|
Name |
Accession |
Description |
Interval |
E-value |
| RsuA |
COG1187 |
Pseudouridylate synthase RsuA, specific for 16S rRNA U516 and 23S rRNA U2605 [Translation, ... |
1-223 |
1.05e-86 |
|
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: 256.11 E-value: 1.05e-86
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1487760461 1 MLLEKMLQSQGFGSRKHCQQLIKNGAIKIQGEVQTDIKHRVKLED--------LNfsvyaqdyTYREKVYIALNKPQGFE 72
Cdd:COG1187 3 MRLQKFLANAGVGSRREAEELIEAGRVTVNGKVVTELGTKVDPGDevtvdgkpLK--------LPEEPVYLLLNKPAGVV 74
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1487760461 73 CSHQ-PQYHQSVFNLFPDLLRERgLAAVGRLDQDTTGLLLLTDDGQFLHALTHPKRHVPKIYHVTTLDPISQEQLIALEN 151
Cdd:COG1187 75 STTKdPEGRPTVFDLLPEARKER-LFPVGRLDKDTEGLLLLTNDGELAHRLTHPKYGVEKEYLVRVDGPVTEEDLERLRE 153
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1487760461 152 GVELhnEKGIFAATDVHLLN---EYQVSLTIHQGVYHQVKRMLAAVGNKVQALHRQQIGELDLPELELGEWIYLN 223
Cdd:COG1187 154 GVEL--EDGPTKPAKVEILSgeaNTWLRITLTEGRNRQVRRMFEAVGLPVVRLKRVRIGPLTLGDLPPGEWRELT 226
|
|
| PseudoU_synth_RsuA |
cd02553 |
Pseudouridine synthase, Escherichia coli RsuA like; This group is comprised of eukaryotic and ... |
61-227 |
1.01e-79 |
|
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: 236.26 E-value: 1.01e-79
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1487760461 61 VYIALNKPQGFECSHQPQYHQSVFNLFPDLLRERGLAAVGRLDQDTTGLLLLTDDGQFLHALTHPKRHVPKIYHVTTLDP 140
Cdd:cd02553 1 VYLMLNKPAGVVCATKDPHHPTVIDLLPEPDRRRDLFPVGRLDKDTTGLLLLTNDGQLAHRLTSPKKHVPKTYEVTLAGP 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1487760461 141 ISQEQLIALENGVELHNEKgIFAATDVHLLNEYQVSLTIHQGVYHQVKRMLAAVGNKVQALHRQQIGELDLPE-LELGEW 219
Cdd:cd02553 81 LTEDDIEAFAEGVLLHDGY-PTKPAKLEILSPTTVRLTITEGKYHQVKRMFAAVGNKVVALHRIRIGGLELDDdLAPGEW 159
|
....*...
gi 1487760461 220 IYLNKAQI 227
Cdd:cd02553 160 RPLTEEEL 167
|
|
| PRK10839 |
PRK10839 |
16S rRNA pseudouridine(516) synthase RsuA; |
20-227 |
6.16e-48 |
|
16S rRNA pseudouridine(516) synthase RsuA;
Pssm-ID: 236774 [Multi-domain] Cd Length: 232 Bit Score: 157.96 E-value: 6.16e-48
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1487760461 20 QLIKNGAIKIQGEvqtdikHRVKLEDlnfSVYAQDYTYRekvYIALNKPQGFECSHQPQYHQSVFnLFPDLLRERGLAAV 99
Cdd:PRK10839 32 EIVKNGAFKLLPE------HDVAYDG---NPLAQQHGPR---YFMLNKPQGYVCSTDDPDHPTVL-YFLDEPVAYKLHAA 98
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1487760461 100 GRLDQDTTGLLLLTDDGQFLHALTHPKRHVPKIYHVTTLDPISQEQLIALENGVELHNEKGIFAATDVHLLNEYQVSLTI 179
Cdd:PRK10839 99 GRLDIDTTGLVLMTDDGQWSHRITSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHNEKDLTKPAVLEVITPTQVRLTI 178
|
170 180 190 200
....*....|....*....|....*....|....*....|....*....
