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Conserved domains on  [gi|285811316|tpg|DAA12140|]
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TPA: cleavage/polyadenylation factor CFT1 [Saccharomyces cerevisiae S288C]

Protein Classification

cleavage/polyadenylation factor CFT1( domain architecture ID 11474056)

cleavage/polyadenylation factor CFT1 (cleavage factor two protein 1) is an RNA-binding component of the cleavage and polyadenylation factor (CPF) complex, which plays a key role in polyadenylation-dependent pre-mRNA 3'-end formation and cooperates with cleavage factors including the CFIA complex and NAB4/CFIB

Gene Symbol:  CFT1
Gene Ontology:  GO:0003723|GO:0006397|GO:0005847
PubMed:  11421366|29074584
SCOP:  4000432

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
SFT1 COG5161
Pre-mRNA cleavage and polyadenylation specificity factor [RNA processing and modification];
1-1353 0e+00

Pre-mRNA cleavage and polyadenylation specificity factor [RNA processing and modification];


:

Pssm-ID: 227490 [Multi-domain]  Cd Length: 1319  Bit Score: 1935.52  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316    1 MNVYDDVLDATVVSHSLATHFTTSDYEELLVVRTNILSVYRPTRDGKLYLTDEFKFHGLITDIGLIPQKDSPLSCLLLCT 80
Cdd:COG5161     2 NYLYSDESDWTVTEGCSAGLFTPSRTCSLLVYNGNILAVRLWKYDSGLVLVDEHMLLEKVTQIEKYPQISSEQDGLLLLT 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316   81 GVAKISILKFNTLTNSIDTLSLHYYEGKFKGKSLVELAKISTLRMDPGSSCALLFNNDIIAFLPFHVNKNDDDEEEEDED 160
Cdd:COG5161    82 HRAKISLLRFDSQANEFRTISLHYYEGKFKGKSLVELAKFSTLEFDIRSSCALLFNEDIGNFLPFHVNKNDDDEVRIDVD 161

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316  161 ENIDDSELIHSMNQKSQGTNTFNKRKRTKLGDKFTAPSVVLVASELYEGAKNIIDIQFLKNFTKPTIALLYQPKLVWAGN 240
Cdd:COG5161   162 LGMFQMSKRHFSIFPSQGTNTFNKRKRTLFPGKFSAPSKVLKFSELDGKIKNIIDFVFLENYSIPTVALLYDPKLSLPRK 241

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316  241 TTISKLPTQYVILTLNIQPAESATkiesttIAFVKELPWDLHTIVPVSNGAIIVGTNELAFLDNTGVLQsTVLLNSFADK 320
Cdd:COG5161   242 YTILKNPYNAIVFTLDLGAGRSAV------IDEFLVLPRDFRVTVAGPVGALLFGSNELILIDSTGSSY-TIPLNSMSEK 314

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316  321 ELQKTKIINNSSLEIMFREKNTTSIWIPSSKSKNggsnndETLLLMDLKSNIYYIQMEAEGRLLIKFDIFKLPIVNDLLK 400
Cdd:COG5161   315 YGGNKIVEDISLSDVNCFSRGTTSIWIPSSKCLI------ETLFLGDLNGDRYYLRISMDGKRIIGFDIASLEFEGDLLK 388

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316  401 ENSNPKCITRLNATnsnknmDLFIGFGSGNALVLRLNNLKSTIETREAHnpssGTNSLMDINDDDDEEmddLYAdeAPEN 480
Cdd:COG5161   389 KGSAVSCVGHVNNL------LFFGGVGDSNSRVLRIKSLLPTIETRASE----GVGPLEGGNDEEMDD---EYS--APEN 453

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316  481 GLTTNDSKGTVETVQPFDIELLSSLRNVGPITSLTVGKVssidDVVKGLPNPNKNEYSLVATSGNGSGSHLTVIQTSVQP 560
Cdd:COG5161   454 KLFGNKEQEVRRQDEPYDAELFNALSNAGPITDFAVGKV----DVEKGLPIPNIGLLNLVVTKGSDSEAALAVEGTSLEP 529

