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SDCBP syndecan binding protein [ Homo sapiens (human) ]

Gene ID: 6386, updated on 13-May-2016
Official Symbol
SDCBPprovided by HGNC
Official Full Name
syndecan binding proteinprovided by HGNC
Primary source
HGNC:HGNC:10662
See related
Ensembl:ENSG00000137575 HPRD:03741; MIM:602217; Vega:OTTHUMG00000164303
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
ST1; MDA9; SYCL; MDA-9; TACIP18
Summary
The protein encoded by this gene was initially identified as a molecule linking syndecan-mediated signaling to the cytoskeleton. The syntenin protein contains tandemly repeated PDZ domains that bind the cytoplasmic, C-terminal domains of a variety of transmembrane proteins. This protein may also affect cytoskeletal-membrane organization, cell adhesion, protein trafficking, and the activation of transcription factors. The protein is primarily localized to membrane-associated adherens junctions and focal adhesions but is also found at the endoplasmic reticulum and nucleus. Alternative splicing results in multiple transcript variants encoding different isoforms. [provided by RefSeq, Jul 2008]
Orthologs
Location:
8q12
Exon count:
10
Annotation release Status Assembly Chr Location
107 current GRCh38.p2 (GCF_000001405.28) 8 NC_000008.11 (58553169..58582860)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 8 NC_000008.10 (59465566..59495419)

Chromosome 8 - NC_000008.11Genomic Context describing neighboring genes Neighboring gene cytochrome P450 family 7 subfamily A member 1 Neighboring gene uncharacterized LOC105375857 Neighboring gene ribosomal protein S26 pseudogene 7 Neighboring gene neutral sphingomyelinase activation associated factor Neighboring gene uncharacterized LOC105375858

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env Syntenin-1 is recruited toward HIV-1 gp120/gp41-driven virus/cell and cell/cell contacts, associates with CD4, limits HIV-1-induced cell fusion and viral entry, and modulates gp120/gp41-triggered actin polymerization and PIP2 accumulation PubMed
env Genes, including GABRP, ADF, HINT, PRSS2, SDCBP, PTK9, PPP2R5B, ITGA3, PRKCBP1, HMOX2, HAT1, PPP1cB, and ICAM-1, are upregulated after treatment of human astrocytes with HIV-1 gp120 PubMed
Envelope transmembrane glycoprotein gp41 env Syntenin-1 is recruited toward HIV-1 gp120/gp41-driven virus/cell and cell/cell contacts, associates with CD4, limits HIV-1-induced cell fusion and viral entry, and modulates gp120/gp41-triggered actin polymerization and PIP2 accumulation PubMed
Nef nef HIV-1 Nef inhibits the expression of syndecan binding protein (syntenin) in human podocyte PubMed
matrix gag HIV-1 MA is identified to have a physical interaction with syndecan binding protein (SDCBP) in human HEK293 and/or Jurkat cell lines by using affinity tagging and purification mass spectrometry analyses PubMed

Go to the HIV-1, Human Interaction Database

Products Interactant Other Gene Complex Source Pubs Description

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
cell adhesion molecule binding IEA
Inferred from Electronic Annotation
more info
 
cytoskeletal adaptor activity NAS
Non-traceable Author Statement
more info
PubMed 
ephrin receptor binding IEA
Inferred from Electronic Annotation
more info
 
frizzled binding IPI
Inferred from Physical Interaction
more info
PubMed 
glycoprotein binding IEA
Inferred from Electronic Annotation
more info
 
growth factor binding IEA
Inferred from Electronic Annotation
more info
 
identical protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
interleukin-5 receptor binding ISS
Inferred from Sequence or Structural Similarity
more info
PubMed 
neurexin family protein binding IEA
Inferred from Electronic Annotation
more info
 
protein C-terminus binding IEA
Inferred from Electronic Annotation
more info
 
protein N-terminus binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein heterodimerization activity IPI
Inferred from Physical Interaction
more info
PubMed 
protein homodimerization activity IEA
Inferred from Electronic Annotation
more info
 
syndecan binding IPI
Inferred from Physical Interaction
more info
PubMed 
syndecan binding NAS
Non-traceable Author Statement
more info
PubMed 
Process Evidence Code Pubs
Ras protein signal transduction IEA
Inferred from Electronic Annotation
more info
 
actin cytoskeleton organization NAS
Non-traceable Author Statement
more info
PubMed 
ephrin receptor signaling pathway TAS
Traceable Author Statement
more info
 
intracellular signal transduction NAS
Non-traceable Author Statement
more info
PubMed 
negative regulation of proteasomal ubiquitin-dependent protein catabolic process IMP
Inferred from Mutant Phenotype
more info
PubMed 
negative regulation of receptor internalization IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of JNK cascade IC
Inferred by Curator
more info
PubMed 
positive regulation of cell growth IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of cell migration IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of cell proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of epithelial to mesenchymal transition IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of exosomal secretion IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of extracellular exosome assembly IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of pathway-restricted SMAD protein phosphorylation IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of phosphorylation IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of transforming growth factor beta receptor signaling pathway IMP
Inferred from Mutant Phenotype
more info
PubMed 
protein targeting to membrane NAS
Non-traceable Author Statement
more info
PubMed 
regulation of mitotic cell cycle IMP
Inferred from Mutant Phenotype
more info
PubMed 
substrate-dependent cell migration, cell extension NAS
Non-traceable Author Statement
more info
PubMed 
synaptic transmission NAS
Non-traceable Author Statement
more info
PubMed 
Component Evidence Code Pubs
adherens junction NAS
Non-traceable Author Statement
more info
PubMed 
blood microparticle IDA
Inferred from Direct Assay
more info
PubMed 
cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
cytoskeleton NAS
Non-traceable Author Statement
more info
PubMed 
cytosol TAS
Traceable Author Statement
more info
 
