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Conserved domains on  [gi|446451046|ref|WP_000528901|]
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MULTISPECIES: RNA ligase RtcB family protein [Salmonella]

Protein Classification

RtcB family protein( domain architecture ID 10013291)

RtcB family protein similar to RNA-splicing ligase RtcB, which repairs tRNA damage by directly joining spliced tRNA halves to mature-sized tRNAs

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
PRK09588 PRK09588
hypothetical protein; Reviewed
1-376 0e+00

hypothetical protein; Reviewed


:

Pssm-ID: 181972  Cd Length: 376  Bit Score: 695.56  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446451046   1 MGNYIRPLSDVVFSIASDNLWIEDSAIQQLYTTAKLTGMKRVIGMPDLHPGRGYPIGAAFFSRGRFYPALVGNDIGCGMA 80
Cdd:PRK09588   1 MGNYIRPLSDAVFIIASDKSWIESSAIQQLHTTAKLPGMRRVVGMPDLHPGRGYPIGAAFFSVGRFYPALVGNDIGCGMA 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446451046  81 LWQTDILGRKYNADKLEKRLASLTDVADAQWLEENVPAAMQHHSWRSALGSIGGGNHFAELQQVDRIVDADSFALSGLQK 160
Cdd:PRK09588  81 LWQTDLLARKYNADKLEKRLSDLDDPLDESWLEENVPLALAQHPWRSSLGTIGGGNHFAELQQVDEIYDAELFALLGLDA 160
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446451046 161 TQLLLLVHSGSRGLGQAILRRHVEAFSHNGLPEDSDDARRYLAEHDDALAFARSNRALIARRILQQLRAEGEPRLDVAHN 240
Cdd:PRK09588 161 DQLLLLVHSGSRGLGQAILRRHVASFGHNGLPEGSDDALAYLAEHDDALAFARANRQLIARRILQQLRAEGEPVLDVAHN 240
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446451046 241 FVEPCTVAGEAGWLHRKGATPDGQGLVIIPGSRGDYSWLVKPVVSEESLFSLAHGAGRKWMRTECKDRLSAKFTPRQLCR 320
Cdd:PRK09588 241 FVEPCQVGGEDGWLHRKGATPSDQGLVVIPGSRGDYSYLVKPVASEESLFSLAHGAGRKWMRTECKGRLAAKFTVTQLSR 320
                        330       340       350       360       370
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 446451046 321 TGMGSRVICRDRQLIYEEAPQAYKSIDSVVDCLADAGLITPVACLRPVLTLKTSGE 376
Cdd:PRK09588 321 TPLGSRVICRDRQLIFEEAPEAYKSIESVIQDLVQAGLITPVARLRPVLTYKTSGE 376
 
Name Accession Description Interval E-value
PRK09588 PRK09588
hypothetical protein; Reviewed
1-376 0e+00

hypothetical protein; Reviewed


Pssm-ID: 181972  Cd Length: 376  Bit Score: 695.56  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446451046   1 MGNYIRPLSDVVFSIASDNLWIEDSAIQQLYTTAKLTGMKRVIGMPDLHPGRGYPIGAAFFSRGRFYPALVGNDIGCGMA 80
Cdd:PRK09588   1 MGNYIRPLSDAVFIIASDKSWIESSAIQQLHTTAKLPGMRRVVGMPDLHPGRGYPIGAAFFSVGRFYPALVGNDIGCGMA 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446451046  81 LWQTDILGRKYNADKLEKRLASLTDVADAQWLEENVPAAMQHHSWRSALGSIGGGNHFAELQQVDRIVDADSFALSGLQK 160
Cdd:PRK09588  81 LWQTDLLARKYNADKLEKRLSDLDDPLDESWLEENVPLALAQHPWRSSLGTIGGGNHFAELQQVDEIYDAELFALLGLDA 160
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446451046 161 TQLLLLVHSGSRGLGQAILRRHVEAFSHNGLPEDSDDARRYLAEHDDALAFARSNRALIARRILQQLRAEGEPRLDVAHN 240
Cdd:PRK09588 161 DQLLLLVHSGSRGLGQAILRRHVASFGHNGLPEGSDDALAYLAEHDDALAFARANRQLIARRILQQLRAEGEPVLDVAHN 240
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446451046 241 FVEPCTVAGEAGWLHRKGATPDGQGLVIIPGSRGDYSWLVKPVVSEESLFSLAHGAGRKWMRTECKDRLSAKFTPRQLCR 320
Cdd:PRK09588 241 FVEPCQVGGEDGWLHRKGATPSDQGLVVIPGSRGDYSYLVKPVASEESLFSLAHGAGRKWMRTECKGRLAAKFTVTQLSR 320
                        330       340       350       360       370
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 446451046 321 TGMGSRVICRDRQLIYEEAPQAYKSIDSVVDCLADAGLITPVACLRPVLTLKTSGE 376
Cdd:PRK09588 321 TPLGSRVICRDRQLIFEEAPEAYKSIESVIQDLVQAGLITPVARLRPVLTYKTSGE 376
release_rtcB TIGR03073
release factor H-coupled RctB family protein; Members of this family are related to RctB. RctB ...
12-367 0e+00

