|
Name |
Accession |
Description |
Interval |
E-value |
| RsuA |
COG1187 |
Pseudouridylate synthase RsuA, specific for 16S rRNA U516 and 23S rRNA U2605 [Translation, ... |
43-267 |
7.99e-97 |
|
Pseudouridylate synthase RsuA, specific for 16S rRNA U516 and 23S rRNA U2605 [Translation, ribosomal structure and biogenesis]; Pseudouridylate synthase RsuA, specific for 16S rRNA U516 and 23S rRNA U2605 is part of the Pathway/BioSystem: 16S rRNA modification
Pssm-ID: 440800 [Multi-domain] Cd Length: 226 Bit Score: 291.94 E-value: 7.99e-97
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757776129 43 DSERIAKRLARAGIASRRDAEMMIIAGRIAVNGTVVTTPVLNVIPSDHITVDEIPIPPIERTRLWLYHKPSGLVTTNRDP 122
Cdd:COG1187 1 EGMRLQKFLANAGVGSRREAEELIEAGRVTVNGKVVTELGTKVDPGDEVTVDGKPLKLPEEPVYLLLNKPAGVVSTTKDP 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757776129 123 EGRPTVFDNLPKE-MPRVVSVGRLDINTEGLLLLTNDGGLARVLELPLTGWVRKYRVRAHGKIKQSELDKLKNGIAIDGI 201
Cdd:COG1187 81 EGRPTVFDLLPEArKERLFPVGRLDKDTEGLLLLTNDGELAHRLTHPKYGVEKEYLVRVDGPVTEEDLERLREGVELEDG 160
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 757776129 202 FYGSIDASIDReQGSNVWLSVALREGKNREIKNFLGVLGLSVNRLIRVSYGPFQLSDLEEGAVREL 267
Cdd:COG1187 161 PTKPAKVEILS-GEANTWLRITLTEGRNRQVRRMFEAVGLPVVRLKRVRIGPLTLGDLPPGEWREL 225
|
|
| PseudoU_synth_RluB |
cd02556 |
Pseudouridine synthase, Escherichia coli RluB like; This group is comprised of bacterial and ... |
105-268 |
3.80e-69 |
|
Pseudouridine synthase, Escherichia coli RluB like; This group is comprised of bacterial and eukaryotic proteins similar to E. coli RluB. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. E.coli RluB makes psi2605 in 23S RNA. psi2605 has been detected in eubacteria but, not in eukarya and archea despite the presence of a precursor U at that site.
Pssm-ID: 211330 [Multi-domain] Cd Length: 167 Bit Score: 218.33 E-value: 3.80e-69
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757776129 105 RLWLYHKPSGLVTTNRDPEGRPTVFDNLPK-EMPRVVSVGRLDINTEGLLLLTNDGGLARVLELPLTGWVRKYRVRAHGK 183
Cdd:cd02556 1 RVLIYHKPEGLICTRKDPKGRPTVFDLLPKlGIPRWISVGRLDLNTEGLLLFTNDGELANRLMHPSNEIEREYAVRVFGQ 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757776129 184 IKQSELDKLKNGIAIDGIFYGSIDASIDREQGSNVWLSVALREGKNREIKNFLGVLGLSVNRLIRVSYGP-FQLSDLEEG 262
Cdd:cd02556 81 VTDEQLKSLKKGVELEDGFAGFKSIQLEGGEGKNSWYRVTLREGRNREVRRLWEAFGLQVSRLIRIRYGPiFLPGNLKRG 160
|
....*.
gi 757776129 263 AVRELK 268
Cdd:cd02556 161 QWEELP 166
|
|
| PRK10700 |
PRK10700 |
23S rRNA pseudouridine(2605) synthase RluB; |
44-256 |
1.36e-43 |
|
23S rRNA pseudouridine(2605) synthase RluB;
Pssm-ID: 182659 [Multi-domain] Cd Length: 289 Bit Score: 155.69 E-value: 1.36e-43
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757776129 44 SERIAKRLARAGIASRRDAEMMIIAGRIAVNGTVVTT-PVLNVIPSDHITVDE--IPIPPIERT--RLWLYHKPSGLVTT 118
Cdd:PRK10700 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIATLgDRVEVTPGLKIRIDGhlISVKESAEQicRVLAYYKPEGELCT 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757776129 119 NRDPEGRPTVFDNLPK-EMPRVVSVGRLDINTEGLLLLTNDGGLARVLELPLTGWVRKYRVRAHGKIKQSELDKLKNGIA 197
Cdd:PRK10700 82 RNDPEGRPTVFDRLPKlRGARWIAVGRLDVNTCGLLLFTTDGELANRLMHPSREVEREYAVRVFGQVDDAKLRQLSRGVQ 161
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....*....
