Q6PD62 (CTR9_HUMAN) Reviewed, UniProtKB/Swiss-Prot
Last modified
May 1, 2013.
Version 94.
History...
Names·Attributes·General annotation·Ontologies·Interactions·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order
Names·Attributes·General annotation·Ontologies·Interactions·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize orderNames and origin
| Protein names | Recommended name: RNA polymerase-associated protein CTR9 homolog Alternative name(s): SH2 domain-binding protein 1 | ||||
| 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 | 1173 AA. |
| Sequence status | Complete. |
| Protein existence | Evidence at protein level |
General annotation (Comments)
| Function | Component of the PAF1 complex (PAF1C) which has multiple functions during transcription by RNA polymerase II and is implicated in regulation of development and maintenance of embryonic stem cell pluripotency. PAF1C associates with RNA polymerase II through interaction with POLR2A CTD non-phosphorylated and 'Ser-2'- and 'Ser-5'-phosphorylated forms and is involved in transcriptional elongation, acting both indepentently and synergistically with TCEA1 and in cooperation with the DSIF complex and HTATSF1. PAF1C is required for transcription of Hox and Wnt target genes. PAF1C is involved in hematopoiesis and stimulates transcriptional activity of MLL1; it promotes leukemogenesis though association with MLL-rearranged oncoproteins, such as MLL-MLLT3/AF9 and MLL-MLLT1/ENL. PAF1C is involved in histone modifications such as ubiquitination of histone H2B and methylation on histone H3 'Lys-4' (H3K4me3). PAF1C recruits the RNF20/40 E3 ubiquitin-protein ligase complex and the E2 enzyme UBE2A or UBE2B to chromatin which mediate monoubiquitination of 'Lys-120' of histone H2B (H2BK120ub1); UB2A/B-mediated H2B ubiquitination is proposed to be coupled to transcription. PAF1C is involved in mRNA 3' end formation probably through association with cleavage and poly(A) factors. In case of infection by influenza A strain H3N2, PAF1C associates with viral NS1 protein, thereby regulating gene transcription. Required for mono- and trimethylation on histone H3 'Lys-4' (H3K4me3) and dimethylation on histone H3 'Lys-79' (H3K4me3). Required for Hox gene transcription. Required for the trimethylation of histone H3 'Lys-4' (H3K4me3) on genes involved in stem cell pluripotency; this function is synergistic with CXXC1 indicative for an involvement of the SET1 complex. Involved in transcriptional regulation of IL6-responsive genes and in JAK-STAT pathway; may regulate DNA-association of STAT3 By similarity. Ref.5 Ref.6 Ref.12 Ref.13 Ref.15 Ref.16 Ref.19 |
| Subunit structure | Component of the mammalian PAF1 complex, which consists of CDC73, PAF1, LEO1, CTR9, RTF1 and WDR61. Interacts with MLL. Interacts with STAT3 By similarity. Ref.5 Ref.13 Ref.15 Ref.16 |
| Subcellular location | Nucleus speckle By similarity. Note: Found in speckles By similarity. |
| Tissue specificity | Widely expressed. Ref.1 |
| Sequence similarities | Contains 16 TPR repeats. |
| Sequence caution | The sequence BAA09925.2 differs from that shown. Reason: Erroneous initiation. |
Ontologies
Binary interactions
With | Entry | #Exp. | IntAct | Notes |
|---|---|---|---|---|
| CDC73 | Q6P1J9 | 15 | EBI-1019583,EBI-930143 | |
| MLL | Q03164 | 5 | EBI-1019583,EBI-591370 | |
| PAF1 | Q8N7H5 | 22 | EBI-1019583,EBI-2607770 | |
| WDR61 | Q9GZS3 | 9 | EBI-1019583,EBI-358545 |
Sequence annotation (Features)
| Feature key | Position(s) | Length | Description | Graphical view | Feature identifier | ||||
