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HABP4 Gene

protein-coding   GIFtS: 50

GC09P098252
hyaluronan binding protein 4
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
Services    
(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
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Aliases
IHABP4 1, 2, 3
Ki-1/57 2
MGC825 2
OTTHUMP00000021722 2
SERBP1L 1, 2
Descriptions
Ki-1/57 intracellular antigen 3
chromodomain helicase DNA binding protein 3 interacting
protein 2
hyaluronan binding protein 4 2
intracellular antigen detected by monoclonal antibody Ki-1 2
intracellular hyaluronan-binding protein 2
External Ids
HGNC: 170621
Entrez Gene: 229272
UniProtKB: Q5JVS03
Ensembl: ENSG000001309567
Search outside databases for aliases for HABP4 gene

Previous GC identifers: GC09P090026 GC09P090956 GC09P092669 GC09P094592 GC09P096292

(According to Entrez Gene, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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UniProtKB/Swiss-Prot: HABP4_HUMAN, Q5JVS0
Function: May be involved in nuclear functions such as the remodeling of chromatin and the
regulation of transcription

Gene Wiki entry for HABP4

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 36),
and/or miRBase,
Genomic Views according to UCSC and Ensembl, Transcription factor binding sites according to SABiosciences)
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Genomic View:
UCSC Golden Path with GeneCards custom track

 Transcription factor binding sites upstream to the HABP4 gene  

Entrez Gene cytogenetic band: 9q22.3-q31   Ensembl cytogenetic band:  9q22.33   HGNC cytogenetic band: 9q22.3-q31

HABP4 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)

GeneLoc gene densities for chromosome 9         GeneLoc Exon Structure

GeneLoc location for GC09P098252:     (about GC identifiers)

Start:
98,252,235 bp from pter
End:
98,293,439 bp from pter
Size:
41,205 bases
Orientation:
plus strand
RefSeq DNA sequence:
NC_000009.10  NT_008470.18  
(According to 1UniProtKB, and/or Ensembl, Phosphorylation sites according to 2Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Enzo Life Sciences, Abnova, OriGene and/or, Abcam,
Biochemical Assays by Invitrogen, Millipore, R&D Systems, Cell Signaling Technology, and/or Enzo Life Sciences, Ontologies according to Gene Ontology Consortium 01 Apr 2009 and Entrez Gene, Antibodies by Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Cell Signaling Technology, Abcam, Abnova, and/or Novus Biologicals)
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UniProtKB/Swiss-Prot: HABP4_HUMAN, Q5JVS0 (See protein sequence)
Recommended Name: Intracellular hyaluronan-binding protein 4  
Size: 413 amino acids; 45785 Da
Subunit: Interacts with the C-terminus of CHD3. Interacts via its C-terminal region with GNB2L1.
Interacts with TP53/p53
Subcellular location: Cytoplasm. Nucleus. Note=Transported into the nuclear compartment in
activated leukocytes
Miscellaneous: Able to bind hyaluronan. However, its intracellular localization suggests that this
interaction may not be relevant in vivo
Miscellaneous: The interaction with GNB2L1 is abolished upon activation of L540 tumor cells with
PMA, which results in phosphorylation and exit of HABP4 from the nucleus
Secondary accessions: O75804 Q8WV33 Q9NYJ2
Alternative splicing: 2 isoforms:  Q5JVS0-1   Q5JVS0-2   

Post-translational modifications:

  • Phosphorylated by phorbol 12-myristate 13-acetate (PMA)-activated PKC isoforms at Thr-354 and
    Thr-375 (Probable)1
  • View phosphorylation sites using PhosphoSite2


  • REFSEQ proteins: NP_055097.2  

    ENSEMBL proteins: 
    ENSP00000364398 ENSP00000364400 


    Human Recombinant Proteins 
    Browse Drug Discovery Central at Invitrogen for human recombinant proteins
    Browse Purified and Recombinant Proteins at Millipore
    Browse Human Recombinant Proteins at Sigma-Aldrich  
    Browse R&D Systems for human recombinant proteins
    Browse recombinant and purified proteins available from Enzo Life Sciences
    Browse Abcam for Recombinant Proteins
    Human Recombinant Proteins from Abnova (HABP4)
                    Browse Origene for full length recombinant human proteins expressed in human HEK293 cells 

    2 Gene Ontology (GO) cellular component terms (links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634 nucleus IEA--
    GO:0005737 cytoplasm IEA--
    About this table

    Antibodies for HABP4: 
    Browse Antibodies Central at Invitrogen
    Browse Millipore's Extensive Line of Mono- and Polyclonal Antibodies
    Browse Antibodies at Sigma-Aldrich
    Browse R&D Systems for Antibodies
    Search for antibodies at Abcam and the World's Antibody Gateway (free search engine of over 150 antibody companies)
    Browse Abnova for Monoclonal and Polyclonal Antibodies
    Search Novus for antibodies for HABP4

