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Conserved domains on  [gi|157426877|ref|NP_005763|]
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RNA 3'-terminal phosphate cyclase-like protein isoform a [Homo sapiens]

Protein Classification

RNA 3'-terminal phosphate cyclase-like protein( domain architecture ID 11496793)

RNA 3'-terminal phosphate cyclase-like protein (RCL1) plays a role in 40S-ribosomal-subunit biogenesis in the early pre-rRNA processing steps at sites A0, A1, and A2 that are required for proper maturation of the 18S RNA

EC:  6.5.1.4
Gene Symbol:  RCL1
Gene Ontology:  GO:0006396|GO:0004521
PubMed:  10790377|21367972

Graphical summary

 Zoom to residue level

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List of domain hits

Name Accession Description Interval E-value
18S_RNA_Rcl1p TIGR03400
18S rRNA biogenesis protein RCL1; Members of this strictly eukaryotic protein family are not ...
8-371 0e+00

18S rRNA biogenesis protein RCL1; Members of this strictly eukaryotic protein family are not RNA 3'-phosphate cyclase (6.5.1.4), but rather a homolog with a distinct function, found in the nucleolus and required for ribosomal RNA processing. Homo sapiens has both a member of this RCL (RNA terminal phosphate cyclase like) family and EC 6.5.1.4, while Saccharomyces has a member of this family only.


:

Pssm-ID: 274564 [Multi-domain]  Cd Length: 360  Bit Score: 584.57  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877    8 LSYAGCNFLRQRLVLSTLSGRPVKIRKIRARDDNPGLRDFEASFIRLLDKITNGSRIEINQTGTTLYYQPGLLYGGSVEH 87
Cdd:TIGR03400   1 LRFEGSRNFRQRLVLSTLSGKPVRITKIRSDDENPGLRDYEVSFLRLLEKVTNGSKIEISYTGTTVIYKPGLITGGSVTH 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877   88 DCSVLRGIGYYLESLLCLAPFMKHPLKIVLRGVTNDQVDPSVDVLKATALPLLKQFGIDGESFELKIVRRGMPPGGGGEV 167
Cdd:TIGR03400  81 ECPTSRGIGYYLEPLLLLAPFSKKPLSITLKGITNSTGDPSVDTIRTATLPLLKKFGIPDEGLELKILKRGAPPLGGGEV 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877  168 VFSCPVRKVLKPIQLTDPGKIKRIRGMAYSVRVSPQMANRIVDSARSILNKFIPDIYIYTDHMKGVNSGKSPGFGLSLVA 247
Cdd:TIGR03400 161 ELRCPVIKQLKTIHLTERGRVKRIRGVAYSTRVSPSLANRMIDAARGVLNNLLPDVYITTDVWKGKNSGKSPGYGLSLVA 240
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877  248 ETTSGTFLSAELASNPqgqGAAVLPEDLGRNCARLLLEEIYRGGCVDSTNQSLALLLMTLGQQDVSKVLLGPLSPYTIEF 327
Cdd:TIGR03400 241 ETTNGCIISAEAVSSP---GEPSLPEDLGKRAAYLLLEEIYKGGCVDSTHQPLALLLMALGQEDVSKLRLGKLSEYTVEF 317
                         330       340       350       360
                  ....*....|....*....|....*....|....*....|....
gi 157426877  328 LRHLKSFFQIMFKIETkpcGEELKGGDKVLMTCVGIGFSNLSKT 371
Cdd:TIGR03400 318 LRDIKEFFGVTFKLKD---DKSDNGSGKVLLTCVGIGYTNVSKK 358
 
Name Accession Description Interval E-value
18S_RNA_Rcl1p TIGR03400
18S rRNA biogenesis protein RCL1; Members of this strictly eukaryotic protein family are not ...
8-371 0e+00

18S rRNA biogenesis protein RCL1; Members of this strictly eukaryotic protein family are not RNA 3'-phosphate cyclase (6.5.1.4), but rather a homolog with a distinct function, found in the nucleolus and required for ribosomal RNA processing. Homo sapiens has both a member of this RCL (RNA terminal phosphate cyclase like) family and EC 6.5.1.4, while Saccharomyces has a member of this family only.