                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316  561 EIELALKFISITQIWNLKIKGRDR----YLITTDSTKSRSDIYESDNNFKLHKGGRLRRDATTVYISMFGEEKRIIQVTT 636
Cdd:COG5161   530 CICTVSSFIPLEIVWSQKIRGYLRcsraLDFYILSRVSDSRIFRWSEEFLLEVSGEYTRDVNTLLFVEFGEENRVVQVTP 609

                         650       660       670       680       690       700       710       720
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316  637 NHLYLYDTHFRRLTTIKFDYE-VIHVSVMDPYILVTVSRGDIKIFELEEKNKRkLLKVDLPEILNEMVITSGLILKSNMC 715
Cdd:COG5161   610 SYLLRYDQDLRMLGRVEFASRaVEARSVRDPLILVVRDSGKILTFYDREKNMR-LFKIDLVTCLADAKNKSFVLSDSNSL 688

                         730       740       750       760       770       780       790       800
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316  716 NEFLIGLSKSQEEQLLFTFVTADNQIIFFTKDHNDRIFQLNGVDQLNESLYISTYQLGDEIVPDPSIKQVMINKLGHDNK 795
Cdd:COG5161   689 GIFDIGKRISQLEPCLVKGLPYAIQFSPEASPAMDLAGEEDGDDQLTEISMSLTYNLIDMLFRLPSIGNYMVAYLGLDLK 768

                         810       820       830       840       850       860       870       880
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316  796 EEYLTILTFGGEIYQYRKLPQRRSRFYRNVTRNDLAITGAPDNAYAKGVSSIERIMHYFPDYNGYSVIFVTGSVPYILIK 875
Cdd:COG5161   769 EEYLFDNSLSSEIVFYKTHLPRHVSFNLNVTRNDLAITGAPDNADIKAFSSVGRIDMVFIKAVGHSFMFVTGKGPFLCRS 848

                         890       900       910       920       930       940       950       960
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316  876 EDDSTPKIFKFGNIPLVSVTPWSERSVMCVDDIKNARVYTLTTDNMYYGNKLPLKQIKISnvlddyKTLQKLVYHERAQL 955
Cdd:COG5161   849 RYTSSSKAFHRGNIPLVSVIPLSKRGYLMVDNVLGVRASQYVFDNGYVGNKNPVKRTPKH------KTLQKLVYHCAGRY 922

                         970       980       990      1000      1010      1020      1030      1040
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316  956 FLVSYCKRVPYEALGEDGEKVIGYDENVPHAEGFQSGILLINPKSWKVIDKIDFPKNSVVNEMRSSMIQINSKTKRKREY 1035
Cdd:COG5161   923 MVVGSCEEAGFSPKGEDGESGIPVDTNVPHAEGYRFYVDLYSPKSWEVIDTYEFDENEYVFHIKYLILDDMQGTKGKSPY 1002

                        1050      1060      1070      1080      1090      1100      1110      1120
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316 1036 IIAGVANATTEDTPPTGAFHIYDVIEVVPEPGKPDTNYKLKEIFQEEVSGTVSTVCEVSGRFMISQSQKVLVRDIQEDNS 1115
Cdd:COG5161  1003 ILVGTTFIEGEDRPARGRLHVLEIISVVPSPGSPFTDCKLKVLGIEETKGTVVRVCEVRGKIALCQGQKVMVRKIDRSSG 1082

                        1130      1140      1150      1160      1170      1180      1190      1200
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316 1116 VIPVAFLDIPVFVTDSKSFGNLLIIGDAMQGFQFIGFDAEPYRMISLGRSMSKFQTMSLEFLVNGGDMYFAATDADRNVH 1195
Cdd:COG5161  1083 IIPVGFYDLHIFTSSIKVVKNLLLAGDIYQGLSFFGFQSEPYRMHLISSSEPLRNATSTEFLVTGNELYFLCCDAKGNIH 1162

                        1210      1220      1230      1240      1250      1260      1270      1280
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316 1196 VLKYAPDEPNSLSGQRLVHCSSFTLHSTNSCMMLLPRNEEFGSPQVPSFQNVGGQVDGSVFKIVPLSEEKYRRLYVIQQQ 1275
Cdd:COG5161  1163 GLTYSPNNPISMSGARLVKRSSFTLHSAEIKMNLLPRNSEFGAGFKKNFIMVYSRSDGMLIHVVPISDAHYRRLLGIQTA 1242

