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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

CENPB Gene

protein-coding   GIFtS: 55
GCID: GC20M003764

centromere protein B, 80kDa

(Previous name: centromere protein B (80kD) )
 Explore 22 diseases affiliated with
CENPB via our new
 Human Malady Compendium 
Biological research products
for CENPB
    

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section

Aliases
Centromere Protein B, 80kDa1 2
CENP-B2 3
Centromere Protein B (80kD)1
Centromere Autoantigen B2
Major Centromere Autoantigen B2
Centromere Protein B3

External Ids:    HGNC: 18521   Entrez Gene: 10592   Ensembl: ENSG000001258177   OMIM: 1171405   UniProtKB: P071993   

Export aliases for CENPB gene to outside databases

Previous GC identifers: GC20M003752 GC20M003759 GC20M003712


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

Entrez Gene summary for CENPB:
This gene product is a highly conserved protein that facilitates centromere formation. It is a DNA-binding protein that
is derived from transposases of the pogo DNA transposon family. It contains a helix-loop-helix DNA binding motif at
the N-terminus, and a dimerization domain at the C-terminus. The DNA binding domain recognizes and binds a 17-bp
sequence (CENP-B box) in the centromeric alpha satellite DNA. This protein is proposed to play an important role in
the assembly of specific centromere structures in interphase nuclei and on mitotic chromosomes. It is also considered
a major centromere autoantigen recognized by sera from patients with anti-centromere antibodies. (provided by RefSeq,
Jul 2008)

UniProtKB/Swiss-Prot: CENPB_HUMAN, P07199
Function: Interacts with centromeric heterochromatin in chromosomes and binds to a specific subset of alphoid satellite
DNA, called the CENP-B box. May organize arrays of centromere satellite DNA into a higher-order structure which then
directs centromere formation and kinetochore assembly in mammalian chromosomes

Gene Wiki entry for CENPB (Centromere protein B)


(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000020.10  NC_018931.1  NT_011387.8  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the CENPB gene promoter:
         GR   GR-alpha   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidCENPB promoter sequence
   Search SABiosciences Chromatin IP Primers for CENPB

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat CENPB


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 20p13   Ensembl cytogenetic band:  20p13   HGNC cytogenetic band: 20p13

CENPB Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
CENPB gene location

GeneLoc information about chromosome 20         GeneLoc Exon Structure

GeneLoc location for GC20M003764:  view genomic region     (about GC identifiers)

Start:
3,764,498 bp from pter      End:
3,767,337 bp from pter
Size:
2,840 bases      Orientation:
minus strand

(According to 1UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to 2PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE MOPED and PaxDb, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Uscn,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Mar 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, and/or Uscn)
About This Section

UniProtKB/Swiss-Prot: CENPB_HUMAN, P07199 (See protein sequence)
Recommended Name: Major centromere autoantigen B  
Size: 599 amino acids; 65171 Da
Subunit: Homodimer. Interacts with CENPT
Subcellular location: Nucleus. Chromosome, centromere
3 PDB 3D structures from and Proteopedia for CENPB:
1BW6 (3D)        1HLV (3D)        1UFI (3D)    

Explore the universe of human proteins at neXtProt for CENPB: NX_P07199

Post-translational modifications:

  • Poly-ADP-ribosylated by PARP1 (By similarity)1
  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_P07199

  • CENPB Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins: NP_001801.1  
    ENSEMBL proteins: 
     ENSP00000369075  

    Human Recombinant Protein Products: 
    Browse Purified and Recombinant Proteins at EMD Millipore
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    ProSpec Recombinant Protein for CENPB
    Uscn Proteins for CENPB

    Gene Ontology (GO): 2 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000775chromosome, centromeric region IDA11682612
    GO:0005634nucleus IEA--


    CENPB for ontologies           About GeneDecksing



    CENPB Antibody Products: 
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    Uscn ELISAs and CLIAs for CENPB


