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Conserved domains on  [gi|25148482|ref|NP_500157|]
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putative cleavage and polyadenylation specificity factor subunit 1 [Caenorhabditis elegans]

Protein Classification

CPSF1 family protein( domain architecture ID 13419888)

CPSF1 family protein similar to Arabidopsis thaliana cleavage and polyadenylation specificity factor subunit 1 (CPSF1), the RNA recognition subunit of CPSF that plays a key role in pre-mRNA 3'-end formation, recognizing the AAUAAA signal sequence and interacting with poly(A)polymerase and other factors to bring about cleavage and poly(A) addition

Gene Ontology:  GO:0003723|GO:0006397|GO:0005847
PubMed:  38986572|29358758|29074584|11421366
SCOP:  4000432

Graphical summary

 Zoom to residue level

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List of domain hits

 Name Accession Description Interval E-value
CPSF_A pfam03178
CPSF A subunit region; This family includes a region that lies towards the C-terminus of the ...
 1079-1420 1.19e-76

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: 257.13  E-value: 1.19e-76
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482   1079 KYTLNLFSSQDWAAVPntEISFEDMEAVTACEDVALKSESTISGLETLLAMGTVNNYGEEVLVR-GRIILCEVIEVvpep 1157
Cdd:pfam03178    1 ASCIRLVDPITKEVID--TLELEENEAVLSVKSVNLEDSSTTKGKEEYLVVGTAFDLGEDPAARsGRILVFEIIEV---- 74

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482   1158 dqPTSNRKIKVLFDKEQKGPVTGLCAINGLLLCGMGQKVFIWQFKDND-LMGISFLDMHYYVYQLHSLRTIAIACDARES 1236
Cdd:pfam03178   75 --PETNRKLKLVHKTEVKGAVTALAEFQGRLLAGQGQKLRVYDLGEDKsLLPKAFLDTGVYVVDLKVFGNRIIVGDLMKS 152

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482   1237 MSLIRFQEDNKAMSIASRDdrkcaqppMASQLVVDGAHV---GFLLSDETGNITMFNYAPEAPESNGGE-RLTVRAAINI 1312
Cdd:pfam03178  153 VTFVGYDEEPYRLIEFARD--------TQPRWVTAAEFLdgdTVLVADKFGNLHVLRYDPDVPESLDGDpRLLVRAEFHL 224

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482   1313 GTNINAFvrlrGHTSLLQLNNEdekeaIEQRMTTVFASLDGSFGFVRP-LTEKSYRRLHFLQTFIGSVTPQIAGLHIKGS 1391
Cdd:pfam03178  225 GETVTSF----RKGSLVPGGSE-----SPSSPQLLYGTLDGSIGLLVPfISEEDYRFLQSLQQQLRDELPHLGGLDHRAF 295

                          330       340
                   ....*....|....*....|....*....
gi 25148482   1392 RSAKPSqpivnGRNARNLIDGDVVEQYLH 1420
Cdd:pfam03178  296 RSYYTP-----PRTVKGVIDGDLLERFLD 319
SFT1 super family cl34923
Pre-mRNA cleavage and polyadenylation specificity factor [RNA processing and modification];
10-1447 1.40e-76

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


The actual alignment was detected with superfamily member COG5161:

Pssm-ID: 227490 [Multi-domain]  Cd Length: 1319  Bit Score: 279.54  E-value: 1.40e-76
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482   10 DSTAINFSAYGKFLPGENTGFQlltigakfirIFRVNPYVLKEPGEDNEEWQQKTKLECMFSCRllnkchsiaVARVPQL 89
Cdd:COG5161   10 DWTVTEGCSAGLFTPSRTCSLL----------VYNGNILAVRLWKYDSGLVLVDEHMLLEKVTQ---------IEKYPQI 70

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482   90 -PDQDSILMTFDDAKLSIVSINEKERNMQTISLHAFENEYLRDGFINHFQPPLVRSDPSNRCAAcLVYGKHIAILPFHEN 168
Cdd:COG5161   71 sSEQDGLLLLTHRAKISLLRFDSQANEFRTISLHYYEGKFKGKSLVELAKFSTLEFDIRSSCAL-LFNEDIGNFLPFHVN 149

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482  169 -----------------SKRIHSYVIPLK---------------------------QIDPRLDNIADMVFLDGYYEPTIL 204
Cdd:COG5161  150 kndddevridvdlgmfqMSKRHFSIFPSQgtntfnkrkrtlfpgkfsapskvlkfsELDGKIKNIIDFVFLENYSIPTVA 229

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482  205 FLYEPIQTTPGRACVRYDTMCIMGVSVNIVDRQFAVVWQTANLPMDCSQLLPIPKplgGALVFGSNTVVYLNQAVPPCGL 284
Cdd:COG5161  230 LLYDPKLSLPRKYTILKNPYNAIVFTLDLGAGRSAVIDEFLVLPRDFRVTVAGPV---GALLFGSNELILIDSTGSSYTI 306

