2A1R


Conserved Protein Domain Family
CAF1

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pfam04857: CAF1 
CAF1 family ribonuclease
The major pathways of mRNA turnover in eukaryotes initiate with shortening of the polyA tail. CAF1 encodes a critical component of the major cytoplasmic deadenylase in yeast. Both Caf1p is required for normal mRNA deadenylation in vivo and localizes to the cytoplasm. Caf1p copurifies with a Ccr4p-dependent polyA-specific exonuclease activity. Some members of this family include and inserted RNA binding domain pfam01424. This family of proteins is related to other exonucleases pfam00929 (Bateman A pers. obs.). The crystal structure of Saccharomyces cerevisiae Pop2 has been resolved at 2.3 Angstrom resolution.
Statistics
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PSSM-Id: 335920
View PSSM: pfam04857
Aligned: 154 rows
Threshold Bit Score: 74.7425
Threshold Setting Gi: 156037492
Created: 23-Mar-2017
Updated: 23-May-2017
Structure
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Program:
Drawing:
Aligned Rows:
PubMed ReferencesClick to see Conserved Features Help

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
2A1R_A          3 IIRSNFKSNLHKVYQAIEEADFFAIDGEFSGIsdgp---svsaLTNGFDTPE----ERYQKLKKHS-MDFLLFQFGLCTF 74
gi 122100712    4 ITRNNFEEVYPEFVAALQGASYIAVDMEFTGIdr-------raTTNFLRPPE----EAFEDKIAAA-RHFSVVQIGFSIF 71
gi 389594811    3 ITNSNAVALLPYVGTLLRDCSFFAVDLEFSGIdhegaeaeaetPEQALHSLMrkpsDLYPAKLQAI-KPYSMVQIGISVF 81
gi 397598041    4 VTKSNFLEQLEDFLQHLPSASYIALDEEMTGIslpg---srnqRPNKIELPG----ERYTRLLKAVpERYSILQVGLALF 76
gi 224006131   79 VTKSNFLPQLQDFLHHLPTATYIAIDEEMTGIqlppppgetyrRLSKVELPG----ERYLNSLKGVpERYSILQVGVALF 154
gi 219125272    4 VTKENFIEQTNDLLQHLPTAAFIAIDEEMTGItvp-----gtpRPAKEQPPS----ALYASTLKYVpERYSIIQLGVVLF 74
gi 198434423    8 VTKGNLEPLWSKIVKDVKNSIFIALDTEMSGLgp--------qAQLMKSDLE----QRYQGISAAA-SSRSIISLGLACF 74
gi 1005961537  12 VNSTNIIACWPHLMKAIEQSHFLAIDLELSGLgd--------kKKLILKDIE----ERYKAIGEVA-KTRSILSVGLSFF 78
gi 552913045   11 VTKENLVSIQHIIEKALNSASFIALDTEFTGLgg-------keANTKAPNIE----ERYVNLCKVV-RSHALVAFGLTIF 78
gi 281200346    9 ITNSNFEKEISKFEHALQGASFISIDTEFSGL-------------GYSKNLK----LKYNFVAKLV-KSRSLLQLGIAIF 70
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
2A1R_A         75 kydYTD-SK----------------------------------------------------------------------- 82
gi 122100712   72 rgtELL-SPqsgrdsrgatgdpsassayketmlkelqsfrpqdsdvqglvevlqsmankgrvdpkd-------------- 136
gi 389594811   82 ---MEL-ASgdaegvtsasgaasltvppsaaahlrkevaeflaadvenhttyaetttvvegmltsansaaagftsaftyi 157
gi 397598041   77 hknPRY-KNpcrprsgstssnrsggghhadaddehgyihregvl------------------------------------ 119
gi 224006131  155 cknPEY-GAkknavggavadgnnneggsgttglgfrsssaaveeqdldtdvn---------------------------- 205
gi 219125272   75 hatSEP-GEvh--------------------------------------------------------------------- 84
gi 198434423   75 ---EPY-SGkep-------------------------------------------------------------------- 82
gi 1005961537  79 rynRKL-INgsdqtd----------------------------------------------------------------- 92
gi 552913045   79 ---EEV-TNdvqrms----------------------------------------------------------------- 89
gi 281200346   71 tekETTtKTaaitsssesieqrsltssptitelssisisnsnklddfeidndyndd------------------------ 126
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
2A1R_A         83 -----------------------------------------------------------------------YIT-----K 86
gi 122100712  137 --------------vskmedlrkkirqrcsqtsagtiydelsaydaldevdkaidlatrwekrltsprrqlWAR------ 196