gi 1487760461 180 HQGVYHQVKRMLAAVGNKVQALHRQQIGELDL-PELELGEWIYLNKAQI 227
Cdd:PRK10839 179 SEGRYHQVKRMFAAVGNHVVELHRERIGAITLdADLAPGEYRPLTEEEI 227
|
|
| TIGR00093 |
TIGR00093 |
pseudouridine synthase; This model identifies panels of pseudouridine synthase enzymes that ... |
99-223 |
1.08e-41 |
|
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: 138.23 E-value: 1.08e-41
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1487760461 99 VGRLDQDTTGLLLLTDDGQFLHALTHPKRHVPKIYHVTTLDPISQEQLIALENGVELHNEKGIFAATDVHLLNE--YQVS 176
Cdd:TIGR00093 1 VGRLDRDSEGLLLLTNDGELVHRLTHPGHHHEKEYLVTVEGPVTDEDLEALRKGVQLEDGKTKPAKLKVITEPGfpTWLR 80
|
90 100 110 120
....*....|....*....|....*....|....*....|....*..
gi 1487760461 177 LTIHQGVYHQVKRMLAAVGNKVQALHRQQIGELDLPELELGEWIYLN 223
Cdd:TIGR00093 81 VTLSEGRNRQVRRMFAAVGFPVLRLHRVRIGDVSLNGLPPGEWRPLT 127
|
|
| PseudoU_synth_2 |
pfam00849 |
RNA pseudouridylate synthase; Members of this family are involved in modifying bases in RNA ... |
62-193 |
6.39e-18 |
|
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: 77.45 E-value: 6.39e-18
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1487760461 62 YIALNKPQGFECSHQPQYH---QSVFNLFPDLLRERGLAAVGRLDQDTTGLLLLTDDGQFLHALTH--PKRHVPKIYHVT 136
Cdd:pfam00849 1 YIVVNKPAGVPVHPTDSLTkllSLLALLLRRELGVKRLYPVHRLDKNTSGLLLLAKDGEAANKLNKlfPERKIEKEYLAL 80
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1487760461 137 TLDPISQEQLI-----ALENGVELHNEKGIF---AATDVHLL------NEYQVSLTIHQGVYHQVKRMLAA 193
Cdd:pfam00849 81 VDKPEEEEGTIkspikKEKNKSPFRKEEELGgkkAVTHLKVLksgskgDYSLLELELVTGRKHQIRAHLAA 151
|
|
| S4 |
smart00363 |
S4 RNA-binding domain; |
1-45 |
8.39e-07 |
|
S4 RNA-binding domain;
Pssm-ID: 214638 [Multi-domain] Cd Length: 60 Bit Score: 44.89 E-value: 8.39e-07
10 20 30 40
....*....|....*....|....*....|....*....|....*.