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482  285 VLNSCYDGFTKFP-LKDLKHLKMTLDCS-------TSVYMEDGRIAVGSRDGDLFLLRLMT---SSGGGTVKSLEF--SK 351
Cdd:COG5161  307 PLNSMSEKYGGNKiVEDISLSDVNCFSRgttsiwiPSSKCLIETLFLGDLNGDRYYLRISMdgkRIIGFDIASLEFegDL 386

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482  352 VYETSIAYSLTVCAPGHLFVGSRLGDSQLLEYTLLKTTRDcaVKRLKIDNKDPAAAEIELDEddmeLYGGAIEEQQNDDD 431
Cdd:COG5161  387 LKKGSAVSCVGHVNNLLFFGGVGDSNSRVLRIKSLLPTIE--TRASEGVGPLEGGNDEEMDD----EYSAPENKLFGNKE 460

                        490       500       510       520       530       540       550       560
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482  432 EQI---DESLQFRELDRLRNVGPVKSMCVGRPNYMSNDLVDAKRrdpVFDLVTASGHGKNGALCVHQRSLRPEIITSSLL 508
Cdd:COG5161  461 QEVrrqDEPYDAELFNALSNAGPITDFAVGKVDVEKGLPIPNIG---LLNLVVTKGSDSEAALAVEGTSLEPCICTVSSF 537

                        570       580       590       600       610       620       630       640
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482  509 EGAEQLWAV---GRKEN-ESHKYLIVSRVRSTLILELGEELVELEEQLFVTGEPTVAAGELSQGALAVQVTST-CIALVT 583
Cdd:COG5161  538 IPLEIVWSQkirGYLRCsRALDFYILSRVSDSRIFRWSEEFLLEVSGEYTRDVNTLLFVEFGEENRVVQVTPSyLLRYDQ 617

                        650       660       670       680       690       700       710       720
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482  584 DGQQMQEVHIDSNfPVIQASIVDPYVALLTQNGRLLLYELvmepyvqlREVDisatsfatwhataQNLTQLTSISIYADA 663
Cdd:COG5161  618 DLRMLGRVEFASR-AVEARSVRDPLILVVRDSGKILTFYD--------REKN-------------MRLFKIDLVTCLADA 675

                        730       740       750       760       770       780       790       800
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482  664 sEIMKFAAAEKSMGGGGGGDGEVSTAENAMMKKEQHeeaillhgeDDDFLYgdeDETIMEQNFPVENGEATIKQSNTRKR 743
Cdd:COG5161  676 -KNKSFVLSDSNSLGIFDIGKRISQLEPCLVKGLPY---------AIQFSP---EASPAMDLAGEEDGDDQLTEISMSLT 742

                        810       820       830       840       850       860       870       880
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482  744 KRLGHDAIQssrggeqsdaiDPtrtfsSISHWLI--VSHENGR--LSIHSLPEMEVVYQIGRFSNVpellvdltveeeeK 819
Cdd:COG5161  743 YNLIDMLFR-----------LP-----SIGNYMVayLGLDLKEeyLFDNSLSSEIVFYKTHLPRHV-------------S 793

                        890       900       910       920       930       940       950       960
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482  820 ERKAKAQQAAKEASVPTdeaeqlNTEMKqlcervleaqivgmGINQAHPILMAIVDeqvvlyemfsssnpIPGHLGISFR 899
Cdd:COG5161  794 FNLNVTRNDLAITGAPD------NADIK--------------AFSSVGRIDMVFIK--------------AVGHSFMFVT 839

                        970       980       990      1000      1010      1020      1030      1040
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482  900 KLPHFICLRTSsHLNsdgkraPFEMKINNGkrfslihpfervssvnngvmivgavptllvygawggmqthqmtvdgPIKA 979
Cdd:COG5161  840 GKGPFLCRSRY-TSS------SKAFHRGNI----------------------------------------------PLVS 866

                       1050      1060      1070      1080      1090      1100      1110      1120
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482  980 FTPFNNENVLhgivyMTQHKSELRIARMHPDFDYEM-PYPVKKIEVGRTIHHVRYLMNSDVYAVVSSIPKPSNKIwvvmn 1058
Cdd:COG5161  867 VIPLSKRGYL-----MVDNVLGVRASQYVFDNGYVGnKNPVKRTPKHKTLQKLVYHCAGRYMVVGSCEEAGFSPK----- 936

                       1130      1140      1150      1160      1170      1180      1190      1200
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482 1059 DDKQEEIHEKDENFVLPAPPKYTLNLFSSQDWAAVPNTEisFEDMEAVTACEDVALKSESTISGLETLLAMGTVNNYGEE 1138
Cdd:COG5161  937 GEDGESGIPVDTNVPHAEGYRFYVDLYSPKSWEVIDTYE--FDENEYVFHIKYLILDDMQGTKGKSPYILVGTTFIEGED 1014