Molecule processing | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| Chain | 1 – 1173 | 1173 | RNA polymerase-associated protein CTR9 homolog | PRO_0000231588 | |||||
Regions | |||||||||
| Repeat | 41 – 75 | 35 | TPR 1 | ||||||
| Repeat | 129 – 162 | 34 | TPR 2 | ||||||
| Repeat | 163 – 196 | 34 | TPR 3 | ||||||
| Repeat | 198 – 231 | 34 | TPR 4 | ||||||
| Repeat | 235 – 268 | 34 | TPR 5 | ||||||
| Repeat | 306 – 339 | 34 | TPR 6 | ||||||
| Repeat | 341 – 374 | 34 | TPR 7 | ||||||
| Repeat | 412 – 444 | 33 | TPR 8 | ||||||
| Repeat | 451 – 484 | 34 | TPR 9 | ||||||
| Repeat | 497 – 530 | 34 | TPR 10 | ||||||
| Repeat | 531 – 564 | 34 | TPR 11 | ||||||
| Repeat | 566 – 598 | 33 | TPR 12 | ||||||
| Repeat | 613 – 646 | 34 | TPR 13 | ||||||
| Repeat | 647 – 680 | 34 | TPR 14 | ||||||
| Repeat | 681 – 714 | 34 | TPR 15 | ||||||
| Repeat | 717 – 750 | 34 | TPR 16 | ||||||
| Compositional bias | 844 – 1011 | 168 | Lys-rich | ||||||
| Compositional bias | 904 – 908 | 5 | Poly-Gly | ||||||
| Compositional bias | 933 – 936 | 4 | Poly-Lys | ||||||
| Compositional bias | 956 – 959 | 4 | Poly-Lys | ||||||
| Compositional bias | 1015 – 1172 | 158 | Ser-rich | ||||||
Amino acid modifications | |||||||||
| Modified residue | 925 | 1 | Phosphothreonine Ref.7 Ref.9 Ref.10 Ref.11 Ref.14 Ref.17 Ref.20 | ||||||
| Modified residue | 932 | 1 | Phosphoserine Ref.14 | ||||||
| Modified residue | 941 | 1 | Phosphoserine Ref.7 Ref.8 Ref.17 Ref.20 | ||||||
| Modified residue | 943 | 1 | Phosphoserine Ref.7 Ref.8 Ref.17 Ref.20 | ||||||
| Modified residue | 970 | 1 | Phosphoserine Ref.7 Ref.11 Ref.17 Ref.20 | ||||||
| Modified residue | 1020 | 1 | Phosphoserine Ref.8 Ref.20 | ||||||
| Modified residue | 1021 | 1 | Phosphoserine Ref.8 Ref.20 | ||||||
| Modified residue | 1039 | 1 | Phosphoserine By similarity | ||||||
| Modified residue | 1041 | 1 | Phosphoserine By similarity | ||||||
| Modified residue | 1043 | 1 | Phosphoserine By similarity | ||||||
| Modified residue | 1081 | 1 | Phosphoserine By similarity | ||||||
| Modified residue | 1085 | 1 | Phosphoserine By similarity | ||||||
| Modified residue | 1087 | 1 | Phosphoserine By similarity | ||||||
| Modified residue | 1097 | 1 | Phosphoserine Ref.20 | ||||||
| Modified residue | 1102 | 1 | Phosphoserine Ref.20 | ||||||
Sequences
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References
| « Hide 'large scale' references | |
| [1] | "Prediction of the coding sequences of unidentified human genes. IV. The coding sequences of 40 new genes (KIAA0121-KIAA0160) deduced by analysis of cDNA clones from human cell line KG-1." Nagase T., Seki N., Tanaka A., Ishikawa K., Nomura N. DNA Res. 2:167-174(1995) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA], TISSUE SPECIFICITY. Tissue: Bone marrow. |
| [2] | Ohara O., Nagase T., Kikuno R., Nomura N. Submitted (AUG-1995) to the EMBL/GenBank/DDBJ databases Cited for: SEQUENCE REVISION. |
| [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 (SEP-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] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. Tissue: Uterus. |
| [5] | "The human PAF complex coordinates transcription with events downstream of RNA synthesis." Zhu B., Mandal S.S., Pham A.D., Zheng Y., Erdjument-Bromage H., Batra S.K., Tempst P., Reinberg D. Genes Dev. 19:1668-1673(2005) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION, IDENTIFICATION IN THE PAF1 COMPLEX. |
