BLASTP 2.2.26 [Sep-21-2011]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.


Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= 042710
         (237 letters)

Database: nr 
           23,463,169 sequences; 8,064,228,071 total letters

Searching..................................................done



>gi|225432191|ref|XP_002275097.1| PREDICTED: tRNA pseudouridine synthase A 1-like [Vitis vinifera]
          Length = 336

 Score =  378 bits (970), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 179/211 (84%), Positives = 190/211 (90%)

Query: 19  DDSFPGFKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTD 78
           + S  G+KWRLVI Y+GTRY+GWQ+Q SPPTIQCIVEKAL R TKLEREDL LVGASRTD
Sbjct: 49  NTSASGYKWRLVIAYEGTRYSGWQYQQSPPTIQCIVEKALTRATKLEREDLYLVGASRTD 108

Query: 79  TGVHAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYH 138
           TGVHAWGQVAHF+TPF+YDGLESIHAALNGLLPPDIRVREIS AVPEFHARFS KSKIYH
Sbjct: 109 TGVHAWGQVAHFLTPFNYDGLESIHAALNGLLPPDIRVREISPAVPEFHARFSVKSKIYH 168

Query: 139 YKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKS 198
           YKIYNDAVMDPF  HY YHSVYKLNT  MREAA++F GKHDFSAFVN   NDR+ NPVK+
Sbjct: 169 YKIYNDAVMDPFLRHYVYHSVYKLNTLAMREAAKHFTGKHDFSAFVNASHNDRSPNPVKN 228

Query: 199 IFRFDVIEMGALLQLEVEGSGFLYRQVRNMV 229
           IFRFDV EMGALLQLEVEGSGFLYRQVRNMV
Sbjct: 229 IFRFDVNEMGALLQLEVEGSGFLYRQVRNMV 259


>gi|297736816|emb|CBI26017.3| unnamed protein product [Vitis vinifera]
          Length = 326

 Score =  378 bits (970), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 179/211 (84%), Positives = 190/211 (90%)

Query: 19  DDSFPGFKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTD 78
           + S  G+KWRLVI Y+GTRY+GWQ+Q SPPTIQCIVEKAL R TKLEREDL LVGASRTD
Sbjct: 39  NTSASGYKWRLVIAYEGTRYSGWQYQQSPPTIQCIVEKALTRATKLEREDLYLVGASRTD 98

Query: 79  TGVHAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYH 138
           TGVHAWGQVAHF+TPF+YDGLESIHAALNGLLPPDIRVREIS AVPEFHARFS KSKIYH
Sbjct: 99  TGVHAWGQVAHFLTPFNYDGLESIHAALNGLLPPDIRVREISPAVPEFHARFSVKSKIYH 158

Query: 139 YKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKS 198
           YKIYNDAVMDPF  HY YHSVYKLNT  MREAA++F GKHDFSAFVN   NDR+ NPVK+
Sbjct: 159 YKIYNDAVMDPFLRHYVYHSVYKLNTLAMREAAKHFTGKHDFSAFVNASHNDRSPNPVKN 218

Query: 199 IFRFDVIEMGALLQLEVEGSGFLYRQVRNMV 229
           IFRFDV EMGALLQLEVEGSGFLYRQVRNMV
Sbjct: 219 IFRFDVNEMGALLQLEVEGSGFLYRQVRNMV 249


>gi|255556594|ref|XP_002519331.1| pseudouridylate synthase, putative [Ricinus communis]
 gi|223541646|gb|EEF43195.1| pseudouridylate synthase, putative [Ricinus communis]
          Length = 344

 Score =  357 bits (917), Expect = 2e-96,   Method: Compositional matrix adjust.
 Identities = 166/205 (80%), Positives = 182/205 (88%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
           FKWRLVI YDGTRYAGWQFQ SPPTIQC +EKALI+VTKL+R+DL LVGASRTDTGVHA+
Sbjct: 71  FKWRLVIAYDGTRYAGWQFQQSPPTIQCYLEKALIQVTKLDRKDLLLVGASRTDTGVHAF 130

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           GQVAHF+TPF+Y  L++IHAALNGLLPPDIRVREIS AVPEFHARFS  SK+YHYKIYND
Sbjct: 131 GQVAHFVTPFNYPSLDTIHAALNGLLPPDIRVREISPAVPEFHARFSTISKLYHYKIYND 190

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
             MDPF  HYAYHS YKLN   MR+AA+YF+G HDFSAF N  R+DR  NPVK+IFRFDV
Sbjct: 191 TFMDPFLRHYAYHSTYKLNAAAMRQAAKYFIGSHDFSAFANASRDDRVPNPVKTIFRFDV 250

Query: 205 IEMGALLQLEVEGSGFLYRQVRNMV 229
           IEMGALLQLEVEG+GFLYRQVRNMV
Sbjct: 251 IEMGALLQLEVEGTGFLYRQVRNMV 275


>gi|357479187|ref|XP_003609879.1| tRNA pseudouridine synthase family protein [Medicago truncatula]
 gi|355510934|gb|AES92076.1| tRNA pseudouridine synthase family protein [Medicago truncatula]
          Length = 322

 Score =  355 bits (911), Expect = 8e-96,   Method: Compositional matrix adjust.
 Identities = 165/216 (76%), Positives = 186/216 (86%), Gaps = 4/216 (1%)

Query: 14  VKPPTDDSFPGFKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVG 73
           VKP  D    G+KWRL++ YDGTRYAGWQ+Q SPPT+QC VEKALIR TKL+R+DL+LVG
Sbjct: 35  VKPNQD----GYKWRLLLSYDGTRYAGWQYQESPPTVQCAVEKALIRATKLQRKDLQLVG 90

Query: 74  ASRTDTGVHAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAK 133
           ASRTD GVHAWGQVAHF+TPF+YD L+S+HAALNGLLP DIRVREIS A  EFHARFS K
Sbjct: 91  ASRTDAGVHAWGQVAHFLTPFNYDNLDSVHAALNGLLPSDIRVREISPASAEFHARFSVK 150

Query: 134 SKIYHYKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRAL 193
           SKIYHYKIY+D +MDPFQ H+AYH++YKLN+  MREAA YF+GKHDF+AF N   NDR  
Sbjct: 151 SKIYHYKIYSDTIMDPFQRHFAYHNMYKLNSAAMREAARYFIGKHDFTAFENASHNDRIP 210

Query: 194 NPVKSIFRFDVIEMGALLQLEVEGSGFLYRQVRNMV 229
           +PVK IFRFDV EMGALLQLEVEGSGFLYRQVRNMV
Sbjct: 211 DPVKHIFRFDVKEMGALLQLEVEGSGFLYRQVRNMV 246


>gi|449441496|ref|XP_004138518.1| PREDICTED: tRNA pseudouridine synthase A 1-like [Cucumis sativus]
 gi|449518841|ref|XP_004166444.1| PREDICTED: tRNA pseudouridine synthase A 1-like [Cucumis sativus]
          Length = 335

 Score =  355 bits (910), Expect = 1e-95,   Method: Compositional matrix adjust.
 Identities = 164/211 (77%), Positives = 182/211 (86%)

Query: 19  DDSFPGFKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTD 78
           + SFP FKWRL+I YDGTRYAGWQ+Q SPPTIQC++E+ALI  TKLER+DL LVGASRTD
Sbjct: 48  EPSFPCFKWRLLIAYDGTRYAGWQYQRSPPTIQCLIEEALIGATKLERKDLHLVGASRTD 107

Query: 79  TGVHAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYH 138
            GVHAWGQVAHF+TPF+YD LES+HAALNGLLP DIRVRE+S AVP+FHARFS  SK+YH
Sbjct: 108 KGVHAWGQVAHFVTPFNYDSLESVHAALNGLLPVDIRVREMSPAVPDFHARFSTLSKVYH 167

Query: 139 YKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKS 198
           YKIY+  +MDPFQ  Y YH VYKLN   M+EAA YFVGKHDFSAF N   NDR +NPVK 
Sbjct: 168 YKIYSGTIMDPFQRCYTYHCVYKLNYAAMKEAANYFVGKHDFSAFTNAAHNDRVVNPVKV 227

Query: 199 IFRFDVIEMGALLQLEVEGSGFLYRQVRNMV 229
           IFRFDVIEMGAL+QLEVEGSGFLYRQVRNMV
Sbjct: 228 IFRFDVIEMGALVQLEVEGSGFLYRQVRNMV 258


>gi|357479185|ref|XP_003609878.1| tRNA pseudouridine synthase family protein [Medicago truncatula]
 gi|355510933|gb|AES92075.1| tRNA pseudouridine synthase family protein [Medicago truncatula]
          Length = 350

 Score =  354 bits (908), Expect = 2e-95,   Method: Compositional matrix adjust.
 Identities = 165/216 (76%), Positives = 186/216 (86%), Gaps = 4/216 (1%)

Query: 14  VKPPTDDSFPGFKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVG 73
           VKP  D    G+KWRL++ YDGTRYAGWQ+Q SPPT+QC VEKALIR TKL+R+DL+LVG
Sbjct: 63  VKPNQD----GYKWRLLLSYDGTRYAGWQYQESPPTVQCAVEKALIRATKLQRKDLQLVG 118

Query: 74  ASRTDTGVHAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAK 133
           ASRTD GVHAWGQVAHF+TPF+YD L+S+HAALNGLLP DIRVREIS A  EFHARFS K
Sbjct: 119 ASRTDAGVHAWGQVAHFLTPFNYDNLDSVHAALNGLLPSDIRVREISPASAEFHARFSVK 178

Query: 134 SKIYHYKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRAL 193
           SKIYHYKIY+D +MDPFQ H+AYH++YKLN+  MREAA YF+GKHDF+AF N   NDR  
Sbjct: 179 SKIYHYKIYSDTIMDPFQRHFAYHNMYKLNSAAMREAARYFIGKHDFTAFENASHNDRIP 238

Query: 194 NPVKSIFRFDVIEMGALLQLEVEGSGFLYRQVRNMV 229
           +PVK IFRFDV EMGALLQLEVEGSGFLYRQVRNMV
Sbjct: 239 DPVKHIFRFDVKEMGALLQLEVEGSGFLYRQVRNMV 274


>gi|356545824|ref|XP_003541334.1| PREDICTED: tRNA pseudouridine synthase A 1-like [Glycine max]
          Length = 327

 Score =  353 bits (907), Expect = 2e-95,   Method: Compositional matrix adjust.
 Identities = 162/206 (78%), Positives = 181/206 (87%)

Query: 24  GFKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHA 83
           G+KWR+V+ YDGT+YAGWQ+Q SPPT+QC VEKAL + TKL+R+DL LVGASRTD GVHA
Sbjct: 43  GYKWRIVLAYDGTQYAGWQYQESPPTVQCTVEKALTQATKLQRKDLCLVGASRTDAGVHA 102

Query: 84  WGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYN 143
           WGQVAHF TPF+YD LE +HAALNGLLP DIR+REIS A  EFHARFSAKSKIYHYKIYN
Sbjct: 103 WGQVAHFFTPFNYDNLEQLHAALNGLLPTDIRIREISPASAEFHARFSAKSKIYHYKIYN 162

Query: 144 DAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFD 203
           DA+MDPFQ H+AYHSVYKLN+ +MREAA YFVGKHDFSAF N   NDR  +PVK +FRFD
Sbjct: 163 DAIMDPFQRHFAYHSVYKLNSAVMREAATYFVGKHDFSAFANASHNDRVPDPVKHVFRFD 222

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
           + EMGALLQLEVEGSGFLYRQVRNMV
Sbjct: 223 LKEMGALLQLEVEGSGFLYRQVRNMV 248


>gi|356564676|ref|XP_003550576.1| PREDICTED: tRNA pseudouridine synthase A 1-like [Glycine max]
          Length = 309

 Score =  345 bits (885), Expect = 1e-92,   Method: Compositional matrix adjust.
 Identities = 163/216 (75%), Positives = 182/216 (84%), Gaps = 4/216 (1%)

Query: 14  VKPPTDDSFPGFKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVG 73
           VKP  D     +KWRLV+ YDGT+YAGWQ+Q SPPT+QC +EKAL R TKL+R+D  LVG
Sbjct: 19  VKPIQD----WYKWRLVLAYDGTKYAGWQYQQSPPTVQCTLEKALTRATKLQRKDFCLVG 74

Query: 74  ASRTDTGVHAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAK 133
           ASRTD GVHAWGQVAHF TPF+YD LE +HAALNGLLP DIRVREIS A  EFHARFSA 
Sbjct: 75  ASRTDAGVHAWGQVAHFFTPFNYDNLEELHAALNGLLPTDIRVREISPASAEFHARFSAI 134

Query: 134 SKIYHYKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRAL 193
           SKIYHYKIYNDA+MDPFQ H+AYHSVYKLN+ +MREAA+YFVGKHDFSAF N   ND   
Sbjct: 135 SKIYHYKIYNDAIMDPFQRHFAYHSVYKLNSAVMREAAKYFVGKHDFSAFANASNNDGVP 194

Query: 194 NPVKSIFRFDVIEMGALLQLEVEGSGFLYRQVRNMV 229
           +PVK +FRFD+ EMGALLQ+EVEGSGFLYRQVRNMV
Sbjct: 195 DPVKHVFRFDLKEMGALLQIEVEGSGFLYRQVRNMV 230


>gi|147865780|emb|CAN81146.1| hypothetical protein VITISV_020811 [Vitis vinifera]
          Length = 403

 Score =  338 bits (866), Expect = 1e-90,   Method: Compositional matrix adjust.
 Identities = 166/203 (81%), Positives = 173/203 (85%), Gaps = 13/203 (6%)

Query: 40  GWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVAHFITPFSYDGL 99
           GWQ+Q SPPTIQCIVEKAL R TKLEREDL LVGASRTDTGVHAWGQVAHF+TPF+YDGL
Sbjct: 124 GWQYQQSPPTIQCIVEKALTRATKLEREDLYLVGASRTDTGVHAWGQVAHFLTPFNYDGL 183

Query: 100 ESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDPFQHHYAYHSV 159
           ESIHAALNGLLPPDIRVREIS AVPEFHARFS KSKIYHYKIYNDAVMDPF  HY YHSV
Sbjct: 184 ESIHAALNGLLPPDIRVREISPAVPEFHARFSXKSKIYHYKIYNDAVMDPFLRHYVYHSV 243

Query: 160 YKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM------------ 207
           YKLNT  MREAA++F GKHDFSAFVN   NDR+ NPVK+IFRFDV EM            
Sbjct: 244 YKLNTLAMREAAKHFTGKHDFSAFVNASHNDRSPNPVKNIFRFDVNEMMFLELIVNCIIA 303