gi 389594811  158 teqmvavaqslgvvarpsdigataepppltqslpglryhyrflealsravasyrreitatgasaleapvarYKV-----H 232
gi 397598041  120 -------------------------------------nqdeledlvereeeaadeaegllgddepasaepeYTS-----R 157
gi 224006131  206 -----------------------------ehaymhregtlnqdeledltereedaadareggvadtkeipeYTS-----R 251
gi 219125272   85 ----------------------------------------------------------------------eWQA-----R 89
gi 198434423   83 ---------------------------------------------------------------------laYNV-----T 88
gi 1005961537  93 -----------------------------------------------------------------wrnkdeFCDwnfkvI 107
gi 552913045   90 -----------------------------------------------------------------eslekrYNV-----H 99
gi 281200346  127 ------------------------nnnnnndnqdvilnenkkrslnsiendkqqcqqhqhqhqqqaiqhfrYEV-----R 177
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
2A1R_A         87 SFNFYVFPKPfnrsspDVKFVCQSSSIDFLASQGFDFNKVFRNGI------PYLNQE--------------------EER 140
gi 122100712  197 SYSFYLLPAAwld-dqDPELVLSTKTMEFLRSNNMDLNMWISEGLsvvpfePYARAR--------------------RAD 255
gi 389594811  233 TFSALTFPAAtd---fAANVTLNIDTAQFLVKNDMDLTRWVKEGL------RFAPIK----------------------- 280
gi 397598041  158 VYNFYLFPASs-----TREMTLSPSTIQFLLGNNMDFNKVFAEGV------SYTTVD--------------------QAE 206
gi 224006131  252 IYNFYLFPSGa-----SREVTLNPSTVKFLLENHMDFDMVFRDGI------PFTTVS--------------------NAN 300
gi 219125272   90 RYNFYVFPAQdgwsgeTREVVLNPGAVAFLQQHNMSLDLWTQQGV------TYQTNDkayetvhayvekelireraaEDK 163
gi 198434423   89 VYNIIVLCS--------DPFTIDPGAVSFLVNHGFNFNKQFCNGI------SYYKGNdr----------------pkEKD 138
gi 1005961537 108 NFELLTLCN--------EESVLEDESRSFLVSHGFDFDAQTSIGL------QYLRADqel---------------npDVP 158
gi 552913045  100 NFNFSLLSQ--------VDHIISPQSLQFLSDSGFDFNKQIRKGI------PYFPGCdks---------------nsNLK 150
gi 281200346  178 MFTFLCLNQ--------SEFQVFPTSMTFLAQHGFDFNKLFLDGI------HLVTTKkha---------------dlPPS 228
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
2A1R_A        141 QLREQYDEk--rSQANG-A--------------------------------------------------------GALSy 161
gi 122100712  256 RI--------------------------------------------------------------------------AAE- 260
gi 389594811  281 ------------VAAAQlAkeaeaklqqmnllaqphivlpgykecigskldellplspgelqlvrfvialpdagyGDMA- 347
gi 397598041  207 AMMEKHFEkygrKEDEKaKeashtp---------------------------------------------skrggVKLS- 240
gi 224006131  301 QLKERFFQkrreKEQEGrDgagggneng---------------------------------------nktpiktrVKLT- 340
gi 219125272  164 ERHANLQDstrrRV--------------------------------------------------------------ELR- 180
gi 198434423  139 KL------------------------------------------------------------------------------ 140
gi 1005961537 159 S------------------------------------------------------------------------------- 159
gi 552913045  151 DP------------------------------------------------------------------------------ 152
gi 281200346  229 SK------------------------------------------------------------------------------ 230
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
2A1R_A        162 vspntskcpvtiPEDqKKFID-----------------QVVEKIEDLLQSEeNKNLDLEPCTGFQRKLIY---------- 214
gi 122100712  261 ------------LSDpKKEMD-----------------AKLVALRQWMQGV-TDCDIRDHLLGEFNEIE----------- 299
gi 389594811  348 ------------AARvKQFYVgalrplisfargivpesALPESIYTR--------------------------------- 382
gi 397598041  241 ------------RVEdIAFCA-----------------RVIAGLREWIDSD-IQPGAYPNPAGAVTAGLVhenrdadegt 290
gi 224006131  341 ------------RPEdIAFIA-----------------RTLAGLREWIDAE-SGNGDGNPTPQQQLMGDHgvlielpenn 390
gi 219125272  181 ------------RSEdIDFHA-----------------RAMASLREWLDAA-LNEVEGPPIELAPEGAAFllpsc----- 225
