Reviewed,
UniProtKB/Swiss-Prot Q9BUQ8 (DDX23_HUMAN)
Last modified
February 9, 2010.
Version 82.
History...
Clusters with 100%,
90%,
50% identity |
Documents (2) |
Third-party data |
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Names and origin
| Protein names | Recommended name: Probable ATP-dependent RNA helicase DDX23 EC=3.6.1.- Alternative name(s): DEAD box protein 23 100 kDa U5 snRNP-specific protein U5-100kD PRP28 homolog | ||
| Gene names |
| ||
| Organism | Homo sapiens (Human) [Complete 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 | 820 AA. |
| Sequence status | Complete. |
| Protein existence | Evidence at protein level. |
General annotation (Comments)
| Function | Probably involved in pre-mRNA splicing. |
| Subunit structure | Component of the U5 and U5.4/6 snRNP complexes. Identified in the spliceosome C complex, at least composed of AQR, C19orf29, CDC40, CDC5L, CRNKL1, DDX23, DDX41, DDX48, DDX5, DGCR14, DHX35, DHX38, DHX8, EFTUD2, FRG1, GPATC1, HNRPA1, HNRPA2B1, HNRPA3, HNRPC, HNRPF, HNRPH1, HNRPK, HNRPM, HNRPR, HNRPU, KIAA1160, KIAA1604, LSM2, LSM3, MAGOH, MORG1, PABPC1, PLRG1, PNN, PPIE, PPIL1, PPIL3, PPWD1, PRPF19, PRPF4B, PRPF6, PRPF8, RALY, RBM22, RBM8A, RBMX, SART1, SF3A1, SF3A2, SF3A3, SF3B1, SF3B2, SF3B3, SFRS1, SKIV2L2, SNRNP200, SNRNP40, SNRPA1, SNRPB, SNRPB2, SNRPD1, SNRPD2, SNRPD3, SNRPE, SNRPF, SNRPG, SNW1, SRRM1, SRRM2, SYF2, SYNCRIP, TFIP11, THOC4, U2AF1, XAB2 and ZCCHC8. |
| Subcellular location | |
| Post-translational modification | In vitro phosphorylated by CLK1 and U1 snRNP-associated protein kinase. Ref.1 Ref.6 Ref.7 Ref.8 |
| Sequence similarities | Belongs to the DEAD box helicase family. DDX23/PRP28 subfamily. Contains 1 helicase ATP-binding domain. Contains 1 helicase C-terminal domain. |
Ontologies
| Keywords | |
|---|---|
| Biological process | mRNA processing mRNA splicing |
| Cellular component | Nucleus Spliceosome |
| Ligand | ATP-binding Nucleotide-binding |
| Molecular function | Helicase Hydrolase |
| PTM | Phosphoprotein |
| Technical term | Complete proteome Direct protein sequencing |
| Gene Ontology (GO) | |
| Biological process | cis assembly of pre-catalytic spliceosome Inferred by curator. Source: HGNC |
| Cellular component | U5 snRNP Inferred from direct assay. Source: HGNC spliceosomal complexInferred from electronic annotation. Source: UniProtKB-KW |
| Molecular function | ATP binding Inferred from electronic annotation. Source: UniProtKB-KW ATP-dependent RNA helicase activity Ref.1Traceable author statement. Source: ProtInc nucleic acid bindingInferred from electronic annotation. Source: InterPro protein bindingInferred from physical interaction. Source: IntAct |
| Complete GO annotation... | |
Binary interactions
With | Entry | #Exp. | IntAct | Notes |
|---|---|---|---|---|
| CD2BP2 | O95400 | 1 | EBI-540096,EBI-768015 | |
| RNPS1 | Q15287 | 1 | EBI-540096,EBI-395959 | |
| SNRNP40 | Q96DI7 | 1 | EBI-540096,EBI-538492 |
Sequence annotation (Features)
| Feature key | Position(s) | Length | Description | Graphical view | Feature identifier | ||||
Molecule processing | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| Chain | 1 – 820 | 820 | Probable ATP-dependent RNA helicase DDX23 | PRO_0000055128 | |||||
