|
Name |
Accession |
Description |
Interval |
E-value |
| PRK10475 |
PRK10475 |
23S rRNA pseudouridine(2604) synthase RluF; |
1-224 |
2.41e-105 |
|
23S rRNA pseudouridine(2604) synthase RluF;
Pssm-ID: 236698 [Multi-domain] Cd Length: 290 Bit Score: 306.27 E-value: 2.41e-105
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1032570965 1 MRINKFLSEAGVCSRRGADKWIDDKRVKINDELATLGSQVEDSDVVKVDNKVITI--DKGYVYIALNKPRGITSTTEKHI 78
Cdd:PRK10475 7 TRLNKYISESGICSRREADRYIEQGNVFINGKRATIGDQVKAGDVVKVNGQLIEPreAEDLVLIALNKPVGIVSTTEDGE 86
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1032570965 79 KGNVVDYVNHPERIFHIGRLDKDSEGLLLLTSDGDIVNEILRSENHHEKEYVVTVDKPITKEFIKNMSNGVVILNQKTLP 158
Cdd:PRK10475 87 RDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDLVNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTVTKK 166
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1032570965 159 AKLEQLNDKTFKIILTQGLNRQIRRMCETLGYNVKKLKRIRIMNIKLDGIKYGEWRDLTAEEFNTL 224
Cdd:PRK10475 167 CKVKKEAPFVFRITLVQGLNRQIRRMCEHFGYEVTKLERTRIMNVSLSGIPLGEWRDLTDDELIDL 232
|
|
| RsuA |
COG1187 |
Pseudouridylate synthase RsuA, specific for 16S rRNA U516 and 23S rRNA U2605 [Translation, ... |
1-217 |
8.20e-103 |
|
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: 297.33 E-value: 8.20e-103
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1032570965 1 MRINKFLSEAGVCSRRGADKWIDDKRVKINDELAT-LGSQVEDSDVVKVDNKVITIDKGYVYIALNKPRGITSTTE-KHI 78
Cdd:COG1187 3 MRLQKFLANAGVGSRREAEELIEAGRVTVNGKVVTeLGTKVDPGDEVTVDGKPLKLPEEPVYLLLNKPAGVVSTTKdPEG 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1032570965 79 KGNVVDYV--NHPERIFHIGRLDKDSEGLLLLTSDGDIVNEILRSENHHEKEYVVTVDKPITKEFIKNMSNGVVILNQKT 156
Cdd:COG1187 83 RPTVFDLLpeARKERLFPVGRLDKDTEGLLLLTNDGELAHRLTHPKYGVEKEYLVRVDGPVTEEDLERLREGVELEDGPT 162
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1032570965 157 LPAKLEQLN---DKTFKIILTQGLNRQIRRMCETLGYNVKKLKRIRIMNIKLDGIKYGEWRDLT 217
Cdd:COG1187 163 KPAKVEILSgeaNTWLRITLTEGRNRQVRRMFEAVGLPVVRLKRVRIGPLTLGDLPPGEWRELT 226
|
|
| PseudoU_synth_RluF |
cd02554 |
Pseudouridine synthase, Escherichia coli RluF like; This group is comprised of bacterial ... |
60-220 |
2.26e-95 |
|
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: 276.11 E-value: 2.26e-95
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1032570965 60 VYIALNKPRGITSTTEKHIKGNVVDYVNHPERIFHIGRLDKDSEGLLLLTSDGDIVNEILRSENHHEKEYVVTVDKPITK 139
Cdd:cd02554 1 VYIAYNKPVGIDCTLERADEDNIIDFVNPPPRIFPIGRLDKDSEGLILLTNDGDLVNKILHADNNHEKEYLVTVNKPITD 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1032570965 140 EFIKNMSNGVVILNQKTLPAKLEQLNDKTFKIILTQGLNRQIRRMCETLGYNVKKLKRIRIMNIKLDGIKYGEWRDLTAE 219
Cdd:cd02554 81 EFIEGMSNGVVILGTVTKPCKVERLAKDKFRIVLTQGLNRQIRRMCEALGYRVTDLKRVRIMNIELGDLAPGEWRPLTDA 160
|
.