gi 757776129 198 IDGIFYGSIDASIDREQGSNVWLSVALREGKNREIKNFLGVLGLSVNRLIRVSYGPFQL 256
Cdd:PRK10700 162 LEDGPAAFKTIKFSGGEGINQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPL 220
|
|
| TIGR00093 |
TIGR00093 |
pseudouridine synthase; This model identifies panels of pseudouridine synthase enzymes that ... |
142-267 |
1.55e-25 |
|
pseudouridine synthase; This model identifies panels of pseudouridine synthase enzymes that RNA modifications involved in maturing the protein translation apparatus. Counts per genome vary: two in Staphylococcus aureus, three in Pseudomonas putida, four in E. coli, etc. [Protein synthesis, tRNA and rRNA base modification]
Pssm-ID: 272902 Cd Length: 128 Bit Score: 101.25 E-value: 1.55e-25
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757776129 142 VGRLDINTEGLLLLTNDGGLARVLELPLTGWVRKYRVRAHGKIKQSELDKLKNGIAIDGIFYGSIDASIDREQGSNVWLS 221
Cdd:TIGR00093 1 VGRLDRDSEGLLLLTNDGELVHRLTHPGHHHEKEYLVTVEGPVTDEDLEALRKGVQLEDGKTKPAKLKVITEPGFPTWLR 80
|
90 100 110 120
....*....|....*....|....*....|....*....|....*.
gi 757776129 222 VALREGKNREIKNFLGVLGLSVNRLIRVSYGPFQLSDLEEGAVREL 267
Cdd:TIGR00093 81 VTLSEGRNRQVRRMFAAVGFPVLRLHRVRIGDVSLNGLPPGEWRPL 126
|
|
| PseudoU_synth_2 |
pfam00849 |
RNA pseudouridylate synthase; Members of this family are involved in modifying bases in RNA ... |
106-236 |
3.65e-09 |
|
RNA pseudouridylate synthase; Members of this family are involved in modifying bases in RNA molecules. They carry out the conversion of uracil bases to pseudouridine. This family includes RluD, a pseudouridylate synthase that converts specific uracils to pseudouridine in 23S rRNA. RluA from E. coli converts bases in both rRNA and tRNA.
Pssm-ID: 459961 [Multi-domain] Cd Length: 151 Bit Score: 55.49 E-value: 3.65e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757776129 106 LWLYHKPSGLVTTNRDPEGRPTVFDNLPK----EMPRVVSVGRLDINTEGLLLLTNDGGLARVLELPLTG-WVRK-YRVR 179
Cdd:pfam00849 1 YIVVNKPAGVPVHPTDSLTKLLSLLALLLrrelGVKRLYPVHRLDKNTSGLLLLAKDGEAANKLNKLFPErKIEKeYLAL 80
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 757776129 180 AHGKIKqsELDKLKNGIAIDGIFYGSIDASIDREQGS--------------NVWLSVALREGKNREIKNFL 236
Cdd:pfam00849 81 VDKPEE--EEGTIKSPIKKEKNKSPFRKEEELGGKKAvthlkvlksgskgdYSLLELELVTGRKHQIRAHL 149
|
|
| S4 |
smart00363 |
S4 RNA-binding domain; |
46-103 |
5.26e-06 |
|
S4 RNA-binding domain;
Pssm-ID: 214638 [Multi-domain] Cd Length: 60 Bit Score: 43.74 E-value: 5.26e-06
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....*....
