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 ce... See more...

Aliases for CENPB Gene

Aliases for CENPB Gene

  • Centromere Protein B 2 3 4 5
  • Major Centromere Autoantigen B 3 4
  • Centromere Protein B, 80kDa 2 3
  • CENP-B 3 4
  • Centromere Protein B (80kD) 2
  • Centromere Autoantigen B 3

External Ids for CENPB Gene

Previous GeneCards Identifiers for CENPB Gene

  • GC20M003752
  • GC20M003759
  • GC20M003712
  • GC20M003764

Summaries for CENPB Gene

Entrez Gene Summary for CENPB Gene

  • 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]

GeneCards Summary for CENPB Gene

CENPB (Centromere Protein B) is a Protein Coding gene. Diseases associated with CENPB include Crest Syndrome and Raynaud Disease. Among its related pathways are FOXM1 transcription factor network. Gene Ontology (GO) annotations related to this gene include nucleic acid binding and chromatin binding. An important paralog of this gene is TIGD3.

UniProtKB/Swiss-Prot Summary for CENPB Gene

  • Interacts with centromeric heterochromatin in chromosomes and binds to a specific 17 bp subset of alphoid satellite DNA, called the CENP-B box (PubMed:11726497). May organize arrays of centromere satellite DNA into a higher-order structure which then directs centromere formation and kinetochore assembly in mammalian chromosomes (Probable).

Gene Wiki entry for CENPB Gene

Additional gene information for CENPB Gene

No data available for CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for CENPB Gene

Genomics for CENPB Gene

GeneHancer (GH) Regulatory Elements for CENPB Gene

Promoters and enhancers for CENPB Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH20J003788 Enhancer 0.8 dbSUPER 500.7 -1.9 -1917 0.2 FOXK2 ZNF300 NONO ZNF639 FOXA1 SP1 U2AF2 GATAD2B CTBP1 MIER1 CDC25B CENPB NONHSAG031162.2 piR-48209-388
GH20J003845 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 12.1 -60.0 -60014 3.3 SIN3A NRF1 POLR2G SP1 PHF8 ZFX ZNF639 ZIC2 POLR2A KDM6A MAVS CDC25B AP5S1 CENPB PANK2 ENSG00000229539 HSPA12B lnc-CENPB-2
GH20J004081 Promoter/Enhancer 1.9 FANTOM5 ENCODE CraniofacialAtlas dbSUPER 10.7 -297.1 -297125 5 ZNF217 CTCF SIN3A NRF1 TCF12 MYC USF1 JUND TEAD4 FOS HSALNG0128298 RPL21P2 PANK2 SMOX ENSG00000229539 CDC25B CENPB SPEF1 RNF24 HSALNG0128299
GH20J003739 Enhancer 1.2 FANTOM5 Ensembl ENCODE 10.8 +47.4 47439 3.4 USF1 ZIC2 ZBTB10 TCF7 TGIF2 ZBTB26 RAD51 SRSF1 FOXA2 CEBPB C20orf27 SIGLEC1 CDC25B CENPB SPEF1 ENSG00000229539 PANK2 HSPA12B lnc-HSPA12B-1
GH20J004089 Enhancer 1.2 FANTOM5 ENCODE dbSUPER 10.7 -304.3 -304285 2.5 CTCF FOS GABPA REST ZBTB7A TRIM22 TEAD1 SMC3 MYNN RAD21 HSALNG0128299 RPL21P2 CDC25B CENPB RNF24 PANK2 HSALNG0128298
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around CENPB on UCSC Golden Path with GeneCards custom track

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for CENPB

Top Transcription factor binding sites by QIAGEN in the CENPB gene promoter:
  • GR
  • GR-alpha

Genomic Locations for CENPB Gene

Genomic Locations for CENPB Gene
chr20:3,783,851-3,786,740
(GRCh38/hg38)
Size:
2,890 bases
Orientation:
Minus strand
chr20:3,764,498-3,767,337
(GRCh37/hg19)
Size:
2,840 bases
Orientation:
Minus strand

Genomic View for CENPB Gene

Genes around CENPB on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CENPB Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CENPB Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CENPB Gene

Proteins for CENPB Gene

  • Protein details for CENPB Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P07199-CENPB_HUMAN
    Recommended name:
    Major centromere autoantigen B
    Protein Accession:
    P07199
    Secondary Accessions:
    • Q96EI4

    Protein attributes for CENPB Gene

    Size:
    599 amino acids
    Molecular mass:
    65171 Da
    Quaternary structure:
    • Antiparallel homodimer (PubMed:1469042, PubMed:14522975). Interacts with CENPT (PubMed:19412974). Identified in a centromere complex containing histones H2A, H2B and H4, and at least CENPA, CENPB, CENPC, CENPT, CENPN, HJURP, SUPT16H, SSRP1 and RSF1 (PubMed:27499292).

