Human Gene CYB5R3 (ENST00000352397.10_10) from GENCODE V47lift37
  Description: cytochrome b5 reductase 3, transcript variant 1 (from RefSeq NM_000398.7)
Gencode Transcript: ENST00000352397.10_10
Gencode Gene: ENSG00000100243.22_17
Transcript (Including UTRs)
   Position: hg19 chr22:43,013,846-43,045,398 Size: 31,553 Total Exon Count: 9 Strand: -
Coding Region
   Position: hg19 chr22:43,015,779-43,045,321 Size: 29,543 Coding Exon Count: 9 

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 (chr22:43,013,846-43,045,398)mRNA (may differ from genome)Protein (301 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
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MalacardsMGIOMIMPubMedReactomeUniProtKB
WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: NB5R3_HUMAN
DESCRIPTION: RecName: Full=NADH-cytochrome b5 reductase 3; Short=B5R; Short=Cytochrome b5 reductase; EC=1.6.2.2; AltName: Full=Diaphorase-1; Contains: RecName: Full=NADH-cytochrome b5 reductase 3 membrane-bound form; Contains: RecName: Full=NADH-cytochrome b5 reductase 3 soluble form;
FUNCTION: Desaturation and elongation of fatty acids, cholesterol biosynthesis, drug metabolism, and, in erythrocyte, methemoglobin reduction.
CATALYTIC ACTIVITY: NADH + 2 ferricytochrome b5 = NAD(+) + H(+) + 2 ferrocytochrome b5.
COFACTOR: FAD.
SUBUNIT: Component of a complex composed of cytochrome b5, NADH- cytochrome b5 reductase (CYB5R3) and MOSC2 (By similarity).
SUBCELLULAR LOCATION: Isoform 1: Endoplasmic reticulum membrane; Lipid-anchor; Cytoplasmic side. Mitochondrion outer membrane; Lipid-anchor; Cytoplasmic side.
SUBCELLULAR LOCATION: Isoform 2: Cytoplasm. Note=Produces the soluble form found in erythrocytes.
TISSUE SPECIFICITY: Isoform 2 is expressed at late stages of erythroid maturation.
POLYMORPHISM: Ser-117 seems to only be found in persons of African origin. The allele frequency is 0.23 in African Americans. It was not found in Caucasians, Asians, Indo-Aryans, or Arabs. There seems to be no effect on the enzyme activity.
DISEASE: Defects in CYB5R3 are the cause of methemoglobinemia CYB5R3-related (METHB-CYB5R3) [MIM:250800]. A form of methemoglobinemia, a hematologic disease characterized by the presence of excessive amounts of methemoglobin in blood cells, resulting in decreased oxygen carrying capacity of the blood, cyanosis and hypoxia. There are two types of methemoglobinemia CYB5R3-related. In type 1, the defect affects the soluble form of the enzyme, is restricted to red blood cells, and causes well- tolerated methemoglobinemia. In type 2, the defect affects both the soluble and microsomal forms of the enzyme and is thus generalized, affecting red cells, leukocytes and all body tissues. Type 2 methemoglobinemia is associated with mental deficiency and other neurologic symptoms.
SIMILARITY: Belongs to the flavoprotein pyridine nucleotide cytochrome reductase family.
SIMILARITY: Contains 1 FAD-binding FR-type domain.
WEB RESOURCE: Name=NIEHS-SNPs; URL="http://egp.gs.washington.edu/data/dia1/";

-  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: CYB5R3
Diseases sorted by gene-association score: methemoglobinemia, type i* (1319), hereditary methemoglobinemia* (381), methemoglobinemia (62), congenital methemoglobinemia (19), acquired methemoglobinemia (11), vaccinia (9), estrogen-receptor negative breast cancer (8), monkeypox (7)
* = Manually curated disease association

