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S100PBP S100P binding protein [ Homo sapiens (human) ]

Gene ID: 64766, updated on 3-Apr-2024

Summary

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Official Symbol
S100PBPprovided by HGNC
Official Full Name
S100P binding proteinprovided by HGNC
Primary source
HGNC:HGNC:25768
See related
Ensembl:ENSG00000116497 MIM:611889; AllianceGenome:HGNC:25768
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
S100PBPR
Summary
This gene encodes a protein that was originally identified by its interaction with S100 calcium-binding protein P. Expression of this protein has been reported to be associated with pancreatic ductal adenocarcinoma. Alternatively spliced transcript variants have been described. [provided by RefSeq, Jan 2012]
Expression
Broad expression in testis (RPKM 19.6), lymph node (RPKM 6.5) and 24 other tissues See more
Orthologs
mouse all
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Genomic context

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Location:
1p35.1
Exon count:
16
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (32816562..32858879)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (32673499..32718671)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (33283043..33324480)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene RB binding protein 4, chromatin remodeling factor Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:33154443-33154943 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:33160284-33161022 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:33167839-33168604 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:33168605-33169370 Neighboring gene syncoilin, intermediate filament protein Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 607 Neighboring gene Sharpr-MPRA regulatory region 2185 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:33183271-33184026 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:33189892-33190720 Neighboring gene Sharpr-MPRA regulatory region 8469 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:33200787-33201312 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:33201837-33202361 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:33202362-33202885 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 608 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:33219766-33220279 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:33225004-33225886 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:33225887-33226770 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:33227405-33227625 Neighboring gene NHS like 3 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:33231243-33232135 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:33232136-33233029 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:33235076-33235991 Neighboring gene Sharpr-MPRA regulatory region 15696 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_6796 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr1:33251929-33253128 Neighboring gene tyrosyl-tRNA synthetase 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 697 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:33269619-33270293 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:33270294-33270967 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:33275934-33276570 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:33276571-33277206 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:33282071-33282572 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:33282573-33283072 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_6822 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 699 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 700 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 701 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_6850 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_6868 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:33333351-33333852 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:33338281-33339137 Neighboring gene uncharacterized LOC105378631 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_6918 Neighboring gene fibronectin type III domain containing 5

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. S100P-binding protein, S100PBP, mediates adhesion through regulation of cathepsin Z in pancreatic cancer cells. Lines KE, et al. Am J Pathol, 2012 Apr. PMID 22330678
  2. Usefulness of S100P in diagnosis of adenocarcinoma of pancreas on fine-needle aspiration biopsy specimens. Deng H, et al. Am J Clin Pathol, 2008 Jan. PMID 18089492
  3. Novel functions and targets of miR-944 in human cervical cancer cells. Xie H, et al. Int J Cancer, 2015 Mar 1. PMID 25156441, Free PMC Article
  4. Expression of S100P and its novel binding partner S100PBPR in early pancreatic cancer. Dowen SE, et al. Am J Pathol, 2005 Jan. PMID 15632002, Free PMC Article
  5. Proximity-dependent biotin identification (BioID) reveals a dynamic LSD1-CoREST interactome during embryonic stem cell differentiation. Barnes CE, et al. Mol Omics, 2022 Jan 17. PMID 34709266, Free PMC Article

See all (16) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. S100PBP is regulated by mutated KRAS and plays a tumour suppressor role in pancreatic cancer.
    Title: S100PBP is regulated by mutated KRAS and plays a tumour suppressor role in pancreatic cancer.
  2. Low S100PBP expression is associated with cervical cancer.
    Title: Novel functions and targets of miR-944 in human cervical cancer cells.
  3. S100P-binding protein mediates adhesion through regulation of cathepsin Z in pancreatic cancer cells.
    Title: S100P-binding protein, S100PBP, mediates adhesion through regulation of cathepsin Z in pancreatic cancer cells.
  4. S100P is a sensitive and specific marker for the detection of pancreatic ductal adenocarcinoma on FNAB specimens on cell-block and smear preparations.
    Title: Usefulness of S100P in diagnosis of adenocarcinoma of pancreas on fine-needle aspiration biopsy specimens.
  5. can be added to the genetic progression model for pancreatic ductal adenocarcinoma.
    Title: Expression of S100P and its novel binding partner S100PBPR in early pancreatic cancer.
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

Clone Names

  • FLJ12903, DKFZp313K2325

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables calcium-dependent protein binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables calcium-dependent protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Component Evidence Code Pubs
is_active_in cytosol IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytosol IDA
Inferred from Direct Assay
more info
  
located_in nuclear speck IDA
Inferred from Direct Assay
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
S100P-binding protein
Names
S100P 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.