    Three dimensional structures from OCA and Proteopedia for CENPB Gene

neXtProt entry for CENPB Gene

Post-translational modifications for CENPB Gene

  • Poly-ADP-ribosylated by PARP1.
  • N-terminally methylated by METTL11A/NTM1. Alpha-N-methylation is stimulated in response to extracellular stimuli, including increased cell density and heat shock, and seems to facilitate binding to CENP-B boxes. Chromatin-bound CENP-B is primarily trimethylated.
  • Ubiquitination at Lys266, Lys276, and Lys334
  • Modification sites at PhosphoSitePlus

Other Protein References for CENPB Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for CENPB Gene

Domains & Families for CENPB Gene

Gene Families for CENPB Gene

Protein Domains for CENPB Gene

Blocks:
  • CENP-B protein
  • CENP-B, N-terminal DNA-binding
InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for CENPB Gene

GenScript: Design optimal peptide antigens:
  • Centromere protein B (CENPB_HUMAN)
genes like me logo Genes that share domains with CENPB: view

No data available for Graphical View of Domain Structure and UniProtKB/Swiss-Prot for CENPB Gene

Function for CENPB Gene

Molecular function for CENPB Gene

UniProtKB/Swiss-Prot Function:
Interacts with centromeric heterochromatin in chromosomes and binds to a specific 17 bp subset of alphoid satellite DNA, called the CENP-B box (PubMed:11726497). May organize arrays of centromere satellite DNA into a higher-order structure which then directs centromere formation and kinetochore assembly in mammalian chromosomes (Probable).
GENATLAS Biochemistry:
centromere protein B (80kDa),associated with most human centromeres,function unknown

Phenotypes From GWAS Catalog for CENPB Gene

Gene Ontology (GO) - Molecular Function for CENPB Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003676 nucleic acid binding IEA --
GO:0003677 DNA binding IEA --
GO:0003682 chromatin binding NAS 1893793
GO:0003696 satellite DNA binding NAS 1893793
GO:0019237 centromeric DNA binding IC 11682612
genes like me logo Genes that share ontologies with CENPB: view
genes like me logo Genes that share phenotypes with CENPB: view

Animal Models for CENPB Gene

MGI Knock Outs for CENPB:

Animal Model Products

CRISPR Products

miRNA for CENPB Gene

miRTarBase miRNAs that target CENPB

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for CENPB

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for CENPB Gene

Localization for CENPB Gene

Subcellular locations from UniProtKB/Swiss-Prot for CENPB Gene

Nucleus. Chromosome, centromere.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for CENPB gene
Compartment Confidence
nucleus 5
cytoskeleton 3
plasma membrane 1
extracellular 1
mitochondrion 1
cytosol 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nuclear bodies (4)
  • Nucleoplasm (4)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for CENPB Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000775 chromosome, centromeric region IDA 2022189
GO:0000780 condensed nuclear chromosome, centromeric region IEA --
GO:0005634 nucleus IEA --
GO:0005654 nucleoplasm IDA --
GO:0005694 chromosome IEA,IDA 2022189
genes like me logo Genes that share ontologies with CENPB: view

Pathways & Interactions for CENPB Gene

PathCards logo

SuperPathways for CENPB Gene

genes like me logo Genes that share pathways with CENPB: view

Pathways by source for CENPB Gene

1 BioSystems pathway for CENPB Gene

Gene Ontology (GO) - Biological Process for CENPB Gene

None

No data available for SIGNOR curated interactions for CENPB Gene

Drugs & Compounds for CENPB Gene

(1) Drugs for CENPB Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials

(1) Additional Compounds for CENPB Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with CENPB: view

Transcripts for CENPB Gene

mRNA/cDNA for CENPB Gene

1 REFSEQ mRNAs :
8 NCBI additional mRNA sequence :
1 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for CENPB

Alternative Splicing Database (ASD) splice patterns (SP) for CENPB Gene

No ASD Table

Relevant External Links for CENPB Gene

GeneLoc Exon Structure for
CENPB

Expression for CENPB Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for CENPB Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for CENPB Gene

