|
Name |
Accession |
Description |
Interval |
E-value |
| pcnB |
TIGR01942 |
poly(A) polymerase; This model describes the pcnB family of poly(A) polymerases (also known as ... |
56-469 |
3.33e-150 |
|
poly(A) polymerase; This model describes the pcnB family of poly(A) polymerases (also known as plasmid copy number protein). These enzymes sequentially add adenosine nucleotides to the 3' end of RNAs, targeting them for degradation by the cell. This was originally described for anti-sense RNAs, but was later demonstrated for mRNAs as well. Members of this family are as yet limited to the gamma- and beta-proteobacteria, with putative members in the Chlamydiacae and spirochetes. This family has homology to tRNA nucleotidyltransferase (cca).
Pssm-ID: 130997 [Multi-domain] Cd Length: 410 Bit Score: 435.77 E-value: 3.33e-150
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 638829958 56 IVHADVHGIDPALISKNAIRVTDTLQQAGFRAFIVGGAVRDLLLGIAPKDFDVATDATPTEVQRLFRRARLIGRRFQIVH 135
Cdd:TIGR01942 1 VIPESEHNIPRQSFSAHALNVVERLKGAGYQAYIVGGAVRDLLLGIEPKDFDVVTSATPEEVRKLFRNSRIVGRRFRLVH 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 638829958 136 VQFGQELIEVSTFRALVDAPQEppadaapakrlkrdeldrrthavdASGRVLRDNVWGEQHEDAARRDFTINAMYYDPAS 215
Cdd:TIGR01942 81 VSFGRQIIEVATFRSGHKSSVN------------------------AEGRILKDNVYGTLEEDAWRRDFTVNALYYDPSR 136
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 638829958 216 QTVLDYHDGMADMRARLLRMIGDPATRYREDPVRMLRVVRFAAKLGFDIEEKTREPIKELADLINNVPAARLFDEMLKLL 295
Cdd:TIGR01942 137 EVIIDYVGGMEDLKNRRLRLIGDPRSRYQEDPVRMLRALRFSVKLEFTIDESTARPIRESAPLLKGIPPARLFEEILKLL 216
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 638829958 296 LSGHALACLKQLRKQGLHHGLLPLLDVVL-EQPQGE--KFVTLALNNTDARVRAGKPVSPGFLFATLLWHDMRQRFEQYS 372
Cdd:TIGR01942 217 FSGRSAALFRMLCGYQLLEPLFPSVAYALrESPKFEsaFTVQALVNDTDFRVKRDKPVTPAFLYAALLWPGLVFRVADAP 296
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 638829958 373 ADGEFPVPALHRAMDDVIDMQTEKLAIHKRYSADMREIWGLQLRLEKRSGRSALRLLEHQRFRAGYDFLLLRCESGELDP 452
Cdd:TIGR01942 297 DQGVMPYPAVFDAIRDFVEEQCAPISIPKRFSIPTREIWQMQLRLERRSGMRARKLLGHARFRAAYDLLLLREVCGRENA 376
|
410
....*....|....*..
gi 638829958 453 AVGQWWTDFIDGDAATR 469
Cdd:TIGR01942 377 VLGEWWTPYQLASEEER 393
|
|
| pcnB |
PRK11623 |
poly(A) polymerase I; Provisional |
55-461 |
4.82e-126 |
|
poly(A) polymerase I; Provisional
Pssm-ID: 236939 [Multi-domain] Cd Length: 472 Bit Score: 376.40 E-value: 4.82e-126
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 638829958 55 TIVHADVHGIDPALISKNAIRVTDTLQQAGFRAFIVGGAVRDLLLGIAPKDFDVATDATPTEVQRLFRRARLIGRRFQIV 134
Cdd:PRK11623 37 TVIPREQHAISRKDISENALKVLYRLNKAGYEAYLVGGGVRDLLLGKKPKDFDVTTNATPEQVRKLFRNCRLVGRRFRLA 116
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 638829958 135 HVQFGQELIEVSTFRALVDAPQEppadaapakrlkrdelDRRTHAVDASGRVLRDNVWGEQHEDAARRDFTINAMYYDPA 214
Cdd:PRK11623 117 HVMFGPEIIEVATFRGHHEGNES----------------DRNTSQRGQNGMLLRDNIFGSIEEDAQRRDFTINSLYYSVA 180
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 638829958 215 SQTVLDYHDGMADMRARLLRMIGDPATRYREDPVRMLRVVRFAAKLGFDIEEKTREPIKELADLINNVPAARLFDEMLKL 294
Cdd:PRK11623 181 DFTVRDYVGGMKDLKEGVIRLIGNPETRYREDPVRMLRAVRFAAKLDMRISPETAEPIPRLATLLNDIPPARLFEESLKL 260
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 638829958 295 LLSGHALACLKQLRKQGlhhgllplldvvLEQP-----------QG----EKFVTLALNNTDARVRAGKPVSPGFLFATL 359
Cdd:PRK11623 261 LQAGYGYETYKLLCEYH------------LFQPlfptitryfteNGdspmERIIEQVLKNTDTRIHNDMRVNPAFLFAAM 328
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 638829958 360 LWH---DMRQRFEQYSADGEFPVPALhrAMDDVIDMQTEKLAIHKRYSADMREIWGLQLRLEKRSGRSALRLLEHQRFRA 436
Cdd:PRK11623 329 FWYpllEHAQKIAQESGLAYYDAFAL--AMNDVLDEACRSLAIPKRLTTLTRDIWQLQLRMSRRQGKRAWKLMEHPKFRA 406
|
410 420
....*....|....*....|....*...