                       1210      1220      1230      1240      1250      1260      1270      1280
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482 1139 VLVRGRIILCEVIEVVPEPDQPTSNRKIKVLFDKEQKGPVTGLCAINGLLLCGMGQKVFIWQFKDND-LMGISFLDMHYY 1217
Cdd:COG5161 1015 RPARGRLHVLEIISVVPSPGSPFTDCKLKVLGIEETKGTVVRVCEVRGKIALCQGQKVMVRKIDRSSgIIPVGFYDLHIF 1094

                       1290      1300      1310      1320      1330      1340      1350      1360
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482 1218 VYQLHSLRTIAIACDARESMSLIRFQEDNKAMSIASRDDRKcaQPPMASQLVVDGAHVGFLLSDETGNITMFNYAPEAPE 1297
Cdd:COG5161 1095 TSSIKVVKNLLLAGDIYQGLSFFGFQSEPYRMHLISSSEPL--RNATSTEFLVTGNELYFLCCDAKGNIHGLTYSPNNPI 1172

                       1370      1380      1390      1400      1410      1420      1430      1440
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482 1298 SNGGERLTVRAAINIGTNINAfvrlrghTSLLQLNNE---DEKEAieqrMTTVFASLDGSFGFVRPLTEKSYRRLHFLQT 1374
Cdd:COG5161 1173 SMSGARLVKRSSFTLHSAEIK-------MNLLPRNSEfgaGFKKN----FIMVYSRSDGMLIHVVPISDAHYRRLLGIQT 1241

                       1450      1460      1470      1480      1490      1500      1510
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 25148482 1375 FIGSVTPQIAGLHIKGSRSAkpSQPIVNGRNARNLIDGDVVEQYLHLSLYDKTDLARRLGVGRYHIIDDLMQL 1447
Cdd:COG5161 1242 AIMARLKSVGGLNPRDYRLN--SDIHLHSLSLRSPLDLHIINLFSYFDMSTRESVASKAGRIDRKEISDMIAS 1312
 
Name Accession Description Interval E-value
CPSF_A pfam03178
CPSF A subunit region; This family includes a region that lies towards the C-terminus of the ...
 1079-1420 1.19e-76

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: 257.13  E-value: 1.19e-76
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482   1079 KYTLNLFSSQDWAAVPntEISFEDMEAVTACEDVALKSESTISGLETLLAMGTVNNYGEEVLVR-GRIILCEVIEVvpep 1157
Cdd:pfam03178    1 ASCIRLVDPITKEVID--TLELEENEAVLSVKSVNLEDSSTTKGKEEYLVVGTAFDLGEDPAARsGRILVFEIIEV---- 74

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482   1158 dqPTSNRKIKVLFDKEQKGPVTGLCAINGLLLCGMGQKVFIWQFKDND-LMGISFLDMHYYVYQLHSLRTIAIACDARES 1236
Cdd:pfam03178   75 --PETNRKLKLVHKTEVKGAVTALAEFQGRLLAGQGQKLRVYDLGEDKsLLPKAFLDTGVYVVDLKVFGNRIIVGDLMKS 152

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482   1237 MSLIRFQEDNKAMSIASRDdrkcaqppMASQLVVDGAHV---GFLLSDETGNITMFNYAPEAPESNGGE-RLTVRAAINI 1312
Cdd:pfam03178  153 VTFVGYDEEPYRLIEFARD--------TQPRWVTAAEFLdgdTVLVADKFGNLHVLRYDPDVPESLDGDpRLLVRAEFHL 224

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482   1313 GTNINAFvrlrGHTSLLQLNNEdekeaIEQRMTTVFASLDGSFGFVRP-LTEKSYRRLHFLQTFIGSVTPQIAGLHIKGS 1391
Cdd:pfam03178  225 GETVTSF----RKGSLVPGGSE-----SPSSPQLLYGTLDGSIGLLVPfISEEDYRFLQSLQQQLRDELPHLGGLDHRAF 295

                          330       340
                   ....*....|....*....|....*....
gi 25148482   1392 RSAKPSqpivnGRNARNLIDGDVVEQYLH 1420
Cdd:pfam03178  296 RSYYTP-----PRTVKGVIDGDLLERFLD 319
SFT1 COG5161
Pre-mRNA cleavage and polyadenylation specificity factor [RNA processing and modification];
10-1447 1.40e-76

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


Pssm-ID: 227490 [Multi-domain]  Cd Length: 1319  Bit Score: 279.54  E-value: 1.40e-76
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482   10 DSTAINFSAYGKFLPGENTGFQlltigakfirIFRVNPYVLKEPGEDNEEWQQKTKLECMFSCRllnkchsiaVARVPQL 89
Cdd:COG5161   10 DWTVTEGCSAGLFTPSRTCSLL----------VYNGNILAVRLWKYDSGLVLVDEHMLLEKVTQ---------IEKYPQI 70

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482   90 -PDQDSILMTFDDAKLSIVSINEKERNMQTISLHAFENEYLRDGFINHFQPPLVRSDPSNRCAAcLVYGKHIAILPFHEN 168
Cdd:COG5161   71 sSEQDGLLLLTHRAKISLLRFDSQANEFRTISLHYYEGKFKGKSLVELAKFSTLEFDIRSSCAL-LFNEDIGNFLPFHVN 149