gi 757776129 46 RIAKRLARAGIA-SRRDAEMMIIAGRIAVNGTVVTTPVLNVIPSDHITVDEIPIPPIER 103
Cdd:smart00363 2 RLDKFLARLGLApSRSQARRLIEQGRVKVNGKKVTKPSYIVKPGDVISVRGKELKRLKK 60
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| RsuA |
COG1187 |
Pseudouridylate synthase RsuA, specific for 16S rRNA U516 and 23S rRNA U2605 [Translation, ... |
43-267 |
7.99e-97 |
|
Pseudouridylate synthase RsuA, specific for 16S rRNA U516 and 23S rRNA U2605 [Translation, ribosomal structure and biogenesis]; Pseudouridylate synthase RsuA, specific for 16S rRNA U516 and 23S rRNA U2605 is part of the Pathway/BioSystem: 16S rRNA modification
Pssm-ID: 440800 [Multi-domain] Cd Length: 226 Bit Score: 291.94 E-value: 7.99e-97
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757776129 43 DSERIAKRLARAGIASRRDAEMMIIAGRIAVNGTVVTTPVLNVIPSDHITVDEIPIPPIERTRLWLYHKPSGLVTTNRDP 122
Cdd:COG1187 1 EGMRLQKFLANAGVGSRREAEELIEAGRVTVNGKVVTELGTKVDPGDEVTVDGKPLKLPEEPVYLLLNKPAGVVSTTKDP 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757776129 123 EGRPTVFDNLPKE-MPRVVSVGRLDINTEGLLLLTNDGGLARVLELPLTGWVRKYRVRAHGKIKQSELDKLKNGIAIDGI 201
Cdd:COG1187 81 EGRPTVFDLLPEArKERLFPVGRLDKDTEGLLLLTNDGELAHRLTHPKYGVEKEYLVRVDGPVTEEDLERLREGVELEDG 160
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 757776129 202 FYGSIDASIDReQGSNVWLSVALREGKNREIKNFLGVLGLSVNRLIRVSYGPFQLSDLEEGAVREL 267
Cdd:COG1187 161 PTKPAKVEILS-GEANTWLRITLTEGRNRQVRRMFEAVGLPVVRLKRVRIGPLTLGDLPPGEWREL 225
|
|
| PseudoU_synth_RluB |
cd02556 |
Pseudouridine synthase, Escherichia coli RluB like; This group is comprised of bacterial and ... |
105-268 |
3.80e-69 |
|
Pseudouridine synthase, Escherichia coli RluB like; This group is comprised of bacterial and eukaryotic proteins similar to E. coli RluB. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. E.coli RluB makes psi2605 in 23S RNA. psi2605 has been detected in eubacteria but, not in eukarya and archea despite the presence of a precursor U at that site.
Pssm-ID: 211330 [Multi-domain] Cd Length: 167 Bit Score: 218.33 E-value: 3.80e-69
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757776129 105 RLWLYHKPSGLVTTNRDPEGRPTVFDNLPK-EMPRVVSVGRLDINTEGLLLLTNDGGLARVLELPLTGWVRKYRVRAHGK 183
Cdd:cd02556 1 RVLIYHKPEGLICTRKDPKGRPTVFDLLPKlGIPRWISVGRLDLNTEGLLLFTNDGELANRLMHPSNEIEREYAVRVFGQ 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757776129 184 IKQSELDKLKNGIAIDGIFYGSIDASIDREQGSNVWLSVALREGKNREIKNFLGVLGLSVNRLIRVSYGP-FQLSDLEEG 262
Cdd:cd02556 81 VTDEQLKSLKKGVELEDGFAGFKSIQLEGGEGKNSWYRVTLREGRNREVRRLWEAFGLQVSRLIRIRYGPiFLPGNLKRG 160
|
....*.
gi 757776129 263 AVRELK 268
Cdd:cd02556 161 QWEELP 166
|
|
| PRK10700 |
PRK10700 |
23S rRNA pseudouridine(2605) synthase RluB; |
44-256 |
1.36e-43 |
|
23S rRNA pseudouridine(2605) synthase RluB;
Pssm-ID: 182659 [Multi-domain] Cd Length: 289 Bit Score: 155.69 E-value: 1.36e-43
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757776129 44 SERIAKRLARAGIASRRDAEMMIIAGRIAVNGTVVTT-PVLNVIPSDHITVDE--IPIPPIERT--RLWLYHKPSGLVTT 118
Cdd:PRK10700 2 SEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIATLgDRVEVTPGLKIRIDGhlISVKESAEQicRVLAYYKPEGELCT 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757776129 119 NRDPEGRPTVFDNLPK-EMPRVVSVGRLDINTEGLLLLTNDGGLARVLELPLTGWVRKYRVRAHGKIKQSELDKLKNGIA 197
Cdd:PRK10700 82 RNDPEGRPTVFDRLPKlRGARWIAVGRLDVNTCGLLLFTTDGELANRLMHPSREVEREYAVRVFGQVDDAKLRQLSRGVQ 161
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....*....