Pssm-ID: 274564 [Multi-domain]  Cd Length: 360  Bit Score: 584.57  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877    8 LSYAGCNFLRQRLVLSTLSGRPVKIRKIRARDDNPGLRDFEASFIRLLDKITNGSRIEINQTGTTLYYQPGLLYGGSVEH 87
Cdd:TIGR03400   1 LRFEGSRNFRQRLVLSTLSGKPVRITKIRSDDENPGLRDYEVSFLRLLEKVTNGSKIEISYTGTTVIYKPGLITGGSVTH 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877   88 DCSVLRGIGYYLESLLCLAPFMKHPLKIVLRGVTNDQVDPSVDVLKATALPLLKQFGIDGESFELKIVRRGMPPGGGGEV 167
Cdd:TIGR03400  81 ECPTSRGIGYYLEPLLLLAPFSKKPLSITLKGITNSTGDPSVDTIRTATLPLLKKFGIPDEGLELKILKRGAPPLGGGEV 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877  168 VFSCPVRKVLKPIQLTDPGKIKRIRGMAYSVRVSPQMANRIVDSARSILNKFIPDIYIYTDHMKGVNSGKSPGFGLSLVA 247
Cdd:TIGR03400 161 ELRCPVIKQLKTIHLTERGRVKRIRGVAYSTRVSPSLANRMIDAARGVLNNLLPDVYITTDVWKGKNSGKSPGYGLSLVA 240
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877  248 ETTSGTFLSAELASNPqgqGAAVLPEDLGRNCARLLLEEIYRGGCVDSTNQSLALLLMTLGQQDVSKVLLGPLSPYTIEF 327
Cdd:TIGR03400 241 ETTNGCIISAEAVSSP---GEPSLPEDLGKRAAYLLLEEIYKGGCVDSTHQPLALLLMALGQEDVSKLRLGKLSEYTVEF 317
                         330       340       350       360
                  ....*....|....*....|....*....|....*....|....
gi 157426877  328 LRHLKSFFQIMFKIETkpcGEELKGGDKVLMTCVGIGFSNLSKT 371
Cdd:TIGR03400 318 LRDIKEFFGVTFKLKD---DKSDNGSGKVLLTCVGIGYTNVSKK 358
RNA_Cyclase_Class_I cd00875
RNA 3' phosphate cyclase domain (class I) This subfamily of cyclase-like proteins are encoded ...
4-343 0e+00

RNA 3' phosphate cyclase domain (class I) This subfamily of cyclase-like proteins are encoded in eukaryotic genomes. They lack a conserved catalytic histidine residue required for cyclase activity, so probably do not function as cyclases. They are believed to play a role in ribosomal RNA processing and assembly.


Pssm-ID: 238447 [Multi-domain]  Cd Length: 341  Bit Score: 543.83  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877   4 QAHSLSYAGCNFLRQRLVLSTLSGRPVKIRKIRARDDNPGLRDFEASFIRLLDKITNGSRIEINQTGTTLYYQPGLLYGG 83
Cdd:cd00875    1 TKKILIFKGSNFFRQRLVLATLSGKPIIIKKIRSDDTNPGLRDHEVSFLRLLEKVTNGSVIEISYTGTTLIYKPGLITGG 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877  84 SVEHDCSVLRGIGYYLESLLCLAPFMKHPLKIVLRGVTNDQVDPSVDVLKATALPLLKQFGIDGESFELKIVRRGMPPGG 163
Cdd:cd00875   81 VLNHDCPVSRGIGYFLEPLLLLAPFGKKPLSITLKGITNSTGDPSVDSIRTATLPLLKKFGIPDEELELKILKRGVAPGG 160
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877 164 GGEVVFSCPVRKVLKPIQLTDPGKIKRIRGMAYSVRVSPQMANRIVDSARSILNKFIPDIYIYTDHMKGVNSGKSPGFGL 243
Cdd:cd00875  161 GGEVGFRCPVRKPLTPHLNDSPGRIKRIRGVAYSTRVSPSIANRMIDAARGVLNPFIPDVYIYTDVRKGDNSGKSPGFGI 240
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877 244 SLVAETTSGTFLSAELASNPQGQGAavLPEDLGRNCARLLLEEIYRGGCVDSTNQSLALLLMTLGQQDV-SKVLLGPLSP 322
Cdd:cd00875  241 SLVAETTTGVLYSAENVSPAGGESE--VPEDLGRECAYQLLEEISRGGCVDSYQQPLALLLMALGSEDVgRLRLGGPLID 318
                        330       340
                 ....*....|....*....|...
gi 157426877 323 YT--IEFLRHLKSFFQIMFKIET 343
Cdd:cd00875  319 EEfkIHLLRDLKEFFGIMFKIDD 341
RTC pfam01137
RNA 3'-terminal phosphate cyclase; RNA cyclases are a family of RNA-modifying enzymes that are ...
12-341 1.04e-118

RNA 3'-terminal phosphate cyclase; RNA cyclases are a family of RNA-modifying enzymes that are conserved in all cellular organizms. They catalyze the ATP-dependent conversion of the 3'-phosphate to the 2',3'-cyclic phosphodiester at the end of RNA, in a reaction involving formation of the covalent AMP-cyclase intermediate. The structure of RTC demonstrates that RTCs are comprised two domain. The larger domain contains an insert domain of approximately 100 amino acids.