Regions | |||||||||
| Domain | 422 – 627 | 206 | Helicase ATP-binding | ||||||
| Domain | 651 – 799 | 149 | Helicase C-terminal | ||||||
| Nucleotide binding | 435 – 442 | 8 | ATP By similarity | ||||||
| Motif | 391 – 419 | 29 | Q motif | ||||||
| Motif | 549 – 552 | 4 | DEAD box | ||||||
| Compositional bias | 20 – 122 | 103 | Arg-rich | ||||||
| Compositional bias | 128 – 240 | 113 | Glu-rich | ||||||
Amino acid modifications | |||||||||
| Modified residue | 14 | 1 | Phosphoserine Ref.6 Ref.7 Ref.8 | ||||||
| Modified residue | 25 | 1 | Phosphothreonine Ref.7 | ||||||
| Modified residue | 107 | 1 | Phosphoserine Ref.7 | ||||||
| Modified residue | 109 | 1 | Phosphoserine Ref.7 | ||||||
Experimental info | |||||||||
| Sequence conflict | 137 | 1 | P → L in AAB87902. Ref.1 | ||||||
| Sequence conflict | 281 | 1 | D → E in AAB87902. Ref.1 | ||||||
| Sequence conflict | 309 | 1 | L → F in AAB87902. Ref.1 | ||||||
Sequences
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References
| « Hide 'large scale' references | |
| [1] | "The human U5 snRNP-specific 100-kD protein is an RS domain-containing, putative RNA helicase with significant homology to the yeast splicing factor Prp28p." Teigelkamp S., Mundt C., Achsel T., Will C.L., Luehrmann R. RNA 3:1313-1326(1997) [PubMed: 9409622] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA], PROTEIN SEQUENCE OF 272-290; 409-419 AND 433-441, SUBCELLULAR LOCATION, PHOSPHORYLATION, IDENTIFICATION IN U5 AND U5/4/6 SNRNP COMPLEXES. |
| [2] | "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: 14702039] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. Tissue: Amygdala. |
| [3] | Mural R.J., Istrail S., Sutton G.G., Florea L., Halpern A.L., Mobarry C.M., Lippert R., Walenz B., Shatkay H., Dew I., Miller J.R., Flanigan M.J., Edwards N.J., Bolanos R., Fasulo D., Halldorsson B.V., Hannenhalli S., Turner R. Venter J.C.Submitted (JUL-2005) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. |
| [4] | "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: 15489334] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. Tissue: Lung. |
| [5] | "Purification and characterization of native spliceosomes suitable for three-dimensional structural analysis." Jurica M.S., Licklider L.J., Gygi S.P., Grigorieff N., Moore M.J. RNA 8:426-439(2002) [PubMed: 11991638] [Abstract] Cited for: IDENTIFICATION BY MASS SPECTROMETRY, IDENTIFICATION IN THE SPICEOSOMAL C COMPLEX. |
| [6] | "Global phosphoproteome of HT-29 human colon adenocarcinoma cells." Kim J.-E., Tannenbaum S.R., White F.M. J. Proteome Res. 4:1339-1346(2005) [PubMed: 16083285] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-14, MASS SPECTROMETRY. |
| [7] | "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: 17081983] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-14; THR-25; SER-107 AND SER-109, MASS SPECTROMETRY. Tissue: Epithelium. |
| [8] | "Evaluation of the low-specificity protease elastase for large-scale phosphoproteome analysis." Wang B., Malik R., Nigg E.A., Korner R. Anal. Chem. 80:9526-9533(2008) [PubMed: 19007248] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-14, MASS SPECTROMETRY. |
