Q3L8U1 (CHD9_HUMAN) Reviewed, UniProtKB/Swiss-Prot
Last modified
May 1, 2013.
Version 80.
History...
Names·Attributes·General annotation·Ontologies·Interactions·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order
Names·Attributes·General annotation·Ontologies·Interactions·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize orderNames and origin
| Protein names | Recommended name: Chromodomain-helicase-DNA-binding protein 9 Short name=CHD-9 EC=3.6.4.12 Alternative name(s): ATP-dependent helicase CHD9 Chromatin-related mesenchymal modulator Short name=CReMM Chromatin-remodeling factor CHROM1 Kismet homolog 2 PPAR-alpha-interacting complex protein 320 kDa Peroxisomal proliferator-activated receptor A-interacting complex 320 kDa protein | ||||||
| Gene names |
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| Organism | Homo sapiens (Human) [Reference proteome] | ||||||
| Taxonomic identifier | 9606 [NCBI] | ||||||
| Taxonomic lineage | Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Primates › Haplorrhini › Catarrhini › Hominidae › Homo![]() |
Protein attributes
| Sequence length | 2897 AA. |
| Sequence status | Complete. |
| Protein existence | Evidence at protein level |
General annotation (Comments)
| Function | Acts as a transcriptional coactivator for PPARA and possibly other nuclear receptors. Proposed to be a ATP-dependent chromatin remodeling protein. Has DNA-dependent ATPase activity and binds to A/T-rich DNA. Associates with A/T-rich regulatory regions in promoters of genes that participate in the differentiation of progenitors during osteogenesis By similarity. Ref.1 Ref.2 |
| Catalytic activity | ATP + H2O = ADP + phosphate. |
| Subunit structure | Interacts with PPARA. Probably interacts with ESR1 and NR1I3. Ref.2 |
| Subcellular location | |
| Tissue specificity | Widely expressed at low levels. In bone marrow, expression is restricted to osteoprogenitor cells adjacent to mature osteoblasts. Ref.1 Ref.2 |
| Post-translational modification | Phosphorylated on serine and tyrosine residues. Ref.1 |
| 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. |
| Sequence caution | The sequence AAF24170.1 differs from that shown. Reason: Erroneous translation. Wrong choice of frame. The sequence BAB14112.1 differs from that shown. Reason: Erroneous initiation. |
Ontologies
Binary interactions
With | Entry | #Exp. | IntAct | Notes |
|---|---|---|---|---|
| PPARA | Q07869 | 2 | EBI-960730,EBI-78615 |
Alternative products
| This entry describes 3 isoforms produced by alternative splicing. [Align] [Select] | ||||||
| Isoform 1 (identifier: Q3L8U1-1) This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry. | ||||||
| Isoform 2 (identifier: Q3L8U1-2) The sequence of this isoform differs from the canonical sequence as follows: 2336-2351: Missing. | ||||||
| Isoform 3 (identifier: Q3L8U1-3) The sequence of this isoform differs from the canonical sequence as follows: 2206-2206: R → RA 2336-2351: Missing. |
Sequence annotation (Features)
| Feature key | Position(s) | Length | Description | Graphical view | Feature identifier | ||||
Molecule processing | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| Chain | 1 – 2897 | 2897 | Chromodomain-helicase-DNA-binding protein 9 | PRO_0000233172 | |||||
Regions | |||||||||
| Domain | 690 – 761 | 72 | Chromo 1 | ||||||
| Domain | 773 – 839 | 67 | Chromo 2 | ||||||
| Domain | 872 – 1046 | 175 | Helicase ATP-binding | ||||||
| Domain | 1186 – 1337 | 152 | Helicase C-terminal | ||||||
| Nucleotide binding | 885 – 892 | 8 | ATP Potential | ||||||
| Region | 2332 – 2481 | 150 | Binds A/T-rich DNA | ||||||
| Region | 2429 – 2436 | 8 | A.T hook-like | ||||||
| Motif | 868 – 872 | 5 | LXXLL motif 1 | ||||||