gi 198434423      --------------------------------------------------------------------------------
gi 1005961537     --------------------------------------------------------------------------------
gi 552913045      --------------------------------------------------------------------------------
gi 281200346      --------------------------------------------------------------------------------
                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
2A1R_A        215 --------------------------QTLSWKYPKGIHVETLETEKKERYIVISKVD-EEERKRREQQKHAKEQEELNDA 267
gi 122100712  300 ---------------------------NFARNGELHESLEVCLPHLSQSHLSKFNALmRDLGLRVSKRIMKKLPPEATTH 352
gi 389594811      --------------------------------------------------------------------------------
gi 397598041  291 a---------------vvlppcnaflRRALYESIQGEYPSLILERADQGQN-AGPRSnQIRVMRLSPEEKERRDTRLRRE 354
gi 224006131  391 ggtnrqngyqdgegtnlilppcnaflRRCLYETIEAEYPGLVLEKADSTGV----GRnQIRVIRLSADEKKRREDRMLHE 466
gi 219125272  226 ----------------------nsflRRALYESIEAEYPDLVLESAGNNQI---------RVLRLTEEESQTRKQRLRRE 274
gi 198434423      --------------------------------------------------------------------------------
gi 1005961537     --------------------------------------------------------------------------------
gi 552913045      --------------------------------------------------------------------------------
gi 281200346      --------------------------------------------------------------------------------
                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
2A1R_A        268 V---------G--FSRVIHAIA-------------------------------------------NS--------G-KLV 284
gi 122100712  353 EtifrnpryfG---TRLLSALVta---------------------------------------trQR--------R-KPL 381
gi 389594811  383 ----------DklFKDEMDALAaigmtkasrkfvraaisss-----cgsgcgsclvshsygsallETllyatevqR-KPI 446
gi 397598041  355 Aweki-lgdvG--FTILFQAISdacngkvfskeqtks-------------flngtspdisvdgkgSN--------K-IPL 409
gi 224006131  467 EwerllldniG--FTTIFQAISdacngksfskaqtdgfls--------gqlvdvsipveegsayeKG--------ReVPL 528
gi 219125272  275 DwekvvvnkiG--MWRVFEAISrvcrgehldltsavlapsvdavdftsplvpfaedtlslgskssRR--------RnIPL 344
gi 198434423  141 ----------T--MRSLFAEII-------------------------------------------KL--------R-KPL 156
gi 1005961537 160 -------------IRNLFHQLV-------------------------------------------NK--------K-VPL 174
gi 552913045  153 ----------NniMRSIFSYIL-------------------------------------------SR--------N-VPI 170
gi 281200346  231 -------------QRRIIDLLS-------------------------------------------KH--------Q-QPL 245
                         650       660       670       680       690       700       710       720
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
2A1R_A        285 IGHNMLLDVMHTVHQF-YCP-LPADLSEFKEMTTCVFP-RLLDTKLMAstqPFKDIINNT-------SLAEL-------- 346
gi 122100712  382 VIHNGLSDLAFLCCLM-HKE-PPQNIVEFKRLVREVFP-VFYDTRTLT-----------Ca-----pSLQSIigltgplm 442
gi 389594811  447 VFYNGYTDVMFLLLALyGPQnMPPNLSSFKSLVRRHFP-SLFDTRVLS------CAGPLQglgnftgKLSSV-------- 511
gi 397598041  410 IIHNGLMDLMFLITHC-HDPtLPESFEETKATIRSYFP-RIVDTKILA------GEYSDSiikggksDLGSL-------- 473
gi 224006131  529 IIHNGLQDLMFLLTHC-DNAkLPESFEDTKKLIQQYFP-TIYDTKVLS------TEYSDAiikggstALGDL-------- 592
gi 219125272  345 VVHNGFMDICFLLTHF-HHEtLPDTLKECKGLISRYFP-IIYDTKAVT---T-----ECStwsnensALAAL-------- 406
gi 198434423  157 VLHNGLVDLVFLYNSL-YAE-LPGTLNSFMADVCEIFPaGIYDCKYIA---EFCDRLTAS-------FLLYA-------- 216
gi 1005961537 175 VLHNGLLDLIFIYHNF-LAN-LPPKLPTFVADLDKLFPkGIFDTKYVA---EHNFKSKGS-------YLEYL-------- 234