Query: 208 -GALLQLEVEGSGFLYRQVRNMV 229
            GALLQLEVEGSGFLYRQVRNMV
Sbjct: 304 QGALLQLEVEGSGFLYRQVRNMV 326


>gi|30680075|ref|NP_187351.2| tRNA pseudouridine synthase A [Arabidopsis thaliana]
 gi|119360081|gb|ABL66769.1| At3g06950 [Arabidopsis thaliana]
 gi|332640958|gb|AEE74479.1| tRNA pseudouridine synthase A [Arabidopsis thaliana]
          Length = 323

 Score =  333 bits (855), Expect = 3e-89,   Method: Compositional matrix adjust.
 Identities = 156/225 (69%), Positives = 185/225 (82%), Gaps = 3/225 (1%)

Query: 5   VGLEGTNNTVKPPTDDSFPGFKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKL 64
           + +   N++VK    DS   +KWRLVI YDGTR+AGWQ+Q SPPTIQ ++EKALI++T+L
Sbjct: 24  ISMTNLNSSVK--VSDS-GAYKWRLVIAYDGTRFAGWQYQESPPTIQSMLEKALIQITEL 80

Query: 65  EREDLRLVGASRTDTGVHAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVP 124
            R++L+L+GA RTD GVHAWGQVAHF+TPF+Y  L+S HAALNGLLP DIRVRE+SAAVP
Sbjct: 81  GRKELQLIGAGRTDAGVHAWGQVAHFVTPFNYTSLDSFHAALNGLLPKDIRVRELSAAVP 140

Query: 125 EFHARFSAKSKIYHYKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFV 184
           EFHARFSA SK+Y Y+IYND  MDPFQ H+AYH  YKLN + MREAA  FVGKHDFSAF 
Sbjct: 141 EFHARFSASSKVYRYQIYNDTFMDPFQRHWAYHCAYKLNASKMREAANLFVGKHDFSAFA 200

Query: 185 NIQRNDRALNPVKSIFRFDVIEMGALLQLEVEGSGFLYRQVRNMV 229
           N  R D   +P+K+I RFDVI+MG+LLQLEVEGSGFLYRQVRNMV
Sbjct: 201 NATREDGVPDPLKTISRFDVIQMGSLLQLEVEGSGFLYRQVRNMV 245


>gi|110737769|dbj|BAF00823.1| putative tRNA pseudouridine synthase [Arabidopsis thaliana]
          Length = 323

 Score =  332 bits (852), Expect = 5e-89,   Method: Compositional matrix adjust.
 Identities = 151/206 (73%), Positives = 176/206 (85%)

Query: 24  GFKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHA 83
            +KWRLVI YDGTR+AGWQ+Q SPPTIQ ++EKALI++T+L R++L+L+GA RTD GVHA
Sbjct: 40  AYKWRLVIAYDGTRFAGWQYQESPPTIQSMLEKALIQITELGRKELQLIGAGRTDAGVHA 99

Query: 84  WGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYN 143
           WGQVAHF+TPF+Y  L+S HAALNGLLP DIRVRE+SAAVPEFHARFSA SK+Y Y+IYN
Sbjct: 100 WGQVAHFVTPFNYTSLDSFHAALNGLLPKDIRVRELSAAVPEFHARFSASSKVYRYQIYN 159

Query: 144 DAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFD 203
           D  MDPFQ H+AYH  YKLN + MREAA  FVGKHDFSAF N  R D   +P+K+I RFD
Sbjct: 160 DTFMDPFQRHWAYHCAYKLNASKMREAANLFVGKHDFSAFANATREDGVPDPLKTISRFD 219

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
           VI+MG+LLQLEVEGSGFLYRQVRNMV
Sbjct: 220 VIQMGSLLQLEVEGSGFLYRQVRNMV 245


>gi|6729002|gb|AAF26999.1|AC016827_10 putative tRNA pseudouridine synthase [Arabidopsis thaliana]
          Length = 298

 Score =  332 bits (850), Expect = 1e-88,   Method: Compositional matrix adjust.
 Identities = 156/223 (69%), Positives = 184/223 (82%), Gaps = 3/223 (1%)

Query: 7   LEGTNNTVKPPTDDSFPGFKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLER 66
           +   N++VK    DS   +KWRLVI YDGTR+AGWQ+Q SPPTIQ ++EKALI++T+L R
Sbjct: 1   MTNLNSSVK--VSDS-GAYKWRLVIAYDGTRFAGWQYQESPPTIQSMLEKALIQITELGR 57

Query: 67  EDLRLVGASRTDTGVHAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEF 126
           ++L+L+GA RTD GVHAWGQVAHF+TPF+Y  L+S HAALNGLLP DIRVRE+SAAVPEF
Sbjct: 58  KELQLIGAGRTDAGVHAWGQVAHFVTPFNYTSLDSFHAALNGLLPKDIRVRELSAAVPEF 117

Query: 127 HARFSAKSKIYHYKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNI 186
           HARFSA SK+Y Y+IYND  MDPFQ H+AYH  YKLN + MREAA  FVGKHDFSAF N 
Sbjct: 118 HARFSASSKVYRYQIYNDTFMDPFQRHWAYHCAYKLNASKMREAANLFVGKHDFSAFANA 177

Query: 187 QRNDRALNPVKSIFRFDVIEMGALLQLEVEGSGFLYRQVRNMV 229
            R D   +P+K+I RFDVI+MG+LLQLEVEGSGFLYRQVRNMV
Sbjct: 178 TREDGVPDPLKTISRFDVIQMGSLLQLEVEGSGFLYRQVRNMV 220


>gi|297829238|ref|XP_002882501.1| tRNA pseudouridine synthase family protein [Arabidopsis lyrata
           subsp. lyrata]
 gi|297328341|gb|EFH58760.1| tRNA pseudouridine synthase family protein [Arabidopsis lyrata
           subsp. lyrata]
          Length = 323

 Score =  328 bits (841), Expect = 1e-87,   Method: Compositional matrix adjust.
 Identities = 155/225 (68%), Positives = 182/225 (80%), Gaps = 3/225 (1%)

Query: 5   VGLEGTNNTVKPPTDDSFPGFKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKL 64
           + +   N+ VK    DS   +KWRLVI YDGTR+AGWQ+Q SPPTIQ ++EKALI++T+L
Sbjct: 24  ISMTNLNSLVK--VSDS-NAYKWRLVIAYDGTRFAGWQYQESPPTIQSMLEKALIQITEL 80

Query: 65  EREDLRLVGASRTDTGVHAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVP 124
            R++L L+GA RTD GVHAWGQVAHF+TPF+Y  L+S HAALNGLLP DIRVRE+SAAVP
Sbjct: 81  GRKELHLIGAGRTDAGVHAWGQVAHFVTPFNYTSLDSFHAALNGLLPKDIRVRELSAAVP 140

Query: 125 EFHARFSAKSKIYHYKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFV 184
           EFHARFSA SK+Y Y+IYND  MDPFQ H+AYH  YKLN + MREAA  FVG HDFSAF 
Sbjct: 141 EFHARFSAHSKVYRYQIYNDTFMDPFQRHWAYHCAYKLNASKMREAANLFVGMHDFSAFA 200

Query: 185 NIQRNDRALNPVKSIFRFDVIEMGALLQLEVEGSGFLYRQVRNMV 229
           N  R D   +P+K+I RFDVI+MG+LLQLEVEGSGFLYRQVRNMV
Sbjct: 201 NATREDGLPDPLKTISRFDVIQMGSLLQLEVEGSGFLYRQVRNMV 245


>gi|222630953|gb|EEE63085.1| hypothetical protein OsJ_17893 [Oryza sativa Japonica Group]
          Length = 279

 Score =  328 bits (840), Expect = 2e-87,   Method: Compositional matrix adjust.
 Identities = 148/208 (71%), Positives = 175/208 (84%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
           +KWR+VI YDGT++ GWQ+Q SPPTIQC +E AL R+TKL+R++L LVGA RTDTGVHAW
Sbjct: 63  YKWRMVIAYDGTKFKGWQYQPSPPTIQCSIENALTRITKLDRKELCLVGAGRTDTGVHAW 122

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           GQVAHF TPFSY  L+S+H+A+NGLLP +IRVREISAA PEFHAR S +SKIYHYKIYN 
Sbjct: 123 GQVAHFTTPFSYHCLDSMHSAINGLLPHEIRVREISAAKPEFHARTSTRSKIYHYKIYNG 182

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
            VMDPF +HYAYHS YKLN+  MREAA++FVG HDF++F N   NDR  +P+K I RFDV
Sbjct: 183 PVMDPFHNHYAYHSAYKLNSQAMREAAKHFVGTHDFTSFANAVHNDRVRSPIKKIMRFDV 242

Query: 205 IEMGALLQLEVEGSGFLYRQVRNMVNHS 232
           IEMGA+LQLE+EG+GFLYRQVRNM   S
Sbjct: 243 IEMGAILQLEIEGTGFLYRQVRNMAGSS 270


>gi|357146309|ref|XP_003573945.1| PREDICTED: LOW QUALITY PROTEIN: tRNA pseudouridine synthase A
           1-like [Brachypodium distachyon]
          Length = 333

 Score =  319 bits (817), Expect = 7e-85,   Method: Compositional matrix adjust.
 Identities = 145/203 (71%), Positives = 174/203 (85%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           KWR+VI YDGT++ GWQ+Q SPPTIQC +EKALI +TKL+R++L LVGA RTDTGVHA G
Sbjct: 53  KWRMVIAYDGTKFKGWQYQPSPPTIQCFLEKALIHITKLDRKELCLVGAGRTDTGVHARG 112

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVAHF TPF+Y  L+S H+A+NGLLPPDIRVREISAA PEFHAR S KSKIYHYKIYN+A
Sbjct: 113 QVAHFTTPFTYRCLDSFHSAINGLLPPDIRVREISAARPEFHARTSTKSKIYHYKIYNEA 172

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           VMDPF ++YAYHS ++LN+  MREAA++FVG+HDF++F N   NDR  +P+K I RFDV 
Sbjct: 173 VMDPFHNNYAYHSAHRLNSHAMREAAKHFVGEHDFTSFANAVHNDRVRSPIKKILRFDVT 232

Query: 206 EMGALLQLEVEGSGFLYRQVRNM 228
           EM A++QLEVEG+GFLYRQVRNM
Sbjct: 233 EMDAIIQLEVEGTGFLYRQVRNM 255


>gi|413937480|gb|AFW72031.1| pseudouridylate synthase [Zea mays]
          Length = 335

 Score =  312 bits (800), Expect = 7e-83,   Method: Compositional matrix adjust.
 Identities = 146/204 (71%), Positives = 166/204 (81%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           KWR+VI YDGT++ GWQ+Q S PTIQ  +E ALI +TKL+R+ L LVGA RTDTGVHAWG
Sbjct: 55  KWRMVIAYDGTKFKGWQYQPSIPTIQYFLEDALICITKLDRKKLCLVGAGRTDTGVHAWG 114

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVAHF TPFSY  L SIH+A+NGLLPP+IRVREISAA PEFHAR S KSK+Y YKIYN+A
Sbjct: 115 QVAHFTTPFSYSCLSSIHSAMNGLLPPEIRVREISAARPEFHARSSTKSKVYRYKIYNEA 174

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           +MDPF +HYAYHS YKLN   M+EAA YFVG HDF++F N   ND    P K I RFDV 
Sbjct: 175 IMDPFHNHYAYHSAYKLNPHAMQEAANYFVGIHDFTSFANAAHNDGERRPTKKITRFDVT 234

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           EMGA+LQLEVEG+GFLYRQVRNMV
Sbjct: 235 EMGAVLQLEVEGTGFLYRQVRNMV 258


>gi|326522897|dbj|BAJ88494.1| predicted protein [Hordeum vulgare subsp. vulgare]
          Length = 328

 Score =  312 bits (800), Expect = 7e-83,   Method: Compositional matrix adjust.
 Identities = 144/204 (70%), Positives = 171/204 (83%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           KWR+VI YDGT++ GWQ+Q SPPTIQC +EKAL+R+TKL+R++L LVGA RTDTGVHA G
Sbjct: 48  KWRMVIAYDGTKFKGWQYQPSPPTIQCFLEKALMRITKLDRKELCLVGAGRTDTGVHARG 107

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVAHF TPF+Y  L+S H+A+NGLLPPDIRVREISAA  EFHAR S KSKIYHYKIYN+A
Sbjct: 108 QVAHFTTPFAYHCLDSFHSAINGLLPPDIRVREISAACGEFHARTSTKSKIYHYKIYNEA 167

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           VMDPF  +YAYHS +KLN   M+EAA +FVG HDF++F N   NDR  +P+K I RFDV 
Sbjct: 168 VMDPFHTNYAYHSAHKLNPHAMQEAANHFVGVHDFTSFANAVHNDRVRSPIKKISRFDVT 227

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           +M A++QLEVEG+GFLYRQVRNMV
Sbjct: 228 KMDAIIQLEVEGTGFLYRQVRNMV 251


>gi|413937481|gb|AFW72032.1| pseudouridylate synthase [Zea mays]
          Length = 334

 Score =  312 bits (800), Expect = 7e-83,   Method: Compositional matrix adjust.
 Identities = 146/204 (71%), Positives = 166/204 (81%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           KWR+VI YDGT++ GWQ+Q S PTIQ  +E ALI +TKL+R+ L LVGA RTDTGVHAWG
Sbjct: 54  KWRMVIAYDGTKFKGWQYQPSIPTIQYFLEDALICITKLDRKKLCLVGAGRTDTGVHAWG 113

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVAHF TPFSY  L SIH+A+NGLLPP+IRVREISAA PEFHAR S KSK+Y YKIYN+A
Sbjct: 114 QVAHFTTPFSYSCLSSIHSAMNGLLPPEIRVREISAARPEFHARSSTKSKVYRYKIYNEA 173

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           +MDPF +HYAYHS YKLN   M+EAA YFVG HDF++F N   ND    P K I RFDV 
Sbjct: 174 IMDPFHNHYAYHSAYKLNPHAMQEAANYFVGIHDFTSFANAAHNDGERRPTKKITRFDVT 233

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           EMGA+LQLEVEG+GFLYRQVRNMV
Sbjct: 234 EMGAVLQLEVEGTGFLYRQVRNMV 257


>gi|224102643|ref|XP_002312761.1| predicted protein [Populus trichocarpa]
 gi|222852581|gb|EEE90128.1| predicted protein [Populus trichocarpa]
          Length = 232

 Score =  304 bits (778), Expect = 2e-80,   Method: Compositional matrix adjust.
 Identities = 145/199 (72%), Positives = 159/199 (79%), Gaps = 4/199 (2%)

Query: 2   VGVVGLEGTNNTVKPPTDDSFPGFKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRV 61
           VG  G E  N  +KP  D    GFKWRL+I YDGT Y GWQFQ +PPTIQCI+EKAL R 
Sbjct: 38  VGSGGAEHPNTVLKPTVD----GFKWRLLISYDGTHYKGWQFQQTPPTIQCILEKALTRA 93