release factor H-coupled RctB family protein; Members of this family are related to RctB. RctB a protein of known structure but unknown function that often is encoded near RNA cyclase and therefore is suggested to be a tRNA or mRNA processing enzyme. This family of RctB-like proteins in encoded upstream of, and apparently is translationally coupled to, the putative peptide chain release factor RF-H (TIGR03072), product of the prfH gene. Note that a large deletion at the junction between this gene and the prfH gene in Escherichia coli K-12 marks both as probable pseudogenes. [Protein synthesis, Other]


Pssm-ID: 274417  Cd Length: 356  Bit Score: 695.36  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446451046   12 VFSIASDNLWIEDSAIQQLYTTAKLTGMKRVIGMPDLHPGRGYPIGAAFFSRGRFYPALVGNDIGCGMALWQTDILGRKY 91
Cdd:TIGR03073   1 VSLIASDNTWIEGSAIQQLQTTAQLPGMRRVVGMPDLHPGRGYPIGAAFFSVGRFYPALVGNDIGCGMALWQTGLLARKY 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446451046   92 NADKLEKRLASLTDVADAQWLEENVPAAMQHHSWRSALGSIGGGNHFAELQQVDRIVDADSFALSGLQKTQLLLLVHSGS 171
Cdd:TIGR03073  81 NLDKLEKRLGNLDLPLDEQWDEENTALAPALHGFRSSLGTIGGGNHFAELQQVDQIYDADALATLGLDAKQLLLLVHSGS 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446451046  172 RGLGQAILRRHVEAFSHNGLPEDSDDARRYLAEHDDALAFARSNRALIARRILQQLRAEGEPRLDVAHNFVEPCTVAGEA 251
Cdd:TIGR03073 161 RGLGQAILREHVDYFGHNGLPEGSPAAAAYLAQHDDALRFAKANRQLIARRILQRLRAKGDPLLDVNHNLVSPATIEGED 240
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446451046  252 GWLHRKGATPDGQGLVIIPGSRGDYSWLVKPVVSEESLFSLAHGAGRKWMRTECKDRLSAKFTPRQLCRTGMGSRVICRD 331
Cdd:TIGR03073 241 GWLHRKGATPADQGPVVIPGSRGDYSYLVQPVPSEESLFSLAHGAGRKWMRSECKDRLAARFSVDQLRRTRLGSRVICED 320
                         330       340       350
                  ....*....|....*....|....*....|....*.
gi 446451046  332 RQLIYEEAPQAYKSIDSVVDCLADAGLITPVACLRP 367
Cdd:TIGR03073 321 RQLIYEEAPEAYKSIDSVVGALLQAGLIKVVARLKP 356
RtcB COG1690
RNA-splicing ligase RtcB, repairs tRNA damage [Translation, ribosomal structure and biogenesis] ...
16-372 2.09e-92

