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P40201

- CHD1_MOUSE

UniProt

P40201 - CHD1_MOUSE

Protein

Chromodomain-helicase-DNA-binding protein 1

Gene

Chd1

Organism
Mus musculus (Mouse)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 120 (01 Oct 2014)
      Sequence version 3 (27 Jul 2011)
      Previous versions | rss
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    Functioni

    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. 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 By similarity. Required for maintaining open chromatin and pluripotency in embryonic stem cells. Is also associated with histone deacetylase (HDAC) activity.By similarity2 Publications

    Catalytic activityi

    ATP + H2O = ADP + phosphate.

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Nucleotide bindingi504 – 5118ATPPROSITE-ProRule annotation

    GO - Molecular functioni

    1. ATP binding Source: UniProtKB-KW
    2. chromatin binding Source: UniProtKB
    3. DNA binding Source: UniProtKB-KW
    4. helicase activity Source: UniProtKB

    GO - Biological processi

    1. chromatin assembly or disassembly Source: UniProtKB
    2. chromatin remodeling Source: MGI
    3. regulation of transcription, DNA-templated Source: UniProtKB-KW
    4. transcription, DNA-templated Source: UniProtKB-KW

    Keywords - Molecular functioni

    Chromatin regulator, Helicase, Hydrolase

    Keywords - Biological processi

    Transcription, Transcription regulation

    Keywords - Ligandi

    ATP-binding, DNA-binding, Nucleotide-binding

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Chromodomain-helicase-DNA-binding protein 1 (EC:3.6.4.12)
    Short name:
    CHD-1
    Alternative name(s):
    ATP-dependent helicase CHD1
    Gene namesi
    Name:Chd1
    Synonyms:Chd-1
    OrganismiMus musculus (Mouse)
    Taxonomic identifieri10090 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
    ProteomesiUP000000589: Chromosome 17

    Organism-specific databases

    MGIiMGI:88393. Chd1.

    Subcellular locationi

    Nucleus. Cytoplasm
    Note: Is released into the cytoplasm when cells enter mitosis and is reincorporated into chromatin during telophase-cytokinesis.

    GO - Cellular componenti

    1. cytoplasm Source: UniProtKB-SubCell
    2. nucleus Source: UniProtKB

    Keywords - Cellular componenti

    Cytoplasm, Nucleus

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 17111711Chromodomain-helicase-DNA-binding protein 1PRO_0000080225Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei214 – 2141PhosphoserineBy similarity
    Modified residuei215 – 2151PhosphoserineBy similarity
    Modified residuei235 – 2351PhosphothreonineBy similarity
    Modified residuei239 – 2391PhosphoserineBy similarity
    Modified residuei248 – 2481PhosphothreonineBy similarity
    Modified residuei250 – 2501PhosphoserineBy similarity
    Modified residuei1023 – 10231PhosphoserineBy similarity
    Modified residuei1038 – 10381PhosphoserineBy similarity
    Modified residuei1079 – 10791PhosphoserineBy similarity
    Modified residuei1094 – 10941PhosphoserineBy similarity
    Modified residuei1096 – 10961PhosphoserineBy similarity
    Modified residuei1098 – 10981PhosphoserineBy similarity
    Modified residuei1100 – 11001PhosphoserineBy similarity
    Modified residuei1353 – 13531PhosphoserineBy similarity
    Modified residuei1355 – 13551PhosphoserineBy similarity
    Modified residuei1356 – 13561PhosphoserineBy similarity
    Modified residuei1360 – 13601PhosphoserineBy similarity
    Modified residuei1363 – 13631PhosphoserineBy similarity
    Modified residuei1678 – 16781PhosphoserineBy similarity

    Keywords - PTMi

    Phosphoprotein

    Proteomic databases

    MaxQBiP40201.
    PaxDbiP40201.
    PRIDEiP40201.

    PTM databases

    PhosphoSiteiP40201.

    Expressioni

    Tissue specificityi

    Abundance is higher in cells representing early stages of the B-lymphoid lineage such as pre-B and B-cells, than in cells representing mature plasmacytes or other cell lineages such as fibroblasts.

    Gene expression databases

    ArrayExpressiP40201.
    BgeeiP40201.
    CleanExiMM_CHD1.
    GenevestigatoriP40201.

    Interactioni

    Subunit structurei

    Component of the SAGA complex 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 By similarity. Interacts with BCLAF1, NCoR, SRP20 and SAFB.By similarity3 Publications

    Protein-protein interaction databases

    BioGridi198693. 2 interactions.
    IntActiP40201. 2 interactions.
    MINTiMINT-4090783.