                        1290      1300      1310      1320      1330      1340      1350
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 285811316 1276 IIDRELQLGGLNPRMERLANDFYQMGHSMRPMLDFNVIRRFCGLAIDRRKSIAQKAGRHAHFEAWrDIINIEFSMRSL 1353
Cdd:COG5161  1243 IMARLKSVGGLNPRDYRLNSDIHLHSLSLRSPLDLHIINLFSYFDMSTRESVASKAGRIDRKEIS-DMIASLNLLRSL 1319
 
Name Accession Description Interval E-value
SFT1 COG5161
Pre-mRNA cleavage and polyadenylation specificity factor [RNA processing and modification];
1-1353 0e+00

Pre-mRNA cleavage and polyadenylation specificity factor [RNA processing and modification];


Pssm-ID: 227490 [Multi-domain]  Cd Length: 1319  Bit Score: 1935.52  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316    1 MNVYDDVLDATVVSHSLATHFTTSDYEELLVVRTNILSVYRPTRDGKLYLTDEFKFHGLITDIGLIPQKDSPLSCLLLCT 80
Cdd:COG5161     2 NYLYSDESDWTVTEGCSAGLFTPSRTCSLLVYNGNILAVRLWKYDSGLVLVDEHMLLEKVTQIEKYPQISSEQDGLLLLT 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316   81 GVAKISILKFNTLTNSIDTLSLHYYEGKFKGKSLVELAKISTLRMDPGSSCALLFNNDIIAFLPFHVNKNDDDEEEEDED 160
Cdd:COG5161    82 HRAKISLLRFDSQANEFRTISLHYYEGKFKGKSLVELAKFSTLEFDIRSSCALLFNEDIGNFLPFHVNKNDDDEVRIDVD 161

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316  161 ENIDDSELIHSMNQKSQGTNTFNKRKRTKLGDKFTAPSVVLVASELYEGAKNIIDIQFLKNFTKPTIALLYQPKLVWAGN 240
Cdd:COG5161   162 LGMFQMSKRHFSIFPSQGTNTFNKRKRTLFPGKFSAPSKVLKFSELDGKIKNIIDFVFLENYSIPTVALLYDPKLSLPRK 241

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316  241 TTISKLPTQYVILTLNIQPAESATkiesttIAFVKELPWDLHTIVPVSNGAIIVGTNELAFLDNTGVLQsTVLLNSFADK 320
Cdd:COG5161   242 YTILKNPYNAIVFTLDLGAGRSAV------IDEFLVLPRDFRVTVAGPVGALLFGSNELILIDSTGSSY-TIPLNSMSEK 314

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316  321 ELQKTKIINNSSLEIMFREKNTTSIWIPSSKSKNggsnndETLLLMDLKSNIYYIQMEAEGRLLIKFDIFKLPIVNDLLK 400
Cdd:COG5161   315 YGGNKIVEDISLSDVNCFSRGTTSIWIPSSKCLI------ETLFLGDLNGDRYYLRISMDGKRIIGFDIASLEFEGDLLK 388

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316  401 ENSNPKCITRLNATnsnknmDLFIGFGSGNALVLRLNNLKSTIETREAHnpssGTNSLMDINDDDDEEmddLYAdeAPEN 480
Cdd:COG5161   389 KGSAVSCVGHVNNL------LFFGGVGDSNSRVLRIKSLLPTIETRASE----GVGPLEGGNDEEMDD---EYS--APEN 453

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316  481 GLTTNDSKGTVETVQPFDIELLSSLRNVGPITSLTVGKVssidDVVKGLPNPNKNEYSLVATSGNGSGSHLTVIQTSVQP 560
Cdd:COG5161   454 KLFGNKEQEVRRQDEPYDAELFNALSNAGPITDFAVGKV----DVEKGLPIPNIGLLNLVVTKGSDSEAALAVEGTSLEP 529