gi 638829958 437 GYDFLLLRCE---SGELDpAVGQWWTDF 461
Cdd:PRK11623 407 AYDLLALRAEvenNAELQ-RLAQWWGEF 433
|
|
| PcnB |
COG0617 |
tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and ... |
69-458 |
1.09e-108 |
|
tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; tRNA nucleotidyltransferase/poly(A) polymerase is part of the Pathway/BioSystem: tRNA modification
Pssm-ID: 440382 [Multi-domain] Cd Length: 391 Bit Score: 328.70 E-value: 1.09e-108
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 638829958 69 ISKNAIRVTDTLQQAGFRAFIVGGAVRDLLLGIAPKDFDVATDATPTEVQRLFR---RARLIGRRFQIVHVQFGQELIEV 145
Cdd:COG0617 2 LSPNALKVLEALEEAGFEAYLVGGAVRDLLLGRPPKDIDIVTVATPEEVAALFRkalRTVPVGRDFGTVTVVFGGEKIEV 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 638829958 146 STFRalvdapqeppadaapakrlkrdeldrrTHAVDASGRvLRDNVWGE-QHEDAARRDFTINAMYYDPASQTVLDYHDG 224
Cdd:COG0617 82 ATAR---------------------------TERYYGDGR-RPFVEFGDtLEEDLARRDFTINALAYDLNDGELIDPFGG 133
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 638829958 225 MADMRARLLRMIGDPATRYREDPVRMLRVVRFAAKLGFDIEEKTREPIKELADLINNVPAARLFDEMLKLLLSGHALACL 304
Cdd:COG0617 134 LADLEARVIRTVGDPEERFREDPLRILRAVRFAARLGFTIEPETLAAIREMAGLLDRLSAERVWDELLKLLLSPHPSRGL 213
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 638829958 305 KQLRKqglhhgllplldvvleqpqgekfvtlalnntdarVRAGKPVSpgFLFATLLwHDMRQRFEQysADGEFPVPALHR 384
Cdd:COG0617 214 ELLRE----------------------------------TGLLEVLA--LRLAALL-HDLGKPATR--EDGLPTFHGHEE 254
|
330 340 350 360 370 380 390
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 638829958 385 AMDDVIDMQTEKLAIHKRYSADMREIWGLQLRLEKRSGRSA---LRLLEHqRFRAGYDFLLLRCESGELDPAVGQWW 458
Cdd:COG0617 255 AGAELAEALLKRLRLPNRERKLVRELVELHLRFHGLGELRDsavRRLLER-GPEALEDLLLLRENGLEYPELQERLA 330
|
|
| PolyA_pol_arg_C |
pfam12626 |
Polymerase A arginine-rich C-terminus; The C-terminus of polymerase A in E coli is ... |
374-477 |
9.73e-46 |
|
Polymerase A arginine-rich C-terminus; The C-terminus of polymerase A in E coli is arginine-rich and is necessary for full functioning of the enzyme.
