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

HIST2H2BD Gene

pseudogene   GIFtS: 17
GCID: GC01P149814

Histone Cluster 2, H2bd (Pseudogene)

(Previous names: histone 2, H2bd, H2B histone family, member O)
(Previous symbol: H2BFO)
  Search for HIST2H2BD
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
About This Section

Aliases
Histone Cluster 2, H2bd (Pseudogene)1 2
H2BFO1 2
H2B Histone Family, Member O1
Histone 2, H2bd1
H2B/o2
H2B/s2

External Ids:    HGNC: 205171   Entrez Gene: 3378742   Ensembl: ENSG000002203237   UniProtKB: Q6DRA63   

Export aliases for HIST2H2BD gene to outside databases

Previous GC identifers: GC01U900037 GC01P148081 GC01M121204


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

GeneCards Summary for HIST2H2BD Gene: 
HIST2H2BD (histone cluster 2, H2bd (pseudogene)) is a pseudogene. GO annotations related to this gene include DNA binding and protein heterodimerization activity.

UniProtKB/Swiss-Prot: H2B2D_HUMAN, Q6DRA6
Function: Core component of nucleosome. Nucleosomes wrap and compact DNA into chromatin, limiting DNA
accessibility to the cellular machineries which require DNA as a template. Histones thereby play a central role
in transcription regulation, DNA repair, DNA replication and chromosomal stability. DNA accessibility is
regulated via a complex set of post-translational modifications of histones, also called histone code, and
nucleosome remodeling




(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 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
Regulatory elements:
   Search SABiosciences Regulatory transcription factor binding sites for HIST2H2BD
         Other transcription factors

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   Search SABiosciences Chromatin IP Primers for HIST2H2BD

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat HIST2H2BD


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

Entrez Gene cytogenetic band: 1q21.2   Ensembl cytogenetic band:  1q21.2   HGNC cytogenetic band: 1q21.2

HIST2H2BD Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
HIST2H2BD gene location

GeneLoc information about chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01P149814:  view genomic region     (about GC identifiers)

Start:
149,814,587 bp from pter      End:
149,815,100 bp from pter
Size:
514 bases      Orientation:
plus strand

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB 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 Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

UniProtKB/Swiss-Prot: H2B2D_HUMAN, Q6DRA6 (See protein sequence)
Recommended Name: Putative histone H2B type 2-D  
Size: 164 amino acids; 18018 Da
Subunit: The nucleosome is a histone octamer containing two molecules each of H2A, H2B, H3 and H4 assembled in one
H3-H4 heterotetramer and two H2A-H2B heterodimers. The octamer wraps approximately 147 bp of DNA
Subcellular location: Nucleus. Chromosome
Miscellaneous: The mouse orthologous protein seems not to exist
Caution: Could be the product of a pseudogene. In contrast to other H2B histones, it does not contain the
conserved residue in C-terminus that is the target of monoubiquitination

Explore the universe of human proteins at neXtProt for HIST2H2BD: NX_Q6DRA6

Post-translational modifications:

  • UniProtKB: Phosphorylation at Ser-37 (H2BS36ph) by AMPK in response to stress promotes transcription (By similarity).
    Phosphorylated on Ser-15 (H2BS14ph) by STK4/MST1 during apoptosis; which facilitates apoptotic chromatin
    condensation. Also phosphorylated on Ser-15 in response to DNA double strand breaks (DSBs), and in correlation
    with somatic hypermutation and immunoglobulin class-switch recombination
  • UniProtKB: Crotonylation (Kcr) is specifically present in male germ cells and marks testis-specific genes in post-meiotic
    cells, including X-linked genes that escape sex chromosome inactivation in haploid cells. Crotonylation marks
    active promoters and enhancers and confers resistance to transcriptional repressors. It is also associated with
    post-meiotically activated genes on autosomes
  • View neXtProt modification sites for NX_Q6DRA6

  • HIST2H2BD Protein expression data from MOPED1, PaxDb2 and MAXQB3 : --

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000786nucleosome IEA--
    GO:0005634nucleus IEA--

    HIST2H2BD for ontologies           About GeneDecksing



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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    HGNC Gene Families: 
    HIST: Histones / Replication-dependent

    3 InterPro protein domains:
     IPR009072 Histone-fold
     IPR000558 Histone_H2B
     IPR007125 Histone_core_D

    Graphical View of Domain Structure for InterPro Entry Q6DRA6

    ProtoNet protein and cluster: Q6DRA6

    UniProtKB/Swiss-Prot: H2B2D_HUMAN, Q6DRA6
    Similarity: Belongs to the histone H2B family


    HIST2H2BD for domains           About GeneDecksing


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    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, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
    About This Section

    Molecular Function:

         UniProtKB/Swiss-Prot Summary: H2B2D_HUMAN, Q6DRA6
    Function: Core component of nucleosome. Nucleosomes wrap and compact DNA into chromatin, limiting DNA
    accessibility to the cellular machineries which require DNA as a template. Histones thereby play a central role
    in transcription regulation, DNA repair, DNA replication and chromosomal stability. DNA accessibility is
    regulated via a complex set of post-translational modifications of histones, also called histone code, and
    nucleosome remodeling