                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316  561 EIELALKFISITQIWNLKIKGRDR----YLITTDSTKSRSDIYESDNNFKLHKGGRLRRDATTVYISMFGEEKRIIQVTT 636
Cdd:COG5161   530 CICTVSSFIPLEIVWSQKIRGYLRcsraLDFYILSRVSDSRIFRWSEEFLLEVSGEYTRDVNTLLFVEFGEENRVVQVTP 609

                         650       660       670       680       690       700       710       720
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316  637 NHLYLYDTHFRRLTTIKFDYE-VIHVSVMDPYILVTVSRGDIKIFELEEKNKRkLLKVDLPEILNEMVITSGLILKSNMC 715
Cdd:COG5161   610 SYLLRYDQDLRMLGRVEFASRaVEARSVRDPLILVVRDSGKILTFYDREKNMR-LFKIDLVTCLADAKNKSFVLSDSNSL 688

                         730       740       750       760       770       780       790       800
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316  716 NEFLIGLSKSQEEQLLFTFVTADNQIIFFTKDHNDRIFQLNGVDQLNESLYISTYQLGDEIVPDPSIKQVMINKLGHDNK 795
Cdd:COG5161   689 GIFDIGKRISQLEPCLVKGLPYAIQFSPEASPAMDLAGEEDGDDQLTEISMSLTYNLIDMLFRLPSIGNYMVAYLGLDLK 768

                         810       820       830       840       850       860       870       880
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316  796 EEYLTILTFGGEIYQYRKLPQRRSRFYRNVTRNDLAITGAPDNAYAKGVSSIERIMHYFPDYNGYSVIFVTGSVPYILIK 875
Cdd:COG5161   769 EEYLFDNSLSSEIVFYKTHLPRHVSFNLNVTRNDLAITGAPDNADIKAFSSVGRIDMVFIKAVGHSFMFVTGKGPFLCRS 848

                         890       900       910       920       930       940       950       960
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316  876 EDDSTPKIFKFGNIPLVSVTPWSERSVMCVDDIKNARVYTLTTDNMYYGNKLPLKQIKISnvlddyKTLQKLVYHERAQL 955
Cdd:COG5161   849 RYTSSSKAFHRGNIPLVSVIPLSKRGYLMVDNVLGVRASQYVFDNGYVGNKNPVKRTPKH------KTLQKLVYHCAGRY 922

                         970       980       990      1000      1010      1020      1030      1040
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316  956 FLVSYCKRVPYEALGEDGEKVIGYDENVPHAEGFQSGILLINPKSWKVIDKIDFPKNSVVNEMRSSMIQINSKTKRKREY 1035
Cdd:COG5161   923 MVVGSCEEAGFSPKGEDGESGIPVDTNVPHAEGYRFYVDLYSPKSWEVIDTYEFDENEYVFHIKYLILDDMQGTKGKSPY 1002

                        1050      1060      1070      1080      1090      1100      1110      1120
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316 1036 IIAGVANATTEDTPPTGAFHIYDVIEVVPEPGKPDTNYKLKEIFQEEVSGTVSTVCEVSGRFMISQSQKVLVRDIQEDNS 1115
Cdd:COG5161  1003 ILVGTTFIEGEDRPARGRLHVLEIISVVPSPGSPFTDCKLKVLGIEETKGTVVRVCEVRGKIALCQGQKVMVRKIDRSSG 1082

                        1130      1140      1150      1160      1170      1180      1190      1200
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316 1116 VIPVAFLDIPVFVTDSKSFGNLLIIGDAMQGFQFIGFDAEPYRMISLGRSMSKFQTMSLEFLVNGGDMYFAATDADRNVH 1195
Cdd:COG5161  1083 IIPVGFYDLHIFTSSIKVVKNLLLAGDIYQGLSFFGFQSEPYRMHLISSSEPLRNATSTEFLVTGNELYFLCCDAKGNIH 1162