| [6] | "Monoubiquitination of human histone H2B: the factors involved and their roles in HOX gene regulation." Zhu B., Zheng Y., Pham A.-D., Mandal S.S., Erdjument-Bromage H., Tempst P., Reinberg D. Mol. Cell 20:601-611(2005) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION. |
| [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] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT THR-925; SER-941; SER-943 AND SER-970, MASS SPECTROMETRY. Tissue: Cervix carcinoma. |
| [8] | "A probability-based approach for high-throughput protein phosphorylation analysis and site localization." Beausoleil S.A., Villen J., Gerber S.A., Rush J., Gygi S.P. Nat. Biotechnol. 24:1285-1292(2006) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-941; SER-943; SER-1020 AND SER-1021, MASS SPECTROMETRY. Tissue: Cervix carcinoma. |
| [9] | "Phosphorylation analysis of primary human T lymphocytes using sequential IMAC and titanium oxide enrichment." Carrascal M., Ovelleiro D., Casas V., Gay M., Abian J. J. Proteome Res. 7:5167-5176(2008) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT THR-925, MASS SPECTROMETRY. Tissue: T-cell. |
| [10] | "Kinase-selective enrichment enables quantitative phosphoproteomics of the kinome across the cell cycle." Daub H., Olsen J.V., Bairlein M., Gnad F., Oppermann F.S., Korner R., Greff Z., Keri G., Stemmann O., Mann M. Mol. Cell 31:438-448(2008) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT THR-925, MASS SPECTROMETRY. Tissue: Cervix carcinoma. |
| [11] | "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 THR-925 AND SER-970, MASS SPECTROMETRY. Tissue: Cervix carcinoma. |
| [12] | "A genome-scale RNAi screen for Oct4 modulators defines a role of the Paf1 complex for embryonic stem cell identity." Ding L., Paszkowski-Rogacz M., Nitzsche A., Slabicki M.M., Heninger A.K., de Vries I., Kittler R., Junqueira M., Shevchenko A., Schulz H., Hubner N., Doss M.X., Sachinidis A., Hescheler J., Iacone R., Anastassiadis K., Stewart A.F., Pisabarro M.T. Buchholz F.Cell Stem Cell 4:403-415(2009) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION. |
| [13] | "DSIF, the Paf1 complex, and Tat-SF1 have nonredundant, cooperative roles in RNA polymerase II elongation." Chen Y., Yamaguchi Y., Tsugeno Y., Yamamoto J., Yamada T., Nakamura M., Hisatake K., Handa H. Genes Dev. 23:2765-2777(2009) [PubMed] [Europe PMC] [Abstract] Cited for: IDENTIFICATION IN THE PAF1 COMPLEX, FUNCTION OF THE PAF1 COMPLEX. |
| [14] | "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 THR-925 AND SER-932, MASS SPECTROMETRY. Tissue: Leukemic T-cell. |
| [15] | "The PAF complex synergizes with MLL fusion proteins at HOX loci to promote leukemogenesis." Muntean A.G., Tan J., Sitwala K., Huang Y., Bronstein J., Connelly J.A., Basrur V., Elenitoba-Johnson K.S., Hess J.L. Cancer Cell 17:609-621(2010) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION OF THE PAF1 COMPLEX, INTERACTION WITH MLL. |
| [16] | "The human PAF1 complex acts in chromatin transcription elongation both independently and cooperatively with SII/TFIIS." Kim J., Guermah M., Roeder R.G. Cell 140:491-503(2010) [PubMed] [Europe PMC] [Abstract] Cited for: IDENTIFICATION IN THE PAF1 COMPLEX, COMPOSITION OF THE PAF1 COMPLEX, FUNCTION OF THE PAF1 COMPLEX. |
| [17] | "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 THR-925; SER-941; SER-943 AND SER-970, MASS SPECTROMETRY. Tissue: Cervix carcinoma. |
| [18] | "Initial characterization of the human central proteome." Burkard T.R., Planyavsky M., Kaupe I., Breitwieser F.P., Buerckstuemmer T., Bennett K.L., Superti-Furga G., Colinge J. BMC Syst. Biol. 5:17-17(2011) [PubMed] [Europe PMC] [Abstract] Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS]. |