gi 1487760461 1 MLLEKMLQSQGFG-SRKHCQQLIKNGAIKIQGEVQTDIKHRVKLED 45
Cdd:smart00363 1 RRLDKFLARLGLApSRSQARRLIEQGRVKVNGKKVTKPSYIVKPGD 46
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| RsuA |
COG1187 |
Pseudouridylate synthase RsuA, specific for 16S rRNA U516 and 23S rRNA U2605 [Translation, ... |
1-223 |
1.05e-86 |
|
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: 256.11 E-value: 1.05e-86
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1487760461 1 MLLEKMLQSQGFGSRKHCQQLIKNGAIKIQGEVQTDIKHRVKLED--------LNfsvyaqdyTYREKVYIALNKPQGFE 72
Cdd:COG1187 3 MRLQKFLANAGVGSRREAEELIEAGRVTVNGKVVTELGTKVDPGDevtvdgkpLK--------LPEEPVYLLLNKPAGVV 74
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1487760461 73 CSHQ-PQYHQSVFNLFPDLLRERgLAAVGRLDQDTTGLLLLTDDGQFLHALTHPKRHVPKIYHVTTLDPISQEQLIALEN 151
Cdd:COG1187 75 STTKdPEGRPTVFDLLPEARKER-LFPVGRLDKDTEGLLLLTNDGELAHRLTHPKYGVEKEYLVRVDGPVTEEDLERLRE 153
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1487760461 152 GVELhnEKGIFAATDVHLLN---EYQVSLTIHQGVYHQVKRMLAAVGNKVQALHRQQIGELDLPELELGEWIYLN 223
Cdd:COG1187 154 GVEL--EDGPTKPAKVEILSgeaNTWLRITLTEGRNRQVRRMFEAVGLPVVRLKRVRIGPLTLGDLPPGEWRELT 226
|
|
| PseudoU_synth_RsuA |
cd02553 |
Pseudouridine synthase, Escherichia coli RsuA like; This group is comprised of eukaryotic and ... |
61-227 |
1.01e-79 |
|
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: 236.26 E-value: 1.01e-79
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1487760461 61 VYIALNKPQGFECSHQPQYHQSVFNLFPDLLRERGLAAVGRLDQDTTGLLLLTDDGQFLHALTHPKRHVPKIYHVTTLDP 140
Cdd:cd02553 1 VYLMLNKPAGVVCATKDPHHPTVIDLLPEPDRRRDLFPVGRLDKDTTGLLLLTNDGQLAHRLTSPKKHVPKTYEVTLAGP 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1487760461 141 ISQEQLIALENGVELHNEKgIFAATDVHLLNEYQVSLTIHQGVYHQVKRMLAAVGNKVQALHRQQIGELDLPE-LELGEW 219
Cdd:cd02553 81 LTEDDIEAFAEGVLLHDGY-PTKPAKLEILSPTTVRLTITEGKYHQVKRMFAAVGNKVVALHRIRIGGLELDDdLAPGEW 159
|
....*...
gi 1487760461 220 IYLNKAQI 227
Cdd:cd02553 160 RPLTEEEL 167
|
|
| PRK10839 |
PRK10839 |
16S rRNA pseudouridine(516) synthase RsuA; |
20-227 |
6.16e-48 |
|
16S rRNA pseudouridine(516) synthase RsuA;
Pssm-ID: 236774 [Multi-domain] Cd Length: 232 Bit Score: 157.96 E-value: 6.16e-48
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1487760461 20 QLIKNGAIKIQGEvqtdikHRVKLEDlnfSVYAQDYTYRekvYIALNKPQGFECSHQPQYHQSVFnLFPDLLRERGLAAV 99
Cdd:PRK10839 32 EIVKNGAFKLLPE------HDVAYDG---NPLAQQHGPR---YFMLNKPQGYVCSTDDPDHPTVL-YFLDEPVAYKLHAA 98
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1487760461 100 GRLDQDTTGLLLLTDDGQFLHALTHPKRHVPKIYHVTTLDPISQEQLIALENGVELHNEKGIFAATDVHLLNEYQVSLTI 179
Cdd:PRK10839 99 GRLDIDTTGLVLMTDDGQWSHRITSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHNEKDLTKPAVLEVITPTQVRLTI 178
|
170 180 190 200
....*....|....*....|....*....|....*....|....*....
