|
Name |
Accession |
Description |
Interval |
E-value |
| PRK10839 |
PRK10839 |
16S rRNA pseudouridine(516) synthase RsuA; |
1-229 |
8.72e-110 |
|
16S rRNA pseudouridine(516) synthase RsuA;
Pssm-ID: 236774 [Multi-domain] Cd Length: 232 Bit Score: 314.74 E-value: 8.72e-110
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 835526777 1 MRLDKFICESTSLTRSLAKKALHRGEITCDGVVVKDSGFKVLEGMQVCLDGEPIS-LVGERYLMLNKPVDTICSTIDEAY 79
Cdd:PRK10839 1 MRLDKFISQQLGVSRAIAGRELRANRVTVDGEIVKNGAFKLLPEHDVAYDGNPLAqQHGPRYFMLNKPQGYVCSTDDPDH 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 835526777 80 PSVLSLLDIEKPETLHIAGRLDADTTGLVLITSDGQWSHRITSPKKDCGKRYLVTLAEPVDESLIGVFAAGVELRNEDGL 159
Cdd:PRK10839 81 PTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHRITSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHNEKDL 160
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 835526777 160 TKPAVLEIIEPQLVRLTITEGKYHQVKRMFAAVGNHVVGLHRESIGKIELDSELALGEWRYLTSEEIASI 229
Cdd:PRK10839 161 TKPAVLEVITPTQVRLTISEGRYHQVKRMFAAVGNHVVELHRERIGAITLDADLAPGEYRPLTEEEIASV 230
|
|
| RsuA |
COG1187 |
Pseudouridylate synthase RsuA, specific for 16S rRNA U516 and 23S rRNA U2605 [Translation, ... |
1-222 |
1.58e-94 |
|
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: 275.76 E-value: 1.58e-94
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 835526777 1 MRLDKFICESTSLTRSLAKKALHRGEITCDGVVVKDSGFKVLEGMQVCLDGEPISLVGE-RYLMLNKPVDTICSTID-EA 78
Cdd:COG1187 3 MRLQKFLANAGVGSRREAEELIEAGRVTVNGKVVTELGTKVDPGDEVTVDGKPLKLPEEpVYLLLNKPAGVVSTTKDpEG 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 835526777 79 YPSVLSLLDIEKPETLHIAGRLDADTTGLVLITSDGQWSHRITSPKKDCGKRYLVTLAEPVDESLIGVFAAGVELrnEDG 158
Cdd:COG1187 83 RPTVFDLLPEARKERLFPVGRLDKDTEGLLLLTNDGELAHRLTHPKYGVEKEYLVRVDGPVTEEDLERLREGVEL--EDG 160
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 835526777 159 LTKPAVLEIIE---PQLVRLTITEGKYHQVKRMFAAVGNHVVGLHRESIGKIELDsELALGEWRYLT 222
Cdd:COG1187 161 PTKPAKVEILSgeaNTWLRITLTEGRNRQVRRMFEAVGLPVVRLKRVRIGPLTLG-DLPPGEWRELT 226
|
|
| PseudoU_synth_RsuA |
cd02553 |
Pseudouridine synthase, Escherichia coli RsuA like; This group is comprised of eukaryotic and ... |
60-226 |
1.87e-90 |
|
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: 263.23 E-value: 1.87e-90
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 835526777 60 RYLMLNKPVDTICSTIDEAYPSVLSLLDIE-KPETLHIAGRLDADTTGLVLITSDGQWSHRITSPKKDCGKRYLVTLAEP 138
Cdd:cd02553 1 VYLMLNKPAGVVCATKDPHHPTVIDLLPEPdRRRDLFPVGRLDKDTTGLLLLTNDGQLAHRLTSPKKHVPKTYEVTLAGP 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 835526777 139 VDESLIGVFAAGVELRNEDgLTKPAVLEIIEPQLVRLTITEGKYHQVKRMFAAVGNHVVGLHRESIGKIELDSELALGEW 218
Cdd:cd02553 81 LTEDDIEAFAEGVLLHDGY-PTKPAKLEILSPTTVRLTITEGKYHQVKRMFAAVGNKVVALHRIRIGGLELDDDLAPGEW 159
|
....*...