gi 757776129 198 IDGIFYGSIDASIDREQGSNVWLSVALREGKNREIKNFLGVLGLSVNRLIRVSYGPFQL 256
Cdd:PRK10700 162 LEDGPAAFKTIKFSGGEGINQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPL 220
|
|
| PseudoU_synth_RsuA_like |
cd02870 |
Pseudouridine synthases, RsuA subfamily; Pseudouridine synthases are responsible for the ... |
108-251 |
1.10e-39 |
|
Pseudouridine synthases, RsuA subfamily; Pseudouridine synthases are responsible for the synthesis of pseudouridine from uracil in ribosomal RNA. The RsuA subfamily includes Pseudouridine Synthase similar to Ribosomal small subunit pseudouridine 516 synthase. Most of the proteins in this family are bacterial proteins.
Pssm-ID: 211347 [Multi-domain] Cd Length: 146 Bit Score: 140.32 E-value: 1.10e-39
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757776129 108 LYHKPSGLVTTNRDPEGRPTVFDNLPKEMPRVVSVGRLDINTEGLLLLTNDGGLARVLELPLTGWVRKYRVRAHGKIKQS 187
Cdd:cd02870 3 LLNKPRGVVSTVRDPEGRPTVLDLLKDVGERLFPVGRLDYDTEGLLLLTNDGELANRLTHPRYGVEKTYLVKVRGVPSEE 82
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....
gi 757776129 188 ELDKLKNGIAIDGIFYGSIDASIDREQGSNVWLSVALREGKNREIKNFLGVLGLSVNRLIRVSY 251
Cdd:cd02870 83 ELRRLRAGVELDDGKTAPAKVKVLSRDPKNTLLEVTLHEGRNRQVRRMFEAVGHPVLRLKRVRI 146
|
|
| PseudoU_synth_RsuA |
cd02553 |
Pseudouridine synthase, Escherichia coli RsuA like; This group is comprised of eukaryotic and ... |
110-267 |
2.30e-28 |
|
Pseudouridine synthase, Escherichia coli RsuA like; This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. E.coli RsuA makes psi516 in 16S RNA. Psi at this position is not generally conserved in other organisms.
Pssm-ID: 211327 [Multi-domain] Cd Length: 167 Bit Score: 110.30 E-value: 2.30e-28
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757776129 110 HKPSGLVTTNRDPEGrPTVFDNLPKEMPR--VVSVGRLDINTEGLLLLTNDGGLARVLELPLTGWVRKYRVRAHGKIKQS 187
Cdd:cd02553 6 NKPAGVVCATKDPHH-PTVIDLLPEPDRRrdLFPVGRLDKDTTGLLLLTNDGQLAHRLTSPKKHVPKTYEVTLAGPLTED 84
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757776129 188 ELDKLKNGIAIDGifyGSIDASIDREQGSNVWLSVALREGKNREIKNFLGVLGLSVNRLIRVSYGPFQL-SDLEEGAVRE 266
Cdd:cd02553 85 DIEAFAEGVLLHD---GYPTKPAKLEILSPTTVRLTITEGKYHQVKRMFAAVGNKVVALHRIRIGGLELdDDLAPGEWRP 161
|
.
gi 757776129 267 L 267
Cdd:cd02553 162 L 162
|
|
| TIGR00093 |
TIGR00093 |
pseudouridine synthase; This model identifies panels of pseudouridine synthase enzymes that ... |
142-267 |
1.55e-25 |
|
pseudouridine synthase; This model identifies panels of pseudouridine synthase enzymes that RNA modifications involved in maturing the protein translation apparatus. Counts per genome vary: two in Staphylococcus aureus, three in Pseudomonas putida, four in E. coli, etc. [Protein synthesis, tRNA and rRNA base modification]
Pssm-ID: 272902 Cd Length: 128 Bit Score: 101.25 E-value: 1.55e-25
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757776129 142 VGRLDINTEGLLLLTNDGGLARVLELPLTGWVRKYRVRAHGKIKQSELDKLKNGIAIDGIFYGSIDASIDREQGSNVWLS 221
Cdd:TIGR00093 1 VGRLDRDSEGLLLLTNDGELVHRLTHPGHHHEKEYLVTVEGPVTDEDLEALRKGVQLEDGKTKPAKLKVITEPGFPTWLR 80
|
90 100 110 120
....*....|....*....|....*....|....*....|....*.