Pssm-ID: 463647 [Multi-domain] Cd Length: 116 Bit Score: 155.82 E-value: 9.73e-46
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 638829958 374 DGEFPVPALHRAMDDVIDMQTEKLAIHKRYSADMREIWGLQLRLEKRSGRSALRLLEHQRFRAGYDFLLLRCESGELDPA 453
Cdd:pfam12626 1 QGLPPYDALQLAADEVLDEQCQRVAIPRRFTAPMREIWLLQPRLEKRQGKRPFRLLEHPRFRAAYDFLLLRAESGEVLQE 80
|
90 100
....*....|....*....|....
gi 638829958 454 VGQWWTDFIDGDAATREALLTQGG 477
Cdd:pfam12626 81 LAEWWTRFQEADEAEREAMIAELG 104
|
|
| NT_ClassII-CCAase |
cd05398 |
Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; CCA-adding enzymes add the ... |
70-230 |
4.66e-35 |
|
Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; CCA-adding enzymes add the sequence [cytidine(C)-cytidine-adenosine (A)], one nucleotide at a time, onto the 3' end of tRNA, in a template-independent reaction. This Class II group is comprised mainly of eubacterial and eukaryotic enzymes and includes Bacillus stearothermophilus CCAase, Escherichia coli poly(A) polymerase I, human mitochondrial CCAase, and Saccharomyces cerevisiae CCAase (CCA1). CCA-adding enzymes have a single catalytic pocket, which recognizes both ATP and CTP substrates. Included in this subgroup are CC- and A-adding enzymes from various ancient species of bacteria such as Aquifex aeolicus; these enzymes collaborate to add CCA to tRNAs. This family belongs to the Pol beta-like NT superfamily. In the majority of enzymes in this superfamily, two carboxylates, Dx[D/E], together with a third more distal carboxylate, coordinate two divalent metal cations involved in a two-metal ion mechanism of nucleotide addition. These carboxylate residues are fairly well conserved in this family. Escherichia coli CCAase is related to this group but has not been included in this alignment as this enzyme lacks the N-terminal helix conserved in the remainder of the NT superfamily.
Pssm-ID: 143388 [Multi-domain] Cd Length: 139 Bit Score: 128.09 E-value: 4.66e-35
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 638829958 70 SKNAIRVTDTLQQA-GFRAFIVGGAVRDLLLGIAPKDFDVATDA-TPTEVQRLFRR--ARLIGR--RFQIVHVQFGQELI 143
Cdd:cd05398 1 TPELLKLLRELKKAlGYEAYLVGGAVRDLLLGRPPKDIDIATDAdGPEFAEALFKKigGRVVGLgeEFGTATVVINGLTI 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 638829958 144 EVSTFRAlvdapqeppadaapakrlKRDELDRRTHAVDASGRvlrdnvwgeqHEDAARRDFTINAMYYDPASQTVLDYHD 223
Cdd:cd05398 81 DVATLRT------------------ETYTDPGRRPPVVGFTI----------EEDLLRRDFTINAMAYDLDDGELIDPFG 132
|
....*..
gi 638829958 224 GMADMRA 230
Cdd:cd05398 133 GLKDLEN 139
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| pcnB |
TIGR01942 |
poly(A) polymerase; This model describes the pcnB family of poly(A) polymerases (also known as ... |
56-469 |
3.33e-150 |
|
poly(A) polymerase; This model describes the pcnB family of poly(A) polymerases (also known as plasmid copy number protein). These enzymes sequentially add adenosine nucleotides to the 3' end of RNAs, targeting them for degradation by the cell. This was originally described for anti-sense RNAs, but was later demonstrated for mRNAs as well. Members of this family are as yet limited to the gamma- and beta-proteobacteria, with putative members in the Chlamydiacae and spirochetes. This family has homology to tRNA nucleotidyltransferase (cca).