| [9] | Colinge J., Superti-Furga G., Bennett K.L. Submitted (OCT-2008) to UniProtKB Cited for: IDENTIFICATION [LARGE SCALE ANALYSIS], MASS SPECTROMETRY. |
| [10] | "Large-scale proteomics analysis of the human kinome." Oppermann F.S., Gnad F., Olsen J.V., Hornberger R., Greff Z., Keri G., Mann M., Daub H. Mol. Cell. Proteomics 8:1751-1764(2009) [PubMed: 19369195] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-107 AND SER-109, MASS SPECTROMETRY. |
| + | Additional computationally mapped references. |
Cross-references
Sequence databases | |
|---|---|
| EMBL GenBank DDBJ | AF026402 mRNA. Translation: AAB87902.1. AK312379 mRNA. Translation: BAG35297.1. CH471111 Genomic DNA. Translation: EAW58011.1. BC002366 mRNA. Translation: AAH02366.1. |
| IPI | IPI00006725. |
| RefSeq | NP_004809.2. |
| UniGene | Hs.130098 |
3D structure databases | |
| SMR | Q9BUQ8. Positions 379-797. |
| ModBase | Search... |
Protein-protein interaction databases | |
| IntAct | Q9BUQ8. 4 interactions. |
| STRING | Q9BUQ8. |
PTM databases | |
| PhosphoSite | Q9BUQ8. |
Proteomic databases | |
| PRIDE | Q9BUQ8. |
Genome annotation databases | |
| Ensembl | ENST00000308025; ENSP00000310723; ENSG00000174243; Homo sapiens. [Genome view] |
| GeneID | 9416. |
| KEGG | hsa:9416. |
| UCSC | uc001rsm.1. human. |
Organism-specific databases | |
| CTD | 9416. |
| GeneCards | GC12M047509. |
| HGNC | HGNC:17347. DDX23. |
| PharmGKB | PA134934941. |
| GenAtlas | Search... |
Phylogenomic databases | |
| eggNOG | prNOG07412. |
| HOGENOM | HBG737336. |
| HOVERGEN | Q9BUQ8. |
| InParanoid | Q9BUQ8. |
| OMA | VQKILEY. |
| OrthoDB | EOG92Z797. |
| PhylomeDB | Q9BUQ8. |
Enzyme and pathway databases | |
| Reactome | REACT_125. Processing of Capped Intron-Containing Pre-mRNA. REACT_71. Gene Expression. |
Gene expression databases | |
| ArrayExpress | Q9BUQ8. |
| Bgee | Q9BUQ8. |
| CleanEx | HS_DDX23. |
| Genevestigator | Q9BUQ8. |
| GermOnline | ENSG00000174243. Homo sapiens. |
Family and domain databases | |
| InterPro | IPR014001. DEAD-like_N. IPR001650. DNA/RNA_helicase_C. IPR011545. DNA/RNA_helicase_DEAD/DEAH_N. IPR014021. Helicase_SF1/SF2_ATP-bd. IPR000629. RNA-helicase_DEAD-box_CS. IPR014014. RNA_helicase_DEAD_Q_motif. [Graphical view] |
| Pfam | PF00270. DEAD. 1 hit. PF00271. Helicase_C. 1 hit. [Graphical view] |
| SMART | SM00487. DEXDc. 1 hit. SM00490. HELICc. 1 hit. [Graphical view] |
| PROSITE | PS00039. DEAD_ATP_HELICASE. 1 hit. PS51192. HELICASE_ATP_BIND_1. 1 hit. PS51194. HELICASE_CTER. 1 hit. PS51195. Q_MOTIF. 1 hit. [Graphical view] |
| ProtoNet | Search... |
Other Resources | |
| NextBio | 35278. |
Entry information
| Entry name | DDX23_HUMAN | ||||||||
| Accession | Primary (citable) accession number: Q9BUQ8 Secondary accession number(s): B2R600, O43188 | ||||||||
| Entry history |
| ||||||||
| Entry status | Reviewed (UniProtKB/Swiss-Prot) | ||||||||
| Annotation project | HPI (Human Proteome Initiative) | ||||||||
| 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 12 Human chromosome 12: entries, gene names and cross-references to MIM |
| SIMILARITY comments Index of protein domains and families |

Clusters with


