isopropylmalate_DH
     IPR004434 Isocitrate_DH_NAD_mit
     IPR019818 IsoCit/isopropylmalate_DH_CS


       GeneDecks  IDH3A for the domains selected above  
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    Graphical View of Domain Structure for InterPro Entry P50213

    ProtoNet protein and cluster: P50213

    1 Blocks protein family: IPB001804 Isocitrate/isopropylmalate dehydrogenase

    UniProtKB/Swiss-Prot: IDH3A_HUMAN, P50213
    Similarity: Belongs to the isocitrate and isopropylmalate dehydrogenases family

    (According to MGI Jun 06 2009, UniProtKB, IUBMB,and/or Genatlas,
    shRNA from OriGene, Sigma-Aldrich, RNAi from Sigma-Aldrich,
    RNAi Products, Clones, and Q-PCR Products from Invitrogen, Millipore, OriGene, and/or Abnova, siRNAs from Applied Biosystems, SYBR primers from OriGene, Cell-based Assays from Millipore, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
    About This Section

    Inhib.
    RNA:
    Invitrogen RNAi Products for gene knock-down (IDH3A)
    Browse for Gene Knock-down Tools from Millipore
    Browse Abnova for Chimera RNAi Products
                  OriGene 29mer shRNA kit in GFP-retroviral vector: NM_005530

                  Applied Biosystems Silencer® siRNAs for IDH3A

                  Sigma-Aldrich siRNA for IDH3A  
                         Sigma-Aldrich shRNA for IDH3A  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Clones:Invitrogen Clones for IDH3A
    Browse Clones for the Expression of Recombinant Proteins Available from Millipore
                  OriGene GFP tagged cDNA clone in CMV expression vector: NM_005530
                                     Myc/DDK tagged cDNA clone in CMV expression vector: NM_005530
                                     untagged cDNA clones in CMV expression vector (see all 2): NM_005530 

    Primers: Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers
                  OriGene genome-wide validated SYBR primer pairs: NM_005530

    UniProtKB/Swiss-Prot: IDH3A_HUMAN, P50213
    Catalytic activity: Isocitrate + NAD(+) = 2-oxoglutarate + CO(2) + NADH
    Enzyme Number (IUBMB): EC 1.1.1.41 

    Genatlas biochemistry entry for IDH3A:
    isocitrate dehydrogenase 3,alpha subunit,NADH dependent,mitochondrial matrix,catalyzing the third
    step of citric acid cycle

    5 Gene Ontology (GO) molecular function terms (links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000287 magnesium ion binding IEA--
    GO:0004449 isocitrate dehydrogenase (NAD+) activity IEA--
    GO:0016491 oxidoreductase activity IEA--
    GO:0016616 oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor IEA--
    GO:0030145 manganese ion binding IEA--
    About this table

    (Pathways according to Invitrogen (maps by GeneGo), Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB,
    Sets of similar genes according to GeneDecks, Proteins Network according to SABiosciences, Interactions according to 1UniProtKB, 2MINT, and/or 3STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
    About This Section

    1 Invitrogen iPath™ Online BioAtlas - Pathway for IDH3A (Maps provided by GeneGo):
     Citric acid cycle (citrate cycle

       GeneDecks  IDH3A for the pathways selected above  
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    2 Sigma-Aldrich "Your Favorite Gene" Pathways for  IDH3A  (Your Favorite Gene powered by Ingenuity) 
     Glutathione Metabolism
     Citrate Cycle

       GeneDecks  IDH3A for the pathways selected above  
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    1 Kegg Pathway  (Kegg details for IDH3A):
     hsa00020 Citrate cycle (TCA cycle)

       GeneDecks  IDH3A for the pathways selected above  
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    5/12 Interacting proteins for IDH3A (P502132 ENSP000002995183) via UniProtKB, MINT, and/or STRING (see all 12 )
    InteractantInteraction Details
    GeneCardExternal ID(s)
    IKBKGQ9Y6K92MINT-48179
    IDH3GENSP000002179013STRING (score=.992)
    ACO2ENSP000002162543STRING (score=.981)
    ACO1ENSP000003094773STRING (score=.947)
    IDH2ENSP000003318973STRING (score=.942)
    About this table