gi 757776129 222 VALREGKNREIKNFLGVLGLSVNRLIRVSYGPFQLSDLEEGAVREL 267
Cdd:TIGR00093 81 VTLSEGRNRQVRRMFAAVGFPVLRLHRVRIGDVSLNGLPPGEWRPL 126
|
|
| PseudoU_synth_RluE |
cd02566 |
Pseudouridine synthase, Escherichia coli RluE; This group is comprised of bacterial proteins ... |
106-259 |
1.94e-23 |
|
Pseudouridine synthase, Escherichia coli RluE; This group is comprised of bacterial proteins similar to E. coli RluE. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. Escherichia coli RluE makes psi2457 in 23S RNA. psi2457 is not universally conserved.
Pssm-ID: 211334 [Multi-domain] Cd Length: 168 Bit Score: 96.68 E-value: 1.94e-23
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757776129 106 LWLYHKPSGLVTTNRD-PEGRPTVFDNLPkeMPRVVSVGRLDINTEGLLLLTNDGGLARVLELPLTGWVRKYRVRAHGKI 184
Cdd:cd02566 1 LILFNKPYGVLSQFTDeSEKHKTLKDYID--DPGVYAAGRLDRDSEGLLLLTDDGRLQHRITDPSFKHPKTYYVQVEGVP 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757776129 185 KQSELDKLKNGIAI-DG----IFYGSIDASI----------DREQGSNVWLSVALREGKNREIKNFLGVLGLSVNRLIRV 249
Cdd:cd02566 79 TEDALEQLRNGVELgDGltlpAKVEKVDEPPwlwereppirFRKNIPTSWIEITICEGKNRQVRRMTAAVGFPTLRLIRV 158
|
170
....*....|
gi 757776129 250 SYGPFQLSDL 259
Cdd:cd02566 159 SIGDIGLDNL 168
|
|
| PseudoU_synth_Rsu_Rlu_like |
cd02550 |
Pseudouridine synthase, Rsu/Rlu family; This group is comprised of eukaryotic, bacterial and ... |
108-251 |
7.41e-22 |
|
Pseudouridine synthase, Rsu/Rlu family; This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and TruA. Pseudouridine synthases catalyze the isomerization of specific uridines in a n RNA molecule to pseudouridines (5-ribosyluracil, psi) requiring no cofactors. E. coli RluC for example makes psi955, 2504 and 2580 in 23S RNA. Some psi sites such as psi1917 in 23S RNA made by RluD are universally conserved. Other psi sites occur in a more restricted fashion, for example psi2819 in 21S mitochondrial ribosomal RNA made by S. cerevisiae Pus5p is only found in mitochondrial large subunit rRNAs from some other species and in gram negative bacteria. The E. coli counterpart of this psi residue is psi2580 in 23S rRNA. psi2604in 23S RNA made by RluF has only been detected in E.coli.
Pssm-ID: 211325 [Multi-domain] Cd Length: 154 Bit Score: 92.05 E-value: 7.41e-22
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757776129 108 LYHKPSGLVTTNRDPEGRPTVFDNLPKE-MPRVVSVGRLDINTEGLLLLTNDGGLARVLELPLTGWVRKYRVRAHGKIKQ 186
Cdd:cd02550 3 VLNKPSGLVCHPTDRDRDPTVVVRLDKLhGPRVHAAGRLDKDTSGLLLLTNDGRLQRRLTEPRREIEKEYLVTVRGELDE 82
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 757776129 187 SELDKLKNGIAIDGifYGSIDA---------SIDREQGSNVWLSVALREGKNREIKNFLGVLGLSVNRLIRVSY 251
Cdd:cd02550 83 EGIEDLATVRRGRL--SGLVDEgvplavtkvRVIGEHGGTGRLRLTLKTGRTHQIRRHCAAVGFPVLRLHRVRI 154
|
|
| PRK11394 |
PRK11394 |
23S rRNA pseudouridine(2457) synthase RluE; |
99-266 |
3.05e-17 |
|
23S rRNA pseudouridine(2457) synthase RluE;
Pssm-ID: 183115 Cd Length: 217 Bit Score: 80.56 E-value: 3.05e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757776129 99 PPIERTRLWLYHKPSGLVTTNRDPEGRPTVFDNLPKEmpRVVSVGRLDINTEGLLLLTNDGGLARVLELPLTGWVRKYRV 178
Cdd:PRK11394 34 PENQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIPVQ--GVYAAGRLDRDSEGLLVLTNNGALQARLTQPGKRTGKIYYV 111
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757776129 179 RAHGKIKQSELDKLKNGIAI-DGifyGSIDASID---------------REQGS--NVWLSVALREGKNREIKNFLGVLG 240
Cdd:PRK11394 112 QVEGIPTQDALEALRNGVTLnDG---PTLPAGAElvdepawlwprnppiRERKSipTSWLKITLYEGRNRQVRRMTAHVG 188
|
170 180
....*....|....*....|....*.