Pssm-ID: 460079 [Multi-domain]  Cd Length: 324  Bit Score: 346.81  E-value: 1.04e-118
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877   12 GCNFLRQRLVLSTLSGRPVKIRKIRARDDNPGLRDFEASFIRLLDKITNGsRIEINQTGTT-LYYQPGLLYGGSVEHDCS 90
Cdd:pfam01137   5 GGQILRTALALSALTGKPVRIENIRANRPKPGLRPQHLTAVRLLAKICNA-EVEGAEIGSTeLTFKPGTIKGGDYRFDIG 83
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877   91 VLRGIGYYLESLLCLAPFMKHPLKIVLRGVTNDQVDPSVDVLKATALPLLKQFGIDgesFELKIVrrgmppggggEVVFS 170
Cdd:pfam01137  84 TAGSITLVLQTLLPLLLFAKGPSTLTLRGGTNVPWAPSVDYLRTVFLPLLKRFGVD---LELKILrrgfyprgggEVTLR 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877  171 CpVRKVLKPIQLTDPGKIKRIRGMAYSVRVSPQMANRIVDSARSILNKFIPDIYIYTDHMKGVNSGKSPGFGLSLVAETT 250
Cdd:pfam01137 161 V-EPSSLKPIQLLERGKVKRIRGIAYVARLPPSIANRMVAAAAGLLLRFLPDVYIITDVEKGEESGKGGGGGIVLVAETT 239
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877  251 SGTFLSAELASNPqgqgaAVLPEDLGRNCARLLLEEIYRGGCVDSTNQSLALLLMTLGQQdVSKVLLGPLSPYTIEFLRH 330
Cdd:pfam01137 240 EGCILGASALGER-----GKPAEDVGEEAAEELLEELESGGCVDEHLQDQLILFMALAGG-ESVFRTGPLTLHTITNIRV 313
                         330
                  ....*....|.
gi 157426877  331 LKSFFQIMFKI 341
Cdd:pfam01137 314 IEQFLGVKFKI 324
RCL1 COG0430
RNA 3'-terminal phosphate cyclase [RNA processing and modification];
16-294 1.33e-27

RNA 3'-terminal phosphate cyclase [RNA processing and modification];


Pssm-ID: 440199  Cd Length: 340  Bit Score: 110.98  E-value: 1.33e-27
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877  16 LRQRLVLSTLSGRPVKIRKIRARDDNPGLR--DFEAsfIRLLDKITNGsRIEINQTG-TTLYYQPGLLYGGSVEHD---- 88
Cdd:COG0430   16 LRTALALSALTGKPVRITNIRAGRPKPGLRpqHLTA--VKAAAEICGA-EVEGAELGsTELTFRPGPVRGGDYRFDigta 92
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877  89 --CSVLrgigyyLESLLCLAPFMKHPLKIVLRGVTNDQVDPSVDVLKATALPLLKQFGIDGE--------------SFEL 152
Cdd:COG0430   93 gsTTLV------LQTLLPALALADGPSRLTLTGGTHVPWSPPFDYLERVFLPLLRRMGAEAElellrrgfypagggEVTL 166
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877 153 KIVrrgmppggggevvfscPVRKvLKPIQLTDPGKIKRIRGMAYSVRVSPQMANRIVDSARSILNKFIPDIYIYTDHMKG 232
Cdd:COG0430  167 TVE----------------PSAL-LRPLDLLERGELLRVRGISLVANLPAHVAERQAEAARERLGEAGLEVEIEVEVRPA 229
                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 157426877 233 VnsgkSPGFGLSLVAETTSGTFLSAELASnpQGQGAavlpEDLGRNCARLLLEEIYRGGCVD 294
Cdd:COG0430  230 L----GPGSGIVLWAEYEHGTEGFDALGE--RGKPA----ERVGEEAAEELLEFLASGAAVD 281
PRK04204 PRK04204
RNA 3'-terminal phosphate cyclase;
16-295 5.37e-26

RNA 3'-terminal phosphate cyclase;


