|
Name |
Accession |
Description |
Interval |
E-value |
| pcnB |
TIGR01942 |
poly(A) polymerase; This model describes the pcnB family of poly(A) polymerases (also known as ... |
30-431 |
0e+00 |
|
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: 549.79 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504410477 30 QHSLHRNEISRHAVSVVERLQQAGYEAYVVGGCVRDLLLQLNPKDYDVATSATPEQVRAEFRNARVIGRRFKLVHVHFGR 109
Cdd:TIGR01942 6 EHNIPRQSFSAHALNVVERLKGAGYQAYIVGGAVRDLLLGIEPKDFDVVTSATPEEVRKLFRNSRIVGRRFRLVHVSFGR 85
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504410477 110 EIIEVATFRANHPEEddedasqlalRNESGRILRDNVYGTLEDDAQRRDFTINALYYDPTSERILDHTRGVHDIRNRLIR 189
Cdd:TIGR01942 86 QIIEVATFRSGHKSS----------VNAEGRILKDNVYGTLEEDAWRRDFTVNALYYDPSREVIIDYVGGMEDLKNRRLR 155
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504410477 190 LIGDPEQRYQEDPVRMLRAVRFAAKLDFEIERHSAEPIADLAELLDGIPSARLFDETLKLFLGGKAERTFELLLEYDLFA 269
Cdd:TIGR01942 156 LIGDPRSRYQEDPVRMLRALRFSVKLEFTIDESTARPIRESAPLLKGIPPARLFEEILKLLFSGRSAALFRMLCGYQLLE 235
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504410477 270 PLFPASAAALERNPEYAGTLIRNALAN-TDLRIQQGKPVTPAFLFAALLWPALPARVLELQDRGMPPIPAMQEAAHDIIW 348
Cdd:TIGR01942 236 PLFPSVAYALRESPKFESAFTVQALVNdTDFRVKRDKPVTPAFLYAALLWPGLVFRVADAPDQGVMPYPAVFDAIRDFVE 315
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504410477 349 EQCQRTAIPKRFTIPMREIWDMQERLPRRQGRRADQLLENPRFRAGYDFLLLRESAGEKTGGLGDWWTDYQEANDSERRN 428
Cdd:TIGR01942 316 EQCAPISIPKRFSIPTREIWQMQLRLERRSGMRARKLLGHARFRAAYDLLLLREVCGRENAVLGEWWTPYQLASEEERTE 395
|
...
gi 504410477 429 MIR 431
Cdd:TIGR01942 396 MTR 398
|
|
| pcnB |
PRK11623 |
poly(A) polymerase I; Provisional |
19-433 |
7.12e-153 |
|
poly(A) polymerase I; Provisional
Pssm-ID: 236939 [Multi-domain] Cd Length: 472 Bit Score: 442.65 E-value: 7.12e-153
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504410477 19 PRRTPEILSSRQHSLHRNEISRHAVSVVERLQQAGYEAYVVGGCVRDLLLQLNPKDYDVATSATPEQVRAEFRNARVIGR 98
Cdd:PRK11623 32 ARPQMTVIPREQHAISRKDISENALKVLYRLNKAGYEAYLVGGGVRDLLLGKKPKDFDVTTNATPEQVRKLFRNCRLVGR 111
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504410477 99 RFKLVHVHFGREIIEVATFRANHP-EEDDEDASQlalRNESGRILRDNVYGTLEDDAQRRDFTINALYYDPTSERILDHT 177
Cdd:PRK11623 112 RFRLAHVMFGPEIIEVATFRGHHEgNESDRNTSQ---RGQNGMLLRDNIFGSIEEDAQRRDFTINSLYYSVADFTVRDYV 188
