|
Name |
Accession |
Description |
Interval |
E-value |
| PRK14902 |
PRK14902 |
16S rRNA (cytosine(967)-C(5))-methyltransferase RsmB; |
1-433 |
0e+00 |
|
16S rRNA (cytosine(967)-C(5))-methyltransferase RsmB;
Pssm-ID: 237857 [Multi-domain] Cd Length: 444 Bit Score: 693.07 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 1 MIENVRSLAFDTIQDILNEGAYSNLRINEVLSENELNAMDKALFTEIVYGTVKRKYTLDFYLKPFVKT--KIKAWVRQLL 78
Cdd:PRK14902 1 MKMNARELALEVLIKVENNGAYSNIALNKVLKKSELSDKDKALLTELVYGTIQRKLTLDYYLAPFIKKrkKLDPWVRNLL 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 79 WMSIYQYVYLDKVPNHAIINEAVEIAKERGGYHNGNVVNGILRTMMRSDLPDFNEIADPKKRMAIEYSMPKWIIDHWATH 158
Cdd:PRK14902 81 RMSLYQLLYLDKVPDHAAVNEAVEIAKKRGHKGIAKFVNGVLRNILREGLPDIDEIKDPVKRLSIKYSHPVWLVKRWIDQ 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 159 YGLEGTETILQSFLETTSTTVRANLTRASLDDIIEKLQDEGYDVEKDHDLPYCLHIGGQPIIHSRSFKDGFVSIQDKSSM 238
Cdd:PRK14902 161 YGEEKAEKILESLNEPPKASIRVNTLKISVEELIEKLEEEGYEVEESLLSPEALVIEKGNIAGTDLFKDGLITIQDESSM 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 239 FVAHIMNVDRHDHVLDACSAPGGKACHIAEVLMPEGQVDASDIHDHKIDLINFNIKKLRLTNIKAFKHDATKPYDK---T 315
Cdd:PRK14902 241 LVAPALDPKGGDTVLDACAAPGGKTTHIAELLKNTGKVVALDIHEHKLKLIEENAKRLGLTNIETKALDARKVHEKfaeK 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 316 YDKILVDAPCSGLGVMRHKPEIKYTQSKQHIESLVDLQLEILENVKNNVKTGGEIVYSTCTIEQLENENVIYTFLKNNKN 395
Cdd:PRK14902 321 FDKILVDAPCSGLGVIRRKPDIKYNKTKEDIESLQEIQLEILESVAQYLKKGGILVYSTCTIEKEENEEVIEAFLEEHPE 400
|
410 420 430 440
....*....|....*....|....*....|....*....|...
gi 446494385 396 FEFEPFQHPITGELVK-----TLQIMPQDFNSDGFFITKIKRK 433
Cdd:PRK14902 401 FELVPLQHEKPDELVYevkdgYLQILPNDYGTDGFFIAKLRKK 443
|
|
| RsmB |
COG0144 |
16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family [Translation, ribosomal structure and ... |
21-434 |
1.04e-127 |
|
16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family [Translation, ribosomal structure and biogenesis]; 16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family is part of the Pathway/BioSystem: 16S rRNA modification
Pssm-ID: 439914 [Multi-domain] Cd Length: 441 Bit Score: 376.27 E-value: 1.04e-127
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 21 AYSNLRINEVLSENELNAMDKALFTEIVYGTVKRKYT-LDFYLKPFVKTKIKAWVRQLLWMSIYQYVYLDKVPNHAIINE 99
Cdd:COG0144 15 AAALALALLLLALLLLDRALAALLLLAALRLLRRRDRaLLAALLAGLLRLLRLLLLLLRLLLLLLLLLLLPLLAALLLVA 94
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 100 AVEIAKERG------GYHNGNVVNGILRTMMRSDlPDFNEIADPKKRMAIEYSMPKWIIDHWATHYGLEGTETILQSFLE 173
Cdd:COG0144 95 AAQLLAARVavdeavGPGAAGLVNAVLRRVLRER-EALLAAADPVERLAVRYSHPEWLVERLRAAYGPEEAEALLAALNE 173
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 174 TTSTTVRANLTRASLDDIIEKLQDEGYDVEKDHDLPYCLHI-GGQPIIHSRSFKDGFVSIQDKSSMFVAHIMNVDRHDHV 252
Cdd:COG0144 174 PPPLDLRVNTLKASREELLARLAEEGIEAEPTPLSPDGLRLeGPGPVTALPGFREGLFSVQDEASQLVALLLDPKPGERV 253
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 253 LDACSAPGGKACHIAEVLMPEGQVDASDIHDHKIDLINFNIKKLRLTNIKAFKHDATKP---YDKTYDKILVDAPCSGLG 329
Cdd:COG0144 254 LDLCAAPGGKTLHLAELMGNKGRVVAVDISEHRLKRLRENLARLGLSNVEVVVADARELlewLPGKFDRVLLDAPCSGTG 333
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 330 VMRHKPEIKYTQSKQHIESLVDLQLEILENVKNNVKTGGEIVYSTCTIEQLENENVIYTFLKNNKNFEFEPFQHPITGEL 409
Cdd:COG0144 334 TLRRHPDIKWRRTPEDIAELAALQRELLDAAARLLKPGGRLVYSTCSLLPEENEEVVEAFLARHPDFELVPLAELLPGLA 413
|
410 420
....*....|....*....|....*...