-  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: 246.15 RPKM in Artery - Aorta
Total median expression: 4152.27 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 -37.5077-0.487 Picture PostScript Text
3' UTR -759.701933-0.393 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
IPR017927 - Fd_Rdtase_FAD-bd
IPR001709 - Flavoprot_Pyr_Nucl_cyt_Rdtase
IPR001834 - NADH-Cyt_B5_reductase
IPR008333 - OxRdtase_FAD-bd_dom
IPR001433 - OxRdtase_FAD/NAD-bd
IPR017938 - Riboflavin_synthase-like_b-brl

Pfam Domains:
PF00175 - Oxidoreductase NAD-binding domain
PF00970 - Oxidoreductase FAD-binding domain

SCOP Domains:
63380 - Riboflavin synthase domain-like
52343 - Ferredoxin reductase-like, C-terminal NADP-linked domain

Protein Data Bank (PDB) 3-D Structure
MuPIT help
1M91 - Model 1UMK - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on P00387
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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 Details 
Gene SorterGene Sorter  Gene Sorter 
 RGDEnsembl WormBase 
    Protein Sequence 
    Alignment 

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0004128 cytochrome-b5 reductase activity, acting on NAD(P)H
GO:0005515 protein binding
GO:0016208 AMP binding
GO:0016491 oxidoreductase activity
GO:0043531 ADP binding
GO:0050660 flavin adenine dinucleotide binding
GO:0051287 NAD binding
GO:0071949 FAD binding

Biological Process:
GO:0006629 lipid metabolic process
GO:0006694 steroid biosynthetic process
GO:0006695 cholesterol biosynthetic process
GO:0008015 blood circulation
GO:0008202 steroid metabolic process
GO:0008203 cholesterol metabolic process
GO:0016126 sterol biosynthetic process
GO:0019852 L-ascorbic acid metabolic process
GO:0043312 neutrophil degranulation
GO:0055114 oxidation-reduction process

Cellular Component:
GO:0005576 extracellular region
GO:0005737 cytoplasm
GO:0005739 mitochondrion
GO:0005741 mitochondrial outer membrane
GO:0005783 endoplasmic reticulum
GO:0005789 endoplasmic reticulum membrane
GO:0005811 lipid particle
GO:0005833 hemoglobin complex
GO:0016020 membrane
GO:0035578 azurophil granule lumen