                        1210      1220      1230      1240      1250      1260      1270      1280
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316 1196 VLKYAPDEPNSLSGQRLVHCSSFTLHSTNSCMMLLPRNEEFGSPQVPSFQNVGGQVDGSVFKIVPLSEEKYRRLYVIQQQ 1275
Cdd:COG5161  1163 GLTYSPNNPISMSGARLVKRSSFTLHSAEIKMNLLPRNSEFGAGFKKNFIMVYSRSDGMLIHVVPISDAHYRRLLGIQTA 1242

                        1290      1300      1310      1320      1330      1340      1350
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 285811316 1276 IIDRELQLGGLNPRMERLANDFYQMGHSMRPMLDFNVIRRFCGLAIDRRKSIAQKAGRHAHFEAWrDIINIEFSMRSL 1353
Cdd:COG5161  1243 IMARLKSVGGLNPRDYRLNSDIHLHSLSLRSPLDLHIINLFSYFDMSTRESVASKAGRIDRKEIS-DMIASLNLLRSL 1319
CPSF_A pfam03178
CPSF A subunit region; This family includes a region that lies towards the C-terminus of the ...
 990-1316 3.90e-104

CPSF A subunit region; This family includes a region that lies towards the C-terminus of the cleavage and polyadenylation specificity factor (CPSF) A (160 kDa) subunit. CPSF is involved in mRNA polyadenylation and binds the AAUAAA conserved sequence in pre-mRNA. CPSF has also been found to be necessary for splicing of single-intron pre-mRNAs. The function of the aligned region is unknown but may be involved in RNA/DNA binding.


Pssm-ID: 427182  Cd Length: 319  Bit Score: 333.40  E-value: 3.90e-104
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316   990 QSGILLINPKSWKVIDKIDFPKNSVVNEMRSSMIQINSKTKRKREYIIAGVANATTEDTPP-TGAFHIYDVIEVvpepgk 1068
Cdd:pfam03178    1 ASCIRLVDPITKEVIDTLELEENEAVLSVKSVNLEDSSTTKGKEEYLVVGTAFDLGEDPAArSGRILVFEIIEV------ 74

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316  1069 PDTNYKLKEIFQEEVSGTVSTVCEVSGRFMISQSQKVLVRDIQEDNSVIPVAFLDIPVFVTDSKSFGNLLIIGDAMQGFQ 1148
Cdd:pfam03178   75 PETNRKLKLVHKTEVKGAVTALAEFQGRLLAGQGQKLRVYDLGEDKSLLPKAFLDTGVYVVDLKVFGNRIIVGDLMKSVT 154

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316  1149 FIGFDAEPYRMISLGRSMSKFQTMSLEFLvngGDMYFAATDADRNVHVLKYAPDEPNSLSGQ-RLVHCSSFTLHSTNSCM 1227
Cdd:pfam03178  155 FVGYDEEPYRLIEFARDTQPRWVTAAEFL---DGDTVLVADKFGNLHVLRYDPDVPESLDGDpRLLVRAEFHLGETVTSF 231

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316  1228 ---MLLPRNEEfgspQVPSFQNVGGQVDGSVFKIVP-LSEEKYRRLYVIQQQIIDRELQLGGLNPRMERLandFYQMGHS 1303
Cdd:pfam03178  232 rkgSLVPGGSE----SPSSPQLLYGTLDGSIGLLVPfISEEDYRFLQSLQQQLRDELPHLGGLDHRAFRS---YYTPPRT 304

                          330
                   ....*....|...
gi 285811316  1304 MRPMLDFNVIRRF 1316
Cdd:pfam03178  305 VKGVIDGDLLERF 317
 
Name Accession Description Interval E-value
SFT1 COG5161
Pre-mRNA cleavage and polyadenylation specificity factor [RNA processing and modification];
1-1353 0e+00

Pre-mRNA cleavage and polyadenylation specificity factor [RNA processing and modification];