gi 757776129 241 LSVNRLIRVSYGPFQLSDLEEGAVRE 266
Cdd:PRK11394 189 FPTLRLIRYAMGDYSLDNLANGEWRE 214
|
|
| PseudoU_synth_RluF |
cd02554 |
Pseudouridine synthase, Escherichia coli RluF like; This group is comprised of bacterial ... |
107-274 |
1.69e-16 |
|
Pseudouridine synthase, Escherichia coli RluF like; This group is comprised of bacterial proteins similar to Escherichia coli RluF. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. E.coli RluF makes psi2604 in 23S RNA. psi2604 has only been detected in E. coli. It is absent from other eubacteria despite a precursor U at that site and from eukarya and archea which lack a precursor U at that site.
Pssm-ID: 211328 [Multi-domain] Cd Length: 164 Bit Score: 76.96 E-value: 1.69e-16
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757776129 107 WLYHKPSGLVTTNRDPEgRPTVFDNLPKEmPRVVSVGRLDINTEGLLLLTNDGGLARVLELPLTGWVRKYRVRAHGKIKQ 186
Cdd:cd02554 3 IAYNKPVGIDCTLERAD-EDNIIDFVNPP-PRIFPIGRLDKDSEGLILLTNDGDLVNKILHADNNHEKEYLVTVNKPITD 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757776129 187 SELDKLKNGIAIdgifYGSIDASIDREQGSNVWLSVALREGKNREIKNFLGVLGLSVNRLIRVSYGPFQLSDLEEGAVRE 266
Cdd:cd02554 81 EFIEGMSNGVVI----LGTVTKPCKVERLAKDKFRIVLTQGLNRQIRRMCEALGYRVTDLKRVRIMNIELGDLAPGEWRP 156
|
....*...
gi 757776129 267 LKGRTLRD 274
Cdd:cd02554 157 LTDAELFE 164
|
|
| PSSA_1 |
cd02555 |
Pseudouridine synthase, a subgroup of the RsuA family; This group is comprised of bacterial ... |
108-267 |
4.06e-16 |
|
Pseudouridine synthase, a subgroup of the RsuA family; This group is comprised of bacterial proteins assigned to the RsuA family of pseudouridine synthases. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. The TruA family is comprised of proteins related to Escherichia coli RsuA.
Pssm-ID: 211329 [Multi-domain] Cd Length: 177 Bit Score: 76.29 E-value: 4.06e-16
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757776129 108 LYHKPSG---------LVTTNRDPEGRPTVfDNLPKEMPRVVSVGRLDINTEGLLLLTNDGGLARVLELPLTGWVRKYRV 178
Cdd:cd02555 8 LLHKPAGmvseqalalLGPGQRSAADRSGR-RPLKGHFARLAPIGPLDKDASGLLVFSQDGRVLRKLIGDASRLEQEYLV 86
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757776129 179 RAHGKIKQSELDKLKNGIAIDGIFYGSIDASIDREQGsnvwLSVALREGKNREIKNFLGVLGLSVNRLIRVSYGPFQLSD 258
Cdd:cd02555 87 EVRGELTAGGLERLNHGLTYDGRELPPAKVSWQNEQR----LRFALKEPQPGQIRRMCESVGLEVVALRRIRIGRVSLGK 162
|
....*....