gi 1032570965 220 E 220
Cdd:cd02554 161 E 161
|
|
| TIGR00093 |
TIGR00093 |
pseudouridine synthase; This model identifies panels of pseudouridine synthase enzymes that ... |
95-217 |
3.36e-50 |
|
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: 160.19 E-value: 3.36e-50
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1032570965 95 IGRLDKDSEGLLLLTSDGDIVNEILRSENHHEKEYVVTVDKPITKEFIKNMSNGVVILNQKTLPAKLE---QLNDKT-FK 170
Cdd:TIGR00093 1 VGRLDRDSEGLLLLTNDGELVHRLTHPGHHHEKEYLVTVEGPVTDEDLEALRKGVQLEDGKTKPAKLKvitEPGFPTwLR 80
|
90 100 110 120
....*....|....*....|....*....|....*....|....*..
gi 1032570965 171 IILTQGLNRQIRRMCETLGYNVKKLKRIRIMNIKLDGIKYGEWRDLT 217
Cdd:TIGR00093 81 VTLSEGRNRQVRRMFAAVGFPVLRLHRVRIGDVSLNGLPPGEWRPLT 127
|
|
| PseudoU_synth_2 |
pfam00849 |
RNA pseudouridylate synthase; Members of this family are involved in modifying bases in RNA ... |
61-186 |
2.56e-20 |
|
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: 83.99 E-value: 2.56e-20
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1032570965 61 YIALNKPRGITS------TTEKHIKGNVVDYVNHPERIFHIGRLDKDSEGLLLLTSDGDIVNEI--LRSENHHEKEYVVT 132
Cdd:pfam00849 1 YIVVNKPAGVPVhptdslTKLLSLLALLLRRELGVKRLYPVHRLDKNTSGLLLLAKDGEAANKLnkLFPERKIEKEYLAL 80
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1032570965 133 VDKPITKEFIKNM----------SNGVVILNQKTLPAKLEQL-----NDKTF-KIILTQGLNRQIRRMCE 186
Cdd:pfam00849 81 VDKPEEEEGTIKSpikkeknkspFRKEEELGGKKAVTHLKVLksgskGDYSLlELELVTGRKHQIRAHLA 150
|
|
| S4 |
smart00363 |
S4 RNA-binding domain; |
1-52 |
4.70e-05 |
|
S4 RNA-binding domain;
Pssm-ID: 214638 [Multi-domain] Cd Length: 60 Bit Score: 40.27 E-value: 4.70e-05
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....
gi 1032570965 1 MRINKFLSEAG-VCSRRGADKWIDDKRVKINDELAT-LGSQVEDSDVVKVDNKV 52
Cdd:smart00363 1 RRLDKFLARLGlAPSRSQARRLIEQGRVKVNGKKVTkPSYIVKPGDVISVRGKE 54
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| PRK10475 |
PRK10475 |
23S rRNA pseudouridine(2604) synthase RluF; |
1-224 |
2.41e-105 |
|
23S rRNA pseudouridine(2604) synthase RluF;
Pssm-ID: 236698 [Multi-domain] Cd Length: 290 Bit Score: 306.27 E-value: 2.41e-105
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1032570965 1 MRINKFLSEAGVCSRRGADKWIDDKRVKINDELATLGSQVEDSDVVKVDNKVITI--DKGYVYIALNKPRGITSTTEKHI 78