    Assays for HABP4: 
    Browse Invitrogen for biochemical assays
    Browse Kits and Assays available from Millipore
    Browse R&D Systems for biochemical assays
    Browse biochemical assays available from Enzo Life Sciences

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

    1 InterPro domain/family:
     IPR006861 HABP4_PAIRBP1_bd


       GeneDecks  HABP4 for the domains selected above  
    About GeneDecksing

    Graphical View of Domain Structure for InterPro Entry Q5JVS0

    ProtoNet protein and cluster: Q5JVS0

    (According to MGI Jun 06 2009, UniProtKB, IUBMB,and/or Genatlas,
    shRNA from OriGene, Sigma-Aldrich, RNAi from Sigma-Aldrich,
    RNAi Products, Clones, and Q-PCR Products from Invitrogen, Millipore, OriGene, and/or Abnova, siRNAs from Applied Biosystems, SYBR primers from OriGene, Cell-based Assays from Millipore, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
    About This Section

    Inhib.
    RNA:
    Invitrogen RNAi Products for gene knock-down (HABP4)
    Browse for Gene Knock-down Tools from Millipore
    Browse Abnova for Chimera RNAi Products
                  OriGene 29mer shRNA kit in GFP-retroviral vector: NM_014282

                  Applied Biosystems Silencer® siRNAs for HABP4

                  Sigma-Aldrich siRNA for HABP4  
                         Sigma-Aldrich shRNA for HABP4  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Clones:Invitrogen Clones for HABP4
    Browse Clones for the Expression of Recombinant Proteins Available from Millipore
                  OriGene GFP tagged cDNA clone in CMV expression vector: NM_014282
                                     Myc/DDK tagged cDNA clone in CMV expression vector: NM_014282
                                     untagged cDNA clone in CMV expression vector: NM_014282 

    Primers: Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers
                  OriGene genome-wide validated SYBR primer pairs: NM_014282

    UniProtKB/Swiss-Prot: HABP4_HUMAN, Q5JVS0
    Function: May be involved in nuclear functions such as the remodeling of chromatin and the
    regulation of transcription

    (Pathways according to Invitrogen (maps by GeneGo), Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB,
    Sets of similar genes according to GeneDecks, Proteins Network according to SABiosciences, Interactions according to 1UniProtKB, 2MINT, and/or 3STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
    About This Section


     Gene Network CentralTM Interacting Genes and Proteins Network for  HABP4 


    5/18 Interacting proteins for HABP4 (ENSP000003643983 Q5JVS02) via UniProtKB, MINT, and/or STRING (see all 18 )
    InteractantInteraction Details
    GeneCardExternal ID(s)
    SFRS9Q132422MINT-7041232 MINT-7041065
    SYNCRIPO605062MINT-7041249 MINT-7041079
    C1QBPQ070212MINT-7041074
    COILP384322MINT-7041203
    NPM1P067482MINT-7041169
    About this table

    2 Gene Ontology (GO) biological process terms (links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006350 transcription IEA--
    GO:0006355 regulation of transcription, DNA-dependent IEA--
    About this table
    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, Sigma-Aldrich, Tocris Bioscience, and/or Novoseek and Drugs according to Enzo Life Sciences and/or PharmGKB)
    About This Section

    Browse drugs & compounds from Enzo Life Sciences
    Browse Small Molecules at Sigma-Aldrich

    Browse Tocris compounds for HABP4

    (GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 219 Homo sapiens; Jun 2 2009) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView,
    non coding RNAs according to RNAdb,
    ESTs according to GeneTide,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from Invitrogen, Millipore, and/or Abnova,
    siRNAs from Applied Biosystems, Sigma-Aldrich,
    shRNA from Sigma-Aldrich, OriGene,
    Tagged/untagged cDNA clones from OriGene,
    Expression Assays from Applied Biosystems)
    About This Section

    Inhib.
    RNA:
    Invitrogen RNAi Products for gene knock-down (HABP4)
    Browse for Gene Knock-down Tools from Millipore
    Browse Abnova for Chimera RNAi Products
                  OriGene 29mer shRNA kit in GFP-retroviral vector: NM_014282

                  Sigma-Aldrich siRNA for HABP4  
                         Sigma-Aldrich shRNA for HABP4  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Applied Biosystems Silencer® siRNAs: 

    NM_014282  

    REFSEQ mRNAs for HABP4 gene: 

    NM_014282.2   

    Applied Biosystems TaqMan ® Gene Expression Assays: 