gi 757776129 259 LEEGAVREL 267
Cdd:cd02555 163 LPLGQWRYL 171
|
|
| PRK10839 |
PRK10839 |
16S rRNA pseudouridine(516) synthase RsuA; |
46-267 |
2.41e-12 |
|
16S rRNA pseudouridine(516) synthase RsuA;
Pssm-ID: 236774 [Multi-domain] Cd Length: 232 Bit Score: 66.67 E-value: 2.41e-12
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757776129 46 RIAKRLARAGIASRRDAEMMIIAGRIAVNGTVVTTPVLNVIPSDHITVDEIPIPPIERTRLWLYHKPSGLVTTNRDPEgR 125
Cdd:PRK10839 2 RLDKFISQQLGVSRAIAGRELRANRVTVDGEIVKNGAFKLLPEHDVAYDGNPLAQQHGPRYFMLNKPQGYVCSTDDPD-H 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757776129 126 PTVFDNLPKEMP-RVVSVGRLDINTEGLLLLTNDGGLARVLELPLTGWVRKYRVRAHGKIKQSELDKLKNGIAIDGIFYG 204
Cdd:PRK10839 81 PTVLYFLDEPVAyKLHAAGRLDIDTTGLVLMTDDGQWSHRITSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHNEKDL 160
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....
gi 757776129 205 SIDASIDREQGSNVWLSVAlrEGKNREIKNFLGVLGLSVNRLIRVSYGPFQL-SDLEEGAVREL 267
Cdd:PRK10839 161 TKPAVLEVITPTQVRLTIS--EGRYHQVKRMFAAVGNHVVELHRERIGAITLdADLAPGEYRPL 222
|
|
| PRK10475 |
PRK10475 |
23S rRNA pseudouridine(2604) synthase RluF; |
44-267 |
2.06e-10 |
|
23S rRNA pseudouridine(2604) synthase RluF;
Pssm-ID: 236698 [Multi-domain] Cd Length: 290 Bit Score: 61.67 E-value: 2.06e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757776129 44 SERIAKRLARAGIASRRDAEMMIIAGRIAVNGTVVTTPVlNVIPSDHITVDEIPIPPIERTRLWL--YHKPSGLVTTNRD 121
Cdd:PRK10475 6 STRLNKYISESGICSRREADRYIEQGNVFINGKRATIGD-QVKAGDVVKVNGQLIEPREAEDLVLiaLNKPVGIVSTTED 84
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757776129 122 PEGRPTV-FDNLPKempRVVSVGRLDINTEGLLLLTNDGGLARVLELPLTGWVRKYRVRAHGKIKQSELDKLKNGIAIdg 200
Cdd:PRK10475 85 GERDNIVdFVNHSK---RVFPIGRLDKDSQGLIFLTNHGDLVNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPI-- 159
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 757776129 201 ifYGSIDASIDREQGSNVWLSVALREGKNREIKNFLGVLGLSVNRLIRVSYGPFQLSDLEEGAVREL 267
Cdd:PRK10475 160 --LGTVTKKCKVKKEAPFVFRITLVQGLNRQIRRMCEHFGYEVTKLERTRIMNVSLSGIPLGEWRDL 224
|
|
| PseudoU_synth_2 |
pfam00849 |
RNA pseudouridylate synthase; Members of this family are involved in modifying bases in RNA ... |
106-236 |
3.65e-09 |
|
RNA pseudouridylate synthase; Members of this family are involved in modifying bases in RNA molecules. They carry out the conversion of uracil bases to pseudouridine. This family includes RluD, a pseudouridylate synthase that converts specific uracils to pseudouridine in 23S rRNA. RluA from E. coli converts bases in both rRNA and tRNA.
Pssm-ID: 459961 [Multi-domain] Cd Length: 151 Bit Score: 55.49 E-value: 3.65e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757776129 106 LWLYHKPSGLVTTNRDPEGRPTVFDNLPK----EMPRVVSVGRLDINTEGLLLLTNDGGLARVLELPLTG-WVRK-YRVR 179
Cdd:pfam00849 1 YIVVNKPAGVPVHPTDSLTKLLSLLALLLrrelGVKRLYPVHRLDKNTSGLLLLAKDGEAANKLNKLFPErKIEKeYLAL 80
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 757776129 180 AHGKIKqsELDKLKNGIAIDGIFYGSIDASIDREQGS--------------NVWLSVALREGKNREIKNFL 236
Cdd:pfam00849 81 VDKPEE--EEGTIKSPIKKEKNKSPFRKEEELGGKKAvthlkvlksgskgdYSLLELELVTGRKHQIRAHL 149
|
|
| S4 |
cd00165 |
S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, ... |
45-102 |
1.35e-08 |
|
S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized functional similarity between these three protein classes.