RNA-splicing ligase RtcB, repairs tRNA damage [Translation, ribosomal structure and biogenesis];


Pssm-ID: 441296 [Multi-domain]  Cd Length: 454  Bit Score: 284.40  E-value: 2.09e-92
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446451046  16 ASDNLwIEDSAIQQLYTTAKLTGM-KRVIGMPDLHPGRGYPIGAAFFSRGRFYPALVGNDIGCGMALWQTDIlgrkyNAD 94
Cdd:COG1690   24 ASEVL-LEDKALEQLANVATLPGIvKHVAAMPDVHLGYGFPIGGVAATEGVISPGAVGVDIGCGMRLLRTDL-----TAE 97
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446451046  95 KLEKRLASLTDVadaqwLEENVPAAMQHHS-------------------------------------------------- 124
Cdd:COG1690   98 DLPDKLKELRDA-----LERAVPSGVGSHGiklskreldevlregarwavekgygleedlerieeggrlegadppkvser 172
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446451046 125 ----WRSALGSIGGGNHFAELQQVDRIVDADSFALSGLQKTQLLLLVHSGSRGLGQAI----LRRHVEAFSHNG------ 190
Cdd:COG1690  173 akerGRPQLGTLGGGNHFIEVQVVDEIYDEEAAEAFGLEEGQVWVMIHSGSRGLGHQIatdyIRLAKKAMKKYGiklpdr 252
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446451046 191 ----LPEDSDDARRYLAEHDDALAFARSNRALIARRILQQLR----AEGEPRL--DVAHNFVEPCTVAGEAGWLHRKGAT 260
Cdd:COG1690  253 dlayAPLGSPEGQDYLAAMAAAANYAFANRQVIMHLVREAFRevfgKDLGLELvyDVHHNYAKREEHDGREVLVHRKGAT 332
                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446451046 261 P------------DGQgLVIIPGSRGDYSWLVKPVVSEESLFSLAHGAGRKWMRTECKDRLSAKFTPRQLcrTGMGSRVI 328
Cdd:COG1690  333 RafppghpeeyrrTGQ-PVLIPGSMGTASYILRGKGNAESFGSASHGAGRVMSRTAAKRRFTGEDLREEL--AERGILVE 409
                        410       420       430       440
                 ....*....|....*....|....*....|....*....|....
gi 446451046 329 CRDRQLIYEEAPQAYKSIDSVVDCLADAGLITPVACLRPVLTLK 372
Cdd:COG1690  410 ARKDAGVAEEAPGAYKDIDEVVEAQEEAGLVEVVARLRPLVVVK 453
RtcB pfam01139
tRNA-splicing ligase RtcB; This family of RNA ligases (EC:6.5.1.3) join 2',3'-cyclic phosphate ...
29-372 3.85e-91

tRNA-splicing ligase RtcB; This family of RNA ligases (EC:6.5.1.3) join 2',3'-cyclic phosphate and 5'-OH ends. They catalyze the splicing of tRNA and may also participate in tRNA repair and recovery from stress-induced RNA damage.