gi 446494385 410 V---KTLQIMPQDFNSDGFFITKIKRKD 434
Cdd:COG0144 414 LtdgGYLRLLPHRHGTDGFFIARLRKKA 441
|
|
| rsmB |
TIGR00563 |
16S rRNA (cytosine(967)-C(5))-methyltransferase; This protein is also known as sun protein. ... |
6-433 |
2.34e-113 |
|
16S rRNA (cytosine(967)-C(5))-methyltransferase; This protein is also known as sun protein. The reading frame was originally interpreted as two reading frames, fmu and fmv. The recombinant protein from E. coli was shown to methylate only C967 of small subunit (16S) ribosomal RNA and to produce only m5C at that position. The seed alignment is built from bacterial sequences only. Eukaryotic homologs include Nop2, a protein required for processing pre-rRNA, that is likely also a rRNA methyltransferase, although the fine specificity may differ. Cutoff scores are set to avoid treating archaeal and eukaroytic homologs automatically as functionally equivalent, although they may have very similar roles. [Protein synthesis, tRNA and rRNA base modification]
Pssm-ID: 273141 [Multi-domain] Cd Length: 426 Bit Score: 339.15 E-value: 2.34e-113
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 6 RSLAFDTIQDILNEGAYSNLRINevlSENELNAMDKALFTEIVYGTVKRKYTLDFYLKPFVK--TKIKAWVRQLLWMSIY 83
Cdd:TIGR00563 1 RSIAAQALEQLEQGQSLSNLLPP---LQQKVSDQDRALLQELCFGVLRTLSQLDWLIKKLMDrpMKGKPRTVHYLILVGL 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 84 QYVYLDKVPNHAIINEAVEIAKERGGYHNGNVVNGILRTMMRSDlpdfNEIADPKKRMAIEYSMPKWIIDH-WATHYGLE 162
Cdd:TIGR00563 78 YQLLYTRIPAHAAVAETVEGAKAIKRKGLKGLVNGVLRRFQREQ----EELLAEFNALDARYLHPEWLVKRlQKAYPGQW 153
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 163 gtETILQSFLETTSTTVRANLTRASLDDIIEKLQDEGYDVEKDHDLPYCLHIGGQPIIHSR-SFKDGFVSIQDKSSMFVA 241
Cdd:TIGR00563 154 --QSICEANNQRPPMWLRINRTKHSRDEWLALLAEAGMKGFPHDLAPDAVRLETPAAVHALpGFEEGWVTVQDASAQWVA 231
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 242 HIMNVDRHDHVLDACSAPGGKACHIAEvLMPEGQVDASDIHDHKIDLINFNIKKLRLTnIKAFKHDATKPYDK------T 315
Cdd:TIGR00563 232 TWLAPQNEETILDACAAPGGKTTHILE-LAPQAQVVALDIHEHRLKRVYENLKRLGLT-IKAETKDGDGRGPSqwaeneQ 309
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 316 YDKILVDAPCSGLGVMRHKPEIKYTQSKQHIESLVDLQLEILENVKNNVKTGGEIVYSTCTIEQLENENVIYTFLKNNKN 395
Cdd:TIGR00563 310 FDRILLDAPCSATGVIRRHPDIKWLRKPRDIAELAELQSEILDAIWPLLKTGGTLVYATCSVLPEENSEQIKAFLQEHPD 389
|
410 420 430 440
....*....|....*....|....*....|....*....|
gi 446494385 396 FEFEPFQHPitgELVKT--LQIMPQDFNSDGFFITKIKRK 433
Cdd:TIGR00563 390 FPFEKTGTP---EQVRDggLQILPHAEEGDGFFYAKLIKK 426
|
|
| Methyltr_RsmB-F |
pfam01189 |
16S rRNA methyltransferase RsmB/F; This is the catalytic core of this SAM-dependent 16S ... |
241-431 |
2.41e-53 |
|
16S rRNA methyltransferase RsmB/F; This is the catalytic core of this SAM-dependent 16S ribosomal methyltransferase RsmB/F enzyme. There is a catalytic cysteine residue at 180 in UniProtKB:Q5SII2, with another highly conserved cysteine at residue 230. It methylates the C(5) position of cytosine 2870 (m5C2870) in 25S rRNA.
Pssm-ID: 426109 [Multi-domain] Cd Length: 199 Bit Score: 176.85 E-value: 2.41e-53
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 241 AHIMNVDRHDHVLDACSAPGGKACHIAEVLMPEGQVDASDIHDHKIDLINFNIKKLRLTNIKAFKHDATKPYD----KTY 316
Cdd:pfam01189 1 AILLAPQEGETILDMCAAPGGKTTHIAELMKNQGTVVAVDINKHRLKRVAENIHRLGVTNTIILNGDGRQPDQwlggVLF 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 317 DKILVDAPCSGLGVMRHKPEIKYTQSKQHIESLVDLQLEILENVKNNVKTGGEIVYSTCTIEQLENENVIYTFLKNNKNF 396
Cdd:pfam01189 81 DRILLDAPCSGTGVIRRHPDVKWLRQEADIAQLAQLQKELLSAAIDLLKPGGVLVYSTCSVLPEENEAVIEYFLQKHPDV 160
|
170 180 190
....*....|....*....|....*....|....*....
gi 446494385 397 EFEPFQ-HPITGELVK---TLQIMPQDFNSDGFFITKIK 431
Cdd:pfam01189 161 ELVPTPlFEPVGLAIGeqpTLRLLPHTHNGDGFFIAKLR 199
|
|
| Methyltransferase_Sun |
cd00620 |
N-terminal RNA binding domain of the methyltransferase Sun. The rRNA-specific 5-methylcytidine ... |
4-127 |
9.12e-33 |
|
N-terminal RNA binding domain of the methyltransferase Sun. The rRNA-specific 5-methylcytidine transferase Sun, also known as RrmB or Fmu shares the RNA-binding non-catalytic domain with the transcription termination factor NusB. The precise biological role of this domain in Sun is unknown, although it is likely to be involved in sequence-specific RNA binding. The C-terminal methyltransferase domain of Sun has been shown to catalyze formation of m5C at position 967 of 16S rRNA in Escherichia coli.
