Conserved Protein Domain Family
RLL

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pfam10036: RLL 
RNA transcription, translation and transport factor protein
This entry represents RNA transcription, translation and transport factor protein (RTRAF, also known as hCLE/C14orf166) from eukaryotes. It is part of the DDX1-HSPC117-FAM98B complex that shuttles between the nucleus and the cytoplasm transporting RNAs. It is also a component of the tRNA-splicing ligase complex and is required for tRNA ligation. Human RTRAF works as a positive modulator of the RNA polymerase II activity. It also interacts with influenza virus polymerase subunit PA and plays an important role in influenza virus replication. Family members carry a characteriztic RLL sequence-motif.
Statistics
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PSSM-Id: 401864
Aligned: 42 rows
Threshold Bit Score: 135.526
Created: 23-Mar-2022
Updated: 17-Oct-2022
Structure
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Aligned Rows:
PubMed ReferencesClick to see Conserved Features Help

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
jgi:MICPUN_59197  14 ALGYAKGVpALALDDRAFREFIVWLEDTKIRAMPMDARG----------PLRAVDAPAaaWNSAFASLVAETG------- 76 
CAP22292           8 GVEYDRDY-VNFDDDTEIRRLIATVEEVHLKRRGENWAA----------QMLDESDVQk-WTAELEQYFRDFG------- 68 
Q553E8             9 ILNYPNKDsLNLNEREQFISVISYL-LEKL--YNSSDIS----------ELLNVTDE---WENQFKNFISQKQ------- 65  Dictyosteli...
XP_003283584       9 ILKYPKTE-LNIEEKEQFISVVNYL-FEKIFNSNNVDLS----------LLMNVTDE---WENQVKSIIAQHQ------- 66 
EFA86122          15 ILKYPKPQyINLEEREEFINVVIYL----LETYLSKSSSsvgeestldlQLVSVTDT---WEDSFKKYLNENH------- 80 
EGG21175          35 LLKYQKPQyVNIAEREEFIDLVKFL----LGKYGDDQHSk--------qVVQDTSDQ---WEELLIKYLKNIK------- 92 
ESS28419          30 ALACAMLEgERQADWEWTRDVVVWMEEEKIRLYPRHKRD----------AMRVVSDKHk-WWTLMLQYCRDLEvqldgeg 98 
XP_002259125      10 LLNYKPVD----IGKDEFYYMILKLEEEKIRLYKPKERE----------KINYTKEKN--YIEHILKYLKKLN------- 66 
XP_004349212      10 ALDYVRAPaFNVDDEHEVRQLIAWLEDTRIRLYKLEDRA----------LLRDVKSDT--WPAAGQKYLDDIG------- 70 
XP_004993698      13 ALRHPLAQsFDHQDEGAFRNLVSALEDSTIRFYKMEERG----------PLRDIQSDT--WSDTFQKYLEDME------- 73 
jgi:MICPUN_59197  77 --CEldVDDA------AQTPrVFDHLLEQAVALDYRD------------NA-----------DDFGAVVKdlklasigaa 125
CAP22292          69 --APd----------gCSRAaAVDYVLSAAVEKIYEQ------------KG-----------GDDELSSArlk------- 106
Q553E8            66 --IPinVDNLtd---iKEKEkVVTIFTNFLIKNQYKE------------NV-----------EQIHETKYkclqrykle- 116 Dictyosteli...
XP_003283584      67 --LPiqTLNLad---tKDKElLLEKLTNLAIKRVYKD------------NS-----------EQIHETKYkclqrykle- 117
EFA86122          81 --CTlkIDNLli---lEQKQqALEWLTTLAIKSSYKD------------NS-----------DQIHETKYkclqklklql 132
EGG21175          93 --SPltIVDTqqlndeKEKEkVLDWLTMISVKVFYKS------------NA-----------DQIHETKYkclqkmklk- 146
ESS28419          99 paPPctPENLag---------lLDVLSSVAIADIYED-------------AlegselpidssSPLNALEKkaasvs---- 152
XP_002259125      67 --INvrNVNKtnihevGVRTyILNSLATLALIDEYKDlvgydqscgeqcDN-----------RNYENGKDalnggtahha 133
XP_004349212      71 --CP--GETR------ASNPtMVDWLLNHAVNLEYAD------------QH-----------ETSDKASAatagad---- 113
XP_004993698      74 --CP--FASKdwrgndSHRYlVVDWLLGRAVALDYHD------------NA-----------DTFNSESAmar------- 119
jgi:MICPUN_59197 126 -----------------ppppkrqktsAGGVQGAGEREDDAPRprmRGLTDPSLVSALDELAAVLRVEIPa-----GSGV 183
CAP22292         107 ------------------------sevEKVLEAHKDSQNPLNR---LDYTSPKFAENARALCSILGISAHh-----PDPK 154
Q553E8           117 ---------------------------------------------nvnfdennLTEAVHSLAKLFNYDIKp----tDVHY 147 Dictyosteli...
