|
Name |
Accession |
Description |
Interval |
E-value |
| PRK10839 |
PRK10839 |
16S rRNA pseudouridine(516) synthase RsuA; |
6-230 |
4.06e-97 |
|
16S rRNA pseudouridine(516) synthase RsuA;
Pssm-ID: 236774 [Multi-domain] Cd Length: 232 Bit Score: 282.77 E-value: 4.06e-97
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1674474943 6 RLDKFISHLAEIPRTQARASIKRKEVSVNGEVITSHNFQLAQQDEVLHQGTPLVF-LGKRYYMLNKPVGYVCANSDELHK 84
Cdd:PRK10839 2 RLDKFISQQLGVSRAIAGRELRANRVTVDGEIVKNGAFKLLPEHDVAYDGNPLAQqHGPRYFMLNKPQGYVCSTDDPDHP 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1674474943 85 TVFDLLDEPNMSDFHVAGRLDIDTTGLVIITNDGDWSHKITSPKSNKFKTYLVETQEPITDEALEQLRTGVMLHNEKDLT 164
Cdd:PRK10839 82 TVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHRITSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHNEKDLT 161
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1674474943 165 RPAIAERLANYGLRLSISEGKYHQVKRMLYAVDNKVVELHREQIAGITLDENLASGEYRLLTPEEI 230
Cdd:PRK10839 162 KPAVLEVITPTQVRLTISEGRYHQVKRMFAAVGNHVVELHRERIGAITLDADLAPGEYRPLTEEEI 227
|
|
| RsuA |
COG1187 |
Pseudouridylate synthase RsuA, specific for 16S rRNA U516 and 23S rRNA U2605 [Translation, ... |
6-226 |
2.24e-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: 255.34 E-value: 2.24e-86
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1674474943 6 RLDKFISHLAEIPRTQARASIKRKEVSVNGEVITSHNFQLAQQDEVLHQGTPLVFL-GKRYYMLNKPVGYVCANSDEL-H 83
Cdd:COG1187 4 RLQKFLANAGVGSRREAEELIEAGRVTVNGKVVTELGTKVDPGDEVTVDGKPLKLPeEPVYLLLNKPAGVVSTTKDPEgR 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1674474943 84 KTVFDLLDEPNMSDFHVAGRLDIDTTGLVIITNDGDWSHKITSPKSNKFKTYLVETQEPITDEALEQLRTGVMLHNEKdl 163
Cdd:COG1187 84 PTVFDLLPEARKERLFPVGRLDKDTEGLLLLTNDGELAHRLTHPKYGVEKEYLVRVDGPVTEEDLERLREGVELEDGP-- 161
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1674474943 164 TRPAIAERL---ANYGLRLSISEGKYHQVKRMLYAVDNKVVELHREQIAGITLDeNLASGEYRLLT 226
Cdd:COG1187 162 TKPAKVEILsgeANTWLRITLTEGRNRQVRRMFEAVGLPVVRLKRVRIGPLTLG-DLPPGEWRELT 226
|
|
| PseudoU_synth_RsuA |
cd02553 |
Pseudouridine synthase, Escherichia coli RsuA like; This group is comprised of eukaryotic and ... |
64-230 |
2.63e-82 |
|
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: 242.81 E-value: 2.63e-82
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1674474943 64 RYYMLNKPVGYVCANSDELHKTVFDLLDEPNMS-DFHVAGRLDIDTTGLVIITNDGDWSHKITSPKSNKFKTYLVETQEP 142
Cdd:cd02553 1 VYLMLNKPAGVVCATKDPHHPTVIDLLPEPDRRrDLFPVGRLDKDTTGLLLLTNDGQLAHRLTSPKKHVPKTYEVTLAGP 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1674474943 143 ITDEALEQLRTGVMLHNEkDLTRPAIAERLANYGLRLSISEGKYHQVKRMLYAVDNKVVELHREQIAGITLDENLASGEY 222
Cdd:cd02553 81 LTEDDIEAFAEGVLLHDG-YPTKPAKLEILSPTTVRLTITEGKYHQVKRMFAAVGNKVVALHRIRIGGLELDDDLAPGEW 159
|
....*...