Pssm-ID: 460080 [Multi-domain]  Cd Length: 416  Bit Score: 279.78  E-value: 3.85e-91
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446451046   29 QLYTTAKLTGM-KRVIGMPDLHPGRGYPIGAAF-FSRGRFYPALVGNDIGCGMALWQTDIlgrkyNADKLEKRLASLTDV 106
Cdd:pfam01139   1 QLANVATLPGIvKHVAAMPDVHWGYGFPIGGVAaTDEGVISPGGVGVDINCGVRLLRTNL-----TAEDLDPKLKELRDA 75
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446451046  107 adaqwLEENVPAAMQHHSWRSA-------------------------------------------------------LGS 131
Cdd:pfam01139  76 -----LFRAVPSGVGSKGWIRLskaeldevleegarwaveegfgeledlerieengrlkgadpskvserakergrpqLGT 150
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446451046  132 IGGGNHFAELQQVDRIVDADSFALSGLQKTQLLLLVHSGSRGLGQAILRRHVEAFSHN--------------GLPEDSDD 197
Cdd:pfam01139 151 LGSGNHFIEVQVVDEIYDEEAAKAFGLEEGQVWVMIHSGSRGLGHQIATDYIRLARKAmrkygiklpdrdlaCAPLGSPE 230
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446451046  198 ARRYLAEHDDALAFARSNRALIARRILQQLR---------AEGEPRLDVAHNFVEPCTVAGEAGWLHRKGATP---DGQg 265
Cdd:pfam01139 231 GQDYLGAMAAAANYAWANRQLIMHLVREAFAkvlgkdppdLGLDLVYDVAHNYAKREEHFGKEVLVHRKGATRargVGQ- 309
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446451046  266 LVIIPGSRGDYSWLVKPV-VSEESLFSLAHGAGRKWMRTECKDRLSAKFTPRQLCRTGMGsrVICRDRQLIYEEAPQAYK 344
Cdd:pfam01139 310 PVLIPGSMGTASYILRGTgNAMESFGSASHGAGRVMSRSEAKKRFTGEEVRKDLAAQGIG--VRCRSDAGVAEEAPGAYK 387
                         410       420
                  ....*....|....*....|....*...
gi 446451046  345 SIDSVVDCLADAGLITPVACLRPVLTLK 372
Cdd:pfam01139 388 DIDEVVEAQEGAGLVEVVARLRPLGVVK 415
 
Name Accession Description Interval E-value
PRK09588 PRK09588
hypothetical protein; Reviewed
1-376 0e+00

hypothetical protein; Reviewed


Pssm-ID: 181972  Cd Length: 376  Bit Score: 695.56  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446451046   1 MGNYIRPLSDVVFSIASDNLWIEDSAIQQLYTTAKLTGMKRVIGMPDLHPGRGYPIGAAFFSRGRFYPALVGNDIGCGMA 80
Cdd:PRK09588   1 MGNYIRPLSDAVFIIASDKSWIESSAIQQLHTTAKLPGMRRVVGMPDLHPGRGYPIGAAFFSVGRFYPALVGNDIGCGMA 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446451046  81 LWQTDILGRKYNADKLEKRLASLTDVADAQWLEENVPAAMQHHSWRSALGSIGGGNHFAELQQVDRIVDADSFALSGLQK 160
Cdd:PRK09588  81 LWQTDLLARKYNADKLEKRLSDLDDPLDESWLEENVPLALAQHPWRSSLGTIGGGNHFAELQQVDEIYDAELFALLGLDA 160
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446451046 161 TQLLLLVHSGSRGLGQAILRRHVEAFSHNGLPEDSDDARRYLAEHDDALAFARSNRALIARRILQQLRAEGEPRLDVAHN 240
Cdd:PRK09588 161 DQLLLLVHSGSRGLGQAILRRHVASFGHNGLPEGSDDALAYLAEHDDALAFARANRQLIARRILQQLRAEGEPVLDVAHN 240
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446451046 241 FVEPCTVAGEAGWLHRKGATPDGQGLVIIPGSRGDYSWLVKPVVSEESLFSLAHGAGRKWMRTECKDRLSAKFTPRQLCR 320
Cdd:PRK09588 241 FVEPCQVGGEDGWLHRKGATPSDQGLVVIPGSRGDYSYLVKPVASEESLFSLAHGAGRKWMRTECKGRLAAKFTVTQLSR 320
                        330       340       350       360       370
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 446451046 321 TGMGSRVICRDRQLIYEEAPQAYKSIDSVVDCLADAGLITPVACLRPVLTLKTSGE 376
Cdd:PRK09588 321 TPLGSRVICRDRQLIFEEAPEAYKSIESVIQDLVQAGLITPVARLRPVLTYKTSGE 376
release_rtcB TIGR03073
release factor H-coupled RctB family protein; Members of this family are related to RctB. RctB ...
12-367 0e+00

release factor H-coupled RctB family protein; Members of this family are related to RctB. RctB a protein of known structure but unknown function that often is encoded near RNA cyclase and therefore is suggested to be a tRNA or mRNA processing enzyme. This family of RctB-like proteins in encoded upstream of, and apparently is translationally coupled to, the putative peptide chain release factor RF-H (TIGR03072), product of the prfH gene. Note that a large deletion at the junction between this gene and the prfH gene in Escherichia coli K-12 marks both as probable pseudogenes. [Protein synthesis, Other]