Pssm-ID: 235255 [Multi-domain]  Cd Length: 343  Bit Score: 106.83  E-value: 5.37e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877  16 LRQRLVLSTLSGRPVKIRKIRARDDNPGLRDFEASFIRLLDKITNGsRIEINQTG-TTLYYQPGLLYGGSVEHD------ 88
Cdd:PRK04204  17 LRTALALSAITGKPFRITNIRANRPNPGLLRQHLTAVKAAAEICNA-EVEGAELGsQELVFIPGPIRGGDYRFDigtags 95
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877  89 CSVLrgigyyLESLLCLAPFMKHPLKIVLRGVTNDQVDPSVDVLKATALPLLKQFGIDGEsFELK----------IVrrg 158
Cdd:PRK04204  96 ITLV------LQTVLPALLFADGPSRVTITGGTDVPWAPPIDYIRRVTLPLLRRMGIEAE-IELLrrgfypagggEV--- 165
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877 159 mppggggeVVFSCPVRkvLKPIQLTDPGKIKRIRGMAYSVRVSPQMANRIVDSARSIL--NKFIPDIYIYTDhmkGVNSG 236
Cdd:PRK04204 166 --------ALEVEPSK--LRPLELLERGELLRIRGISHVANLPEHVAERQAKAAAELLalSLGLIEIEINVE---ELSRG 232
                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877 237 KSPGFGLSLVAETTSGTFLSAELasnpqgqGAAVLP-EDLGRNCARLLLEEIYRGGCVDS 295
Cdd:PRK04204 233 LGPGSGIVLWAESEHITEGFDAL-------GERGKPaEVVGEEAAEELLRYLASGAAVDE 285
 
Name Accession Description Interval E-value
18S_RNA_Rcl1p TIGR03400
18S rRNA biogenesis protein RCL1; Members of this strictly eukaryotic protein family are not ...
8-371 0e+00

18S rRNA biogenesis protein RCL1; Members of this strictly eukaryotic protein family are not RNA 3'-phosphate cyclase (6.5.1.4), but rather a homolog with a distinct function, found in the nucleolus and required for ribosomal RNA processing. Homo sapiens has both a member of this RCL (RNA terminal phosphate cyclase like) family and EC 6.5.1.4, while Saccharomyces has a member of this family only.


Pssm-ID: 274564 [Multi-domain]  Cd Length: 360  Bit Score: 584.57  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877    8 LSYAGCNFLRQRLVLSTLSGRPVKIRKIRARDDNPGLRDFEASFIRLLDKITNGSRIEINQTGTTLYYQPGLLYGGSVEH 87
Cdd:TIGR03400   1 LRFEGSRNFRQRLVLSTLSGKPVRITKIRSDDENPGLRDYEVSFLRLLEKVTNGSKIEISYTGTTVIYKPGLITGGSVTH 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877   88 DCSVLRGIGYYLESLLCLAPFMKHPLKIVLRGVTNDQVDPSVDVLKATALPLLKQFGIDGESFELKIVRRGMPPGGGGEV 167
Cdd:TIGR03400  81 ECPTSRGIGYYLEPLLLLAPFSKKPLSITLKGITNSTGDPSVDTIRTATLPLLKKFGIPDEGLELKILKRGAPPLGGGEV 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877  168 VFSCPVRKVLKPIQLTDPGKIKRIRGMAYSVRVSPQMANRIVDSARSILNKFIPDIYIYTDHMKGVNSGKSPGFGLSLVA 247
Cdd:TIGR03400 161 ELRCPVIKQLKTIHLTERGRVKRIRGVAYSTRVSPSLANRMIDAARGVLNNLLPDVYITTDVWKGKNSGKSPGYGLSLVA 240
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877  248 ETTSGTFLSAELASNPqgqGAAVLPEDLGRNCARLLLEEIYRGGCVDSTNQSLALLLMTLGQQDVSKVLLGPLSPYTIEF 327
Cdd:TIGR03400 241 ETTNGCIISAEAVSSP---GEPSLPEDLGKRAAYLLLEEIYKGGCVDSTHQPLALLLMALGQEDVSKLRLGKLSEYTVEF 317
                         330       340       350       360
                  ....*....|....*....|....*....|....*....|....
gi 157426877  328 LRHLKSFFQIMFKIETkpcGEELKGGDKVLMTCVGIGFSNLSKT 371
Cdd:TIGR03400 318 LRDIKEFFGVTFKLKD---DKSDNGSGKVLLTCVGIGYTNVSKK 358
RNA_Cyclase_Class_I cd00875
RNA 3' phosphate cyclase domain (class I) This subfamily of cyclase-like proteins are encoded ...
4-343 0e+00

RNA 3' phosphate cyclase domain (class I) This subfamily of cyclase-like proteins are encoded in eukaryotic genomes. They lack a conserved catalytic histidine residue required for cyclase activity, so probably do not function as cyclases. They are believed to play a role in ribosomal RNA processing and assembly.


