Human Gene CDO1 (ENST00000250535.5_7) from GENCODE V47lift37
  Description: cysteine dioxygenase type 1, transcript variant 7 (from RefSeq NR_136620.2)
Gencode Transcript: ENST00000250535.5_7
Gencode Gene: ENSG00000129596.5_9
Transcript (Including UTRs)
   Position: hg19 chr5:115,140,430-115,152,356 Size: 11,927 Total Exon Count: 5 Strand: -
Coding Region
   Position: hg19 chr5:115,141,130-115,152,094 Size: 10,965 Coding Exon Count: 5 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr5:115,140,430-115,152,356)mRNA (may differ from genome)Protein (200 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
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HGNCMalacardsMGIOMIMPubMedReactome
UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: CDO1_HUMAN
DESCRIPTION: RecName: Full=Cysteine dioxygenase type 1; EC=1.13.11.20; AltName: Full=Cysteine dioxygenase type I; Short=CDO; Short=CDO-I;
FUNCTION: Initiates several important metabolic pathways related to pyruvate and several sulfurate compounds including sulfate, hypotaurine and taurine. Critical regulator of cellular cysteine concentrations. Has an important role in maintaining the hepatic concentation of intracellular free cysteine within a proper narrow range.
CATALYTIC ACTIVITY: L-cysteine + O(2) = 3-sulfinoalanine.
COFACTOR: Binds 1 iron ion per subunit. Zinc to a much lesser extent.
PATHWAY: Organosulfur biosynthesis; taurine biosynthesis; hypotaurine from L-cysteine: step 1/2.
SUBUNIT: Monomer.
TISSUE SPECIFICITY: Highly expressed in liver and placenta. Low expression in heart, brain and pancreas. Also detected in hepatoblastoma Hep-G2 cells.
INDUCTION: In hepatoblastoma Hep-G2 cells, down-regulated by phorbol 12-myristate 13-acetate (PMA).
PTM: The thioether cross-link between Cys-93 and Tyr-157 plays a structural role through stabilizing the Fe(2+) ion, and prevents the production of highly damaging free hydroxyl radicals by holding the oxygen radical via hydroxyl hydrogen.
SIMILARITY: Belongs to the cysteine dioxygenase family.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: CDO1
Diseases sorted by gene-association score: hepatoblastoma (30), esophagus adenocarcinoma (17)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 91.33 RPKM in Liver
Total median expression: 597.65 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -105.70262-0.403 Picture PostScript Text
3' UTR -149.10700-0.213 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR010300 - Cys_dOase_I
IPR014710 - RmlC-like_jellyroll
IPR011051 - RmlC_Cupin

Pfam Domains:
PF05995 - Cysteine dioxygenase type I

SCOP Domains:
51182 - RmlC-like cupins

Protein Data Bank (PDB) 3-D Structure
MuPIT help
2IC1 - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on Q16878
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologGenome BrowserNo ortholog
Gene DetailsGene Details Gene DetailsGene Details 
Gene SorterGene Sorter Gene SorterGene Sorter 
 RGDEnsembl WormBase 
    Protein Sequence 
    Alignment 

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005506 iron ion binding
GO:0008198 ferrous iron binding
GO:0016491 oxidoreductase activity
GO:0016702 oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen
GO:0017172 cysteine dioxygenase activity
GO:0046872 metal ion binding
GO:0051213 dioxygenase activity

Biological Process:
GO:0000097 sulfur amino acid biosynthetic process
GO:0006534 cysteine metabolic process
GO:0006954 inflammatory response
GO:0007595 lactation
GO:0010243 response to organonitrogen compound
GO:0019448 L-cysteine catabolic process
GO:0033762 response to glucagon
GO:0042412 taurine biosynthetic process
GO:0043200 response to amino acid
GO:0045471 response to ethanol
GO:0051384 response to glucocorticoid
GO:0051591 response to cAMP
GO:0055114 oxidation-reduction process

Cellular Component:
GO:0005829 cytosol


-  Descriptions from all associated GenBank mRNAs
  E03591 - cDNA for human liver cysteine dioxygenase.
BC024241 - Homo sapiens cysteine dioxygenase, type I, mRNA (cDNA clone MGC:33161 IMAGE:4797463), complete cds.
D85777 - Homo sapiens mRNA for cysteine dioxygenase, complete cds.
Z31357 - H.sapiens mRNA for cysteine dioxygenase type 1.
AK130357 - Homo sapiens cDNA FLJ26847 fis, clone PRS07918, highly similar to Cysteine dioxygenase type I (EC 1.13.11.20).
JD060169 - Sequence 41193 from Patent EP1572962.
JD349456 - Sequence 330480 from Patent EP1572962.
JD038823 - Sequence 19847 from Patent EP1572962.
JD143076 - Sequence 124100 from Patent EP1572962.
JD362723 - Sequence 343747 from Patent EP1572962.
JD059774 - Sequence 40798 from Patent EP1572962.
CR536540 - Homo sapiens full open reading frame cDNA clone RZPDo834A0422D for gene CDO1, cysteine dioxygenase, type I; complete cds, incl. stopcodon.
Z23010 - H.sapiens mRNA for cysteine dioxygenase.
AK314231 - Homo sapiens cDNA, FLJ94971, highly similar to Homo sapiens cysteine dioxygenase, type I (CDO1), mRNA.
HQ448366 - Synthetic construct Homo sapiens clone IMAGE:100071790; CCSB001677_01 cysteine dioxygenase, type I (CDO1) gene, encodes complete protein.
KJ896587 - Synthetic construct Homo sapiens clone ccsbBroadEn_05981 CDO1 gene, encodes complete protein.
DQ891652 - Synthetic construct clone IMAGE:100004282; FLH178995.01X; RZPDo839B08130D cysteine dioxygenase, type I (CDO1) gene, encodes complete protein.
E03590 - DNA encoding human liver cysteine dioxygenase.
CU692898 - Synthetic construct Homo sapiens gateway clone IMAGE:100020233 5' read CDO1 mRNA.
AK309390 - Homo sapiens cDNA, FLJ99431.
JD123396 - Sequence 104420 from Patent EP1572962.
JD196046 - Sequence 177070 from Patent EP1572962.
JD221236 - Sequence 202260 from Patent EP1572962.
JD269954 - Sequence 250978 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  BioCyc Knowledge Library
CYSTEINE-DEG-PWY - L-cysteine degradation I
PWY-5328 - superpathway of methionine degradation
PWY-5331 - taurine biosynthesis

Reactome (by CSHL, EBI, and GO)

Protein Q16878 (Reactome details) participates in the following event(s):

R-HSA-1614645 CDO1:Fe2+ oxidises L-Cys to 3-Sulfinoalanine
R-HSA-1614558 Degradation of cysteine and homocysteine
R-HSA-1614635 Sulfur amino acid metabolism
R-HSA-71291 Metabolism of nitrogenous molecules
R-HSA-1430728 Metabolism

-  Other Names for This Gene
  Alternate Gene Symbols: B2RAK4, CDO1_HUMAN, ENST00000250535.1, ENST00000250535.2, ENST00000250535.3, ENST00000250535.4, NR_136620, P78513, Q16878, Q6FHZ8, Q8TB64, uc317fbx.1, uc317fbx.2
UCSC ID: ENST00000250535.5_7
RefSeq Accession: NM_001801.3
Protein: Q16878 (aka CDO1_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.