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OBFC2B Gene

protein-coding   GIFtS: 51

GC12P054905
oligonucleotide/oligosaccharide-binding fold containing 2B
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)
About This Section

Aliases
LP3587 2
MGC2731 1, 2
SSB1 2, 3, 5
Descriptions
Single-stranded DNA-binding protein 1 3
oligonucleotide/oligosaccharide-binding fold containing 2B 2
External Ids
HGNC: 284121
Entrez Gene: 790352
UniProtKB: Q9BQ153
Ensembl: ENSG000001395797
Search outside databases for aliases for OBFC2B gene

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

EntrezGene summary for OBFC2B:
Single-stranded DNA (ssDNA)-binding proteins, such as OBFC2B, are ubiquitous and essential for a
variety of DNA metabolic processes, including replication, recombination, and detection and repair
of damage (Richard et al., 2008 [PubMed 18449195]).[supplied by OMIM]

UniProtKB/Swiss-Prot: OFC2B_HUMAN, Q9BQ15
Function: Plays an important role in DNA damage response. Influences diverse endpoints in the
cellular DNA damage response, including cell-cycle checkpoint activation, recombinational repair
and maintenance of genomic stability. Associates with DNA lesions, and enables the efficient
activation of ATM and consequent phosphorylation of downstream proteins. Promotes RAD51-mediated
strand exchange and may thus contribute to homologous recombination repair. Binds to
single-stranded DNA, in particular to polypyrimidines

(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)
About This Section

Genomic View:
UCSC Golden Path with GeneCards custom track

 Transcription factor binding sites upstream to the OBFC2B gene  

Entrez Gene cytogenetic band: 12q13.2   Ensembl cytogenetic band:  12q13.2   HGNC cytogenetic band: 12q13.3

OBFC2B 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 12         GeneLoc Exon Structure

GeneLoc location for GC12P054905:     (about GC identifiers)

Start:
54,904,410 bp from pter
End:
54,909,905 bp from pter
Size:
5,496 bases
Orientation:
plus strand
RefSeq DNA sequence:
NC_000012.10  NT_029419.11  
(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)
About This Section

UniProtKB/Swiss-Prot: OFC2B_HUMAN, Q9BQ15 (See protein sequence)
Recommended Name: Oligonucleotide/oligosaccharide-binding fold-containing protein 2B  
Size: 211 amino acids; 22338 Da
Subunit: Directly interacts with ATM and RAD51
Subcellular location: Nucleus. Note=Localizes to nuclear foci following DNA damage. Foci formation
is not cell-cyle dependent. Partial colocalization with RAD51 after ionizing radiation treatment
Sequence caution: Sequence=AAP34465.1; Type=Frameshift; Positions=169;
Secondary accessions: A6NDF8 Q6XYC8
Alternative splicing: 2 isoforms:  Q9BQ15-1   Q9BQ15-2   

Post-translational modifications:

  • Phosphorylated by ATM in response to DNA damage. Phosphorylation prevents degradation by the
    proteasome, hence stabilization of the protein and accumulation within cells1


  • REFSEQ proteins: NP_076973.1  

    ENSEMBL proteins: 
    ENSP00000267023 ENSP00000368862 ENSP00000369545 


    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
    Recombinant Proteins from Abcam (OBFC2B)
    Human Recombinant Proteins from Abnova (OBFC2B)
                  OriGene Purified Recombinant Human Protein: OBFC2B 

    1 Gene Ontology (GO) cellular component term (links to tree view):

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

    Antibodies for OBFC2B: 
    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
    Antibodies from Abcam (OBFC2B), each with their AbpromiseSM
    Monoclonal and Polyclonal Antibodies from Abnova (OBFC2B)
    Novus Biologicals Antibody for OBFC2B

    Assays for OBFC2B: 
    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

    2 InterPro domains/families:
     IPR012340 NA-bd_OB-fold
     IPR004365 NA_bd_OB_tRNA-helicase


       GeneDecks  OBFC2B for the domains selected above  
    About GeneDecksing

    Graphical View of Domain Structure for InterPro Entry Q9BQ15

    ProtoNet protein and cluster: Q9BQ15

    1 Blocks protein family: IPB004365 OB-fold nucleic acid binding domain

    UniProtKB/Swiss-Prot: OFC2B_HUMAN, Q9BQ15
    Similarity: Belongs to the OBFC2 family
    Similarity: Contains 1 OB DNA-binding domain

    (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 (OBFC2B)
    Browse for Gene Knock-down Tools from Millipore
    Abnova Chimera RNAi Products for Gene knock-down (OBFC2B)
                  OriGene 29mer shRNA kit in GFP-retroviral vector: NM_024068

                  Applied Biosystems Silencer® siRNAs for OBFC2B

                  Sigma-Aldrich siRNA for OBFC2B  
                         Sigma-Aldrich shRNA for OBFC2B  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Clones:Invitrogen Clones for OBFC2B
    Browse Clones for the Expression of Recombinant Proteins Available from Millipore
                  OriGene GFP tagged cDNA clone in CMV expression vector: NM_024068
                                     Myc/DDK tagged cDNA clone in CMV expression vector: NM_024068
                                     untagged cDNA clone in CMV expression vector: NM_024068 