    Structurei

    3D structure databases

    ProteinModelPortaliP40201.
    SMRiP40201. Positions 268-440, 1122-1327.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini270 – 36293Chromo 1PROSITE-ProRule annotationAdd
    BLAST
    Domaini387 – 45064Chromo 2PROSITE-ProRule annotationAdd
    BLAST
    Domaini491 – 661171Helicase ATP-bindingPROSITE-ProRule annotationAdd
    BLAST
    Domaini790 – 941152Helicase C-terminalPROSITE-ProRule annotationAdd
    BLAST
    Repeati1629 – 163351
    Repeati1635 – 163952
    Repeati1641 – 164553

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni1629 – 1645173 X 5 AA repeats of H-S-D-H-RAdd
    BLAST

    Motif

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Motifi612 – 6154DEAH box

    Compositional bias

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Compositional biasi1 – 7070Ser-richAdd
    BLAST
    Compositional biasi116 – 13621Ser-richAdd
    BLAST

    Domaini

    The 2 chromodomains are involved in the binding to the histone H3 methyllysine at position 4 (H3K4me3).By similarity

    Sequence similaritiesi

    Belongs to the SNF2/RAD54 helicase family.Curated
    Contains 2 chromo domains.PROSITE-ProRule annotation
    Contains 1 helicase ATP-binding domain.PROSITE-ProRule annotation
    Contains 1 helicase C-terminal domain.PROSITE-ProRule annotation

    Keywords - Domaini

    Repeat

    Phylogenomic databases

    eggNOGiCOG0553.
    GeneTreeiENSGT00560000076896.
    HOGENOMiHOG000207917.
    HOVERGENiHBG005325.
    InParanoidiQ14BJ0.
    KOiK11367.
    OMAiMDHRASS.
    OrthoDBiEOG7NPFSB.
    TreeFamiTF300674.

    Family and domain databases

    Gene3Di3.40.50.300. 2 hits.
    InterProiIPR023780. Chromo_domain.
    IPR000953. Chromo_domain/shadow.
    IPR016197. Chromodomain-like.
    IPR023779. Chromodomain_CS.
    IPR025260. DUF4208.
    IPR014001. Helicase_ATP-bd.
    IPR001650. Helicase_C.
    IPR027417. P-loop_NTPase.
    IPR000330. SNF2_N.
    [Graphical view]
    PfamiPF00385. Chromo. 2 hits.
    PF13907. DUF4208. 1 hit.
    PF00271. Helicase_C. 1 hit.
    PF00176. SNF2_N. 1 hit.
    [Graphical view]
    SMARTiSM00298. CHROMO. 2 hits.
    SM00487. DEXDc. 1 hit.
    SM00490. HELICc. 1 hit.
    [Graphical view]
    SUPFAMiSSF52540. SSF52540. 2 hits.
    SSF54160. SSF54160. 2 hits.
    PROSITEiPS00598. CHROMO_1. 2 hits.
    PS50013. CHROMO_2. 2 hits.
    PS51192. HELICASE_ATP_BIND_1. 1 hit.
    PS51194. HELICASE_CTER. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    P40201-1 [UniParc]FASTAAdd to Basket

