9EXS,5BUD,5BTO,6WRE,8YF5,5BTB


Conserved Protein Domain Family
RAI1

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pfam08652: RAI1 (This model is not part of the current CDD release)
RAI1 like PD-(D/E)XK nuclease
RAI1 is homologous to Caenorhabditis elegans DOM-3 and human DOM3Z and binds to a nuclear exoribonuclease. It is required for 5.8S rRNA processing. Profile-profile comparison tools demonstrate this to be a PD-(D/E)XK nuclease, with a full set of canonical active site signature motifs characteristic to the PD-(D/E)XK nuclease superfamily.
Statistics
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PSSM-Id: 518408
Aligned: 160 rows
Threshold Bit Score: 165.036
Created: 15-Feb-2025
Updated: 28-Apr-2025
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:
9EXS_A         21 KRPREFTCFS--YDRE--RRFHLGDRSLKWFY---Pay----------iP---SDLSRGY-QN--WQRHDDSi-dEH--- 73  Thermochaetoid...
XP_025017662   29 DGPKRLGSFSc-YDNNngSVYCPDESSIRYLD---Lpn---------pvN---INCLQGY-DP--NVKYGHIi-sRD--- 85 
10_pfamImport   1 SGPKMLGCFScyRSDKnvDVYCPNKSSLRYLD---Lte---------pvS---LDCLQGF-DP--NVKYGHLs-iGD--- 58 
ELW61884       44 RRPSELGCFS--LDAQ--RRYHGDARALRYYS---Pppth-----gpgpN---FDLRDGYtDR--YQPRDEEvreG---- 102
XP_003218044   59 RRPSEMGRFS--LDGQ--RCYHGDARKLRYYA---Pppie-----gpspG---FDLRDGYhDR--YVRRDESi--REg-- 117
CBY19105       48 NRPKKVGHFS--IDGE--RKFKDDDSELKYF----AppvnkfnqkmrrpN---FNLNNGMhDPnnVKKNEKHf--EG--- 111
XP_002059332   27 KQPHRAGEYS--LSPE--GHYEDSPARLCFLTqlgPnt----------fP---FSLNASG-EA----MSTEQs--FLkpr 82 
6WRE_A         38 RRPSELGCFS--LDAQ--RQYHGDARALRYYS---Pppi--------ngPgpdFDLRDGYpDR--YQPRDEEv-qER--- 96  house mouse
XP_014349782   65 KQPMEVGCFS--LDSE--RRFFNDARQLKYYV---Ppeng------kspN---FNLPDGYkDR--YIKRDDNv-kEN--- 122 coelacanth
XP_032224638   48 RKPSEIGHFS--LDVD--RKFHDDSHQLKYFC---Pph---------eiH---FDLSEGY-KE--FKARDEDv-kEG--- 101 starlet sea an...
9EXS_A         74 -LDGLLAAIADYE---Kq-----------------TG--KPIDAHVTTWRGMMTKiMATPY-D-QEEWEMNATFYRGCIF 128 Thermochaetoid...
XP_025017662   86 --MLVLRWVLNHE---E------------------KM--KKFPSDFIVNNGLMKDmMLVRYcD--LDWNISATKIRGKIV 138
10_pfamImport  59 --MHLLRWVLNNE---S------------------TI--QTFPMDFICYNGFAKDlIVAPFt--QADWNITAVKVRGTII 111
ELW61884      103 -LDHLLRWLLEHR---Gq----------------lEGgpGWLAGATVTWRGHLTKlLTTPY-ErQEGWQLAASRFQGTLY 161
XP_003218044  118 -LEHLLRWVSQNR---Kllq------------sedKG--RPLNADFITWRGHLTKvLTTPY-EtQEGWLLAVSLFRGTLY 178
CBY19105      112 -LDNLLRWSSLHW---Dkv---------------sGP--ETPQPHVVTWRGVLTKiMNAPF-DnKTQWNILAIKHKGTIY 169
XP_002059332   83 yLDNMFCFLRCSM---Etlik----------rhenGH--LQVDADIVCSRETLQLiMCAPY-EyKNNWTIAVSKYRNTIY 146
6WRE_A         97 -LDHLLRWVLEHRnqlEg-----------------GP--GWLAGATVTWRGHLTKlLTTPY-ErQEGWQLAASRFQGTLY 155 house mouse
XP_014349782  123 -LDHLLRWILNNK---Rffkipl-------qqhekTDasCSVKRDFVTWRGHLTKiLTTPY-EyNEGWLMAVTLFNGTYY 190 coelacanth
XP_032224638  102 -LGHLLEWISAHR---EkfalpgeervengqaadaRPatKSLNTNFVTWRGHLTKlLCTPY-EtKEPWQMAATLFKGTIY 176 starlet sea an...