| [19] | "Transcriptional activators enhance polyadenylation of mRNA precursors." Nagaike T., Logan C., Hotta I., Rozenblatt-Rosen O., Meyerson M., Manley J.L. Mol. Cell 41:409-418(2011) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION, FUNCTION OF THE PAF1 COMPLEX. |
| [20] | "System-wide temporal characterization of the proteome and phosphoproteome of human embryonic stem cell differentiation." Rigbolt K.T., Prokhorova T.A., Akimov V., Henningsen J., Johansen P.T., Kratchmarova I., Kassem M., Mann M., Olsen J.V., Blagoev B. Sci. Signal. 4:RS3-RS3(2011) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT THR-925; SER-941; SER-943; SER-970; SER-1020; SER-1021; SER-1097 AND SER-1102, MASS SPECTROMETRY. |
| + | Additional computationally mapped references. |
Cross-references
Sequence databases | |
|---|---|
| EMBL GenBank DDBJ | D63875 mRNA. Translation: BAA09925.2. Different initiation. CH471064 Genomic DNA. Translation: EAW68557.1. CH471064 Genomic DNA. Translation: EAW68558.1. BC058914 mRNA. Translation: AAH58914.1. |
| IPI | IPI00477468. |
| RefSeq | NP_055448.1. NM_014633.3. |
| UniGene | Hs.725151. |
3D structure databases | |
| ProteinModelPortal | Q6PD62. |
| ModBase | Search... |
Protein-protein interaction databases | |
| DIP | DIP-31693N. |
| IntAct | Q6PD62. 28 interactions. |
| MINT | MINT-1182366. |
| STRING | 9606.ENSP00000355013. |
PTM databases | |
| PhosphoSite | Q6PD62. |
Polymorphism databases | |
| DMDM | 74758318. |
Proteomic databases | |
| PaxDb | Q6PD62. |
| PRIDE | Q6PD62. |
Protocols and materials databases | |
| StructuralBiologyKnowledgebase | Search... |
Genome annotation databases | |
| Ensembl | ENST00000361367; ENSP00000355013; ENSG00000198730. |
| GeneID | 9646. |
| KEGG | hsa:9646. |
| UCSC | uc001mja.3. human. |
Organism-specific databases | |
| CTD | 9646. |
| GeneCards | GC11P010772. |
| HGNC | HGNC:16850. CTR9. |
| MIM | 609366. gene. |
| neXtProt | NX_Q6PD62. |
| PharmGKB | PA134896774. |
| HUGE | Search... |
| GenAtlas | Search... |
Phylogenomic databases | |
| eggNOG | COG0457. |
| HOGENOM | HOG000246926. |
| HOVERGEN | HBG081372. |
| InParanoid | Q6PD62. |
| KO | K15176. |
| OMA | TQNDTYS. |
| OrthoDB | EOG4NKBTV. |
Gene expression databases | |
| ArrayExpress | Q6PD62. |
| Bgee | Q6PD62. |
| CleanEx | HS_CTR9. |
| Genevestigator | Q6PD62. |
| GermOnline | ENSG00000198730. Homo sapiens. |
Family and domain databases | |
| Gene3D | 1.25.40.10. 5 hits. |
| InterPro | IPR001440. TPR-1. IPR013026. TPR-contain_dom. IPR011990. TPR-like_helical. IPR013105. TPR_2. IPR019734. TPR_repeat. [Graphical view] |
| Pfam | PF00515. TPR_1. 7 hits. PF07719. TPR_2. 1 hit. [Graphical view] |
| SMART | SM00028. TPR. 9 hits. [Graphical view] |
| PROSITE | PS50005. TPR. 10 hits. PS50293. TPR_REGION. 1 hit. [Graphical view] |
| ProtoNet | Search... |
Other | |
| ChiTaRS | CTR9. human. |
| GenomeRNAi | 9646. |
| NextBio | 36207. |
| PMAP-CutDB | Q6PD62. |
| SOURCE | Search... |
Entry information
| Entry name | CTR9_HUMAN | ||||||||
| Accession | Primary (citable) accession number: Q6PD62 Secondary accession number(s): D3DQV8, Q15015 | ||||||||
| Entry history |
| ||||||||
| 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 11 Human chromosome 11: entries, gene names and cross-references to MIM |
| MIM cross-references Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot |
| SIMILARITY comments Index of protein domains and families |

Clusters with
