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Aliases for IDH3B Gene

Aliases for IDH3B Gene

  • Isocitrate Dehydrogenase 3 (NAD+) Beta 2 3
  • Isocitric Dehydrogenase Subunit Beta 3 4
  • NAD(+)-Specific ICDH Subunit Beta 3 4
  • EC 1.1.1.41 4 63
  • RP46 3 6
  • Isocitrate Dehydrogenase, NAD(+)-Specific, Mitochondrial, Beta Subunit 3
  • Isocitrate Dehydrogenase [NAD] Subunit Beta, Mitochondrial 3
  • NAD+-Specific Isocitrate Dehydrogenase B Subunit 3
  • NAD+-Specific Isocitrate Dehydrogenase Beta 3
  • NAD+-Specific ICDH 3
  • EC 1.1.1 63
  • H-IDHB 3

External Ids for IDH3B Gene

Summaries for IDH3B Gene

Entrez Gene Summary for IDH3B Gene

  • 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 beta subunit of one isozyme of NAD(+)-dependent isocitrate dehydrogenase. Three alternatively spliced transcript variants encoding different isoforms have been described for this gene. [provided by RefSeq, Jul 2008]

GeneCards Summary for IDH3B Gene

IDH3B (Isocitrate Dehydrogenase 3 (NAD+) Beta) is a Protein Coding gene. Diseases associated with IDH3B include retinitis pigmentosa 46 and idh3b-related retinitis pigmentosa. Among its related pathways are Metabolism and Carbon metabolism. GO annotations related to this gene include magnesium ion binding and NAD binding. An important paralog of this gene is IDH3G.

Gene Wiki entry for IDH3B Gene

No data available for UniProtKB/Swiss-Prot , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for IDH3B Gene

Genomics for IDH3B Gene

Genomic Location for IDH3B Gene

Start:
2,658,395 bp from pter
End:
2,664,219 bp from pter
Size:
5,825 bases
Orientation:
Minus strand

Genomic View for IDH3B Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for IDH3B Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for IDH3B Gene

Regulatory Elements for IDH3B Gene

Proteins for IDH3B Gene

  • Protein details for IDH3B Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O43837-IDH3B_HUMAN
    Recommended name:
    Isocitrate dehydrogenase [NAD] subunit beta, mitochondrial
    Protein Accession:
    O43837
    Secondary Accessions:
    • B2RDR1
    • D3DVX2
    • D3DVX3
    • O95106
    • Q5JXS8
    • Q9NQ06
    • Q9NQ07
    • Q9NUZ0
    • Q9UEX0
    • Q9UG99

    Protein attributes for IDH3B Gene

    Size:
    385 amino acids
    Molecular mass:
    42184 Da
    Cofactor:
    Name=Mg(2+); Xref=ChEBI:CHEBI:18420; Name=Mn(2+); Xref=ChEBI:CHEBI:29035; Note=Binds 1 Mg(2+) or Mn(2+) ion per subunit.;
    Quaternary structure:
    • Heterooligomer of subunits alpha, beta, and gamma in the apparent ratio of 2:1:1.

    Alternative splice isoforms for IDH3B Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for IDH3B Gene

Proteomics data for IDH3B Gene at MOPED

Post-translational modifications for IDH3B Gene

  • Modification sites at PhosphoSitePlus
  • Ubiquitination at Lys199

Other Protein References for IDH3B Gene

ENSEMBL proteins:
Reactome Protein details:
REFSEQ proteins:

Domains for IDH3B Gene

Suggested Antigen Peptide Sequences for IDH3B Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

O43837

UniProtKB/Swiss-Prot:

IDH3B_HUMAN
Family:
  • Belongs to the isocitrate and isopropylmalate dehydrogenases family.:
    • O43837
genes like me logo Genes that share domains with IDH3B: view

No data available for Gene Families for IDH3B Gene

Function for IDH3B Gene

Molecular function for IDH3B Gene

GENATLAS Biochemistry: isocitrate dehydrogenase 3,beta subunit,NADH dependent,mitochondrial matrix,third step of citric acid cycle
UniProtKB/Swiss-Prot CatalyticActivity: Isocitrate + NAD(+) = 2-oxoglutarate + CO(2) + NADH

Enzyme Numbers (IUBMB) for IDH3B Gene

Gene Ontology (GO) - Molecular Function for IDH3B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000287 magnesium ion binding IEA --
GO:0004449 isocitrate dehydrogenase (NAD+) activity IEA --
GO:0009055 electron carrier activity TAS 10601238
GO:0016616 oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor --
GO:0051287 NAD binding IEA --
genes like me logo Genes that share ontologies with IDH3B: view

miRNA for IDH3B Gene

No data available for Phenotypes , Animal Models , Transcription Factor Targeting and HOMER Transcription for IDH3B Gene