| Motif | 997 – 1000 | 4 | DEAH box | ||||||
| Motif | 1036 – 1040 | 5 | LXXLL motif 2 | ||||||
| Motif | 2031 – 2035 | 5 | LXXLL motif 3 | ||||||
| Motif | 2721 – 2725 | 5 | LXXLL motif 4 | ||||||
| Motif | 2793 – 2798 | 6 | LXXLL motif 5 | ||||||
| Compositional bias | 220 – 312 | 93 | Ser-rich | ||||||
| Compositional bias | 562 – 666 | 105 | Lys-rich | ||||||
| Compositional bias | 2128 – 2198 | 71 | Ser-rich | ||||||
| Compositional bias | 2639 – 2650 | 12 | Poly-Ala | ||||||
| Compositional bias | 2785 – 2788 | 4 | Poly-Ala | ||||||
| Compositional bias | 2878 – 2888 | 11 | Poly-Ser | ||||||
Amino acid modifications | |||||||||
| Modified residue | 499 | 1 | N6-acetyllysine Ref.12 | ||||||
| Modified residue | 550 | 1 | Phosphoserine Ref.10 Ref.11 Ref.13 | ||||||
| Modified residue | 611 | 1 | Phosphoserine Ref.10 | ||||||
| Modified residue | 645 | 1 | Phosphotyrosine By similarity | ||||||
| Modified residue | 1468 | 1 | Phosphoserine Ref.9 Ref.13 | ||||||
| Modified residue | 1472 | 1 | Phosphoserine Ref.9 Ref.13 | ||||||
| Modified residue | 2026 | 1 | Phosphoserine Ref.10 | ||||||
| Modified residue | 2058 | 1 | Phosphoserine Ref.11 | ||||||
| Modified residue | 2059 | 1 | Phosphoserine Ref.11 | ||||||
Natural variations | |||||||||
| Alternative sequence | 2206 | 1 | R → RA in isoform 3. | VSP_018085 | |||||
| Alternative sequence | 2336 – 2351 | 16 | Missing in isoform 2 and isoform 3. | VSP_018086 | |||||
| Natural variant | 2312 | 1 | D → E. Ref.1 Ref.2 Ref.6 Corresponds to variant rs6499548 [ dbSNP | Ensembl ]. | VAR_047355 | |||||
Experimental info | |||||||||
| Sequence conflict | 98 – 100 | 3 | SQF → PQL in AAT66509. Ref.3 | ||||||
| Sequence conflict | 119 | 1 | S → P in AAT66509. Ref.3 | ||||||
| Sequence conflict | 208 | 1 | V → A in AAT66509. Ref.3 | ||||||
| Sequence conflict | 473 | 1 | L → I in AAT66509. Ref.3 | ||||||
| Sequence conflict | 836 | 1 | R → C in ABD24032. Ref.2 | ||||||
| Sequence conflict | 836 | 1 | R → C in BAA20767. Ref.6 | ||||||
| Sequence conflict | 1072 | 1 | A → V in ABD24032. Ref.2 | ||||||
| Sequence conflict | 1072 | 1 | A → V in BAB14112. Ref.8 | ||||||
| Sequence conflict | 1122 | 1 | S → F in AAT66509. Ref.3 | ||||||
| Sequence conflict | 1372 | 1 | S → P in AAT66509. Ref.3 | ||||||
| Sequence conflict | 1442 | 1 | S → G in ABD24032. Ref.2 | ||||||
| Sequence conflict | 1442 | 1 | S → G in BAB14112. Ref.8 | ||||||
| Sequence conflict | 1724 | 1 | A → T in AAT66509. Ref.3 | ||||||
| Sequence conflict | 1754 | 1 | S → L in AAT66509. Ref.3 | ||||||
| Sequence conflict | 1867 | 1 | T → A in AAT66509. Ref.3 | ||||||
| Sequence conflict | 2025 | 1 | A → V in AAT66509. Ref.3 | ||||||
| Sequence conflict | 2069 | 1 | T → A in AAT66509. Ref.3 | ||||||
| Sequence conflict | 2078 | 1 | V → G in AAT66509. Ref.3 | ||||||
| Sequence conflict | 2189 | 1 | S → F in AAT66509. Ref.3 | ||||||
| Sequence conflict | 2759 | 1 | S → N in AAT66509. Ref.3 | ||||||
| Sequence conflict | 2776 | 1 | T → A in AAQ24287. Ref.1 | ||||||
| Sequence conflict | 2776 | 1 | T → A in BAA20767. Ref.6 | ||||||
Sequences
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References
| « Hide 'large scale' references | |
| [1] | "Characterization and functional analysis of CReMM, a novel chromodomain helicase DNA-binding protein." Shur I., Benayahu D. J. Mol. Biol. 352:646-655(2005) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), FUNCTION, SUBCELLULAR LOCATION, TISSUE SPECIFICITY, PHOSPHORYLATION, VARIANT GLU-2312. Tissue: Bone marrow stroma. |
| [2] | "PRIC320, a transcription coactivator, isolated from peroxisome proliferator-binding protein complex." Surapureddi S., Viswakarma N., Yu S., Guo D., Rao M.S., Reddy J.K. Biochem. Biophys. Res. Commun. 343:535-543(2006) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 2), FUNCTION, TISSUE SPECIFICITY, VARIANT GLU-2312, INTERACTION WITH PPARA; ESR1 AND NR1I3. |