Query: 62  TKLEREDLRLVGASRTDTGVHAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISA 121
           TKLER+DL LVGASRTD GVHAWGQVAHF+TPF+YD L+SIHAALNGLLPPDIRVREISA
Sbjct: 94  TKLERKDLHLVGASRTDGGVHAWGQVAHFVTPFNYDSLDSIHAALNGLLPPDIRVREISA 153

Query: 122 AVPEFHARFSAKSKIYHYKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFS 181
            VPEFHARFSAK K YHYKI+ND VMDPFQ  YAYH  +KLN  +MREAA +F+G  DFS
Sbjct: 154 VVPEFHARFSAKGKTYHYKIFNDTVMDPFQRLYAYHVTHKLNAAVMREAANHFIGTRDFS 213

Query: 182 AFVNIQRNDRALNPVKSIF 200
           AFVN  RND   NPVK+IF
Sbjct: 214 AFVNSSRNDGVPNPVKTIF 232


>gi|89953446|gb|ABD83318.1| Fgenesh protein 88 [Beta vulgaris]
          Length = 278

 Score =  288 bits (736), Expect = 1e-75,   Method: Compositional matrix adjust.
 Identities = 130/189 (68%), Positives = 153/189 (80%)

Query: 41  WQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVAHFITPFSYDGLE 100
           WQ+Q SPPT+QC +EKAL ++T L+R++L +VGA RTDTGVHAWGQVAHF TPF+YD L+
Sbjct: 26  WQYQASPPTVQCAIEKALTKITHLDRKELSVVGAGRTDTGVHAWGQVAHFFTPFNYDSLD 85

Query: 101 SIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDPFQHHYAYHSVY 160
            +HAA NGLLP DIRVRE+S A P+FHARFSAK KIY Y IYN + MDPF  ++ YHS Y
Sbjct: 86  EVHAAFNGLLPSDIRVREVSPASPQFHARFSAKGKIYRYSIYNSSFMDPFLRYHVYHSTY 145

Query: 161 KLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMGALLQLEVEGSGF 220
           KLN  +M EAA YF GKHDF+AF N  RNDR  +P+K+I RFDV E G LL+LEVEGSGF
Sbjct: 146 KLNAAVMAEAARYFTGKHDFTAFANAIRNDRVRDPIKTISRFDVTERGPLLELEVEGSGF 205

Query: 221 LYRQVRNMV 229
           LYRQVRNMV
Sbjct: 206 LYRQVRNMV 214


>gi|215737309|dbj|BAG96238.1| unnamed protein product [Oryza sativa Japonica Group]
          Length = 223

 Score =  224 bits (571), Expect = 2e-56,   Method: Compositional matrix adjust.
 Identities = 104/143 (72%), Positives = 121/143 (84%)

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           VAHF TPFSY  L+S+H+A+NGLLP +IRVREISAA PEFHAR S +SKIYHYKIYN  V
Sbjct: 4   VAHFTTPFSYHCLDSMHSAINGLLPHEIRVREISAAKPEFHARTSTRSKIYHYKIYNGPV 63

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
           MDPF +HYAYHS YKLN+  MREAA++FVG HDF++F N   NDR  +P+K I RFDVIE
Sbjct: 64  MDPFHNHYAYHSAYKLNSQAMREAAKHFVGTHDFTSFANAVHNDRVRSPIKKIMRFDVIE 123

Query: 207 MGALLQLEVEGSGFLYRQVRNMV 229
           MGA+LQLE+EG+GFLYRQVRNMV
Sbjct: 124 MGAILQLEIEGTGFLYRQVRNMV 146


>gi|413937483|gb|AFW72034.1| pseudouridylate synthase [Zea mays]
          Length = 271

 Score =  221 bits (563), Expect = 2e-55,   Method: Compositional matrix adjust.
 Identities = 105/144 (72%), Positives = 117/144 (81%)

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVAHF TPFSY  L SIH+A+NGLLPP+IRVREISAA PEFHAR S KSK+Y YKIYN+A
Sbjct: 51  QVAHFTTPFSYSCLSSIHSAMNGLLPPEIRVREISAARPEFHARSSTKSKVYRYKIYNEA 110

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           +MDPF +HYAYHS YKLN   M+EAA YFVG HDF++F N   ND    P K I RFDV 
Sbjct: 111 IMDPFHNHYAYHSAYKLNPHAMQEAANYFVGIHDFTSFANAAHNDGERRPTKKITRFDVT 170

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           EMGA+LQLEVEG+GFLYRQVRNMV
Sbjct: 171 EMGAVLQLEVEGTGFLYRQVRNMV 194


>gi|413937482|gb|AFW72033.1| pseudouridylate synthase [Zea mays]
          Length = 223

 Score =  220 bits (560), Expect = 4e-55,   Method: Compositional matrix adjust.
 Identities = 104/143 (72%), Positives = 116/143 (81%)

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           VAHF TPFSY  L SIH+A+NGLLPP+IRVREISAA PEFHAR S KSK+Y YKIYN+A+
Sbjct: 4   VAHFTTPFSYSCLSSIHSAMNGLLPPEIRVREISAARPEFHARSSTKSKVYRYKIYNEAI 63

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
           MDPF +HYAYHS YKLN   M+EAA YFVG HDF++F N   ND    P K I RFDV E
Sbjct: 64  MDPFHNHYAYHSAYKLNPHAMQEAANYFVGIHDFTSFANAAHNDGERRPTKKITRFDVTE 123

Query: 207 MGALLQLEVEGSGFLYRQVRNMV 229
           MGA+LQLEVEG+GFLYRQVRNMV
Sbjct: 124 MGAVLQLEVEGTGFLYRQVRNMV 146


>gi|302757930|ref|XP_002962388.1| hypothetical protein SELMODRAFT_78854 [Selaginella moellendorffii]
 gi|300169249|gb|EFJ35851.1| hypothetical protein SELMODRAFT_78854 [Selaginella moellendorffii]
          Length = 268

 Score =  219 bits (559), Expect = 6e-55,   Method: Compositional matrix adjust.
 Identities = 106/207 (51%), Positives = 137/207 (66%), Gaps = 2/207 (0%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           KWR+V+ YDGTR++GWQ+Q   PT+Q ++E AL ++T+  RE+L +  ASRTD GVHA G
Sbjct: 1   KWRIVVSYDGTRFSGWQYQPDFPTVQGLIEDALTKLTRYTREELLMAAASRTDAGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVAHF +P     L  IH  LNG LP +IRVREIS A   FHA+  A++K Y YK++   
Sbjct: 61  QVAHFHSPACIGDLSRIHRGLNGTLPHEIRVREISPAKSSFHAQACARTKRYQYKLFVAP 120

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           VMDP    YAYH   +L+   M EA  YFVGKHDFS F N        NPV+ I RFD++
Sbjct: 121 VMDPLLRLYAYHVPERLDVAAMAEACGYFVGKHDFSTFSNSSTLRPLQNPVREILRFDLL 180

Query: 206 EM--GALLQLEVEGSGFLYRQVRNMVN 230
           E   G +L  E+EG+GF ++Q+RNMV 
Sbjct: 181 EQASGPVLCFEIEGTGFFHKQIRNMVG 207


>gi|302764370|ref|XP_002965606.1| hypothetical protein SELMODRAFT_84331 [Selaginella moellendorffii]
 gi|300166420|gb|EFJ33026.1| hypothetical protein SELMODRAFT_84331 [Selaginella moellendorffii]
          Length = 269

 Score =  218 bits (556), Expect = 1e-54,   Method: Compositional matrix adjust.
 Identities = 105/208 (50%), Positives = 138/208 (66%), Gaps = 3/208 (1%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           KWR+V+ YDGTR++GWQ+Q   PT+Q ++E AL ++T+  RE+L +  ASRTD GVHA G
Sbjct: 1   KWRIVVSYDGTRFSGWQYQPDFPTVQGLIEDALTKLTRYTREELLMAAASRTDAGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVAHF +P     L  IH  LNG LP +IRVREIS A   FHA+  A++K Y YK++   
Sbjct: 61  QVAHFHSPACIGDLSRIHRGLNGTLPHEIRVREISPAKSSFHAQACARTKRYQYKLFVAP 120

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           VMDP    YAYH   +L+   M EA  YFVGKHDFS F N        NPV+ I RF+++
Sbjct: 121 VMDPLLRLYAYHVPERLDVAAMAEACGYFVGKHDFSTFSNSSTLRPLQNPVREILRFELL 180

Query: 206 E---MGALLQLEVEGSGFLYRQVRNMVN 230
           E   +G +L  E+EG+GF ++Q+RNMV 
Sbjct: 181 EQASLGPVLCFEIEGTGFFHKQIRNMVG 208


>gi|219888663|gb|ACL54706.1| unknown [Zea mays]
          Length = 271

 Score =  218 bits (555), Expect = 1e-54,   Method: Compositional matrix adjust.
 Identities = 104/144 (72%), Positives = 116/144 (80%)

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVAHF TPFSY  L SIH+A+NGL PP+IRVREISAA PEFHAR S KSK+Y YKIYN+A
Sbjct: 51  QVAHFTTPFSYSCLSSIHSAMNGLPPPEIRVREISAARPEFHARSSTKSKVYRYKIYNEA 110

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           +MDPF +HYAYHS YKLN   M+EAA YFVG HDF++F N   ND    P K I RFDV 
Sbjct: 111 IMDPFHNHYAYHSAYKLNPHAMQEAANYFVGIHDFTSFANAAHNDGERRPTKKITRFDVT 170

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           EMGA+LQLEVEG+GFLYRQVRNMV
Sbjct: 171 EMGAVLQLEVEGTGFLYRQVRNMV 194


>gi|168009447|ref|XP_001757417.1| predicted protein [Physcomitrella patens subsp. patens]
 gi|162691540|gb|EDQ77902.1| predicted protein [Physcomitrella patens subsp. patens]
          Length = 299

 Score =  212 bits (540), Expect = 1e-52,   Method: Compositional matrix adjust.
 Identities = 101/189 (53%), Positives = 128/189 (67%)

Query: 41  WQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVAHFITPFSYDGLE 100
           WQ Q +  +IQ  VE AL + T+L R++L+LVGA RTD GVHAWGQVAHF TP  +  LE
Sbjct: 36  WQIQKNYVSIQEKVEDALSKFTRLPRDELKLVGAGRTDAGVHAWGQVAHFTTPTCFCDLE 95

Query: 101 SIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDPFQHHYAYHSVY 160
            +H +LNG+LPPDIR+ E+S+  P+FHAR+SA  K Y YK Y   VMDPFQH YAYH   
Sbjct: 96  PLHTSLNGILPPDIRILEVSSVQPDFHARYSACRKTYQYKAYVSPVMDPFQHAYAYHIKN 155

Query: 161 KLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMGALLQLEVEGSGF 220
            +N   M EAA YFVG H+FSAF N   +  + + ++ +  F V  +G  L  EVEG  F
Sbjct: 156 SVNIAAMEEAASYFVGTHNFSAFANHSADTASRDTLRDLLSFTVSSIGPQLLFEVEGKSF 215

Query: 221 LYRQVRNMV 229
           +Y+QVRNMV
Sbjct: 216 MYKQVRNMV 224


>gi|297789719|ref|XP_002862797.1| hypothetical protein ARALYDRAFT_920264 [Arabidopsis lyrata subsp.
           lyrata]
 gi|297308524|gb|EFH39055.1| hypothetical protein ARALYDRAFT_920264 [Arabidopsis lyrata subsp.
           lyrata]
          Length = 244

 Score =  197 bits (501), Expect = 3e-48,   Method: Compositional matrix adjust.
 Identities = 100/163 (61%), Positives = 117/163 (71%), Gaps = 14/163 (8%)

Query: 67  EDLRLVGASRTDTGVHAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEF 126
           ED R++   +  T VH +              L+S HAALNGLLP DIRVRE+SAAVPEF
Sbjct: 18  EDGRIIIIWKLPTTVHVF--------------LDSFHAALNGLLPKDIRVRELSAAVPEF 63

Query: 127 HARFSAKSKIYHYKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNI 186
           HARFSA+SK+Y Y+IYND  MDPFQ ++AYH  YKLN + MRE  + FVG HD SAF N 
Sbjct: 64  HARFSAQSKVYRYQIYNDTFMDPFQRYWAYHCAYKLNASKMRETVDLFVGMHDVSAFANA 123

Query: 187 QRNDRALNPVKSIFRFDVIEMGALLQLEVEGSGFLYRQVRNMV 229
            R D   +P+KSI RF VI+MG+LLQLEVEGSGFLYRQVRNMV
Sbjct: 124 TREDGVPDPLKSISRFYVIQMGSLLQLEVEGSGFLYRQVRNMV 166


>gi|219363303|ref|NP_001136956.1| uncharacterized protein LOC100217116 [Zea mays]
 gi|194697754|gb|ACF82961.1| unknown [Zea mays]
 gi|413937485|gb|AFW72036.1| pseudouridylate synthase [Zea mays]
          Length = 201

 Score =  191 bits (486), Expect = 1e-46,   Method: Compositional matrix adjust.
 Identities = 90/124 (72%), Positives = 101/124 (81%)

Query: 106 LNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDPFQHHYAYHSVYKLNTT 165
           +NGLLPP+IRVREISAA PEFHAR S KSK+Y YKIYN+A+MDPF +HYAYHS YKLN  
Sbjct: 1   MNGLLPPEIRVREISAARPEFHARSSTKSKVYRYKIYNEAIMDPFHNHYAYHSAYKLNPH 60

Query: 166 LMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMGALLQLEVEGSGFLYRQV 225
            M+EAA YFVG HDF++F N   ND    P K I RFDV EMGA+LQLEVEG+GFLYRQV
Sbjct: 61  AMQEAANYFVGIHDFTSFANAAHNDGERRPTKKITRFDVTEMGAVLQLEVEGTGFLYRQV 120

Query: 226 RNMV 229
           RNMV
Sbjct: 121 RNMV 124


>gi|413937484|gb|AFW72035.1| hypothetical protein ZEAMMB73_631883 [Zea mays]
          Length = 212

 Score =  191 bits (484), Expect = 3e-46,   Method: Compositional matrix adjust.
 Identities = 90/124 (72%), Positives = 101/124 (81%)

Query: 106 LNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDPFQHHYAYHSVYKLNTT 165
           +NGLLPP+IRVREISAA PEFHAR S KSK+Y YKIYN+A+MDPF +HYAYHS YKLN  
Sbjct: 1   MNGLLPPEIRVREISAARPEFHARSSTKSKVYRYKIYNEAIMDPFHNHYAYHSAYKLNPH 60

Query: 166 LMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMGALLQLEVEGSGFLYRQV 225
            M+EAA YFVG HDF++F N   ND    P K I RFDV EMGA+LQLEVEG+GFLYRQV
Sbjct: 61  AMQEAANYFVGIHDFTSFANAAHNDGERRPTKKITRFDVTEMGAVLQLEVEGTGFLYRQV 120