    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section

    CENPB for domains           About GeneDecksing

    5 InterPro domains/families:
     IPR006600 HTH_CenpB_DNA-bd_dom
     IPR015115 Centromere_CenpB_dimerisation
     IPR004875 DDE_SF_endonuclease_CENPB-like
     IPR009057 Homeodomain-like
     IPR007889 HTH_Psq

    Graphical View of Domain Structure for InterPro Entry P07199

    ProtoNet protein and cluster: P07199

    2 Blocks protein families:
    IPB004875 CENP-B protein
    IPB006695 CENP-B


    UniProtKB/Swiss-Prot: CENPB_HUMAN, P07199
    Similarity: Contains 1 HTH CENPB-type DNA-binding domain
    Similarity: Contains 1 HTH psq-type DNA-binding domain


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
    About This Section

    Function Summary:

         UniProtKB/Swiss-Prot: CENPB_HUMAN, P07199
    Function: Interacts with centromeric heterochromatin in chromosomes and binds to a specific subset of alphoid satellite
    DNA, called the CENP-B box. May organize arrays of centromere satellite DNA into a higher-order structure which then
    directs centromere formation and kinetochore assembly in mammalian chromosomes

         Genatlas biochemistry entry for CENPB:
    centromere protein B (80kDa),associated with most human centromeres,function unknown

    miRNA
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    8/19 QIAGEN miScript miRNA Assays for microRNAs that regulate CENPB (see all 19):
    hsa-miR-485-5p hsa-miR-875-3p hsa-miR-3194-5p hsa-miR-4251 hsa-miR-181a-2* hsa-miR-218 hsa-miR-3150a-3p hsa-miR-129-3p
    SwitchGear 3'UTR luciferase reporter plasmidCENPB 3' UTR sequence
    Inhib. RNA
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    Gene Ontology (GO): 5 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003677DNA binding ----
    GO:0003682chromatin binding NAS1893793
    GO:0003696satellite DNA binding NAS1893793
    GO:0019237centromeric DNA binding IC11682612
    GO:0043565sequence-specific DNA binding TAS11682612


    CENPB for ontologies           About GeneDecksing


    Animal Models:
         Mouse knock-outs for CENPB: Cenpbtm1Gmay Cenpbtm1Khac Cenpbtm2Khac Cenpbtm1Rpe
         5 MGI mutant phenotypes (inferred from 4 alleles(MGI details for Cenpb):
     cellular  endocrine/exocrine gland  growth/size  normal  reproductive system 

    CENPB for phenotypes           About GeneDecksing


    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene).
    About This Section

    Unified GeneCards pathways  About this table 
    See pathways by source

    Super-pathwaycontained gene-specific pathways
    1FOXM1 transcription factor network
    FOXM1 transcription factor network1.00


    1 BioSystems Pathway for CENPB 
        FOXM1 transcription factor network


    Interactions:

        SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for CENPB

    STRING Interaction Network Preview (showing 5 interactants - click image to see 11)

    5/26 Interacting proteins for CENPB (P071992, 3 ENSP000003690754) via UniProtKB, MINT, STRING, and/or I2D (see all 26)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    GFI1BQ5VTD92, 3, ENSP000003447824MINT-2857580 I2D: score=3 STRING: ENSP00000344782
    SMN1Q166372, 3MINT-8270959 I2D: score=2 
    SMN2Q166372, 3MINT-8270959 I2D: score=2 
    ANXA7P200732, 3MINT-8248109 I2D: score=2 
    CDKN1AP389362, 3MINT-8251670 I2D: score=2 
    About this table

    Gene Ontology (GO): 1 biological process term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006355regulation of transcription, DNA-dependent IEA--


    CENPB for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section

    CENPB for compounds           About GeneDecksing

    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for CENPB
    2 Novoseek chemical compound relationships for CENPB gene    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    oligonucleotide 20.8 5 2071944 (1), 9543016 (1), 8198697 (1), 1730770 (1)
    hydroxyurea 11.9 1 11129795 (1)

    Search CenterWatch for drugs/clinical trials and news about CENPB 

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 235 Homo sapiens; Mar 10 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from EMD Millipore,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for CENPB gene: 
    NM_001810.5  

