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P40201

- CHD1_MOUSE

UniProt

P40201 - CHD1_MOUSE

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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

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
Complete GO annotation...

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-KW
  2. nucleus Source: UniProtKB
Complete GO annotation...

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

BgeeiP40201.
CleanExiMM_CHD1.
ExpressionAtlasiP40201. baseline and differential.
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. 3 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.
GeneTreeiENSGT00760000119067.
HOGENOMiHOG000207917.
HOVERGENiHBG005325.
InParanoidiP40201.
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

        10         20         30         40         50
MNGHSDEESV RNGSGESSQS GDDCGSASGS GSGSSSGSSS DGSSSQSGSS
60 70 80 90 100
DSDSGSDSGS QSESESDTSR ENKVQAKPPK VDGAEFWKSS PSILAVQRSA
110 120 130 140 150
MLRKQPQQAQ QQRPASSNSG SEEDSSSSED SDDSSSGAKR KKHNDEDWQM
160 170 180 190 200
SGSGSPSQSG SDSESEEERD KSSCDGTESD YEPKNKVRSR KPQNRSKSKN
210 220 230 240 250
GKKILGQKKR QIDSSEDEDD EDYDNDKRSS RRQATVNVSY KEDEEMKTDS
260 270 280 290 300
DDLLEVCGED VPQPEDEEFE TIERVMDCRV GRKGATGATT TIYAVEADGD
310 320 330 340 350
PNAGFERNKE PGDIQYLIKW KGWSHIHNTW ETEETLKQQN VRGMKKLDNY
360 370 380 390 400
KKKDQETKRW LKNASPEDVE YYNCQQELTD DLHKQYQIVE RIIAHSNQKS
410 420 430 440 450
AAGLPDYYCK WQGLPYSECS WEDGALISKK FQTCIDEYFS RNQSKTTPFK
460 470 480 490 500
DCKVLKQRPR FVALKKQPSY IGGHEGLELR DYQLNGLNWL AHSWCKGNSC
510 520 530 540 550
ILADEMGLGK TIQTISFLNY LFHEHQLYGP FLLVVPLSTL TSWQREIQTW
560 570 580 590 600
ASQMNAVVYL GDINSRNMIR THEWMHPQTK RLKFNILLTT YEILLKDKAF
610 620 630 640 650
LGGLNWAFIG VDEAHRLKND DSLLYKTLID FKSNHRLLIT GTPLQNSLKE
660 670 680 690 700
LWSLLHFIMP EKFSSWEDFE EEHGKGREYG YASLHKELEP FLLRRVKKDV
710 720 730 740 750
EKSLPAKVEQ ILRMEMSALQ KQYYKWILTR NYKALSKGSK GSTSGFLNIM
760 770 780 790 800
MELKKCCNHC YLIKPPDNNE FYNKQEALQH LIRSSGKLIL LDKLLIRLRE
810 820 830 840 850
RGNRVLIFSQ MVRMLDILAE YLKYRQFPFQ RLDGSIKGEL RKQALDHFNA
860 870 880 890 900
EGSEDFCFLL STRAGGLGIN LASADTVVIF DSDWNPQNDL QAQARAHRIG
910 920 930 940 950
QKKQVNIYRL VTKGSVEEDI LERAKKKMVL DHLVIQRMDT TGKTVLHTGS
960 970 980 990 1000
APSSSTPFNK EELSAILKFG AEELFKEPEG EEQEPQEMDI DEILKRAETH
1010 1020 1030 1040 1050
ENEPGPLSVG DELLSQFKVA NFSNMDEDDI ELEPERNSKN WEEIIPEEQR
1060 1070 1080 1090 1100
RRLEEEERQK ELEEIYMLPR MRNCAKQISF NGSEGRRSRS RRYSGSDSDS
1110 1120 1130 1140 1150
ISERKRPKKR GRPRTIPREN IKGFSDAEIR RFIKSYKKFG GPLERLDAIA
1160 1170 1180 1190 1200
RDAELVDKSE TDLRRLGELV HNGCVKALKD SSSGTERAGG RLGKVKGPTF
1210 1220 1230 1240 1250
RISGVQVNAK LVIAHEDELI PLHKSIPSDP EERKQYTIPC HTKAAHFDID
1260 1270 1280 1290 1300
WGKEDDSNLL IGIYEYGYGS WEMIKMDPDL SLTHKILPDD PDKKPQAKQL
1310 1320 1330 1340 1350
QTRADYLIKL LSRDLAKREA QRLCGAGGSK RRKTRAKKSK AMKSIKVKEE
1360 1370 1380 1390 1400
IKSDSSPLPS EKSDEDDDKL NDSKPESKDR SKKSVVSDAP VHITASGEPV
1410 1420 1430 1440 1450
PIAEESEELD QKTFSICKER MRPVKAALKQ LDRPEKGLSE REQLEHTRQC
1460 1470 1480 1490 1500
LIKIGDHITE CLKEYSNPEQ IKQWRKNLWI FVSKFTEFDA RKLHKLYKHA
1510 1520 1530 1540 1550
IKKRQESQQN SDQNSNVATT HVIRNPDMER LKENTNHDDS SRDSYSSDRH
1560 1570 1580 1590 1600
LSQYHDHHKD RHQGDSYKKS DSRKRPYSSF SNGKDHREWD HYRQDSRYYS
1610 1620 1630 1640 1650
DREKHRKLDD HRSREHRPSL EGGLKDRCHS DHRSHSDHRM HSDHRSSSEH
1660 1670 1680 1690 1700
THHKSSRDYR YLSDWQLDHR AASSGPRSPL DQRSPYGSRS PFEHSAEHRS
1710
TPEHTWSSRK T
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. 3 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 ENSGT00760000119067.
HOGENOMi HOG000207917.
HOVERGENi HBG005325.
InParanoidi P40201.
KOi K11367.
OMAi MDHRASS.
OrthoDBi EOG7NPFSB.
TreeFami TF300674.

Miscellaneous databases

NextBioi 281852.
PROi P40201.
SOURCEi Search...

Gene expression databases

Bgeei P40201.
CleanExi MM_CHD1.
ExpressionAtlasi P40201. baseline and differential.
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

« Hide 'large scale' publications
  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 29, 2014
This is version 121 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