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482  169 -----------------SKRIHSYVIPLK---------------------------QIDPRLDNIADMVFLDGYYEPTIL 204
Cdd:COG5161  150 kndddevridvdlgmfqMSKRHFSIFPSQgtntfnkrkrtlfpgkfsapskvlkfsELDGKIKNIIDFVFLENYSIPTVA 229

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482  205 FLYEPIQTTPGRACVRYDTMCIMGVSVNIVDRQFAVVWQTANLPMDCSQLLPIPKplgGALVFGSNTVVYLNQAVPPCGL 284
Cdd:COG5161  230 LLYDPKLSLPRKYTILKNPYNAIVFTLDLGAGRSAVIDEFLVLPRDFRVTVAGPV---GALLFGSNELILIDSTGSSYTI 306

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482  285 VLNSCYDGFTKFP-LKDLKHLKMTLDCS-------TSVYMEDGRIAVGSRDGDLFLLRLMT---SSGGGTVKSLEF--SK 351
Cdd:COG5161  307 PLNSMSEKYGGNKiVEDISLSDVNCFSRgttsiwiPSSKCLIETLFLGDLNGDRYYLRISMdgkRIIGFDIASLEFegDL 386

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482  352 VYETSIAYSLTVCAPGHLFVGSRLGDSQLLEYTLLKTTRDcaVKRLKIDNKDPAAAEIELDEddmeLYGGAIEEQQNDDD 431
Cdd:COG5161  387 LKKGSAVSCVGHVNNLLFFGGVGDSNSRVLRIKSLLPTIE--TRASEGVGPLEGGNDEEMDD----EYSAPENKLFGNKE 460

                        490       500       510       520       530       540       550       560
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482  432 EQI---DESLQFRELDRLRNVGPVKSMCVGRPNYMSNDLVDAKRrdpVFDLVTASGHGKNGALCVHQRSLRPEIITSSLL 508
Cdd:COG5161  461 QEVrrqDEPYDAELFNALSNAGPITDFAVGKVDVEKGLPIPNIG---LLNLVVTKGSDSEAALAVEGTSLEPCICTVSSF 537

                        570       580       590       600       610       620       630       640
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482  509 EGAEQLWAV---GRKEN-ESHKYLIVSRVRSTLILELGEELVELEEQLFVTGEPTVAAGELSQGALAVQVTST-CIALVT 583
Cdd:COG5161  538 IPLEIVWSQkirGYLRCsRALDFYILSRVSDSRIFRWSEEFLLEVSGEYTRDVNTLLFVEFGEENRVVQVTPSyLLRYDQ 617

                        650       660       670       680       690       700       710       720
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482  584 DGQQMQEVHIDSNfPVIQASIVDPYVALLTQNGRLLLYELvmepyvqlREVDisatsfatwhataQNLTQLTSISIYADA 663
Cdd:COG5161  618 DLRMLGRVEFASR-AVEARSVRDPLILVVRDSGKILTFYD--------REKN-------------MRLFKIDLVTCLADA 675

                        730       740       750       760       770       780       790       800
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482  664 sEIMKFAAAEKSMGGGGGGDGEVSTAENAMMKKEQHeeaillhgeDDDFLYgdeDETIMEQNFPVENGEATIKQSNTRKR 743
Cdd:COG5161  676 -KNKSFVLSDSNSLGIFDIGKRISQLEPCLVKGLPY---------AIQFSP---EASPAMDLAGEEDGDDQLTEISMSLT 742

                        810       820       830       840       850       860       870       880
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482  744 KRLGHDAIQssrggeqsdaiDPtrtfsSISHWLI--VSHENGR--LSIHSLPEMEVVYQIGRFSNVpellvdltveeeeK 819
Cdd:COG5161  743 YNLIDMLFR-----------LP-----SIGNYMVayLGLDLKEeyLFDNSLSSEIVFYKTHLPRHV-------------S 793

                        890       900       910       920       930       940       950       960
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482  820 ERKAKAQQAAKEASVPTdeaeqlNTEMKqlcervleaqivgmGINQAHPILMAIVDeqvvlyemfsssnpIPGHLGISFR 899
Cdd:COG5161  794 FNLNVTRNDLAITGAPD------NADIK--------------AFSSVGRIDMVFIK--------------AVGHSFMFVT 839

                        970       980       990      1000      1010      1020      1030      1040
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482  900 KLPHFICLRTSsHLNsdgkraPFEMKINNGkrfslihpfervssvnngvmivgavptllvygawggmqthqmtvdgPIKA 979
Cdd:COG5161  840 GKGPFLCRSRY-TSS------SKAFHRGNI----------------------------------------------PLVS 866

                       1050      1060      1070      1080      1090      1100      1110      1120
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482  980 FTPFNNENVLhgivyMTQHKSELRIARMHPDFDYEM-PYPVKKIEVGRTIHHVRYLMNSDVYAVVSSIPKPSNKIwvvmn 1058
Cdd:COG5161  867 VIPLSKRGYL-----MVDNVLGVRASQYVFDNGYVGnKNPVKRTPKHKTLQKLVYHCAGRYMVVGSCEEAGFSPK----- 936