Pssm-ID: 227490 [Multi-domain]  Cd Length: 1319  Bit Score: 1935.52  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316    1 MNVYDDVLDATVVSHSLATHFTTSDYEELLVVRTNILSVYRPTRDGKLYLTDEFKFHGLITDIGLIPQKDSPLSCLLLCT 80
Cdd:COG5161     2 NYLYSDESDWTVTEGCSAGLFTPSRTCSLLVYNGNILAVRLWKYDSGLVLVDEHMLLEKVTQIEKYPQISSEQDGLLLLT 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316   81 GVAKISILKFNTLTNSIDTLSLHYYEGKFKGKSLVELAKISTLRMDPGSSCALLFNNDIIAFLPFHVNKNDDDEEEEDED 160
Cdd:COG5161    82 HRAKISLLRFDSQANEFRTISLHYYEGKFKGKSLVELAKFSTLEFDIRSSCALLFNEDIGNFLPFHVNKNDDDEVRIDVD 161

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316  161 ENIDDSELIHSMNQKSQGTNTFNKRKRTKLGDKFTAPSVVLVASELYEGAKNIIDIQFLKNFTKPTIALLYQPKLVWAGN 240
Cdd:COG5161   162 LGMFQMSKRHFSIFPSQGTNTFNKRKRTLFPGKFSAPSKVLKFSELDGKIKNIIDFVFLENYSIPTVALLYDPKLSLPRK 241

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316  241 TTISKLPTQYVILTLNIQPAESATkiesttIAFVKELPWDLHTIVPVSNGAIIVGTNELAFLDNTGVLQsTVLLNSFADK 320
Cdd:COG5161   242 YTILKNPYNAIVFTLDLGAGRSAV------IDEFLVLPRDFRVTVAGPVGALLFGSNELILIDSTGSSY-TIPLNSMSEK 314

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316  321 ELQKTKIINNSSLEIMFREKNTTSIWIPSSKSKNggsnndETLLLMDLKSNIYYIQMEAEGRLLIKFDIFKLPIVNDLLK 400
Cdd:COG5161   315 YGGNKIVEDISLSDVNCFSRGTTSIWIPSSKCLI------ETLFLGDLNGDRYYLRISMDGKRIIGFDIASLEFEGDLLK 388

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316  401 ENSNPKCITRLNATnsnknmDLFIGFGSGNALVLRLNNLKSTIETREAHnpssGTNSLMDINDDDDEEmddLYAdeAPEN 480
Cdd:COG5161   389 KGSAVSCVGHVNNL------LFFGGVGDSNSRVLRIKSLLPTIETRASE----GVGPLEGGNDEEMDD---EYS--APEN 453

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316  481 GLTTNDSKGTVETVQPFDIELLSSLRNVGPITSLTVGKVssidDVVKGLPNPNKNEYSLVATSGNGSGSHLTVIQTSVQP 560
Cdd:COG5161   454 KLFGNKEQEVRRQDEPYDAELFNALSNAGPITDFAVGKV----DVEKGLPIPNIGLLNLVVTKGSDSEAALAVEGTSLEP 529

                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316  561 EIELALKFISITQIWNLKIKGRDR----YLITTDSTKSRSDIYESDNNFKLHKGGRLRRDATTVYISMFGEEKRIIQVTT 636
Cdd:COG5161   530 CICTVSSFIPLEIVWSQKIRGYLRcsraLDFYILSRVSDSRIFRWSEEFLLEVSGEYTRDVNTLLFVEFGEENRVVQVTP 609

                         650       660       670       680       690       700       710       720
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316  637 NHLYLYDTHFRRLTTIKFDYE-VIHVSVMDPYILVTVSRGDIKIFELEEKNKRkLLKVDLPEILNEMVITSGLILKSNMC 715
Cdd:COG5161   610 SYLLRYDQDLRMLGRVEFASRaVEARSVRDPLILVVRDSGKILTFYDREKNMR-LFKIDLVTCLADAKNKSFVLSDSNSL 688

                         730       740       750       760       770       780       790       800
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316  716 NEFLIGLSKSQEEQLLFTFVTADNQIIFFTKDHNDRIFQLNGVDQLNESLYISTYQLGDEIVPDPSIKQVMINKLGHDNK 795
Cdd:COG5161   689 GIFDIGKRISQLEPCLVKGLPYAIQFSPEASPAMDLAGEEDGDDQLTEISMSLTYNLIDMLFRLPSIGNYMVAYLGLDLK 768