gi 835526777 219 RYLTSEEI 226
Cdd:cd02553 160 RPLTEEEL 167
|
|
| TIGR00093 |
TIGR00093 |
pseudouridine synthase; This model identifies panels of pseudouridine synthase enzymes that ... |
97-222 |
3.76e-51 |
|
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: 162.11 E-value: 3.76e-51
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 835526777 97 AGRLDADTTGLVLITSDGQWSHRITSPKKDCGKRYLVTLAEPVDESLIGVFAAGVELrnEDGLTKPAVLEIIE----PQL 172
Cdd:TIGR00093 1 VGRLDRDSEGLLLLTNDGELVHRLTHPGHHHEKEYLVTVEGPVTDEDLEALRKGVQL--EDGKTKPAKLKVITepgfPTW 78
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|
gi 835526777 173 VRLTITEGKYHQVKRMFAAVGNHVVGLHRESIGKIELDSeLALGEWRYLT 222
Cdd:TIGR00093 79 LRVTLSEGRNRQVRRMFAAVGFPVLRLHRVRIGDVSLNG-LPPGEWRPLT 127
|
|
| PseudoU_synth_2 |
pfam00849 |
RNA pseudouridylate synthase; Members of this family are involved in modifying bases in RNA ... |
61-191 |
7.14e-19 |
|
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: 79.76 E-value: 7.14e-19
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 835526777 61 YLMLNKPVDTICSTIDE----AYPSVLSLLDIEKPETLHIAGRLDADTTGLVLITSDGQWSHRIT--SPKKDCGKRYLVT 134
Cdd:pfam00849 1 YIVVNKPAGVPVHPTDSltklLSLLALLLRRELGVKRLYPVHRLDKNTSGLLLLAKDGEAANKLNklFPERKIEKEYLAL 80
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 835526777 135 LAEPVDE-----SLIGVFAAGVELRNEDGLTKPAVLEIIEP---------QLVRLTITEGKYHQVKRMFAA 191
Cdd:pfam00849 81 VDKPEEEegtikSPIKKEKNKSPFRKEEELGGKKAVTHLKVlksgskgdySLLELELVTGRKHQIRAHLAA 151
|
|
| S4 |
smart00363 |
S4 RNA-binding domain; |
1-57 |
4.35e-05 |
|
S4 RNA-binding domain;
Pssm-ID: 214638 [Multi-domain] Cd Length: 60 Bit Score: 40.27 E-value: 4.35e-05
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....*...
gi 835526777 1 MRLDKFICES-TSLTRSLAKKALHRGEITCDGVVVKDSGFKVLEGMQVCLDGEPISLV 57
Cdd:smart00363 1 RRLDKFLARLgLAPSRSQARRLIEQGRVKVNGKKVTKPSYIVKPGDVISVRGKELKRL 58
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| PRK10839 |
PRK10839 |
16S rRNA pseudouridine(516) synthase RsuA; |
1-229 |
8.72e-110 |
|
16S rRNA pseudouridine(516) synthase RsuA;
Pssm-ID: 236774 [Multi-domain] Cd Length: 232 Bit Score: 314.74 E-value: 8.72e-110
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 835526777 1 MRLDKFICESTSLTRSLAKKALHRGEITCDGVVVKDSGFKVLEGMQVCLDGEPIS-LVGERYLMLNKPVDTICSTIDEAY 79