gi 552913045  171 VVHNGFFDLIYLYYSF-YAD-LPSKLSTFIADLSEMFLgGIVDTKYIA---DYVTREKSS-------FLAYL-------- 230
gi 281200346  246 VIHNGFYDLLFLFQSF-IDD-LPDQLNVFIAKLTKVFP-KIYDTKFLS---EYKVTENRS-------YLQYL-------- 304
                         730       740       750       760       770       780       790       800
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
2A1R_A        347 -EKRLKETPFNP-------------------------------------------------------------------- 357
gi 122100712  443 kTYLILSEQNKTvd------------------------------------------------------------------ 456
gi 389594811  512 -VDEMSKVSAIGphvs---------------------------------------------------------------- 526
gi 397598041  474 -FNVITSEREMSw------------------------------------------------------------------- 485
gi 224006131  593 -FDATCRTEPDEmk------------------------------------------------------------------ 605
gi 219125272  407 -FEKVVRQNNGL-------------------------------------------------------------------- 417
gi 198434423  217 -FKKTQWKNEALaaagkiclkvhfkmesewtvtvplnvggnkaishknikgveicekyaaygwcrng------------- 282
gi 1005961537 235 -FYQRQRRNLERrvankpfisisfgsddsirdfvversmksiilgdkpeglkicddyrqhgwckk--------------- 298
gi 552913045  231 -FRKYEREQVDNkfsgnkeylflsiqedikntynnqilqsnqfenssysnekkvlnrsqnikyceqyafhgfc------- 302
gi 281200346  305 -FMKYERSNYQRfisnqsyvtcdqvvgfdqdiqreplinvkssnskqydgtkicsdfanhgyckngincklshdiniild 383
                         810       820       830       840       850       860       870       880
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
2A1R_A            --------------------------------------------------------------------------------
gi 122100712      --------------------------------------------------------------------------------
gi 389594811      --------------------------------------------------------------------------------
gi 397598041      --------------------------------------------------------------------------------
gi 224006131      --------------------------------------------------------------------------------
gi 219125272      --------------------------------------------------------------------------------
gi 198434423  283 ------------------------------------------------------ilckkvhdidtivqfhktskqkrkrk 308
gi 1005961537 299 --------------------------------------------------------gascqkshdidfilddedfykeps 322
gi 552913045  303 ------------------------------------------------kqrmkcgnshdldfildeqareaetrrkkrkl 334
gi 281200346  384 edekrksmkpstptknnnnnnsnsgnktnspatkkqkqdnskinspnkstattttitistgttlgaplstpsdieegeqp 463
                         890       900       910       920       930       940
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
2A1R_A        358 -----------------------------PKVESAEGFPSYDTAse-qLHEAGYDAYITGLCF 390
gi 122100712  457 ----------------------------iYHDAANNFSTDGGPK----EHDAAWDAFMTGSLF 487
gi 389594811  527 --------------------------fsfDPLVSGGRDATQHLV----AHNAAFDALLTGKLF 559
gi 397598041  486 ----------------------------iTFKAPTISNGESSQQ----AHEAAYDAYMTGCVF 516
gi 224006131  606 ----------------------------fTAPTIANQNGEGTGQ----AHEAAYDAYMTGCVF 636
gi 219125272  418 -----------------------------EDRIEVVADAGRGDAtddqEHEAAYDAYMTGAIY 451
gi 198434423  309 rtksssdtkdvqtlmeqdeikpteenanpIKRAVFDNS--TNTQ----GHRSSLDAFMTGYIF 365
gi 1005961537 323 ktrkrilakmnlinspkndvemgevgdsiEIKEHINGQ--VKSG----IHRSGYDAFMTGYCF 379
gi 552913045  335 nqnqerlpkdinqsteyvsasepptllpsTKPDQFDMY-----------HSAHFDAYMTGFIF 386
gi 281200346  464 mdkeekekekensttnnnnnidinniqqqQQQPSQSQQ----------AHSAGYDSAMTGFIF 516
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