Pssm-ID: 238447 [Multi-domain]  Cd Length: 341  Bit Score: 543.83  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877   4 QAHSLSYAGCNFLRQRLVLSTLSGRPVKIRKIRARDDNPGLRDFEASFIRLLDKITNGSRIEINQTGTTLYYQPGLLYGG 83
Cdd:cd00875    1 TKKILIFKGSNFFRQRLVLATLSGKPIIIKKIRSDDTNPGLRDHEVSFLRLLEKVTNGSVIEISYTGTTLIYKPGLITGG 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877  84 SVEHDCSVLRGIGYYLESLLCLAPFMKHPLKIVLRGVTNDQVDPSVDVLKATALPLLKQFGIDGESFELKIVRRGMPPGG 163
Cdd:cd00875   81 VLNHDCPVSRGIGYFLEPLLLLAPFGKKPLSITLKGITNSTGDPSVDSIRTATLPLLKKFGIPDEELELKILKRGVAPGG 160
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877 164 GGEVVFSCPVRKVLKPIQLTDPGKIKRIRGMAYSVRVSPQMANRIVDSARSILNKFIPDIYIYTDHMKGVNSGKSPGFGL 243
Cdd:cd00875  161 GGEVGFRCPVRKPLTPHLNDSPGRIKRIRGVAYSTRVSPSIANRMIDAARGVLNPFIPDVYIYTDVRKGDNSGKSPGFGI 240
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877 244 SLVAETTSGTFLSAELASNPQGQGAavLPEDLGRNCARLLLEEIYRGGCVDSTNQSLALLLMTLGQQDV-SKVLLGPLSP 322
Cdd:cd00875  241 SLVAETTTGVLYSAENVSPAGGESE--VPEDLGRECAYQLLEEISRGGCVDSYQQPLALLLMALGSEDVgRLRLGGPLID 318
                        330       340
                 ....*....|....*....|...
gi 157426877 323 YT--IEFLRHLKSFFQIMFKIET 343
Cdd:cd00875  319 EEfkIHLLRDLKEFFGIMFKIDD 341
RTC pfam01137
RNA 3'-terminal phosphate cyclase; RNA cyclases are a family of RNA-modifying enzymes that are ...
12-341 1.04e-118

RNA 3'-terminal phosphate cyclase; RNA cyclases are a family of RNA-modifying enzymes that are conserved in all cellular organizms. They catalyze the ATP-dependent conversion of the 3'-phosphate to the 2',3'-cyclic phosphodiester at the end of RNA, in a reaction involving formation of the covalent AMP-cyclase intermediate. The structure of RTC demonstrates that RTCs are comprised two domain. The larger domain contains an insert domain of approximately 100 amino acids.


Pssm-ID: 460079 [Multi-domain]  Cd Length: 324  Bit Score: 346.81  E-value: 1.04e-118
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877   12 GCNFLRQRLVLSTLSGRPVKIRKIRARDDNPGLRDFEASFIRLLDKITNGsRIEINQTGTT-LYYQPGLLYGGSVEHDCS 90
Cdd:pfam01137   5 GGQILRTALALSALTGKPVRIENIRANRPKPGLRPQHLTAVRLLAKICNA-EVEGAEIGSTeLTFKPGTIKGGDYRFDIG 83
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877   91 VLRGIGYYLESLLCLAPFMKHPLKIVLRGVTNDQVDPSVDVLKATALPLLKQFGIDgesFELKIVrrgmppggggEVVFS 170
Cdd:pfam01137  84 TAGSITLVLQTLLPLLLFAKGPSTLTLRGGTNVPWAPSVDYLRTVFLPLLKRFGVD---LELKILrrgfyprgggEVTLR 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877  171 CpVRKVLKPIQLTDPGKIKRIRGMAYSVRVSPQMANRIVDSARSILNKFIPDIYIYTDHMKGVNSGKSPGFGLSLVAETT 250
Cdd:pfam01137 161 V-EPSSLKPIQLLERGKVKRIRGIAYVARLPPSIANRMVAAAAGLLLRFLPDVYIITDVEKGEESGKGGGGGIVLVAETT 239
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877  251 SGTFLSAELASNPqgqgaAVLPEDLGRNCARLLLEEIYRGGCVDSTNQSLALLLMTLGQQdVSKVLLGPLSPYTIEFLRH 330
Cdd:pfam01137 240 EGCILGASALGER-----GKPAEDVGEEAAEELLEELESGGCVDEHLQDQLILFMALAGG-ESVFRTGPLTLHTITNIRV 313
                         330
                  ....*....|.
gi 157426877  331 LKSFFQIMFKI 341
Cdd:pfam01137 314 IEQFLGVKFKI 324
RNA_Cyclase cd00295
RNA 3' phosphate cyclase domain - RNA phosphate cyclases are enzymes that catalyze the ...
10-341 9.61e-79

RNA 3' phosphate cyclase domain - RNA phosphate cyclases are enzymes that catalyze the ATP-dependent conversion of 3'-phosphate at the end of RNA into 2', 3'-cyclic phosphodiester bond. The enzymes are conserved in eucaryotes, bacteria and archaea. The exact biological role of this enzyme is unknown, but it has been proposed that it is likely to function in cellular RNA metabolism and processing. RNA phosphate cyclase has been characterized in human (with at least three isozymes), and E. coli, and it seems to be taxonomically widespread. The crystal structure of RNA phospate cyclase shows that it consists of two domains. The larger domain contains three repeats of a fold originally identified in the bacterial translation initiation factor IF3.