Genomic

  1. NG_031988.1 RefSeqGene

    Range
    5212..46434
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001256121.2 → NP_001243050.1  S100P-binding protein

    See identical proteins and their annotated locations for NP_001243050.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR compared to variant 1. Variants 1 and 3 both encode the same protein.
    Source sequence(s)
    AK022965, AK090711, BX647916
    Consensus CDS
    CCDS30666.1
    UniProtKB/Swiss-Prot
    B3KR04, D3DPQ5, Q5HYH3, Q96BU1, Q9H997
    UniProtKB/TrEMBL
    A0A0S2Z5M0, A0A0S2Z5S2
    Related
    ENSP00000362575.1, ENST00000373476.5
    Conserved Domains (1) summary
    pfam15427
    Location:22 → 402
    S100PBPR; S100P-binding protein

  2. NM_022753.4 → NP_073590.2  S100P-binding protein

    See identical proteins and their annotated locations for NP_073590.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript. Variants 1 and 3 both encode the same protein.
    Source sequence(s)
    AK022965, BX647916
    Consensus CDS
    CCDS30666.1
    UniProtKB/Swiss-Prot
    B3KR04, D3DPQ5, Q5HYH3, Q96BU1, Q9H997
    UniProtKB/TrEMBL
    A0A0S2Z5M0, A0A0S2Z5S2
    Related
    ENSP00000362574.5, ENST00000373475.10
    Conserved Domains (1) summary
    pfam15427
    Location:22 → 402
    S100PBPR; S100P-binding protein

RNA

  1. NR_135106.1 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) uses an alternate splice junction and contains two alternate exons compared to variant 1. The exon combination at the 5' UTR has not been determined. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AA557330, AC114493, AK090711, BX647916, KU178751

  2. NR_135107.1 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) contains an alternate exon compared to variant 1. The exon combination at the 5' UTR has not been determined. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AA557330, AC114493, AK022965, AK090711, BX647916

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_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    32816562..32858879
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011541962.3 → XP_011540264.1  S100P-binding protein isoform X1

    See identical proteins and their annotated locations for XP_011540264.1

    UniProtKB/Swiss-Prot
    B3KR04, D3DPQ5, Q5HYH3, Q96BU1, Q9H997
    UniProtKB/TrEMBL
    A0A0S2Z5M0, A0A0S2Z5S2
    Conserved Domains (1) summary
    pfam15427
    Location:22 → 402
    S100PBPR; S100P-binding protein

  2. XM_047428036.1 → XP_047283992.1  S100P-binding protein isoform X2

  3. XM_047428029.1 → XP_047283985.1  S100P-binding protein isoform X1

    UniProtKB/Swiss-Prot
    B3KR04, D3DPQ5, Q5HYH3, Q96BU1, Q9H997
    UniProtKB/TrEMBL
    A0A0S2Z5M0

  4. XM_011541961.3 → XP_011540263.1  S100P-binding protein isoform X1

    See identical proteins and their annotated locations for XP_011540263.1

    UniProtKB/Swiss-Prot
    B3KR04, D3DPQ5, Q5HYH3, Q96BU1, Q9H997
    UniProtKB/TrEMBL
    A0A0S2Z5M0, A0A0S2Z5S2
    Conserved Domains (1) summary
    pfam15427
    Location:22 → 402
    S100PBPR; S100P-binding protein

  5. XM_047428035.1 → XP_047283991.1  S100P-binding protein isoform X2

  6. XM_047428024.1 → XP_047283980.1  S100P-binding protein isoform X1

    UniProtKB/Swiss-Prot
    B3KR04, D3DPQ5, Q5HYH3, Q96BU1, Q9H997
    UniProtKB/TrEMBL
    A0A0S2Z5M0

  7. XM_017002098.3 → XP_016857587.1  S100P-binding protein isoform X2

    UniProtKB/TrEMBL
    A0A0S2Z5S2

  8. XM_011541963.3 → XP_011540265.1  S100P-binding protein isoform X4

    See identical proteins and their annotated locations for XP_011540265.1

    UniProtKB/TrEMBL
    A0A0S2Z5S2
    Conserved Domains (1) summary
    pfam15427
    Location:22 → 341
    S100PBPR; S100P-binding protein