                         810       820       830       840       850       860       870       880
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316  796 EEYLTILTFGGEIYQYRKLPQRRSRFYRNVTRNDLAITGAPDNAYAKGVSSIERIMHYFPDYNGYSVIFVTGSVPYILIK 875
Cdd:COG5161   769 EEYLFDNSLSSEIVFYKTHLPRHVSFNLNVTRNDLAITGAPDNADIKAFSSVGRIDMVFIKAVGHSFMFVTGKGPFLCRS 848

                         890       900       910       920       930       940       950       960
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316  876 EDDSTPKIFKFGNIPLVSVTPWSERSVMCVDDIKNARVYTLTTDNMYYGNKLPLKQIKISnvlddyKTLQKLVYHERAQL 955
Cdd:COG5161   849 RYTSSSKAFHRGNIPLVSVIPLSKRGYLMVDNVLGVRASQYVFDNGYVGNKNPVKRTPKH------KTLQKLVYHCAGRY 922

                         970       980       990      1000      1010      1020      1030      1040
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316  956 FLVSYCKRVPYEALGEDGEKVIGYDENVPHAEGFQSGILLINPKSWKVIDKIDFPKNSVVNEMRSSMIQINSKTKRKREY 1035
Cdd:COG5161   923 MVVGSCEEAGFSPKGEDGESGIPVDTNVPHAEGYRFYVDLYSPKSWEVIDTYEFDENEYVFHIKYLILDDMQGTKGKSPY 1002

                        1050      1060      1070      1080      1090      1100      1110      1120
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316 1036 IIAGVANATTEDTPPTGAFHIYDVIEVVPEPGKPDTNYKLKEIFQEEVSGTVSTVCEVSGRFMISQSQKVLVRDIQEDNS 1115
Cdd:COG5161  1003 ILVGTTFIEGEDRPARGRLHVLEIISVVPSPGSPFTDCKLKVLGIEETKGTVVRVCEVRGKIALCQGQKVMVRKIDRSSG 1082

                        1130      1140      1150      1160      1170      1180      1190      1200
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316 1116 VIPVAFLDIPVFVTDSKSFGNLLIIGDAMQGFQFIGFDAEPYRMISLGRSMSKFQTMSLEFLVNGGDMYFAATDADRNVH 1195
Cdd:COG5161  1083 IIPVGFYDLHIFTSSIKVVKNLLLAGDIYQGLSFFGFQSEPYRMHLISSSEPLRNATSTEFLVTGNELYFLCCDAKGNIH 1162

                        1210      1220      1230      1240      1250      1260      1270      1280
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316 1196 VLKYAPDEPNSLSGQRLVHCSSFTLHSTNSCMMLLPRNEEFGSPQVPSFQNVGGQVDGSVFKIVPLSEEKYRRLYVIQQQ 1275
Cdd:COG5161  1163 GLTYSPNNPISMSGARLVKRSSFTLHSAEIKMNLLPRNSEFGAGFKKNFIMVYSRSDGMLIHVVPISDAHYRRLLGIQTA 1242

                        1290      1300      1310      1320      1330      1340      1350
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 285811316 1276 IIDRELQLGGLNPRMERLANDFYQMGHSMRPMLDFNVIRRFCGLAIDRRKSIAQKAGRHAHFEAWrDIINIEFSMRSL 1353
Cdd:COG5161  1243 IMARLKSVGGLNPRDYRLNSDIHLHSLSLRSPLDLHIINLFSYFDMSTRESVASKAGRIDRKEIS-DMIASLNLLRSL 1319
CPSF_A pfam03178
CPSF A subunit region; This family includes a region that lies towards the C-terminus of the ...
 990-1316 3.90e-104

CPSF A subunit region; This family includes a region that lies towards the C-terminus of the cleavage and polyadenylation specificity factor (CPSF) A (160 kDa) subunit. CPSF is involved in mRNA polyadenylation and binds the AAUAAA conserved sequence in pre-mRNA. CPSF has also been found to be necessary for splicing of single-intron pre-mRNAs. The function of the aligned region is unknown but may be involved in RNA/DNA binding.


