ID:CTR9_HUMAN DESCRIPTION: RecName: Full=RNA polymerase-associated protein CTR9 homolog; AltName: Full=SH2 domain-binding protein 1; 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). SUBUNIT: Component of the mammalian PAF1 complex, which consists of CDC73, PAF1, LEO1, CTR9, RTF1 and WDR61. Interacts with MLL. Interacts with STAT3 (By similarity). INTERACTION: Q6P1J9:CDC73; NbExp=15; IntAct=EBI-1019583, EBI-930143; Q03164:MLL; NbExp=5; IntAct=EBI-1019583, EBI-591370; Q8N7H5:PAF1; NbExp=22; IntAct=EBI-1019583, EBI-2607770; Q9GZS3:WDR61; NbExp=9; IntAct=EBI-1019583, EBI-358545; SUBCELLULAR LOCATION: Nucleus speckle (By similarity). Note=Found in speckles (By similarity). TISSUE SPECIFICITY: Widely expressed. SIMILARITY: Contains 16 TPR repeats. SEQUENCE CAUTION: Sequence=BAA09925.2; Type=Erroneous initiation;
The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.
ModBase Predicted Comparative 3D Structure on Q6PD62
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Orthologous Genes in Other Species
Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
E08855 - Novel gene involved in megakaryocyte differentiation. BC014335 - Homo sapiens SH2 domain binding protein 1 (tetratricopeptide repeat containing), mRNA (cDNA clone IMAGE:4046505), with apparent retained intron. AK291794 - Homo sapiens cDNA FLJ76427 complete cds, highly similar to Homo sapiens SH2 domain binding protein 1 (tetratricopeptide repeat containing) (SH2BP1), mRNA. BC020951 - Homo sapiens Ctr9, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae), mRNA (cDNA clone IMAGE:3915089), **** WARNING: chimeric clone ****. BC058914 - Homo sapiens Ctr9, Paf1/RNA polymerase II complex component, homolog (S. cerevisiae), mRNA (cDNA clone MGC:65041 IMAGE:6527835), complete cds. D63875 - Homo sapiens mRNA for KIAA0155 gene. DL491875 - Novel nucleic acids. AB383773 - Synthetic construct DNA, clone: pF1KSDA0155, Homo sapiens CTR9 gene for RNA polymerase-associated protein CTR9 homolog, complete cds, without stop codon, in Flexi system. DL490440 - Novel nucleic acids. JD441346 - Sequence 422370 from Patent EP1572962. JD049118 - Sequence 30142 from Patent EP1572962. JD183034 - Sequence 164058 from Patent EP1572962. JD359438 - Sequence 340462 from Patent EP1572962. JD242458 - Sequence 223482 from Patent EP1572962. JD082811 - Sequence 63835 from Patent EP1572962.
Biochemical and Signaling Pathways
Reactome (by CSHL, EBI, and GO)
Protein Q6PD62 (Reactome details) participates in the following event(s):
R-HSA-112379 Recruitment of elongation factors to form elongation complex R-HSA-8942099 RNF20:RNF40 binds PAF complex, Ubiquitin:UBE2A,B (Ubiquitin:RAD6), WAC and Histone H2B R-HSA-113429 Elongating transcript encounters a lesion in the template R-HSA-112385 Addition of nucleotides leads to transcript elongation R-HSA-113411 2-4 nt.backtracking of Pol II complex on the template leading to elongation pausing R-HSA-113412 Pol II elongation complex moves on the template as transcript elongates R-HSA-113414 7-14 nt. Backtracking of Pol II complex on the template leading to elongation arrest R-HSA-112392 Resumption of elongation after recovery from pausing R-HSA-113413 TFIIS-mediated recovery of elongation from arrest R-HSA-112395 Abortive termination of elongation after arrest R-HSA-112396 Separation of elongating transcript from template R-HSA-112382 Formation of RNA Pol II elongation complex R-HSA-8866654 E3 ubiquitin ligases ubiquitinate target proteins R-HSA-674695 RNA Polymerase II Pre-transcription Events R-HSA-75955 RNA Polymerase II Transcription Elongation R-HSA-8852135 Protein ubiquitination R-HSA-73857 RNA Polymerase II Transcription R-HSA-597592 Post-translational protein modification R-HSA-74160 Gene expression (Transcription) R-HSA-392499 Metabolism of proteins
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Sequence and Links to Tools and Databases 
Common Gene Haplotype Alleles 