gi 1487760461 180 HQGVYHQVKRMLAAVGNKVQALHRQQIGELDL-PELELGEWIYLNKAQI 227
Cdd:PRK10839 179 SEGRYHQVKRMFAAVGNHVVELHRERIGAITLdADLAPGEYRPLTEEEI 227
|
|
| PseudoU_synth_RsuA_like |
cd02870 |
Pseudouridine synthases, RsuA subfamily; Pseudouridine synthases are responsible for the ... |
62-206 |
7.28e-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: 152.26 E-value: 7.28e-47
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1487760461 62 YIALNKPQGFECS-HQPQYHQSVFNLFPDllRERGLAAVGRLDQDTTGLLLLTDDGQFLHALTHPKRHVPKIYHVTTLDP 140
Cdd:cd02870 1 YLLLNKPRGVVSTvRDPEGRPTVLDLLKD--VGERLFPVGRLDYDTEGLLLLTNDGELANRLTHPRYGVEKTYLVKVRGV 78
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1487760461 141 ISQEQLIALENGVELhnEKGIFAATDVHLLNE----YQVSLTIHQGVYHQVKRMLAAVGNKVQALHRQQI 206
Cdd:cd02870 79 PSEEELRRLRAGVEL--DDGKTAPAKVKVLSRdpknTLLEVTLHEGRNRQVRRMFEAVGHPVLRLKRVRI 146
|
|
| TIGR00093 |
TIGR00093 |
pseudouridine synthase; This model identifies panels of pseudouridine synthase enzymes that ... |
99-223 |
1.08e-41 |
|
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: 138.23 E-value: 1.08e-41
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1487760461 99 VGRLDQDTTGLLLLTDDGQFLHALTHPKRHVPKIYHVTTLDPISQEQLIALENGVELHNEKGIFAATDVHLLNE--YQVS 176
Cdd:TIGR00093 1 VGRLDRDSEGLLLLTNDGELVHRLTHPGHHHEKEYLVTVEGPVTDEDLEALRKGVQLEDGKTKPAKLKVITEPGfpTWLR 80
|
90 100 110 120
....*....|....*....|....*....|....*....|....*..
gi 1487760461 177 LTIHQGVYHQVKRMLAAVGNKVQALHRQQIGELDLPELELGEWIYLN 223
Cdd:TIGR00093 81 VTLSEGRNRQVRRMFAAVGFPVLRLHRVRIGDVSLNGLPPGEWRPLT 127
|
|
| PseudoU_synth_Rsu_Rlu_like |
cd02550 |
Pseudouridine synthase, Rsu/Rlu family; This group is comprised of eukaryotic, bacterial and ... |
62-206 |
3.20e-31 |
|
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: 112.47 E-value: 3.20e-31
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1487760461 62 YIALNKPQGFECSHQPQYH-QSVFNLFPDLLRERgLAAVGRLDQDTTGLLLLTDDGQFLHALTHPKRHVPKIYHVTT--- 137
Cdd:cd02550 1 ILVLNKPSGLVCHPTDRDRdPTVVVRLDKLHGPR-VHAAGRLDKDTSGLLLLTNDGRLQRRLTEPRREIEKEYLVTVrge 79
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1487760461 138 LDP--ISQEQLIALENGVELHNEKGIFAATDVHLLNEY----QVSLTIHQGVYHQVKRMLAAVGNKVQALHRQQI 206
Cdd:cd02550 80 LDEegIEDLATVRRGRLSGLVDEGVPLAVTKVRVIGEHggtgRLRLTLKTGRTHQIRRHCAAVGFPVLRLHRVRI 154
|
|
| PseudoU_synth_RluB |
cd02556 |
Pseudouridine synthase, Escherichia coli RluB like; This group is comprised of bacterial and ... |
63-224 |
2.97e-30 |
|
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: 110.09 E-value: 2.97e-30
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1487760461 63 IALNKPQGFECSHQ-PQYHQSVFNLFPDLLRERgLAAVGRLDQDTTGLLLLTDDGQFLHALTHPKRHVPKIYHVTTLDPI 141