Pssm-ID: 238183 [Multi-domain]  Cd Length: 338  Bit Score: 245.34  E-value: 9.61e-79
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877  10 YAGCNFLRQRLVLSTLSGRPVKIRKIRARDDNPGLRDFEASFIRLLDKITNGSRIEINQTGTTLYYQPGLLYGGSVEHDC 89
Cdd:cd00295    7 EGGCEILRHALSLAMISGQPFRIEGIRADEADPGLKDQHLSALKAAEEICGASVEEAELGGQRFIFRPGNIIGGDVRFAC 86
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877  90 SVLRGIGYYLESLLCLAPFMKHPLKIVLRGVTNDQVDPSVDVLKATALPLLKQFGIDGESFELKIVRRGMPPGGGGEVVF 169
Cdd:cd00295   87 GSAGGCGLFLEPILIACLFADGPSRLELSGGTDNNEAIGADFIRRSLEPLLAKIFIHGDELELRHGFRGAAGGGGAEENF 166
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877 170 SCPVRKVLK-PIQLTDPGKIKRIRGMAYSVRVSPQMANRIVDSARSILNKFIPDIYIYTDHMKGVNSGKSPGFGLSLVAE 248
Cdd:cd00295  167 LCASFKELLlGERGSEFGRQFRGEGIAAGTRVPPAFAEREIASAAGSFNLFEPDIFILPDDQRGDECGNGPGNSISLEAE 246
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877 249 TTSGTFLSAELASNpqgqgAAVLPEDLGRNCARLLLEEIYRGGCVDSTNQSLALLLMTLGQQDVSKVLLGPL--SPYTIE 326
Cdd:cd00295  247 SEKGCSEAAEHCGE-----AGESAEDVAAFCAKELKEVIASGAAVDEYLADQLLLGMALAGEAGEFIVAGPLchLLQLTN 321
                        330
                 ....*....|....*
gi 157426877 327 FLRHLKSFFQIMFKI 341
Cdd:cd00295  322 FARDVEAFFNCEFRF 336
RTC_insert pfam05189
RNA 3'-terminal phosphate cyclase (RTC), insert domain; RNA cyclases are a family of ...
183-288 6.12e-43

RNA 3'-terminal phosphate cyclase (RTC), insert domain; RNA cyclases are a family of RNA-modifying enzymes that are conserved in all cellular organizms. They catalyze the ATP-dependent conversion of the 3'-phosphate to the 2',3'-cyclic phosphodiester at the end of RNA, in a reaction involving formation of the covalent AMP-cyclase intermediate. The structure of RTC demonstrates that RTCs are comprised two domain. The larger domain contains an insert domain of approximately 100 amino acids.


Pssm-ID: 461577 [Multi-domain]  Cd Length: 102  Bit Score: 144.62  E-value: 6.12e-43
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877  183 TDPGKIKRIRGMAYSVRVSPQMANRIVDSARSILNKFIPDIYIYTD-HMKGVNSGKSPGFGLSLVAETTSGTFLSAElAS 261
Cdd:pfam05189   1 LERGKIKRIRGVAYVAGLPPHVAERMAEAAREVLNKLLPDVYIYIDvVVEGRDSGKGPGSGIVLVAETTTGCILGAD-AL 79
                          90       100
                  ....*....|....*....|....*..
gi 157426877  262 NPQGqgaaVLPEDLGRNCARLLLEEIY 288
Cdd:pfam05189  80 GERG----VPAEDVGEEAAEELLEEIA 102
RNA_3prim_cycl TIGR03399
RNA 3'-phosphate cyclase; Members of this protein family are RNA 3'-phosphate cyclase (6.5.1.4) ...
16-324 1.78e-34

RNA 3'-phosphate cyclase; Members of this protein family are RNA 3'-phosphate cyclase (6.5.1.4), an enzyme whose function is conserved from E. coli to human. The modification this enzyme performs enables certain RNA ligations to occur, although the full biological roll for this enzyme is not fully described. This model separates this enzyme from a related protein, present only in eukaryotes, localized to the nucleolus, and involved in ribosomal modification. [Transcription, RNA processing]