    Primers: Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers
                  OriGene genome-wide validated SYBR primer pairs: NM_024068

    UniProtKB/Swiss-Prot: OFC2B_HUMAN, Q9BQ15
    Function: Plays an important role in DNA damage response. Influences diverse endpoints in the
    cellular DNA damage response, including cell-cycle checkpoint activation, recombinational repair
    and maintenance of genomic stability. Associates with DNA lesions, and enables the efficient
    activation of ATM and consequent phosphorylation of downstream proteins. Promotes RAD51-mediated
    strand exchange and may thus contribute to homologous recombination repair. Binds to
    single-stranded DNA, in particular to polypyrimidines

    2 Gene Ontology (GO) molecular function terms (links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003676 nucleic acid binding IEA--
    GO:0005515 protein binding IPI18449195
    About this table

    (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



    5 Interacting proteins for OBFC2B (ENSP000002670233 Q9BQ151) via UniProtKB, MINT, and/or STRING
    InteractantInteraction Details
    GeneCardExternal ID(s)
    ATMQ133151EBI-2120336, EBI-495465
    RAD51Q066091EBI-2120336, EBI-297202
    SSBP1ENSP000002653043STRING (score=.871)
    SSBP3ENSP000003603703STRING (score=.71)
    --ENSP000003741633STRING (score=.709)
    About this table

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006281 DNA repair IEA--
    GO:0006974 response to DNA damage stimulus 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 OBFC2B

    (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 (OBFC2B)
    Browse for Gene Knock-down Tools from Millipore
    Abnova Chimera RNAi Products for Gene knock-down (OBFC2B)
                  OriGene 29mer shRNA kit in GFP-retroviral vector: NM_024068

                  Sigma-Aldrich siRNA for OBFC2B  
                         Sigma-Aldrich shRNA for OBFC2B  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Applied Biosystems Silencer® siRNAs: 

    NM_024068  

    REFSEQ mRNAs for OBFC2B gene: 

    NM_024068.3   

    Applied Biosystems TaqMan ® Gene Expression Assays: 

    NM_024068  

                  OriGene GFP tagged cDNA clone in CMV expression vector: NM_024068
                                     Myc/DDK tagged cDNA clone in CMV expression vector: NM_024068
                                     untagged cDNA clone in CMV expression vector: NM_024068 

    Additional cDNA sequence: 

    AY203942.1 BC001079.2 BC006171.1 CR623688.1 CR625869.1 

    8 DOTS entries:

    DT.75116435  DT.121188260  DT.454705  DT.95109091  DT.92431301  DT.92431300  DT.121188266  DT.91840573 

    24/150 AceView cDNA sequences (see all 150 ):

    AI708565 AV702469 BQ940268 BQ691894 CF128314 NM_024068 BC001079 BQ777329 
    AA364513 BM503783 BQ669133 BM828291 BE785134 AW731858 AW161556 CR625869 
    BM564784 CR623688 AA339573 BQ231282 CA417141 BG250628 BM451265 BU501063 

    highest scoring ESTs for OBFC2B:

    AA293809 AA394283 AA401958 AA411336 AI708565 AI760850 AW966310 AY203942 BC001079 BE548980 

    Unigene Cluster for OBFC2B:

    Oligonucleotide/oligosaccharide-binding fold containing 2B
    Hs.240170  [show with all ESTs]
    Unigene Representative Sequence: CR625869


    GeneLoc Exon Structure

    5/6 Alternative Splicing Database (ASD) splice patterns (SP) for OBFC2B (see all 6 )

    ExUns: 1a · 1b ^ 2 ^ 3a · 3b ^ 4 ^ 5a · 5b ^ 6 ^ 7 ^ 8 ^ 9 ^ 10a · 10b
    SP1:                                -     -                                             
    SP2:                                      -                                             
    SP3:                                                                                    
    SP4:                    -     -     -     -                                             
    SP5:                                                                                    

    About this scheme

    ECgene alternative splicing isoforms for OBFC2B

    3 Ensembl transcripts including schematic representations:
    ENST00000267023  ENST00000341463  ENST00000380198  
    (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

    OBFC2B expression in normal and diseased human tissues

     Applied Biosystems TaqMan ® Gene Expression Assays for OBFC2B

    1 / 2 / 3

    3 probe-sets matching OBFC2B gene


    Affymetrix
    probe-set
    Array  GeneAnnot data GeneNote data GeneTide data
    # genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank
    49370_at2, 3 U95-B 1 1.00 1.00 1.00 1.00 T77983 0.60 1.00 0.82 1

    218903_s_at2, 3 U133-A 1 1.00 1.00 -- -- NM_024068 0.60 1.00 0.82 1

    218903_s_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --
    GeneDecks  OBFC2B 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: GGAGTCTAAC