Cdd:PRK10475 7 TRLNKYISESGICSRREADRYIEQGNVFINGKRATIGDQVKAGDVVKVNGQLIEPreAEDLVLIALNKPVGIVSTTEDGE 86
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1032570965 79 KGNVVDYVNHPERIFHIGRLDKDSEGLLLLTSDGDIVNEILRSENHHEKEYVVTVDKPITKEFIKNMSNGVVILNQKTLP 158
Cdd:PRK10475 87 RDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDLVNKILRAGNDHEKEYLVTVDKPITDEFIRGMGAGVPILGTVTKK 166
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1032570965 159 AKLEQLNDKTFKIILTQGLNRQIRRMCETLGYNVKKLKRIRIMNIKLDGIKYGEWRDLTAEEFNTL 224
Cdd:PRK10475 167 CKVKKEAPFVFRITLVQGLNRQIRRMCEHFGYEVTKLERTRIMNVSLSGIPLGEWRDLTDDELIDL 232
|
|
| RsuA |
COG1187 |
Pseudouridylate synthase RsuA, specific for 16S rRNA U516 and 23S rRNA U2605 [Translation, ... |
1-217 |
8.20e-103 |
|
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: 297.33 E-value: 8.20e-103
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1032570965 1 MRINKFLSEAGVCSRRGADKWIDDKRVKINDELAT-LGSQVEDSDVVKVDNKVITIDKGYVYIALNKPRGITSTTE-KHI 78
Cdd:COG1187 3 MRLQKFLANAGVGSRREAEELIEAGRVTVNGKVVTeLGTKVDPGDEVTVDGKPLKLPEEPVYLLLNKPAGVVSTTKdPEG 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1032570965 79 KGNVVDYV--NHPERIFHIGRLDKDSEGLLLLTSDGDIVNEILRSENHHEKEYVVTVDKPITKEFIKNMSNGVVILNQKT 156
Cdd:COG1187 83 RPTVFDLLpeARKERLFPVGRLDKDTEGLLLLTNDGELAHRLTHPKYGVEKEYLVRVDGPVTEEDLERLREGVELEDGPT 162
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1032570965 157 LPAKLEQLN---DKTFKIILTQGLNRQIRRMCETLGYNVKKLKRIRIMNIKLDGIKYGEWRDLT 217
Cdd:COG1187 163 KPAKVEILSgeaNTWLRITLTEGRNRQVRRMFEAVGLPVVRLKRVRIGPLTLGDLPPGEWRELT 226
|
|
| PseudoU_synth_RluF |
cd02554 |
Pseudouridine synthase, Escherichia coli RluF like; This group is comprised of bacterial ... |
60-220 |
2.26e-95 |
|
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: 276.11 E-value: 2.26e-95
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1032570965 60 VYIALNKPRGITSTTEKHIKGNVVDYVNHPERIFHIGRLDKDSEGLLLLTSDGDIVNEILRSENHHEKEYVVTVDKPITK 139
Cdd:cd02554 1 VYIAYNKPVGIDCTLERADEDNIIDFVNPPPRIFPIGRLDKDSEGLILLTNDGDLVNKILHADNNHEKEYLVTVNKPITD 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1032570965 140 EFIKNMSNGVVILNQKTLPAKLEQLNDKTFKIILTQGLNRQIRRMCETLGYNVKKLKRIRIMNIKLDGIKYGEWRDLTAE 219
Cdd:cd02554 81 EFIEGMSNGVVILGTVTKPCKVERLAKDKFRIVLTQGLNRQIRRMCEALGYRVTDLKRVRIMNIELGDLAPGEWRPLTDA 160
|
.