gi 1674474943 223 RLLTPEEI 230
Cdd:cd02553 160 RPLTEEEL 167
|
|
| TIGR00093 |
TIGR00093 |
pseudouridine synthase; This model identifies panels of pseudouridine synthase enzymes that ... |
101-227 |
1.59e-46 |
|
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: 150.56 E-value: 1.59e-46
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1674474943 101 AGRLDIDTTGLVIITNDGDWSHKITSPKSNKFKTYLVETQEPITDEALEQLRTGVMLHNEKdlTRPAIAERLA----NYG 176
Cdd:TIGR00093 1 VGRLDRDSEGLLLLTNDGELVHRLTHPGHHHEKEYLVTVEGPVTDEDLEALRKGVQLEDGK--TKPAKLKVITepgfPTW 78
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|.
gi 1674474943 177 LRLSISEGKYHQVKRMLYAVDNKVVELHREQIAGITLdENLASGEYRLLTP 227
Cdd:TIGR00093 79 LRVTLSEGRNRQVRRMFAAVGFPVLRLHRVRIGDVSL-NGLPPGEWRPLTL 128
|
|
| PseudoU_synth_2 |
pfam00849 |
RNA pseudouridylate synthase; Members of this family are involved in modifying bases in RNA ... |
65-193 |
1.80e-17 |
|
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: 76.29 E-value: 1.80e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1674474943 65 YYMLNKPVGYVCANSDELHK----TVFDLLDEPNMSDFHVAGRLDIDTTGLVIITNDGDWSHKIT-SPKSNKF-KTYLVE 138
Cdd:pfam00849 1 YIVVNKPAGVPVHPTDSLTKllslLALLLRRELGVKRLYPVHRLDKNTSGLLLLAKDGEAANKLNkLFPERKIeKEYLAL 80
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1674474943 139 TQEPITDEA-----LEQLRTGVMLHNEKDLTRPAIAERL---------ANYGLRLSISEGKYHQVKRML 193
Cdd:pfam00849 81 VDKPEEEEGtikspIKKEKNKSPFRKEEELGGKKAVTHLkvlksgskgDYSLLELELVTGRKHQIRAHL 149
|
|
| S4 |
smart00363 |
S4 RNA-binding domain; |
5-51 |
2.46e-05 |
|
S4 RNA-binding domain;
Pssm-ID: 214638 [Multi-domain] Cd Length: 60 Bit Score: 41.04 E-value: 2.46e-05
10 20 30 40
....*....|....*....|....*....|....*....|....*...
gi 1674474943 5 CRLDKFISHLAEIP-RTQARASIKRKEVSVNGEVITSHNFQLAQQDEV 51
Cdd:smart00363 1 RRLDKFLARLGLAPsRSQARRLIEQGRVKVNGKKVTKPSYIVKPGDVI 48
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| PRK10839 |
PRK10839 |
16S rRNA pseudouridine(516) synthase RsuA; |
6-230 |
4.06e-97 |
|
16S rRNA pseudouridine(516) synthase RsuA;
Pssm-ID: 236774 [Multi-domain] Cd Length: 232 Bit Score: 282.77 E-value: 4.06e-97
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1674474943 6 RLDKFISHLAEIPRTQARASIKRKEVSVNGEVITSHNFQLAQQDEVLHQGTPLVF-LGKRYYMLNKPVGYVCANSDELHK 84
Cdd:PRK10839 2 RLDKFISQQLGVSRAIAGRELRANRVTVDGEIVKNGAFKLLPEHDVAYDGNPLAQqHGPRYFMLNKPQGYVCSTDDPDHP 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1674474943 85 TVFDLLDEPNMSDFHVAGRLDIDTTGLVIITNDGDWSHKITSPKSNKFKTYLVETQEPITDEALEQLRTGVMLHNEKDLT 164
Cdd:PRK10839 82 TVLYFLDEPVAYKLHAAGRLDIDTTGLVLMTDDGQWSHRITSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHNEKDLT 161
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1674474943 165 RPAIAERLANYGLRLSISEGKYHQVKRMLYAVDNKVVELHREQIAGITLDENLASGEYRLLTPEEI 230
Cdd:PRK10839 162 KPAVLEVITPTQVRLTISEGRYHQVKRMFAAVGNHVVELHRERIGAITLDADLAPGEYRPLTEEEI 227
|
|
| RsuA |
COG1187 |
Pseudouridylate synthase RsuA, specific for 16S rRNA U516 and 23S rRNA U2605 [Translation, ... |