Pssm-ID: 130997 [Multi-domain] Cd Length: 410 Bit Score: 435.77 E-value: 3.33e-150
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 638829958 56 IVHADVHGIDPALISKNAIRVTDTLQQAGFRAFIVGGAVRDLLLGIAPKDFDVATDATPTEVQRLFRRARLIGRRFQIVH 135
Cdd:TIGR01942 1 VIPESEHNIPRQSFSAHALNVVERLKGAGYQAYIVGGAVRDLLLGIEPKDFDVVTSATPEEVRKLFRNSRIVGRRFRLVH 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 638829958 136 VQFGQELIEVSTFRALVDAPQEppadaapakrlkrdeldrrthavdASGRVLRDNVWGEQHEDAARRDFTINAMYYDPAS 215
Cdd:TIGR01942 81 VSFGRQIIEVATFRSGHKSSVN------------------------AEGRILKDNVYGTLEEDAWRRDFTVNALYYDPSR 136
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 638829958 216 QTVLDYHDGMADMRARLLRMIGDPATRYREDPVRMLRVVRFAAKLGFDIEEKTREPIKELADLINNVPAARLFDEMLKLL 295
Cdd:TIGR01942 137 EVIIDYVGGMEDLKNRRLRLIGDPRSRYQEDPVRMLRALRFSVKLEFTIDESTARPIRESAPLLKGIPPARLFEEILKLL 216
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 638829958 296 LSGHALACLKQLRKQGLHHGLLPLLDVVL-EQPQGE--KFVTLALNNTDARVRAGKPVSPGFLFATLLWHDMRQRFEQYS 372
Cdd:TIGR01942 217 FSGRSAALFRMLCGYQLLEPLFPSVAYALrESPKFEsaFTVQALVNDTDFRVKRDKPVTPAFLYAALLWPGLVFRVADAP 296
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 638829958 373 ADGEFPVPALHRAMDDVIDMQTEKLAIHKRYSADMREIWGLQLRLEKRSGRSALRLLEHQRFRAGYDFLLLRCESGELDP 452
Cdd:TIGR01942 297 DQGVMPYPAVFDAIRDFVEEQCAPISIPKRFSIPTREIWQMQLRLERRSGMRARKLLGHARFRAAYDLLLLREVCGRENA 376
|
410
....*....|....*..
gi 638829958 453 AVGQWWTDFIDGDAATR 469
Cdd:TIGR01942 377 VLGEWWTPYQLASEEER 393
|
|
| pcnB |
PRK11623 |
poly(A) polymerase I; Provisional |
55-461 |
4.82e-126 |
|
poly(A) polymerase I; Provisional
Pssm-ID: 236939 [Multi-domain] Cd Length: 472 Bit Score: 376.40 E-value: 4.82e-126
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 638829958 55 TIVHADVHGIDPALISKNAIRVTDTLQQAGFRAFIVGGAVRDLLLGIAPKDFDVATDATPTEVQRLFRRARLIGRRFQIV 134
Cdd:PRK11623 37 TVIPREQHAISRKDISENALKVLYRLNKAGYEAYLVGGGVRDLLLGKKPKDFDVTTNATPEQVRKLFRNCRLVGRRFRLA 116
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 638829958 135 HVQFGQELIEVSTFRALVDAPQEppadaapakrlkrdelDRRTHAVDASGRVLRDNVWGEQHEDAARRDFTINAMYYDPA 214
Cdd:PRK11623 117 HVMFGPEIIEVATFRGHHEGNES----------------DRNTSQRGQNGMLLRDNIFGSIEEDAQRRDFTINSLYYSVA 180
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 638829958 215 SQTVLDYHDGMADMRARLLRMIGDPATRYREDPVRMLRVVRFAAKLGFDIEEKTREPIKELADLINNVPAARLFDEMLKL 294
Cdd:PRK11623 181 DFTVRDYVGGMKDLKEGVIRLIGNPETRYREDPVRMLRAVRFAAKLDMRISPETAEPIPRLATLLNDIPPARLFEESLKL 260
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 638829958 295 LLSGHALACLKQLRKQGlhhgllplldvvLEQP-----------QG----EKFVTLALNNTDARVRAGKPVSPGFLFATL 359
Cdd:PRK11623 261 LQAGYGYETYKLLCEYH------------LFQPlfptitryfteNGdspmERIIEQVLKNTDTRIHNDMRVNPAFLFAAM 328
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 638829958 360 LWH---DMRQRFEQYSADGEFPVPALhrAMDDVIDMQTEKLAIHKRYSADMREIWGLQLRLEKRSGRSALRLLEHQRFRA 436
Cdd:PRK11623 329 FWYpllEHAQKIAQESGLAYYDAFAL--AMNDVLDEACRSLAIPKRLTTLTRDIWQLQLRMSRRQGKRAWKLMEHPKFRA 406
|
410 420
....*....|....*....|....*...