Pssm-ID: 238095 [Multi-domain] Cd Length: 70 Bit Score: 51.48 E-value: 1.35e-08
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....*....
gi 757776129 45 ERIAKRLARAGIA-SRRDAEMMIIAGRIAVNGTVVTTPVLNVIPSDHITVDEIPIPPIE 102
Cdd:cd00165 1 MRLDKILARLGLApSRSEARQLIKHGHVLVNGKVVTKPSYKVKPGDVIEVDGKSIEEDI 59
|
|
| S4 |
smart00363 |
S4 RNA-binding domain; |
46-103 |
5.26e-06 |
|
S4 RNA-binding domain;
Pssm-ID: 214638 [Multi-domain] Cd Length: 60 Bit Score: 43.74 E-value: 5.26e-06
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....*....
gi 757776129 46 RIAKRLARAGIA-SRRDAEMMIIAGRIAVNGTVVTTPVLNVIPSDHITVDEIPIPPIER 103
Cdd:smart00363 2 RLDKFLARLGLApSRSQARRLIEQGRVKVNGKKVTKPSYIVKPGDVISVRGKELKRLKK 60
|
|
| S4 |
pfam01479 |
S4 domain; The S4 domain is a small domain consisting of 60-65 amino acid residues that was ... |
45-91 |
2.09e-05 |
|
S4 domain; The S4 domain is a small domain consisting of 60-65 amino acid residues that was detected in the bacterial ribosomal protein S4, eukaryotic ribosomal S9, two families of pseudouridine synthases, a novel family of predicted RNA methylases, a yeast protein containing a pseudouridine synthetase and a deaminase domain, bacterial tyrosyl-tRNA synthetases, and a number of uncharacterized, small proteins that may be involved in translation regulation. The S4 domain probably mediates binding to RNA.
Pssm-ID: 396182 [Multi-domain] Cd Length: 48 Bit Score: 41.71 E-value: 2.09e-05
10 20 30 40
....*....|....*....|....*....|....*....|....*...
gi 757776129 45 ERIAKRLARAGIA-SRRDAEMMIIAGRIAVNGTVVTTPVLNVIPSDHI 91
Cdd:pfam01479 1 RRLDKVLARLGLAsSRSQARQLIEHGRVLVNGKVVKDPSYRVKPGDEI 48
|
|
| PseudoU_synth_RluA_like |
cd02869 |
Pseudouridine synthase, RluA family; This group is comprised of eukaryotic, bacterial and ... |
110-229 |
6.89e-03 |
|
Pseudouridine synthase, RluA family; This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and TruA. Pseudouridine synthases catalyze the isomerization of specific uridines in a n RNA molecule to pseudouridines (5-ribosyluracil, psi) requiring no cofactors. E. coli RluC for example makes psi955, 2504 and 2580 in 23S RNA. Some psi sites such as psi1917 in 23S RNA made by RluD are universally conserved. Other psi sites occur in a more restricted fashion, for example psi2819 in 21S mitochondrial ribosomal RNA made by S. cerevisiae Pus5p is only found in mitochondrial large subunit rRNAs from some other species and in gram negative bacteria. The E. coli counterpart of this psi residue is psi2580 in 23S rRNA. psi2604in 23S RNA made by RluF has only been detected in E.coli.
Pssm-ID: 211346 [Multi-domain] Cd Length: 185 Bit Score: 37.70 E-value: 6.89e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757776129 110 HKPSGLVTTNRDPEGRPTVFDNLPKEM------PRVVSVGRLDINTEGLLLLT-NDGGLARVLELPLTGWVRK-YRVRAH 181
Cdd:cd02869 5 NKPAGLPVHPGPGHLTGTLVNALLKLLlllgeeFRPGLVHRLDKDTSGLLLVAkNKKAAAKLSKQFKERKVKKtYLALVD 84
|
90 100 110 120
....*....|....*....|....*....|....*....|....*...
gi 757776129 182 GKIKQSEldklkngiaidgifyGSIDASIDREQGSNVWLSVALREGKN 229
Cdd:cd02869 85 GKPPEDE---------------GTIDAPLGRKKRKKRARVVVSEDGKP 117
|
|
| |