Query: 226 RNMV 229
           RNMV
Sbjct: 121 RNMV 124


>gi|242062120|ref|XP_002452349.1| hypothetical protein SORBIDRAFT_04g024110 [Sorghum bicolor]
 gi|241932180|gb|EES05325.1| hypothetical protein SORBIDRAFT_04g024110 [Sorghum bicolor]
          Length = 201

 Score =  189 bits (481), Expect = 7e-46,   Method: Compositional matrix adjust.
 Identities = 89/124 (71%), Positives = 100/124 (80%)

Query: 106 LNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDPFQHHYAYHSVYKLNTT 165
           +NGLLPP+IRVREISAA PEFHAR S KSK+Y YKIYN+A+MDPF + YAYHS YKLN  
Sbjct: 1   MNGLLPPEIRVREISAARPEFHARTSTKSKVYRYKIYNEAIMDPFHNRYAYHSAYKLNPH 60

Query: 166 LMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMGALLQLEVEGSGFLYRQV 225
            M+EAA YFVG HDF++F N   NDR     K I RFDV EMGA+LQLEVEG+GFLYRQV
Sbjct: 61  AMQEAANYFVGTHDFTSFANAAHNDRERRSTKKITRFDVTEMGAVLQLEVEGTGFLYRQV 120

Query: 226 RNMV 229
           RNMV
Sbjct: 121 RNMV 124


>gi|46445962|ref|YP_007327.1| tRNA pseudouridylate synthase I [Candidatus Protochlamydia
           amoebophila UWE25]
 gi|51316632|sp|Q6MEE7.1|TRUA1_PARUW RecName: Full=tRNA pseudouridine synthase A 1; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I 1; AltName: Full=tRNA-uridine
           isomerase I 1
 gi|46399603|emb|CAF23052.1| putative tRNA pseudouridylate synthase I [Candidatus Protochlamydia
           amoebophila UWE25]
          Length = 256

 Score =  183 bits (465), Expect = 4e-44,   Method: Compositional matrix adjust.
 Identities = 92/204 (45%), Positives = 134/204 (65%), Gaps = 4/204 (1%)

Query: 27  WRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           ++L I YDGT Y+GWQ Q +  +IQ  +++AL  +  L++E + LVG+ RTD GVHA GQ
Sbjct: 4   YKLTIAYDGTNYSGWQIQPNASSIQQKIQEALCIL--LKKEKVVLVGSGRTDAGVHAKGQ 61

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           VAHF     Y  L  +H +LNGLLP DIR++ +    P FH+++SA  K YHY ++ + V
Sbjct: 62  VAHFHFQ-DYIDLSRLHVSLNGLLPRDIRIKAVEPVSPRFHSQYSAIRKEYHYYLHLNKV 120

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVN-IQRNDRALNPVKSIFRFDVI 205
           MDPFQ  Y++H   K++  ++++AA  F G HDF++F N   R   A NPV++++R D+ 
Sbjct: 121 MDPFQRLYSWHFQRKIDVNILKKAAILFTGTHDFTSFANEAHRGTAAKNPVRTLYRLDIK 180

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
                L+LE EG GFLY+ VRN+V
Sbjct: 181 PNEGGLRLEFEGDGFLYKMVRNIV 204


>gi|338174192|ref|YP_004651002.1| tRNA pseudouridine synthase A 1 [Parachlamydia acanthamoebae UV-7]
 gi|336478550|emb|CCB85148.1| tRNA pseudouridine synthase A 1 [Parachlamydia acanthamoebae UV-7]
          Length = 256

 Score =  179 bits (455), Expect = 6e-43,   Method: Compositional matrix adjust.
 Identities = 93/205 (45%), Positives = 127/205 (61%), Gaps = 4/205 (1%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
           +K+++ + YDGT Y+GWQ Q +   IQ IVEK    + K+ R+ +R+V + RTD GVHA 
Sbjct: 3   YKFKITLAYDGTHYSGWQIQPNALAIQEIVEK---EIGKIVRQPVRVVASGRTDAGVHAR 59

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           GQVAHF T    D L     ++NGLLP DIRV++I    P+FHA++S   K YHY +   
Sbjct: 60  GQVAHFSTDAEID-LRRFLVSINGLLPKDIRVKDICQVPPDFHAQYSVSGKAYHYHLTLS 118

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
            V  PF   YA+H   KL+ + ++ AA+ FVG HDF++F N    +   N V++I R DV
Sbjct: 119 RVQSPFSRFYAWHIRQKLDLSQLQAAAQLFVGTHDFTSFANEAHREHPQNAVRTIKRVDV 178

Query: 205 IEMGALLQLEVEGSGFLYRQVRNMV 229
           I      +LE EG GFLY+ VRNMV
Sbjct: 179 IMEDEGCRLEFEGDGFLYKMVRNMV 203


>gi|255083272|ref|XP_002504622.1| predicted protein [Micromonas sp. RCC299]
 gi|226519890|gb|ACO65880.1| predicted protein [Micromonas sp. RCC299]
          Length = 253

 Score =  179 bits (454), Expect = 9e-43,   Method: Compositional matrix adjust.
 Identities = 97/208 (46%), Positives = 131/208 (62%), Gaps = 5/208 (2%)

Query: 27  WRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           + L + YDG  Y G+Q+Q    T+Q  VE+AL ++T  +RE L +  + RTDTGVHA GQ
Sbjct: 3   YALKLAYDGEAYLGFQYQPKGKTVQGEVERALTKLTGHDREFLGMQASGRTDTGVHARGQ 62

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           + HF T      LE  H +LNG++P D+R  E+    P FHARF A  K YHY +    V
Sbjct: 63  ILHFYTKEPVSDLERFHKSLNGIMPKDVRCVEVMRPHPAFHARFHAVRKTYHYFLDPRLV 122

Query: 147 MDPFQHHYAYHSVYK-LNTTLMREAAEYFVGKHDFSAFVNIQRNDRAL--NPVKSIFRFD 203
           +DPF   +A H  +K  +   +REAA  FVG HDF++F N  R D+ L  +P ++I+RFD
Sbjct: 123 LDPFVRRHALHCGWKPPSVERLREAAAVFVGTHDFTSFSNKSR-DKTLVRSPTRTIYRFD 181

Query: 204 VIEM-GALLQLEVEGSGFLYRQVRNMVN 230
           V+E    L++LEVEG+GFLYR VRNMV 
Sbjct: 182 VVEQPDGLIRLEVEGNGFLYRMVRNMVG 209


>gi|145356339|ref|XP_001422390.1| predicted protein [Ostreococcus lucimarinus CCE9901]
 gi|144582632|gb|ABP00707.1| predicted protein [Ostreococcus lucimarinus CCE9901]
          Length = 286

 Score =  173 bits (439), Expect = 5e-41,   Method: Compositional matrix adjust.
 Identities = 99/211 (46%), Positives = 127/211 (60%), Gaps = 8/211 (3%)

Query: 27  WRLVIGYDGTRYAGWQFQTSP-PTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + L I YDG RY G+Q+Q    PTIQ  +E+AL ++T ++RE LRL  A RTD GVHA G
Sbjct: 18  YALKISYDGERYNGFQYQGEDVPTIQRELERALAKLTGIDRERLRLGAAGRTDAGVHARG 77

Query: 86  QVAHFITPFSY-DGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           QVAHF    S  + L     A+NG+LP DIRV       P FH+RF A  K YHY +   
Sbjct: 78  QVAHFYCEKSLGEDLTRCQKAMNGMLPKDIRVDAFWEPHPLFHSRFHASGKTYHYYVDAR 137

Query: 145 AVMDPFQHHYAYHSVYK-LNTTLMREAAEYFVGKHDFSAFVNIQRN--DRALNPVKSIFR 201
           A   PF   YA+   ++  +  L+R+AA+ FVG  D+  F N  R+  +   N  ++I R
Sbjct: 138 ATSSPFTRKYAHQVGWRPCDVELLRQAAQLFVGTMDYKGFCNTSRDKSNEDRNTTRTIRR 197

Query: 202 FDVIEMGA---LLQLEVEGSGFLYRQVRNMV 229
           FDV E  A   L++LEVEG GFLYRQVRNMV
Sbjct: 198 FDVFEDAADDGLIRLEVEGDGFLYRQVRNMV 228


>gi|159469598|ref|XP_001692950.1| tRNA pseudouridine synthase [Chlamydomonas reinhardtii]
 gi|158277752|gb|EDP03519.1| tRNA pseudouridine synthase [Chlamydomonas reinhardtii]
          Length = 239

 Score =  168 bits (425), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 89/212 (41%), Positives = 120/212 (56%), Gaps = 8/212 (3%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
             +RL++ YDGT Y GWQ Q + PT+Q  +E AL  V + +R  L +  A RTD+GVHA 
Sbjct: 3   LSYRLILAYDGTDYCGWQLQPAAPTVQAKLEAALGTVLREDRGVLGVRAAGRTDSGVHAR 62

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           GQV   +T      ++ +   LN +LPPDIRV  +    P+F    S   K YHY I N 
Sbjct: 63  GQVRTGLTGRGGLPVDKLAYKLNAVLPPDIRVMGVRRTAPDFSVTCSPIGKTYHYNITNS 122

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRND---RALNPVKSIFR 201
              DP +H YAYH    L+   MR AA   VG HDF+ F NI       R  NPVK++ R
Sbjct: 123 EAHDPLRHRYAYHVRKPLDLAGMRAAAALLVGTHDFTQFSNIGEEGGRPRKRNPVKTLRR 182

Query: 202 FDVIEMGAL-----LQLEVEGSGFLYRQVRNM 228
            DV+E+        +++EVEG+GFLY+ VR++
Sbjct: 183 MDVVELDPAAFPGGVRIEVEGNGFLYKMVRHI 214


>gi|303288620|ref|XP_003063598.1| predicted protein [Micromonas pusilla CCMP1545]
 gi|226454666|gb|EEH51971.1| predicted protein [Micromonas pusilla CCMP1545]
          Length = 261

 Score =  163 bits (413), Expect = 4e-38,   Method: Compositional matrix adjust.
 Identities = 94/209 (44%), Positives = 126/209 (60%), Gaps = 7/209 (3%)

Query: 27  WRLVIGYDGTRYAGWQFQT-SPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + L + YDG  Y G+Q+Q     T+Q  VEKAL ++T  +R+ L +  + RTD GVHA G
Sbjct: 3   YALTLAYDGENYLGFQYQPRDAKTVQGEVEKALTKITGEDRDFLGIQASGRTDAGVHARG 62

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF      + L     ++NG+LP D+RV +     P FHARF A  K YHY +    
Sbjct: 63  QVLHFYARRPIEDLARFQRSMNGVLPRDVRVMKAIRPHPAFHARFHAVRKTYHYYLDTRL 122

Query: 146 VMDPFQHHYAYHSVYK-LNTTLMREAAEYFVGKHDFSAFVNIQRNDRAL--NPVKSIFRF 202
            MDPF   +A H  +   +   +R  AE FVG  DFSAF N  R D+ L  +PV++I+RF
Sbjct: 123 TMDPFLRRHALHVGWNPPDVEKLRRGAECFVGTRDFSAFSNKPR-DKTLVRDPVRTIYRF 181

Query: 203 DVIEM--GALLQLEVEGSGFLYRQVRNMV 229
           DV E+    LL+LEVEG+GF+Y+QVRNMV
Sbjct: 182 DVNELKGDGLLRLEVEGNGFMYKQVRNMV 210


>gi|308814270|ref|XP_003084440.1| TRUA1_PARUW tRNA pseudouridine synthase A 1 (ISS) [Ostreococcus
           tauri]
 gi|116056325|emb|CAL56708.1| TRUA1_PARUW tRNA pseudouridine synthase A 1 (ISS) [Ostreococcus
           tauri]
          Length = 705

 Score =  160 bits (404), Expect = 5e-37,   Method: Compositional matrix adjust.
 Identities = 91/212 (42%), Positives = 118/212 (55%), Gaps = 10/212 (4%)

Query: 29  LVIGYDGTRYAGWQFQTSP-PTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           + I YDGT Y G+Q Q +   ++Q  +E+ L R+T   R+ LRL G+ RTD GVHA GQV
Sbjct: 19  MTISYDGTNYKGFQRQGADVASVQRELERCLTRLTGEGRDALRLGGSGRTDGGVHARGQV 78

Query: 88  AHFITPFSYDGLESIH---AALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
            HF +   +   E       A+NG+LP D+R        P FHARF A  K Y Y +   
Sbjct: 79  VHFYSEKDWRSAEDFARCVKAMNGMLPRDVRCERFWRPHPAFHARFHATRKTYAYYVDAR 138

Query: 145 AVMDPFQHHYAYHSVYK-LNTTLMREAAEYFVGKHDFSAFVNIQRN----DRALNPVKSI 199
           +  D F   YA    ++  +   +R A +YFVG  DF AF N  R+    D  LN  ++I
Sbjct: 139 SPHDVFARAYACQCGWRACDVDALRRACQYFVGTRDFRAFANTSRDKPTSDEDLNTTRTI 198

Query: 200 FRFDVIEMG-ALLQLEVEGSGFLYRQVRNMVN 230
           FRFDV E    L++LE EG GFLYRQVRNMV 
Sbjct: 199 FRFDVFEQADGLIRLECEGDGFLYRQVRNMVG 230


>gi|302851591|ref|XP_002957319.1| tRNA pseudouridine synthase [Volvox carteri f. nagariensis]
 gi|300257414|gb|EFJ41663.1| tRNA pseudouridine synthase [Volvox carteri f. nagariensis]
          Length = 226

 Score =  159 bits (403), Expect = 6e-37,   Method: Compositional matrix adjust.
 Identities = 90/213 (42%), Positives = 111/213 (52%), Gaps = 20/213 (9%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
             +R+++ YDGT Y GWQ Q S PT+Q  +E AL  V + ER  L +  A RTD GVHA 
Sbjct: 3   LSYRMIVSYDGTAYCGWQLQPSAPTVQRFLEGALCTVLREERAVLGVRAAGRTDAGVHAR 62

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           GQV  F      D +  +   LN +LP DIRV  +S   P+F    SA  K Y Y I N 
Sbjct: 63  GQVVQFSCDKELD-VTKMPYKLNSVLPHDIRVLRMSRTAPDFSVTCSALGKCYRYSITNG 121

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNI---------QRNDRALNP 195
              DP +H YA H    L+   MR AA    G HDFS F NI         QR  R  NP
Sbjct: 122 ETHDPLRHRYALHVRRHLDLAAMRSAAALLTGTHDFSQFSNIGEEGGSPDVQRRRRQRNP 181

Query: 196 VKSIFRFDVIEMGALLQLEVEGSGFLYRQVRNM 228
           VK++ R DV          VEG+GFLY+ VR++
Sbjct: 182 VKTLRRVDV----------VEGNGFLYKMVRHI 204