    NM_014282  

                  OriGene GFP tagged cDNA clone in CMV expression vector: NM_014282
                                     Myc/DDK tagged cDNA clone in CMV expression vector: NM_014282
                                     untagged cDNA clone in CMV expression vector: NM_014282 

    Additional cDNA sequence: 

    AF241831.1 AK000610.1 AK025144.1 AK055161.1 AK091242.1 AK124836.1 BC018788.1 CR596448.1 
    CR607840.1 CR613476.1 CR613789.1 U77327.1 

    9 DOTS entries:

    DT.317227  DT.99930684  DT.95083940  DT.95356898  DT.92469976  DT.40109657  DT.91927322  DT.95083928 
    DT.121174336 

    24/162 AceView cDNA sequences (see all 162 ):

    AI015572 BM661599 N34326 AW515563 BQ009655 AI889924 BM719882 BU727478 
    CB158708 CR613476 BM761762 AI418660 BF477812 AA904204 CB159244 BF475746 
    BM689626 BG059636 AI912252 AA593631 BG760852 BU736928 BU734666 CR596448 

    highest scoring ESTs for HABP4:

    U77327 AA314750 AF241831 AI590092 AK000610 AK055161 AK091242 AL571960 AV751753 AW515563 

    Unigene Cluster for HABP4:

    Hyaluronan binding protein 4
    Hs.494567  [show with all ESTs]
    Unigene Representative Sequence: AK091242


    GeneLoc Exon Structure

    2 Ensembl transcripts including schematic representations:
    ENST00000375249  ENST00000375251  
    (Experimental results according to 1GeneNote and GNF BioGPS,
    probe sets-to-genes annotations according to 2GeneAnnot , 3GeneTide , Sets of similar genes according to GeneDecks, Electronic Northern calculations according to data from UniGene (Build 219 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
    Expression Assays from Applied Biosystems )
    About This Section

    HABP4 expression in normal and diseased human tissues

     Applied Biosystems TaqMan ® Gene Expression Assays for HABP4

    1 / 2 / 3

    12 probe-sets matching HABP4 gene


    Affymetrix
    probe-set
    Array  GeneAnnot data GeneNote data GeneTide data
    # genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank
    77396_i_at2, 3 U95-E 1 1.00 1.00 0.95 1.06 AA151302 0.80 0.80 0.80 1

    42991_at2, 3 U95-B 1 1.00 1.00 0.94 1.22 AA151303 0.60 0.75 0.68 1
    32970_f_at2, 3 U95-A 1 1.00 1.00 0.84 0.94 U77327 1.00 1.00 1.00 1
    62706_at2, 3 U95-C 1 0.88 1.00 0.97 0.82 AA129439 0.80 0.80 0.80 1

    233919_s_at2, 3 U133-B 1 1.00 1.00 -- -- BF213501 0.40 0.67 0.55 1

    209819_at2, 3 U133-A 1 1.00 1.00 -- -- AF241831 0.80 1.00 0.91 1

    209818_s_at2, 3 U133-A 1 1.00 1.00 -- -- AF241831 0.80 1.00 0.91 1

    232341_x_at2, 3 U133-B 1 1.00 1.00 -- -- AK025144 0.60 0.75 0.68 1

    233919_s_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --

    209819_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --

    209818_s_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --

    232341_x_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --
    GeneDecks  HABP4 for binary patterns associated with the probe-sets selected above  
    About GeneDecksing
    About this table    
    Data from (Publications) and GNF BioGPS
        About these images
    About these images

    CGAP SAGE TAG: GAGACTCTTA

    SOURCE GeneReport for Unigene cluster: Hs.494567

    Expression variation in blood from EXPOLDB for HABP4

    UniProtKB/Swiss-Prot: HABP4_HUMAN, Q5JVS0
    Tissue specificity: Highly expressed in brain, heart, and kidney, and moderately expressed in
    skeletal muscle. Also expressed in a variety of tumor cell lines and in activated but not resting
    leukocytes

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD and/or 5MGI Jun 06 2009, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
    About This Section


    Orthologs for HABP4 gene from 5/7 species (see all 7 )
    Organism Gene Locus Description Human
    Similarity
    NCBI accessions
    cow
    (Bos taurus)
    HABP41   -- hyaluronan binding protein 4 89.67(n)
    91.28(a)
    514807  XM_592712.3  XP_592712.2 
    rat
    (Rattus norvegicus)
    Habp41   -- hyaluronan binding protein 4 85.16(n)
    86.37(a)
    361196  XM_341479.3  XP_341480.1 
    mouse
    (Mus musculus)
    Habp41, 5 13 (36.00 cM)5
    hyaluronic acid binding protein 41, 5 85.4(n)1
    86.37(a)1
    565411  NM_019986.21  NP_064370.11 
     AF2276845  AK0168005  (see all 14)
    chicken
    (Gallus gallus)
    HABP41   -- hyaluronan binding protein 4 66.67(n)
    60.73(a)
    395444  NM_204705.1  NP_990036.1 
    zebrafish
    (Danio rerio)
    zgc:1034821   -- zgc:103482 57.11(n)
    53.96(a)
    450001  NM_001006022.1  NP_001006022.1 
    About this table        Species with no ortholog for HABP4

