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SHKBP1 SH3KBP1 binding protein 1 [ Homo sapiens (human) ]

Gene ID: 92799, updated on 3-Apr-2024

Summary

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Official Symbol
SHKBP1provided by HGNC
Official Full Name
SH3KBP1 binding protein 1provided by HGNC
Primary source
HGNC:HGNC:19214
See related
Ensembl:ENSG00000160410 MIM:617322; AllianceGenome:HGNC:19214
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
Sb1; PP203
Summary
Enables identical protein binding activity. Predicted to be involved in positive regulation of epidermal growth factor receptor signaling pathway. Predicted to be located in lysosome. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in bone marrow (RPKM 24.5), spleen (RPKM 23.9) and 25 other tissues See more
Orthologs
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Genomic context

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See SHKBP1 in Genome Data Viewer
Location:
19q13.2
Exon count:
18
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (40576873..40591397)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (43397488..43411988)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (41082779..41097303)

Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14655 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10630 Neighboring gene biliverdin reductase B Neighboring gene spectrin beta, non-erythrocytic 4 Neighboring gene ReSE screen-validated silencer GRCh37_chr19:41029231-41029526 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10631 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14656 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10632 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10634 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10633 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10635 Neighboring gene Sharpr-MPRA regulatory region 6117 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14657 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10636 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:41108540-41109063 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10637 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10638 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10639 Neighboring gene Sharpr-MPRA regulatory region 12022 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10640 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14658 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:41119811-41120358 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14659 Neighboring gene latent transforming growth factor beta binding protein 4 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:41128498-41129138 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14660 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:41136805-41137395 Neighboring gene ReSE screen-validated silencer GRCh37_chr19:41142798-41142919 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr19:41153389-41154370 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14661 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10641 Neighboring gene Sharpr-MPRA regulatory region 4590 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:41194847-41195786 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10642 Neighboring gene NUMB like endocytic adaptor protein

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
  • 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. The TGFβ-miR-499a-SHKBP1 pathway induces resistance to EGFR inhibitors in osteosarcoma cancer stem cell-like cells. Wang T, et al. J Exp Clin Cancer Res, 2019 May 28. PMID 31138318, Free PMC Article
  2. Genetic variant in the BCL11A (rs1427407), but not HBS1-MYB (rs6934903) loci associate with fetal hemoglobin levels in Indian sickle cell disease patients. Bhanushali AA, et al. Blood Cells Mol Dis, 2015 Jan. PMID 25457385
  3. Human homologue of SETA binding protein 1 interacts with cathepsin B and participates in TNF-Induced apoptosis in ovarian cancer cells. Liu JP, et al. Mol Cell Biochem, 2006 Nov. PMID 16733801
  4. Exosomal circSHKBP1 promotes gastric cancer progression via regulating the miR-582-3p/HUR/VEGF axis and suppressing HSP90 degradation. Xie M, et al. Mol Cancer, 2020 Jun 29. PMID 32600329, Free PMC Article
  5. Structural complexity in the KCTD family of Cullin3-dependent E3 ubiquitin ligases. Pinkas DM, et al. Biochem J, 2017 Nov 1. PMID 28963344, Free PMC Article

See all (58) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Study suggests that an elevated SHKBP1/miR-499a ratio is a molecular signature that characterizes the erlotinib-resistant overall survival of osteosarcoma cells, which may have clinical value as a predictive biomarker.
    Title: The TGFβ-miR-499a-SHKBP1 pathway induces resistance to EGFR inhibitors in osteosarcoma cancer stem cell-like cells.
  2. Genetic variant in the BCL11A (rs1427407), but not HBS1-MYB (rs6934903) loci associate with fetal hemoglobin levels in Indian sickle cell disease patients.
    Title: Genetic variant in the BCL11A (rs1427407), but not HBS1-MYB (rs6934903) loci associate with fetal hemoglobin levels in Indian sickle cell disease patients.
  3. SHKBP1 disturbed the translocation of CIN85 to EGFR-containing vesicles.
    Title: SH3KBP1-binding protein 1 prevents epidermal growth factor receptor degradation by the interruption of c-Cbl-CIN85 complex.
  4. hSB1 may function as a regulator of cathepsin B-mediated apoptosis.
    Title: Human homologue of SETA binding protein 1 interacts with cathepsin B and participates in TNF-Induced apoptosis in ovarian cancer cells.
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