    « Hide

    MNGHSDEESV RNGSGESSQS GDDCGSASGS GSGSSSGSSS DGSSSQSGSS     50
    DSDSGSDSGS QSESESDTSR ENKVQAKPPK VDGAEFWKSS PSILAVQRSA 100
    MLRKQPQQAQ QQRPASSNSG SEEDSSSSED SDDSSSGAKR KKHNDEDWQM 150
    SGSGSPSQSG SDSESEEERD KSSCDGTESD YEPKNKVRSR KPQNRSKSKN 200
    GKKILGQKKR QIDSSEDEDD EDYDNDKRSS RRQATVNVSY KEDEEMKTDS 250
    DDLLEVCGED VPQPEDEEFE TIERVMDCRV GRKGATGATT TIYAVEADGD 300
    PNAGFERNKE PGDIQYLIKW KGWSHIHNTW ETEETLKQQN VRGMKKLDNY 350
    KKKDQETKRW LKNASPEDVE YYNCQQELTD DLHKQYQIVE RIIAHSNQKS 400
    AAGLPDYYCK WQGLPYSECS WEDGALISKK FQTCIDEYFS RNQSKTTPFK 450
    DCKVLKQRPR FVALKKQPSY IGGHEGLELR DYQLNGLNWL AHSWCKGNSC 500
    ILADEMGLGK TIQTISFLNY LFHEHQLYGP FLLVVPLSTL TSWQREIQTW 550
    ASQMNAVVYL GDINSRNMIR THEWMHPQTK RLKFNILLTT YEILLKDKAF 600
    LGGLNWAFIG VDEAHRLKND DSLLYKTLID FKSNHRLLIT GTPLQNSLKE 650
    LWSLLHFIMP EKFSSWEDFE EEHGKGREYG YASLHKELEP FLLRRVKKDV 700
    EKSLPAKVEQ ILRMEMSALQ KQYYKWILTR NYKALSKGSK GSTSGFLNIM 750
    MELKKCCNHC YLIKPPDNNE FYNKQEALQH LIRSSGKLIL LDKLLIRLRE 800
    RGNRVLIFSQ MVRMLDILAE YLKYRQFPFQ RLDGSIKGEL RKQALDHFNA 850
    EGSEDFCFLL STRAGGLGIN LASADTVVIF DSDWNPQNDL QAQARAHRIG 900
    QKKQVNIYRL VTKGSVEEDI LERAKKKMVL DHLVIQRMDT TGKTVLHTGS 950
    APSSSTPFNK EELSAILKFG AEELFKEPEG EEQEPQEMDI DEILKRAETH 1000
    ENEPGPLSVG DELLSQFKVA NFSNMDEDDI ELEPERNSKN WEEIIPEEQR 1050
    RRLEEEERQK ELEEIYMLPR MRNCAKQISF NGSEGRRSRS RRYSGSDSDS 1100
    ISERKRPKKR GRPRTIPREN IKGFSDAEIR RFIKSYKKFG GPLERLDAIA 1150
    RDAELVDKSE TDLRRLGELV HNGCVKALKD SSSGTERAGG RLGKVKGPTF 1200
    RISGVQVNAK LVIAHEDELI PLHKSIPSDP EERKQYTIPC HTKAAHFDID 1250
    WGKEDDSNLL IGIYEYGYGS WEMIKMDPDL SLTHKILPDD PDKKPQAKQL 1300
    QTRADYLIKL LSRDLAKREA QRLCGAGGSK RRKTRAKKSK AMKSIKVKEE 1350
    IKSDSSPLPS EKSDEDDDKL NDSKPESKDR SKKSVVSDAP VHITASGEPV 1400
    PIAEESEELD QKTFSICKER MRPVKAALKQ LDRPEKGLSE REQLEHTRQC 1450
    LIKIGDHITE CLKEYSNPEQ IKQWRKNLWI FVSKFTEFDA RKLHKLYKHA 1500
    IKKRQESQQN SDQNSNVATT HVIRNPDMER LKENTNHDDS SRDSYSSDRH 1550
    LSQYHDHHKD RHQGDSYKKS DSRKRPYSSF SNGKDHREWD HYRQDSRYYS 1600
    DREKHRKLDD HRSREHRPSL EGGLKDRCHS DHRSHSDHRM HSDHRSSSEH 1650
    THHKSSRDYR YLSDWQLDHR AASSGPRSPL DQRSPYGSRS PFEHSAEHRS 1700
    TPEHTWSSRK T 1711
    Length:1,711
    Mass (Da):196,385
    Last modified:July 27, 2011 - v3
    Checksum:i51499636E943A856
    GO

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti159 – 1591S → L in AAB08486. (PubMed:8460153)Curated

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    L10410 mRNA. Translation: AAB08486.1.
    CH466630 Genomic DNA. Translation: EDL20454.1.
    BC115822 mRNA. Translation: AAI15823.1.
    CCDSiCCDS28416.1.
    PIRiA47392.
    RefSeqiNP_031716.2. NM_007690.3.
    UniGeneiMm.8137.

    Genome annotation databases

    EnsembliENSMUST00000024627; ENSMUSP00000024627; ENSMUSG00000023852.
    GeneIDi12648.
    KEGGimmu:12648.
    UCSCiuc008aou.2. mouse.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    L10410 mRNA. Translation: AAB08486.1 .
    CH466630 Genomic DNA. Translation: EDL20454.1 .
    BC115822 mRNA. Translation: AAI15823.1 .
    CCDSi CCDS28416.1.
    PIRi A47392.
    RefSeqi NP_031716.2. NM_007690.3.
    UniGenei Mm.8137.

    3D structure databases

    ProteinModelPortali P40201.
    SMRi P40201. Positions 268-440, 1122-1327.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 198693. 2 interactions.
    IntActi P40201. 2 interactions.
    MINTi MINT-4090783.