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504410477 178 RGVHDIRNRLIRLIGDPEQRYQEDPVRMLRAVRFAAKLDFEIERHSAEPIADLAELLDGIPSARLFDETLKLFLGGKAER 257
Cdd:PRK11623 189 GGMKDLKEGVIRLIGNPETRYREDPVRMLRAVRFAAKLDMRISPETAEPIPRLATLLNDIPPARLFEESLKLLQAGYGYE 268
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504410477 258 TFELLLEYDLFAPLFPASAAAL-ERNPEYAGTLIRNALANTDLRIQQGKPVTPAFLFAALLW-PALPARVLELQDRGMPP 335
Cdd:PRK11623 269 TYKLLCEYHLFQPLFPTITRYFtENGDSPMERIIEQVLKNTDTRIHNDMRVNPAFLFAAMFWyPLLEHAQKIAQESGLAY 348
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504410477 336 IPAMQEAAHDIIWEQCQRTAIPKRFTIPMREIWDMQERLPRRQGRRADQLLENPRFRAGYDFLLLRESAGEKT--GGLGD 413
Cdd:PRK11623 349 YDAFALAMNDVLDEACRSLAIPKRLTTLTRDIWQLQLRMSRRQGKRAWKLMEHPKFRAAYDLLALRAEVENNAelQRLAQ 428
|
410 420
....*....|....*....|
gi 504410477 414 WWTDYQEANDSERRNMIRGL 433
Cdd:PRK11623 429 WWGEFQVSAPPQQKGMLNEL 448
|
|
| PcnB |
COG0617 |
tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and ... |
37-432 |
1.09e-115 |
|
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: 344.88 E-value: 1.09e-115
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504410477 37 EISRHAVSVVERLQQAGYEAYVVGGCVRDLLLQLNPKDYDVATSATPEQVRAEFR---NARVIGRRFKLVHVHFGREIIE 113
Cdd:COG0617 1 RLSPNALKVLEALEEAGFEAYLVGGAVRDLLLGRPPKDIDIVTVATPEEVAALFRkalRTVPVGRDFGTVTVVFGGEKIE 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504410477 114 VATFRANHPEEDdedasqlalrnesGRiLRDNVYG-TLEDDAQRRDFTINALYYDPTSERILDHTRGVHDIRNRLIRLIG 192
Cdd:COG0617 81 VATARTERYYGD-------------GR-RPFVEFGdTLEEDLARRDFTINALAYDLNDGELIDPFGGLADLEARVIRTVG 146
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504410477 193 DPEQRYQEDPVRMLRAVRFAAKLDFEIERHSAEPIADLAELLDGIPSARLFDETLKLFLGGKAERTFELLLEYDLFAPLf 272
Cdd:COG0617 147 DPEERFREDPLRILRAVRFAARLGFTIEPETLAAIREMAGLLDRLSAERVWDELLKLLLSPHPSRGLELLRETGLLEVL- 225
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504410477 273 pasaaalernpeyagtlirnalantdlriqqgkpvtpAFLFAALLWPALPARVLElqdRGMPPIPAMQEAAHDIIWEQCQ 352
Cdd:COG0617 226 -------------------------------------ALRLAALLHDLGKPATRE---DGLPTFHGHEEAGAELAEALLK 265
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504410477 353 RTAIPKRFTIPMREIWDMQERLPRRQGRRADQLLE--NPRFRAGYDFLLLRESAGEKTGGLGDWWtDYQEANDSERRNMI 430
Cdd:COG0617 266 RLRLPNRERKLVRELVELHLRFHGLGELRDSAVRRllERGPEALEDLLLLRENGLEYPELQERLA-ELLEAAWRRFQPPV 344
|
..
