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CHD1 Gene

protein-coding   GIFtS: 65
GCID: GC05M098190

Chromodomain Helicase DNA Binding Protein 1

  Search for CHD1
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
Chromodomain Helicase DNA Binding Protein 11 2
CHD-12 3
ATP-Dependent Helicase CHD12 3
Chromodomain-Helicase-DNA-Binding Protein 12
EC 3.6.4.123
EC 3.6.18

External Ids:    HGNC: 19151   Entrez Gene: 11052   Ensembl: ENSG000001539227   OMIM: 6021185   UniProtKB: O146463   

Export aliases for CHD1 gene to outside databases

Previous GC identifers: GC05M097537 GC05M098601 GC05M098222 GC05M098267 GC05M098219 GC05M093378


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Entrez Gene summary for CHD1 Gene:
The CHD family of proteins is characterized by the presence of chromo (chromatin organization modifier) domains
and SNF2-related helicase/ATPase domains. CHD genes alter gene expression possibly by modification of chromatin
structure thus altering access of the transcriptional apparatus to its chromosomal DNA template. (provided by
RefSeq, Jul 2008)

GeneCards Summary for CHD1 Gene:
CHD1 (chromodomain helicase DNA binding protein 1) is a protein-coding gene. GO annotations related to this gene include ATP-dependent DNA helicase activity and methylated histone residue binding. An important paralog of this gene is CHD6.

UniProtKB/Swiss-Prot: CHD1_HUMAN, O14646
Function: ATP-dependent chromatin-remodeling factor which functions as substrate recognition component of the
transcription regulatory histone acetylation (HAT) complex SAGA. Regulates polymerase II transcription. Also
required for efficient transcription by RNA polymerase I, and more specifically the polymerase I transcription
termination step. Regulates negatively DNA replication. Not only involved in transcription-related
chromatin-remodeling, but also required to maintain a specific chromatin configuration across the genome. Is also
associated with histone deacetylase (HDAC) activity (By similarity). Required for the bridging of SNF2, the FACT
complex, the PAF complex as well as the U2 snRNP complex to H3K4me3. Functions to modulate the efficiency of
pre-mRNA splicing in part through physical bridging of spliceosomal components to H3K4me3. Required for
maintaining open chromatin and pluripotency in embryonic stem cells

Gene Wiki entry for CHD1 Gene


(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 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence at NCBI GenBank:
NC_000005.9  NT_034772.7  NC_018916.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the CHD1 gene promoter:
         TBP   PPAR-gamma1   AML1a   POU3F1   HTF   PPAR-gamma2   YY1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidCHD1 promoter sequence
   Search Chromatin IP Primers for CHD1

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat CHD1


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

Entrez Gene cytogenetic band: 5q15-q21   Ensembl cytogenetic band:  5q21.1   HGNC cytogenetic band: 5q15-q21

CHD1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
CHD1 gene location

GeneLoc information about chromosome 5         GeneLoc Exon Structure

GeneLoc location for GC05M098190:  view genomic region     (about GC identifiers)

Start:
98,190,908 bp from pter      End:
98,262,240 bp from pter
Size:
71,333 bases      Orientation:
minus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, 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, Cloud-Clone Corp., and/or eBioscience,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., and/or eBioscience, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, and/or others.)
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UniProtKB/Swiss-Prot: CHD1_HUMAN, O14646 (See protein sequence)
Recommended Name: Chromodomain-helicase-DNA-binding protein 1  
Size: 1710 amino acids; 196688 Da
Subunit: Component of the SAGA complex (By similarity). Interacts with BCLAF1, NCoR, SRP20 and SAFB (By
similarity). Specifically interacts with methylated H3K4me2 and H3K4me3. Interacts with the FACT complex, the PAF
complex and the U2 snRNP. Interacts directly with PAF1, SFA3A1, SFA3A2, SFA3A3, SNF2 and SSRP1
Selected PDB 3D structures from and Proteopedia for CHD1 (see all 7):
2B2T (3D)        2B2U (3D)        2B2V (3D)        2B2W (3D)        2B2Y (3D)        4B4C (3D)    
Secondary accessions: Q17RZ3
Alternative splicing: 2 isoforms:  O14646-1   O14646-2   