gi 1032570965 220 E 220
Cdd:cd02554 161 E 161
|
|
| PseudoU_synth_RsuA_like |
cd02870 |
Pseudouridine synthases, RsuA subfamily; Pseudouridine synthases are responsible for the ... |
61-200 |
3.24e-51 |
|
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: 163.43 E-value: 3.24e-51
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1032570965 61 YIALNKPRGITSTT--EKHIKgNVVDY-VNHPERIFHIGRLDKDSEGLLLLTSDGDIVNEILRSENHHEKEYVVTVDKPI 137
Cdd:cd02870 1 YLLLNKPRGVVSTVrdPEGRP-TVLDLlKDVGERLFPVGRLDYDTEGLLLLTNDGELANRLTHPRYGVEKTYLVKVRGVP 79
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1032570965 138 TKEFIKNMSNGVVILNQKTLPAKLEQLNDK----TFKIILTQGLNRQIRRMCETLGYNVKKLKRIRI 200
Cdd:cd02870 80 SEEELRRLRAGVELDDGKTAPAKVKVLSRDpkntLLEVTLHEGRNRQVRRMFEAVGHPVLRLKRVRI 146
|
|
| TIGR00093 |
TIGR00093 |
pseudouridine synthase; This model identifies panels of pseudouridine synthase enzymes that ... |
95-217 |
3.36e-50 |
|
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: 160.19 E-value: 3.36e-50
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1032570965 95 IGRLDKDSEGLLLLTSDGDIVNEILRSENHHEKEYVVTVDKPITKEFIKNMSNGVVILNQKTLPAKLE---QLNDKT-FK 170
Cdd:TIGR00093 1 VGRLDRDSEGLLLLTNDGELVHRLTHPGHHHEKEYLVTVEGPVTDEDLEALRKGVQLEDGKTKPAKLKvitEPGFPTwLR 80
|
90 100 110 120
....*....|....*....|....*....|....*....|....*..
gi 1032570965 171 IILTQGLNRQIRRMCETLGYNVKKLKRIRIMNIKLDGIKYGEWRDLT 217
Cdd:TIGR00093 81 VTLSEGRNRQVRRMFAAVGFPVLRLHRVRIGDVSLNGLPPGEWRPLT 127
|
|
| PseudoU_synth_RsuA |
cd02553 |
Pseudouridine synthase, Escherichia coli RsuA like; This group is comprised of eukaryotic and ... |
60-221 |
4.12e-46 |
|
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: 151.13 E-value: 4.12e-46
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1032570965 60 VYIALNKPRGITSTTEKHIKGNVVDYVNHPER---IFHIGRLDKDSEGLLLLTSDGDIVNEILRSENHHEKEYVVTVDKP 136
Cdd:cd02553 1 VYLMLNKPAGVVCATKDPHHPTVIDLLPEPDRrrdLFPVGRLDKDTTGLLLLTNDGQLAHRLTSPKKHVPKTYEVTLAGP 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1032570965 137 ITKEFIKNMSNGVVILN-QKTLPAKLEQLNDKTFKIILTQGLNRQIRRMCETLGYNVKKLKRIRIMNIKLD-GIKYGEWR 214
Cdd:cd02553 81 LTEDDIEAFAEGVLLHDgYPTKPAKLEILSPTTVRLTITEGKYHQVKRMFAAVGNKVVALHRIRIGGLELDdDLAPGEWR 160
|
....*..
gi 1032570965 215 DLTAEEF 221
Cdd:cd02553 161 PLTEEEL 167
|
|
| PseudoU_synth_Rsu_Rlu_like |
cd02550 |
Pseudouridine synthase, Rsu/Rlu family; This group is comprised of eukaryotic, bacterial and ... |
61-200 |
5.67e-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: 5.67e-35
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1032570965 61 YIALNKPRGITSTTE-KHIKGNVVDYV--NHPERIFHIGRLDKDSEGLLLLTSDGDIVNEILRSENHHEKEYVVTVDKPI 137
Cdd:cd02550 1 ILVLNKPSGLVCHPTdRDRDPTVVVRLdkLHGPRVHAAGRLDKDTSGLLLLTNDGRLQRRLTEPRREIEKEYLVTVRGEL 80