                       1130      1140      1150      1160      1170      1180      1190      1200
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482 1059 DDKQEEIHEKDENFVLPAPPKYTLNLFSSQDWAAVPNTEisFEDMEAVTACEDVALKSESTISGLETLLAMGTVNNYGEE 1138
Cdd:COG5161  937 GEDGESGIPVDTNVPHAEGYRFYVDLYSPKSWEVIDTYE--FDENEYVFHIKYLILDDMQGTKGKSPYILVGTTFIEGED 1014

                       1210      1220      1230      1240      1250      1260      1270      1280
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482 1139 VLVRGRIILCEVIEVVPEPDQPTSNRKIKVLFDKEQKGPVTGLCAINGLLLCGMGQKVFIWQFKDND-LMGISFLDMHYY 1217
Cdd:COG5161 1015 RPARGRLHVLEIISVVPSPGSPFTDCKLKVLGIEETKGTVVRVCEVRGKIALCQGQKVMVRKIDRSSgIIPVGFYDLHIF 1094

                       1290      1300      1310      1320      1330      1340      1350      1360
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482 1218 VYQLHSLRTIAIACDARESMSLIRFQEDNKAMSIASRDDRKcaQPPMASQLVVDGAHVGFLLSDETGNITMFNYAPEAPE 1297
Cdd:COG5161 1095 TSSIKVVKNLLLAGDIYQGLSFFGFQSEPYRMHLISSSEPL--RNATSTEFLVTGNELYFLCCDAKGNIHGLTYSPNNPI 1172

                       1370      1380      1390      1400      1410      1420      1430      1440
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482 1298 SNGGERLTVRAAINIGTNINAfvrlrghTSLLQLNNE---DEKEAieqrMTTVFASLDGSFGFVRPLTEKSYRRLHFLQT 1374
Cdd:COG5161 1173 SMSGARLVKRSSFTLHSAEIK-------MNLLPRNSEfgaGFKKN----FIMVYSRSDGMLIHVVPISDAHYRRLLGIQT 1241

                       1450      1460      1470      1480      1490      1500      1510
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 25148482 1375 FIGSVTPQIAGLHIKGSRSAkpSQPIVNGRNARNLIDGDVVEQYLHLSLYDKTDLARRLGVGRYHIIDDLMQL 1447
Cdd:COG5161 1242 AIMARLKSVGGLNPRDYRLN--SDIHLHSLSLRSPLDLHIINLFSYFDMSTRESVASKAGRIDRKEISDMIAS 1312
MMS1_N pfam10433
Mono-functional DNA-alkylating methyl methanesulfonate N-term; MMS1 is a protein that protects ...
 93-639 1.07e-28

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: 121.99  E-value: 1.07e-28
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482     93 DSILMTFDDAKLSIVSINEKERNMQTIslHAFENeYLRDGfINHFQP-PLVRSDPSNRCAACLVYGKHIAILPFHE---- 167
Cdd:pfam10433    1 DHLVVGTDSGRLVFLSWDPEKNQFETI--HSRED-LGKSG-SRRSQPgQYLAVDPKGRAIAVSAYEGVFLVYPLKQpqkl 76

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482    168 NSKRIHSYVIPLKQIDPRLDnIADMVFLD-GYYEPTILFLYEPIQTTPgRACVR-YDTmcimgvSVNIVDRQFAVVWQTA 245
Cdd:pfam10433   77 NRNEALLLSSPLEARKSEGF-ILSMVFLDpGYDNPIFALLEQDRTGKT-HLKLYeWDL------GLNHVVRGPKWSEPLD 148

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482    246 NLPMDC---SQLLPIPKPLGGALVFGSNTVVYLNQavppcglvlNSCYDGFTKFPLKDLKHLKMTLDCSTSvyMEDGRIA 322
Cdd:pfam10433  149 FLPKEDrgaNLLIPVPKGPGGVLVCGETIITYKDI---------LDQPDIRCPPVARPLRENATIFVAWHK--LDNFFIL 217

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482    323 VGSRDGDLFLLRLmTSSGGGTVKSLEFSKVYETSIAYSLTVCAPGHLFVGSRLGDSQLLeytllkttrdcavkrlkidnk 402
Cdd:pfam10433  218 LADEYGDLYLLTI-ENDEDNVVTSIKIGYFGTTSVASALVILDNGFLFVASEFGDSQLY--------------------- 275

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482    403 dpaaaeieldeddmelyggAIEEQQNDDDEQIdeslqfRELDRLRNVGPVKSMCVgrpnymsndlVDAKRRDPVfDLVTA 482
Cdd:pfam10433  276 -------------------QIDARGDDDLSNL------ELVQTFSNWAPILDFVV----------MDLGGEDTA-RIYTC 319