Explore the universe of human proteins at neXtProt for CHD1: NX_O14646

Explore proteomics data for CHD1 at MOPED

Post-translational modifications: 

  • Ubiquitination2 at Lys364, Lys1062
  • Modification sites at PhosphoSitePlus
  • Selected DME Specific Peptides for CHD1 (O14646) (see all 14)
     DEAHRLK  RAHRIGQ  TGTPLQN  ERMRPVK 


    See CHD1 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_001261.2  
    ENSEMBL proteins: 
     ENSP00000284049   ENSP00000422589   ENSP00000422225  

    CHD1 Human Recombinant Protein Products:

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    Browse OriGene Protein Over-expression Lysates
    OriGene Custom MassSpec
    OriGene Custom Protein Services for CHD1
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    Novus Biologicals CHD1 Protein
    Browse Sino Biological Recombinant Proteins
    Browse Sino Biological Cell Lysates
    Browse ProSpec Recombinant Proteins
    Cloud-Clone Corp. Proteins for CHD1

     
    Search eBioscience for Proteins for CHD1 

    CHD1 Antibody Products:

    EMD Millipore Mono- and Polyclonal Antibodies for the study of CHD1
    R&D Systems Antibodies for CHD1
    Cell Signaling Technology (CST) Antibodies for CHD1  (CHD-1)
    Browse OriGene Antibodies
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    Abcam antibodies for CHD1
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    Search ThermoFisher Antibodies for CHD1
    LSBio Antibodies in human, mouse, rat for CHD1

    CHD1 Assay Products:

    Browse Kits and Assays available from EMD Millipore
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    Browse R&D Systems for biochemical assays
    GenScript Custom Assay Services for CHD1
    Browse Enzo Life Sciences for kits & assays
    Cloud-Clone Corp. ELISAs for CHD1
    Cloud-Clone Corp. CLIAs for CHD1
    Search eBioscience for ELISAs for CHD1 


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    Selected InterPro protein domains (see all 9):
     IPR000953 Chromo_domain/shadow
     IPR000330 SNF2_N
     IPR023780 Chromo_domain
     IPR016197 Chromodomain-like
     IPR023779 Chromodomain_CS

    Graphical View of Domain Structure for InterPro Entry O14646

    ProtoNet protein and cluster: O14646

    4 Blocks protein domains:
    IPB000330 SNF2 related domain
    IPB000953 Chromo domain
    IPB001005 Myb DNA-binding domain
    IPB002464 ATP-dependent helicase


    UniProtKB/Swiss-Prot: CHD1_HUMAN, O14646
    Domain: The 2 chromodomains are involved in the binding to the histone H3 methyllysine at position 4 (H3K4me3)
    Similarity: Belongs to the SNF2/RAD54 helicase family
    Similarity: Contains 2 chromo domains
    Similarity: Contains 1 helicase ATP-binding domain
    Similarity: Contains 1 helicase C-terminal domain


    Find genes that share domains with CHD1           About GenesLikeMe


    (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,
    transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: CHD1_HUMAN, O14646
    Function: ATP-dependent chromatin-remodeling factor which functions as substrate recognition component of the
    transcription regulatory histone acetylation (HAT) complex SAGA. Regulates polymerase II transcription. Also
    required for efficient transcription by RNA polymerase I, and more specifically the polymerase I transcription
    termination step. Regulates negatively DNA replication. Not only involved in transcription-related
    chromatin-remodeling, but also required to maintain a specific chromatin configuration across the genome. Is also
    associated with histone deacetylase (HDAC) activity (By similarity). Required for the bridging of SNF2, the FACT
    complex, the PAF complex as well as the U2 snRNP complex to H3K4me3. Functions to modulate the efficiency of
    pre-mRNA splicing in part through physical bridging of spliceosomal components to H3K4me3. Required for
    maintaining open chromatin and pluripotency in embryonic stem cells
    Catalytic activity: ATP + H(2)O = ADP + phosphate