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1032570965 138 TKEFIKNMSN-------GVVILNQKTLPAKLEQLNDKT----FKIILTQGLNRQIRRMCETLGYNVKKLKRIRI 200
Cdd:cd02550 81 DEEGIEDLATvrrgrlsGLVDEGVPLAVTKVRVIGEHGgtgrLRLTLKTGRTHQIRRHCAAVGFPVLRLHRVRI 154
|
|
| PRK10839 |
PRK10839 |
16S rRNA pseudouridine(516) synthase RsuA; |
1-225 |
3.12e-34 |
|
16S rRNA pseudouridine(516) synthase RsuA;
Pssm-ID: 236774 [Multi-domain] Cd Length: 232 Bit Score: 122.52 E-value: 3.12e-34
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1032570965 1 MRINKFLSEAGVCSRRGADKWIDDKRVKINDELATLGS-QVEDSDVVKVDNKVITIDKGYVYIALNKPRGITSTTEKHIK 79
Cdd:PRK10839 1 MRLDKFISQQLGVSRAIAGRELRANRVTVDGEIVKNGAfKLLPEHDVAYDGNPLAQQHGPRYFMLNKPQGYVCSTDDPDH 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1032570965 80 GNVVDYVNHP--ERIFHIGRLDKDSEGLLLLTSDGDIVNEILRSENHHEKEYVVTVDKPITKEFIKNMSNGVVILNQKTL 157
Cdd:PRK10839 81 PTVLYFLDEPvaYKLHAAGRLDIDTTGLVLMTDDGQWSHRITSPRHHCEKTYLVTLESPVADDTAEQFAKGVQLHNEKDL 160
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1032570965 158 --PAKLEQLNDKTFKIILTQGLNRQIRRMCETLGYNVKKLKRIRIMNIKLD-GIKYGEWRDLTAEEFNTLT 225
Cdd:PRK10839 161 tkPAVLEVITPTQVRLTISEGRYHQVKRMFAAVGNHVVELHRERIGAITLDaDLAPGEYRPLTEEEIASVG 231
|
|
| PseudoU_synth_RluE |
cd02566 |
Pseudouridine synthase, Escherichia coli RluE; This group is comprised of bacterial proteins ... |
61-208 |
1.63e-29 |
|
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: 108.62 E-value: 1.63e-29
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1032570965 61 YIALNKPRGITS--TTEKHIKGNVVDYVNHPeRIFHIGRLDKDSEGLLLLTSDGDIVNEILRSENHHEKEYVVTVDKPIT 138
Cdd:cd02566 1 LILFNKPYGVLSqfTDESEKHKTLKDYIDDP-GVYAAGRLDRDSEGLLLLTDDGRLQHRITDPSFKHPKTYYVQVEGVPT 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1032570965 139 KEFIKNMSNGVVILNQKTLPAKLEQL-----------------NDKTF--KIILTQGLNRQIRRMCETLGYNVKKLKRIR 199
Cdd:cd02566 80 EDALEQLRNGVELGDGLTLPAKVEKVdeppwlwereppirfrkNIPTSwiEITICEGKNRQVRRMTAAVGFPTLRLIRVS 159
|
....*....
gi 1032570965 200 IMNIKLDGI 208
Cdd:cd02566 160 IGDIGLDNL 168
|
|
| PSSA_1 |
cd02555 |
Pseudouridine synthase, a subgroup of the RsuA family; This group is comprised of bacterial ... |
60-220 |
3.94e-24 |
|
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: 94.78 E-value: 3.94e-24
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1032570965 60 VYIALNKPRGITS-----------------TTEKHIKGnvvdyvnHPERIFHIGRLDKDSEGLLLLTSDGDIVNEILRSE 122
Cdd:cd02555 5 VTLLLHKPAGMVSeqalallgpgqrsaadrSGRRPLKG-------HFARLAPIGPLDKDASGLLVFSQDGRVLRKLIGDA 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1032570965 123 NHHEKEYVVTVDKPITKEFIKNMSNGVViLNQKTL-PAKLEQLNDKTFKIILTQGLNRQIRRMCETLGYNVKKLKRIRIM 201
Cdd:cd02555 78 SRLEQEYLVEVRGELTAGGLERLNHGLT-YDGRELpPAKVSWQNEQRLRFALKEPQPGQIRRMCESVGLEVVALRRIRIG 156
|
170
....*....|....*....