6-226 |
2.24e-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: 255.34 E-value: 2.24e-86
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1674474943 6 RLDKFISHLAEIPRTQARASIKRKEVSVNGEVITSHNFQLAQQDEVLHQGTPLVFL-GKRYYMLNKPVGYVCANSDEL-H 83
Cdd:COG1187 4 RLQKFLANAGVGSRREAEELIEAGRVTVNGKVVTELGTKVDPGDEVTVDGKPLKLPeEPVYLLLNKPAGVVSTTKDPEgR 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1674474943 84 KTVFDLLDEPNMSDFHVAGRLDIDTTGLVIITNDGDWSHKITSPKSNKFKTYLVETQEPITDEALEQLRTGVMLHNEKdl 163
Cdd:COG1187 84 PTVFDLLPEARKERLFPVGRLDKDTEGLLLLTNDGELAHRLTHPKYGVEKEYLVRVDGPVTEEDLERLREGVELEDGP-- 161
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1674474943 164 TRPAIAERL---ANYGLRLSISEGKYHQVKRMLYAVDNKVVELHREQIAGITLDeNLASGEYRLLT 226
Cdd:COG1187 162 TKPAKVEILsgeANTWLRITLTEGRNRQVRRMFEAVGLPVVRLKRVRIGPLTLG-DLPPGEWRELT 226
|
|
| PseudoU_synth_RsuA |
cd02553 |
Pseudouridine synthase, Escherichia coli RsuA like; This group is comprised of eukaryotic and ... |
64-230 |
2.63e-82 |
|
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: 242.81 E-value: 2.63e-82
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1674474943 64 RYYMLNKPVGYVCANSDELHKTVFDLLDEPNMS-DFHVAGRLDIDTTGLVIITNDGDWSHKITSPKSNKFKTYLVETQEP 142
Cdd:cd02553 1 VYLMLNKPAGVVCATKDPHHPTVIDLLPEPDRRrDLFPVGRLDKDTTGLLLLTNDGQLAHRLTSPKKHVPKTYEVTLAGP 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1674474943 143 ITDEALEQLRTGVMLHNEkDLTRPAIAERLANYGLRLSISEGKYHQVKRMLYAVDNKVVELHREQIAGITLDENLASGEY 222
Cdd:cd02553 81 LTEDDIEAFAEGVLLHDG-YPTKPAKLEILSPTTVRLTITEGKYHQVKRMFAAVGNKVVALHRIRIGGLELDDDLAPGEW 159
|
....*...
gi 1674474943 223 RLLTPEEI 230
Cdd:cd02553 160 RPLTEEEL 167
|
|
| PseudoU_synth_RsuA_like |
cd02870 |
Pseudouridine synthases, RsuA subfamily; Pseudouridine synthases are responsible for the ... |
65-208 |
5.31e-52 |
|
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: 164.97 E-value: 5.31e-52
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1674474943 65 YYMLNKPVGYVCANSDELH-KTVFDLLDEPNMSDFHVaGRLDIDTTGLVIITNDGDWSHKITSPKSNKFKTYLVETQEPI 143
Cdd:cd02870 1 YLLLNKPRGVVSTVRDPEGrPTVLDLLKDVGERLFPV-GRLDYDTEGLLLLTNDGELANRLTHPRYGVEKTYLVKVRGVP 79
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1674474943 144 TDEALEQLRTGVMLhnEKDLTRPAIAERLA----NYGLRLSISEGKYHQVKRMLYAVDNKVVELHREQI 208
Cdd:cd02870 80 SEEELRRLRAGVEL--DDGKTAPAKVKVLSrdpkNTLLEVTLHEGRNRQVRRMFEAVGHPVLRLKRVRI 146
|
|
| TIGR00093 |
TIGR00093 |
pseudouridine synthase; This model identifies panels of pseudouridine synthase enzymes that ... |
101-227 |
1.59e-46 |
|
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: 150.56 E-value: 1.59e-46
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1674474943 101 AGRLDIDTTGLVIITNDGDWSHKITSPKSNKFKTYLVETQEPITDEALEQLRTGVMLHNEKdlTRPAIAERLA----NYG 176
Cdd:TIGR00093 1 VGRLDRDSEGLLLLTNDGELVHRLTHPGHHHEKEYLVTVEGPVTDEDLEALRKGVQLEDGK--TKPAKLKVITepgfPTW 78
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|.