         Genatlas biochemistry entry for CHD1:
    DNA binding protein with two chromatin organization (chromo) domains and a helicase ATPase domain,1,binding A.T
    tracts, released into cytoplasm during mitosis,component of the chromatin remodeling complex

         Enzyme Numbers (IUBMB): EC 3.6.12 EC 3.6.4.121

         Gene Ontology (GO): Selected molecular function terms (see all 7):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003676nucleic acid binding ----
    GO:0003677DNA binding IEA--
    GO:0004003ATP-dependent DNA helicase activity TAS9326634
    GO:0004386helicase activity ----
    GO:0005515protein binding IPI--
         
    Find genes that share ontologies with CHD1           About GenesLikeMe


    Phenotypes:
         2 GenomeRNAi human phenotypes for CHD1:
     Synthetic lethal with c-Myc af  Wnt reporter downregulated 

         1 MGI phenotypic allele for Chd1 (no phenotypes)

    Find genes that share phenotypes with CHD1           About GenesLikeMe

    Animal Models:
       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for CHD1
       inGenious Targeting Laboratory: Contact us about creating complex and humanized mouse models for CHD1

       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for CHD1
       genOway customized Knockin model: humanization, point mutation, expression monitoring, etc. for CHD1

    miRNA
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    miRTarBase miRNAs that target CHD1:
    hsa-let-7b-5p (MIRT032461), hsa-mir-98-5p (MIRT027799), hsa-mir-130b-5p (MIRT038317), hsa-mir-30c-5p (MIRT047842), hsa-mir-30a-5p (MIRT005127), hsa-mir-30b-5p (MIRT023406), hsa-let-7c-5p (MIRT051818)

    Block miRNA regulation of human, mouse, rat CHD1 using miScript Target Protectors
    Selected qRT-PCR Assays for microRNAs that regulate CHD1 (see all 68):
    hsa-miR-100* hsa-miR-4272 hsa-miR-30d hsa-miR-4275 hsa-miR-30a hsa-miR-489 hsa-miR-3613-3p hsa-miR-4293
    SwitchGear 3'UTR luciferase reporter plasmidCHD1 3' UTR sequence
    Inhib. RNA
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    OriGene RNAi products in human, mouse, rat for CHD1
    Predesigned siRNA for gene silencing in human, mouse, rat CHD1

    Gene Editing
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    Clone
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    GenScript: all cDNA clones in your preferred vector: CHD1 (NM_001270)
    Sino Biological Human cDNA Clone for CHD1
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for CHD1
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat CHD1

    Cell Line
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    Browse ESI BIO Cell Lines and PureStem Progenitors for CHD1 
    In Situ Assay
    Products:
       

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CHD1


    (According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Subcellular locations from UniProtKB/Swiss-Prot
    CHD1_HUMAN, O14646: Nucleus. Cytoplasm (By similarity). Note=Is released into the cytoplasm when cells enter
    mitosis and is reincorporated into chromatin during telophase-cytokinesis (By similarity)
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    nucleus5

    Gene Ontology (GO): 2 cellular component terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus IEA--
    GO:0005737cytoplasm IEA--

    Find genes that share ontologies with CHD1           About GenesLikeMe


    (SuperPaths according to PathCards, Pathways according to 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 QIAGEN, 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 Apr 2014 via Entrez Gene).
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    SuperPaths for CHD1 About    
    See pathways by source

    SuperPathContained pathways About
    1Chromatin Regulation / Acetylation
    Chromatin Regulation / Acetylation


    Find genes that share SuperPaths with CHD1           About GenesLikeMe

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways


    1 Cell Signaling Technology (CST) Pathway for CHD1
        Chromatin Regulation / Acetylation



        Pathway & Disease-focused RT2 Profiler PCR Array including CHD1: 
              Epigenetic Chromatin Remodeling Factors in human mouse rat

    Interactions:

        GeneGlobe Interaction Network for CHD1

    STRING Interaction Network Preview (showing 5 interactants - click image to see 25)