endoplasmic reticulum membrane IEA
Inferred from Electronic Annotation
more info
 
extracellular exosome IDA
Inferred from Direct Assay
more info
PubMed 
extracellular space IDA
Inferred from Direct Assay
more info
PubMed 
extracellular vesicle IDA
Inferred from Direct Assay
more info
PubMed 
focal adhesion IEA
Inferred from Electronic Annotation
more info
 
interleukin-5 receptor complex ISS
Inferred from Sequence or Structural Similarity
more info
PubMed 
melanosome IEA
Inferred from Electronic Annotation
more info
 
membrane NAS
Non-traceable Author Statement
more info
PubMed 
membrane raft IDA
Inferred from Direct Assay
more info
PubMed 
nucleus NAS
Non-traceable Author Statement
more info
PubMed 
plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 
Preferred Names
syntenin-1
Names
melanoma differentiation associated protein-9
melanoma differentiation-associated protein 9
pro-TGF-alpha cytoplasmic domain-interacting protein 18
scaffold protein Pbp1
syndecan binding protein (syntenin)
syndecan-binding protein 1

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_001007067.1NP_001007068.1  syntenin-1 isoform 1

    See identical proteins and their annotated locations for NP_001007068.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1 and 2 encode the same, longest isoform (isoform 1).
    Source sequence(s)
    AF000652, BC013254, BG111210, BG772269, BU160865, U83463
    Consensus CDS
    CCDS6172.1
    UniProtKB/Swiss-Prot
    O00560
    UniProtKB/TrEMBL
    A0A024R7Z5
    Related
    ENSP00000411771, OTTHUMP00000226414, ENST00000413219, OTTHUMT00000378195
    Conserved Domains (1) summary
    cd00992
    Location:112191
    PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
  2. NM_001007068.1NP_001007069.1  syntenin-1 isoform 2

    See identical proteins and their annotated locations for NP_001007069.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) uses an alternate in-frame splice site in the 5' coding region, compared to variant 1, resulting in the shortest isoform (isoform 2).
    Source sequence(s)
    AF000652, BC013254, BG111210, BG772269, BU160865, U83463
    Consensus CDS
    CCDS47863.1
    UniProtKB/Swiss-Prot
    O00560
    Related
    ENSP00000395351, OTTHUMP00000226415, ENST00000424270, OTTHUMT00000378196
    Conserved Domains (1) summary
    cd00992
    Location:106185
    PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
  3. NM_001007069.1NP_001007070.1  syntenin-1 isoform 3

    See identical proteins and their annotated locations for NP_001007070.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) uses an alternate in-frame splice site in the coding region, compared to variant 1, resulting in a shorter isoform (isoform 3). Variants 4 and 5 encode the same isoform.
    Source sequence(s)
    AF000652, BC013254, BG111210, BG772269, BU160865, U83463
    Consensus CDS
    CCDS47862.1
    UniProtKB/Swiss-Prot
    O00560
    Related
    ENSP00000409288, OTTHUMP00000226413, ENST00000447182, OTTHUMT00000378194
    Conserved Domains (1) summary
    cd00992
    Location:111190
    PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
  4. NM_001007070.1NP_001007071.1  syntenin-1 isoform 3

    See identical proteins and their annotated locations for NP_001007071.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) differs in the 5' UTR and uses an alternate in-frame splice site in the coding region, compared to variant 1. These differences result in a shorter isoform (isoform 3). Variants 4 and 5 encode the same isoform.
    Source sequence(s)
    AF000652, BC013254, BG111210, BG772269, BU160865, U83463
    Consensus CDS
    CCDS47862.1
    UniProtKB/Swiss-Prot
    O00560
    Conserved Domains (1) summary
    cd00992
    Location:111190
    PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
  5. NM_005625.3NP_005616.2  syntenin-1 isoform 1

    See identical proteins and their annotated locations for NP_005616.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript. Variants 1 and 2 encode the same, longest isoform (isoform 1).
    Source sequence(s)
    AF000652, BC013254, BG111210, BG772269, BU160865, U83463
    Consensus CDS
    CCDS6172.1
    UniProtKB/Swiss-Prot
    O00560
    UniProtKB/TrEMBL
    A0A024R7Z5
    Related
    ENSP00000260130, OTTHUMP00000226412, ENST00000260130, OTTHUMT00000378193
    Conserved Domains (1) summary
    cd00992
    Location:112191
    PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 107 details...

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

Reference GRCh38.p2 Primary Assembly

Genomic

  1. NC_000008.11 Reference GRCh38.p2 Primary Assembly

    Range
    58553169..58582860
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011517571.1XP_011515873.1  

    Related
    ENSP00000487245, ENST00000630925
    Conserved Domains (1) summary
    cd00992
    Location:118197
    PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...

Alternate CHM1_1.1

Genomic

  1. NC_018919.2 Alternate CHM1_1.1

    Range
    59517611..59547302
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)