gi 638829958 437 GYDFLLLRCE---SGELDpAVGQWWTDF 461
Cdd:PRK11623 407 AYDLLALRAEvenNAELQ-RLAQWWGEF 433
|
|
| PcnB |
COG0617 |
tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and ... |
69-458 |
1.09e-108 |
|
tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; tRNA nucleotidyltransferase/poly(A) polymerase is part of the Pathway/BioSystem: tRNA modification
Pssm-ID: 440382 [Multi-domain] Cd Length: 391 Bit Score: 328.70 E-value: 1.09e-108
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 638829958 69 ISKNAIRVTDTLQQAGFRAFIVGGAVRDLLLGIAPKDFDVATDATPTEVQRLFR---RARLIGRRFQIVHVQFGQELIEV 145
Cdd:COG0617 2 LSPNALKVLEALEEAGFEAYLVGGAVRDLLLGRPPKDIDIVTVATPEEVAALFRkalRTVPVGRDFGTVTVVFGGEKIEV 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 638829958 146 STFRalvdapqeppadaapakrlkrdeldrrTHAVDASGRvLRDNVWGE-QHEDAARRDFTINAMYYDPASQTVLDYHDG 224
Cdd:COG0617 82 ATAR---------------------------TERYYGDGR-RPFVEFGDtLEEDLARRDFTINALAYDLNDGELIDPFGG 133
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 638829958 225 MADMRARLLRMIGDPATRYREDPVRMLRVVRFAAKLGFDIEEKTREPIKELADLINNVPAARLFDEMLKLLLSGHALACL 304
Cdd:COG0617 134 LADLEARVIRTVGDPEERFREDPLRILRAVRFAARLGFTIEPETLAAIREMAGLLDRLSAERVWDELLKLLLSPHPSRGL 213
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 638829958 305 KQLRKqglhhgllplldvvleqpqgekfvtlalnntdarVRAGKPVSpgFLFATLLwHDMRQRFEQysADGEFPVPALHR 384
Cdd:COG0617 214 ELLRE----------------------------------TGLLEVLA--LRLAALL-HDLGKPATR--EDGLPTFHGHEE 254
|
330 340 350 360 370 380 390
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 638829958 385 AMDDVIDMQTEKLAIHKRYSADMREIWGLQLRLEKRSGRSA---LRLLEHqRFRAGYDFLLLRCESGELDPAVGQWW 458
Cdd:COG0617 255 AGAELAEALLKRLRLPNRERKLVRELVELHLRFHGLGELRDsavRRLLER-GPEALEDLLLLRENGLEYPELQERLA 330
|
|
| PRK13299 |
PRK13299 |
tRNA CCA-pyrophosphorylase; Provisional |
79-296 |
5.10e-49 |
|
tRNA CCA-pyrophosphorylase; Provisional
Pssm-ID: 237339 [Multi-domain] Cd Length: 394 Bit Score: 173.49 E-value: 5.10e-49
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 638829958 79 TLQQAGFRAFIVGGAVRDLLLGIAPKDFDVATDATPTEVQRLFRRARLIGRRFQIVHVQFGQELIEVSTFRAlvdapqep 158
Cdd:PRK13299 15 KIKEAGFEAYFVGGSVRDYLLGRPIHDVDIATSAYPEEVKAIFPRTVDVGIEHGTVLVLENGEEYEVTTFRT-------- 86
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 638829958 159 padaapakrlkrdELD----RRTHAVDASgRVLRdnvwgeqhEDAARRDFTINAMYYDPASQtVLDYHDGMADMRARLLR 234
Cdd:PRK13299 87 -------------ESEyvdyRRPSEVTFV-RSLE--------EDLKRRDFTINAIAMDENGE-IIDLFDGLEDLKNRLIR 143
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|..
gi 638829958 235 MIGDPATRYREDPVRMLRVVRFAAKLGFDIEEKTREPIKELADLINNVPAARLFDEMLKLLL 296
Cdd:PRK13299 144 AVGNAEERFQEDALRMMRAVRFASQLGFDLETETFEAMKTQAPLLEKISVERIFVEFEKLLL 205
|
|
| PolyA_pol_arg_C |
pfam12626 |
Polymerase A arginine-rich C-terminus; The C-terminus of polymerase A in E coli is ... |
374-477 |
9.73e-46 |
|
Polymerase A arginine-rich C-terminus; The C-terminus of polymerase A in E coli is arginine-rich and is necessary for full functioning of the enzyme.