>gi|20808627|ref|NP_623798.1| tRNA pseudouridine synthase A [Thermoanaerobacter tengcongensis
           MB4]
 gi|24212532|sp|Q8R7Y7.1|TRUA_THETN RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|20517260|gb|AAM25402.1| Pseudouridylate synthase (tRNA psi55) [Thermoanaerobacter
           tengcongensis MB4]
          Length = 240

 Score =  159 bits (402), Expect = 1e-36,   Method: Compositional matrix adjust.
 Identities = 90/201 (44%), Positives = 123/201 (61%), Gaps = 6/201 (2%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L+I YDGT Y GWQ+Q +  T+Q ++EKA+ +VT    E + L+G+SRTDTGVHA  QVA
Sbjct: 2   LIIEYDGTNYHGWQYQKNAITVQEVLEKAIEKVTG---EKVNLIGSSRTDTGVHALYQVA 58

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +F T       E +  ALN +LP D+ V +       FHAR+SA+SK Y Y I N     
Sbjct: 59  NFKTKTKIPP-EKLPYALNAVLPDDVVVVKAKEVDKSFHARYSARSKRYRYLILNRQFPM 117

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
           P   +Y +H  Y L+   M++AA +F G HDFSAF      ++ +NPVK+IF   V + G
Sbjct: 118 PTMRNYCWHVPYPLDVEAMKKAAFFFRGTHDFSAFK--ASGNKKVNPVKTIFDLTVEKEG 175

Query: 209 ALLQLEVEGSGFLYRQVRNMV 229
            L+++EVE  GFLY  VR +V
Sbjct: 176 DLIKIEVEADGFLYNMVRIIV 196


>gi|384247684|gb|EIE21170.1| tRNA pseudouridine synthase A [Coccomyxa subellipsoidea C-169]
          Length = 297

 Score =  159 bits (401), Expect = 1e-36,   Method: Compositional matrix adjust.
 Identities = 90/207 (43%), Positives = 128/207 (61%), Gaps = 6/207 (2%)

Query: 27  WRLVIGYDGTRYAGWQFQ--TSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
           ++  I YDGT Y G+Q Q      TIQ  +EKAL  VT+ +R +L++  + RTD GVHA 
Sbjct: 45  YKATISYDGTDYNGFQLQLGVRGRTIQGELEKALTLVTQNDRAELKVTASGRTDAGVHAS 104

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           GQV +F +   +      H+ +N LLPPDIRV ++    P+F+ARFSA SK Y ++I   
Sbjct: 105 GQVVNFFSGKGHCPSRLWHS-MNRLLPPDIRVLDVQPVGPDFNARFSALSKEYRFQICTG 163

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
            + DPF   Y+ H    L+   MR+AA+ F+G HDF+ F +       +NP K++ RF+V
Sbjct: 164 PLHDPFLWRYSQHVYLPLDVEAMRQAAKCFLGSHDFTQFAST--YPVGMNPRKTLTRFEV 221

Query: 205 IEM-GALLQLEVEGSGFLYRQVRNMVN 230
           +E+    L+LEV+GSGFLYR VR+MV 
Sbjct: 222 VEVRPGFLRLEVQGSGFLYRMVRHMVG 248


>gi|338811094|ref|ZP_08623330.1| tRNA pseudouridine synthase A [Acetonema longum DSM 6540]
 gi|337276917|gb|EGO65318.1| tRNA pseudouridine synthase A [Acetonema longum DSM 6540]
          Length = 245

 Score =  155 bits (393), Expect = 1e-35,   Method: Compositional matrix adjust.
 Identities = 89/202 (44%), Positives = 121/202 (59%), Gaps = 6/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           RL I YDG+ Y G+Q Q +  TIQ I+E+   R+++L    L++ GA RTD GVHAWGQV
Sbjct: 6   RLTISYDGSNYHGFQRQQNALTIQEILEE---RLSRLFGHHLKITGAGRTDAGVHAWGQV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            +F T  +   +E I AA NGLLP DI V+  +    +FHAR+SAKSKIY YK+YN  + 
Sbjct: 63  VNFFTTGTIP-VERIPAAANGLLPRDIVVKAAATVDADFHARYSAKSKIYIYKVYNHLLP 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           DPF  + A+H    L+   MR+A     G HDFSAF        A +PV+++ + D  + 
Sbjct: 122 DPFYRNLAWHIKGSLDLAKMRQALAVVQGTHDFSAFRAAGGA--AADPVRTMLQTDCRQQ 179

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              + L   G+GFLY  VRN+ 
Sbjct: 180 SGTIDLLFHGTGFLYHMVRNLT 201


>gi|363890016|ref|ZP_09317364.1| tRNA pseudouridine synthase A [Eubacteriaceae bacterium CM5]
 gi|361966114|gb|EHL19055.1| tRNA pseudouridine synthase A [Eubacteriaceae bacterium CM5]
          Length = 245

 Score =  155 bits (391), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 79/201 (39%), Positives = 120/201 (59%), Gaps = 5/201 (2%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L + YDGT Y GWQ Q +  +IQ  +EKA+  +T   RED+ L+ + RTD+GVHA GQV 
Sbjct: 6   LKVSYDGTNYCGWQKQNNAVSIQQTLEKAISDIT---REDIELIASGRTDSGVHALGQVC 62

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +F T  +    +    A+N  LP DIRV E       F+ARF+AK K Y Y+IYN  +  
Sbjct: 63  NFKTGSNIPS-QKFAYAINSKLPKDIRVIESKEVDFAFNARFTAKKKTYMYRIYNSEISS 121

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
           PF + Y+     KL+  LM +  +  +G +D+++F   + N+   NPV++I+  D+++  
Sbjct: 122 PFYYKYSMQVAQKLDMDLMSKNVKMLIGTYDWTSFYTYETNNPK-NPVRTIYSADILKNS 180

Query: 209 ALLQLEVEGSGFLYRQVRNMV 229
            ++  E+EG+GFLY  VR +V
Sbjct: 181 DMITFEIEGNGFLYNMVRIIV 201


>gi|319789624|ref|YP_004151257.1| tRNA pseudouridine synthase A [Thermovibrio ammonificans HB-1]
 gi|317114126|gb|ADU96616.1| tRNA pseudouridine synthase A [Thermovibrio ammonificans HB-1]
          Length = 254

 Score =  154 bits (390), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 85/207 (41%), Positives = 124/207 (59%), Gaps = 9/207 (4%)

Query: 27  WRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           ++L + Y GT Y GWQF    PT+Q  + + L  V    R  ++L+GASRTD GVHA GQ
Sbjct: 4   FKLTVEYLGTNYYGWQFLPDKPTVQGEIIRCLETVL---RHPVKLIGASRTDAGVHARGQ 60

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           VA+F+T       E + +ALNGLLPPDIRV+E+     EFHAR SA+ K+Y Y+++   V
Sbjct: 61  VANFLTAKEV-SCEKLLSALNGLLPPDIRVKEVEEVPLEFHARRSARGKLYRYRLFIRDV 119

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI- 205
             PF+   +++    L+   MREA ++ VG HDF+ F   +R  R +NP+++I + ++  
Sbjct: 120 PSPFEFRRSWYLRRTLSVEPMREATQFLVGTHDFTTFSKSERK-REVNPIRTIDKIEITN 178

Query: 206 ---EMGALLQLEVEGSGFLYRQVRNMV 229
              E G L++L   G  FL   VR +V
Sbjct: 179 KEWEEGVLVELLFTGRSFLRHMVRVIV 205


>gi|402838873|ref|ZP_10887374.1| tRNA pseudouridine(38-40) synthase [Eubacteriaceae bacterium OBRC8]
 gi|402271887|gb|EJU21119.1| tRNA pseudouridine(38-40) synthase [Eubacteriaceae bacterium OBRC8]
          Length = 245

 Score =  154 bits (389), Expect = 3e-35,   Method: Compositional matrix adjust.
 Identities = 80/201 (39%), Positives = 118/201 (58%), Gaps = 5/201 (2%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L + YDGT Y GWQ Q +  +IQ  +EKA+  +T   RED  L+ + RTD+GVHA GQV 
Sbjct: 6   LKVSYDGTNYCGWQKQNNAVSIQQTLEKAISNIT---REDTELIASGRTDSGVHALGQVC 62

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +F T  +    +    A+N  LP DIRV E       F+ARFSAK K Y Y+IYN  + +
Sbjct: 63  NFKTSSNIPS-QKFAYAINSKLPKDIRVIESKEVDFSFNARFSAKKKTYMYRIYNSEMAN 121

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
           PF + Y+     KL+  LM +     +G +D+++F   + N+   NPV++I+  D+ +  
Sbjct: 122 PFYYKYSMQVAKKLDMDLMSKNVNMLIGTYDWTSFYTYETNNPK-NPVRTIYSADISKNN 180

Query: 209 ALLQLEVEGSGFLYRQVRNMV 229
            ++  E+EG+GFLY  VR +V
Sbjct: 181 DMITFEIEGNGFLYNMVRIIV 201


>gi|363894615|ref|ZP_09321694.1| tRNA pseudouridine synthase A [Eubacteriaceae bacterium ACC19a]
 gi|361961910|gb|EHL15072.1| tRNA pseudouridine synthase A [Eubacteriaceae bacterium ACC19a]
          Length = 245

 Score =  154 bits (388), Expect = 3e-35,   Method: Compositional matrix adjust.
 Identities = 79/201 (39%), Positives = 120/201 (59%), Gaps = 5/201 (2%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L + YDGT Y GWQ Q +  +IQ  +EKA+  +T   RED+ L+ + RTD+GVHA GQV 
Sbjct: 6   LKVSYDGTNYCGWQKQNNAVSIQQTLEKAISDIT---REDIELIASGRTDSGVHALGQVC 62

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +F T  +    +    A+N  LP DIRV E       F+ARF+AK K Y Y+IYN  +  
Sbjct: 63  NFKTGSNIPS-QKFAYAINSKLPRDIRVIESKEVDFAFNARFTAKKKTYMYRIYNSEISS 121

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
           PF + Y+     KL+  LM +  +  +G +D+++F   + N+   NPV++I+  D+++  
Sbjct: 122 PFYYKYSMQVAQKLDMDLMSKNVKMLIGTYDWTSFYTYETNNPK-NPVRTIYSADILKNS 180

Query: 209 ALLQLEVEGSGFLYRQVRNMV 229
            ++  E+EG+GFLY  VR +V
Sbjct: 181 NMITFEIEGNGFLYNMVRIIV 201


>gi|157363557|ref|YP_001470324.1| tRNA pseudouridine synthase ACD [Thermotoga lettingae TMO]
 gi|166991166|sp|A8F526.1|TRUA_THELT RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|157314161|gb|ABV33260.1| tRNA pseudouridine synthase A [Thermotoga lettingae TMO]
          Length = 245

 Score =  154 bits (388), Expect = 4e-35,   Method: Compositional matrix adjust.
 Identities = 86/201 (42%), Positives = 121/201 (60%), Gaps = 7/201 (3%)

Query: 30  VIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVAH 89
           ++ YDGT + G+Q Q    T+Q + E+AL R+ K   + +  + A RTDTGVHA GQ+  
Sbjct: 7   IVSYDGTNFCGFQVQKDVRTVQGMFEQALERILK---QRVITIAAGRTDTGVHANGQIVC 63

Query: 90  FITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDP 149
           F      D  ES+  A+N  LP DI VR++      FH RF AK +IYHY IYN    + 
Sbjct: 64  FDCYLDIDE-ESMKNAMNANLPDDIYVRKVVEVDKNFHPRFDAKRRIYHYLIYNSQEPNL 122

Query: 150 FQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM-G 208
           F  +YA+   YKLN   MREAA++F G+HDF +F  ++  D   N V++I+R  V+++ G
Sbjct: 123 FIRNYAWWFPYKLNICKMREAAKFFEGEHDFRSF--MKSGDHRENTVRTIYRVRVLQLRG 180

Query: 209 ALLQLEVEGSGFLYRQVRNMV 229
            ++ + VEG  FL R VRNMV
Sbjct: 181 GIILIRVEGRSFLRRMVRNMV 201


>gi|297620615|ref|YP_003708752.1| tRNA pseudouridine synthase A [Waddlia chondrophila WSU 86-1044]
 gi|297375916|gb|ADI37746.1| tRNA pseudouridine synthase A [Waddlia chondrophila WSU 86-1044]
          Length = 254

 Score =  154 bits (388), Expect = 4e-35,   Method: Compositional matrix adjust.
 Identities = 85/205 (41%), Positives = 125/205 (60%), Gaps = 5/205 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           K++L+I YDGT+Y+GWQ Q +  +IQ ++E+ L  +TK       L GA RTD GVHA G
Sbjct: 3   KYKLIIAYDGTQYSGWQMQPNALSIQEVLEEKLKVLTKTRTS---LTGAGRTDAGVHAIG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVAHF     ++    +  +LNGLLP DIR+ ++     +FHAR+SA +KIY+Y +    
Sbjct: 60  QVAHFKVEAPFNP-SLLRLSLNGLLPKDIRIMDVEEVPLDFHARYSATNKIYYYHLNLGP 118

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRA-LNPVKSIFRFDV 204
           V DPF+  Y+++    LN  L+++   Y +G H+FSAF N      A  NP++++ R  V
Sbjct: 119 VQDPFEKQYSWNITNSLNMELLKKGISYLIGTHNFSAFANEANQGAAKKNPIRTLKRISV 178

Query: 205 IEMGALLQLEVEGSGFLYRQVRNMV 229
           +     ++LE EG  FLY+ VRNM 
Sbjct: 179 VPERIGMRLEFEGESFLYKMVRNMT 203


>gi|337292758|emb|CCB90763.1| trNA pseudouridine synthase A 1 [Waddlia chondrophila 2032/99]
          Length = 254

 Score =  154 bits (388), Expect = 4e-35,   Method: Compositional matrix adjust.
 Identities = 85/205 (41%), Positives = 125/205 (60%), Gaps = 5/205 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           K++L+I YDGT+Y+GWQ Q +  +IQ ++E+ L  +TK       L GA RTD GVHA G
Sbjct: 3   KYKLIIAYDGTQYSGWQMQPNALSIQEVLEEKLKVLTKTRTS---LTGAGRTDAGVHAIG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVAHF     ++    +  +LNGLLP DIR+ ++     +FHAR+SA +KIY+Y +    
Sbjct: 60  QVAHFKVEAPFNP-SLLRLSLNGLLPKDIRIMDVEEVPLDFHARYSATNKIYYYHLNLGP 118

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRA-LNPVKSIFRFDV 204
           V DPF+  Y+++    LN  L+++   Y +G H+FSAF N      A  NP++++ R  V
Sbjct: 119 VQDPFEKQYSWNITNSLNMELLKKGISYLIGTHNFSAFANEANQGAAKKNPIRTLKRISV 178