9EXS_A        129 IEENHAFARRK-KMMESSRPARsdgispnLMQYWGYKFETLSTIPRPWGEvsrDEIes-rdDE----------------- 189 Thermochaetoid...
XP_025017662  139 LNKIESIELKDrIANQSD-INN-------KSTYTAFNLQRLITKNNYEDEc--SSG------------------------ 184
10_pfamImport 112 INRSESNQRKT-SVDVQSEFDS-------KSTYTALNLERLIT----------KNInd-heYA----------------- 155
ELW61884      162 LSEVETPAARA-QRLARPPLLR-------EFMYMGYKFEQYMCADKPGGSp-dPSG------------------------ 208
XP_003218044  179 ISEVETEAARK-QREERSELLK-------ELTYMGYKFEQYMCADTPDGTp-dPTG------------------------ 225
CBY19105      170 LCEYKTDDQHD-DVESLPHWVK-------KTFYWGRKVETFLTANEPGGPp-rPEE------------------------ 216
XP_002059332  147 ICPVPNPERPQsFVDPEHLKKL-------MMDHWMTKLRQRCLva------mdDDIvqpgsYQ----------------- 196
6WRE_A        156 LSEVETPAARA-QRLARPPLLR-------ELMYMGYKFEQYMCADKPGGsp--------dpSG----------------- 202 house mouse
XP_014349782  191 ISEVETEAAKK-KREMRPEYLD-------KMMYMGYKFEQYMCASDPQGKp-nPAG------------------------ 237 coelacanth
XP_032224638  177 LSEVETQEAYD-RRKNMEERHK-------EMCYWGHKFETYVTk--------lVSErg-krETvmgaststastseggas 239 starlet sea an...
9EXS_A        190 --IVNNMEQYCSVVRTGFGNTIVCLGGEVDA--Iw-----DAKPE----TPGepiN------WVELKTSRMIT--NTGIQ 248 Thermochaetoid...
XP_025017662  185 ----KEMSSFYGVFHTKIGSHQILHAGWLHG--V------ESKQE----LDK---P------FEEMKFILIKKfnAPRES 239
10_pfamImport 156 --SVNARDSFFGVFHSKIGRHQILHTGRLNC--V------ESKEE----LDK---P------FEEMNFNIIKKv-HGNKR 211
ELW61884      209 --EVNTNVAFCSVLRGRLGNHPLLFSGEVDC--I------DPQApt-sqPPT---C------YVELKTSKEMH--SSSQW 266
XP_003218044  226 --VVNTNEGFCTVIRTRLGTHSLLFSGEVDC--TdprspwPDPP-----SC-----------YVELKTSKVMH--SPAQR 283
CBY19105      217 --PVNENSEYVSVFRSQLGQIQLMYGAEVDC--V------DHTL-----DPE---KfpspsnFIEIKTQRELK--DKQRK 276
XP_002059332  197 --QKKLDGQYYCVFSMNICGLNVLFDAPILA---------EHCPNpfigLPK---T------FVDLRMRLDTM--SRTEW 254
6WRE_A        203 --EVNTNVAYCSVLRSRLGNHPLLFSGEVDC--Lnp---qAPCTQ----PPS---C------YVELKTSKEMH--SPGQW 260 house mouse
XP_014349782  238 --IVNTNEAYCTVIQAKLKWHSLLFSGEVDCkdQ------SYHTGk---APS---Y------YVELKTSKEVY--TQKEQ 295 coelacanth
XP_032224638  240 akPVNNSEAYVSVFRSRLERHSLVFGAEIDC--Ct----kETEE-----SPG---N------YIELKTSHAPH--NHQQH 297 starlet sea an...
