Chromodomain-helicase-DNA-binding protein 1

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P40201 (CHD1_MOUSE) Reviewed, UniProtKB/Swiss-Prot

Last modified April 3, 2013. Version 109. History...

Clusters with 100%, 90%, 50% identity |

Documents (2) |

Third-party data

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Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents Customize order

Names and origin

Protein names

Recommended name:
Chromodomain-helicase-DNA-binding protein 1
Short name=CHD-1
EC=3.6.4.12

Alternative name(s):
ATP-dependent helicase CHD1

Gene names

Name:	Chd1
Synonyms:	Chd-1

Organism

Mus musculus (Mouse) [Reference proteome]

Taxonomic identifier

10090 [NCBI]

Taxonomic lineage

Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Glires › Rodentia › Sciurognathi › Muroidea › Muridae › Murinae › Mus › Mus

Protein attributes

Sequence length	1711 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

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. 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. Ref.6 Ref.8
Catalytic activity	ATP + H₂O = ADP + phosphate.
Subunit structure	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. Ref.5 Ref.6 Ref.8
Subcellular location	Nucleus. Cytoplasm. Note: Is released into the cytoplasm when cells enter mitosis and is reincorporated into chromatin during telophase-cytokinesis. Ref.4 Ref.5
Tissue specificity	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.
Domain	The 2 chromodomains are involved in the binding to the histone H3 methyllysine at position 4 (H3K4me3) By similarity. Ref.5
Sequence similarities	Belongs to the SNF2/RAD54 helicase family. Contains 2 chromo domains. Contains 1 helicase ATP-binding domain. Contains 1 helicase C-terminal domain.

Ontologies

Keywords
Biological process	Transcription Transcription regulation
Cellular component	Cytoplasm Nucleus
Domain	Repeat
Ligand	ATP-binding DNA-binding Nucleotide-binding
Molecular function	Chromatin regulator Helicase Hydrolase
PTM	Phosphoprotein
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	chromatin assembly or disassembly Non-traceable author statement Ref.1. Source: UniProtKB chromatin remodeling Inferred from genetic interaction PubMed 16415155. Source: MGI regulation of transcription, DNA-dependent Inferred from electronic annotation. Source: UniProtKB-KW transcription, DNA-dependent Inferred from electronic annotation. Source: UniProtKB-KW
Cellular_component	cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell nucleus Non-traceable author statement Ref.1. Source: UniProtKB
Molecular_function	ATP binding Inferred from electronic annotation. Source: UniProtKB-KW DNA binding Inferred from electronic annotation. Source: UniProtKB-KW chromatin binding Non-traceable author statement Ref.1. Source: UniProtKB helicase activity Non-traceable author statement Ref.1. Source: UniProtKB
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 1711

1711

Chromodomain-helicase-DNA-binding protein 1

PRO_0000080225

Regions

Domain

270 – 362

Chromo 1

Domain

387 – 450

Chromo 2

Domain

491 – 661

171

Helicase ATP-binding

Domain

790 – 941

152

Helicase C-terminal

Repeat

Repeat

Repeat

Nucleotide binding

ATP Potential

Region

1629 – 1645

3 X 5 AA repeats of H-S-D-H-R

Motif

612 – 615

DEAH box

Compositional bias

1 – 70

Ser-rich

Compositional bias

116 – 136

Ser-rich

Amino acid modifications

Modified residue

Phosphoserine Ref.7

Modified residue

214

Phosphoserine By similarity

Modified residue

215

Phosphoserine By similarity

Modified residue

235

Phosphothreonine By similarity

Modified residue

239

Phosphoserine By similarity

Modified residue

248

Phosphothreonine By similarity

Modified residue

250

Phosphoserine By similarity

Modified residue

1023

Phosphoserine By similarity

Modified residue

1038

Phosphoserine By similarity

Modified residue

1079

Phosphoserine By similarity

Modified residue

1094

Phosphoserine By similarity

Modified residue

1096

Phosphoserine By similarity

Modified residue

1098

Phosphoserine By similarity

Modified residue

1100

Phosphoserine By similarity

Modified residue

1353

Phosphoserine By similarity

Modified residue

1355

Phosphoserine By similarity

Modified residue

1356

Phosphoserine By similarity

Modified residue

1360

Phosphoserine By similarity

Modified residue

1363

Phosphoserine By similarity

Modified residue

1678

Phosphoserine By similarity

Experimental info

Sequence conflict

159

S → L in AAB08486. Ref.1

Sequences

Sequence

Length

Mass (Da)

Tools

P40201 [UniParc].