Cdd:PRK10839 1 MRLDKFISQQLGVSRAIAGRELRANRVTVDGEIVKNGAFKLLPEHDVAYDGNPLAqQHGPRYFMLNKPQGYVCSTDDPDH 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 835526777 80 PSVLSLLDIEKPETLHIAGRLDADTTGLVLITSDGQWSHRITSPKKDCGKRYLVTLAEPVDESLIGVFAAGVELRNEDGL 159
Cdd:PRK10839 81 PTVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHRITSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHNEKDL 160
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 835526777 160 TKPAVLEIIEPQLVRLTITEGKYHQVKRMFAAVGNHVVGLHRESIGKIELDSELALGEWRYLTSEEIASI 229
Cdd:PRK10839 161 TKPAVLEVITPTQVRLTISEGRYHQVKRMFAAVGNHVVELHRERIGAITLDADLAPGEYRPLTEEEIASV 230
|
|
| RsuA |
COG1187 |
Pseudouridylate synthase RsuA, specific for 16S rRNA U516 and 23S rRNA U2605 [Translation, ... |
1-222 |
1.58e-94 |
|
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: 275.76 E-value: 1.58e-94
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 835526777 1 MRLDKFICESTSLTRSLAKKALHRGEITCDGVVVKDSGFKVLEGMQVCLDGEPISLVGE-RYLMLNKPVDTICSTID-EA 78
Cdd:COG1187 3 MRLQKFLANAGVGSRREAEELIEAGRVTVNGKVVTELGTKVDPGDEVTVDGKPLKLPEEpVYLLLNKPAGVVSTTKDpEG 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 835526777 79 YPSVLSLLDIEKPETLHIAGRLDADTTGLVLITSDGQWSHRITSPKKDCGKRYLVTLAEPVDESLIGVFAAGVELrnEDG 158
Cdd:COG1187 83 RPTVFDLLPEARKERLFPVGRLDKDTEGLLLLTNDGELAHRLTHPKYGVEKEYLVRVDGPVTEEDLERLREGVEL--EDG 160
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 835526777 159 LTKPAVLEIIE---PQLVRLTITEGKYHQVKRMFAAVGNHVVGLHRESIGKIELDsELALGEWRYLT 222
Cdd:COG1187 161 PTKPAKVEILSgeaNTWLRITLTEGRNRQVRRMFEAVGLPVVRLKRVRIGPLTLG-DLPPGEWRELT 226
|
|
| PseudoU_synth_RsuA |
cd02553 |
Pseudouridine synthase, Escherichia coli RsuA like; This group is comprised of eukaryotic and ... |
60-226 |
1.87e-90 |
|
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: 263.23 E-value: 1.87e-90
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 835526777 60 RYLMLNKPVDTICSTIDEAYPSVLSLLDIE-KPETLHIAGRLDADTTGLVLITSDGQWSHRITSPKKDCGKRYLVTLAEP 138
Cdd:cd02553 1 VYLMLNKPAGVVCATKDPHHPTVIDLLPEPdRRRDLFPVGRLDKDTTGLLLLTNDGQLAHRLTSPKKHVPKTYEVTLAGP 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 835526777 139 VDESLIGVFAAGVELRNEDgLTKPAVLEIIEPQLVRLTITEGKYHQVKRMFAAVGNHVVGLHRESIGKIELDSELALGEW 218
Cdd:cd02553 81 LTEDDIEAFAEGVLLHDGY-PTKPAKLEILSPTTVRLTITEGKYHQVKRMFAAVGNKVVALHRIRIGGLELDDDLAPGEW 159
|
....*...