Pssm-ID: 238343 [Multi-domain] Cd Length: 126 Bit Score: 120.14 E-value: 9.12e-33
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 4 NVRSLAFDTIQDILNEGAYSNLRINEVLSENElNAMDKALFTEIVYGTVKRKYTLDFYLKPFVK---TKIKAWVRQLLWM 80
Cdd:cd00620 2 NARSTAAEVLRDVLQRGASLNAVLSALQKKDK-SDRDRGLATELVYGTLRWLALLDWIINPLLKkpdVGKDPDVRNLLRL 80
|
90 100 110 120
....*....|....*....|....*....|....*....|....*..
gi 446494385 81 SIYQYVYLDkVPNHAIINEAVEIAKERGGYHNGNVVNGILRTMMRSD 127
Cdd:cd00620 81 GLYQLLYLD-VPPHAAVDETVEIAKIRKDLGRAGLVNAVLRRFERED 126
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| PRK14902 |
PRK14902 |
16S rRNA (cytosine(967)-C(5))-methyltransferase RsmB; |
1-433 |
0e+00 |
|
16S rRNA (cytosine(967)-C(5))-methyltransferase RsmB;
Pssm-ID: 237857 [Multi-domain] Cd Length: 444 Bit Score: 693.07 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 1 MIENVRSLAFDTIQDILNEGAYSNLRINEVLSENELNAMDKALFTEIVYGTVKRKYTLDFYLKPFVKT--KIKAWVRQLL 78
Cdd:PRK14902 1 MKMNARELALEVLIKVENNGAYSNIALNKVLKKSELSDKDKALLTELVYGTIQRKLTLDYYLAPFIKKrkKLDPWVRNLL 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 79 WMSIYQYVYLDKVPNHAIINEAVEIAKERGGYHNGNVVNGILRTMMRSDLPDFNEIADPKKRMAIEYSMPKWIIDHWATH 158
Cdd:PRK14902 81 RMSLYQLLYLDKVPDHAAVNEAVEIAKKRGHKGIAKFVNGVLRNILREGLPDIDEIKDPVKRLSIKYSHPVWLVKRWIDQ 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 159 YGLEGTETILQSFLETTSTTVRANLTRASLDDIIEKLQDEGYDVEKDHDLPYCLHIGGQPIIHSRSFKDGFVSIQDKSSM 238
Cdd:PRK14902 161 YGEEKAEKILESLNEPPKASIRVNTLKISVEELIEKLEEEGYEVEESLLSPEALVIEKGNIAGTDLFKDGLITIQDESSM 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 239 FVAHIMNVDRHDHVLDACSAPGGKACHIAEVLMPEGQVDASDIHDHKIDLINFNIKKLRLTNIKAFKHDATKPYDK---T 315
Cdd:PRK14902 241 LVAPALDPKGGDTVLDACAAPGGKTTHIAELLKNTGKVVALDIHEHKLKLIEENAKRLGLTNIETKALDARKVHEKfaeK 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 316 YDKILVDAPCSGLGVMRHKPEIKYTQSKQHIESLVDLQLEILENVKNNVKTGGEIVYSTCTIEQLENENVIYTFLKNNKN 395
Cdd:PRK14902 321 FDKILVDAPCSGLGVIRRKPDIKYNKTKEDIESLQEIQLEILESVAQYLKKGGILVYSTCTIEKEENEEVIEAFLEEHPE 400
|
410 420 430 440
....*....|....*....|....*....|....*....|...
gi 446494385 396 FEFEPFQHPITGELVK-----TLQIMPQDFNSDGFFITKIKRK 433
Cdd:PRK14902 401 FELVPLQHEKPDELVYevkdgYLQILPNDYGTDGFFIAKLRKK 443
|
|
| RsmB |
COG0144 |
16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family [Translation, ribosomal structure and ... |
21-434 |
1.04e-127 |
|
16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family [Translation, ribosomal structure and biogenesis]; 16S rRNA C967 or C1407 C5-methylase, RsmB/RsmF family is part of the Pathway/BioSystem: 16S rRNA modification
Pssm-ID: 439914 [Multi-domain] Cd Length: 441 Bit Score: 376.27 E-value: 1.04e-127
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 21 AYSNLRINEVLSENELNAMDKALFTEIVYGTVKRKYT-LDFYLKPFVKTKIKAWVRQLLWMSIYQYVYLDKVPNHAIINE 99
Cdd:COG0144 15 AAALALALLLLALLLLDRALAALLLLAALRLLRRRDRaLLAALLAGLLRLLRLLLLLLRLLLLLLLLLLLPLLAALLLVA 94
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 100 AVEIAKERG------GYHNGNVVNGILRTMMRSDlPDFNEIADPKKRMAIEYSMPKWIIDHWATHYGLEGTETILQSFLE 173
Cdd:COG0144 95 AAQLLAARVavdeavGPGAAGLVNAVLRRVLRER-EALLAAADPVERLAVRYSHPEWLVERLRAAYGPEEAEALLAALNE 173
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 174 TTSTTVRANLTRASLDDIIEKLQDEGYDVEKDHDLPYCLHI-GGQPIIHSRSFKDGFVSIQDKSSMFVAHIMNVDRHDHV 252
Cdd:COG0144 174 PPPLDLRVNTLKASREELLARLAEEGIEAEPTPLSPDGLRLeGPGPVTALPGFREGLFSVQDEASQLVALLLDPKPGERV 253
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 253 LDACSAPGGKACHIAEVLMPEGQVDASDIHDHKIDLINFNIKKLRLTNIKAFKHDATKP---YDKTYDKILVDAPCSGLG 329
Cdd:COG0144 254 LDLCAAPGGKTLHLAELMGNKGRVVAVDISEHRLKRLRENLARLGLSNVEVVVADARELlewLPGKFDRVLLDAPCSGTG 333
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 330 VMRHKPEIKYTQSKQHIESLVDLQLEILENVKNNVKTGGEIVYSTCTIEQLENENVIYTFLKNNKNFEFEPFQHPITGEL 409
Cdd:COG0144 334 TLRRHPDIKWRRTPEDIAELAALQRELLDAAARLLKPGGRLVYSTCSLLPEENEEVVEAFLARHPDFELVPLAELLPGLA 413
|
410 420
....*....|....*....|....*...