9EXS_A        249 TAFDQ-KLLKYWIQSFLLGVPRIIVGFRDQDGILRSMEEYETLNI-PYEVRRRglakWDGNVCIRFAALFLQWL---RLN 323 Thermochaetoid...
XP_025017662  240 HSFW--QSSTWWSLAKLAGLDTIVRAKFDKDFIVKSIDKLEVDTLtNKRFK---------MTFVASLDKVLDFI---KTI 305
10_pfamImport 212 TGPSRsKALLWWSLAILSRVETIICGRCTEDFTVNKIIRIKVDELvPRHMQTK---------CFTSMDAILDFV---KSK 279
ELW61884      267 KSFYRhKLLKWWAQSFLPGVPKVVAGFRNPEGFVCSLKTFPTMEM-FEYVRNDre-gWNPSVCMNFCAAFLSFA---QST 341
XP_003218044  284 RSFYRhKMIKWWAQSFLPGVSRIVAGYRGPDGTIVGLETFETMKI-FQLIREDpg-cWKPAVCMNFCAAFLAFV---KKV 358
CBY19105      277 EVFRKyKLSKWWAQSFLAGIPRVMTAFRDDRGFVTNLDIIETQSM-PRQAALEay-sWKPSTMLGFLERFLTFVrdvMAK 354
XP_002059332  255 SAHNRnVVLKWWVESFLVGIEKVYIAYHDKEGYVQKIKHTMVREL-WRECDND----WSPNICGNFLRRLLGSI---QLL 326
6WRE_A        261 RSFYRhKLLKWWAQSFLPGVPHVVAGFRNPEGFVCSLKTFPTMEM-FENVRNDre-gWNPSVCMNFCAAFLSFA---QST 335 house mouse
XP_014349782  296 RNLYRyKLLKWWAQSFLPGVPRIIVGFRDNDGTVVSLQTFETMKI-FHVIKNEkn-mWKPTVCVNFCDAFLSFI---KKV 370 coelacanth
XP_032224638  298 WSFNRyKLLKWWAQSYLAGVPKIIAGFRHHHSHVDKLQTYNTLEI-PHLLENQqn-mWDSTICFNFLEKFLRWL---RSV 372 starlet sea an...
9EXS_A        324 I--TEE---G---VWRIR-Rp-FRGsrIELTKIEqvgHGAIITEEFM 360 Thermochaetoides thermophila
XP_025017662  306 V--TEE---Nk--CYNFSfNg-KDKklIGYMKIGp--DENLIPSWFT 342
10_pfamImport 280 V--KEE---Nk--YYNFAfDs-MAKkvNCYLKLGs--KENSIPSWYM 316
ELW61884      342 VtqDDP---Rl--VHLFSwEp-GGPvtVSVHQGA---PHAFLPTWLV 379
XP_003218044  359 V--TED---NsklVHLFAwEp-GQPvsFTVHRDS---SYTFLPDWYV 396
CBY19105      355 V--DDC-------TYVFEwNpeWEGvcFTFDPDQq-kETFFLPTWYR 391
XP_002059332  327 L--ANVdsaSt--VYLLEyD--SKNgsITYKYCKernEHSFIPDWFR 367
6WRE_A        336 VvqDDP---Rl--VHLFSwEp-GGPvtVSVHRDAp---YAFLPSWYV 373 house mouse
XP_014349782  371 V--TQDdyrM---VYLFSwEp-HQDvcYSVHKDS---EYTFLPDWYV 408 coelacanth
XP_032224638  373 VvlDDP---Nr--VYLFSfR--APFeqVKYQEFTn-gEHKFLPEWYI 411 starlet sea anemone
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