gi 835526777 219 RYLTSEEI 226
Cdd:cd02553 160 RPLTEEEL 167
|
|
| TIGR00093 |
TIGR00093 |
pseudouridine synthase; This model identifies panels of pseudouridine synthase enzymes that ... |
97-222 |
3.76e-51 |
|
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: 162.11 E-value: 3.76e-51
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 835526777 97 AGRLDADTTGLVLITSDGQWSHRITSPKKDCGKRYLVTLAEPVDESLIGVFAAGVELrnEDGLTKPAVLEIIE----PQL 172
Cdd:TIGR00093 1 VGRLDRDSEGLLLLTNDGELVHRLTHPGHHHEKEYLVTVEGPVTDEDLEALRKGVQL--EDGKTKPAKLKVITepgfPTW 78
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|
gi 835526777 173 VRLTITEGKYHQVKRMFAAVGNHVVGLHRESIGKIELDSeLALGEWRYLT 222
Cdd:TIGR00093 79 LRVTLSEGRNRQVRRMFAAVGFPVLRLHRVRIGDVSLNG-LPPGEWRPLT 127
|
|
| PseudoU_synth_RsuA_like |
cd02870 |
Pseudouridine synthases, RsuA subfamily; Pseudouridine synthases are responsible for the ... |
61-204 |
1.44e-47 |
|
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: 153.80 E-value: 1.44e-47
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 835526777 61 YLMLNKPVDTICSTIDEAYPSVLSLLDIEKPETLHIAGRLDADTTGLVLITSDGQWSHRITSPKKDCGKRYLVTLAEPVD 140
Cdd:cd02870 1 YLLLNKPRGVVSTVRDPEGRPTVLDLLKDVGERLFPVGRLDYDTEGLLLLTNDGELANRLTHPRYGVEKTYLVKVRGVPS 80
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 835526777 141 ESLIGVFAAGVELrnEDGLTKPAVLEIIEPQ----LVRLTITEGKYHQVKRMFAAVGNHVVGLHRESI 204
Cdd:cd02870 81 EEELRRLRAGVEL--DDGKTAPAKVKVLSRDpkntLLEVTLHEGRNRQVRRMFEAVGHPVLRLKRVRI 146
|
|
| PseudoU_synth_Rsu_Rlu_like |
cd02550 |
Pseudouridine synthase, Rsu/Rlu family; This group is comprised of eukaryotic, bacterial and ... |
61-204 |
2.78e-41 |
|
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: 137.89 E-value: 2.78e-41
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 835526777 61 YLMLNKPVDTICSTID-EAYPSVLSLLDIEKPETLHIAGRLDADTTGLVLITSDGQWSHRITSPKKDCGKRYLVTLAEPV 139
Cdd:cd02550 1 ILVLNKPSGLVCHPTDrDRDPTVVVRLDKLHGPRVHAAGRLDKDTSGLLLLTNDGRLQRRLTEPRREIEKEYLVTVRGEL 80
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 835526777 140 DESLIGVFA-----AGVELRNEDGLTKPAVLEIIEPQ----LVRLTITEGKYHQVKRMFAAVGNHVVGLHRESI 204
Cdd:cd02550 81 DEEGIEDLAtvrrgRLSGLVDEGVPLAVTKVRVIGEHggtgRLRLTLKTGRTHQIRRHCAAVGFPVLRLHRVRI 154
|
|
| PseudoU_synth_RluF |
cd02554 |
Pseudouridine synthase, Escherichia coli RluF like; This group is comprised of bacterial ... |
61-228 |
3.06e-37 |
|
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: 127.81 E-value: 3.06e-37
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 835526777 61 YLMLNKPVDTICSTIDEAYPSvlSLLDIEKPETLHIAGRLDADTTGLVLITSDGQWSHRITSPKKDCGKRYLVTLAEPVD 140
Cdd:cd02554 2 YIAYNKPVGIDCTLERADEDN--IIDFVNPPPRIFPIGRLDKDSEGLILLTNDGDLVNKILHADNNHEKEYLVTVNKPIT 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 835526777 141 ESLIGVFAAGVELRneDGLTKPAVLEIIEPQLVRLTITEGKYHQVKRMFAAVGNHVVGLHRESIGKIELDSeLALGEWRY 220
Cdd:cd02554 80 DEFIEGMSNGVVIL--GTVTKPCKVERLAKDKFRIVLTQGLNRQIRRMCEALGYRVTDLKRVRIMNIELGD-LAPGEWRP 156
|
....*...