    Unigene Clusters for CENPB:

    Centromere protein B, 80kDa
    Hs.516855  [show with all ESTs], Hs.713340  [show with all ESTs]
    Unigene Representative Sequences: NM_001810, CD579949
    1 Ensembl transcript including schematic representation, and UCSC links where relevant:
    ENST00000379751(uc002wjk.3)

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    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat CENPB
    8/19 QIAGEN miScript miRNA Assays for microRNAs that regulate CENPB (see all 19):
    hsa-miR-485-5p hsa-miR-875-3p hsa-miR-3194-5p hsa-miR-4251 hsa-miR-181a-2* hsa-miR-218 hsa-miR-3150a-3p hsa-miR-129-3p
    SwitchGear 3'UTR luciferase reporter plasmidCENPB 3' UTR sequence
    Inhib. RNA
    Products:
         
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    OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for CENPB (see all 4)
    OriGene shRNA RFP: CENPB
    OriGene siRNA: CENPB
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat CENPB
    Clone
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      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat CENPB
      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat CENPB

    Additional cDNA sequence: AF002714.1 

    8 DOTS entries:

    DT.413828  DT.95204579  DT.95204578  DT.97847830  DT.97847829  DT.102825597  DT.92440831  DT.95204582 

    24/244 AceView cDNA sequences (see all 244):

    AI266065 BF724609 BU146182 BU680725 BU170013 BU521375 BQ014171 BQ954415 
    BM706321 AI277571 BQ008449 BU521028 BQ224597 AW518603 BU855627 BU541735 
    BQ448237 AF002714 BU859567 BQ677772 BU741283 BM745672 AI708130 BU159487 

    GeneLoc Exon Structure


    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    CENPB expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: CCTCTCCTCC

    Microarray
    RNAseq (Illumina Body Map)
    (100×FPKM)½
    SAGE (Serial Analysis of Gene Expression)

    About this image
    See CENPB Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for CENPB

    SOURCE GeneReport for Unigene clusters: Hs.516855 Hs.713340
        SABiosciences Custom PCR Arrays for CENPB
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CENPB

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
    About This Section
      --

    ENSEMBL Gene Tree for CENPB (if available)
    TreeFam Gene Tree for CENPB (if available) 

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for CENPB gene
    TIGD22  TIGD12  TIGD62  TIGD42  TIGD72  JRKL2  TIGD52  TIGD32  
    1 SIMAP similar gene for CENPB using alignment to 1 protein entry:     CENPB_HUMAN:
    TIGD6

    CENPB for paralogs           About GeneDecksing



    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section

    10/83 NCBI SNPs in CENPB are shown (see all 83    About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 20 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1402818371,2
    --3764153(+) CAAAGA/GTAAAC 1 -- ds50010--------
    rs454437921,2
    C,--3764246(+) CCACTC/TCTGCA 1 -- ds50012Minor allele frequency- T:0.04NA 122
    rs1911372771,2
    --3764289(+) CCCCAC/TGTGCA 1 -- ds50010--------
    rs776188581,2
    F,--3764467(+) AGACAG/CACGCA 1 -- ds50011Minor allele frequency- C:0.03WA 118
    rs1840262141,2
    --3764540(+) GGACAA/GATTTA 1 -- ut310--------
    rs1142622061,2
    C,F,--3764592(+) CTGGGC/ACCAGC 1 -- ut311Minor allele frequency- A:0.02WA 118
    rs1503621441,2
    --3764650(+) GGCATA/GGGGCC 1 -- ut310--------
    rs61160381,2
    C,H--3764655(+) GGGGCC/TTGCAG 1 -- ut31 ese34Minor allele frequency- T:0.00NS EA 418
    rs10513681,2
    C,F,--3764761(-) TCTGGC/TCCTGT 1 -- ut312Minor allele frequency- T:0.02MN NA 304
    rs10513491,2
    C,--3764812(-) GCGGGC/TTCCTG 1 -- ut314Minor allele frequency- T:0.05MN NA 308