Localization for IDH3B Gene

Subcellular locations from UniProtKB/Swiss-Prot for IDH3B Gene

Mitochondrion.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for IDH3B Gene COMPARTMENTS Subcellular localization image for IDH3B gene
Compartment Confidence
mitochondrion 5
cytosol 2

Gene Ontology (GO) - Cellular Components for IDH3B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA 21630459
GO:0005739 mitochondrion IDA --
GO:0005759 mitochondrial matrix TAS --
genes like me logo Genes that share ontologies with IDH3B: view

Pathways for IDH3B Gene

genes like me logo Genes that share pathways with IDH3B: view

Gene Ontology (GO) - Biological Process for IDH3B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006099 tricarboxylic acid cycle TAS --
GO:0006102 isocitrate metabolic process IEA --
GO:0006103 2-oxoglutarate metabolic process IEA --
GO:0006734 NADH metabolic process IEA --
GO:0044237 cellular metabolic process TAS --
genes like me logo Genes that share ontologies with IDH3B: view

Compounds for IDH3B Gene

(7) HMDB Compounds for IDH3B Gene

Compound Synonyms Cas Number PubMed IDs
Carbon dioxide
  • Carbon oxide
124-38-9
Isocitric acid
  • 1-Hydroxy-1,2,3-propanetricarboxylate
320-77-4
Magnesium
  • Magnesium
7439-95-4
Manganese
  • manganese
7439-96-5
NAD
  • 3-Carbamoyl-1-D-ribofuranosylpyridinium hydroxide 5'-ester with adenosine 5'-pyrophosphate
53-84-9

(1) Drugbank Compounds for IDH3B Gene

Compound Synonyms Cas Number Type Actions PubMed IDs
NADH
  • beta-DPNH
606-68-8 target
genes like me logo Genes that share compounds with IDH3B: view

Transcripts for IDH3B Gene

Unigene Clusters for IDH3B Gene

Isocitrate dehydrogenase 3 (NAD+) beta:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for IDH3B Gene

ExUns: 1a · 1b ^ 2a · 2b ^ 3a · 3b ^ 4a · 4b · 4c ^ 5a · 5b ^ 6a · 6b · 6c ^ 7a · 7b ^ 8a · 8b ^ 9a · 9b · 9c ^ 10a · 10b ^ 11 ^ 12a · 12b ^
SP1: - - -
SP2: - - - - -
SP3: - -
SP4: - - - - -
SP5: - - - -
SP6: -
SP7: -
SP8: -
SP9: -
SP10: - - -
SP11: -
SP12: -
SP13: -

ExUns: 13a · 13b
SP1:
SP2:
SP3:
SP4:
SP5:
SP6:
SP7:
SP8:
SP9:
SP10:
SP11:
SP12:
SP13:

Relevant External Links for IDH3B Gene

GeneLoc Exon Structure for
IDH3B
ECgene alternative splicing isoforms for
IDH3B

Expression for IDH3B Gene

mRNA expression in normal human tissues for IDH3B Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for IDH3B Gene

SOURCE GeneReport for Unigene cluster for IDH3B Gene Hs.436405

genes like me logo Genes that share expressions with IDH3B: view

No data available for mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for IDH3B Gene