Cdd:cd02556 3 LIYHKPEGLICTRKdPKGRPTVFDLLPKLGIPR-WISVGRLDLNTEGLLLFTNDGELANRLMHPSNEIEREYAVRVFGQV 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1487760461 142 SQEQLIALENGVELhnEKGIFAATDVHLLNE------YQVSLTihQGVYHQVKRMLAAVGNKVQALHRQQIGELDLPE-L 214
Cdd:cd02556 82 TDEQLKSLKKGVEL--EDGFAGFKSIQLEGGegknswYRVTLR--EGRNREVRRLWEAFGLQVSRLIRIRYGPIFLPGnL 157
|
170
....*....|
gi 1487760461 215 ELGEWIYLNK 224
Cdd:cd02556 158 KRGQWEELPP 167
|
|
| PseudoU_synth_RluF |
cd02554 |
Pseudouridine synthase, Escherichia coli RluF like; This group is comprised of bacterial ... |
61-228 |
5.48e-29 |
|
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: 107.01 E-value: 5.48e-29
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1487760461 61 VYIALNKPQGFECSHQPQYHQSVFNLFPDLLRergLAAVGRLDQDTTGLLLLTDDGQFLHALTHPKRHVPKIYHVTTLDP 140
Cdd:cd02554 1 VYIAYNKPVGIDCTLERADEDNIIDFVNPPPR---IFPIGRLDKDSEGLILLTNDGDLVNKILHADNNHEKEYLVTVNKP 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1487760461 141 ISQEQLIALENGVELHNEKGIFAAtdVHLLNEYQVSLTIHQGVYHQVKRMLAAVGNKVQALHRQQIGELDLPELELGEWI 220
Cdd:cd02554 78 ITDEFIEGMSNGVVILGTVTKPCK--VERLAKDKFRIVLTQGLNRQIRRMCEALGYRVTDLKRVRIMNIELGDLAPGEWR 155
|
....*...
gi 1487760461 221 YLNKAQIQ 228
Cdd:cd02554 156 PLTDAELF 163
|
|
| PseudoU_synth_RluE |
cd02566 |
Pseudouridine synthase, Escherichia coli RluE; This group is comprised of bacterial proteins ... |
62-214 |
3.01e-26 |
|
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: 99.76 E-value: 3.01e-26
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1487760461 62 YIALNKPQGFECSHQPQY--HQSVFNLFPDllreRGLAAVGRLDQDTTGLLLLTDDGQFLHALTHPKRHVPKIYHVTTLD 139
Cdd:cd02566 1 LILFNKPYGVLSQFTDESekHKTLKDYIDD----PGVYAAGRLDRDSEGLLLLTDDGRLQHRITDPSFKHPKTYYVQVEG 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1487760461 140 PISQEQLIALENGVELHNekGIFAATDVHLLNEYQ-------------------VSLTIHQGVYHQVKRMLAAVGNKVQA 200
Cdd:cd02566 77 VPTEDALEQLRNGVELGD--GLTLPAKVEKVDEPPwlwereppirfrkniptswIEITICEGKNRQVRRMTAAVGFPTLR 154
|
170
....*....|....
gi 1487760461 201 LHRQQIGELDLPEL 214
Cdd:cd02566 155 LIRVSIGDIGLDNL 168
|
|
| PRK10700 |
PRK10700 |
23S rRNA pseudouridine(2605) synthase RluB; |
3-227 |
3.73e-25 |
|
23S rRNA pseudouridine(2605) synthase RluB;
Pssm-ID: 182659 [Multi-domain] Cd Length: 289 Bit Score: 100.22 E-value: 3.73e-25
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1487760461 3 LEKMLQSQGFGSRKHCQQLIKNGAIKIQG---------EVQTDIKHRVKLEDLNFSVYAQDYTyreKVyIALNKPQGFEC 73
Cdd:PRK10700 5 LQKVLARAGHGSRREIESIIEAGRVSVDGkiatlgdrvEVTPGLKIRIDGHLISVKESAEQIC---RV-LAYYKPEGELC 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1487760461 74 S-HQPQYHQSVFNLFPDLLRERGLAaVGRLDQDTTGLLLLTDDGQFLHALTHPKRHVPKIYHVTTLDPISQEQLIALENG 152