Pssm-ID: 274563 [Multi-domain]  Cd Length: 326  Bit Score: 129.32  E-value: 1.78e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877   16 LRQRLVLSTLSGRPVKIRKIRARDDNPGLRDFEASFIRLLDKITNGsRIEINQTG-TTLYYQPGLLYGGSVEHDCSVLRG 94
Cdd:TIGR03399  15 LRTALSLSALTGKPVRIYNIRANRPKPGLAPQHLTAVKAAAEICNA-EVEGAELGsTELEFIPGKIRGGDYRFDIGTAGS 93
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877   95 IGYYLESLLCLAPFMKHPLKIVLRGVTNDQVDPSVDVLKATALPLLKQFGIdgeSFELKIVRRGMPPGGGGEVVFSC-PV 173
Cdd:TIGR03399  94 VTLVLQTLLPALLFANGPSRVTVSGGTDVPWAPPVDYLRNVFLPLLERMGI---RAELELLRRGFYPRGGGEVRLRVePV 170
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877  174 RKvLKPIQLTDPGKIKRIRGMAYSVRVSPQMANRIVDSARSILNKFIPDIYIYTDHMKGvnsGKSPGFGLSLVAETTSGT 253
Cdd:TIGR03399 171 KK-LKPLELEERGELLRVSGIAHAANLPAHVAERMAKAAREELRKLGLDPEIEIEVLDK---GLGPGSGIVLWAETEHCR 246
                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 157426877  254 FLSAELASnpQGQGAavlpEDLGRNCARLLLEEIYRGGCVDSTNQSLALLLMTLGqQDVSKVLLGPLSPYT 324
Cdd:TIGR03399 247 LGFSALGE--KGKSA----EKVGEEAAEQLLAELRSGAAVDEHLADQLILYMALA-SGESRFTTSELTMHL 310
RNA_Cyclase_Class_II cd00874
RNA 3' phosphate cyclase domain (class II). These proteins function as RNA cyclase to catalyze ...
16-342 7.46e-33

RNA 3' phosphate cyclase domain (class II). These proteins function as RNA cyclase to catalyze the ATP-dependent conversion of 3'-phosphate to a 2'.3'-cyclic phosphodiester at the end of RNA molecule. A conserved catalytic histidine residue is found in all members of this subfamily.


Pssm-ID: 238446 [Multi-domain]  Cd Length: 326  Bit Score: 125.02  E-value: 7.46e-33
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877  16 LRQRLVLSTLSGRPVKIRKIRARDDNPGLRDFEASFIRLLDKITNGsRIEINQTG-TTLYYQPGLLYGGSVEHDCSVLRG 94
Cdd:cd00874   13 LRTALALSAVTGKPVRIVNIRANRSNPGLSRQHLTAVRAAARICNA-EVEGAELGsTELEFEPGKIKGGDYEFDIGTAGS 91
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877  95 IGYYLESLLCLAPFMKHPLKIVLRGVTNDQVDPSVDVLKATALPLLKQFGIDgesFELKIVRRGMPPGGGGEVVFSCPVR 174
Cdd:cd00874   92 ITLVLQTLLPALLFADGPSTVTISGGTDVPWAPPIDYLRNVTLPLLERMGIE---AELEVLRRGFYPRGGGEVVLTVEPS 168
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877 175 KVLKPIQLTDPGKIKRIRGMAYSVRVSPQMANRIVDSARSILNKfIPDIYI---YTDHmkgvnSGKSPGFGLSLVAETTS 251
Cdd:cd00874  169 KLLPPLLLEERGEIEKIRGISHAANLPPHVAERQAEAAAALLRK-ALGLQIeiePEDQ-----SALGPGSGIVLWAEYEH 242
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877 252 GTFLSAELasnpqGQgAAVLPEDLGRNCARLLLEEIYRGGCVDSTNQSLALLLMTLGqqDVSKVLLGPLSPYT---IEFL 328
Cdd:cd00874  243 SRLGFSAL-----GK-KGVPAEKVGEEAAEELLAYLSSGAAVDEHLADQLIPFMALA--GGSEFRTGELTLHLqtnIWVI 314
                        330
                 ....*....|....
gi 157426877 329 RHlksFFQIMFKIE 342
Cdd:cd00874  315 EK---FLGVKFRIE 325
EPT_RTPC-like cd01553
This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate ...
9-185 1.69e-30

This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats with a 4th slightly different domain inserted between the 2nd and 3rd repeat. They evidently share the same active site location, although the catalytic residues differ.