Query: 205 IEMGALLQLEVEGSGFLYRQVRNMV 229
           +     ++LE EG  FLY+ VRNM 
Sbjct: 179 VPERIGMRLEFEGESFLYKMVRNMT 203


>gi|377832251|ref|ZP_09815213.1| tRNA pseudouridine synthase A [Lactobacillus mucosae LM1]
 gi|377553887|gb|EHT15604.1| tRNA pseudouridine synthase A [Lactobacillus mucosae LM1]
          Length = 264

 Score =  153 bits (387), Expect = 5e-35,   Method: Compositional matrix adjust.
 Identities = 79/207 (38%), Positives = 128/207 (61%), Gaps = 5/207 (2%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
           +++++   YDGT ++G+Q Q +  T++  ++ A+ ++ K     L ++G+ RTD GVHA 
Sbjct: 2   YRYKITFAYDGTNFSGFQIQPNKRTVEQTLKNAVNKIAKNPEPPLSVIGSGRTDAGVHAL 61

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
            QVAHF  P+   G +S+  ALN LLP DI V++     P+FHARF+A SK Y Y++   
Sbjct: 62  NQVAHFDCPYKL-GNDSMRKALNSLLPLDIIVKKAELVSPDFHARFNAHSKHYRYRVDQS 120

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
             ++PF+ +Y  H  Y ++   M++AA+  VG+HDF++FV      +AL+ V++I++ DV
Sbjct: 121 DFVNPFKRNYTAHFKYPVDVAKMQKAAQDLVGEHDFTSFV--ASGSQALSNVRTIYQADV 178

Query: 205 --IEMGALLQLEVEGSGFLYRQVRNMV 229
              E    +  +  G+GFLY QVR MV
Sbjct: 179 HRDEANNEIVFDFVGNGFLYNQVRIMV 205


>gi|363892466|ref|ZP_09319633.1| tRNA pseudouridine synthase A [Eubacteriaceae bacterium CM2]
 gi|361964072|gb|EHL17125.1| tRNA pseudouridine synthase A [Eubacteriaceae bacterium CM2]
          Length = 245

 Score =  153 bits (387), Expect = 6e-35,   Method: Compositional matrix adjust.
 Identities = 79/201 (39%), Positives = 117/201 (58%), Gaps = 5/201 (2%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L + YDGT Y GWQ Q +  +IQ  +EKA+  +T   RED  L+ + RTD+GVHA GQV 
Sbjct: 6   LKVSYDGTNYCGWQKQNNAVSIQQTLEKAISNIT---REDTELIASGRTDSGVHALGQVC 62

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +F T  +    +    A+N  LP DIRV E       F+ARF+AK K Y Y+IYN  +  
Sbjct: 63  NFKTSSNIPS-QKFAYAINSKLPKDIRVVETKEVDFAFNARFTAKKKTYMYRIYNSEISS 121

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
           PF + Y+     KL+  LM +     +G +D+++F   + N+   NPV++I+  D+ +  
Sbjct: 122 PFYYKYSMQVAKKLDMDLMSKNVNMLIGTYDWTSFYTYETNNPK-NPVRTIYSADISKNN 180

Query: 209 ALLQLEVEGSGFLYRQVRNMV 229
            ++  E+EG+GFLY  VR +V
Sbjct: 181 DMITFEIEGNGFLYNMVRIIV 201


>gi|228995804|ref|ZP_04155464.1| tRNA pseudouridine synthase A 2 [Bacillus mycoides Rock3-17]
 gi|229003424|ref|ZP_04161244.1| tRNA pseudouridine synthase A 2 [Bacillus mycoides Rock1-4]
 gi|228757802|gb|EEM07027.1| tRNA pseudouridine synthase A 2 [Bacillus mycoides Rock1-4]
 gi|228763965|gb|EEM12852.1| tRNA pseudouridine synthase A 2 [Bacillus mycoides Rock3-17]
          Length = 245

 Score =  153 bits (386), Expect = 7e-35,   Method: Compositional matrix adjust.
 Identities = 82/204 (40%), Positives = 120/204 (58%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG RY GWQ    +  TIQ  +E  L  +T  E E   ++G SRTD GVHA  
Sbjct: 4   YKLTIQYDGGRYKGWQRLGNNDNTIQGKIESVLSEMTGREIE---IIGCSRTDAGVHALH 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F    +   L+ +   LN  LP DI + ++      FHAR+++KSK Y YKI+N+ 
Sbjct: 61  QVANFKIDENLPELK-VKKYLNQYLPNDISITDVELVSERFHARYNSKSKTYLYKIWNEE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   KLN   M++AA+Y +G HDF+AF N +   +++  V+ I+  DV+
Sbjct: 120 HTNPFMRKYSMHVGKKLNIENMQKAAQYLIGSHDFTAFSNAKSKKKSM--VREIYMLDVV 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 178 ESEGFIQIRVNGNGFLHNMVRKIV 201


>gi|384917179|ref|ZP_10017310.1| tRNA pseudouridine synthase A [Methylacidiphilum fumariolicum SolV]
 gi|384525438|emb|CCG93183.1| tRNA pseudouridine synthase A [Methylacidiphilum fumariolicum SolV]
          Length = 257

 Score =  153 bits (386), Expect = 7e-35,   Method: Compositional matrix adjust.
 Identities = 88/209 (42%), Positives = 121/209 (57%), Gaps = 5/209 (2%)

Query: 21  SFPGFKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTG 80
           + P   +++++ Y GT + GWQ Q   PT+Q  +E+A   V K+ + ++ + GASRTD G
Sbjct: 2   NLPLVGYKIILSYCGTGFHGWQKQGQLPTVQRFLEEA---VAKIWQTEIHIEGASRTDAG 58

Query: 81  VHAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYK 140
           VHA GQVA FI P   +  E +  ALN  LP  IRV  I     EFHARF A SK Y Y 
Sbjct: 59  VHAKGQVASFIAPRKLEA-EVLQRALNYYLPETIRVLHIRVVSKEFHARFHAISKTYQYW 117

Query: 141 IYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIF 200
           I+ND VMDPF    A+H   +L+   M EAA  FVGK DF++FV+        + ++++F
Sbjct: 118 IWNDPVMDPFYLWRAWHIPRQLDLQSMNEAATLFVGKKDFASFVS-SPGFVLKDTIRTVF 176

Query: 201 RFDVIEMGALLQLEVEGSGFLYRQVRNMV 229
                  G L    ++ +GFLYR VRN+V
Sbjct: 177 DCGFTVQGQLCLFTIKANGFLYRMVRNIV 205


>gi|311070796|ref|YP_003975719.1| tRNA pseudouridine synthase A [Bacillus atrophaeus 1942]
 gi|419823139|ref|ZP_14346699.1| tRNA pseudouridine synthase A [Bacillus atrophaeus C89]
 gi|310871313|gb|ADP34788.1| tRNA pseudouridine synthase A [Bacillus atrophaeus 1942]
 gi|388472670|gb|EIM09433.1| tRNA pseudouridine synthase A [Bacillus atrophaeus C89]
          Length = 247

 Score =  152 bits (385), Expect = 7e-35,   Method: Compositional matrix adjust.
 Identities = 87/202 (43%), Positives = 117/202 (57%), Gaps = 4/202 (1%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
            K +  I YDG  + G+Q Q    T+Q  +EKAL  + K E + + ++ + RTD+GVHA 
Sbjct: 1   MKMKCTISYDGHLFNGYQVQPGKRTVQAELEKALAILHKSE-DKVPVISSGRTDSGVHAA 59

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           GQV HF TP S    E    ALN LLP DI V+    A   FHARFSA  K Y Y +Y +
Sbjct: 60  GQVIHFDTPLSIPA-ERWPYALNALLPGDIAVKTAEHADDGFHARFSAIKKEYRYFVYTE 118

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
              D F+ HYAYH  Y+LN   MREA+E+ +G HDF++F +   N    + V++I+  D 
Sbjct: 119 KHPDVFKRHYAYHFSYRLNVQKMREASEHLIGTHDFTSFCSA--NTEVRDKVRTIYELDW 176

Query: 205 IEMGALLQLEVEGSGFLYRQVR 226
            +    LQ+ + GSGFLY  VR
Sbjct: 177 TDTDDGLQMRIVGSGFLYNMVR 198


>gi|350264244|ref|YP_004875551.1| tRNA pseudouridine synthase A [Bacillus subtilis subsp. spizizenii
           TU-B-10]
 gi|349597131|gb|AEP84919.1| tRNA pseudouridine synthase A [Bacillus subtilis subsp. spizizenii
           TU-B-10]
          Length = 247

 Score =  152 bits (385), Expect = 8e-35,   Method: Compositional matrix adjust.
 Identities = 87/205 (42%), Positives = 119/205 (58%), Gaps = 4/205 (1%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
            + +  I YDG  + G+Q Q    T+Q  +EKAL  + K  ++ + +V + RTD+GVHA 
Sbjct: 1   MRLKCTISYDGHLFNGYQVQPGKRTVQNELEKALAVLHK-SKDRIPVVSSGRTDSGVHAA 59

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           GQV HF TP S    E    ALN LLP DI V++   A   FHARFSA  K Y Y +Y +
Sbjct: 60  GQVIHFDTPLSIPA-ERWPYALNALLPDDIAVKQAEIADDGFHARFSAVKKEYRYFVYTE 118

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
              D F+ HYAYH  Y LN   MREAA++ +G HDF++F  ++      + V++I+  D 
Sbjct: 119 KHPDVFKRHYAYHFSYHLNVQNMREAAKHLIGTHDFTSFCAVKT--EVQDKVRTIYELDW 176

Query: 205 IEMGALLQLEVEGSGFLYRQVRNMV 229
            E    LQ+ + GSGFLY  VR +V
Sbjct: 177 TETDDGLQMRITGSGFLYNMVRIIV 201


>gi|414153603|ref|ZP_11409926.1| tRNA pseudouridine synthase A [Desulfotomaculum hydrothermale Lam5
           = DSM 18033]
 gi|411455001|emb|CCO07830.1| tRNA pseudouridine synthase A [Desulfotomaculum hydrothermale Lam5
           = DSM 18033]
          Length = 250

 Score =  152 bits (385), Expect = 8e-35,   Method: Compositional matrix adjust.
 Identities = 82/201 (40%), Positives = 117/201 (58%), Gaps = 7/201 (3%)

Query: 28  RLVIGYDGTRYAGWQFQ--TSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +L + YDGT Y G+Q Q  T   T+Q ++E  L   +K+ ++ ++++GA RTD GVHAWG
Sbjct: 8   KLTVAYDGTNYHGFQEQRGTGLATVQEVLESTL---SKIAKDTIQVIGAGRTDAGVHAWG 64

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV +F +       E IH A+N LLP DI+V +      +FHARFSA +K Y Y IYN  
Sbjct: 65  QVVNFRSGRWPVPTEKIHLAMNALLPDDIKVLQAEEVPLDFHARFSATAKTYRYSIYNHR 124

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           VM P    Y YH    L+   M+E A Y VG HDF +F    +     + V++I+R +++
Sbjct: 125 VMSPLHRLYCYHEPRLLDVRAMQEGAAYLVGSHDFKSFQ--AQGTPVKDTVRTIYRAEIL 182

Query: 206 EMGALLQLEVEGSGFLYRQVR 226
               L+ L + G+GFLY  VR
Sbjct: 183 SEPPLIHLYLRGNGFLYNMVR 203


>gi|121534665|ref|ZP_01666486.1| tRNA pseudouridine synthase A [Thermosinus carboxydivorans Nor1]
 gi|121306685|gb|EAX47606.1| tRNA pseudouridine synthase A [Thermosinus carboxydivorans Nor1]
          Length = 250

 Score =  152 bits (385), Expect = 8e-35,   Method: Compositional matrix adjust.
 Identities = 84/203 (41%), Positives = 119/203 (58%), Gaps = 6/203 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L + YDGT Y G+Q Q +  T+Q ++E+   R+  +    L++ GA+RTD GVHA+GQV
Sbjct: 11  KLTVAYDGTAYHGFQRQANAITVQQVLEE---RLATIFGHPLKVTGAARTDAGVHAYGQV 67

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
             F T  +      + AA   +LPPDI V +      +FHARFSA+SKIY Y+IYN AV 
Sbjct: 68  VGFATSGTIPAANIVRAA-KSVLPPDIVVVKAEEVSADFHARFSARSKIYLYRIYNAAVA 126

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           DPF+ +YA+H    L+   M  A +  VG HDFSAF         ++PV++I+       
Sbjct: 127 DPFRRNYAWHVTQPLDEAAMDTAVQTVVGTHDFSAFRAA--GGPPVSPVRTIYEAGCTRE 184

Query: 208 GALLQLEVEGSGFLYRQVRNMVN 230
           G +L+    G+GFLY  VRN+V 
Sbjct: 185 GDMLEFRFWGNGFLYHMVRNLVG 207


>gi|449092858|ref|YP_007425349.1| tRNA pseudouridine synthase A [Bacillus subtilis XF-1]
 gi|449026773|gb|AGE62012.1| tRNA pseudouridine synthase A [Bacillus subtilis XF-1]
          Length = 247

 Score =  152 bits (385), Expect = 9e-35,   Method: Compositional matrix adjust.
 Identities = 86/202 (42%), Positives = 117/202 (57%), Gaps = 4/202 (1%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
            + +  I YDG  + G+Q Q    T+Q  +EKAL  + K  ++ + +V + RTD+GVHA 
Sbjct: 1   MRLKCTISYDGHLFNGYQVQPGKRTVQDELEKALAVLHK-SKDRIPVVSSGRTDSGVHAA 59

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           GQV HF TP S       HA LN LLP DI V++   A   FHARFSA  K Y Y +Y +
Sbjct: 60  GQVIHFDTPLSIPAERWPHA-LNALLPDDIAVKQAEIADDGFHARFSAVKKEYRYFVYTE 118

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
              D F+ HYAYH  Y+LN   MREAA++ +G HDF++F   +      + V++I+  D 
Sbjct: 119 KHPDVFKRHYAYHFSYRLNVQDMREAAKHLIGTHDFTSFCAAKTE--VQDKVRTIYELDW 176

Query: 205 IEMGALLQLEVEGSGFLYRQVR 226
            E    LQ+ + GSGFLY  VR
Sbjct: 177 TETADGLQMRITGSGFLYNMVR 198


>gi|282890286|ref|ZP_06298816.1| hypothetical protein pah_c014o179 [Parachlamydia acanthamoebae str.
           Hall's coccus]
 gi|281499943|gb|EFB42232.1| hypothetical protein pah_c014o179 [Parachlamydia acanthamoebae str.
           Hall's coccus]
          Length = 231

 Score =  152 bits (383), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 83/181 (45%), Positives = 110/181 (60%), Gaps = 4/181 (2%)