    SOURCE GeneReport for Unigene cluster: Hs.240170
    (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 OBFC2B gene from 5/10 species (see all 10 )
    Organism Gene Locus Description Human
    Similarity
    NCBI accessions
    dog
    (Canis familiaris)
    OBFC2B1   -- oligonucleotide/oligosaccharide-binding fold containing more 92.58(n)
    95.73(a)
    474400  XM_531632.2  XP_531632.2 
    cow
    (Bos taurus)
    OBFC2B1   -- oligonucleotide/oligosaccharide-binding fold containing more 92.26(n)
    94.31(a)
    533842  XM_613378.3  XP_613378.1 
    rat
    (Rattus norvegicus)
    Obfc2b1   -- oligonucleotide/oligosaccharide-binding fold containing more 87.99(n)
    92.42(a)
    362813  NM_001034939.1  NP_001030111.1 
    mouse
    (Mus musculus)
    Obfc2b1, 5 105
    oligonucleotide/oligosaccharide-binding fold containing more1, 5 87.52(n)1
    93.36(a)1
    699171  NM_027257.11  NP_081533.11 
     AK0117035  AK2076205  (see all 8)
    zebrafish
    (Danio rerio)
    wufc60e102   -- wufc60e10 75.53(n) 325228  BG799849.1 
    About this table        Species with no ortholog for OBFC2B

    ENSEMBL Gene Tree for OBFC2B
    (Paralogs according to 1HomoloGene
    and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
    About This Section

    Paralogs for OBFC2B gene
    OBFC2A2  

    Pseudogenes
    1 related pseudogene


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


    10/32 NCBI SNPs in OBFC2B are shown (see all 32 )
    (Click for Applied Biosystems TaqMan ® Genotyping Assay)  (see all 22)
    ABGenomic DataTranscription DataAllele Frequencies
    SNP IDValidChr 12 posSequenceRecsAA
    Chg
    TypeMoreRecsAllele
    freq
    PopTotal
    sample
    More
    ------------
    rs12744941,2
    A,C,F54904365(-) CGGCTA/GGCCTC 1 -- ng51 tfbs34Minor allele frequency- G:0.04EA NA MN 230
    rs111717801,2
    C,H54906251(+) TCTGAG/AGTTCC 1 E/E syn1 ese34Minor allele frequency- A:0.00EU EA WA 406
    --
    rs73506071,2
    C,H54907790(+) agcaaG/Agagtt 1 -- int14Minor allele frequency- A:0.00EU EA WA 420
    --
    rs73115051,2
    A,C54908240(+) ctccaA/Tctcaa 1 -- int10--------
    --
    rs108768801,2
    A,C54907309(+) GTAATC/TCCAGC 1 -- int10--------
    --
    rs73506201,2
    C,H54908030(+) cctgaG/Agctgg 1 -- int13Minor allele frequency- A:0.00EU EA 286
    --
    rs47592161,2
    C54907336(-) CATTCG/TCCTGC 1 -- int10--------
    --
    rs24501021,2
    H54908530(+) cctccC/Taggtt 1 -- int13Minor allele frequency- T:0.00EA WA 294
    --
    rs79557181,2
    C54906867(+) cctccC/Tgggtt 1 -- int10--------
    --
    rs733423041,2
    --54904679(+) CCTTCA/CAGCCC 1 -- ng510--------
    About this table

    HapMap Linkage Disequilibrium images for OBFC2B (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

    OMIM: 612104

    (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

    5 PubMed articles for OBFC2B gene:
    (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: 79035 HGNC: 28412 AceView: MGC2731 Ensembl:ENSG00000139579 euGenes: HUgn79035
    ECgene: OBFC2B H-InvDB: OBFC2B
    (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 OBFC2B:
     TaqMan ® Gene Expression Assays
     TaqMan ® Genotyping Assays
      Free SNP selection tool



      Invitrogen iPath Pathways  Invitrogen BLOCK-iT™ RNAi
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      Invitrogen Proteins / Assays / Screening Services  Search Invitrogen catalog for OBFC2B-related products

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     Predesigned and custom siRNAs for OBFC2B Browse antibodies at Sigma-Aldrich
     Explore super-pooled esiRNAs Browse proteins at Sigma-Aldrich
     Lentivirus-delivered shRNAs for OBFC2B Browse small molecules at Sigma-Aldrich
     "Your Favorite Gene" Pathwaysfeedback


      
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     Recombinant & Natural Proteins  

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     Recombinant Proteins
    (OBFC2B)
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     Tagged/untagged cDNA clones
     Validated SYBR primer pairs
     Purified proteins from HEK293T cells
     Western blot validated antibodies
     shRNA in GFP-retroviral vector
     Search Tocris compounds for OBFC2B




     Search www.enzolifesicences.com for proteins, assays, substrates, inhibitors & antibodies
     Antibodies for OBFC2B

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