    ENSEMBL Gene Tree for HABP4
    (Paralogs according to 1HomoloGene
    and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
    About This Section

    Paralogs for HABP4 gene
    SERBP12  

    (According to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Genotyping Reagents from Applied Biosystems)
    About This Section


    10/191 NCBI SNPs in HABP4 are shown (see all 191 )
    (Click for Applied Biosystems TaqMan ® Genotyping Assay)  (see all 69)
    ABGenomic DataTranscription DataAllele Frequencies
    SNP IDValidChr 9 posSequenceRecsAA
    Chg
    TypeMoreRecsAllele
    freq
    PopTotal
    sample
    More
    ------------
    rs10576871,2
    A,C,F,H,O98292285(+) GGCTGA/GGCTGT 1 -- ut316Minor allele frequency- G:0.22MN NS EU EA WA 770
    rs109913671,2
    A,C,F,H98293754(+) CTAACT/CGCGGC 1 -- ng316Minor allele frequency- C:0.23NS EA EU WA 680
    rs78701061,2
    A,C,F,H98250405(+) AAAGCG/ATAGGC 1 -- ng5111Minor allele frequency- A:0.27EU EA WA NA 978
    rs64774931,2
    A,C,F,H98292903(+) AATACC/TGCATC 1 -- ut31 ese39Minor allele frequency- T:0.20NS EU EA WA 1002
    --
    rs169109051,2
    C98292558(-) TGTGAC/GTGCTT 1 -- ut31 ese31Minor allele frequency- G:0.01NS 160
    --
    rs169109131,2
    F98293476(-) TGTGGC/ACTGGA 1 -- ng311Minor allele frequency- A:0.01NS 172
    rs108206321,2
    A98252054(+) GACCAG/TCCAGT 1 -- ng51 tfbs30--------
    rs70303161,2
    A,C,F,H98290284(+) AACCTC/TCCTCG 1 L/L syn1 ese311Minor allele frequency- T:0.20EU EA WA NA 978
    rs7545591,2
    A,F98252730(+) GCGCCG/CGGTAC 1 P/P syn11Minor allele frequency- C:0.03MN 184
    rs345655271,2
    F98267470(+) AGACCG/ATTGAG 1 P/P syn11Minor allele frequency- A:0.04NA 74
    About this table

    HapMap Linkage Disequilibrium images for HABP4 (up to first 250kb)

    (in which this Gene is Involved, According to OMIM, UniProtKB, PharmGKB, Genatlas, GeneTests, Blood group antigen gene mutations by BGMUT, HGMD, GAD, HuGE Navigator, BCGD, and/or TGDB.)
    About This Section

      --

    (Possibly Related Articles in Doctor's Guide)
    About This Section

      --

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

    10/16 PubMed articles for HABP4 gene (see all 16 ):
    (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, and/or H-InvDB)
    About This Section

    Entrez Gene: 22927 HGNC: 17062 AceView: HABP4 Ensembl:ENSG00000130956 euGenes: HUgn22927
    ECgene: HABP4 H-InvDB: HABP4
    (According to HUGE)
    About This Section

      --
    (According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section

      --
    (Available from WIS Yeda, Salk, Tufts)
    About This Section

      --
    (Reagents available from Applied Biosystems, Antibodies and assays by Cell Signaling Technology, Abcam, Novus Biologicals,
    Sigma-Aldrich, R&D Systems, Millipore, Abnova, and/or Invitrogen, Clones available from OriGene,and/or Invitrogen, Drugs and/or compounds by Sigma-Aldrich,
    Enzo Life Sciences, and/or Tocris Bioscience)
    About This Section



    Products for HABP4:
     TaqMan ® Gene Expression Assays
     TaqMan ® Genotyping Assays
      Free SNP selection tool



      Invitrogen iPath Pathways  Invitrogen BLOCK-iT™ RNAi
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     Predesigned and custom siRNAs for HABP4 Browse antibodies at Sigma-Aldrich
     Explore super-pooled esiRNAs Browse proteins at Sigma-Aldrich
     Lentivirus-delivered shRNAs for HABP4 Browse small molecules at Sigma-Aldrich
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