Pssm-ID: 427182  Cd Length: 319  Bit Score: 333.40  E-value: 3.90e-104
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316   990 QSGILLINPKSWKVIDKIDFPKNSVVNEMRSSMIQINSKTKRKREYIIAGVANATTEDTPP-TGAFHIYDVIEVvpepgk 1068
Cdd:pfam03178    1 ASCIRLVDPITKEVIDTLELEENEAVLSVKSVNLEDSSTTKGKEEYLVVGTAFDLGEDPAArSGRILVFEIIEV------ 74

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316  1069 PDTNYKLKEIFQEEVSGTVSTVCEVSGRFMISQSQKVLVRDIQEDNSVIPVAFLDIPVFVTDSKSFGNLLIIGDAMQGFQ 1148
Cdd:pfam03178   75 PETNRKLKLVHKTEVKGAVTALAEFQGRLLAGQGQKLRVYDLGEDKSLLPKAFLDTGVYVVDLKVFGNRIIVGDLMKSVT 154

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316  1149 FIGFDAEPYRMISLGRSMSKFQTMSLEFLvngGDMYFAATDADRNVHVLKYAPDEPNSLSGQ-RLVHCSSFTLHSTNSCM 1227
Cdd:pfam03178  155 FVGYDEEPYRLIEFARDTQPRWVTAAEFL---DGDTVLVADKFGNLHVLRYDPDVPESLDGDpRLLVRAEFHLGETVTSF 231

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316  1228 ---MLLPRNEEfgspQVPSFQNVGGQVDGSVFKIVP-LSEEKYRRLYVIQQQIIDRELQLGGLNPRMERLandFYQMGHS 1303
Cdd:pfam03178  232 rkgSLVPGGSE----SPSSPQLLYGTLDGSIGLLVPfISEEDYRFLQSLQQQLRDELPHLGGLDHRAFRS---YYTPPRT 304

                          330
                   ....*....|...
gi 285811316  1304 MRPMLDFNVIRRF 1316
Cdd:pfam03178  305 VKGVIDGDLLERF 317
MMS1_N pfam10433
Mono-functional DNA-alkylating methyl methanesulfonate N-term; MMS1 is a protein that protects ...
 498-697 9.14e-04

Mono-functional DNA-alkylating methyl methanesulfonate N-term; MMS1 is a protein that protects against replication-dependent DNA damage in Saccharomyces cerevisiae. MMS1 belongs to the DDB1 family of cullin 4 adaptors and the two proteins are homologous. MMS1 bridges the interaction of MMS22 and Crt10 with Cul8/Rtt101. Cul8/Rtt101 is a cullin protein involved in the regulation of DNA replication subsequent to DNA damage. The N-terminal region of MMS1 and the C-terminal of MMS22 are required for the the MMS1-MMS22 interaction. The human HIV-1 virion-associated protein Vpr assembles with DDB1 through interaction with DCAF1 (chromatin assembly factor) to form an E3 ubiquitin ligase that targets cellular substrates for proteasome-mediated degradation and subsequent G2 arrest.


Pssm-ID: 463091  Cd Length: 486  Bit Score: 43.41  E-value: 9.14e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316   498 DIELLSSLRNVGPITSLTVgkvssiddvvkgLPNPNKNEYSLVATSGNGSGSHLTVIQTSVQPEI--ELALKFISITQIW 575
Cdd:pfam10433  287 NLELVQTFSNWAPILDFVV------------MDLGGEDTARIYTCSGAGKRGSLRSLRHGVGAEElaVSEEPGSPITGVW 354

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 285811316   576 NLKIKGRDR---YLITTDSTKSR--------SDIYESDNNFKLhkggrlrrDATTVYISMFGEEkRIIQVTTNHLYLYDT 644
Cdd:pfam10433  355 TLKSSPEDEyddYLVVSFVNETRvlsidgdgVEEVDEDSGFLL--------SVPTLAAGNLGDG-RLLQVTPNGIRLIDS 425

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 285811316   645 hFRRLTTIKFDYE--VIHVSVMDPYILVTVSRGDIKIFELEEKNKRKLLKVDLPE 697
Cdd:pfam10433  426 -DKRISEWKPPGGksITAAAANGRQVLLALSGGELVYFEISTQLIEVVERKDLSS 479
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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