Last modified July 27, 2011. Version 3.
Checksum: 51499636E943A856
Show »

FASTA

1,711

196,385

        10         20         30         40         50         60 
MNGHSDEESV RNGSGESSQS GDDCGSASGS GSGSSSGSSS DGSSSQSGSS DSDSGSDSGS 

        70         80         90        100        110        120 
QSESESDTSR ENKVQAKPPK VDGAEFWKSS PSILAVQRSA MLRKQPQQAQ QQRPASSNSG 

       130        140        150        160        170        180 
SEEDSSSSED SDDSSSGAKR KKHNDEDWQM SGSGSPSQSG SDSESEEERD KSSCDGTESD 

       190        200        210        220        230        240 
YEPKNKVRSR KPQNRSKSKN GKKILGQKKR QIDSSEDEDD EDYDNDKRSS RRQATVNVSY 

       250        260        270        280        290        300 
KEDEEMKTDS DDLLEVCGED VPQPEDEEFE TIERVMDCRV GRKGATGATT TIYAVEADGD 

       310        320        330        340        350        360 
PNAGFERNKE PGDIQYLIKW KGWSHIHNTW ETEETLKQQN VRGMKKLDNY KKKDQETKRW 

       370        380        390        400        410        420 
LKNASPEDVE YYNCQQELTD DLHKQYQIVE RIIAHSNQKS AAGLPDYYCK WQGLPYSECS 

       430        440        450        460        470        480 
WEDGALISKK FQTCIDEYFS RNQSKTTPFK DCKVLKQRPR FVALKKQPSY IGGHEGLELR 

       490        500        510        520        530        540 
DYQLNGLNWL AHSWCKGNSC ILADEMGLGK TIQTISFLNY LFHEHQLYGP FLLVVPLSTL 

       550        560        570        580        590        600 
TSWQREIQTW ASQMNAVVYL GDINSRNMIR THEWMHPQTK RLKFNILLTT YEILLKDKAF 

       610        620        630        640        650        660 
LGGLNWAFIG VDEAHRLKND DSLLYKTLID FKSNHRLLIT GTPLQNSLKE LWSLLHFIMP 

       670        680        690        700        710        720 
EKFSSWEDFE EEHGKGREYG YASLHKELEP FLLRRVKKDV EKSLPAKVEQ ILRMEMSALQ 

       730        740        750        760        770        780 
KQYYKWILTR NYKALSKGSK GSTSGFLNIM MELKKCCNHC YLIKPPDNNE FYNKQEALQH 

       790        800        810        820        830        840 
LIRSSGKLIL LDKLLIRLRE RGNRVLIFSQ MVRMLDILAE YLKYRQFPFQ RLDGSIKGEL 

       850        860        870        880        890        900 
RKQALDHFNA EGSEDFCFLL STRAGGLGIN LASADTVVIF DSDWNPQNDL QAQARAHRIG 

       910        920        930        940        950        960 
QKKQVNIYRL VTKGSVEEDI LERAKKKMVL DHLVIQRMDT TGKTVLHTGS APSSSTPFNK 

       970        980        990       1000       1010       1020 
EELSAILKFG AEELFKEPEG EEQEPQEMDI DEILKRAETH ENEPGPLSVG DELLSQFKVA 

      1030       1040       1050       1060       1070       1080 
NFSNMDEDDI ELEPERNSKN WEEIIPEEQR RRLEEEERQK ELEEIYMLPR MRNCAKQISF 

      1090       1100       1110       1120       1130       1140 
NGSEGRRSRS RRYSGSDSDS ISERKRPKKR GRPRTIPREN IKGFSDAEIR RFIKSYKKFG 

      1150       1160       1170       1180       1190       1200 
GPLERLDAIA RDAELVDKSE TDLRRLGELV HNGCVKALKD SSSGTERAGG RLGKVKGPTF 

      1210       1220       1230       1240       1250       1260 
RISGVQVNAK LVIAHEDELI PLHKSIPSDP EERKQYTIPC HTKAAHFDID WGKEDDSNLL 

      1270       1280       1290       1300       1310       1320 
IGIYEYGYGS WEMIKMDPDL SLTHKILPDD PDKKPQAKQL QTRADYLIKL LSRDLAKREA 

      1330       1340       1350       1360       1370       1380 
QRLCGAGGSK RRKTRAKKSK AMKSIKVKEE IKSDSSPLPS EKSDEDDDKL NDSKPESKDR 

      1390       1400       1410       1420       1430       1440 
SKKSVVSDAP VHITASGEPV PIAEESEELD QKTFSICKER MRPVKAALKQ LDRPEKGLSE 

      1450       1460       1470       1480       1490       1500 
REQLEHTRQC LIKIGDHITE CLKEYSNPEQ IKQWRKNLWI FVSKFTEFDA RKLHKLYKHA 

      1510       1520       1530       1540       1550       1560 
IKKRQESQQN SDQNSNVATT HVIRNPDMER LKENTNHDDS SRDSYSSDRH LSQYHDHHKD 