    Selected Interacting proteins for CHD1 (O146461, 3 ENSP000002840494) via UniProtKB, MINT, STRING, and/or I2D (see all 178)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    HIST1H3AP684313, ENSP000003502754I2D: score=1 STRING: ENSP00000350275
    HIST1H3BP684313I2D: score=1 
    HIST1H3CP684313I2D: score=1 
    HIST1H3DP684313I2D: score=1 
    HIST1H3EP684313I2D: score=1 
    About this table

    Gene Ontology (GO): 4 biological process terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006338chromatin remodeling IEA--
    GO:0006351transcription, DNA-templated IEA--
    GO:0006357regulation of transcription from RNA polymerase II promoter TAS9326634
    GO:0032508DNA duplex unwinding TAS9326634

    Find genes that share ontologies with CHD1           About GenesLikeMe



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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    Browse Small Molecules at EMD Millipore
       Browse drugs & compounds from Enzo Life Sciences
      Browse compounds at ApexBio 

    Browse Tocris compounds for CHD1

    1 DrugBank Compound for CHD1    About this table
    CompoundSynonyms CAS #TypeActionsPubMed Ids
    Epirubicin-- 56420-45-2targetantagonist17139284 17016423

    1 Novoseek inferred chemical compound relationship for CHD1 gene    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    lysine 39.9 3 17433364 (2)



    Find genes that share compounds with CHD1           About GenesLikeMe



    (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,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
    Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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    REFSEQ mRNAs for CHD1 gene: 
    NM_001270.2  

    Unigene Cluster for CHD1:

    Chromodomain helicase DNA binding protein 1
    Hs.643465  [show with all ESTs]
    Unigene Representative Sequence: NM_001270
    11 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000514344(uc010jbn.3) ENST00000512392 ENST00000284049(uc003knf.3)
    ENST00000512844 ENST00000513064 ENST00000505657 ENST00000511067 ENST00000508756
    ENST00000414220 ENST00000511628 ENST00000505982
    miRNA
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    Block miRNA regulation of human, mouse, rat CHD1 using miScript Target Protectors
    Selected qRT-PCR Assays for microRNAs that regulate CHD1 (see all 68):
    hsa-miR-100* hsa-miR-4272 hsa-miR-30d hsa-miR-4275 hsa-miR-30a hsa-miR-489 hsa-miR-3613-3p hsa-miR-4293
    SwitchGear 3'UTR luciferase reporter plasmidCHD1 3' UTR sequence
    Inhib. RNA
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    Predesigned siRNA for gene silencing in human, mouse, rat CHD1
    Clone
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    GenScript: all cDNA clones in your preferred vector: CHD1 (NM_001270)
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    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat CHD1
    Primer
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    Pre-validated RT2 qPCR Primer Assay in human, mouse, rat CHD1
      QuantiTect SYBR Green Assays in human, mouse, rat CHD1
      QuantiFast Probe-based Assays in human, mouse, rat CHD1

    Additional mRNA sequence: 

    AF006513.1 AK094871.1 BC054860.1 BC117134.1 BX648767.1 

    8 DOTS entries:

    DT.91913190  DT.100660877  DT.444956  DT.444955  DT.100774400  DT.120836582  DT.91861675  DT.100672370 

    Selected AceView cDNA sequences (see all 137):

    AI088996 BE048526 BU173077 AW468529 AK094871 BX501917 AA343708 AW075773 
    BM692646 BQ719338 BQ002193 BU186631 CB242516 AA609977 AA599181 H80752 
    C01297 CB215482 AA758842 AI990247 BM723433 AU125712 BX495008 BM698633 

    GeneLoc Exon Structure

    Selected Alternative Splicing Database (ASD) splice patterns (SP) for CHD1 (see all 14)    About this scheme

    ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9a · 9b ^ 10a · 10b ^ 11 ^ 12 ^ 13 ^ 14 ^ 15 ^ 16a · 16b ^ 17 ^ 18 ^ 19 ^ 20 ^ 21 ^ 22 ^ 23 ^
    SP1:                                                                                                                                                            
    SP2:                                                                                                                                                            
    SP3:                                                                                                                                                            
    SP4:                                                                                                                                                            
    SP5:                                                                                                                                                            