    HapMap Linkage Disequilibrium report for CENPB (3764498 - 3767337 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
          Database of Genomic Variants (DGV) variations for CENPB: --

    SABiosciences Cancer Mutation PCR Assays
    QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing CENPB
    DNA2.0 Custom Variant and Variant Library Synthesis for CENPB

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section

    CENPB for disorders           About GeneDecksing

    OMIM gene information: 117140    OMIM disorders: --

    20/22 diseases for CENPB (see all 22):    About MalaCards
    connective tissue disease    mixed connective tissue disease    limited scleroderma    crest syndrome
    non-hodgkin lymphoma    primary biliary cirrhosis    lupus erythematosus    calcinosis
    systemic lupus erythematosus    telangiectasis    raynaud disease    sjogren's syndrome
    hodgkin's lymphoma    scleroderma    rheumatoid arthritis    systemic scleroderma
    arthritis    colorectal cancer    lung cancer    breast cancer

    4 diseases from the University of Copenhagen DISEASES database for CENPB:
    Systemic scleroderma     Raynaud disease     Telangiectasis     Calcinosis

    10/20 Novoseek disease relationships for CENPB gene (see all 20)    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    sclerodactyly 79.1 1 8129780 (1)
    crest syndrome 75.4 2 8198697 (1)
    raynauds phenomenon 67.9 1 8129780 (1)
    sclerosis systemic 66.2 7 8187334 (1), 19714638 (1), 10648030 (1), 16014550 (1) (see all 6)
    calcinosis 63.4 1 8129780 (1)
    telangiectasia 56.7 1 8129780 (1)
    raynauds syndrome 52.6 1 8129780 (1)
    connective tissue diseases 51.9 1 8129780 (1)
    esophageal motility disorders 51.6 1 8129780 (1)
    biliary cirrhosis primary 44.7 1 8527711 (1)


    Export disorders for CENPB gene to outside databases

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
    About This Section

    PubMed articles for CENPB gene, integrated from 9 sources (see all 157):
    (articles sorted by number of sources associating them with CENPB)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. A human centromere protein, CENP-B, has a DNA binding domain containing four potential alpha helices at the NH2 terminus, which is separable from dimerizing activity. (PubMed id 1469042)1, 2, 9 Yoda K.... Okazaki T. (1992)
    2. CENP-B is a highly conserved mammalian centromere protein with homology to the helix-loop-helix family of proteins. (PubMed id 1893793)1, 2, 9 Sullivan K.F. and Glass C.A. (1991)
    3. A helix-turn-helix structure unit in human centromere protein B (CENP-B). (PubMed id 9451007)1, 2, 9 Iwahara J....Yokoyama S. (1998)
    4. CENP-A, -B, and -C chromatin complex that contains th e I-type alpha-satellite array constitutes the prekinetochore in HeLa cells. (PubMed id 11884609)1, 3, 9 Ando S....Yoda K. (2002)
    5. Assembly of the inner kinetochore proteins CENP-A and CENP-B in living human cells. (PubMed id 18072184)1, 2, 9 Orthaus S....Diekmann S. (2008)
    6. Live-cell imaging reveals sustained centromere binding of CENP-T via CENP-A and CENP-B. (PubMed id 19412974)1, 2, 9 Hellwig D....Diekmann S. (2008)
    7. Mapping of the human CENP-B gene to chromosome 20 and the CENP-C gene to chromosome 12 by a rapid cycle DNA amplification procedure. (PubMed id 8406460)1, 3, 9 Sugimoto K....Himeno M. (1993)
    8. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
    9. The DNA sequence and comparative analysis of human chromosome 20. (PubMed id 11780052)1, 2 Deloukas P....Rogers J. (2001)
    10. Molecular cloning of cDNA for CENP-B, the major human centromere autoantigen. (PubMed id 2435739)1, 2 Earnshaw W.C.... Cleveland D.W. (1987)

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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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    Entrez Gene: 1059 HGNC: 1852 AceView: CENPB Ensembl:ENSG00000125817 euGenes: HUgn1059
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