gi 1032570965 202 NIKLDGIKYGEWRDLTAEE 220
Cdd:cd02555 157 RVSLGKLPLGQWRYLTTGE 175
|
|
| PRK10700 |
PRK10700 |
23S rRNA pseudouridine(2605) synthase RluB; |
2-239 |
5.60e-23 |
|
23S rRNA pseudouridine(2605) synthase RluB;
Pssm-ID: 182659 [Multi-domain] Cd Length: 289 Bit Score: 94.45 E-value: 5.60e-23
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1032570965 2 RINKFLSEAGVCSRRGADKWIDDKRVKINDELATLGSQVEDSDVVK--VDNKVITIDKGYVYI----ALNKPRGITST-T 74
Cdd:PRK10700 4 KLQKVLARAGHGSRREIESIIEAGRVSVDGKIATLGDRVEVTPGLKirIDGHLISVKESAEQIcrvlAYYKPEGELCTrN 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1032570965 75 EKHIKGNVVDYVnhPE----RIFHIGRLDKDSEGLLLLTSDGDIVNEILRSENHHEKEYVVTVDKPITKEFIKNMSNGVV 150
Cdd:PRK10700 84 DPEGRPTVFDRL--PKlrgaRWIAVGRLDVNTCGLLLFTTDGELANRLMHPSREVEREYAVRVFGQVDDAKLRQLSRGVQ 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1032570965 151 ILNQktlPAKLEQLN-------DKTFKIILTQGLNRQIRRMCETLGYNVKKLKRIRIMNIKL-DGIKYGEWRDLTAEEFN 222
Cdd:PRK10700 162 LEDG---PAAFKTIKfsggegiNQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLpKGLPRGGWTELDLAQTN 238
|
250 260
....*....|....*....|....*..
gi 1032570965 223 TLTQ----------TLSYEPKRERMKS 239
Cdd:PRK10700 239 YLRElvelppetssKVAVEKDRRRMKA 265
|
|
| PseudoU_synth_RluB |
cd02556 |
Pseudouridine synthase, Escherichia coli RluB like; This group is comprised of bacterial and ... |
62-217 |
2.53e-22 |
|
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: 89.68 E-value: 2.53e-22
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1032570965 62 IALNKPRGITsTTEKHIKGNVVDYVNHPE----RIFHIGRLDKDSEGLLLLTSDGDIVNEILRSENHHEKEYVVTVDKPI 137
Cdd:cd02556 3 LIYHKPEGLI-CTRKDPKGRPTVFDLLPKlgipRWISVGRLDLNTEGLLLFTNDGELANRLMHPSNEIEREYAVRVFGQV 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1032570965 138 TKEFIKNMSNGVVILNQKTLPAKLEQL----NDKTFKIILTQGLNRQIRRMCETLGYNVKKLKRIRIMNI-KLDGIKYGE 212
Cdd:cd02556 82 TDEQLKSLKKGVELEDGFAGFKSIQLEggegKNSWYRVTLREGRNREVRRLWEAFGLQVSRLIRIRYGPIfLPGNLKRGQ 161
|
....*
gi 1032570965 213 WRDLT 217
Cdd:cd02556 162 WEELP 166
|
|
| PseudoU_synth_2 |
pfam00849 |
RNA pseudouridylate synthase; Members of this family are involved in modifying bases in RNA ... |
61-186 |
2.56e-20 |
|
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: 83.99 E-value: 2.56e-20
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1032570965 61 YIALNKPRGITS------TTEKHIKGNVVDYVNHPERIFHIGRLDKDSEGLLLLTSDGDIVNEI--LRSENHHEKEYVVT 132
Cdd:pfam00849 1 YIVVNKPAGVPVhptdslTKLLSLLALLLRRELGVKRLYPVHRLDKNTSGLLLLAKDGEAANKLnkLFPERKIEKEYLAL 80
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1032570965 133 VDKPITKEFIKNM----------SNGVVILNQKTLPAKLEQL-----NDKTF-KIILTQGLNRQIRRMCE 186
Cdd:pfam00849 81 VDKPEEEEGTIKSpikkeknkspFRKEEELGGKKAVTHLKVLksgskGDYSLlELELVTGRKHQIRAHLA 150