Pssm-ID: 463647 [Multi-domain] Cd Length: 116 Bit Score: 155.82 E-value: 9.73e-46
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 638829958 374 DGEFPVPALHRAMDDVIDMQTEKLAIHKRYSADMREIWGLQLRLEKRSGRSALRLLEHQRFRAGYDFLLLRCESGELDPA 453
Cdd:pfam12626 1 QGLPPYDALQLAADEVLDEQCQRVAIPRRFTAPMREIWLLQPRLEKRQGKRPFRLLEHPRFRAAYDFLLLRAESGEVLQE 80
|
90 100
....*....|....*....|....
gi 638829958 454 VGQWWTDFIDGDAATREALLTQGG 477
Cdd:pfam12626 81 LAEWWTRFQEADEAEREAMIAELG 104
|
|
| PolyA_pol |
pfam01743 |
Poly A polymerase head domain; This family includes nucleic acid independent RNA polymerases, ... |
87-234 |
3.44e-38 |
|
Poly A polymerase head domain; This family includes nucleic acid independent RNA polymerases, such as Poly(A) polymerase, which adds the poly (A) tail to mRNA EC:2.7.7.19. This family also includes the tRNA nucleotidyltransferase that adds the CCA to the 3' of the tRNA EC:2.7.7.25. This family is part of the nucleotidyltransferase superfamily.
Pssm-ID: 396348 [Multi-domain] Cd Length: 126 Bit Score: 135.87 E-value: 3.44e-38
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 638829958 87 AFIVGGAVRDLLLGIAPKDFDVATDATPTEVQRLFRRARLI----GRRFQIVHVQFGQELIEVSTFRAlvdapqeppada 162
Cdd:pfam01743 1 LYIVGGAVRDLLLGKTPKDVDIATDATPEQVATLFRRRRIVhllsGIEFGTIHVIFGNQILEVATFRI------------ 68
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 638829958 163 apakrlKRDELDRRT-HAVDASGRVLrdnvwgeqhEDAARRDFTINAMYYDPASQTVLDYHDGMADMRARLLR 234
Cdd:pfam01743 69 ------EFDESDFRNpRSEEYTGTLE---------EDAKRRDFTINALAYNPNSGEVIDYFGGIKDLKSGVIR 126
|
|
| NT_ClassII-CCAase |
cd05398 |
Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; CCA-adding enzymes add the ... |
70-230 |
4.66e-35 |
|
Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; CCA-adding enzymes add the sequence [cytidine(C)-cytidine-adenosine (A)], one nucleotide at a time, onto the 3' end of tRNA, in a template-independent reaction. This Class II group is comprised mainly of eubacterial and eukaryotic enzymes and includes Bacillus stearothermophilus CCAase, Escherichia coli poly(A) polymerase I, human mitochondrial CCAase, and Saccharomyces cerevisiae CCAase (CCA1). CCA-adding enzymes have a single catalytic pocket, which recognizes both ATP and CTP substrates. Included in this subgroup are CC- and A-adding enzymes from various ancient species of bacteria such as Aquifex aeolicus; these enzymes collaborate to add CCA to tRNAs. This family belongs to the Pol beta-like NT superfamily. In the majority of enzymes in this superfamily, two carboxylates, Dx[D/E], together with a third more distal carboxylate, coordinate two divalent metal cations involved in a two-metal ion mechanism of nucleotide addition. These carboxylate residues are fairly well conserved in this family. Escherichia coli CCAase is related to this group but has not been included in this alignment as this enzyme lacks the N-terminal helix conserved in the remainder of the NT superfamily.
Pssm-ID: 143388 [Multi-domain] Cd Length: 139 Bit Score: 128.09 E-value: 4.66e-35
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 638829958 70 SKNAIRVTDTLQQA-GFRAFIVGGAVRDLLLGIAPKDFDVATDA-TPTEVQRLFRR--ARLIGR--RFQIVHVQFGQELI 143
Cdd:cd05398 1 TPELLKLLRELKKAlGYEAYLVGGAVRDLLLGRPPKDIDIATDAdGPEFAEALFKKigGRVVGLgeEFGTATVVINGLTI 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 638829958 144 EVSTFRAlvdapqeppadaapakrlKRDELDRRTHAVDASGRvlrdnvwgeqHEDAARRDFTINAMYYDPASQTVLDYHD 223
Cdd:cd05398 81 DVATLRT------------------ETYTDPGRRPPVVGFTI----------EEDLLRRDFTINAMAYDLDDGELIDPFG 132
|
....*..