gi 446494385 410 V---KTLQIMPQDFNSDGFFITKIKRKD 434
Cdd:COG0144 414 LtdgGYLRLLPHRHGTDGFFIARLRKKA 441
|
|
| rsmB |
TIGR00563 |
16S rRNA (cytosine(967)-C(5))-methyltransferase; This protein is also known as sun protein. ... |
6-433 |
2.34e-113 |
|
16S rRNA (cytosine(967)-C(5))-methyltransferase; This protein is also known as sun protein. The reading frame was originally interpreted as two reading frames, fmu and fmv. The recombinant protein from E. coli was shown to methylate only C967 of small subunit (16S) ribosomal RNA and to produce only m5C at that position. The seed alignment is built from bacterial sequences only. Eukaryotic homologs include Nop2, a protein required for processing pre-rRNA, that is likely also a rRNA methyltransferase, although the fine specificity may differ. Cutoff scores are set to avoid treating archaeal and eukaroytic homologs automatically as functionally equivalent, although they may have very similar roles. [Protein synthesis, tRNA and rRNA base modification]
Pssm-ID: 273141 [Multi-domain] Cd Length: 426 Bit Score: 339.15 E-value: 2.34e-113
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 6 RSLAFDTIQDILNEGAYSNLRINevlSENELNAMDKALFTEIVYGTVKRKYTLDFYLKPFVK--TKIKAWVRQLLWMSIY 83
Cdd:TIGR00563 1 RSIAAQALEQLEQGQSLSNLLPP---LQQKVSDQDRALLQELCFGVLRTLSQLDWLIKKLMDrpMKGKPRTVHYLILVGL 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 84 QYVYLDKVPNHAIINEAVEIAKERGGYHNGNVVNGILRTMMRSDlpdfNEIADPKKRMAIEYSMPKWIIDH-WATHYGLE 162
Cdd:TIGR00563 78 YQLLYTRIPAHAAVAETVEGAKAIKRKGLKGLVNGVLRRFQREQ----EELLAEFNALDARYLHPEWLVKRlQKAYPGQW 153
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 163 gtETILQSFLETTSTTVRANLTRASLDDIIEKLQDEGYDVEKDHDLPYCLHIGGQPIIHSR-SFKDGFVSIQDKSSMFVA 241
Cdd:TIGR00563 154 --QSICEANNQRPPMWLRINRTKHSRDEWLALLAEAGMKGFPHDLAPDAVRLETPAAVHALpGFEEGWVTVQDASAQWVA 231
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 242 HIMNVDRHDHVLDACSAPGGKACHIAEvLMPEGQVDASDIHDHKIDLINFNIKKLRLTnIKAFKHDATKPYDK------T 315
Cdd:TIGR00563 232 TWLAPQNEETILDACAAPGGKTTHILE-LAPQAQVVALDIHEHRLKRVYENLKRLGLT-IKAETKDGDGRGPSqwaeneQ 309
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 316 YDKILVDAPCSGLGVMRHKPEIKYTQSKQHIESLVDLQLEILENVKNNVKTGGEIVYSTCTIEQLENENVIYTFLKNNKN 395
Cdd:TIGR00563 310 FDRILLDAPCSATGVIRRHPDIKWLRKPRDIAELAELQSEILDAIWPLLKTGGTLVYATCSVLPEENSEQIKAFLQEHPD 389
|
410 420 430 440
....*....|....*....|....*....|....*....|
gi 446494385 396 FEFEPFQHPitgELVKT--LQIMPQDFNSDGFFITKIKRK 433
Cdd:TIGR00563 390 FPFEKTGTP---EQVRDggLQILPHAEEGDGFFYAKLIKK 426
|
|
| PRK14901 |
PRK14901 |
16S rRNA methyltransferase B; Provisional |
4-434 |
4.35e-110 |
|
16S rRNA methyltransferase B; Provisional
Pssm-ID: 237856 [Multi-domain] Cd Length: 434 Bit Score: 331.12 E-value: 4.35e-110
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 4 NVRSLAFDTIQDIlNEGAYSNLRINEVLSENELNAMDKALFTEIVYGTVKRKYTLDFYLKPFVKTKIKAW---VRQLLWM 80
Cdd:PRK14901 2 NARQLAWEILQAV-ARGAYADVALERVLRKYPLSGADRALVTELVYGCIRRRRTLDAWIDQLGKKPAHKQppdLRWLLHL 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 81 SIYQYVYLDKVPNHAIINEAVEIAKERGGYHNGNVVNGILRTMMR-SDLPDFNEI-ADPKKRMAIEYSMPKWIIDHWATH 158
Cdd:PRK14901 81 GLYQLRYMDRIPASAAVNTTVELAKQNGLGGLAGVVNGILRQYLRaREAGDPLPLpEDPIERLAILHSFPDWLVKLWLEW 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 159 YGLEGTETILQSFLETTSTTVRANLTRASLDDIIEKLQDEGYDVEKDHDLPYCLHIGG--QPIIHSRSFKDGFVSIQDKS 236
Cdd:PRK14901 161 LGLEEAEQLCKWFNQPPSLDLRINPLRTSLEEVQAALAEAGITATPIPGLPQGLRLTGnpGSIRQLPGYEEGWWTVQDRS 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 237 SMFVAHIMNVDRHDHVLDACSAPGGKACHIAEVLMPEGQVDASDIHDHKIDLINFNIKKLRLTNIKAFKHDATKPYDK-- 314