Function Evidence Code Pubs
enables identical protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in positive regulation of epidermal growth factor receptor signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in positive regulation of epidermal growth factor receptor signaling pathway ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in protein homooligomerization IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in lysosome IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
SH3KBP1-binding protein 1
Names
SETA-binding protein 1

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_138392.4 → NP_612401.2  SH3KBP1-binding protein 1

    See identical proteins and their annotated locations for NP_612401.2

    Status: VALIDATED

    Source sequence(s)
    AF258553, BC007653, DB038927
    Consensus CDS
    CCDS12560.1
    UniProtKB/Swiss-Prot
    Q8N2I6, Q8TBC3, Q8WY93, Q96IB8
    UniProtKB/TrEMBL
    B2R6W9
    Related
    ENSP00000291842.4, ENST00000291842.10
    Conserved Domains (1) summary
    pfam02214
    Location:21 → 106
    BTB_2; BTB/POZ domain

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000019.10 Reference GRCh38.p14 Primary Assembly

    Range
    40576873..40591397
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006723474.3 → XP_006723537.1  SH3KBP1-binding protein 1 isoform X1

    UniProtKB/TrEMBL
    B2R6W9
    Conserved Domains (2) summary
    smart00225
    Location:23 → 108
    BTB; Broad-Complex, Tramtrack and Bric a brac
    pfam02214
    Location:21 → 106
    BTB_2; BTB/POZ domain

  2. XM_006723475.3 → XP_006723538.1  SH3KBP1-binding protein 1 isoform X2

    UniProtKB/TrEMBL
    B2R6W9
    Conserved Domains (2) summary
    smart00225
    Location:23 → 108
    BTB; Broad-Complex, Tramtrack and Bric a brac
    pfam02214
    Location:21 → 106
    BTB_2; BTB/POZ domain

  3. XM_017027473.3 → XP_016882962.1  SH3KBP1-binding protein 1 isoform X3

    UniProtKB/TrEMBL
    B2R6W9

  4. XM_011527492.3 → XP_011525794.1  SH3KBP1-binding protein 1 isoform X4

    UniProtKB/TrEMBL
    M0R2P6
    Conserved Domains (2) summary
    smart00225
    Location:23 → 108
    BTB; Broad-Complex, Tramtrack and Bric a brac
    pfam02214
    Location:21 → 106
    BTB_2; BTB/POZ domain

  5. XM_047439684.1 → XP_047295640.1  SH3KBP1-binding protein 1 isoform X5

  6. XM_011527493.3 → XP_011525795.1  SH3KBP1-binding protein 1 isoform X6

    UniProtKB/TrEMBL
    B3KVX8
    Related
    ENST00000598201.5

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060943.1 Alternate T2T-CHM13v2.0

    Range
    43397488..43411988
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054322615.1 → XP_054178590.1  SH3KBP1-binding protein 1 isoform X1

  2. XM_054322616.1 → XP_054178591.1  SH3KBP1-binding protein 1 isoform X2

  3. XM_054322617.1 → XP_054178592.1  SH3KBP1-binding protein 1 isoform X3

  4. XM_054322618.1 → XP_054178593.1  SH3KBP1-binding protein 1 isoform X4

  5. XM_054322619.1 → XP_054178594.1  SH3KBP1-binding protein 1 isoform X5

  6. XM_054322620.1 → XP_054178595.1  SH3KBP1-binding protein 1 isoform X6

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8TBC3.2 GenPept UniProtKB/Swiss-Prot:Q8TBC3

Gene LinkOut

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