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482    483 SGHGKNGALcvhqRSLRP----EIITSSLLEGAE--QLWAV-GRKENESHKYLIVSRVRSTL--ILELGEELVELEEQLF 553
Cdd:pfam10433  320 SGAGKRGSL----RSLRHgvgaEELAVSEEPGSPitGVWTLkSSPEDEYDDYLVVSFVNETRvlSIDGDGVEEVDEDSGF 395

                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482    554 VTGEPTVAAGELSQGALaVQVTSTCIALVTDGQQMQEVHIDSNFPVIQASIVDPYVALLTQNGRLLLYELVMEPYVQLRE 633
Cdd:pfam10433  396 LLSVPTLAAGNLGDGRL-LQVTPNGIRLIDSDKRISEWKPPGGKSITAAAANGRQVLLALSGGELVYFEISTQLIEVVER 474


                   ....*.
gi 25148482    634 VDISAT 639
Cdd:pfam10433  475 KDLSSQ 480
 
Name Accession Description Interval E-value
CPSF_A pfam03178
CPSF A subunit region; This family includes a region that lies towards the C-terminus of the ...
 1079-1420 1.19e-76

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: 257.13  E-value: 1.19e-76
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482   1079 KYTLNLFSSQDWAAVPntEISFEDMEAVTACEDVALKSESTISGLETLLAMGTVNNYGEEVLVR-GRIILCEVIEVvpep 1157
Cdd:pfam03178    1 ASCIRLVDPITKEVID--TLELEENEAVLSVKSVNLEDSSTTKGKEEYLVVGTAFDLGEDPAARsGRILVFEIIEV---- 74

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482   1158 dqPTSNRKIKVLFDKEQKGPVTGLCAINGLLLCGMGQKVFIWQFKDND-LMGISFLDMHYYVYQLHSLRTIAIACDARES 1236
Cdd:pfam03178   75 --PETNRKLKLVHKTEVKGAVTALAEFQGRLLAGQGQKLRVYDLGEDKsLLPKAFLDTGVYVVDLKVFGNRIIVGDLMKS 152

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482   1237 MSLIRFQEDNKAMSIASRDdrkcaqppMASQLVVDGAHV---GFLLSDETGNITMFNYAPEAPESNGGE-RLTVRAAINI 1312
Cdd:pfam03178  153 VTFVGYDEEPYRLIEFARD--------TQPRWVTAAEFLdgdTVLVADKFGNLHVLRYDPDVPESLDGDpRLLVRAEFHL 224

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482   1313 GTNINAFvrlrGHTSLLQLNNEdekeaIEQRMTTVFASLDGSFGFVRP-LTEKSYRRLHFLQTFIGSVTPQIAGLHIKGS 1391
Cdd:pfam03178  225 GETVTSF----RKGSLVPGGSE-----SPSSPQLLYGTLDGSIGLLVPfISEEDYRFLQSLQQQLRDELPHLGGLDHRAF 295

                          330       340
                   ....*....|....*....|....*....
gi 25148482   1392 RSAKPSqpivnGRNARNLIDGDVVEQYLH 1420
Cdd:pfam03178  296 RSYYTP-----PRTVKGVIDGDLLERFLD 319
SFT1 COG5161
Pre-mRNA cleavage and polyadenylation specificity factor [RNA processing and modification];
10-1447 1.40e-76

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


Pssm-ID: 227490 [Multi-domain]  Cd Length: 1319  Bit Score: 279.54  E-value: 1.40e-76
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482   10 DSTAINFSAYGKFLPGENTGFQlltigakfirIFRVNPYVLKEPGEDNEEWQQKTKLECMFSCRllnkchsiaVARVPQL 89
Cdd:COG5161   10 DWTVTEGCSAGLFTPSRTCSLL----------VYNGNILAVRLWKYDSGLVLVDEHMLLEKVTQ---------IEKYPQI 70

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482   90 -PDQDSILMTFDDAKLSIVSINEKERNMQTISLHAFENEYLRDGFINHFQPPLVRSDPSNRCAAcLVYGKHIAILPFHEN 168
Cdd:COG5161   71 sSEQDGLLLLTHRAKISLLRFDSQANEFRTISLHYYEGKFKGKSLVELAKFSTLEFDIRSSCAL-LFNEDIGNFLPFHVN 149

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482  169 -----------------SKRIHSYVIPLK---------------------------QIDPRLDNIADMVFLDGYYEPTIL 204
Cdd:COG5161  150 kndddevridvdlgmfqMSKRHFSIFPSQgtntfnkrkrtlfpgkfsapskvlkfsELDGKIKNIIDFVFLENYSIPTVA 229

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482  205 FLYEPIQTTPGRACVRYDTMCIMGVSVNIVDRQFAVVWQTANLPMDCSQLLPIPKplgGALVFGSNTVVYLNQAVPPCGL 284
Cdd:COG5161  230 LLYDPKLSLPRKYTILKNPYNAIVFTLDLGAGRSAVIDEFLVLPRDFRVTVAGPV---GALLFGSNELILIDSTGSSYTI 306