gi 835526777 221 LTSEEIAS 228
Cdd:cd02554 157 LTDAELFE 164
|
|
| PseudoU_synth_RluE |
cd02566 |
Pseudouridine synthase, Escherichia coli RluE; This group is comprised of bacterial proteins ... |
61-210 |
4.69e-30 |
|
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: 109.39 E-value: 4.69e-30
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 835526777 61 YLMLNKPVDTICSTIDEA--YPSVLSLLDIEKpetLHIAGRLDADTTGLVLITSDGQWSHRITSPKKDCGKRYLVTLAEP 138
Cdd:cd02566 1 LILFNKPYGVLSQFTDESekHKTLKDYIDDPG---VYAAGRLDRDSEGLLLLTDDGRLQHRITDPSFKHPKTYYVQVEGV 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 835526777 139 VDESLIGVFAAGVELRneDGLTKPAVLEII--EPQL-----------------VRLTITEGKYHQVKRMFAAVGNHVVGL 199
Cdd:cd02566 78 PTEDALEQLRNGVELG--DGLTLPAKVEKVdePPWLwereppirfrkniptswIEITICEGKNRQVRRMTAAVGFPTLRL 155
|
170
....*....|.
gi 835526777 200 HRESIGKIELD 210
Cdd:cd02566 156 IRVSIGDIGLD 166
|
|
| PRK10475 |
PRK10475 |
23S rRNA pseudouridine(2604) synthase RluF; |
1-227 |
7.78e-22 |
|
23S rRNA pseudouridine(2604) synthase RluF;
Pssm-ID: 236698 [Multi-domain] Cd Length: 290 Bit Score: 90.95 E-value: 7.78e-22
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 835526777 1 MRLDKFICESTSLTRSLAKKALHRGEITCDG--VVVKDsgfKVLEGMQVCLDGEPI------SLVgerYLMLNKPVDTIC 72
Cdd:PRK10475 7 TRLNKYISESGICSRREADRYIEQGNVFINGkrATIGD---QVKAGDVVKVNGQLIepreaeDLV---LIALNKPVGIVS 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 835526777 73 STIDEAYPSVLSLLDIEKpETLHIaGRLDADTTGLVLITSDGQWSHRITSPKKDCGKRYLVTLAEPVDESLIGVFAAGVE 152
Cdd:PRK10475 81 TTEDGERDNIVDFVNHSK-RVFPI-GRLDKDSQGLIFLTNHGDLVNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVP 158
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 835526777 153 LRNEdgLTKPAVLEIIEPQLVRLTITEGKYHQVKRMFAAVGNHVVGLHRESIGKIELdSELALGEWRYLTSEEIA 227
Cdd:PRK10475 159 ILGT--VTKKCKVKKEAPFVFRITLVQGLNRQIRRMCEHFGYEVTKLERTRIMNVSL-SGIPLGEWRDLTDDELI 230
|
|
| PseudoU_synth_RluB |
cd02556 |
Pseudouridine synthase, Escherichia coli RluB like; This group is comprised of bacterial and ... |
60-223 |
1.01e-19 |
|
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: 82.36 E-value: 1.01e-19
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 835526777 60 RYLMLNKPVDTICSTID-EAYPSVLSLLDIEKPETLHIAGRLDADTTGLVLITSDGQWSHRITSPKKDCGKRYLVTLAEP 138
Cdd:cd02556 1 RVLIYHKPEGLICTRKDpKGRPTVFDLLPKLGIPRWISVGRLDLNTEGLLLFTNDGELANRLMHPSNEIEREYAVRVFGQ 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 835526777 139 VDESLIGVFAAGVELrnEDGLTKPavleiIEPQL---------VRLTITEGKYHQVKRMFAAVGNHVVGLHRESIGKIEL 209
Cdd:cd02556 81 VTDEQLKSLKKGVEL--EDGFAGF-----KSIQLeggegknswYRVTLREGRNREVRRLWEAFGLQVSRLIRIRYGPIFL 153
|
170
....*....|....