    3 Gene Ontology (GO) biological process terms (links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005975 carbohydrate metabolic process NAS8833160
    GO:0006099 tricarboxylic acid cycle IEA--
    GO:0055114 oxidation reduction IEA--
    About this table
    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, Sigma-Aldrich, Tocris Bioscience, and/or Novoseek and Drugs according to Enzo Life Sciences and/or PharmGKB)
    About This Section

    Browse drugs & compounds from Enzo Life Sciences
    Browse Small Molecules at Sigma-Aldrich

    Browse Tocris compounds for IDH3A

    (GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 219 Homo sapiens; Jun 2 2009) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView,
    non coding RNAs according to RNAdb,
    ESTs according to GeneTide,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from Invitrogen, Millipore, and/or Abnova,
    siRNAs from Applied Biosystems, Sigma-Aldrich,
    shRNA from Sigma-Aldrich, OriGene,
    Tagged/untagged cDNA clones from OriGene,
    Expression Assays from Applied Biosystems)
    About This Section

    Inhib.
    RNA:
    Invitrogen RNAi Products for gene knock-down (IDH3A)
    Browse for Gene Knock-down Tools from Millipore
    Browse Abnova for Chimera RNAi Products
                  OriGene 29mer shRNA kit in GFP-retroviral vector: NM_005530

                  Sigma-Aldrich siRNA for IDH3A  
                         Sigma-Aldrich shRNA for IDH3A  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Applied Biosystems Silencer® siRNAs: 

    NM_005530  

    REFSEQ mRNAs for IDH3A gene: 

    NM_005530.2   

    Applied Biosystems TaqMan ® Gene Expression Assays: 

    NM_005530  

                  OriGene GFP tagged cDNA clone in CMV expression vector: NM_005530
                                     Myc/DDK tagged cDNA clone in CMV expression vector: NM_005530
                                     untagged cDNA clones in CMV expression vector (see all 2): NM_005530 

    Additional cDNA sequence: 

    AK093531.1 AK096721.1 AK123316.1 AK222973.1 AK296002.1 AK299970.1 AK315963.1 AK316051.1 
    AL110096.1 AL442090.1 BC021967.2 BC036227.1 CR599067.1 CR624257.1 CR749548.1 U07681.1 

    24/25 DOTS entries (see all 25 ):

    DT.86855063  DT.99945419  DT.100824942  DT.100824943  DT.100824944  DT.95258957  DT.92443593  DT.100824933 
    DT.91830964  DT.100824945  DT.100027192  DT.95197969  DT.95363838  DT.121032158  DT.121032190  DT.121032180 
    DT.430952  DT.100027191  DT.121032125  DT.121032155  DT.121032166  DT.99931674  DT.100714103  DT.101983174 

    24/340 AceView cDNA sequences (see all 340 ):

    AV707486 BP363836 CB131647 BM719480 AL043545 AA095501 BE273577 CB159510 
    AU160420 CB216934 CR599067 CR624257 AI424108 BE550193 BI261860 AA911181 
    BP352536 BF111986 BP358032 BQ643334 AK123316 BM838562 AA878128 BQ011986 

    highest scoring ESTs for IDH3A:

    U07681 AA127955 AA128045 AA130890 AA150840 AA151012 AA228279 AA229668 AA417572 AA417949 

    Unigene Cluster for IDH3A:

    Isocitrate dehydrogenase 3 (NAD+) alpha
    Hs.591110  [show with all ESTs]
    Unigene Representative Sequence: AK123316


    GeneLoc Exon Structure

    5/20 Alternative Splicing Database (ASD) splice patterns (SP) for IDH3A (see all 20 )