This gene is overexpressed in Lung (18.6), Adipocyte (14.6), and Peripheral blood mononuclear cells (6.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for CENPB Gene



Protein tissue co-expression partners for CENPB Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for CENPB

SOURCE GeneReport for Unigene cluster for CENPB Gene:

Hs.516855

Evidence on tissue expression from TISSUES for CENPB Gene

  • Liver(4.2)
  • Lung(4)
  • Nervous system(3.5)
  • Skin(3.3)
  • Eye(3)
  • Pancreas(2.5)
  • Intestine(2.2)
genes like me logo Genes that share expression patterns with CENPB: view

No data available for mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for CENPB Gene

Orthologs for CENPB Gene

This gene was present in the common ancestor of mammals.

Orthologs for CENPB Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia CENPB 31
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia CENPB 31
  • 95 (a)
OneToOne
dog
(Canis familiaris)
Mammalia CENPB 30
  • 91.56 (n)
mouse
(Mus musculus)
Mammalia Cenpb 17 31 30
  • 87.09 (n)
oppossum
(Monodelphis domestica)
Mammalia CENPB 31
  • 78 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia CENPB 31
  • 73 (a)
OneToOne
Species where no ortholog for CENPB was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for CENPB Gene

ENSEMBL:
Gene Tree for CENPB (if available)
TreeFam:
Gene Tree for CENPB (if available)
Aminode:
Evolutionary constrained regions (ECRs) for CENPB: view image

Paralogs for CENPB Gene

Paralogs for CENPB Gene

(1) SIMAP similar genes for CENPB Gene using alignment to 1 proteins:

  • CENPB_HUMAN
genes like me logo Genes that share paralogs with CENPB: view

Variants for CENPB Gene

Additional dbSNP identifiers (rs#s) for CENPB Gene

Structural Variations from Database of Genomic Variants (DGV) for CENPB Gene

Variant ID Type Subtype PubMed ID
nsv1071676 CNV deletion 25765185
nsv585285 CNV loss 21841781
nsv585286 CNV loss 21841781
nsv828673 CNV gain 20364138
nsv833899 CNV loss 17160897

Variation tolerance for CENPB Gene

Residual Variation Intolerance Score: 12.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.10; 51.03% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for CENPB Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
CENPB

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for CENPB Gene

Disorders for CENPB Gene

MalaCards: The human disease database

(18) MalaCards diseases for CENPB Gene - From: DISEASES, Novoseek, and GeneCards

Disorder Aliases PubMed IDs
crest syndrome
  • scleroderma, familial progressive
raynaud disease
  • cold fingers, hereditary
dyskinesia of esophagus
  • dyskinesia of oesophagus
connective tissue disease
  • connective tissue disorder
telangiectasis
  • telangiectasia
- elite association - COSMIC cancer census association via MalaCards
Search CENPB in MalaCards View complete list of genes associated with diseases

Additional Disease Information for CENPB

genes like me logo Genes that share disorders with CENPB: view

No data available for UniProtKB/Swiss-Prot and Genatlas for CENPB Gene

Publications for CENPB Gene

  1. Live-cell imaging reveals sustained centromere binding of CENP-T via CENP-A and CENP-B. (PMID: 19412974) Hellwig D … Diekmann S (Journal of biophotonics 2008) 3 4 23 54
  2. Assembly of the inner kinetochore proteins CENP-A and CENP-B in living human cells. (PMID: 18072184) Orthaus S … Diekmann S (Chembiochem : a European journal of chemical biology 2008) 3 4 23 54
  3. Crystal structure of the human centromere protein B (CENP-B) dimerization domain at 1.65-A resolution. (PMID: 14522975) Tawaramoto MS … Yokoyama S (The Journal of biological chemistry 2003) 3 4 23 54
  4. CENP-A, -B, and -C chromatin complex that contains the I-type alpha-satellite array constitutes the prekinetochore in HeLa cells. (PMID: 11884609) Ando S … Yoda K (Molecular and cellular biology 2002) 2 3 23 54
  5. A helix-turn-helix structure unit in human centromere protein B (CENP-B). (PMID: 9451007) Iwahara J … Yokoyama S (The EMBO journal 1998) 3 4 23 54

Products for CENPB Gene

Sources for CENPB Gene