gi 504410477 431 RG 432
Cdd:COG0617 345 DG 346
|
|
| PolyA_pol_arg_C |
pfam12626 |
Polymerase A arginine-rich C-terminus; The C-terminus of polymerase A in E coli is ... |
331-435 |
5.50e-50 |
|
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: 165.84 E-value: 5.50e-50
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504410477 331 RGMPPIPAMQEAAHDIIWEQCQRTAIPKRFTIPMREIWDMQERLPRRQGRRADQLLENPRFRAGYDFLLLRESAGEKTGG 410
Cdd:pfam12626 1 QGLPPYDALQLAADEVLDEQCQRVAIPRRFTAPMREIWLLQPRLEKRQGKRPFRLLEHPRFRAAYDFLLLRAESGEVLQE 80
|
90 100
....*....|....*....|....*
gi 504410477 411 LGDWWTDYQEANDSERRNMIRGLSG 435
Cdd:pfam12626 81 LAEWWTRFQEADEAEREAMIAELGA 105
|
|
| NT_ClassII-CCAase |
cd05398 |
Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; CCA-adding enzymes add the ... |
42-185 |
5.15e-37 |
|
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: 132.33 E-value: 5.15e-37
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504410477 42 AVSVVERLQQA-GYEAYVVGGCVRDLLLQLNPKDYDVATSA-TPEQVR--AEFRNARVIGR--RFKLVHVHFGREIIEVA 115
Cdd:cd05398 4 LLKLLRELKKAlGYEAYLVGGAVRDLLLGRPPKDIDIATDAdGPEFAEalFKKIGGRVVGLgeEFGTATVVINGLTIDVA 83
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504410477 116 TFRANHPEEDdedasqlalrnesGRILRDNVYgTLEDDAQRRDFTINALYYDPTSERILDHTRGVHDIRN 185
Cdd:cd05398 84 TLRTETYTDP-------------GRRPPVVGF-TIEEDLLRRDFTINAMAYDLDDGELIDPFGGLKDLEN 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 ... |
30-431 |
0e+00 |
|
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: 549.79 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504410477 30 QHSLHRNEISRHAVSVVERLQQAGYEAYVVGGCVRDLLLQLNPKDYDVATSATPEQVRAEFRNARVIGRRFKLVHVHFGR 109
Cdd:TIGR01942 6 EHNIPRQSFSAHALNVVERLKGAGYQAYIVGGAVRDLLLGIEPKDFDVVTSATPEEVRKLFRNSRIVGRRFRLVHVSFGR 85
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504410477 110 EIIEVATFRANHPEEddedasqlalRNESGRILRDNVYGTLEDDAQRRDFTINALYYDPTSERILDHTRGVHDIRNRLIR 189
Cdd:TIGR01942 86 QIIEVATFRSGHKSS----------VNAEGRILKDNVYGTLEEDAWRRDFTVNALYYDPSREVIIDYVGGMEDLKNRRLR 155
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504410477 190 LIGDPEQRYQEDPVRMLRAVRFAAKLDFEIERHSAEPIADLAELLDGIPSARLFDETLKLFLGGKAERTFELLLEYDLFA 269
Cdd:TIGR01942 156 LIGDPRSRYQEDPVRMLRALRFSVKLEFTIDESTARPIRESAPLLKGIPPARLFEEILKLLFSGRSAALFRMLCGYQLLE 235
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504410477 270 PLFPASAAALERNPEYAGTLIRNALAN-TDLRIQQGKPVTPAFLFAALLWPALPARVLELQDRGMPPIPAMQEAAHDIIW 348
Cdd:TIGR01942 236 PLFPSVAYALRESPKFESAFTVQALVNdTDFRVKRDKPVTPAFLYAALLWPGLVFRVADAPDQGVMPYPAVFDAIRDFVE 315
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504410477 349 EQCQRTAIPKRFTIPMREIWDMQERLPRRQGRRADQLLENPRFRAGYDFLLLRESAGEKTGGLGDWWTDYQEANDSERRN 428
Cdd:TIGR01942 316 EQCAPISIPKRFSIPTREIWQMQLRLERRSGMRARKLLGHARFRAAYDLLLLREVCGRENAVLGEWWTPYQLASEEERTE 395
|
...
