Conserved Protein Domain Family
PCIF1_WW

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pfam12237: PCIF1_WW 
Phosphorylated CTD interacting factor 1 WW domain
This domain family is found in bacteria and eukaryotes, and is approximately 180 amino acids in length. This domain is the WW domain of PCIF1. PCIF1 interacts with phosphorylated RNA polymerase II carboxy-terminal domain (CTD). The WW domain of PCIF1 can directly and preferentially bind to the phosphorylated CTD compared to the unphosphorylated CTD. PCIF1 binds to the hyperphosphorylated RNAP II (RNAP IIO) in vitro and in vivo. Double immunofluorescence labeling in HeLa cells demonstrated that PCIF1 and endogenous RNAP IIO are co-localized in the cell nucleus. Thus, PCIF1 may play a role in mRNA synthesis by modulating RNAP IIO activity.
Statistics
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PSSM-Id: 403450
View PSSM: pfam12237
Aligned: 28 rows
Threshold Bit Score: 177.454
Threshold Setting Gi: 121975124
Created: 21-May-2020
Updated: 7-Aug-2020
Structure
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Aligned Rows:
PubMed ReferencesClick to see Conserved Features Help

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
XP_002293402    420 KLKTLFDtty----ksGSLTEIQSTHAFHTALFATVIRYSSLSGGQqlnDWRGGGMQGAIHEGVFDCLGRWFGknAGTEC 495 Thalassiosir...
EED96487        426 KLKSLYErti----lsVSGDLEEYHQYFPQTLFTILLRYDALEG---------AGLQSAIPPSVFHFLHKRFQ--CSWEC 490 Thalassiosir...
EEY67986        100 kLREMFAkkqg-lggdGSNMAPKDQQQLECALFCLLLRYESLDG---------GGFQAALNEECFDVLLKEFD--CKMEC 167 Phytophthora...
jgi:OSTLU_16119 198 KLRALYCrtvrgceplTEDVDSDEYQKFACAVFALLMRYESLGG---------AGYQSALAEDAFDVLNEKLG--VSCEC 266 Ostreococcus...
XP_003058243    245 KLRALYSrhslggaplPPE-GSSEHAAFAASVFALLARYDACGG---------AGYQAALGEKAFDVLKKRVG--VGCEA 312 Micromonas p...
jgi:OSTLU_27929 165 KLRALYEkhsraggddDGDDDVHD------RMFALLLRYKTIHG---------HGFQAACSHDVFRVLHDDLK--VTMEC 227 Ostreococcus...
XP_002506891    326 salvnaaanvvdslndDASNEPKSYVVFHARLFALLLRYKSIHG---------YGFQASVGPEVFELLRRTVG--AQVEC 394 Micromonas c...
XP_002507705    203 KLRHLFAmrsesspplSSD----DISVFQSATFSMLCRYTAAQGGM---HRMSGGHHTALHAAVFDVLQHGLD--VEAEC 273 Micromonas c...
XP_001417960     40 KLKTLYAn-------aSSKEFVEN--DFLFDAFAMVCRYDAAAGGQ---FRFSGGSQASLHGQVFDVLRDCFK--VECEL 105 Ostreococcus...
Q4DIJ3          272 dvlitlevhaehvtrlrrlavcTEDGQFLFSLALVLLRYAGLSGGE---WQLESGWHAGVPHSVFDALVSAFR--VSVEC 346 Trypanosoma ...
XP_002293402    496 FASPFNCSLP------------QYFSAFp-----sPDLDGHFGSSGDFFhpSSnaaFLKS--GWYELNPPFSSGIMNNMA 556 Thalassiosir...
EED96487        491 FASPFNCWLErrqgsgdivgggRFGCAF-------GDTDAWFGGAGSFFgmDFvsmANEQggGCFQANPPFASNFMESMC 563 Thalassiosir...
EEY67986        168 FASPLNCRYS------------RFCSAF-------LDTDFAFGSVGSFF--DF---SPRS--GCFEANPPFIPKVIKRMA 221 Phytophthora...
jgi:OSTLU_16119 267 FASPLNARYG------------QFCSQFgfdedraPDVDAFFGSLGSFFsdDF---APKR--GSFEMNPPFVPETMSRAV 329 Ostreococcus...
XP_003058243    313 FASPLNARYG------------RFCSAF-------PDVDGPFGSLGSFF--DF---APTR--GSFEMNPPFVPEVLLAAA 366 Micromonas p...
jgi:OSTLU_27929 228 FASPMNAYFA------------RFCSAF-------GDVDAPFGSIGSFA--AF---QPSR--GSYEVNPPFVREVLDEAA 281 Ostreococcus...
XP_002506891    395 FASPLNAFHG------------RYHSAF-------PDVDGPFGSCGDFF--RYcadKIRR--GSFQVNPPFVSDVMSDAY 451 Micromonas c...
XP_002507705    274 FASPLNCHFH------------EYCSLF-------PDTDTTFGSRGSFF--SF---FPAE--GSFECNPPFEEGIVLRCA 327 Micromonas c...
XP_001417960    106 FASPLNCRWP------------MYYSKY-------GDVDKPFGSLGDFR--AC---KPSG--GAFEANPPFDEDVVARMA 159 Ostreococcus...
Q4DIJ3          347 FASPLNCTLP------------RYFSAF-------PDTDVFFGCRGNFFalQHl-pPPEEglISLEANPPFDHEVIAAGL 406 Trypanosoma ...
XP_002293402    557 QRIEELLEMAtsrQ--L--DVTFIIVVP-TCRDHAT-----ASSASYHSK-KKAKKSEK--H 605 Thalassiosira pseudonana CCMP1335
EED96487        564 NSMNKTLSQKdedDgnSgvPLMFVIFVP-AWRE--SsgwkaLTESPHLSK-HVVLLQKEdpH 621 Thalassiosira pseudonana CCMP1335
EEY67986        222 DHMTALLNAA---D--G--PLAFIVIIP-AWQE--TegwqqLNASRFNQR-HLLIPQKQ--H 270 Phytophthora infestans T30-4
jgi:OSTLU_16119 330 EKANDLLDRAanaN--E--ALSFVVIVP-LWKE--ChywsaLLESRHLQHgPDIIDAQS--H 382 Ostreococcus lucimarinus CCE9901
XP_003058243    367 ERAEKLLRTAeesD--S--RLSFVVVVP-AWRD--VpmwtaLEKSAFKRGdALIVPASA--H 419 Micromonas pusilla CCMP1545
jgi:OSTLU_27929 282 LWCEALLERAeksQ--N--ALTFVFIMP-GWKE--TgafdaLTNSAFLRA-NVLIAAVD--H 333 Ostreococcus lucimarinus CCE9901
XP_002506891    452 DAMATALNAAdeaD--S--PLTFVVFVP-GWTE--TsawrkLTASTHARN-SFVVAASD--H 503 Micromonas commoda
XP_002507705    328 EHVLLLLSRAeelK--T--ALSFAVITP-YWPG--RlawetVASSQYTSH-VERIRRNE--H 379 Micromonas commoda
XP_001417960    160 EHLFECLDAA---S--S--ALTFVVVTP-HWPN--RpcwekMRRSKFCSR-AEVISVRE--H 208 Ostreococcus lucimarinus CCE9901
Q4DIJ3          407 GRALQWLEDTpstT-----PLSFVFILPdSTQTNGIevrrkAEQSQFFRG-DCVLSPHM--S 460 Trypanosoma cruzi
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