  9. XM_047428038.1 → XP_047283994.1  S100P-binding protein isoform X5

  10. XM_047428037.1 → XP_047283993.1  S100P-binding protein isoform X3

  11. XM_047428039.1 → XP_047283995.1  S100P-binding protein isoform X6

  12. XM_047428023.1 → XP_047283979.1  S100P-binding protein isoform X1

    UniProtKB/Swiss-Prot
    B3KR04, D3DPQ5, Q5HYH3, Q96BU1, Q9H997
    UniProtKB/TrEMBL
    A0A0S2Z5M0

  13. XM_047428040.1 → XP_047283996.1  S100P-binding protein isoform X2

  14. XM_024449177.2 → XP_024304945.1  S100P-binding protein isoform X1

    UniProtKB/Swiss-Prot
    B3KR04, D3DPQ5, Q5HYH3, Q96BU1, Q9H997
    UniProtKB/TrEMBL
    A0A0S2Z5M0, A0A0S2Z5S2
    Conserved Domains (1) summary
    pfam15427
    Location:22 → 402
    S100PBPR; S100P-binding protein

  15. XM_024449176.2 → XP_024304944.1  S100P-binding protein isoform X1

    UniProtKB/Swiss-Prot
    B3KR04, D3DPQ5, Q5HYH3, Q96BU1, Q9H997
    UniProtKB/TrEMBL
    A0A0S2Z5M0, A0A0S2Z5S2
    Conserved Domains (1) summary
    pfam15427
    Location:22 → 402
    S100PBPR; S100P-binding protein

  16. XM_047428041.1 → XP_047283997.1  S100P-binding protein isoform X2

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    32673499..32718671
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054338285.1 → XP_054194260.1  S100P-binding protein isoform X1

    UniProtKB/Swiss-Prot
    B3KR04, D3DPQ5, Q5HYH3, Q96BU1, Q9H997
    UniProtKB/TrEMBL
    A0A0S2Z5M0

  2. XM_054338290.1 → XP_054194265.1  S100P-binding protein isoform X2

  3. XM_054338284.1 → XP_054194259.1  S100P-binding protein isoform X1

    UniProtKB/Swiss-Prot
    B3KR04, D3DPQ5, Q5HYH3, Q96BU1, Q9H997
    UniProtKB/TrEMBL
    A0A0S2Z5M0

  4. XM_054338288.1 → XP_054194263.1  S100P-binding protein isoform X1

    UniProtKB/Swiss-Prot
    B3KR04, D3DPQ5, Q5HYH3, Q96BU1, Q9H997
    UniProtKB/TrEMBL
    A0A0S2Z5M0

  5. XM_054338289.1 → XP_054194264.1  S100P-binding protein isoform X2

  6. XM_054338293.1 → XP_054194268.1  S100P-binding protein isoform X4

  7. XM_054338294.1 → XP_054194269.1  S100P-binding protein isoform X5

  8. XM_054338292.1 → XP_054194267.1  S100P-binding protein isoform X3

  9. XM_054338295.1 → XP_054194270.1  S100P-binding protein isoform X6

  10. XM_054338291.1 → XP_054194266.1  S100P-binding protein isoform X2

  11. XM_054338287.1 → XP_054194262.1  S100P-binding protein isoform X1

    UniProtKB/Swiss-Prot
    B3KR04, D3DPQ5, Q5HYH3, Q96BU1, Q9H997
    UniProtKB/TrEMBL
    A0A0S2Z5M0

  12. XM_054338297.1 → XP_054194272.1  S100P-binding protein isoform X2

  13. XM_054338286.1 → XP_054194261.1  S100P-binding protein isoform X1

    UniProtKB/Swiss-Prot
    B3KR04, D3DPQ5, Q5HYH3, Q96BU1, Q9H997
    UniProtKB/TrEMBL
    A0A0S2Z5M0

  14. XM_054338296.1 → XP_054194271.1  S100P-binding protein isoform X1

    UniProtKB/Swiss-Prot
    B3KR04, D3DPQ5, Q5HYH3, Q96BU1, Q9H997
    UniProtKB/TrEMBL
    A0A0S2Z5M0

  15. XM_054338298.1 → XP_054194273.1  S100P-binding protein isoform X2

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001017406.1: Suppressed sequence

    Description
    NM_001017406.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q96BU1.1 GenPept UniProtKB/Swiss-Prot:Q96BU1

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