|
|
| PRK11394 |
PRK11394 |
23S rRNA pseudouridine(2457) synthase RluE; |
92-217 |
1.25e-17 |
|
23S rRNA pseudouridine(2457) synthase RluE;
Pssm-ID: 183115 Cd Length: 217 Bit Score: 78.63 E-value: 1.25e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1032570965 92 IFHIGRLDKDSEGLLLLTSDGDIVNEILRSENHHEKEYVVTVDKPITKEFIKNMSNGVVILNQKTLPAKLEQLNDKTF-- 169
Cdd:PRK11394 72 VYAAGRLDRDSEGLLVLTNNGALQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLNDGPTLPAGAELVDEPAWlw 151
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1032570965 170 -----------------KIILTQGLNRQIRRMCETLGYNVKKLKRIRIMNIKLDGIKYGEWRDLT 217
Cdd:PRK11394 152 prnppirerksiptswlKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGDYSLDNLANGEWREAT 216
|
|
| S4 |
cd00165 |
S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, ... |
1-65 |
4.57e-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: 46.09 E-value: 4.57e-07
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1032570965 1 MRINKFLSEAG-VCSRRGADKWIDDKRVKINDELAT-LGSQVEDSDVVKVDNKVITIDKGY---VYIALN 65
Cdd:cd00165 1 MRLDKILARLGlAPSRSEARQLIKHGHVLVNGKVVTkPSYKVKPGDVIEVDGKSIEEDIVYedkKLLVVN 70
|
|
| PseudoU_synth_RluA_like |
cd02869 |
Pseudouridine synthase, RluA family; This group is comprised of eukaryotic, bacterial and ... |
61-190 |
1.66e-06 |
|
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: 46.95 E-value: 1.66e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1032570965 61 YIALNKPRGITST-TEKHIKGNVVDYVNH-------PERIFHIGRLDKDSEGLLLLTSDGDIVNEILRSENHH--EKEYV 130
Cdd:cd02869 1 LLVVNKPAGLPVHpGPGHLTGTLVNALLKlllllgeEFRPGLVHRLDKDTSGLLLVAKNKKAAAKLSKQFKERkvKKTYL 80
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1032570965 131 -----------VTVDKPITKEFIKNMSngVVILNQKTLPAK-----LEQLNDKTF-KIILTQGlnR--QIRRMCETLGY 190
Cdd:cd02869 81 alvdgkppedeGTIDAPLGRKKRKKRA--RVVVSEDGKPAIthykvLERFGNVTLvELQLETG--RthQIRVHLASIGH 155
|
|
| S4 |
pfam01479 |
S4 domain; The S4 domain is a small domain consisting of 60-65 amino acid residues that was ... |
1-46 |
3.06e-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: 40.17 E-value: 3.06e-05
10 20 30 40
....*....|....*....|....*....|....*....|....*...
gi 1032570965 1 MRINKFLSEAGVC-SRRGADKWIDDKRVKINDELAT-LGSQVEDSDVV 46
Cdd:pfam01479 1 RRLDKVLARLGLAsSRSQARQLIEHGRVLVNGKVVKdPSYRVKPGDEI 48
|
|
| S4 |
smart00363 |
S4 RNA-binding domain; |
1-52 |
4.70e-05 |
|
S4 RNA-binding domain;
Pssm-ID: 214638 [Multi-domain] Cd Length: 60 Bit Score: 40.27 E-value: 4.70e-05
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....
gi 1032570965 1 MRINKFLSEAG-VCSRRGADKWIDDKRVKINDELAT-LGSQVEDSDVVKVDNKV 52
Cdd:smart00363 1 RRLDKFLARLGlAPSRSQARRLIEQGRVKVNGKKVTkPSYIVKPGDVISVRGKE 54
|
|
| |