Query: 49  TIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVAHFITPFSYDGLESIHAALNG 108
            IQ IVEK    + K+ R+ +R+V + RTD GVHA GQVAHF T    D L     ++NG
Sbjct: 2   AIQEIVEK---EIGKIVRQPVRVVASGRTDAGVHARGQVAHFSTNAEID-LRRFLVSING 57

Query: 109 LLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDPFQHHYAYHSVYKLNTTLMR 168
           LLP DIRV++I    P+FHA++S   K YHY +    V  PF   YA+H   KL+ + ++
Sbjct: 58  LLPKDIRVKDICQVPPDFHAQYSVSGKAYHYHLTLSRVQSPFSRFYAWHIRQKLDLSQLQ 117

Query: 169 EAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMGALLQLEVEGSGFLYRQVRNM 228
            AA+ FVG HDF++F N    +   N V++I R DVI      +LE EG GFLY+ VRNM
Sbjct: 118 VAAQLFVGTHDFTSFANEAHREHPQNAVRTIKRVDVIMEDEGCRLEFEGDGFLYKMVRNM 177

Query: 229 V 229
           V
Sbjct: 178 V 178


>gi|452994850|emb|CCQ93516.1| tRNA pseudouridine synthase A [Clostridium ultunense Esp]
          Length = 244

 Score =  152 bits (383), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 82/202 (40%), Positives = 119/202 (58%), Gaps = 6/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L I YDGT Y GWQ Q +  +IQ  +E+A+  +T    E + L+G+ RTD+GVHA GQV
Sbjct: 5   KLTIQYDGTSYCGWQKQKNGNSIQEEIERAIKLITG---ERVNLIGSGRTDSGVHAKGQV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A+F+T  S   ++    ALN  LP DI + +      +FH+RF A  K Y Y IYN  + 
Sbjct: 62  ANFLTD-SNIPVDRFKFALNSKLPRDISIIDSRRVDEKFHSRFDAIRKRYQYIIYNKKIR 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           +P   ++AYH  Y LN   M EA +YF+G HDFS+F  +  N      +++I+ F +   
Sbjct: 121 NPLYRNFAYHVPYFLNYKEMEEATKYFLGSHDFSSF--MASNSNVKTTIRTIYTFTIKRT 178

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
           G L+   +EG+GFLY  VR ++
Sbjct: 179 GDLIIFSIEGNGFLYNMVRIII 200


>gi|384173806|ref|YP_005555191.1| tRNA pseudouridine synthase A [Bacillus subtilis subsp. subtilis
           str. RO-NN-1]
 gi|349593030|gb|AEP89217.1| tRNA pseudouridine synthase A [Bacillus subtilis subsp. subtilis
           str. RO-NN-1]
          Length = 247

 Score =  152 bits (383), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 86/202 (42%), Positives = 117/202 (57%), Gaps = 4/202 (1%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
            + +  I YDG  + G+Q Q    T+Q  +EKAL  + K  ++ + +V + RTD+GVHA 
Sbjct: 1   MRLKCTISYDGHLFNGYQVQPGKRTVQDELEKALAVLHK-SKDRIPVVSSGRTDSGVHAA 59

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           GQV HF TP S    E    ALN LLP DI V++   A   FHARFSA  K Y Y +Y +
Sbjct: 60  GQVIHFDTPLSIPA-ERWPYALNALLPDDIAVKQAEIADDGFHARFSAVKKEYRYFVYTE 118

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
              D F+ HYAYH  Y+LN   MREAA++ +G HDF++F   +      + V++I+  D 
Sbjct: 119 KHPDVFKRHYAYHFSYRLNVQDMREAAKHLIGTHDFTSFCAAKTE--VQDKVRTIYELDW 176

Query: 205 IEMGALLQLEVEGSGFLYRQVR 226
            E    LQ+ + GSGFLY  VR
Sbjct: 177 TETADGLQMRITGSGFLYNMVR 198


>gi|418034822|ref|ZP_12673291.1| tRNA pseudouridine synthase A [Bacillus subtilis subsp. subtilis
           str. SC-8]
 gi|351468476|gb|EHA28696.1| tRNA pseudouridine synthase A [Bacillus subtilis subsp. subtilis
           str. SC-8]
          Length = 247

 Score =  152 bits (383), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 86/202 (42%), Positives = 117/202 (57%), Gaps = 4/202 (1%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
            + +  I YDG  + G+Q Q    T+Q  +EKAL  + K  ++ + +V + RTD+GVHA 
Sbjct: 1   MRLKCTISYDGHLFNGYQVQPGKRTVQDELEKALAVLHK-SKDRIPVVSSGRTDSGVHAA 59

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           GQV HF TP S    E    ALN LLP DI V++   A   FHARFSA  K Y Y +Y +
Sbjct: 60  GQVIHFDTPLSIPA-ERWPYALNALLPDDIAVKQAEIADDGFHARFSAVKKEYRYFVYTE 118

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
              D F+ HYAYH  Y+LN   MREAA++ +G HDF++F   +      + V++I+  D 
Sbjct: 119 KHPDVFKRHYAYHFSYRLNVQDMREAAKHLIGTHDFTSFCAAKTE--VQDKVRTIYELDW 176

Query: 205 IEMGALLQLEVEGSGFLYRQVR 226
            E    LQ+ + GSGFLY  VR
Sbjct: 177 TETADGLQMRITGSGFLYNMVR 198


>gi|221307961|ref|ZP_03589808.1| tRNA pseudouridine synthase A [Bacillus subtilis subsp. subtilis
           str. 168]
 gi|221312282|ref|ZP_03594087.1| tRNA pseudouridine synthase A [Bacillus subtilis subsp. subtilis
           str. NCIB 3610]
 gi|221317216|ref|ZP_03598510.1| tRNA pseudouridine synthase A [Bacillus subtilis subsp. subtilis
           str. JH642]
 gi|221321479|ref|ZP_03602773.1| tRNA pseudouridine synthase A [Bacillus subtilis subsp. subtilis
           str. SMY]
 gi|255767037|ref|NP_388029.2| tRNA pseudouridine synthase A [Bacillus subtilis subsp. subtilis
           str. 168]
 gi|321313820|ref|YP_004206107.1| tRNA pseudouridine synthase A [Bacillus subtilis BSn5]
 gi|402774391|ref|YP_006628335.1| Pseudouridylate synthase I [Bacillus subtilis QB928]
 gi|428277563|ref|YP_005559298.1| tRNA pseudouridine synthase A [Bacillus subtilis subsp. natto
           BEST195]
 gi|430755550|ref|YP_007211111.1| tRNA pseudouridine synthase A (tRNA-uridine isomeras I; tRNA
           pseudouridylate synthase I) [Bacillus subtilis subsp.
           subtilis str. BSP1]
 gi|452916565|ref|ZP_21965187.1| tRNA pseudouridine(38-40) synthase [Bacillus subtilis MB73/2]
 gi|239938721|sp|P70973.2|TRUA_BACSU RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|225184664|emb|CAB11924.2| pseudouridylate synthase I [Bacillus subtilis subsp. subtilis str.
           168]
 gi|291482520|dbj|BAI83595.1| tRNA pseudouridine synthase A [Bacillus subtilis subsp. natto
           BEST195]
 gi|320020094|gb|ADV95080.1| tRNA pseudouridine synthase A [Bacillus subtilis BSn5]
 gi|402483457|gb|AFQ59966.1| Pseudouridylate synthase I [Bacillus subtilis QB928]
 gi|407955837|dbj|BAM49077.1| tRNA pseudouridine synthase A [Bacillus subtilis BEST7613]
 gi|407963108|dbj|BAM56347.1| tRNA pseudouridine synthase A [Bacillus subtilis BEST7003]
 gi|430020070|gb|AGA20676.1| tRNA pseudouridine synthase A (tRNA-uridine isomeras I; tRNA
           pseudouridylate synthase I) [Bacillus subtilis subsp.
           subtilis str. BSP1]
 gi|452114474|gb|EME04874.1| tRNA pseudouridine(38-40) synthase [Bacillus subtilis MB73/2]
          Length = 247

 Score =  152 bits (383), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 86/202 (42%), Positives = 117/202 (57%), Gaps = 4/202 (1%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
            + +  I YDG  + G+Q Q    T+Q  +EKAL  + K  ++ + +V + RTD+GVHA 
Sbjct: 1   MRLKCTISYDGHLFNGYQVQPGKRTVQDELEKALAVLHK-SKDRIPVVSSGRTDSGVHAA 59

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           GQV HF TP S    E    ALN LLP DI V++   A   FHARFSA  K Y Y +Y +
Sbjct: 60  GQVIHFDTPLSIPA-ERWPYALNALLPDDIAVKQAEIADDGFHARFSAVKKEYRYFVYTE 118

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
              D F+ HYAYH  Y+LN   MREAA++ +G HDF++F   +      + V++I+  D 
Sbjct: 119 KHPDVFKRHYAYHFSYRLNVQDMREAAKHLIGTHDFTSFCAAKTE--VQDKVRTIYELDW 176

Query: 205 IEMGALLQLEVEGSGFLYRQVR 226
            E    LQ+ + GSGFLY  VR
Sbjct: 177 TETADGLQMRITGSGFLYNMVR 198


>gi|220928242|ref|YP_002505151.1| tRNA pseudouridine synthase A [Clostridium cellulolyticum H10]
 gi|254789632|sp|B8I814.1|TRUA_CLOCE RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|219998570|gb|ACL75171.1| tRNA pseudouridine synthase A [Clostridium cellulolyticum H10]
          Length = 245

 Score =  151 bits (382), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 87/202 (43%), Positives = 118/202 (58%), Gaps = 7/202 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           K RL I YDGT Y GWQ Q +  T+Q +++KAL   +KL  ED+ + G SRTD GVHA+G
Sbjct: 3   KIRLTIEYDGTNYHGWQIQKNAKTVQEVIQKAL---SKLLGEDVGVTGCSRTDVGVHAYG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVAHF+T     G +    A+N LLP DI ++       EFHAR+SAK K Y Y IYN  
Sbjct: 60  QVAHFLTDSKIPG-DKFSYAINNLLPDDIVIKNSEEVPEEFHARYSAKGKKYRYLIYNSP 118

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV- 204
                  + + H   +LN   M++AA YF G+HDF AF       R+   V+ I+  +V 
Sbjct: 119 HASAIMRNRSCHVRPELNVAEMQKAAGYFKGEHDFLAFQATGGQVRS--TVREIYGMEVY 176

Query: 205 IEMGALLQLEVEGSGFLYRQVR 226
           ++   ++ +EV G+GFLY  VR
Sbjct: 177 VKEDNMISIEVSGNGFLYNMVR 198


>gi|427393155|ref|ZP_18887058.1| tRNA pseudouridine synthase A [Alloiococcus otitis ATCC 51267]
 gi|425730737|gb|EKU93569.1| tRNA pseudouridine synthase A [Alloiococcus otitis ATCC 51267]
          Length = 264

 Score =  151 bits (382), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 85/206 (41%), Positives = 120/206 (58%), Gaps = 5/206 (2%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
            ++++VI YDGTRY+G+Q Q +  T+Q  +E AL ++ K   E +R+  ASRTD GVHA 
Sbjct: 3   LRYKMVIAYDGTRYSGYQTQVNALTVQDEIEGALQKLAK--GEFVRIHAASRTDAGVHAR 60

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           GQVAHF  PF  +  E +   LN LLP DI +R +      FH+RF AK K Y Y + N 
Sbjct: 61  GQVAHFDFPFEIES-EGLQRGLNTLLPGDISIRSLDRVGGNFHSRFDAKGKHYRYWLSNS 119

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
            +MDPF   YA H  Y L+   ++ A  + VG HDF++F   Q + +  + V++++R D+
Sbjct: 120 PIMDPFNRLYACHHPYPLDLEAVQAALAHLVGCHDFTSFAASQTDVK--DKVRTLYRADL 177

Query: 205 IEMGALLQLEVEGSGFLYRQVRNMVN 230
             +G        G GFLY  VR MV 
Sbjct: 178 EVLGHDWIFNFVGDGFLYNMVRIMVG 203


>gi|228989617|ref|ZP_04149601.1| tRNA pseudouridine synthase A 2 [Bacillus pseudomycoides DSM 12442]
 gi|228770154|gb|EEM18734.1| tRNA pseudouridine synthase A 2 [Bacillus pseudomycoides DSM 12442]
          Length = 245

 Score =  151 bits (381), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 81/204 (39%), Positives = 120/204 (58%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG RY GWQ    +  TIQ  +E  L  +T  E E   ++G SRTD GVHA  
Sbjct: 4   YKLTIQYDGGRYKGWQRLGNNDNTIQGKIESVLSEMTGREIE---IIGCSRTDAGVHALH 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F    +   L+ +   LN  LP DI + ++      FHAR+++K+K Y YKI+N+ 
Sbjct: 61  QVANFKIDENLPELK-VKKYLNQYLPNDISITDVELISERFHARYNSKAKTYLYKIWNEE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   KLN   M++AA+Y +G HDF+AF N +   +++  V+ I+  DV+
Sbjct: 120 HTNPFMRKYSMHVGKKLNIENMQKAAQYLIGSHDFTAFSNAKSKKKSM--VREIYMLDVV 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 178 ESEGFIQIRVNGNGFLHNMVRKIV 201


>gi|296333145|ref|ZP_06875599.1| tRNA pseudouridine synthase A [Bacillus subtilis subsp. spizizenii
           ATCC 6633]
 gi|305672848|ref|YP_003864519.1| tRNA pseudouridine synthase A [Bacillus subtilis subsp. spizizenii
           str. W23]
 gi|296149761|gb|EFG90656.1| tRNA pseudouridine synthase A [Bacillus subtilis subsp. spizizenii
           ATCC 6633]
 gi|305411091|gb|ADM36209.1| tRNA pseudouridine synthase A [Bacillus subtilis subsp. spizizenii
           str. W23]
          Length = 247

 Score =  151 bits (381), Expect = 3e-34,   Method: Compositional matrix adjust.
 Identities = 86/202 (42%), Positives = 117/202 (57%), Gaps = 4/202 (1%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
            + +  I YDG  + G+Q Q    T+Q  +EKAL  + K  ++ + +V + RTD+GVHA 
Sbjct: 1   MRLKCTISYDGHLFNGYQVQPGKRTVQDELEKALAVLHK-SKDRIPVVSSGRTDSGVHAA 59

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           GQV HF TP S    E    ALN LLP DI V++   A   FHARFSA  K Y Y +Y +
Sbjct: 60  GQVIHFDTPLSIPA-EKWPYALNALLPDDIAVKQAEIADDGFHARFSAVKKEYRYFVYTE 118

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
              D F+ HYAYH  Y LN   MREAA++ +G HDF++F  ++      + V++I+  D 
Sbjct: 119 KHPDVFKRHYAYHFSYHLNVQNMREAAKHLLGTHDFTSFCAVKTE--VQDKVRTIYELDW 176