gi 835526777 210 DSELALGEWRYLTS 223
Cdd:cd02556 154 PGNLKRGQWEELPP 167
|
|
| PRK11394 |
PRK11394 |
23S rRNA pseudouridine(2457) synthase RluE; |
60-222 |
1.62e-19 |
|
23S rRNA pseudouridine(2457) synthase RluE;
Pssm-ID: 183115 Cd Length: 217 Bit Score: 83.25 E-value: 1.62e-19
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 835526777 60 RYLMLNKPVDTICSTIDEAYPSVLSllDIEKPETLHIAGRLDADTTGLVLITSDGQWSHRITSPKKDCGKRYLVTLAEPV 139
Cdd:PRK11394 40 RVILFNKPYDVLPQFTDEAGRKTLK--EFIPVQGVYAAGRLDRDSEGLLVLTNNGALQARLTQPGKRTGKIYYVQVEGIP 117
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 835526777 140 DESLIGVFAAGVELrnEDGLTKPAVLEII-EPQLV------------------RLTITEGKYHQVKRMFAAVGNHVVGLH 200
Cdd:PRK11394 118 TQDALEALRNGVTL--NDGPTLPAGAELVdEPAWLwprnppirerksiptswlKITLYEGRNRQVRRMTAHVGFPTLRLI 195
|
170 180
....*....|....*....|..
gi 835526777 201 RESIGKIELDSeLALGEWRYLT 222
Cdd:PRK11394 196 RYAMGDYSLDN-LANGEWREAT 216
|
|
| PseudoU_synth_2 |
pfam00849 |
RNA pseudouridylate synthase; Members of this family are involved in modifying bases in RNA ... |
61-191 |
7.14e-19 |
|
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: 79.76 E-value: 7.14e-19
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 835526777 61 YLMLNKPVDTICSTIDE----AYPSVLSLLDIEKPETLHIAGRLDADTTGLVLITSDGQWSHRIT--SPKKDCGKRYLVT 134
Cdd:pfam00849 1 YIVVNKPAGVPVHPTDSltklLSLLALLLRRELGVKRLYPVHRLDKNTSGLLLLAKDGEAANKLNklFPERKIEKEYLAL 80
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 835526777 135 LAEPVDE-----SLIGVFAAGVELRNEDGLTKPAVLEIIEP---------QLVRLTITEGKYHQVKRMFAA 191
Cdd:pfam00849 81 VDKPEEEegtikSPIKKEKNKSPFRKEEELGGKKAVTHLKVlksgskgdySLLELELVTGRKHQIRAHLAA 151
|
|
| PRK10700 |
PRK10700 |
23S rRNA pseudouridine(2605) synthase RluB; |
2-226 |
2.68e-17 |
|
23S rRNA pseudouridine(2605) synthase RluB;
Pssm-ID: 182659 [Multi-domain] Cd Length: 289 Bit Score: 78.65 E-value: 2.68e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 835526777 2 RLDKFICESTSLTRSLAKKALHRGEITCDGVVVK-DSGFKVLEGMQVCLDGEPISlVGE------RYLMLNKPVDTICST 74
Cdd:PRK10700 4 KLQKVLARAGHGSRREIESIIEAGRVSVDGKIATlGDRVEVTPGLKIRIDGHLIS-VKEsaeqicRVLAYYKPEGELCTR 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 835526777 75 ID-EAYPSVLSLLDIEKPETLHIAGRLDADTTGLVLITSDGQWSHRITSPKKDCGKRYLVTLAEPVDESLIGVFAAGVEL 153
Cdd:PRK10700 83 NDpEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTDGELANRLMHPSREVEREYAVRVFGQVDDAKLRQLSRGVQL 162
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 835526777 154 rnEDGltkPAVLEIIE-------PQLVRLTITEGKYHQVKRMFAAVGNHVVGLHRESIGKIELDSELALGEWRYLTSEEI 226
Cdd:PRK10700 163 --EDG---PAAFKTIKfsggegiNQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGGWTELDLAQT 237
|
|
| PSSA_1 |
cd02555 |
Pseudouridine synthase, a subgroup of the RsuA family; This group is comprised of bacterial ... |
62-225 |
1.50e-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: 74.36 E-value: 1.50e-16
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 835526777 62 LMLNKPVDTICSTIDEAY-PSVLSLLDIEKPETLH-------IAGRLDADTTGLVLITSDGQWSHRITSPKKDCGKRYLV 133
Cdd:cd02555 7 LLLHKPAGMVSEQALALLgPGQRSAADRSGRRPLKghfarlaPIGPLDKDASGLLVFSQDGRVLRKLIGDASRLEQEYLV 86
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 835526777 134 TLA-EPVDESL----IGVFAAGVELRnedgltkPAVLEIIEPQLVRLTITEGKYHQVKRMFAAVGNHVVGLHRESIGKIE 208
Cdd:cd02555 87 EVRgELTAGGLerlnHGLTYDGRELP-------PAKVSWQNEQRLRFALKEPQPGQIRRMCESVGLEVVALRRIRIGRVS 159
|
170
....*....|....*..