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482  285 VLNSCYDGFTKFP-LKDLKHLKMTLDCS-------TSVYMEDGRIAVGSRDGDLFLLRLMT---SSGGGTVKSLEF--SK 351
Cdd:COG5161  307 PLNSMSEKYGGNKiVEDISLSDVNCFSRgttsiwiPSSKCLIETLFLGDLNGDRYYLRISMdgkRIIGFDIASLEFegDL 386

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482  352 VYETSIAYSLTVCAPGHLFVGSRLGDSQLLEYTLLKTTRDcaVKRLKIDNKDPAAAEIELDEddmeLYGGAIEEQQNDDD 431
Cdd:COG5161  387 LKKGSAVSCVGHVNNLLFFGGVGDSNSRVLRIKSLLPTIE--TRASEGVGPLEGGNDEEMDD----EYSAPENKLFGNKE 460

                        490       500       510       520       530       540       550       560
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482  432 EQI---DESLQFRELDRLRNVGPVKSMCVGRPNYMSNDLVDAKRrdpVFDLVTASGHGKNGALCVHQRSLRPEIITSSLL 508
Cdd:COG5161  461 QEVrrqDEPYDAELFNALSNAGPITDFAVGKVDVEKGLPIPNIG---LLNLVVTKGSDSEAALAVEGTSLEPCICTVSSF 537

                        570       580       590       600       610       620       630       640
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482  509 EGAEQLWAV---GRKEN-ESHKYLIVSRVRSTLILELGEELVELEEQLFVTGEPTVAAGELSQGALAVQVTST-CIALVT 583
Cdd:COG5161  538 IPLEIVWSQkirGYLRCsRALDFYILSRVSDSRIFRWSEEFLLEVSGEYTRDVNTLLFVEFGEENRVVQVTPSyLLRYDQ 617

                        650       660       670       680       690       700       710       720
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482  584 DGQQMQEVHIDSNfPVIQASIVDPYVALLTQNGRLLLYELvmepyvqlREVDisatsfatwhataQNLTQLTSISIYADA 663
Cdd:COG5161  618 DLRMLGRVEFASR-AVEARSVRDPLILVVRDSGKILTFYD--------REKN-------------MRLFKIDLVTCLADA 675

                        730       740       750       760       770       780       790       800
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482  664 sEIMKFAAAEKSMGGGGGGDGEVSTAENAMMKKEQHeeaillhgeDDDFLYgdeDETIMEQNFPVENGEATIKQSNTRKR 743
Cdd:COG5161  676 -KNKSFVLSDSNSLGIFDIGKRISQLEPCLVKGLPY---------AIQFSP---EASPAMDLAGEEDGDDQLTEISMSLT 742

                        810       820       830       840       850       860       870       880
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482  744 KRLGHDAIQssrggeqsdaiDPtrtfsSISHWLI--VSHENGR--LSIHSLPEMEVVYQIGRFSNVpellvdltveeeeK 819
Cdd:COG5161  743 YNLIDMLFR-----------LP-----SIGNYMVayLGLDLKEeyLFDNSLSSEIVFYKTHLPRHV-------------S 793

                        890       900       910       920       930       940       950       960
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482  820 ERKAKAQQAAKEASVPTdeaeqlNTEMKqlcervleaqivgmGINQAHPILMAIVDeqvvlyemfsssnpIPGHLGISFR 899
Cdd:COG5161  794 FNLNVTRNDLAITGAPD------NADIK--------------AFSSVGRIDMVFIK--------------AVGHSFMFVT 839

                        970       980       990      1000      1010      1020      1030      1040
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482  900 KLPHFICLRTSsHLNsdgkraPFEMKINNGkrfslihpfervssvnngvmivgavptllvygawggmqthqmtvdgPIKA 979
Cdd:COG5161  840 GKGPFLCRSRY-TSS------SKAFHRGNI----------------------------------------------PLVS 866

                       1050      1060      1070      1080      1090      1100      1110      1120
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482  980 FTPFNNENVLhgivyMTQHKSELRIARMHPDFDYEM-PYPVKKIEVGRTIHHVRYLMNSDVYAVVSSIPKPSNKIwvvmn 1058
Cdd:COG5161  867 VIPLSKRGYL-----MVDNVLGVRASQYVFDNGYVGnKNPVKRTPKHKTLQKLVYHCAGRYMVVGSCEEAGFSPK----- 936

                       1130      1140      1150      1160      1170      1180      1190      1200
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482 1059 DDKQEEIHEKDENFVLPAPPKYTLNLFSSQDWAAVPNTEisFEDMEAVTACEDVALKSESTISGLETLLAMGTVNNYGEE 1138
Cdd:COG5161  937 GEDGESGIPVDTNVPHAEGYRFYVDLYSPKSWEVIDTYE--FDENEYVFHIKYLILDDMQGTKGKSPYILVGTTFIEGED 1014