      1570       1580       1590       1600       1610       1620 
RHQGDSYKKS DSRKRPYSSF SNGKDHREWD HYRQDSRYYS DREKHRKLDD HRSREHRPSL 

      1630       1640       1650       1660       1670       1680 
EGGLKDRCHS DHRSHSDHRM HSDHRSSSEH THHKSSRDYR YLSDWQLDHR AASSGPRSPL 

      1690       1700       1710 
DQRSPYGSRS PFEHSAEHRS TPEHTWSSRK T

« Hide

References

	« Hide 'large scale' referencesShow 'large scale' references »
[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]	"Large-scale phosphorylation analysis of mouse liver." Villen J., Beausoleil S.A., Gerber S.A., Gygi S.P. Proc. Natl. Acad. Sci. U.S.A. 104:1488-1493(2007) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-5, MASS SPECTROMETRY. Tissue: Liver.
[8]	"Chd1 regulates open chromatin and pluripotency of embryonic stem cells." Gaspar-Maia A., Alajem A., Polesso F., Sridharan R., Mason M.J., Heidersbach A., Ramalho-Santos J., McManus M.T., Plath K., Meshorer E., Ramalho-Santos M. Nature 460:863-868(2009) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION, INTERACTION WITH CHROMATIN.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	L10410 mRNA. Translation: AAB08486.1. CH466630 Genomic DNA. Translation: EDL20454.1. BC115822 mRNA. Translation: AAI15823.1.
IPI	IPI00107999.
PIR	A47392.
RefSeq	NP_031716.2. NM_007690.3.
UniGene	Mm.8137.
3D structure databases
ProteinModelPortal	P40201.
SMR	P40201. Positions 268-441, 1122-1327.
ModBase	Search...
Protein-protein interaction databases
IntAct	P40201. 1 interaction.
PTM databases
PhosphoSite	P40201.
Proteomic databases
PaxDb	P40201.
PRIDE	P40201.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
Ensembl	ENSMUST00000024627; ENSMUSP00000024627; ENSMUSG00000023852.
GeneID	12648.
KEGG	mmu:12648.
Organism-specific databases
CTD	1105.
MGI	MGI:88393. Chd1.
Phylogenomic databases
eggNOG	COG0553.
GeneTree	ENSGT00560000076896.
HOGENOM	HOG000207917.
HOVERGEN	HBG005325.
InParanoid	Q14BJ0.
KO	K11367.
OMA	AETHENE.
OrthoDB	EOG4PG601.
Gene expression databases
ArrayExpress	P40201.
Bgee	P40201.
CleanEx	MM_CHD1.
Genevestigator	P40201.
GermOnline	ENSMUSG00000023852. Mus musculus.
Family and domain databases
InterPro	IPR023780. Chromo_domain. IPR000953. Chromo_domain/shadow. IPR016197. Chromodomain-like. IPR023779. Chromodomain_CS. IPR025260. DUF4208. IPR014001. Helicase_ATP-bd. IPR001650. Helicase_C. IPR000330. SNF2_N. [Graphical view]
Pfam	PF00385. Chromo. 2 hits. PF13907. DUF4208. 1 hit. PF00271. Helicase_C. 1 hit. PF00176. SNF2_N. 1 hit. [Graphical view]
SMART	SM00298. CHROMO. 2 hits. SM00487. DEXDc. 1 hit. SM00490. HELICc. 1 hit. [Graphical view]
SUPFAM	SSF54160. Chromodomain-like. 2 hits.
PROSITE	PS00598. CHROMO_1. 2 hits. PS50013. CHROMO_2. 2 hits. PS00690. DEAH_ATP_HELICASE. False negative. PS51192. HELICASE_ATP_BIND_1. 1 hit. PS51194. HELICASE_CTER. 1 hit. [Graphical view]
ProtoNet	Search...
Other
NextBio	281852.
SOURCE	Search...

Entry information

Entry name

CHD1_MOUSE

Accession

Primary (citable) accession number: P40201
Secondary accession number(s): Q14BJ0

Entry history

Integrated into UniProtKB/Swiss-Prot:	February 1, 1995
Last sequence update:	July 27, 2011
Last modified:	April 3, 2013
This is version 109 of the entry and version 3 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Chordata Protein Annotation Program

Relevant documents

MGD cross-references

Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot

SIMILARITY comments

Index of protein domains and families

Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents

Preferred order of sections

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Sequence annotation (Features)

Molecule processing

Regions

Amino acid modifications

Experimental info

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protein-protein interaction databases

PTM databases

Proteomic databases

Protocols and materials databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Gene expression databases

Family and domain databases

Other

Entry information

Relevant documents