gi 835526777 209 LdSELALGEWRYLTSEE 225
Cdd:cd02555 160 L-GKLPLGQWRYLTTGE 175
|
|
| PseudoU_synth_RluA_like |
cd02869 |
Pseudouridine synthase, RluA family; This group is comprised of eukaryotic, bacterial and ... |
61-198 |
3.54e-08 |
|
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: 51.57 E-value: 3.54e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 835526777 61 YLMLNKPVDTIC------STIDEAYPSVLSLLDIEKPETLHIAGRLDADTTGLVLITSDGQWSHRITS--PKKDCGKRYL 132
Cdd:cd02869 1 LLVVNKPAGLPVhpgpghLTGTLVNALLKLLLLLGEEFRPGLVHRLDKDTSGLLLVAKNKKAAAKLSKqfKERKVKKTYL 80
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 835526777 133 ------VTLAEPVDESLIGVFAAGVELRNEDGL-TKPA-----VLEIIEPQ-LVRLTITEGKYHQVKRMFAAVGNHVVG 198
Cdd:cd02869 81 alvdgkPPEDEGTIDAPLGRKKRKKRARVVVSEdGKPAithykVLERFGNVtLVELQLETGRTHQIRVHLASIGHPIVG 159
|
|
| S4 |
cd00165 |
S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, ... |
1-65 |
1.10e-07 |
|
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: 47.63 E-value: 1.10e-07
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 835526777 1 MRLDKFICES-TSLTRSLAKKALHRGEITCDGVVVKDSGFKVLEGMQVCLDGEPISLV----GERYLMLN 65
Cdd:cd00165 1 MRLDKILARLgLAPSRSEARQLIKHGHVLVNGKVVTKPSYKVKPGDVIEVDGKSIEEDivyeDKKLLVVN 70
|
|
| S4 |
pfam01479 |
S4 domain; The S4 domain is a small domain consisting of 60-65 amino acid residues that was ... |
1-47 |
1.11e-06 |
|
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: 44.41 E-value: 1.11e-06
10 20 30 40
....*....|....*....|....*....|....*....|....*...
gi 835526777 1 MRLDKFICEST-SLTRSLAKKALHRGEITCDGVVVKDSGFKVLEGMQV 47
Cdd:pfam01479 1 RRLDKVLARLGlASSRSQARQLIEHGRVLVNGKVVKDPSYRVKPGDEI 48
|
|
| S4 |
smart00363 |
S4 RNA-binding domain; |
1-57 |
4.35e-05 |
|
S4 RNA-binding domain;
Pssm-ID: 214638 [Multi-domain] Cd Length: 60 Bit Score: 40.27 E-value: 4.35e-05
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....*...
gi 835526777 1 MRLDKFICES-TSLTRSLAKKALHRGEITCDGVVVKDSGFKVLEGMQVCLDGEPISLV 57
Cdd:smart00363 1 RRLDKFLARLgLAPSRSQARRLIEQGRVKVNGKKVTKPSYIVKPGDVISVRGKELKRL 58
|
|
| |