Pssm-ID: 238794  Cd Length: 211  Bit Score: 115.84  E-value: 1.69e-30
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877   9 SYAGCNFLRQRLVLSTLSGRPVKIRKIRARDDNPGLRDFEASFIRLLDKITNGSRIEINQTGTTLYYQPGLLYGGSVEHD 88
Cdd:cd01553    6 GKGGGQILRSFLVLAAISGGPITVTGIRPDRAKPGLLRQHLTFLKALEKICGATVEGGELGSDRISFRPGTVRGGDVRFA 85
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877  89 CSVLRGIGYYLESLLCLAPFMKHPLKIVLRGVTNDQVDPSVDVLKATALPLLKQFGIDGESFELKIVRRGMPPGGGGEVV 168
Cdd:cd01553   86 IGSAGSCTDVLQTILPLLLFAKGPTRLTVTGGTDNPSAPPADFIRFVLEPELAKIGAHQEETLLRHGFYPAGGGVVATEV 165
                        170
                 ....*....|....*..
gi 157426877 169 FSCPVRKVLKPIQLTDP 185
Cdd:cd01553  166 SPVEKLNTAQLRQLVLP 182
RCL1 COG0430
RNA 3'-terminal phosphate cyclase [RNA processing and modification];
16-294 1.33e-27

RNA 3'-terminal phosphate cyclase [RNA processing and modification];


Pssm-ID: 440199  Cd Length: 340  Bit Score: 110.98  E-value: 1.33e-27
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877  16 LRQRLVLSTLSGRPVKIRKIRARDDNPGLR--DFEAsfIRLLDKITNGsRIEINQTG-TTLYYQPGLLYGGSVEHD---- 88
Cdd:COG0430   16 LRTALALSALTGKPVRITNIRAGRPKPGLRpqHLTA--VKAAAEICGA-EVEGAELGsTELTFRPGPVRGGDYRFDigta 92
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877  89 --CSVLrgigyyLESLLCLAPFMKHPLKIVLRGVTNDQVDPSVDVLKATALPLLKQFGIDGE--------------SFEL 152
Cdd:COG0430   93 gsTTLV------LQTLLPALALADGPSRLTLTGGTHVPWSPPFDYLERVFLPLLRRMGAEAElellrrgfypagggEVTL 166
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877 153 KIVrrgmppggggevvfscPVRKvLKPIQLTDPGKIKRIRGMAYSVRVSPQMANRIVDSARSILNKFIPDIYIYTDHMKG 232
Cdd:COG0430  167 TVE----------------PSAL-LRPLDLLERGELLRVRGISLVANLPAHVAERQAEAARERLGEAGLEVEIEVEVRPA 229
                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 157426877 233 VnsgkSPGFGLSLVAETTSGTFLSAELASnpQGQGAavlpEDLGRNCARLLLEEIYRGGCVD 294
Cdd:COG0430  230 L----GPGSGIVLWAEYEHGTEGFDALGE--RGKPA----ERVGEEAAEELLEFLASGAAVD 281
PRK04204 PRK04204
RNA 3'-terminal phosphate cyclase;
16-295 5.37e-26

RNA 3'-terminal phosphate cyclase;


Pssm-ID: 235255 [Multi-domain]  Cd Length: 343  Bit Score: 106.83  E-value: 5.37e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877  16 LRQRLVLSTLSGRPVKIRKIRARDDNPGLRDFEASFIRLLDKITNGsRIEINQTG-TTLYYQPGLLYGGSVEHD------ 88
Cdd:PRK04204  17 LRTALALSAITGKPFRITNIRANRPNPGLLRQHLTAVKAAAEICNA-EVEGAELGsQELVFIPGPIRGGDYRFDigtags 95
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877  89 CSVLrgigyyLESLLCLAPFMKHPLKIVLRGVTNDQVDPSVDVLKATALPLLKQFGIDGEsFELK----------IVrrg 158
Cdd:PRK04204  96 ITLV------LQTVLPALLFADGPSRVTITGGTDVPWAPPIDYIRRVTLPLLRRMGIEAE-IELLrrgfypagggEV--- 165
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877 159 mppggggeVVFSCPVRkvLKPIQLTDPGKIKRIRGMAYSVRVSPQMANRIVDSARSIL--NKFIPDIYIYTDhmkGVNSG 236
Cdd:PRK04204 166 --------ALEVEPSK--LRPLELLERGELLRIRGISHVANLPEHVAERQAKAAAELLalSLGLIEIEINVE---ELSRG 232
                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 157426877 237 KSPGFGLSLVAETTSGTFLSAELasnpqgqGAAVLP-EDLGRNCARLLLEEIYRGGCVDS 295
Cdd:PRK04204 233 LGPGSGIVLWAESEHITEGFDAL-------GERGKPaEVVGEEAAEELLRYLASGAAVDE 285
 
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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