Cdd:PRK14901 241 AQLVAPLLDPQPGEVILDACAAPGGKTTHIAELMGDQGEIWAVDRSASRLKKLQENAQRLGLKSIKILAADSRNLLELkp 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 315 ----TYDKILVDAPCSGLGVM-RHkPEIKYTQSKQHIESLVDLQLEILENVKNNVKTGGEIVYSTCTIEQLENENVIYTF 389
Cdd:PRK14901 321 qwrgYFDRILLDAPCSGLGTLhRH-PDARWRQTPEKIQELAPLQAELLESLAPLLKPGGTLVYATCTLHPAENEAQIEQF 399
|
410 420 430 440
....*....|....*....|....*....|....*....|....*
gi 446494385 390 LKNNKNFEFEPFQHPitgelvktlqIMPQDFNSDGFFITKIKRKD 434
Cdd:PRK14901 400 LARHPDWKLEPPKQK----------IWPHRQDGDGFFMAVLRKKS 434
|
|
| PRK14904 |
PRK14904 |
16S rRNA methyltransferase B; Provisional |
4-400 |
9.05e-76 |
|
16S rRNA methyltransferase B; Provisional
Pssm-ID: 237858 [Multi-domain] Cd Length: 445 Bit Score: 243.04 E-value: 9.05e-76
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 4 NVRSLAFDTIQDILNEGAYSNLRINEVLSENELNAMDKALFTEIVYGTVKRKYTLDFYLKPFVKTKIKA---WVRQLLWM 80
Cdd:PRK14904 3 TARELALQVLQELETGERKSDTLLHRMLERSSLERNDRALATELVNGVLRYRLQLDFIISRFYHHDLEKaapVLKNILRL 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 81 SIYQYVYLDKVPNHAIINEAVEIAKERGGYHNGNVVNGILRTMMRS--DLPDFNEIADPKKRMAIEYSMPKWIIDHWATH 158
Cdd:PRK14904 83 GVYQLLFLDRVPRWAAVNECVKLARKYKGEHMAKLVNGVLRNISPEtiSLDEWLKGMPEAERLSLLYSHPEWLLERWIAR 162
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 159 YGLEGTETILQSFLETTSTTVRANLTRASLDDIIEKLQDEGYDVEKDhDLPYCLHiggqpiihSRSF-------KDGFVS 231
Cdd:PRK14904 163 YGEERTEAMLSYNNQAPLFGFRINRLKTTPEKFLAAPADASVTFEKS-GLPNFFL--------SKDFslfepflKLGLVS 233
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 232 IQDKSSMFVAHIMNVDRHDHVLDACSAPGGKACHIAEVLMPEGQVDASDIHDHKIDLINFNIKKLRLTNIKAFKHDATK- 310
Cdd:PRK14904 234 VQNPTQALACLLLNPQPGSTVLDLCAAPGGKSTFMAELMQNRGQITAVDRYPQKLEKIRSHASALGITIIETIEGDARSf 313
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 311 PYDKTYDKILVDAPCSGLGVMRHKPEIKYTQSKQHIESLVDLQLEILENVKNNVKTGGEIVYSTCTIEQLENENVIYTFL 390
Cdd:PRK14904 314 SPEEQPDAILLDAPCTGTGVLGRRAELRWKLTPEKLAELVGLQAELLDHAASLLKPGGVLVYATCSIEPEENELQIEAFL 393
|
410
....*....|
gi 446494385 391 KNNKNFEFEP 400
Cdd:PRK14904 394 QRHPEFSAEP 403
|
|
| PRK10901 |
PRK10901 |
16S rRNA (cytosine(967)-C(5))-methyltransferase RsmB; |
4-426 |
2.02e-70 |
|
16S rRNA (cytosine(967)-C(5))-methyltransferase RsmB;
Pssm-ID: 236790 [Multi-domain] Cd Length: 427 Bit Score: 228.54 E-value: 2.02e-70
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 4 NVRSLAFDTIQDILNEGAysNLriNEVLSE--NELNAMDKALFTEIVYGTVKRKYTLDFYLKPFVKTKIK---AWVRQLL 78
Cdd:PRK10901 3 NLRALAAAAILQVVDQGQ--SL--SAALPAlqQKVSDKDRALLQELCYGVLRRLPRLEWLIAQLLAKPLKgkqRIVHALL 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 79 WMSIYQYVYLdKVPNHAIINEAVEIAKERGGYHNGNVVNGILRTMMRS--DLPDFNEiADPKKRmaieYSMPKWIIDHWA 156
Cdd:PRK10901 79 LVGLYQLLYT-RIPAHAAVDETVEAAKALKRPWAKGLVNAVLRRFQREqeELLAELQ-ADPVAR----YNHPSWLIKRLK 152
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 157 THYGlEGTETILQSFLETTSTTVRANLTRASLDDIIEKLQDEGYDVEKDHDLPYCLHIGgQPIIHSR--SFKDGFVSIQD 234
Cdd:PRK10901 153 KAYP-EQWQAILAANNQRPPMWLRVNRRHHSRDAYLALLAEAGIEAFPHAVGPDAIRLE-TPVPVHQlpGFAEGWVSVQD 230
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 235 KSSMFVAHIMNVDRHDHVLDACSAPGGKACHIAEvLMPEGQVDASDIHDHKIDLINFNIKKLRLT-NIKAFkhDATKP-- 311
Cdd:PRK10901 231 AAAQLAATLLAPQNGERVLDACAAPGGKTAHILE-LAPQAQVVALDIDAQRLERVRENLQRLGLKaTVIVG--DARDPaq 307
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 312 -YD-KTYDKILVDAPCSGLGVMRHKPEIKYTQSKQHIESLVDLQLEILENVKNNVKTGGEIVYSTCTIEQLENENVIYTF 389
Cdd:PRK10901 308 wWDgQPFDRILLDAPCSATGVIRRHPDIKWLRRPEDIAALAALQSEILDALWPLLKPGGTLLYATCSILPEENEQQIKAF 387
|
410 420 430
....*....|....*....|....*....|....*..
