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Aliases for CENPB Gene

Aliases for CENPB Gene

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

External Ids for CENPB Gene

Previous GeneCards Identifiers for CENPB Gene

  • GC20M003752
  • GC20M003759
  • GC20M003712

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 Dyskinesia Of Esophagus. 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 TIGD4.

UniProtKB/Swiss-Prot 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 , fRNAdb sequence ontologies 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 0.9 dbSUPER 650.7 -2.0 -1967 0.2 HDGF PKNOX1 ARNT NFIB YBX1 NFXL1 BMI1 ZBTB40 ZNF366 ATF7 CENPB GC20P003786 CDC25B VPS16 MAVS LINC01730
GH20J003845 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE dbSUPER 12.1 -59.9 -59928 3 HDGF ZFP64 ARID4B SIN3A DMAP1 ZBTB7B YY1 SLC30A9 POLR2B ZNF207 MAVS CDC25B AP5S1 CENPB PANK2 ENSG00000229539 HSPA12B
GH20J004081 Enhancer 1.7 FANTOM5 Ensembl ENCODE dbSUPER 10.7 -297.2 -297175 5 HDGF PKNOX1 FOXA2 MLX ARNT ZFP64 ARID4B SIN3A DMAP1 ZNF2 RPL21P2 PANK2 SMOX ENSG00000229539 CDC25B CENPB SPEF1 MAVS RNF24 ENSG00000205300
GH20J004089 Enhancer 1.5 FANTOM5 Ensembl ENCODE dbSUPER 10.7 -304.3 -304314 2.5 PKNOX1 ARID4B DNMT3B RAD21 TCF12 ZNF143 FOS EGR2 KLF11 NFYC RPL21P2 CDC25B CENPB RNF24 PANK2 ENSG00000205300 SMOX
GH20J003842 Enhancer 1.3 Ensembl ENCODE dbSUPER 12.1 -56.5 -56549 1.9 ATF1 MLX ZNF48 SLC30A9 TCF12 GLIS2 FOS ATF7 ZHX2 PPARG CDC25B AP5S1 CENPB PANK2 ENSG00000229539 MAVS
- 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

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
chr20:3,783,851-3,786,690
(GRCh38/hg38)
Size:
2,840 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 posLast=334334, posLast=276276, and Lys266
  • 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

Suggested Antigen Peptide Sequences for CENPB Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

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

No data available for 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:0005515 protein binding IEA --
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

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nuclear bodies (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:0005694 chromosome IEA,IDA 2022189
GO:0016604 nuclear body IDA --
genes like me logo Genes that share ontologies with CENPB: view

Pathways & Interactions 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) Additional mRNA sequences :
(244) Selected AceView cDNA sequences:
(1) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for CENPB Gene

Centromere protein B, 80kDa:
Representative Sequences:

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
ECgene alternative splicing isoforms for
CENPB

Expression for CENPB Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP 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

NURSA nuclear receptor signaling pathways regulating expression of CENPB Gene:

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 34
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia CENPB 34
  • 95 (a)
OneToOne
dog
(Canis familiaris)
Mammalia CENPB 33
  • 91.56 (n)
mouse
(Mus musculus)
Mammalia Cenpb 16 34 33
  • 87.09 (n)
oppossum
(Monodelphis domestica)
Mammalia CENPB 34
  • 78 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia CENPB 34
  • 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

Sequence variations from dbSNP and Humsavar for CENPB Gene

SNP ID Clin Chr 20 pos Variation AA Info Type
rs1001768567 -- 3,784,738(-) G/A coding_sequence_variant, synonymous_variant
rs1003011500 -- 3,788,577(-) T/G upstream_transcript_variant
rs1003306815 -- 3,787,528(-) T/C upstream_transcript_variant
rs1003317446 -- 3,787,320(-) C/T upstream_transcript_variant
rs1003350074 -- 3,786,913(-) C/G upstream_transcript_variant

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 for CENPB Gene

Disorders for CENPB Gene

MalaCards: The human disease database

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

Disorder Aliases PubMed IDs
crest syndrome
  • scleroderma, familial progressive
dyskinesia of esophagus
  • dyskinesia of oesophagus
connective tissue disease
  • connective tissue disorder
systemic scleroderma
  • scleroderma, familial progressive
limited scleroderma
  • crest syndrome
- 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. 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 22 58
  2. 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 22 58
  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 22 58
  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 22 58
  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 22 58

Products for CENPB Gene

Sources for CENPB Gene

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