| [3] | "Cloning of the mammalian orthologs of Drosophila melanogaster gene KISMET." Colin C., Dahia P.L.M., Stiles C.D., Sogayar M.C. Submitted (JUN-2004) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 2). Tissue: Pharynx carcinoma. |
| [4] | "The sequence and analysis of duplication-rich human chromosome 16." Martin J., Han C., Gordon L.A., Terry A., Prabhakar S., She X., Xie G., Hellsten U., Chan Y.M., Altherr M., Couronne O., Aerts A., Bajorek E., Black S., Blumer H., Branscomb E., Brown N.C., Bruno W.J. Pennacchio L.A.Nature 432:988-994(2004) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. |
| [5] | "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] (ISOFORM 1). |
| [6] | "Prediction of the coding sequences of unidentified human genes. VII. The complete sequences of 100 new cDNA clones from brain which can code for large proteins in vitro." Nagase T., Ishikawa K., Nakajima D., Ohira M., Seki N., Miyajima N., Tanaka A., Kotani H., Nomura N., Ohara O. DNA Res. 4:141-150(1997) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 124-2897 (ISOFORM 3), VARIANT GLU-2312. Tissue: Brain. |
| [7] | "Gene expression profiling in the human hypothalamus-pituitary-adrenal axis and full-length cDNA cloning." Hu R.-M., Han Z.-G., Song H.-D., Peng Y.-D., Huang Q.-H., Ren S.-X., Gu Y.-J., Huang C.-H., Li Y.-B., Jiang C.-L., Fu G., Zhang Q.-H., Gu B.-W., Dai M., Mao Y.-F., Gao G.-F., Rong R., Ye M. Chen J.-L.Proc. Natl. Acad. Sci. U.S.A. 97:9543-9548(2000) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 485-639. Tissue: Adrenal gland. |
| [8] | "Complete sequencing and characterization of 21,243 full-length human cDNAs." Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S. Sugano S.Nat. Genet. 36:40-45(2004) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 886-1616. |
| [9] | "Global, in vivo, and site-specific phosphorylation dynamics in signaling networks." Olsen J.V., Blagoev B., Gnad F., Macek B., Kumar C., Mortensen P., Mann M. Cell 127:635-648(2006) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-1468 AND SER-1472, MASS SPECTROMETRY. Tissue: Cervix carcinoma. |
| [10] | "A quantitative atlas of mitotic phosphorylation." Dephoure N., Zhou C., Villen J., Beausoleil S.A., Bakalarski C.E., Elledge S.J., Gygi S.P. Proc. Natl. Acad. Sci. U.S.A. 105:10762-10767(2008) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-550; SER-611 AND SER-2026, MASS SPECTROMETRY. Tissue: Cervix carcinoma. |
| [11] | "Quantitative phosphoproteomic analysis of T cell receptor signaling reveals system-wide modulation of protein-protein interactions." Mayya V., Lundgren D.H., Hwang S.-I., Rezaul K., Wu L., Eng J.K., Rodionov V., Han D.K. Sci. Signal. 2:RA46-RA46(2009) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-550; SER-2058 AND SER-2059, MASS SPECTROMETRY. Tissue: Leukemic T-cell. |
| [12] | "Lysine acetylation targets protein complexes and co-regulates major cellular functions." Choudhary C., Kumar C., Gnad F., Nielsen M.L., Rehman M., Walther T.C., Olsen J.V., Mann M. Science 325:834-840(2009) [PubMed] [Europe PMC] [Abstract] Cited for: ACETYLATION [LARGE SCALE ANALYSIS] AT LYS-499, MASS SPECTROMETRY. |
| [13] | "Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis." Olsen J.V., Vermeulen M., Santamaria A., Kumar C., Miller M.L., Jensen L.J., Gnad F., Cox J., Jensen T.S., Nigg E.A., Brunak S., Mann M. Sci. Signal. 3:RA3-RA3(2010) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-550; SER-1468 AND SER-1472, MASS SPECTROMETRY. Tissue: Cervix carcinoma. |