                       1210      1220      1230      1240      1250      1260      1270      1280
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482 1139 VLVRGRIILCEVIEVVPEPDQPTSNRKIKVLFDKEQKGPVTGLCAINGLLLCGMGQKVFIWQFKDND-LMGISFLDMHYY 1217
Cdd:COG5161 1015 RPARGRLHVLEIISVVPSPGSPFTDCKLKVLGIEETKGTVVRVCEVRGKIALCQGQKVMVRKIDRSSgIIPVGFYDLHIF 1094

                       1290      1300      1310      1320      1330      1340      1350      1360
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482 1218 VYQLHSLRTIAIACDARESMSLIRFQEDNKAMSIASRDDRKcaQPPMASQLVVDGAHVGFLLSDETGNITMFNYAPEAPE 1297
Cdd:COG5161 1095 TSSIKVVKNLLLAGDIYQGLSFFGFQSEPYRMHLISSSEPL--RNATSTEFLVTGNELYFLCCDAKGNIHGLTYSPNNPI 1172

                       1370      1380      1390      1400      1410      1420      1430      1440
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482 1298 SNGGERLTVRAAINIGTNINAfvrlrghTSLLQLNNE---DEKEAieqrMTTVFASLDGSFGFVRPLTEKSYRRLHFLQT 1374
Cdd:COG5161 1173 SMSGARLVKRSSFTLHSAEIK-------MNLLPRNSEfgaGFKKN----FIMVYSRSDGMLIHVVPISDAHYRRLLGIQT 1241

                       1450      1460      1470      1480      1490      1500      1510
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 25148482 1375 FIGSVTPQIAGLHIKGSRSAkpSQPIVNGRNARNLIDGDVVEQYLHLSLYDKTDLARRLGVGRYHIIDDLMQL 1447
Cdd:COG5161 1242 AIMARLKSVGGLNPRDYRLN--SDIHLHSLSLRSPLDLHIINLFSYFDMSTRESVASKAGRIDRKEISDMIAS 1312
MMS1_N pfam10433
Mono-functional DNA-alkylating methyl methanesulfonate N-term; MMS1 is a protein that protects ...
 93-639 1.07e-28

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: 121.99  E-value: 1.07e-28
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482     93 DSILMTFDDAKLSIVSINEKERNMQTIslHAFENeYLRDGfINHFQP-PLVRSDPSNRCAACLVYGKHIAILPFHE---- 167
Cdd:pfam10433    1 DHLVVGTDSGRLVFLSWDPEKNQFETI--HSRED-LGKSG-SRRSQPgQYLAVDPKGRAIAVSAYEGVFLVYPLKQpqkl 76

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482    168 NSKRIHSYVIPLKQIDPRLDnIADMVFLD-GYYEPTILFLYEPIQTTPgRACVR-YDTmcimgvSVNIVDRQFAVVWQTA 245
Cdd:pfam10433   77 NRNEALLLSSPLEARKSEGF-ILSMVFLDpGYDNPIFALLEQDRTGKT-HLKLYeWDL------GLNHVVRGPKWSEPLD 148

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482    246 NLPMDC---SQLLPIPKPLGGALVFGSNTVVYLNQavppcglvlNSCYDGFTKFPLKDLKHLKMTLDCSTSvyMEDGRIA 322
Cdd:pfam10433  149 FLPKEDrgaNLLIPVPKGPGGVLVCGETIITYKDI---------LDQPDIRCPPVARPLRENATIFVAWHK--LDNFFIL 217

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482    323 VGSRDGDLFLLRLmTSSGGGTVKSLEFSKVYETSIAYSLTVCAPGHLFVGSRLGDSQLLeytllkttrdcavkrlkidnk 402
Cdd:pfam10433  218 LADEYGDLYLLTI-ENDEDNVVTSIKIGYFGTTSVASALVILDNGFLFVASEFGDSQLY--------------------- 275

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482    403 dpaaaeieldeddmelyggAIEEQQNDDDEQIdeslqfRELDRLRNVGPVKSMCVgrpnymsndlVDAKRRDPVfDLVTA 482
Cdd:pfam10433  276 -------------------QIDARGDDDLSNL------ELVQTFSNWAPILDFVV----------MDLGGEDTA-RIYTC 319

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482    483 SGHGKNGALcvhqRSLRP----EIITSSLLEGAE--QLWAV-GRKENESHKYLIVSRVRSTL--ILELGEELVELEEQLF 553
Cdd:pfam10433  320 SGAGKRGSL----RSLRHgvgaEELAVSEEPGSPitGVWTLkSSPEDEYDDYLVVSFVNETRvlSIDGDGVEEVDEDSGF 395

                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25148482    554 VTGEPTVAAGELSQGALaVQVTSTCIALVTDGQQMQEVHIDSNFPVIQASIVDPYVALLTQNGRLLLYELVMEPYVQLRE 633
Cdd:pfam10433  396 LLSVPTLAAGNLGDGRL-LQVTPNGIRLIDSDKRISEWKPPGGKSITAAAANGRQVLLALSGGELVYFEISTQLIEVVER 474


                   ....*.
gi 25148482    634 VDISAT 639
Cdd:pfam10433  475 KDLSSQ 480
 
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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