Cdd:PRK10700 81 TrNDPEGRPTVFDRLPKLRGARWIA-VGRLDVNTCGLLLFTTDGELANRLMHPSREVEREYAVRVFGQVDDAKLRQLSRG 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1487760461 153 VELHNEKGIFAA---TDVHLLNE-YQVSLTihQGVYHQVKRMLAAVGNKVQALHRQQIGELDLPE-LELGEWIYLNKAQI 227
Cdd:PRK10700 160 VQLEDGPAAFKTikfSGGEGINQwYNVTLT--EGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKgLPRGGWTELDLAQT 237
|
|
| PseudoU_synth_2 |
pfam00849 |
RNA pseudouridylate synthase; Members of this family are involved in modifying bases in RNA ... |
62-193 |
6.39e-18 |
|
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: 77.45 E-value: 6.39e-18
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1487760461 62 YIALNKPQGFECSHQPQYH---QSVFNLFPDLLRERGLAAVGRLDQDTTGLLLLTDDGQFLHALTH--PKRHVPKIYHVT 136
Cdd:pfam00849 1 YIVVNKPAGVPVHPTDSLTkllSLLALLLRRELGVKRLYPVHRLDKNTSGLLLLAKDGEAANKLNKlfPERKIEKEYLAL 80
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1487760461 137 TLDPISQEQLI-----ALENGVELHNEKGIF---AATDVHLL------NEYQVSLTIHQGVYHQVKRMLAA 193
Cdd:pfam00849 81 VDKPEEEEGTIkspikKEKNKSPFRKEEELGgkkAVTHLKVLksgskgDYSLLELELVTGRKHQIRAHLAA 151
|
|
| PRK11394 |
PRK11394 |
23S rRNA pseudouridine(2457) synthase RluE; |
94-219 |
2.01e-16 |
|
23S rRNA pseudouridine(2457) synthase RluE;
Pssm-ID: 183115 Cd Length: 217 Bit Score: 75.16 E-value: 2.01e-16
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1487760461 94 RGLAAVGRLDQDTTGLLLLTDDGQFLHALTHPKRHVPKIYHVTTLDPISQEQLIALENGVELHNEKGIFAATDvhLLNEY 173
Cdd:PRK11394 70 QGVYAAGRLDRDSEGLLVLTNNGALQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAE--LVDEP 147
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1487760461 174 Q-------------------VSLTIHQGVYHQVKRMLAAVGNKVQALHRQQIGELDLPELELGEW 219
Cdd:PRK11394 148 AwlwprnppirerksiptswLKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLANGEW 212
|
|
| PSSA_1 |
cd02555 |
Pseudouridine synthase, a subgroup of the RsuA family; This group is comprised of bacterial ... |
59-222 |
4.55e-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: 73.21 E-value: 4.55e-16
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1487760461 59 EKVYIALNKPQGFECS---------HQPQYHQS-VFNLFPDLLRergLAAVGRLDQDTTGLLLLTDDGQFLHALTHPKRH 128
Cdd:cd02555 3 EPVTLLLHKPAGMVSEqalallgpgQRSAADRSgRRPLKGHFAR---LAPIGPLDKDASGLLVFSQDGRVLRKLIGDASR 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1487760461 129 VPKIYHVTTLDPISQEQLIALENGVELHNEKgiFAATDVHLLNEYQVSLTIHQGVYHQVKRMLAAVGNKVQALHRQQIGE 208
Cdd:cd02555 80 LEQEYLVEVRGELTAGGLERLNHGLTYDGRE--LPPAKVSWQNEQRLRFALKEPQPGQIRRMCESVGLEVVALRRIRIGR 157
|
170
....*....|....