gi 504410477 429 MIR 431
Cdd:TIGR01942 396 MTR 398
|
|
| pcnB |
PRK11623 |
poly(A) polymerase I; Provisional |
19-433 |
7.12e-153 |
|
poly(A) polymerase I; Provisional
Pssm-ID: 236939 [Multi-domain] Cd Length: 472 Bit Score: 442.65 E-value: 7.12e-153
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504410477 19 PRRTPEILSSRQHSLHRNEISRHAVSVVERLQQAGYEAYVVGGCVRDLLLQLNPKDYDVATSATPEQVRAEFRNARVIGR 98
Cdd:PRK11623 32 ARPQMTVIPREQHAISRKDISENALKVLYRLNKAGYEAYLVGGGVRDLLLGKKPKDFDVTTNATPEQVRKLFRNCRLVGR 111
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504410477 99 RFKLVHVHFGREIIEVATFRANHP-EEDDEDASQlalRNESGRILRDNVYGTLEDDAQRRDFTINALYYDPTSERILDHT 177
Cdd:PRK11623 112 RFRLAHVMFGPEIIEVATFRGHHEgNESDRNTSQ---RGQNGMLLRDNIFGSIEEDAQRRDFTINSLYYSVADFTVRDYV 188
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504410477 178 RGVHDIRNRLIRLIGDPEQRYQEDPVRMLRAVRFAAKLDFEIERHSAEPIADLAELLDGIPSARLFDETLKLFLGGKAER 257
Cdd:PRK11623 189 GGMKDLKEGVIRLIGNPETRYREDPVRMLRAVRFAAKLDMRISPETAEPIPRLATLLNDIPPARLFEESLKLLQAGYGYE 268
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504410477 258 TFELLLEYDLFAPLFPASAAAL-ERNPEYAGTLIRNALANTDLRIQQGKPVTPAFLFAALLW-PALPARVLELQDRGMPP 335
Cdd:PRK11623 269 TYKLLCEYHLFQPLFPTITRYFtENGDSPMERIIEQVLKNTDTRIHNDMRVNPAFLFAAMFWyPLLEHAQKIAQESGLAY 348
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504410477 336 IPAMQEAAHDIIWEQCQRTAIPKRFTIPMREIWDMQERLPRRQGRRADQLLENPRFRAGYDFLLLRESAGEKT--GGLGD 413
Cdd:PRK11623 349 YDAFALAMNDVLDEACRSLAIPKRLTTLTRDIWQLQLRMSRRQGKRAWKLMEHPKFRAAYDLLALRAEVENNAelQRLAQ 428
|
410 420
....*....|....*....|
gi 504410477 414 WWTDYQEANDSERRNMIRGL 433
Cdd:PRK11623 429 WWGEFQVSAPPQQKGMLNEL 448
|
|
| PcnB |
COG0617 |
tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and ... |
37-432 |
1.09e-115 |
|
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: 344.88 E-value: 1.09e-115
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504410477 37 EISRHAVSVVERLQQAGYEAYVVGGCVRDLLLQLNPKDYDVATSATPEQVRAEFR---NARVIGRRFKLVHVHFGREIIE 113
Cdd:COG0617 1 RLSPNALKVLEALEEAGFEAYLVGGAVRDLLLGRPPKDIDIVTVATPEEVAALFRkalRTVPVGRDFGTVTVVFGGEKIE 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504410477 114 VATFRANHPEEDdedasqlalrnesGRiLRDNVYG-TLEDDAQRRDFTINALYYDPTSERILDHTRGVHDIRNRLIRLIG 192
Cdd:COG0617 81 VATARTERYYGD-------------GR-RPFVEFGdTLEEDLARRDFTINALAYDLNDGELIDPFGGLADLEARVIRTVG 146
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504410477 193 DPEQRYQEDPVRMLRAVRFAAKLDFEIERHSAEPIADLAELLDGIPSARLFDETLKLFLGGKAERTFELLLEYDLFAPLf 272
Cdd:COG0617 147 DPEERFREDPLRILRAVRFAARLGFTIEPETLAAIREMAGLLDRLSAERVWDELLKLLLSPHPSRGLELLRETGLLEVL- 225
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504410477 273 pasaaalernpeyagtlirnalantdlriqqgkpvtpAFLFAALLWPALPARVLElqdRGMPPIPAMQEAAHDIIWEQCQ 352
Cdd:COG0617 226 -------------------------------------ALRLAALLHDLGKPATRE---DGLPTFHGHEEAGAELAEALLK 265
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504410477 353 RTAIPKRFTIPMREIWDMQERLPRRQGRRADQLLE--NPRFRAGYDFLLLRESAGEKTGGLGDWWtDYQEANDSERRNMI 430
Cdd:COG0617 266 RLRLPNRERKLVRELVELHLRFHGLGELRDSAVRRllERGPEALEDLLLLRENGLEYPELQERLA-ELLEAAWRRFQPPV 344
|
..