gi 1674474943 177 LRLSISEGKYHQVKRMLYAVDNKVVELHREQIAGITLdENLASGEYRLLTP 227
Cdd:TIGR00093 79 LRVTLSEGRNRQVRRMFAAVGFPVLRLHRVRIGDVSL-NGLPPGEWRPLTL 128
|
|
| PseudoU_synth_RluF |
cd02554 |
Pseudouridine synthase, Escherichia coli RluF like; This group is comprised of bacterial ... |
65-231 |
8.23e-38 |
|
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: 129.35 E-value: 8.23e-38
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1674474943 65 YYMLNKPVGYVCANSDElhktvfdllDEPNMSDF-----HV--AGRLDIDTTGLVIITNDGDWSHKITSPKSNKFKTYLV 137
Cdd:cd02554 2 YIAYNKPVGIDCTLERA---------DEDNIIDFvnpppRIfpIGRLDKDSEGLILLTNDGDLVNKILHADNNHEKEYLV 72
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1674474943 138 ETQEPITDEALEQLRTGVMLHNEKdlTRPAIAERLANYGLRLSISEGKYHQVKRMLYAVDNKVVELHREQIAGITLDEnL 217
Cdd:cd02554 73 TVNKPITDEFIEGMSNGVVILGTV--TKPCKVERLAKDKFRIVLTQGLNRQIRRMCEALGYRVTDLKRVRIMNIELGD-L 149
|
170
....*....|....
gi 1674474943 218 ASGEYRLLTPEEIK 231
Cdd:cd02554 150 APGEWRPLTDAELF 163
|
|
| PseudoU_synth_Rsu_Rlu_like |
cd02550 |
Pseudouridine synthase, Rsu/Rlu family; This group is comprised of eukaryotic, bacterial and ... |
65-208 |
4.39e-35 |
|
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: 122.10 E-value: 4.39e-35
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1674474943 65 YYMLNKPVGYVCANSDELHK-TVFDLLDEPNMSDFHVAGRLDIDTTGLVIITNDGDWSHKITSPKSNKFKTYLVETQEPI 143
Cdd:cd02550 1 ILVLNKPSGLVCHPTDRDRDpTVVVRLDKLHGPRVHAAGRLDKDTSGLLLLTNDGRLQRRLTEPRREIEKEYLVTVRGEL 80
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1674474943 144 TDEALEQLRTGVM-----LHNEKDLTRPAIAERLANYG----LRLSISEGKYHQVKRMLYAVDNKVVELHREQI 208
Cdd:cd02550 81 DEEGIEDLATVRRgrlsgLVDEGVPLAVTKVRVIGEHGgtgrLRLTLKTGRTHQIRRHCAAVGFPVLRLHRVRI 154
|
|
| PseudoU_synth_RluE |
cd02566 |
Pseudouridine synthase, Escherichia coli RluE; This group is comprised of bacterial proteins ... |
65-215 |
4.02e-31 |
|
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: 112.48 E-value: 4.02e-31
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1674474943 65 YYMLNKPVGYVCANSDEL--HKTVFDLLDEPnmsDFHVAGRLDIDTTGLVIITNDGDWSHKITSPKSNKFKTYLVETQEP 142
Cdd:cd02566 1 LILFNKPYGVLSQFTDESekHKTLKDYIDDP---GVYAAGRLDRDSEGLLLLTDDGRLQHRITDPSFKHPKTYYVQVEGV 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1674474943 143 ITDEALEQLRTGVMLhneKD-LTRPAIAERLANYG-------------------LRLSISEGKYHQVKRMLYAVDNKVVE 202
Cdd:cd02566 78 PTEDALEQLRNGVEL---GDgLTLPAKVEKVDEPPwlwereppirfrkniptswIEITICEGKNRQVRRMTAAVGFPTLR 154
|
170
....*....|...
gi 1674474943 203 LHREQIAGITLDE 215
Cdd:cd02566 155 LIRVSIGDIGLDN 167
|
|
| PseudoU_synth_RluB |
cd02556 |
Pseudouridine synthase, Escherichia coli RluB like; This group is comprised of bacterial and ... |
64-227 |
5.63e-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: 109.32 E-value: 5.63e-30
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1674474943 64 RYYMLNKPVGYVCANSD-ELHKTVFDLLDEPNMSDFHVAGRLDIDTTGLVIITNDGDWSHKITSPKSNKFKTYLVETQEP 142
Cdd:cd02556 1 RVLIYHKPEGLICTRKDpKGRPTVFDLLPKLGIPRWISVGRLDLNTEGLLLFTNDGELANRLMHPSNEIEREYAVRVFGQ 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1674474943 143 ITDEALEQLRTGVML--HNEKDLTRPAIAERLANYGLRLSISEGKYHQVKRMLYAVDNKVVELHREQIAGITLDENLASG 220
Cdd:cd02556 81 VTDEQLKSLKKGVELedGFAGFKSIQLEGGEGKNSWYRVTLREGRNREVRRLWEAFGLQVSRLIRIRYGPIFLPGNLKRG 160
|
....*..