gi 1487760461 209 LDLPELELGEWIYL 222
Cdd:cd02555 158 VSLGKLPLGQWRYL 171
|
|
| PRK10475 |
PRK10475 |
23S rRNA pseudouridine(2604) synthase RluF; |
3-219 |
9.89e-13 |
|
23S rRNA pseudouridine(2604) synthase RluF;
Pssm-ID: 236698 [Multi-domain] Cd Length: 290 Bit Score: 65.91 E-value: 9.89e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1487760461 3 LEKMLQSQGFGSRKHCQQLIKNGAIKIQGEVQTdIKHRVKLEDLnFSVYAQDYTYREK---VYIALNKPQGFECSHQPQY 79
Cdd:PRK10475 9 LNKYISESGICSRREADRYIEQGNVFINGKRAT-IGDQVKAGDV-VKVNGQLIEPREAedlVLIALNKPVGIVSTTEDGE 86
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1487760461 80 HQSVFN-------LFPdllrerglaaVGRLDQDTTGLLLLTDDGQFLHALTHPKRHVPKIYHVTTLDPISQEQLIALENG 152
Cdd:PRK10475 87 RDNIVDfvnhskrVFP----------IGRLDKDSQGLIFLTNHGDLVNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAG 156
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1487760461 153 VELHNEkgIFAATDVHLLNEYQVSLTIHQGVYHQVKRMLAAVGNKVQALHRQQIGELDLPELELGEW 219
Cdd:PRK10475 157 VPILGT--VTKKCKVKKEAPFVFRITLVQGLNRQIRRMCEHFGYEVTKLERTRIMNVSLSGIPLGEW 221
|
|
| S4 |
smart00363 |
S4 RNA-binding domain; |
1-45 |
8.39e-07 |
|
S4 RNA-binding domain;
Pssm-ID: 214638 [Multi-domain] Cd Length: 60 Bit Score: 44.89 E-value: 8.39e-07
10 20 30 40
....*....|....*....|....*....|....*....|....*.
gi 1487760461 1 MLLEKMLQSQGFG-SRKHCQQLIKNGAIKIQGEVQTDIKHRVKLED 45
Cdd:smart00363 1 RRLDKFLARLGLApSRSQARRLIEQGRVKVNGKKVTKPSYIVKPGD 46
|
|
| S4 |
cd00165 |
S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, ... |
6-66 |
1.63e-06 |
|
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: 44.55 E-value: 1.63e-06
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1487760461 6 MLQSQGFGSRKHCQQLIKNGAIKIQGEVQTDIKHRVKLED---LNFSVYAQDYTYREKVYIALN 66
Cdd:cd00165 7 LARLGLAPSRSEARQLIKHGHVLVNGKVVTKPSYKVKPGDvieVDGKSIEEDIVYEDKKLLVVN 70
|
|
| S4 |
pfam01479 |
S4 domain; The S4 domain is a small domain consisting of 60-65 amino acid residues that was ... |
1-45 |
1.17e-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: 41.32 E-value: 1.17e-05
10 20 30 40
....*....|....*....|....*....|....*....|....*.
gi 1487760461 1 MLLEKMLQSQGFG-SRKHCQQLIKNGAIKIQGEVQTDIKHRVKLED 45
Cdd:pfam01479 1 RRLDKVLARLGLAsSRSQARQLIEHGRVLVNGKVVKDPSYRVKPGD 46
|
|
| PseudoU_synth_RluA_like |
cd02869 |
Pseudouridine synthase, RluA family; This group is comprised of eukaryotic, bacterial and ... |
62-196 |
1.39e-05 |
|
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: 44.25 E-value: 1.39e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1487760461 62 YIALNKPQGFeCSHQPQYHQS------VFNLFPDLLRERGLAAVGRLDQDTTGLLLLTDDGQFLHALTH--PKRHVPKIY 133
Cdd:cd02869 1 LLVVNKPAGL-PVHPGPGHLTgtlvnaLLKLLLLLGEEFRPGLVHRLDKDTSGLLLVAKNKKAAAKLSKqfKERKVKKTY 79
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1487760461 134 H-VTTLDPISQEQLIALENGVELH--------NEKGIFAATDVHLLNEYQ----VSLTIHQGVYHQVKRMLAAVGN 196
Cdd:cd02869 80 LaLVDGKPPEDEGTIDAPLGRKKRkkrarvvvSEDGKPAITHYKVLERFGnvtlVELQLETGRTHQIRVHLASIGH 155
|
|
| |