gi 504410477 431 RG 432
Cdd:COG0617 345 DG 346
|
|
| PRK13299 |
PRK13299 |
tRNA CCA-pyrophosphorylase; Provisional |
36-285 |
3.82e-63 |
|
tRNA CCA-pyrophosphorylase; Provisional
Pssm-ID: 237339 [Multi-domain] Cd Length: 394 Bit Score: 209.70 E-value: 3.82e-63
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504410477 36 NEISRHAVSVVERLQQAGYEAYVVGGCVRDLLLQLNPKDYDVATSATPEQVRAEFRNARVIGRRFKLVHVHFGREIIEVA 115
Cdd:PRK13299 3 PSEFQKALPILEKIKEAGFEAYFVGGSVRDYLLGRPIHDVDIATSAYPEEVKAIFPRTVDVGIEHGTVLVLENGEEYEVT 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504410477 116 TFRAnhpEEDDEDASqlalRNESGRILRDnvygtLEDDAQRRDFTINALYYDPTSErILDHTRGVHDIRNRLIRLIGDPE 195
Cdd:PRK13299 83 TFRT---ESEYVDYR----RPSEVTFVRS-----LEEDLKRRDFTINAIAMDENGE-IIDLFDGLEDLKNRLIRAVGNAE 149
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504410477 196 QRYQEDPVRMLRAVRFAAKLDFEIERHSAEPIADLAELLDGIPSARLFDETLKLFLGGKAERTFELLLEYDLFA--PLFP 273
Cdd:PRK13299 150 ERFQEDALRMMRAVRFASQLGFDLETETFEAMKTQAPLLEKISVERIFVEFEKLLLGPFWRKGLKLLIETGLYNylPGLK 229
|
250
....*....|..
gi 504410477 274 ASAAALERNPEY 285
Cdd:PRK13299 230 GKEENLLKLTQL 241
|
|
| PolyA_pol_arg_C |
pfam12626 |
Polymerase A arginine-rich C-terminus; The C-terminus of polymerase A in E coli is ... |
331-435 |
5.50e-50 |
|
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: 165.84 E-value: 5.50e-50
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504410477 331 RGMPPIPAMQEAAHDIIWEQCQRTAIPKRFTIPMREIWDMQERLPRRQGRRADQLLENPRFRAGYDFLLLRESAGEKTGG 410
Cdd:pfam12626 1 QGLPPYDALQLAADEVLDEQCQRVAIPRRFTAPMREIWLLQPRLEKRQGKRPFRLLEHPRFRAAYDFLLLRAESGEVLQE 80
|
90 100
....*....|....*....|....*
gi 504410477 411 LGDWWTDYQEANDSERRNMIRGLSG 435
Cdd:pfam12626 81 LAEWWTRFQEADEAEREAMIAELGA 105
|
|
| PolyA_pol |
pfam01743 |
Poly A polymerase head domain; This family includes nucleic acid independent RNA polymerases, ... |
56-189 |
1.34e-44 |
|
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: 152.05 E-value: 1.34e-44
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504410477 56 AYVVGGCVRDLLLQLNPKDYDVATSATPEQVRAEFRNARVI----GRRFKLVHVHFGREIIEVATFRANHPEEDdedasq 131
Cdd:pfam01743 1 LYIVGGAVRDLLLGKTPKDVDIATDATPEQVATLFRRRRIVhllsGIEFGTIHVIFGNQILEVATFRIEFDESD------ 74
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....*....