gi 446494385 390 LKNNKNFEFEPFQHPITGElvktLQIMPQDFNSDGFF 426
Cdd:PRK10901 388 LARHPDAELLDTGTPQQPG----RQLLPGEEDGDGFF 420
|
|
| PRK14903 |
PRK14903 |
16S rRNA methyltransferase B; Provisional |
1-398 |
3.70e-67 |
|
16S rRNA methyltransferase B; Provisional
Pssm-ID: 184896 [Multi-domain] Cd Length: 431 Bit Score: 220.51 E-value: 3.70e-67
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 1 MIENVRSLAFDTIQDILNEGAYSNLRINEVLSEneLNAMDKALFTEIVYGTVKRKYTLDFYLKPFVKTK-IKAWVRQLLW 79
Cdd:PRK14903 1 MKTNVRLLAYRLLRKYEKEKFIFREDVDSVLSF--LDDKDRRFFKELVWGVVRKEELLDWYINQLLKKKdIPPAVRVALR 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 80 MSIYQYVYLDKVPNHAIINEAVEIAKERggyHNGNVVNGILRTMmrsdlpdfNEIADPKKrMAIEYSMPKWIIDHWATHY 159
Cdd:PRK14903 79 MGAYQLLFMNSVPDYAAVSETVKLVKNE---NFKKLVNAVLRRL--------RTVPEPKE-LHLKYSHPKWLVNYWRSFL 146
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 160 GLEGTETILQSFLETTSTTVRANLTRASLDDIIEKLQDEGYDVEKDHDLPYCLHIG--GQPIIHSRSFKDGFVSIQDKSS 237
Cdd:PRK14903 147 PEEAVLRIMEWNQEPLPTMLRVNSLAITREEVIKILAEEGTEAVPGKHSPFSLIVRklGVNMNDSRVIKDGLATVQGESS 226
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 238 MFVAHIMNVDRHDHVLDACSAPGGKACHIAEVLMPEGQVDASDIHDHKIDLINFNIKKLRLTNIKAFKHDA---TKPYDK 314
Cdd:PRK14903 227 QIVPLLMELEPGLRVLDTCAAPGGKTTAIAELMKDQGKILAVDISREKIQLVEKHAKRLKLSSIEIKIADAerlTEYVQD 306
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 315 TYDKILVDAPCSGLGVMRHKPEIKYTQSKQHIESLVDLQLEILENVKNNVKTGGEIVYSTCTIEQLENENVIYTFLKNNK 394
Cdd:PRK14903 307 TFDRILVDAPCTSLGTARNHPEVLRRVNKEDFKKLSEIQLRIVSQAWKLLEKGGILLYSTCTVTKEENTEVVKRFVYEQK 386
|
....
gi 446494385 395 NFEF 398
Cdd:PRK14903 387 DAEV 390
|
|
| Methyltr_RsmB-F |
pfam01189 |
16S rRNA methyltransferase RsmB/F; This is the catalytic core of this SAM-dependent 16S ... |
241-431 |
2.41e-53 |
|
16S rRNA methyltransferase RsmB/F; This is the catalytic core of this SAM-dependent 16S ribosomal methyltransferase RsmB/F enzyme. There is a catalytic cysteine residue at 180 in UniProtKB:Q5SII2, with another highly conserved cysteine at residue 230. It methylates the C(5) position of cytosine 2870 (m5C2870) in 25S rRNA.
Pssm-ID: 426109 [Multi-domain] Cd Length: 199 Bit Score: 176.85 E-value: 2.41e-53
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 241 AHIMNVDRHDHVLDACSAPGGKACHIAEVLMPEGQVDASDIHDHKIDLINFNIKKLRLTNIKAFKHDATKPYD----KTY 316
Cdd:pfam01189 1 AILLAPQEGETILDMCAAPGGKTTHIAELMKNQGTVVAVDINKHRLKRVAENIHRLGVTNTIILNGDGRQPDQwlggVLF 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 317 DKILVDAPCSGLGVMRHKPEIKYTQSKQHIESLVDLQLEILENVKNNVKTGGEIVYSTCTIEQLENENVIYTFLKNNKNF 396
Cdd:pfam01189 81 DRILLDAPCSGTGVIRRHPDVKWLRQEADIAQLAQLQKELLSAAIDLLKPGGVLVYSTCSVLPEENEAVIEYFLQKHPDV 160
|
170 180 190
....*....|....*....|....*....|....*....
gi 446494385 397 EFEPFQ-HPITGELVK---TLQIMPQDFNSDGFFITKIK 431
Cdd:pfam01189 161 ELVPTPlFEPVGLAIGeqpTLRLLPHTHNGDGFFIAKLR 199
|
|
| nop2p |
TIGR00446 |
NOL1/NOP2/sun family putative RNA methylase; [Protein synthesis, tRNA and rRNA base ... |
179-432 |
1.03e-41 |
|
NOL1/NOP2/sun family putative RNA methylase; [Protein synthesis, tRNA and rRNA base modification]
Pssm-ID: 188051 [Multi-domain] Cd Length: 264 Bit Score: 148.38 E-value: 1.03e-41
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 179 VRANLTRASLDDIIEKLQDEGYDVEKdHDLPYCLHIGGQPIIHSRS--FKDGFVSIQDKSSMFVAHIMNVDRHDHVLDAC 256
Cdd:TIGR00446 1 IRVNTLKINVEDLLERLENRGVVLEP-TCEEYFFEVKESPFSIGSTpeYLFGYYYPQEASSMIPPIALEPREDERVLDMA 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 257 SAPGGKACHIAEVLMPEGQVDASDIHDHKIDLINFNIKKLRLTNIKAFKHDATK--PYDKTYDKILVDAPCSGLGVMRHK 334
Cdd:TIGR00446 80 AAPGGKTTQISQLMKNKGCIVANEISKSRTKALISNINRMGVLNTIVINADGRKfgAYLLKFDAILLDAPCSGEGVIRKD 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 335 PEIKYTQSKQHIESLVDLQLEILENVKNNVKTGGEIVYSTCTIEQLENENVIYTFLKNNKNFEF------EPFQHPIT-G 407
Cdd:TIGR00446 160 PSRKRNWSEEDIKYCSLLQKELIDAAIDALKPGGVLVYSTCSLEVEENEEVIDYILRKRPDVVEeiikgdEFFGINIGkG 239
|
250 260
....*....|....*....|....*
gi 446494385 408 ELVKTLQIMPQDFNSDGFFITKIKR 432
Cdd:TIGR00446 240 EVKGALRVFPQNYDCEGFFVAKLRK 264
|
|
| NusB |
pfam01029 |
NusB family; The NusB protein is involved in the regulation of rRNA biosynthesis by ... |
4-125 |
2.32e-36 |
|
NusB family; The NusB protein is involved in the regulation of rRNA biosynthesis by transcriptional antitermination.