Pssm-ID: 274417  Cd Length: 356  Bit Score: 695.36  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446451046   12 VFSIASDNLWIEDSAIQQLYTTAKLTGMKRVIGMPDLHPGRGYPIGAAFFSRGRFYPALVGNDIGCGMALWQTDILGRKY 91
Cdd:TIGR03073   1 VSLIASDNTWIEGSAIQQLQTTAQLPGMRRVVGMPDLHPGRGYPIGAAFFSVGRFYPALVGNDIGCGMALWQTGLLARKY 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446451046   92 NADKLEKRLASLTDVADAQWLEENVPAAMQHHSWRSALGSIGGGNHFAELQQVDRIVDADSFALSGLQKTQLLLLVHSGS 171
Cdd:TIGR03073  81 NLDKLEKRLGNLDLPLDEQWDEENTALAPALHGFRSSLGTIGGGNHFAELQQVDQIYDADALATLGLDAKQLLLLVHSGS 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446451046  172 RGLGQAILRRHVEAFSHNGLPEDSDDARRYLAEHDDALAFARSNRALIARRILQQLRAEGEPRLDVAHNFVEPCTVAGEA 251
Cdd:TIGR03073 161 RGLGQAILREHVDYFGHNGLPEGSPAAAAYLAQHDDALRFAKANRQLIARRILQRLRAKGDPLLDVNHNLVSPATIEGED 240
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446451046  252 GWLHRKGATPDGQGLVIIPGSRGDYSWLVKPVVSEESLFSLAHGAGRKWMRTECKDRLSAKFTPRQLCRTGMGSRVICRD 331
Cdd:TIGR03073 241 GWLHRKGATPADQGPVVIPGSRGDYSYLVQPVPSEESLFSLAHGAGRKWMRSECKDRLAARFSVDQLRRTRLGSRVICED 320
                         330       340       350
                  ....*....|....*....|....*....|....*.
gi 446451046  332 RQLIYEEAPQAYKSIDSVVDCLADAGLITPVACLRP 367
Cdd:TIGR03073 321 RQLIYEEAPEAYKSIDSVVGALLQAGLIKVVARLKP 356
RtcB COG1690
RNA-splicing ligase RtcB, repairs tRNA damage [Translation, ribosomal structure and biogenesis] ...
16-372 2.09e-92

RNA-splicing ligase RtcB, repairs tRNA damage [Translation, ribosomal structure and biogenesis];