    PTM databases

    PhosphoSitei P40201.

    Proteomic databases

    MaxQBi P40201.
    PaxDbi P40201.
    PRIDEi P40201.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENSMUST00000024627 ; ENSMUSP00000024627 ; ENSMUSG00000023852 .
    GeneIDi 12648.
    KEGGi mmu:12648.
    UCSCi uc008aou.2. mouse.

    Organism-specific databases

    CTDi 1105.
    MGIi MGI:88393. Chd1.

    Phylogenomic databases

    eggNOGi COG0553.
    GeneTreei ENSGT00560000076896.
    HOGENOMi HOG000207917.
    HOVERGENi HBG005325.
    InParanoidi Q14BJ0.
    KOi K11367.
    OMAi MDHRASS.
    OrthoDBi EOG7NPFSB.
    TreeFami TF300674.

    Miscellaneous databases

    NextBioi 281852.
    PROi P40201.
    SOURCEi Search...

    Gene expression databases

    ArrayExpressi P40201.
    Bgeei P40201.
    CleanExi MM_CHD1.
    Genevestigatori P40201.

    Family and domain databases

    Gene3Di 3.40.50.300. 2 hits.
    InterProi IPR023780. Chromo_domain.
    IPR000953. Chromo_domain/shadow.
    IPR016197. Chromodomain-like.
    IPR023779. Chromodomain_CS.
    IPR025260. DUF4208.
    IPR014001. Helicase_ATP-bd.
    IPR001650. Helicase_C.
    IPR027417. P-loop_NTPase.
    IPR000330. SNF2_N.
    [Graphical view ]
    Pfami PF00385. Chromo. 2 hits.
    PF13907. DUF4208. 1 hit.
    PF00271. Helicase_C. 1 hit.
    PF00176. SNF2_N. 1 hit.
    [Graphical view ]
    SMARTi SM00298. CHROMO. 2 hits.
    SM00487. DEXDc. 1 hit.
    SM00490. HELICc. 1 hit.
    [Graphical view ]
    SUPFAMi SSF52540. SSF52540. 2 hits.
    SSF54160. SSF54160. 2 hits.
    PROSITEi PS00598. CHROMO_1. 2 hits.
    PS50013. CHROMO_2. 2 hits.
    PS51192. HELICASE_ATP_BIND_1. 1 hit.
    PS51194. HELICASE_CTER. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "A mammalian DNA-binding protein that contains a chromodomain and an SNF2/SWI2-like helicase domain."
      Delmas V., Stokes D.G., Perry R.P.
      Proc. Natl. Acad. Sci. U.S.A. 90:2414-2418(1993) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA].
    2. Mural R.J., Adams M.D., Myers E.W., Smith H.O., Venter J.C.
      Submitted (SEP-2005) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    3. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
      The MGC Project Team
      Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    4. "DNA-binding and chromatin localization properties of CHD1."
      Stokes D.G., Perry R.P.
      Mol. Cell. Biol. 15:2745-2753(1995) [PubMed] [Europe PMC] [Abstract]
      Cited for: SUBCELLULAR LOCATION, DNA-BINDING.
    5. "CHD1 interacts with SSRP1 and depends on both its chromodomain and its ATPase/helicase-like domain for proper association with chromatin."
      Kelley D.E., Stokes D.G., Perry R.P.
      Chromosoma 108:10-25(1999) [PubMed] [Europe PMC] [Abstract]
      Cited for: SUBCELLULAR LOCATION, DOMAIN, INTERACTION WITH SSRP1.
    6. "CHD1 associates with NCoR and histone deacetylase as well as with RNA splicing proteins."
      Tai H.H., Geisterfer M., Bell J.C., Moniwa M., Davie J.R., Boucher L., McBurney M.W.
      Biochem. Biophys. Res. Commun. 308:170-176(2003) [PubMed] [Europe PMC] [Abstract]
      Cited for: INTERACTION WITH BCLAF1; NCOR; SRP20 AND SAF-B, FUNCTION.
    7. Cited for: FUNCTION, INTERACTION WITH CHROMATIN.

    Entry informationi

    Entry nameiCHD1_MOUSE
    AccessioniPrimary (citable) accession number: P40201
    Secondary accession number(s): Q14BJ0
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: February 1, 1995
    Last sequence update: July 27, 2011
    Last modified: October 1, 2014
    This is version 120 of the entry and version 3 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programChordata Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. MGD cross-references
      Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3