gi 1674474943 221 EYRLLTP 227
Cdd:cd02556 161 QWEELPP 167
|
|
| PRK10475 |
PRK10475 |
23S rRNA pseudouridine(2604) synthase RluF; |
6-230 |
3.39e-22 |
|
23S rRNA pseudouridine(2604) synthase RluF;
Pssm-ID: 236698 [Multi-domain] Cd Length: 290 Bit Score: 92.10 E-value: 3.39e-22
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1674474943 6 RLDKFISHLAEIPRTQA--------------RASIKRK-----EVSVNGEVITSHNfqlaqQDEvlhqgtpLVFLGkryy 66
Cdd:PRK10475 8 RLNKYISESGICSRREAdryieqgnvfingkRATIGDQvkagdVVKVNGQLIEPRE-----AED-------LVLIA---- 71
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1674474943 67 mLNKPVGYVCANSDElhktvfdllDEPNMSDF--HVA-----GRLDIDTTGLVIITNDGDWSHKITSPKSNKFKTYLVET 139
Cdd:PRK10475 72 -LNKPVGIVSTTEDG---------ERDNIVDFvnHSKrvfpiGRLDKDSQGLIFLTNHGDLVNKILRAGNDHEKEYLVTV 141
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1674474943 140 QEPITDEALEQLRTGV-MLHNekdLTRPAIAERLANYGLRLSISEGKYHQVKRMLYAVDNKVVELHREQIAGITLdENLA 218
Cdd:PRK10475 142 DKPITDEFIRGMGAGVpILGT---VTKKCKVKKEAPFVFRITLVQGLNRQIRRMCEHFGYEVTKLERTRIMNVSL-SGIP 217
|
250
....*....|..
gi 1674474943 219 SGEYRLLTPEEI 230
Cdd:PRK10475 218 LGEWRDLTDDEL 229
|
|
| PSSA_1 |
cd02555 |
Pseudouridine synthase, a subgroup of the RsuA family; This group is comprised of bacterial ... |
66-229 |
1.13e-19 |
|
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: 82.84 E-value: 1.13e-19
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1674474943 66 YMLNKPVGYVCANSDEL----HKTVFDLLDEPNMS-DFH---VAGRLDIDTTGLVIITNDGDWSHKITSPKSNKFKTYLV 137
Cdd:cd02555 7 LLLHKPAGMVSEQALALlgpgQRSAADRSGRRPLKgHFArlaPIGPLDKDASGLLVFSQDGRVLRKLIGDASRLEQEYLV 86
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1674474943 138 ETQEPITDEALEQLRTGVMLhNEKDLtRPAIAERLANYGLRLSISEGKYHQVKRMLYAVDNKVVELHREQIAGITLDeNL 217
Cdd:cd02555 87 EVRGELTAGGLERLNHGLTY-DGREL-PPAKVSWQNEQRLRFALKEPQPGQIRRMCESVGLEVVALRRIRIGRVSLG-KL 163
|
170
....*....|..