Pssm-ID: 460031 [Multi-domain] Cd Length: 133 Bit Score: 130.08 E-value: 2.32e-36
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 4 NVRSLAFDTI-------QDILNEGAYSNLRINEVLsENELNAMDKALFTEIVYGTVKRKYTLDFYLKPFVK----TKIKA 72
Cdd:pfam01029 2 NARELALQALyqveingSDEEEKGAYLNEALDKAL-EGDLSEEDRAFATELVYGVLRNLEELDALIEKLLEnwplERLSP 80
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|...
gi 446494385 73 WVRQLLWMSIYQYVYLDKVPNHAIINEAVEIAKERGGYHNGNVVNGILRTMMR 125
Cdd:pfam01029 81 VDRAILRLGLYELLFLDDVPPHVAINEAVELAKKFGGEKSAKFVNGVLRNVAR 133
|
|
| Methyltransferase_Sun |
cd00620 |
N-terminal RNA binding domain of the methyltransferase Sun. The rRNA-specific 5-methylcytidine ... |
4-127 |
9.12e-33 |
|
N-terminal RNA binding domain of the methyltransferase Sun. The rRNA-specific 5-methylcytidine transferase Sun, also known as RrmB or Fmu shares the RNA-binding non-catalytic domain with the transcription termination factor NusB. The precise biological role of this domain in Sun is unknown, although it is likely to be involved in sequence-specific RNA binding. The C-terminal methyltransferase domain of Sun has been shown to catalyze formation of m5C at position 967 of 16S rRNA in Escherichia coli.
Pssm-ID: 238343 [Multi-domain] Cd Length: 126 Bit Score: 120.14 E-value: 9.12e-33
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 4 NVRSLAFDTIQDILNEGAYSNLRINEVLSENElNAMDKALFTEIVYGTVKRKYTLDFYLKPFVK---TKIKAWVRQLLWM 80
Cdd:cd00620 2 NARSTAAEVLRDVLQRGASLNAVLSALQKKDK-SDRDRGLATELVYGTLRWLALLDWIINPLLKkpdVGKDPDVRNLLRL 80
|
90 100 110 120
....*....|....*....|....*....|....*....|....*..
gi 446494385 81 SIYQYVYLDkVPNHAIINEAVEIAKERGGYHNGNVVNGILRTMMRSD 127
Cdd:cd00620 81 GLYQLLYLD-VPPHAAVDETVEIAKIRKDLGRAGLVNAVLRRFERED 126
|
|
| NusB |
COG0781 |
Transcription antitermination protein NusB [Transcription]; |
8-126 |
5.06e-31 |
|
Transcription antitermination protein NusB [Transcription];
Pssm-ID: 440544 [Multi-domain] Cd Length: 128 Bit Score: 115.63 E-value: 5.06e-31
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 8 LAFDTIQDILNEGAYSNLRINEVLSENELNAMDKALFTEIVYGTVKRKYTLDFYLKPFVKT----KIKAWVRQLLWMSIY 83
Cdd:COG0781 2 LALQALYQVELSGAYANEILEEFLEDEELSEADRAFATELVYGVLRNQEELDALIAPYLKDwpleRLDPVDRAILRLAAY 81
|
90 100 110 120
....*....|....*....|....*....|....*....|...
gi 446494385 84 QYVYLDKVPNHAIINEAVEIAKERGGYHNGNVVNGILRTMMRS 126
Cdd:COG0781 82 ELLYLDDVPYKVAINEAVELAKKFGTEDSPKFVNGVLDKIAKE 124
|
|
| yebU |
PRK11933 |
rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed |
179-432 |
1.01e-23 |
|
rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed
Pssm-ID: 183387 [Multi-domain] Cd Length: 470 Bit Score: 103.06 E-value: 1.01e-23
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 179 VRANLTRASLDDIIEKLQ------------DEGYDVEKDHDLPYCL-----HIGGQpiihsrsfkdgFVsIQDKSSMF-- 239
Cdd:PRK11933 37 IRVNTLKISVADFLQLMApygwtltpipwcEEGFWIERDDEDALPLgntaeHLSGL-----------FY-IQEASSMLpv 104
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 240 VAHIMNVDRHDHVLDACSAPGGKACHIAEVLMPEGQVDASDIHDHKIDLINFNIKKLRLTNIkAFKHdatkpYD------ 313
Cdd:PRK11933 105 AALFADDNAPQRVLDMAAAPGSKTTQIAALMNNQGAIVANEYSASRVKVLHANISRCGVSNV-ALTH-----FDgrvfga 178
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 314 ---KTYDKILVDAPCSGLGVMRHKPEIKYTQSKQHIESLVDLQLEILENVKNNVKTGGEIVYSTCTIEQLENENVIYtFL 390
Cdd:PRK11933 179 alpETFDAILLDAPCSGEGTVRKDPDALKNWSPESNLEIAATQRELIESAFHALKPGGTLVYSTCTLNREENQAVCL-WL 257
|
250 260 270 280
....*....|....*....|....*....|....*....|....*....
gi 446494385 391 KNN--KNFEFEPFQHPITG-ELVKT----LQIMPQDFNSDGFFITKIKR 432
Cdd:PRK11933 258 KETypDAVEFEPLGDLFPGaEKALTeegfLHVFPQIYDSEGFFVARLRK 306
|
|
| NusB_Sun |
cd00447 |
RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or ... |
4-127 |
2.12e-19 |
|
RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the rRNA-specific 5-methylcytidine transferase (m5C-methyltransferase) Sun. The NusB protein plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus factors (NusA, NusE/S10 and NusG) forms the core complex with the boxA element of the nut site of the rRNA operons. These interactions help RNA polymerase to counteract polarity during transcription of rRNA operons and allow stable antitermination. The transcription antitermination system can be appropriated by some bacteriophages such as lambda, which use the system to switch between the lysogenic and lytic modes of phage propagation. The m5C-methyltransferase Sun shares the N-terminal non-catalytic RNA-binding domain with NusB.