-  Descriptions from all associated GenBank mRNAs
  BC004821 - Homo sapiens cytochrome b5 reductase 3, mRNA (cDNA clone MGC:5150 IMAGE:3450773), complete cds.
M16462 - Human NADH-cytochrome b5 reductase mRNA, 3' end.
JD499285 - Sequence 480309 from Patent EP1572962.
AK124528 - Homo sapiens cDNA FLJ42537 fis, clone BRACE3004058, highly similar to NADH-cytochrome B5 reductase (EC 1.6.2.2).
JD485446 - Sequence 466470 from Patent EP1572962.
JD365636 - Sequence 346660 from Patent EP1572962.
JD513716 - Sequence 494740 from Patent EP1572962.
JD519308 - Sequence 500332 from Patent EP1572962.
JD487769 - Sequence 468793 from Patent EP1572962.
JD490474 - Sequence 471498 from Patent EP1572962.
JD507643 - Sequence 488667 from Patent EP1572962.
JD465239 - Sequence 446263 from Patent EP1572962.
JD389129 - Sequence 370153 from Patent EP1572962.
JD389128 - Sequence 370152 from Patent EP1572962.
JD054600 - Sequence 35624 from Patent EP1572962.
JD269814 - Sequence 250838 from Patent EP1572962.
JD533506 - Sequence 514530 from Patent EP1572962.
JD387424 - Sequence 368448 from Patent EP1572962.
JD453392 - Sequence 434416 from Patent EP1572962.
AK302204 - Homo sapiens cDNA FLJ56301 complete cds, highly similar to NADH-cytochrome b5 reductase (EC 1.6.2.2).
AF361370 - Homo sapiens NADH-cytochrome b5 reductase mRNA, complete cds.
Y09501 - H.sapiens mRNA for NADH-cytochrome b5 reductase.
JD100611 - Sequence 81635 from Patent EP1572962.
CR456435 - Homo sapiens DIA1 full length open reading frame (ORF) cDNA clone (cDNA clone C22ORF:pGEM.DIA1).
AY421734 - Homo sapiens mutant NADH-cytochrome b5 reductase mRNA, partial cds.
CU012995 - Homo sapiens CYB5R3, mRNA (cDNA clone IMAGE:100000157), complete cds, with stop codon, in Gateway system.
BT009821 - Homo sapiens diaphorase (NADH) (cytochrome b-5 reductase) mRNA, complete cds.
AJ010116 - Homo sapiens mRNA for mutant NADH-cytochrome b5 reductase, partial, mutation Arg57glu.
AJ010117 - Homo sapiens mRNA for mutant NADH-cytochrome b5 reductase, partial, mutation Leu72Pro.
AJ010118 - Homo sapiens mRNA for mutant NADH-cytochrome b5 reductase, partial, mutation Cys203tyr.
AB463000 - Synthetic construct DNA, clone: pF1KB8445, Homo sapiens CYB5R3 gene for cytochrome b5 reductase 3, without stop codon, in Flexi system.
CU013283 - Homo sapiens CYB5R3, mRNA (cDNA clone IMAGE:100000061), complete cds, without stop codon, in Gateway system.
AJ310899 - Homo sapiens partial mRNA for NADH-cytochrome b5 reductase (B5R gene), cell line MDA-MB-231.
AJ310900 - Homo sapiens partial mRNA for NADH-cytochrome b5 reductase (B5R gene), cell line MCF-7.
M16461 - Human NADH-cytochrome b5 reductase mRNA, 3' end.
AY421733 - Homo sapiens mutant NADH-cytochrome b5 reductase mRNA, partial cds.
AY421735 - Homo sapiens mutant NADH-cytochrome b5 reductase mRNA, partial cds.
JD249377 - Sequence 230401 from Patent EP1572962.
JD528787 - Sequence 509811 from Patent EP1572962.
JD420013 - Sequence 401037 from Patent EP1572962.
JD461864 - Sequence 442888 from Patent EP1572962.
JD407342 - Sequence 388366 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein P00387 (Reactome details) participates in the following event(s):

R-HSA-6798751 Exocytosis of azurophil granule lumen proteins
R-HSA-198824 CYB5R3:FAD reduces CYB5A:ferriheme to CYB5A:heme
R-HSA-8936442 MARC1,MARC2 reduce N-hydroxylated compounds
R-HSA-6798695 Neutrophil degranulation
R-HSA-196836 Vitamin C (ascorbate) metabolism
R-HSA-211945 Phase I - Functionalization of compounds
R-HSA-168249 Innate Immune System
R-HSA-196849 Metabolism of water-soluble vitamins and cofactors
R-HSA-211859 Biological oxidations
R-HSA-168256 Immune System
R-HSA-196854 Metabolism of vitamins and cofactors
R-HSA-1430728 Metabolism

-  Other Names for This Gene
  Alternate Gene Symbols: B1AHF2, B7Z7L3, CYB5R3 , DIA1, ENST00000352397.1, ENST00000352397.2, ENST00000352397.3, ENST00000352397.4, ENST00000352397.5, ENST00000352397.6, ENST00000352397.7, ENST00000352397.8, ENST00000352397.9, NB5R3_HUMAN, NM_000398, O75675, P00387, Q8TDL8, Q8WTS8, Q9UEN4, Q9UEN5, Q9UL55, Q9UL56, uc317yfv.1, uc317yfv.2
UCSC ID: ENST00000352397.10_10
RefSeq Accession: NM_000398.7
Protein: P00387 (aka NB5R3_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.