    ExUns: 24 ^ 25 ^ 26 ^ 27 ^ 28 ^ 29 ^ 30a · 30b ^ 31 ^ 32 ^ 33a · 33b ^ 34 ^ 35 ^ 36 ^ 37a · 37b ^ 38
    SP1:                                                                                                            
    SP2:                                            -           -                                                   
    SP3:                                                                                                            
    SP4:                                                                                                            
    SP5:                                                                                                            


    ECgene alternative splicing isoforms for CHD1

    (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™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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    CHD1 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: CTCTGGAAAC
    CHD1 Expression
    About this image


    CHD1 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     
     Bone (Muscoskeletal System)
             Bone Marrow
    CHD1 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    CHD1 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.643465
        Pathway & Disease-focused RT2 Profiler PCR Array including CHD1: 
              Epigenetic Chromatin Remodeling Factors in human mouse rat

    Primer
    Products:
    OriGene qSTAR qPCR primer pairs in human, mouse for CHD1
    Pre-validated RT2 qPCR Primer Assay in human, mouse, rat CHD1
    QuantiTect SYBR Green Assays in human, mouse, rat CHD1
    QuantiFast Probe-based Assays in human, mouse, rat CHD1
    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CHD1

    (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

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    This gene was present in the common ancestor of eukaryotes.

    Orthologs for CHD1 gene from Selected species (see all 20)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Chd11 , 5 chromodomain helicase DNA binding protein 11, 5 88.02(n)1
    95.73(a)1
      17 (8.95 cM)5
    126481  NM_007690.31  NP_031716.21 
     157049675 
    chicken
    (Gallus gallus)
    Aves CHD11 chromodomain helicase DNA binding protein 1 81.93(n)
    90.72(a)
      395783  NM_204941.1  NP_990272.1 
    lizard
    (Anolis carolinensis)
    Reptilia CHD16
    chromodomain helicase DNA binding protein 1
    86(a)
    1 ↔ 1
    2(27407616-27455512)
    tropical clawed frog
    (Xenopus tropicalis)
    Amphibia Str.174482 Transcribed sequence with moderate similarity to protein more 81.32(n)    AL960736.2 
    zebrafish
    (Danio rerio)
    Actinopterygii zgc:1735061 zgc:173506 70.86(n)
    80.49(a)
      563236  NM_001128298.2  NP_001121770.2 
    fruit fly
    (Drosophila melanogaster)
    Insecta Chd13 chromatin binding 54(a)   2 23C4   --
    worm
    (Caenorhabditis elegans)
    Secernentea H06O01.23 chromodomain-helicase-DNA-biniding
    protein
    48(a)   I(7017609-7023274)   --
    baker's yeast
    (Saccharomyces cerevisiae)
    Saccharomycetes CHD11 CHD1 49.92(n)
    41.11(a)
      856911   NP_011091.1 
    soybean
    (Glycine max)
    eudicotyledons 467604242   -- 77.88(n)  


    ENSEMBL Gene Tree for CHD1 (if available)
    TreeFam Gene Tree for CHD1 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for CHD1 gene
    CHD62  CHD52  CHD82  CHD92  CHD32  CHD42  CHD72  CHD22  
    3 SIMAP similar genes for CHD1 using alignment to 5 protein entries:     CHD1_HUMAN (see all proteins):
    CHD2    C17orf64    SMARCA5