Pssm-ID: 238253 [Multi-domain] Cd Length: 129 Bit Score: 83.56 E-value: 2.12e-19
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 4 NVRSLAFDTIQDILNEGAYSNLRINEVLSENELNAMDKALFTEIVYGTVKRKYTLDFYLKPFVK-------TKIKAWVRQ 76
Cdd:cd00447 1 SAREIAFQALYQVEIRNGISLEAVLSALEKLQLAKKDRPFALELVYGVLRNLPELDDIISPLLKkwlldrlDKVDRAILR 80
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|.
gi 446494385 77 LLWMSIYQYvyLDKVPNHAIINEAVEIAKERGGYHNGNVVNGILRTMMRSD 127
Cdd:cd00447 81 LLLYELYQL--LYDVPPPVAINEAVELAKRFGDDDSAKFVNGVLRRIAKES 129
|
|
| nusB |
TIGR01951 |
transcription antitermination factor NusB; A transcription antitermination complex active in ... |
27-126 |
1.54e-13 |
|
transcription antitermination factor NusB; A transcription antitermination complex active in many bacteria was designated N-utilization substance (Nus) in E. coli because of its interaction with phage lambda protein N. This model represents NusB. Other components are NusA and NusG. NusE is, in fact, ribosomal protein S10. [Transcription, Transcription factors]
Pssm-ID: 273891 [Multi-domain] Cd Length: 129 Bit Score: 67.13 E-value: 1.54e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 27 INEVLSENELNAMDKALFTEIVYGTVKRKYTLDFYLKPFvktkIKAW--------VRQLLWMSIYQYVYLDKVPNHAIIN 98
Cdd:TIGR01951 26 IEEFLEERELDEEDREYFRELVRGVLENQEEIDELISPH----LEDWtlerldpvDRAILRLAIYELLYRPDVPYKVVIN 101
|
90 100
....*....|....*....|....*...
gi 446494385 99 EAVEIAKERGGYHNGNVVNGILRTMMRS 126
Cdd:TIGR01951 102 EAVELAKKFGDEDSHKFVNGVLDKIAKE 129
|
|
| nusB |
PRK00202 |
transcription antitermination factor NusB; |
6-120 |
3.00e-10 |
|
transcription antitermination factor NusB;
Pssm-ID: 234686 [Multi-domain] Cd Length: 137 Bit Score: 57.88 E-value: 3.00e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 6 RSLAFDTI-QDILNeGAYSNLRINEVLSENELNAMDKALFTEIVYGTVKRKYTLDFYLKPFVK-------TKIkawVRQL 77
Cdd:PRK00202 7 REAAVQALyQWELS-GNDIAEIIEAQLLEEQYDKADPAYFRSLVRGVVENQAELDELISPYLKdwtlerlDPV---ERAI 82
|
90 100 110 120
....*....|....*....|....*....|....*....|...
gi 446494385 78 LWMSIYQYVYLDKVPNHAIINEAVEIAKERGGYHNGNVVNGIL 120
Cdd:PRK00202 83 LRLALYELLFRDDVPYKVVINEAIELAKKFGDEDSHKFVNGVL 125
|
|
| Terminator_NusB |
cd00619 |
Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key ... |
27-125 |
1.92e-07 |
|
Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus factors (NusA, NusE/S10 and NusG) forms the core complex with the boxA element of the nut site of the rRNA operons. These interactions help RNA polymerase to counteract polarity during transcription of rRNA operons and allow stable antitermination. The transcription antitermination system can be appropriated by some bacteriophages such as lambda, which use the system to switch between the lysogenic and lytic modes of phage propagation.
Pssm-ID: 238342 [Multi-domain] Cd Length: 130 Bit Score: 49.59 E-value: 1.92e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 27 INEVLSENELNAMDKALFTEIVYGTVKRKYTLDFYLKPFVKTkikAWV-------RQLLWMSIYQYVYLDKVPNHAIINE 99
Cdd:cd00619 26 VSLLELLQYKSKKVLPFALKLVRGVLENIEEIDELIEKHLRN---WSLdrlaiveRAILRLAVYELLFLPDVPHPVVINE 102
|
90 100
....*....|....*....|....*.
gi 446494385 100 AVEIAKERGGYHNGNVVNGILRTMMR 125
Cdd:cd00619 103 AIELAKRFGGDDSHKFVNGVLDKIAK 128
|
|
| AdoMet_MTases |
cd02440 |
S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; ... |
252-373 |
1.36e-05 |
|
S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy). There are at least five structurally distinct families of AdoMet-MTases, class I being the largest and most diverse. Within this class enzymes can be classified by different substrate specificities (small molecules, lipids, nucleic acids, etc.) and different target atoms for methylation (nitrogen, oxygen, carbon, sulfur, etc.).
Pssm-ID: 100107 [Multi-domain] Cd Length: 107 Bit Score: 43.96 E-value: 1.36e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446494385 252 VLDACSAPGGKACHIAEVlmPEGQVDASDIHDHKIDLINFNIKKLRLTNIKAFKHDATKPY---DKTYDKILVDAPCsgl 328
Cdd:cd02440 2 VLDLGCGTGALALALASG--PGARVTGVDISPVALELARKAAAALLADNVEVLKGDAEELPpeaDESFDVIISDPPL--- 76
|
90 100 110 120
....*....|....*....|....*....|....*....|....*
gi 446494385 329 gvmrhkpeikytqskqhiESLVDLQLEILENVKNNVKTGGEIVYS 373
Cdd:cd02440 77 ------------------HHLVEDLARFLEEARRLLKPGGVLVLT 103
|
|
| |