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003677DNA binding IEA--
    GO:0046982protein heterodimerization activity IEA--
         
    HIST2H2BD for ontologies           About GeneDecksing


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    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, 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 Oct 2013 via Entrez Gene).
    About This Section



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for HIST2H2BD

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006334nucleosome assembly IEA--

    HIST2H2BD for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section
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    Search CenterWatch for drugs/clinical trials and news about HIST2H2BD

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from EMD Millipore,
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    About This Section

    1 Ensembl transcript including schematic representation, and UCSC links where relevant:
    ENST00000369385
    miRNA
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    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

    HIST2H2BD expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: --
    HIST2H2BD Expression
    About this image

        SABiosciences Custom PCR Arrays for HIST2H2BD
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    In Situ
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    (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 HIST2H2BD (if available)
    TreeFam Gene Tree for HIST2H2BD (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for HIST2H2BD gene
    18/20 SIMAP similar genes for HIST2H2BD using alignment to 1 protein entry:     H2B2D_HUMAN(see all similar genes):
    HIST2H2BC    HIST1H2BB    HIST1H2BC    HIST1H2BD    HIST1H2BE    HIST1H2BF
    HIST1H2BG    HIST1H2BH    HIST1H2BI    HIST1H2BJ    HIST1H2BK    HIST1H2BM
    HIST1H2BN    HIST1H2BO    HIST2H2BE    HIST3H2BB    H2BFS    HIST1H2BL

    HIST2H2BD for paralogs           About GeneDecksing



    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, 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
    SABiosciences Cancer Mutation PCR Assays
    Search QIAGEN SeqTarget long-range PCR primers for resequencing HIST2H2BD
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    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
      --

    (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 HIST2H2BD gene integrated from 9 sources:
    (articles sorted by number of sources associating them with HIST2H2BD)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Functional characterization of a human histone gene cluster duplication. (PubMed id 15527963)1, 2, 3 Braastad C.D....Stein G.S. (2004)
    2. The human and mouse replication-dependent histone genes. (PubMed id 12408966)1, 2, 3 Marzluff W.F....Maltais L.J. (2002)
    3. Inhibition of core histones acetylation by carcinogenic nickel(II). (PubMed id 16283522)1, 2 Golebiowski F. and Kasprzak K.S. (2005)
    4. Apoptotic phosphorylation of histone H2B is mediated by mammalian sterile twenty kinase. (PubMed id 12757711)1, 2 Cheung W.L.... Allis C.D. (2003)
    5. Identification of 67 histone marks and histone lysine crotonylation as a new type of histone modification. (PubMed id 21925322)2 Tan M.... Zhao Y. (2011)
    6. Birth-and-death long-term evolution promotes histone H2B variant diversification in the male germinal cell line. (PubMed id 20194426)1 GonzA!lez-Romero R....EirA-n-LA^pez J.M. (2010)
    7. Substrate and functional diversity of lysine acetylation revealed by a proteomics survey. (PubMed id 16916647)1 Kim S.C.... Zhao Y. (2006)
    8. Evidence for a human histone gene cluster containing H2B and H2A pseudogenes. (PubMed id 6326092)1 Marashi F....Stein G. (1984)

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     ANDOR
    Aliases
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 337874 HGNC: 20517 Ensembl:ENSG00000220323 euGenes: HUgn337874 ECgene: HIST2H2BD
    H-InvDB: HIST2H2BD

    (According to HUGE)
    About This Section
      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for HIST2H2BD Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for HIST2H2BD gene:
    Search GeneIP for patents involving HIST2H2BD

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



    (Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Sirion Biotech, Cell lines from GenScript, and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or Enzo Life Sciences, In Situ Hybridization Assays from
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    About This Section

     
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     Proteins for HIST2H2BD
     Antibodies for HIST2H2BD
     ELISAs for HIST2H2BD
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     Search LifeMap BioReagents cell lines for HIST2H2BD
     Gene Synthesis
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     Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for HIST2H2BD
     Browse SwitchGear 3'UTR luciferase reporter plasmids for HIST2H2BD
     Browse SwitchGear Promoter luciferase reporter plasmids for HIST2H2BD
     Search ThermoFisher Antibodies for HIST2H2BD
     Search Vector BioLabs for ready-to-use adenovirus/AAV for human, mouse, rat HIST2H2BD
     inGenious Targeting Laboratory - Custom generated mouse model solutions for HIST2H2BD
     inGenious Targeting Laboratory - Custom generated inducible mouse model solutions for HIST2H2BD
    Customized:
     lentivirus for stable overexpression of HIST2H2BD
     lentivirus expression plasmids for stable overexpression of HIST2H2BD
     adenovirus for overexpression of HIST2H2BD
     Search LSBio for Antibodies for HIST2H2BD
    Customized transgenic rodents for:
     Humanization
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     Off-target effect monitoring
     Translational medicine
     Tissue-specific gene expresssion
     Time-controlled gene expresssion
           
    GeneCards Homepage - Last full update: 23 Oct 2013 - Incrementals: 4 Nov 2013 , 7 Nov 2013 , 23 Jan 2014

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    (GIFtS: 73)
    transforming growth factor, beta 1
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