XP_003283584     118 ---------------------------------------------nikfdekaLVEEILNLAKLFKLNVEl----gDAHY 148
EFA86122         133 --------------------------------------------lsfdstpedLKAAIIKLATLFNIPIS-------DSL 161
EGG21175         147 ---------------------------------------------nfdcsqedLKESITKLATLFNIPSG-------GDL 174
ESS28419         153 ----------------------svqrkRSEQTHADGIAEDLQA----------LRQPLNSVLARMHLPLLqenae----- 195
XP_002259125     134 gqhraddsanlqnqyivanffelnylnQAELEEQRKRRDNLRV----------LNEQINEIFKKCDIPLLvcndqdGDKW 203
XP_004349212     114 ----------------------gssamDTTPDAPALQAYHVPAsllMDT---AVRKVLNGIAAALQLPPT------DNPL 162
XP_004993698     120 ----------------------------------------gkAsvgIDVHSHEARAALKELAKLLQLPLV------EDDN 153
jgi:MICPUN_59197 184 eASADacvaAVERFIAPFWSkveeaerNAGDGKEGRGDERWNlsp-----------------------------sdFPSG 234
CAP22292         155 -ILMK----AACLYISENLS-------EDVIAEETEEvlkkkk---------------------------lldikdFPIG 195
Q553E8           148 tALLS----MIVRVAERKFNdvpslikDEEERKKKLETTTTTtttstttnnnndnl-------ndnskneivnnniFPLG 216 Dictyosteli...
XP_003283584     149 tTLLS----MIVRIAERKFYdiptilkEEEDKKSKEAttetntnsnnnnl-------------ndnstnevvnnniFPLG 211
EFA86122         162 tQMLH----AIVRIAERKFTsnivgnlKSSTSGVPTTKTTTTttttttitnttkatted-keyiktinteivnnniYPLG 236
EGG21175         175 tQLLH----SIIRIAERKFVglpelkdDKNIEQDNTDNNNNNnttsttsttstakpnpipaitvvtskggkvndevYPLG 250
ESS28419         196 ----ngeivSAVKAVAMRLK--------------------------------------------------------APTG 215
XP_002259125     204 mYLIQ----SALHAIKEKLKkktktnn-------------------------------------------phyeslFNFN 236
XP_004349212     163 -ELLR----AVSALVEDRLS-------PAAVAEAQSPPEARAatilds-----------------------idlkhVPLG 207
XP_004993698     154 -LMWR----AVAKRVARKFS-------PEAITAARDAQQevvdr---------------------------htleeMPLG 194
jgi:MICPUN_59197 235 -VALgfdedgdggCSAAATAAVNV-----------------LRALHVNDLRVLQSAVDALLVQMQEYTSDPKTDSRLGRV 296
CAP22292         196 mVAP---------KNGAVHFSARL-----------------LRLISLKQLRDVSKMINETLVEIQNLTMDMSKKANYEQV 249
Q553E8           217 -FDF---------KDDKMNSAATI-----------------LRLLYVSDLRELQNKINQVLSIVQNYTANPETNFKLAVV 269 Dictyosteli...
XP_003283584     212 -FDF---------KDDKINSAATI-----------------LRLLYVSDLRELQNKINQVLAIVQKYTADPQTNFKLAVV 264
EFA86122         237 -FDL---------QNEKMNSVATI-----------------LRLLYVSDLREIQSKINQVLAIVQNYSADPQTNFKLGVV 289
EGG21175         251 -FDL---------HNDKMNTVATI-----------------LRLLYVSDLKEVQNKINEVLALVQTYTADPQTNFKLGVV 303
ESS28419         216 -SEQ---------GDEILQDMAVAcplpvensaffkafvcgLRALHVESLRETQAEINQLIEALQALIADPVTDNRLGRV 285
XP_002259125     237 -ISF---------TNSNLKDFAYI-----------------TRYLLNSVLKERETHLKGVLNDIQMLTYNPVIDIRQGKV 289
XP_004349212     208 -FST---------NDALLDEAAKI-----------------LRLLHIGELRKLQTSVNELIVSVQGLTADPKTDSSLGAV 260
XP_004993698     195 -FST---------GDAALDDAAKV-----------------LRLLHVSDLRDLQTRVNELITAAQNVTADPKTDSSLARV 247
jgi:MICPUN_59197 297 G 297
CAP22292         250 q 250
Q553E8           270 G 270 Dictyostelium discoideum
XP_003283584     265 G 265
EFA86122         290 G 290
EGG21175         304 G 304
ESS28419         286 G 286
XP_002259125     290 G 290
XP_004349212     261 G 261
XP_004993698     248 G 248
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