Cyb5a cytochrome b5 type A [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Cyb5aprovided by RGD
Official Full Name: cytochrome b5 type Aprovided by RGD
Primary source: RGD:620558
See related: EnsemblRapid:ENSRNOG00000070068 AllianceGenome:RGD:620558
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Cyb5
Summary: Predicted to enable enzyme binding activity and heme binding activity. Involved in response to cadmium ion. Located in endoplasmic reticulum membrane. Biomarker of pyelonephritis. Human ortholog(s) of this gene implicated in methemoglobinemia and methemoglobinemia and ambiguous genitalia. Orthologous to human CYB5A (cytochrome b5 type A). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Liver (RPKM 6092.4), Adrenal (RPKM 2337.7) and 4 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 18q12.3

Exon count:: 6

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	18	NC_086036.1 (80487923..80520544)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	18	NC_051353.1 (78213067..78245677)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	18	NC_005117.4 (81694818..81726821)

Chromosome 18 - NC_086036.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Superoxide anion production and cytochrome c reduction are the consequences of the stimulated NADH consumption by cytochrome b5 reductase upon complex formation with cytochrome c and suggest a major role of this enzyme as an anti-apoptotic protein during cell death.
Title: Cytochrome b(5) reductase is the component from neuronal synaptic plasma membrane vesicles that generates superoxide anion upon stimulation by cytochrome c.
Cygb has a nitric-oxide dioxygenase function and ascorbate and cytochrome b(5) have roles as reductants
Title: Nitric-oxide dioxygenase function of human cytoglobin with cellular reductants and in rat hepatocytes.
The hydrophobic domain of cytochrome b5 participates not only in hemeprotein interaction, but also in electron transfer from cytochrome b5 to cytochrome P4503A4.
Title: Electron transfer properties and catalytic competence of cytochrome b5 in the fusion protein Hmwb5-EGFP in reactions catalyzed by cytochrome P450 3A4.
The effect of the His63-iron bond and proximity of heme plane on the population of helical conformation in H4 and H5 of cytochrome b5 was investigated.
Title: Structural propensities in the heme binding region of apocytochrome b5. II. Heme conjugates.
The data distinguished the four helical segments and provided insight into the existence of holo- and nonholo-like interactions in the cytochrome's heme binding site.
Title: Structural propensities in the heme binding region of apocytochrome b5. I. Free peptides.
The first mutation (D60R) of cytochrome b(5), stabilized the holoprotein in a probable manifestation of enhanced helical propensity or improved electrostatic interactions
Title: A relationship between heme binding and protein stability in cytochrome b5.
when rat endoplasmic reticulum cytochrome b5 was coexpressed with wild-type desaturase, both proteins interacted and Delta6-desaturase activity was significantly increased
Title: Distinct roles of endoplasmic reticulum cytochrome b5 and fused cytochrome b5-like domain for rat Delta6-desaturase activity.
simulations provided qualitative microscopic explanations of many of the differences in physical properties between outer mitochondrial membrane CYB5 isoform and microsomal CYB5 and two mutants in terms of localized changes in structure and flexibility
Title: Influence of point mutations on the flexibility of cytochrome b5: molecular dynamics simulations of holoproteins.
Heterologous expression of an endogenous rat cytochrome b(5)/cytochrome b(5) reductase fusion protein
Title: Heterologous expression of an endogenous rat cytochrome b(5)/cytochrome b(5) reductase fusion protein: identification of histidines 62 and 85 as the heme axial ligands.
Chemical shift-based constraints for solution structure determination of cytochrome b5
Title: Chemical shift-based constraints for solution structure determination of paramagnetic low-spin heme proteins with bis-His and His-CN axial ligands: the cases of oxidized cytochrome b(5) and Met80Ala cyano-cytochrome c.

Submit: New GeneRIF Correction See all GeneRIFs (13)

General gene information

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Markers

RH140952 (e-PCR)
- UniSTS:222953

Cyb5 (e-PCR), detects polymorphism
- UniSTS:499177

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables electron transfer activity	TAS Traceable Author Statement more info	PubMed
enables enzyme binding	ISO Inferred from Sequence Orthology more info
enables heme binding	IBA Inferred from Biological aspect of Ancestor more info
enables heme binding	IEA Inferred from Electronic Annotation more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in response to cadmium ion	IEP Inferred from Expression Pattern more info	PubMed

Component	Evidence Code	Pubs
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in endoplasmic reticulum	IDA Inferred from Direct Assay more info	PubMed
located_in endoplasmic reticulum	IEA Inferred from Electronic Annotation more info
located_in endoplasmic reticulum	ISO Inferred from Sequence Orthology more info
is_active_in endoplasmic reticulum membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in endoplasmic reticulum membrane	IDA Inferred from Direct Assay more info	PubMed
located_in endoplasmic reticulum membrane	IEA Inferred from Electronic Annotation more info
is_active_in intracellular membrane-bounded organelle	IBA Inferred from Biological aspect of Ancestor more info
located_in intracellular membrane-bounded organelle	ISO Inferred from Sequence Orthology more info
located_in membrane	IEA Inferred from Electronic Annotation more info
located_in membrane	ISO Inferred from Sequence Orthology more info
is_active_in mitochondrial outer membrane	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: cytochrome b5

Names: cytochrome b-5; cytochrome b5 type A (microsomal)

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_022245.2 → NP_071581.1 cytochrome b5

See identical proteins and their annotated locations for NP_071581.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000018

UniProtKB/Swiss-Prot

O35768, P00173

UniProtKB/TrEMBL

A0A8I6A8N4, A6K5L8

Related

ENSRNOP00000089416.2, ENSRNOT00000098124.2

Conserved Domains (1) summary

pfam00173
Location:13 → 85

Cyt-b5; Cytochrome b5-like Heme/Steroid binding domain

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

NC_086036.1 Reference GRCr8

Range

80487923..80520544

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039097081.2 → XP_038953009.1 cytochrome b5 isoform X2

UniProtKB/TrEMBL

A6K5L9

Conserved Domains (1) summary

pfam00173
Location:13 → 85

Cyt-b5; Cytochrome b5-like Heme/Steroid binding domain
XM_063277544.1 → XP_063133614.1 cytochrome b5 isoform X1