gi 504410477 132 lalrnesGRILRDNVY-GTLEDDAQRRDFTINALYYDPTSERILDHTRGVHDIRNRLIR 189
Cdd:pfam01743 75 -------FRNPRSEEYtGTLEEDAKRRDFTINALAYNPNSGEVIDYFGGIKDLKSGVIR 126
|
|
| NT_ClassII-CCAase |
cd05398 |
Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; CCA-adding enzymes add the ... |
42-185 |
5.15e-37 |
|
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: 132.33 E-value: 5.15e-37
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504410477 42 AVSVVERLQQA-GYEAYVVGGCVRDLLLQLNPKDYDVATSA-TPEQVR--AEFRNARVIGR--RFKLVHVHFGREIIEVA 115
Cdd:cd05398 4 LLKLLRELKKAlGYEAYLVGGAVRDLLLGRPPKDIDIATDAdGPEFAEalFKKIGGRVVGLgeEFGTATVVINGLTIDVA 83
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504410477 116 TFRANHPEEDdedasqlalrnesGRILRDNVYgTLEDDAQRRDFTINALYYDPTSERILDHTRGVHDIRN 185
Cdd:cd05398 84 TLRTETYTDP-------------GRRPPVVGF-TIEEDLLRRDFTINAMAYDLDDGELIDPFGGLKDLEN 139
|
|
| PolyA_pol_RNAbd |
pfam12627 |
Probable RNA and SrmB- binding site of polymerase A; This region encompasses much of the RNA ... |
216-279 |
2.25e-18 |
|
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: 78.68 E-value: 2.25e-18
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....
gi 504410477 216 DFEIERHSAEPIADLAELLDGIPSARLFDETLKLFLGGKAERTFELLLEYDLFAPLFPASAAAL 279
Cdd:pfam12627 1 GFTIEPETREAIRKLAPLLKKISPERIFEELLKLLLSGHPERGLELLRETGLLEYLFPELAAAL 64
|
|
| cca |
PRK10885 |
multifunctional CCA addition/repair protein; |
57-273 |
1.07e-17 |
|
multifunctional CCA addition/repair protein;
Pssm-ID: 182810 [Multi-domain] Cd Length: 409 Bit Score: 84.91 E-value: 1.07e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504410477 57 YVVGGCVRDLLLQLNPKDYD-VATSATPEQVRAefRNARVIGRRFKLvhvhfgreiievatFRanHPEEDDEDAsqLAlR 135
Cdd:PRK10885 4 YLVGGAVRDALLGLPVKDRDwVVVGATPEEMLA--QGYQQVGKDFPV--------------FL--HPKTHEEYA--LA-R 62
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504410477 136 NE--SGRilrdnVYG----------TLEDDAQRRDFTINALYYDPTSErILDHTRGVHDIRNRLIRLIGDPeqrYQEDPV 203
Cdd:PRK10885 63 TErkSGR-----GYTgftcyaapdvTLEEDLIRRDLTINAMAQDDDGE-LIDPYGGQRDLEARLLRHVSPA---FAEDPL 133
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 504410477 204 RMLRAVRFAAK---LDFEIERHSAEPIADLAEL--LDGIPSARLFDETLKLFLGGKAERTFELLLEYDLFAPLFP 273
Cdd:PRK10885 134 RVLRVARFAARfahLGFRIAPETLALMREMVASgeLDALTPERVWKETERALMERNPQVFFQVLRDCGALAVLLP 208
|
|
| PRK13298 |
PRK13298 |
tRNA CCA-pyrophosphorylase; Provisional |
55-273 |
1.88e-17 |
|
tRNA CCA-pyrophosphorylase; Provisional
Pssm-ID: 237338 [Multi-domain] Cd Length: 417 Bit Score: 84.01 E-value: 1.88e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504410477 55 EAYVVGGCVRDLLLQLNPKDYD-VATSATPEQVRAefRNARVIGRRFKLVHvhfgreiievatfranHPEEDDEDAsqLA 133
Cdd:PRK13298 2 KIYLVGGAVRDSLLNLPVKDKDwVVVGGTPKILLS--INFQQVGKDFPVFL----------------HPETHEEYA--LA 61