    ExUns: 1a · 1b · 1c ^ 2 ^ 3 ^ 4a · 4b ^ 5 ^ 6a · 6b ^ 7a · 7b ^ 8 ^ 9a · 9b ^ 10a · 10b · 10c ^ 11a · 11b · 11c ^ 12a · 12b · 12c · 12d · 12e ^
    SP1:                    -     -                 -     -     -                                                     -                 -     -                     
    SP2:                                                  -     -                                                     -                 -     -                     
    SP3:                                                                                                              -                 -     -                     
    SP4:                                            -     -     -                 -                                   -                 -     -                     
    SP5:                                            -     -     -     -                                               -                 -     -                     

    ExUns: 13 ^ 14 ^ 15a · 15b ^ 16a · 16b
    SP1:                                    
    SP2:                                    
    SP3:                                    
    SP4:                                    
    SP5:                                    

    About this scheme

    ECgene alternative splicing isoforms for IDH3A

    2 Ensembl transcripts including schematic representations:
    ENST00000299518  ENST00000379576  
    (Experimental results according to 1GeneNote and GNF BioGPS,
    probe sets-to-genes annotations according to 2GeneAnnot , 3GeneTide , Sets of similar genes according to GeneDecks, Electronic Northern calculations according to data from UniGene (Build 219 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
    Expression Assays from Applied Biosystems )
    About This Section

    IDH3A expression in normal and diseased human tissues

     Applied Biosystems TaqMan ® Gene Expression Assays for IDH3A

    1 / 2 / 3

    5 probe-sets matching IDH3A gene


    Affymetrix
    probe-set
    Array  GeneAnnot data GeneNote data GeneTide data
    # genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank
    36195_at2, 3 U95-A 1 1.00 1.00 1.00 1.00 U07681 1.00 1.00 1.00 1

    202070_s_at2, 3 U133-A 1 1.00 1.00 -- -- NM_005530 0.60 1.00 0.82 1

    202069_s_at2, 3 U133-A 1 1.00 1.00 -- -- AI826060 0.60 0.75 0.68 1

    202070_s_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --

    202069_s_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --
    GeneDecks  IDH3A for binary patterns associated with the probe-sets selected above  
    About GeneDecksing
    About this table    
    Data from (Publications) and GNF BioGPS
        About these images
    About these images

    CGAP SAGE TAG: GCCTCCTTTG

    SOURCE GeneReport for Unigene cluster: Hs.591110

    Expression variation in blood from EXPOLDB for IDH3A

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD and/or 5MGI Jun 06 2009, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
    About This Section


    Orthologs for IDH3A gene from 5/27 species (see all 27 )
    Organism Gene Locus Description Human
    Similarity
    NCBI accessions
    dog
    (Canis familiaris)
    IDH3A1   -- isocitrate dehydrogenase 3 (NAD+) alpha 91.07(n)
    97.54(a)
    479066  XM_536213.2  XP_536213.2 
    chimpanzee
    (Pan troglodytes)
    IDH3A1   -- isocitrate dehydrogenase 3 (NAD+) alpha 99.51(n)
    99.41(a)
    453565  XM_510524.2  XP_510524.2 
    cow
    (Bos taurus)
    IDH3A1   -- isocitrate dehydrogenase 3 (NAD+) alpha 92.53(n)
    96.99(a)
    282446  NM_174644.2  NP_777069.1 
    rat
    (Rattus norvegicus)
    Idh3a1   -- isocitrate dehydrogenase 3 (NAD+) alpha 88.98(n)
    97.27(a)
    114096  NM_053638.1  NP_446090.1 
    mouse
    (Mus musculus)
    Idh3a1, 5 95
    isocitrate dehydrogenase 3 (NAD+) alpha1, 5 89.34(n)1
    97.54(a)1
    678341  NM_029573.21  NP_083849.11 
     AA4070785  AI3165145  (see all 34)
    About this table        Species with no ortholog for IDH3A

    ENSEMBL Gene Tree for IDH3A
    (Paralogs according to 1HomoloGene
    and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
    About This Section

    Paralogs for IDH3A gene
    IDH3G2  IDH3B2  

    (According to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Genotyping Reagents from Applied Biosystems)
    About This Section


