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SSC4D scavenger receptor cysteine rich family member with 4 domains [ Homo sapiens (human) ]

Gene ID: 136853, updated on 2-Nov-2024

Summary

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Official Symbol
SSC4Dprovided by HGNC
Official Full Name
scavenger receptor cysteine rich family member with 4 domainsprovided by HGNC
Primary source
HGNC:HGNC:14461
See related
Ensembl:ENSG00000146700 MIM:607639; AllianceGenome:HGNC:14461
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
SRCRB4D; S4D-SRCRB; SRCRB-S4D
Summary
The scavenger receptor cysteine-rich (SRCR) superfamily is an ancient and highly conserved group of cell surface and/or secreted proteins, some of which are involved in the development of the immune system and the regulation of both innate and adaptive immune responses. Group B SRCR domains usually contain 8 regularly spaced cysteines that give rise to a well-defined intradomain disulfide-bond pattern.[supplied by OMIM, Apr 2004]
Expression
Broad expression in kidney (RPKM 1.3), thyroid (RPKM 1.0) and 21 other tissues See more
Orthologs
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Genomic context

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See SSC4D in Genome Data Viewer
Location:
7q11.23
Exon count:
12
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 7 NC_000007.14 (76389337..76409697, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 7 NC_060931.1 (77676966..77697378, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (76018654..76039014, complement)

Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:75957380-75957880 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:75957881-75958381 Neighboring gene tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein gamma Neighboring gene ReSE screen-validated silencer GRCh37_chr7:75981845-75982083 Neighboring gene ReSE screen-validated silencer GRCh37_chr7:75987439-75987629 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:75987737-75988383 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:75993799-75994486 Neighboring gene peptidylprolyl isomerase A pseudogene 81 Neighboring gene H3K27ac-H3K4me1 hESC enhancers GRCh37_chr7:76008919-76009532 and GRCh37_chr7:76009533-76010146 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:76018334-76019171 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:76019172-76020008 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18315 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26200 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18316 Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:76035061-76035561 Neighboring gene Sharpr-MPRA regulatory region 7220 Neighboring gene zona pellucida glycoprotein 3 Neighboring gene Sharpr-MPRA regulatory region 8731 Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:76073005-76073916 Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:76073917-76074826 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:76085525-76086398 Neighboring gene deltex E3 ubiquitin ligase 2 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:76114631-76115532 Neighboring gene farnesyl diphosphate synthase pseudogene 2 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:76115533-76116434 Neighboring gene uncharacterized LOC124901675 Neighboring gene ReSE screen-validated silencer GRCh37_chr7:76138251-76138456 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:76139334-76139906 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:76139907-76140479 Neighboring gene uroplakin 3B

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. Physical Interactions With Bacteria and Protozoan Parasites Establish the Scavenger Receptor SSC4D as a Broad-Spectrum Pattern Recognition Receptor. Cardoso MS, et al. Front Immunol, 2021. PMID 35003072, Free PMC Article
  2. Cloning of S4D-SRCRB, a new soluble member of the group B scavenger receptor cysteine-rich family (SRCR-SF) mapping to human chromosome 7q11.23. Padilla O, et al. Immunogenetics, 2002 Dec. PMID 12466895
  3. The BTB and CNC homology 1 (BACH1) target genes are involved in the oxidative stress response and in control of the cell cycle. Warnatz HJ, et al. J Biol Chem, 2011 Jul 1. PMID 21555518, Free PMC Article
  4. PAK4 promotes kinase-independent stabilization of RhoU to modulate cell adhesion. Dart AE, et al. J Cell Biol, 2015 Nov 23. PMID 26598620, Free PMC Article
  5. Protein interactome reveals converging molecular pathways among autism disorders. Sakai Y, et al. Sci Transl Med, 2011 Jun 8. PMID 21653829, Free PMC Article

See all (11) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Physical Interactions With Bacteria and Protozoan Parasites Establish the Scavenger Receptor SSC4D as a Broad-Spectrum Pattern Recognition Receptor.
    Title: Physical Interactions With Bacteria and Protozoan Parasites Establish the Scavenger Receptor SSC4D as a Broad-Spectrum Pattern Recognition Receptor.
  2. SRCRB4D is a target gene of the BACH1 transcription factor according to ChIP-seq analysis in HEK 293 cells.
    Title: The BTB and CNC homology 1 (BACH1) target genes are involved in the oxidative stress response and in control of the cell cycle.
  3. Observational study of gene-disease association. (HuGE Navigator)
    Title: New genetic associations detected in a host response study to hepatitis B vaccine.
  4. Cloning of S4D-SRCRB, a new soluble member of the group B scavenger receptor cysteine-rich family (SRCR-SF) mapping to human chromosome 7q11.23.
    Title: Cloning of S4D-SRCRB, a new soluble member of the group B scavenger receptor cysteine-rich family (SRCR-SF) mapping to human chromosome 7q11.23.
Submit: New GeneRIF Correction

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by GOA

Component Evidence Code Pubs
located_in extracellular region IEA
Inferred from Electronic Annotation
more info
  
located_in membrane IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
scavenger receptor cysteine-rich domain-containing group B protein
Names
four scavenger receptor cysteine-rich domains-containing protein
scavenger receptor cysteine rich domain containing, group B (4 domains)
scavenger receptor cysteine rich family, 4 domains
scavenger receptor cysteine-rich protein SRCRB-S4D

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)

  1. NM_080744.2 → NP_542782.1  scavenger receptor cysteine-rich domain-containing group B protein precursor

    See identical proteins and their annotated locations for NP_542782.1

    Status: VALIDATED

    Source sequence(s)
    AC005522, AJ312755
    Consensus CDS
    CCDS5585.1
    UniProtKB/Swiss-Prot
    Q2HIZ5, Q6ZMG3, Q8WTU2, Q96BF5
    Related
    ENSP00000275560.3, ENST00000275560.4
    Conserved Domains (2) summary
    smart00202
    Location:473 → 573
    SR; Scavenger receptor Cys-rich
    pfam00530
    Location:478 → 572
    SRCR; Scavenger receptor cysteine-rich domain

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000007.14 Reference GRCh38.p14 Primary Assembly

    Range
    76389337..76409697 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017011750.2 → XP_016867239.1  scavenger receptor cysteine-rich domain-containing group B protein isoform X2

  2. XM_024446664.2 → XP_024302432.1  scavenger receptor cysteine-rich domain-containing group B protein isoform X1

    Conserved Domains (1) summary
    smart00202
    Location:502 → 602
    SR; Scavenger receptor Cys-rich

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060931.1 Alternate T2T-CHM13v2.0

    Range
    77676966..77697378 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054357263.1 → XP_054213238.1  scavenger receptor cysteine-rich domain-containing group B protein isoform X2

  2. XM_054357262.1 → XP_054213237.1  scavenger receptor cysteine-rich domain-containing group B protein isoform X1

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8WTU2.1 GenPept UniProtKB/Swiss-Prot:Q8WTU2

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