gi 1674474943 218 ASGEYRLLTPEE 229
Cdd:cd02555 164 PLGQWRYLTTGE 175
|
|
| PseudoU_synth_2 |
pfam00849 |
RNA pseudouridylate synthase; Members of this family are involved in modifying bases in RNA ... |
65-193 |
1.80e-17 |
|
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: 76.29 E-value: 1.80e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1674474943 65 YYMLNKPVGYVCANSDELHK----TVFDLLDEPNMSDFHVAGRLDIDTTGLVIITNDGDWSHKIT-SPKSNKF-KTYLVE 138
Cdd:pfam00849 1 YIVVNKPAGVPVHPTDSLTKllslLALLLRRELGVKRLYPVHRLDKNTSGLLLLAKDGEAANKLNkLFPERKIeKEYLAL 80
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1674474943 139 TQEPITDEA-----LEQLRTGVMLHNEKDLTRPAIAERL---------ANYGLRLSISEGKYHQVKRML 193
Cdd:pfam00849 81 VDKPEEEEGtikspIKKEKNKSPFRKEEELGGKKAVTHLkvlksgskgDYSLLELELVTGRKHQIRAHL 149
|
|
| PRK11394 |
PRK11394 |
23S rRNA pseudouridine(2457) synthase RluE; |
64-226 |
3.75e-17 |
|
23S rRNA pseudouridine(2457) synthase RluE;
Pssm-ID: 183115 Cd Length: 217 Bit Score: 77.09 E-value: 3.75e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1674474943 64 RYYMLNKPVGYVCANSDEL-HKTVFDLLDepnMSDFHVAGRLDIDTTGLVIITNDGDWSHKITSPKSNKFKTYLVETQEP 142
Cdd:PRK11394 40 RVILFNKPYDVLPQFTDEAgRKTLKEFIP---VQGVYAAGRLDRDSEGLLVLTNNGALQARLTQPGKRTGKIYYVQVEGI 116
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1674474943 143 ITDEALEQLRTGVMLHNEKDLT---------------RPAIAER--LANYGLRLSISEGKYHQVKRMLYAVDNKVVELHR 205
Cdd:PRK11394 117 PTQDALEALRNGVTLNDGPTLPagaelvdepawlwprNPPIRERksIPTSWLKITLYEGRNRQVRRMTAHVGFPTLRLIR 196
|
170 180
....*....|....*....|.
gi 1674474943 206 EQIAGITLDeNLASGEYRLLT 226
Cdd:PRK11394 197 YAMGDYSLD-NLANGEWREAT 216
|
|
| PRK10700 |
PRK10700 |
23S rRNA pseudouridine(2605) synthase RluB; |
65-222 |
1.98e-13 |
|
23S rRNA pseudouridine(2605) synthase RluB;
Pssm-ID: 182659 [Multi-domain] Cd Length: 289 Bit Score: 67.87 E-value: 1.98e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1674474943 65 YYmlnKPVGYVCANSD-ELHKTVFDLLDEPNMSDFHVAGRLDIDTTGLVIITNDGDWSHKITSPKSNKFKTYLVETQEPI 143
Cdd:PRK10700 72 YY---KPEGELCTRNDpEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTDGELANRLMHPSREVEREYAVRVFGQV 148
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1674474943 144 TDEALEQLRTGVMLHNEkdltrPAIAERLA-------NYGLRLSISEGKYHQVKRMLYAVDNKVVELHREQIAGITLDEN 216
Cdd:PRK10700 149 DDAKLRQLSRGVQLEDG-----PAAFKTIKfsggegiNQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKG 223
|
....*.
gi 1674474943 217 LASGEY 222
Cdd:PRK10700 224 LPRGGW 229
|
|
| S4 |
cd00165 |
S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, ... |
6-69 |
1.75e-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: 44.16 E-value: 1.75e-06
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1674474943 6 RLDKFISHLAEIP-RTQARASIKRKEVSVNGEVITSHNFQLAQQDEV----LHQGTPLVFLGKRYYMLN 69
Cdd:cd00165 2 RLDKILARLGLAPsRSEARQLIKHGHVLVNGKVVTKPSYKVKPGDVIevdgKSIEEDIVYEDKKLLVVN 70
|
|
| S4 |
pfam01479 |
S4 domain; The S4 domain is a small domain consisting of 60-65 amino acid residues that was ... |
6-51 |
1.40e-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: 1.40e-05
10 20 30 40
....*....|....*....|....*....|....*....|....*..
gi 1674474943 6 RLDKFISHL-AEIPRTQARASIKRKEVSVNGEVITSHNFQLAQQDEV 51
Cdd:pfam01479 2 RLDKVLARLgLASSRSQARQLIEHGRVLVNGKVVKDPSYRVKPGDEI 48
|
|
| S4 |
smart00363 |
S4 RNA-binding domain; |
5-51 |
2.46e-05 |
|
S4 RNA-binding domain;
Pssm-ID: 214638 [Multi-domain] Cd Length: 60 Bit Score: 41.04 E-value: 2.46e-05
10 20 30 40
....*....|....*....|....*....|....*....|....*...
gi 1674474943 5 CRLDKFISHLAEIP-RTQARASIKRKEVSVNGEVITSHNFQLAQQDEV 51
Cdd:smart00363 1 RRLDKFLARLGLAPsRSQARRLIEQGRVKVNGKKVTKPSYIVKPGDVI 48
|
|
| |