    Find genes that share paralogs with CHD1           About GenesLikeMe



    (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), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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    Selected SNPs for CHD1 (see all 1549)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 5 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1495262211,2
    --98190458(+) AATATC/TTGTAG 1 -- ds50010--------
    rs171663971,2
    C,F,H--98190612(+) GCTGAA/GTATAA 1 -- ds500111Minor allele frequency- G:0.05NA NS EA WA 1340
    rs1835530071,2
    --98190644(+) TAAATA/GTAAAG 1 -- ds50010--------
    rs1887422811,2
    --98190662(+) TAATAA/GTATCT 1 -- ds50010--------
    rs1141725271,2
    F--98190690(+) GCCAAC/GAAAAA 1 -- ds50011Minor allele frequency- G:0.01NA 120
    rs1440564471,2
    C--98190737(+) ATAGTA/CTCCAA 1 -- ds50010--------
    rs1404803731,2
    --98190739(+) AGTCTA/CCAAAA 1 -- ds50010--------
    rs1447562541,2
    --98190801(+) TACTTC/TTTCTG 1 -- ds50010--------
    rs1474808481,2
    --98190830(+) AAAACA/GGGGGT 1 -- ds50010--------
    rs357365451,2
    C--98190841(+) AGGGGG/CCGGTG 1 -- ds50011Minor allele frequency- C:0.50NA 2

    HapMap Linkage Disequilibrium report for CHD1 (98190908 - 98262240 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 3 variations for CHD1:    About this table    
    Variant IDTypeSubtypePubMed ID
    nsv507277CNV Insertion20534489
    dgv6224n71CNV Loss21882294
    nsv882414CNV Gain21882294

    Human Gene Mutation Database (HGMD): CHD1
    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing CHD1
    DNA2.0 Custom Variant and Variant Library Synthesis for CHD1

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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    OMIM gene information: 602118    OMIM disorders: --


    Find genes that share disorders with CHD1           About GenesLikeMe

    Genetic Association Database (GAD): CHD1
    Human Genome Epidemiology (HuGE) Navigator: CHD1 (5 documents)

    Export disorders for CHD1 gene to outside databases

    (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)
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    PubMed articles for CHD1 gene, integrated from 10 sources (see all 60):
    (articles sorted by number of sources associating them with CHD1)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Characterization of the CHD family of proteins. (PubMed id 9326634)1, 2, 3 Woodage T.... Collins F.S. (Proc. Natl. Acad. Sci. U.S.A. 1997)
    2. Human but not yeast CHD1 binds directly and selectively to histone H3 methylated at lysine 4 via its tandem chromodomains. (PubMed id 16263726)1, 2, 9 Sims R.J. III...Reinberg D. (J. Biol. Chem. 2005)
    3. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PubMed id 20379614)1, 4 Rose J.E....Uhl G.R. (Mol. Med. 2010)
    4. Interleukin 10 polymorphisms differentially influence the risk of gastric cancer in East Asians and Caucasians. (PubMed id 20363151)1, 4 Won H.H....Lee K.A. (Cytokine 2010)
    5. Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PubMed id 17081983)1, 2 Olsen J.V....Mann M. (Cell 2006)
    6. Double chromodomains cooperate to recognize the methylated histone H3 tail. (PubMed id 16372014)1, 2 Flanagan J.F.... Khorasanizadeh S. (Nature 2005)
    7. A mammalian DNA-binding protein that contains a chromodomain and an SNF2/SWI2-like helicase domain. (PubMed id 8460153)1, 3 Delmas V....Perry R.P. (Proc. Natl. Acad. Sci. U.S.A. 1993)
    8. DNA-binding and chromatin localization properties of CHD1. (PubMed id 7739555)1, 9 Stokes D.G. and Perry R.P. (Mol. Cell. Biol. 1995)
    9. CHD1 interacts with SSRP1 and depends on both its chromodomain and its ATPase/helicase-like domain for proper association with chromatin. (PubMed id 10199952)1, 9 Kelley D.E....Perry R.P. (Chromosoma 1999)
    10. Recognition of trimethylated histone H3 lysine 4 facilitates the recruitment of transcription postinitiation factors and pre-mRNA splicing. (PubMed id 18042460)2, 9 Sims R.J. III... Reinberg D. (Mol. Cell 2007)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     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)
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    Entrez Gene: 1105 HGNC: 1915 AceView: CHD1 Ensembl:ENSG00000153922 euGenes: HUgn1105
    ECgene: CHD1 H-InvDB: CHD1

    (According to HUGE)
    About This Section

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      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
    About This Section

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    NameDescription
    PharmGKB entry for CHD1 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section

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    Patent Information for CHD1 gene:
    Search GeneIP for patents involving CHD1

    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, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, eBioscience, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
    Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
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