Pssm-ID: 441296 [Multi-domain]  Cd Length: 454  Bit Score: 284.40  E-value: 2.09e-92
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446451046  16 ASDNLwIEDSAIQQLYTTAKLTGM-KRVIGMPDLHPGRGYPIGAAFFSRGRFYPALVGNDIGCGMALWQTDIlgrkyNAD 94
Cdd:COG1690   24 ASEVL-LEDKALEQLANVATLPGIvKHVAAMPDVHLGYGFPIGGVAATEGVISPGAVGVDIGCGMRLLRTDL-----TAE 97
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446451046  95 KLEKRLASLTDVadaqwLEENVPAAMQHHS-------------------------------------------------- 124
Cdd:COG1690   98 DLPDKLKELRDA-----LERAVPSGVGSHGiklskreldevlregarwavekgygleedlerieeggrlegadppkvser 172
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446451046 125 ----WRSALGSIGGGNHFAELQQVDRIVDADSFALSGLQKTQLLLLVHSGSRGLGQAI----LRRHVEAFSHNG------ 190
Cdd:COG1690  173 akerGRPQLGTLGGGNHFIEVQVVDEIYDEEAAEAFGLEEGQVWVMIHSGSRGLGHQIatdyIRLAKKAMKKYGiklpdr 252
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446451046 191 ----LPEDSDDARRYLAEHDDALAFARSNRALIARRILQQLR----AEGEPRL--DVAHNFVEPCTVAGEAGWLHRKGAT 260
Cdd:COG1690  253 dlayAPLGSPEGQDYLAAMAAAANYAFANRQVIMHLVREAFRevfgKDLGLELvyDVHHNYAKREEHDGREVLVHRKGAT 332
                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446451046 261 P------------DGQgLVIIPGSRGDYSWLVKPVVSEESLFSLAHGAGRKWMRTECKDRLSAKFTPRQLcrTGMGSRVI 328
Cdd:COG1690  333 RafppghpeeyrrTGQ-PVLIPGSMGTASYILRGKGNAESFGSASHGAGRVMSRTAAKRRFTGEDLREEL--AERGILVE 409
                        410       420       430       440
                 ....*....|....*....|....*....|....*....|....
gi 446451046 329 CRDRQLIYEEAPQAYKSIDSVVDCLADAGLITPVACLRPVLTLK 372
Cdd:COG1690  410 ARKDAGVAEEAPGAYKDIDEVVEAQEEAGLVEVVARLRPLVVVK 453
RtcB pfam01139
tRNA-splicing ligase RtcB; This family of RNA ligases (EC:6.5.1.3) join 2',3'-cyclic phosphate ...
29-372 3.85e-91

tRNA-splicing ligase RtcB; This family of RNA ligases (EC:6.5.1.3) join 2',3'-cyclic phosphate and 5'-OH ends. They catalyze the splicing of tRNA and may also participate in tRNA repair and recovery from stress-induced RNA damage.


Pssm-ID: 460080 [Multi-domain]  Cd Length: 416  Bit Score: 279.78  E-value: 3.85e-91
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446451046   29 QLYTTAKLTGM-KRVIGMPDLHPGRGYPIGAAF-FSRGRFYPALVGNDIGCGMALWQTDIlgrkyNADKLEKRLASLTDV 106
Cdd:pfam01139   1 QLANVATLPGIvKHVAAMPDVHWGYGFPIGGVAaTDEGVISPGGVGVDINCGVRLLRTNL-----TAEDLDPKLKELRDA 75
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446451046  107 adaqwLEENVPAAMQHHSWRSA-------------------------------------------------------LGS 131
Cdd:pfam01139  76 -----LFRAVPSGVGSKGWIRLskaeldevleegarwaveegfgeledlerieengrlkgadpskvserakergrpqLGT 150
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446451046  132 IGGGNHFAELQQVDRIVDADSFALSGLQKTQLLLLVHSGSRGLGQAILRRHVEAFSHN--------------GLPEDSDD 197
Cdd:pfam01139 151 LGSGNHFIEVQVVDEIYDEEAAKAFGLEEGQVWVMIHSGSRGLGHQIATDYIRLARKAmrkygiklpdrdlaCAPLGSPE 230
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446451046  198 ARRYLAEHDDALAFARSNRALIARRILQQLR---------AEGEPRLDVAHNFVEPCTVAGEAGWLHRKGATP---DGQg 265
Cdd:pfam01139 231 GQDYLGAMAAAANYAWANRQLIMHLVREAFAkvlgkdppdLGLDLVYDVAHNYAKREEHFGKEVLVHRKGATRargVGQ- 309
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446451046  266 LVIIPGSRGDYSWLVKPV-VSEESLFSLAHGAGRKWMRTECKDRLSAKFTPRQLCRTGMGsrVICRDRQLIYEEAPQAYK 344
Cdd:pfam01139 310 PVLIPGSMGTASYILRGTgNAMESFGSASHGAGRVMSRSEAKKRFTGEEVRKDLAAQGIG--VRCRSDAGVAEEAPGAYK 387
                         410       420
                  ....*....|....*....|....*...
gi 446451046  345 SIDSVVDCLADAGLITPVACLRPVLTLK 372
Cdd:pfam01139 388 DIDEVVEAQEGAGLVEVVARLRPLGVVK 415
 
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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