gi 638829958 224 GMADMRA 230
Cdd:cd05398 133 GLKDLEN 139
|
|
| tRNA_CCA_actino |
TIGR02692 |
tRNA adenylyltransferase; The enzyme tRNA adenylyltransferase, also called ... |
81-299 |
2.03e-31 |
|
tRNA adenylyltransferase; The enzyme tRNA adenylyltransferase, also called tRNA-nucleotidyltransferase and CCA-adding enzyme, can add or repair the required CCA triplet at the 3'-end of tRNA molecules. Genes encoding tRNA include the CCA tail in some but not all bacteria, and this enzyme may be required for viability. Members of this family represent a distinct clade within the larger family pfam01743 (tRNA nucleotidyltransferase/poly(A) polymerase family protein). The example from Streptomyces coelicolor was shown to act as a CCA-adding enzyme and not as a poly(A) polymerase. [Protein synthesis, tRNA and rRNA base modification]
Pssm-ID: 131739 [Multi-domain] Cd Length: 466 Bit Score: 126.38 E-value: 2.03e-31
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 638829958 81 QQAGFRAFIVGGAVRDLLLGIAPKDFDVATDATPTEVQRLFRR----ARLIGRRFQIVHVQFGQELIEVSTFRAlvdapq 156
Cdd:TIGR02692 24 AAAGHELYLVGGSVRDALLGRLGHDLDFTTDARPEETLAILRPwadaVWDTGIAFGTVGAEKDGQQIEITTFRS------ 97
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 638829958 157 eppadaapakrlkrDELDRRTHAVDAS-GRVLRDnvwgeqheDAARRDFTINAMYYDPASQTVLDYHD---GMADMRARL 232
Cdd:TIGR02692 98 --------------DSYDGTSRKPEVTfGDTLEG--------DLIRRDFTVNAMAVRIPADGSLEFHDpvgGLDDLLAKV 155
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 638829958 233 LRMIGDPATRYREDPVRMLRVVRFAAKLGFDIEEKTREPIKELADLINNVPAARLFDEMLKLLLSGH 299
Cdd:TIGR02692 156 LDTPATPEQSFGDDPLRMLRAARFVSQLGFEVAPRVRAAMTEMADQIERISAERVRVELDKLLLGDH 222
|
|
| PolyA_pol_RNAbd |
pfam12627 |
Probable RNA and SrmB- binding site of polymerase A; This region encompasses much of the RNA ... |
261-309 |
1.29e-17 |
|
Probable RNA and SrmB- binding site of polymerase A; This region encompasses much of the RNA and SrmB binding motifs on polymerase A.
Pssm-ID: 463648 [Multi-domain] Cd Length: 64 Bit Score: 76.75 E-value: 1.29e-17
10 20 30 40
....*....|....*....|....*....|....*....|....*....
gi 638829958 261 GFDIEEKTREPIKELADLINNVPAARLFDEMLKLLLSGHALACLKQLRK 309
Cdd:pfam12627 1 GFTIEPETREAIRKLAPLLKKISPERIFEELLKLLLSGHPERGLELLRE 49
|
|
| cca |
PRK10885 |
multifunctional CCA addition/repair protein; |
90-277 |
1.59e-17 |
|
multifunctional CCA addition/repair protein;
Pssm-ID: 182810 [Multi-domain] Cd Length: 409 Bit Score: 84.52 E-value: 1.59e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 638829958 90 VGGAVRDLLLGIAPKDFD-VATDATPTEVQRLFRRArlIGRRFQI-VHVQFGQELIevstfralvdapqeppadaapakr 167
Cdd:PRK10885 6 VGGAVRDALLGLPVKDRDwVVVGATPEEMLAQGYQQ--VGKDFPVfLHPKTHEEYA------------------------ 59
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 638829958 168 LKRDEldRRTHA------VDASGRVLRDnvwgeqhEDAARRDFTINAMYYDpASQTVLDYHDGMADMRARLLRMIGdPAt 241
Cdd:PRK10885 60 LARTE--RKSGRgytgftCYAAPDVTLE-------EDLIRRDLTINAMAQD-DDGELIDPYGGQRDLEARLLRHVS-PA- 127
|
170 180 190
....*....|....*....|....*....|....*....