| + | Additional computationally mapped references. |
Cross-references
Sequence databases | |
|---|---|
| EMBL GenBank DDBJ | AY243500 mRNA. Translation: AAQ24287.1. DQ333316 mRNA. Translation: ABD24032.1. AY647157 mRNA. Translation: AAT66509.1. AC007906 Genomic DNA. No translation available. AC079416 Genomic DNA. No translation available. BC140815 mRNA. Translation: AAI40816.1. AB002306 mRNA. Translation: BAA20767.3. AF150735 mRNA. Translation: AAF24170.1. Sequence problems. AK022582 mRNA. Translation: BAB14112.1. Different initiation. |
| IPI | IPI00383105. IPI00746795. IPI00914955. |
| RefSeq | NP_079410.4. NM_025134.4. |
| UniGene | Hs.59159. Hs.622347. |
3D structure databases | |
| ProteinModelPortal | Q3L8U1. |
| ModBase | Search... |
Protein-protein interaction databases | |
| IntAct | Q3L8U1. 5 interactions. |
| STRING | 9606.ENSP00000381522. |
PTM databases | |
| PhosphoSite | Q3L8U1. |
Polymorphism databases | |
| DMDM | 215273951. |
Proteomic databases | |
| PaxDb | Q3L8U1. |
| PRIDE | Q3L8U1. |
Protocols and materials databases | |
| StructuralBiologyKnowledgebase | Search... |
Genome annotation databases | |
| Ensembl | ENST00000398510; ENSP00000381522; ENSG00000177200. ENST00000447540; ENSP00000396345; ENSG00000177200. ENST00000564845; ENSP00000455307; ENSG00000177200. ENST00000566029; ENSP00000457466; ENSG00000177200. |
| GeneID | 80205. |
| KEGG | hsa:80205. |
| UCSC | uc002egy.3. human. uc002ehb.3. human. uc002ehc.3. human. |
Organism-specific databases | |
| CTD | 80205. |
| GeneCards | GC16P053041. |
| HGNC | HGNC:25701. CHD9. |
| HPA | HPA042053. HPA049420. |
| neXtProt | NX_Q3L8U1. |
| PharmGKB | PA128394727. |
| HUGE | Search... |
| GenAtlas | Search... |
Phylogenomic databases | |
| eggNOG | COG0553. |
| HOVERGEN | HBG081150. |
| InParanoid | Q3L8U1. |
| KO | K14438. |
| OMA | MWGHQTA. |
Enzyme and pathway databases | |
| Reactome | REACT_111217. Metabolism. |
Gene expression databases | |
| ArrayExpress | Q3L8U1. |
| Bgee | Q3L8U1. |
| CleanEx | HS_CHD9. |
| Genevestigator | Q3L8U1. |
| GermOnline | ENSG00000177200. Homo sapiens. |
Family and domain databases | |
| InterPro | IPR006576. BRK_domain. IPR023780. Chromo_domain. IPR000953. Chromo_domain/shadow. IPR016197. Chromodomain-like. IPR014001. Helicase_ATP-bd. IPR001650. Helicase_C. IPR000330. SNF2_N. [Graphical view] |
| Pfam | PF07533. BRK. 2 hits. PF00385. Chromo. 2 hits. PF00271. Helicase_C. 1 hit. PF00176. SNF2_N. 1 hit. [Graphical view] |
| SMART | SM00592. BRK. 2 hits. SM00298. CHROMO. 2 hits. SM00487. DEXDc. 1 hit. SM00490. HELICc. 1 hit. [Graphical view] |
| SUPFAM | SSF54160. Chromodomain-like. 1 hit. |
| PROSITE | PS00598. CHROMO_1. False negative. PS50013. CHROMO_2. 2 hits. PS51192. HELICASE_ATP_BIND_1. 1 hit. PS51194. HELICASE_CTER. 1 hit. [Graphical view] |
| ProtoNet | Search... |
Other | |
| GenomeRNAi | 80205. |
| NextBio | 70576. |
Entry information
| Entry name | CHD9_HUMAN | ||||||||
| Accession | Primary (citable) accession number: Q3L8U1 Secondary accession number(s): B2RTU2 Q9UHM2 | ||||||||
| Entry history |
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| Entry status | Reviewed (UniProtKB/Swiss-Prot) | ||||||||
| Annotation program | Chordata Protein Annotation Program | ||||||||
| Disclaimer | Any medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care. | ||||||||
Relevant documents
| Human chromosome 16 Human chromosome 16: entries, gene names and cross-references to MIM |
| Human entries with polymorphisms or disease mutations List of human entries with polymorphisms or disease mutations |
| Human polymorphisms and disease mutations Index of human polymorphisms and disease mutations |
| SIMILARITY comments Index of protein domains and families |

Clusters with