Orthologs for IDH3B Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for IDH3B Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia IDH3B 35
  • 99.83 (n)
  • 99.74 (a)
IDH3B 36
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia IDH3B 35
  • 92.19 (n)
  • 94.27 (a)
IDH3B 36
  • 94 (a)
OneToOne
dog
(Canis familiaris)
Mammalia -- 36
  • 96 (a)
OneToMany
-- 36
  • 74 (a)
OneToMany
IDH3B 35
  • 92.01 (n)
  • 96.35 (a)
mouse
(Mus musculus)
Mammalia Idh3b 35
  • 88.34 (n)
  • 92.43 (a)
Idh3b 16
Idh3b 36
  • 93 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia -- 36
  • 91 (a)
OneToMany
-- 36
  • 74 (a)
OneToMany
rat
(Rattus norvegicus)
Mammalia Idh3B 35
  • 90.02 (n)
  • 94.27 (a)
chicken
(Gallus gallus)
Aves IDH3B 35
  • 78.51 (n)
  • 85 (a)
IDH3B 36
  • 75 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia IDH3B 36
  • 81 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia idh3b 35
  • 76.79 (n)
  • 86.14 (a)
Str.8848 35
zebrafish
(Danio rerio)
Actinopterygii Dr.12046 35
idh3b 35
  • 74.88 (n)
  • 86.05 (a)
idh3b 36
  • 77 (a)
OneToOne
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP007786 35
  • 61.13 (n)
  • 63.2 (a)
fruit fly
(Drosophila melanogaster)
Insecta CG6439 35
  • 64.3 (n)
  • 64.81 (a)
CG6439 36
  • 57 (a)
OneToOne
CG6439 37
  • 60 (a)
CG3483 37
  • 34 (a)
CG5028 37
  • 43 (a)
worm
(Caenorhabditis elegans)
Secernentea idhb-1 35
  • 60.55 (n)
  • 64.22 (a)
idhb-1 36
  • 56 (a)
OneToOne
C37E2.1 37
  • 60 (a)
F35G12.2 37
  • 47 (a)
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_ADL223W 35
  • 56.16 (n)
  • 50.45 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes IDH1 35
  • 51.81 (n)
  • 48.19 (a)
IDH1 36
  • 45 (a)
OneToMany
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0F04103g 35
  • 54.65 (n)
  • 51.21 (a)
thale cress
(Arabidopsis thaliana)
eudicotyledons IDH2 35
  • 56.91 (n)
  • 52.96 (a)
rice
(Oryza sativa)
Liliopsida Os04g0479200 35
  • 55.04 (n)
  • 51.71 (a)
bread mold
(Neurospora crassa)
Ascomycetes NCU00775 35
  • 55.59 (n)
  • 50.6 (a)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes idh1 35
  • 52.69 (n)
  • 48.68 (a)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.7868 36
  • 61 (a)
OneToOne
Species with no ortholog for IDH3B:
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for IDH3B Gene

ENSEMBL:
Gene Tree for IDH3B (if available)
TreeFam:
Gene Tree for IDH3B (if available)

Paralogs for IDH3B Gene

Paralogs for IDH3B Gene

Selected SIMAP similar genes for IDH3B Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with IDH3B: view

Variants for IDH3B Gene

Sequence variations from dbSNP and Humsavar for IDH3B Gene

SNP ID Clin Chr 20 pos Sequence Context AA Info Type MAF
rs2073192 -- 2,664,350(-) CATCC(C/T)ATGAC upstream-variant-2KB
rs2073193 -- 2,663,761(-) CAATT(C/G)AGGCC intron-variant
rs2073197 -- 2,664,431(-) TTTCC(C/T)CCTAA upstream-variant-2KB
rs2235954 -- 2,664,329(-) GCAAG(A/G)AAAAG upstream-variant-2KB
rs2235955 -- 2,659,456(-) ACTAC(C/T)CTCTG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for IDH3B Gene

Variant ID Type Subtype PubMed ID
nsv470535 CNV Gain 18288195
nsv458852 CNV Loss 19166990
esv988063 CNV Insertion 20482838
esv1188410 CNV Insertion 17803354

Relevant External Links for IDH3B Gene

HapMap Linkage Disequilibrium report
IDH3B
Human Gene Mutation Database (HGMD)
IDH3B

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for IDH3B Gene

Disorders for IDH3B Gene

(1) OMIM Diseases for IDH3B Gene (604526)

UniProtKB/Swiss-Prot

IDH3B_HUMAN
  • Retinitis pigmentosa 46 (RP46) [MIM:612572]: A retinal dystrophy belonging to the group of pigmentary retinopathies. Retinitis pigmentosa is characterized by retinal pigment deposits visible on fundus examination and primary loss of rod photoreceptor cells followed by secondary loss of cone photoreceptors. Patients typically have night vision blindness and loss of midperipheral visual field. As their condition progresses, they lose their far peripheral visual field and eventually central vision as well. {ECO:0000269 PubMed:18806796}. Note=The disease is caused by mutations affecting the gene represented in this entry.

Relevant External Links for IDH3B

Genetic Association Database (GAD)
IDH3B
Human Genome Epidemiology (HuGE) Navigator
IDH3B
genes like me logo Genes that share disorders with IDH3B: view

Publications for IDH3B Gene

  1. Assignment of mitochondrial NAD(+)-specific isocitrate dehydrogenase beta subunit gene (IDH3B) to human chromosome band 20p13 by in situ hybridization and radiation hybrid mapping. (PMID: 10575215) Kim Y.O. … Huh T.L. (Cytogenet. Cell Genet. 1999) 2 3 23
  2. Identification and functional characterization of a novel, tissue- specific NAD+-dependent isocitrate dehydrogenase beta subunit isoform. (PMID: 10601238) Kim Y.-O. … Huh T.-L. (J. Biol. Chem. 1999) 3 4
  3. The DNA sequence and comparative analysis of human chromosome 20. (PMID: 11780052) Deloukas P. … Rogers J. (Nature 2001) 3 4
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4

Products for IDH3B Gene

Sources for IDH3B Gene

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