gi 638829958 242 rYREDPVRMLRVVRFAAK---LGFDIEEKTREPIKELAD 277
Cdd:PRK10885 128 -FAEDPLRVLRVARFAARfahLGFRIAPETLALMREMVA 165
|
|
| PRK13296 |
PRK13296 |
CCA tRNA nucleotidyltransferase; |
88-295 |
3.92e-16 |
|
CCA tRNA nucleotidyltransferase;
Pssm-ID: 106256 [Multi-domain] Cd Length: 360 Bit Score: 80.03 E-value: 3.92e-16
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 638829958 88 FIVGGAVRDLLLGIAPKDFD-VATDATPTE-VQRLFRRarlIGRRFQI-VHVQFGQELievstfralvdapqeppadaAP 164
Cdd:PRK13296 4 YLVGGAVRDMLLGITPKDKDwVVVGATEDEmLANGFIK---IAANFPVfIHPQTKQEY--------------------AL 60
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 638829958 165 AKRLKRDELDRRTHAVDASGRVLRDnvwgeqhEDAARRDFTINAMYYDpASQTVLDYHDGMADMRARLLRmigDPATRYR 244
Cdd:PRK13296 61 ARSEKKTASGYHGFEVNFSKYITLE-------DDLKRRDLTINSIAID-QNNKVIDPFNGQADLQNRILR---HTSIAFI 129
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....*.
gi 638829958 245 EDPVRMLRVVRFAAKLG---FDIEEKTREPIKEL--ADLINNVPAARLFDEMLKLL 295
Cdd:PRK13296 130 EDPLRVVRLARFKAQLSnfnFSIAQEMLALIKELvkTGELNHLTRERLHIEFVKAL 185
|
|
| PRK13297 |
PRK13297 |
tRNA CCA-pyrophosphorylase; Provisional |
83-268 |
3.58e-14 |
|
tRNA CCA-pyrophosphorylase; Provisional
Pssm-ID: 139469 [Multi-domain] Cd Length: 364 Bit Score: 73.88 E-value: 3.58e-14
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 638829958 83 AGFRAFIVGGAVRDLLLGIAPKDFD-VATDATPTEVQRlfrrarligrrfqivhvqfgqelievstfRALVDAPQEPPAD 161
Cdd:PRK13297 10 AGLQVYIVGGAVRDALLGLPAGDRDwVVVGATPEDMAR-----------------------------RGFIPVGGDFPVF 60
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 638829958 162 AAPakRLKRDELDRRTHAvdASGRVLR-------DNVWGEQheDAARRDFTINAMYYDPASQtVLDYHDGMADMRARLLR 234
Cdd:PRK13297 61 LHP--RTKEEYALARTER--KSGRGYKgftfytgADVTLEQ--DLQRRDLTVNAIARTPQGE-LVDPLDGVADVRARVLR 133
|
170 180 190
....*....|....*....|....*....|....*
gi 638829958 235 MIGDPatrYREDPVRMLRVVRFAAKLG-FDIEEKT 268
Cdd:PRK13297 134 HVGEA---FAEDPVRILRLGRFAARFGdFSIAPET 165
|
|
| PRK13298 |
PRK13298 |
tRNA CCA-pyrophosphorylase; Provisional |
88-268 |
1.35e-13 |
|
tRNA CCA-pyrophosphorylase; Provisional
Pssm-ID: 237338 [Multi-domain] Cd Length: 417 Bit Score: 72.46 E-value: 1.35e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 638829958 88 FIVGGAVRDLLLGIAPKDFD-VATDATPTEvqrlfrrarLIGRRFQIVHVQFgqelievstfralvdapqepPADAAPak 166
Cdd:PRK13298 4 YLVGGAVRDSLLNLPVKDKDwVVVGGTPKI---------LLSINFQQVGKDF--------------------PVFLHP-- 52
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 638829958 167 rlkrdeldrRTHAVDASGRVLRDNvwGEQH--------------EDAARRDFTINAMYYDpASQTVLDYHDGMADMRARL 232
Cdd:PRK13298 53 ---------ETHEEYALARTERKS--GVGYtgfitdtssdvtleEDLIRRDLTINAIAQD-ENGNYIDPFQGKKDIQLRL 120
|
170 180 190
....*....|....*....|....*....|....*....
gi 638829958 233 LRMIgdpATRYREDPVRMLRVVRFAAK---LGFDIEEKT 268
Cdd:PRK13298 121 LRHV---SESFIEDPLRVLRVARFAALlvhLGFKIAKET 156
|
|
| |