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504410477 134 lRNE-------SGRILRDNVYGTLEDDAQRRDFTINALYYDpTSERILDHTRGVHDIRNRLIRLIgdpEQRYQEDPVRML 206
Cdd:PRK13298 62 -RTErksgvgyTGFITDTSSDVTLEEDLIRRDLTINAIAQD-ENGNYIDPFQGKKDIQLRLLRHV---SESFIEDPLRVL 136
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 504410477 207 RAVRFAAK---LDFEIERHSAE---PIADLAELLDGIPSaRLFDETLKLFLGGKAERTFELLLEYDLFAPLFP 273
Cdd:PRK13298 137 RVARFAALlvhLGFKIAKETMIlmcIMVKKHELLYLTPE-RIWNETEKALKTDNPHVYFQVLYECNALKFLFP 208
|
|
| PRK13296 |
PRK13296 |
CCA tRNA nucleotidyltransferase; |
55-285 |
3.24e-17 |
|
CCA tRNA nucleotidyltransferase;
Pssm-ID: 106256 [Multi-domain] Cd Length: 360 Bit Score: 82.73 E-value: 3.24e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504410477 55 EAYVVGGCVRDLLLQLNPKDYD-VATSATPEQVraefrnarvIGRRFKLVHVHFGREIievatfranHPEEDDEDAsqLA 133
Cdd:PRK13296 2 KFYLVGGAVRDMLLGITPKDKDwVVVGATEDEM---------LANGFIKIAANFPVFI---------HPQTKQEYA--LA 61
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504410477 134 lRNES-------GRILRDNVYGTLEDDAQRRDFTINALYYDpTSERILDHTRGVHDIRNRLIRligDPEQRYQEDPVRML 206
Cdd:PRK13296 62 -RSEKktasgyhGFEVNFSKYITLEDDLKRRDLTINSIAID-QNNKVIDPFNGQADLQNRILR---HTSIAFIEDPLRVV 136
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504410477 207 RAVRFAAKL---DFEIERHSAEPIADLAEL--LDGIPSARLFDETLKLFLGGKAerTFELLLEYDLFAPLFPASAAALE- 280
Cdd:PRK13296 137 RLARFKAQLsnfNFSIAQEMLALIKELVKTgeLNHLTRERLHIEFVKALNNPKI--FFTTLKELEALKIIFPNISCILPl 214
|
250
....*....|..
gi 504410477 281 -------RNPEY 285
Cdd:PRK13296 215 ipnksffENPIY 226
|
|
| PRK13297 |
PRK13297 |
tRNA CCA-pyrophosphorylase; Provisional |
52-219 |
1.29e-15 |
|
tRNA CCA-pyrophosphorylase; Provisional
Pssm-ID: 139469 [Multi-domain] Cd Length: 364 Bit Score: 78.11 E-value: 1.29e-15
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504410477 52 AGYEAYVVGGCVRDLLLQLNPKDYD-VATSATPEQVraefrnARvigRRFKLVHVHFGREIievatfranHPEEDDEDAS 130
Cdd:PRK13297 10 AGLQVYIVGGAVRDALLGLPAGDRDwVVVGATPEDM------AR---RGFIPVGGDFPVFL---------HPRTKEEYAL 71
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504410477 131 QLALRnESGRILRDNVYGT-----LEDDAQRRDFTINALYYDPTSErILDHTRGVHDIRNRLIRLIGDPeqrYQEDPVRM 205
Cdd:PRK13297 72 ARTER-KSGRGYKGFTFYTgadvtLEQDLQRRDLTVNAIARTPQGE-LVDPLDGVADVRARVLRHVGEA---FAEDPVRI 146
|
170
....*....|....*
gi 504410477 206 LRAVRFAAKL-DFEI 219
Cdd:PRK13297 147 LRLGRFAARFgDFSI 161
|
|
| PHA01806 |
PHA01806 |
hypothetical protein |
56-89 |
3.96e-03 |
|
hypothetical protein
Pssm-ID: 222838 Cd Length: 200 Bit Score: 38.32 E-value: 3.96e-03
10 20 30
....*....|....*....|....*....|....
gi 504410477 56 AYVVGGCVRDLLLQLNPKDYDVATsATPEQVRAE 89
Cdd:PHA01806 38 VALAGGAARDLMHGAEPKDIDIAL-YGMDDRQAE 70
|
|
| |