    10/138 NCBI SNPs in IDH3A are shown (see all 138 )
    (Click for Applied Biosystems TaqMan ® Genotyping Assay)  (see all 63)
    ABGenomic DataTranscription DataAllele Frequencies
    SNP IDValidChr 15 posSequenceRecsAA
    Chg
    TypeMoreRecsAllele
    freq
    PopTotal
    sample
    More
    ------------
    rs176742051,2
    C,F,H76248512(+) AGTACA/GTTTTT 1 -- ut3115Minor allele frequency- G:0.04NA EU EA WA 1396
    --
    rs110727331,2
    F,H76249458(+) ATTCCA/CAAGAC 1 -- ut314Minor allele frequency- C:0.07EU EA WA 416
    --
    rs30879981,2
    F76249573(+) CCTTTC/TCCTTC 1 -- ut31 trp31Minor allele frequency- T:0.30MN 184
    rs48870101,2
    H76228159(+) gaactC/Ttggag 1 -- ng514Minor allele frequency- T:0.00EU EA WA 416
    rs129046391,2
    C76228542(+) GGAAGA/CAGCTT 1 -- ng51 trp30--------
    rs44352311,2
    H76226800(+) ATCTTC/TTCAAT 1 -- ng514Minor allele frequency- T:0.00EU EA WA 420
    rs23048261,2
    C,F,H76245693(-) TTTCCG/ATCCTT 1 D/D syn1 ese316Minor allele frequency- A:0.05EA NA EU WA 2896
    --
    rs124423611,2
    A,C,F76228824(+) ATCTCT/CAAGGT 1 S/S syn1 ese32Minor allele frequency- C:0.37MN EA 356
    rs38162531,2
    A,C,F,H76245540(-) TACACA/GTCGGG 1 -- int112Minor allele frequency- G:0.34EU EA WA NA 992
    --
    rs118553541,2
    A,C,F,H76230686(+) TTCAGG/ATTGTg 1 -- int18Minor allele frequency- A:0.49EU EA WA 838
    About this table

    HapMap Linkage Disequilibrium images for IDH3A (up to first 250kb)

    (in which this Gene is Involved, According to OMIM, UniProtKB, PharmGKB, Genatlas, GeneTests, Blood group antigen gene mutations by BGMUT, HGMD, GAD, HuGE Navigator, BCGD, and/or TGDB.)
    About This Section

    OMIM: 601149

    (Possibly Related Articles in Doctor's Guide)
    About This Section

      --

    (in PubMed. Associations of this gene to articles via 1Novoseek, 2HGNC, 3Entrez Gene, 4UniProtKB/Swiss-Prot, 5UniProtKB/TrEMBL, 6GAD, and/or 7PharmGKB)
    About This Section

    10/16 PubMed articles for IDH3A gene (see all 16 ):
    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section

     ANDOR
    Aliases
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)
    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, and/or H-InvDB)
    About This Section

    Entrez Gene: 3419 HGNC: 5384 AceView: IDH3A Ensembl:ENSG00000166411 euGenes: HUgn3419
    ECgene: IDH3A H-InvDB: IDH3A
    (According to HUGE)
    About This Section

      --
    (According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section

      --
    (Available from WIS Yeda, Salk, Tufts)
    About This Section

      --
    (Reagents available from Applied Biosystems, Antibodies and assays by Cell Signaling Technology, Abcam, Novus Biologicals,
    Sigma-Aldrich, R&D Systems, Millipore, Abnova, and/or Invitrogen, Clones available from OriGene,and/or Invitrogen, Drugs and/or compounds by Sigma-Aldrich,
    Enzo Life Sciences, and/or Tocris Bioscience)
    About This Section



    Products for IDH3A:
     TaqMan ® Gene Expression Assays
     TaqMan ® Genotyping Assays
      Free SNP selection tool



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     Predesigned and custom siRNAs for IDH3A Antibodies for IDH3A
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     Search Tocris compounds for IDH3A




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