Query: 205 IEMGALLQLEVEGSGFLYRQVR 226
            E    LQ+ + GSGFLY  VR
Sbjct: 177 AETDDGLQMRITGSGFLYNMVR 198


>gi|386756729|ref|YP_006229945.1| tRNA pseudouridine synthase A [Bacillus sp. JS]
 gi|384930011|gb|AFI26689.1| tRNA pseudouridine synthase A [Bacillus sp. JS]
          Length = 247

 Score =  151 bits (381), Expect = 3e-34,   Method: Compositional matrix adjust.
 Identities = 86/205 (41%), Positives = 118/205 (57%), Gaps = 4/205 (1%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
            + +  I YDG  + G+Q Q    T+Q  +EKAL  + K  +E + +V + RTD+GVHA 
Sbjct: 1   MRLKCTISYDGHLFNGYQVQPGKRTVQDELEKALAVLHK-SKERIPVVSSGRTDSGVHAA 59

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           GQV HF TP +    E    ALN LLP DI V++       FHARFSA  K Y Y +Y +
Sbjct: 60  GQVIHFDTPLAIPA-ERWPYALNALLPDDIAVKQAEITDDGFHARFSAVKKEYRYFVYTE 118

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
              D F+ HYAYH  Y+LN   MREAA++ +G HDF++F   +      + V++I+  D 
Sbjct: 119 KHPDVFKRHYAYHFSYRLNVQDMREAAKHLIGTHDFTSFCAAKTE--VQDKVRTIYELDW 176

Query: 205 IEMGALLQLEVEGSGFLYRQVRNMV 229
            E    LQ+ + GSGFLY  VR +V
Sbjct: 177 TETDDGLQMRITGSGFLYNMVRIIV 201


>gi|375087869|ref|ZP_09734214.1| tRNA pseudouridine synthase A [Dolosigranulum pigrum ATCC 51524]
 gi|374563579|gb|EHR34891.1| tRNA pseudouridine synthase A [Dolosigranulum pigrum ATCC 51524]
          Length = 260

 Score =  150 bits (380), Expect = 3e-34,   Method: Compositional matrix adjust.
 Identities = 84/206 (40%), Positives = 123/206 (59%), Gaps = 9/206 (4%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++L + YDGT Y+G+Q Q + PTIQ  +E+AL R+ K E   +R+ GA RTD GVHA G
Sbjct: 3   RYKLTVAYDGTNYSGFQVQPNVPTIQGELEQALQRIAKGEF--VRIHGAGRTDAGVHAAG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  PF Y   E +  A++   P DI  +++      FHAR+ A  K+Y Y++Y   
Sbjct: 61  QVCHFNFPF-YISEEGMLRAIDANTPTDIVPQKVERVSDTFHARYDACGKMYEYRLYTGK 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAF--VNIQRNDRALNPVKSIFRFD 203
             DPF+  YAYH  + LN   +++A E+F G+HDF++F  VN + + R    V+ ++   
Sbjct: 120 QADPFKRLYAYHHPHALNVERIKQALEHFKGEHDFTSFSAVNAEVDSR----VRELYEAC 175

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
           +I+ G    L   GSGFLY  +R MV
Sbjct: 176 LIQEGTDYILRFSGSGFLYNMIRIMV 201


>gi|270285538|ref|ZP_06194932.1| tRNA pseudouridine synthase A [Chlamydia muridarum Nigg]
 gi|270289549|ref|ZP_06195851.1| tRNA pseudouridine synthase A [Chlamydia muridarum Weiss]
 gi|301336935|ref|ZP_07225137.1| tRNA pseudouridine synthase A [Chlamydia muridarum MopnTet14]
 gi|13431951|sp|Q9PJT0.1|TRUA_CHLMU RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
          Length = 267

 Score =  150 bits (380), Expect = 4e-34,   Method: Compositional matrix adjust.
 Identities = 85/207 (41%), Positives = 124/207 (59%), Gaps = 15/207 (7%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L I Y GT Y+GWQ+Q +  +IQ ++E  L    K+ R  + ++ + RTD GVHA GQVA
Sbjct: 7   LRIAYQGTAYSGWQYQPNALSIQEVLETLL---QKISRTRISVIASGRTDAGVHAQGQVA 63

Query: 89  HFITP----FSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           HF  P    FS  G   I   LN LLP DI +R++ A   +FH+RFSA +K YHY +   
Sbjct: 64  HFCCPDHPHFSDPG--QIKKMLNALLPHDIVIRDVIATNEDFHSRFSAITKEYHYTL--S 119

Query: 145 AVMDPFQHH--YAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRF 202
            +  P  HH  + +   +KL    MREAA+Y VG HDF++F N+ R   +   V++++  
Sbjct: 120 LLPKPLPHHRLFCFSPRHKLCLESMREAAKYLVGTHDFASFANLGREYSST--VRTLYAL 177

Query: 203 DVIEMGALLQLEVEGSGFLYRQVRNMV 229
           D++E   L+ +  +G+GFLY+ VRN+V
Sbjct: 178 DLLEQEHLVTVICKGNGFLYKMVRNIV 204


>gi|227530236|ref|ZP_03960285.1| tRNA pseudouridine synthase A [Lactobacillus vaginalis ATCC 49540]
 gi|227349848|gb|EEJ40139.1| tRNA pseudouridine synthase A [Lactobacillus vaginalis ATCC 49540]
          Length = 256

 Score =  150 bits (379), Expect = 4e-34,   Method: Compositional matrix adjust.
 Identities = 72/207 (34%), Positives = 130/207 (62%), Gaps = 5/207 (2%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
           +++++   YDG+ ++G+Q Q    T++ +++ A+ ++ K    ++ ++G+ RTD GVHA 
Sbjct: 2   YRYKITFAYDGSNFSGFQIQPHKRTVEQVLKNAVNKIAKHPTPEIPVIGSGRTDAGVHAL 61

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
            QVAHF  P+     ES+  ALN +LP DI +++      +FHAR+SA +K Y Y++   
Sbjct: 62  NQVAHFDIPYHLSN-ESMRKALNSILPLDILIKKAELVDSDFHARYSAHNKTYRYRVDQG 120

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
             ++PF+ +Y  H  Y L+ TLMR+AA+ F+G+HDF++FV      +A + V+++++ D+
Sbjct: 121 EFVNPFKRNYTAHFKYPLDLTLMRKAAKNFIGEHDFTSFV--ASGSQAKSNVRTVYKIDI 178

Query: 205 I--EMGALLQLEVEGSGFLYRQVRNMV 229
              ++   +  +  G+GFLY Q+R MV
Sbjct: 179 KRDKLRNEVVFDFTGNGFLYNQIRIMV 205


>gi|89100313|ref|ZP_01173178.1| pseudouridylate synthase I [Bacillus sp. NRRL B-14911]
 gi|89084934|gb|EAR64070.1| pseudouridylate synthase I [Bacillus sp. NRRL B-14911]
          Length = 245

 Score =  150 bits (378), Expect = 5e-34,   Method: Compositional matrix adjust.
 Identities = 84/205 (40%), Positives = 117/205 (57%), Gaps = 5/205 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDG++++G+Q Q    T+Q  VE+AL ++ K     +++  + RTD GVHA G
Sbjct: 3   RFKCKIAYDGSQFSGYQVQPGKRTVQLEVERALAKIHK--GNPVKIFASGRTDAGVHARG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF +P +      +  ALN LLP DI V     A   FHARF A  K Y Y IY   
Sbjct: 61  QVIHFDSPLAIPEDRWV-TALNSLLPKDIAVESTEKAAEGFHARFDACGKEYRYFIYRGK 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           +  PF+ HY+YH  + L+   MREAAE+ +G HDFS+F    R D   + V+ I +  V 
Sbjct: 120 IRSPFERHYSYHYPHPLDIRAMREAAEHLLGTHDFSSFC-ASRTD-VEDKVREIRKVHVE 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMVN 230
           E G +L+L   GSGFLY  VR +  
Sbjct: 178 EAGEMLELHFTGSGFLYNMVRILTG 202


>gi|1644206|dbj|BAA10987.1| unknown [Bacillus subtilis]
          Length = 247

 Score =  150 bits (378), Expect = 6e-34,   Method: Compositional matrix adjust.
 Identities = 86/202 (42%), Positives = 117/202 (57%), Gaps = 4/202 (1%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
            + +  I YDG  + G+Q Q    T+Q  +EKAL  + K  ++ + +V + RTD+GVHA 
Sbjct: 1   MRLKCTISYDGHLFNGYQVQPGKRTVQDELEKALAVLHK-SKDRIPVVSSGRTDSGVHAA 59

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           GQV HF TP S    E    ALN LLP DI V++   A   FHARFSA  K Y Y +Y +
Sbjct: 60  GQVIHFDTPLSIPA-ERWPYALNALLPDDIAVKQAEIADDGFHARFSAVKKEYRYFVYTE 118

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
              D F+ HYAYH  Y+LN   MREAA++ +G HDF++F   +      + V++I+  D 
Sbjct: 119 KHPDVFKRHYAYHFSYRLNVQDMREAAKHPIGTHDFTSFCAAKTE--VQDKVRTIYELDW 176

Query: 205 IEMGALLQLEVEGSGFLYRQVR 226
            E    LQ+ + GSGFLY  VR
Sbjct: 177 TETADGLQMRITGSGFLYNMVR 198


>gi|323703515|ref|ZP_08115161.1| tRNA pseudouridine synthase A [Desulfotomaculum nigrificans DSM
           574]
 gi|323531506|gb|EGB21399.1| tRNA pseudouridine synthase A [Desulfotomaculum nigrificans DSM
           574]
          Length = 249

 Score =  150 bits (378), Expect = 6e-34,   Method: Compositional matrix adjust.
 Identities = 84/201 (41%), Positives = 118/201 (58%), Gaps = 7/201 (3%)

Query: 28  RLVIGYDGTRYAGWQFQ--TSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +L + YDGT Y G+Q Q  T   T+Q ++E AL   +K+  E ++++GA RTD GVHA G
Sbjct: 7   KLTVAYDGTNYHGFQEQRGTGLATVQEVLEAAL---SKVANETVQVIGAGRTDAGVHARG 63

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV +F +       E IH A+N LLP DI V +      +FHARFSA +K Y Y IYN  
Sbjct: 64  QVVNFRSTNWPVPTEKIHLAVNSLLPDDIAVIKAEEVPLDFHARFSATAKTYRYSIYNHR 123

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           VM P    YAYH    L+   MR+AA+Y +G HDF +F    +     + V++I+R +++
Sbjct: 124 VMSPLHRLYAYHEPRPLDIEAMRQAAQYLLGTHDFKSFQ--AQGTPVKDTVRTIYRAELV 181

Query: 206 EMGALLQLEVEGSGFLYRQVR 226
               L+ L + G+GFLY  VR
Sbjct: 182 SEPPLIHLYLRGNGFLYNMVR 202


>gi|18309973|ref|NP_561907.1| tRNA pseudouridine synthase A [Clostridium perfringens str. 13]
 gi|24212547|sp|Q8XLQ0.1|TRUA1_CLOPE RecName: Full=tRNA pseudouridine synthase A 1; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I 1; AltName: Full=tRNA-uridine
           isomerase I 1
 gi|18144651|dbj|BAB80697.1| tRNA-pseudouridine synthase I [Clostridium perfringens str. 13]
          Length = 248

 Score =  149 bits (377), Expect = 7e-34,   Method: Compositional matrix adjust.
 Identities = 82/206 (39%), Positives = 121/206 (58%), Gaps = 10/206 (4%)

Query: 28  RLVIGYDGTRYAGWQFQ----TSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHA 83
           ++ + YDG++Y GWQ Q    ++  T+Q  +EK L   TK+  E+++L+G  RTD+GVHA
Sbjct: 5   KITLDYDGSKYKGWQKQNQKGSNVSTVQDKLEKVL---TKMTSEEIQLIGCGRTDSGVHA 61

Query: 84  WGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYN 143
              VA+F T  S   LE I   +N  LP DIRV EI  A   FHARF+ KSK Y Y I N
Sbjct: 62  KNYVANFKTN-SLMTLEQIIEYINEYLPEDIRVTEIREASERFHARFNVKSKTYEYTIDN 120

Query: 144 DAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFD 203
           +   D F   YA+H   KL+   M E A+Y +G HDF +F +++  +++   +++I   +
Sbjct: 121 NKFKDVFLRKYAWHVEEKLDLEAMEEGAKYLLGTHDFKSFTSLKSKNKS--TLRTINSIE 178

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
             E   +L +++ G+GFL   VR MV
Sbjct: 179 FHENNNILSIKINGNGFLLNMVRIMV 204


>gi|376259837|ref|YP_005146557.1| pseudouridylate synthase I [Clostridium sp. BNL1100]
 gi|373943831|gb|AEY64752.1| pseudouridylate synthase I [Clostridium sp. BNL1100]
          Length = 245

 Score =  149 bits (377), Expect = 7e-34,   Method: Compositional matrix adjust.
 Identities = 84/202 (41%), Positives = 118/202 (58%), Gaps = 7/202 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           K ++ I YDGT Y GWQ Q +  T+Q +++KA   ++KL  E++ + G SRTD GVHA+G
Sbjct: 3   KIKITIEYDGTDYHGWQVQKNAKTVQEVIQKA---ISKLLGEEVGVTGCSRTDVGVHAYG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVAHF+T     G +    A+N LLP DI ++       EFHAR+S K K Y Y IYN  
Sbjct: 60  QVAHFLTESQIPG-DKFSYAINNLLPDDIVIKHSEEVTGEFHARYSTKGKKYRYLIYNAP 118

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
                  + + H   KLN   M++A EYF+G+HDF+AF       R+   V+ I+  +V 
Sbjct: 119 HPSAIMRNRSCHVRPKLNIAQMQKATEYFIGEHDFAAFQATGGQVRS--TVREIYSMEVS 176

Query: 206 EM-GALLQLEVEGSGFLYRQVR 226
           E    ++ +EV G+GFLY  VR
Sbjct: 177 EKEDNMIYIEVTGNGFLYNMVR 198


>gi|333922481|ref|YP_004496061.1| tRNA pseudouridine synthase A [Desulfotomaculum carboxydivorans
           CO-1-SRB]
 gi|333748042|gb|AEF93149.1| tRNA pseudouridine synthase A [Desulfotomaculum carboxydivorans
           CO-1-SRB]
          Length = 249

 Score =  149 bits (377), Expect = 7e-34,   Method: Compositional matrix adjust.
 Identities = 84/201 (41%), Positives = 118/201 (58%), Gaps = 7/201 (3%)

Query: 28  RLVIGYDGTRYAGWQFQ--TSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +L + YDGT Y G+Q Q  T   T+Q ++E AL   +K+  E ++++GA RTD GVHA G
Sbjct: 7   KLTVAYDGTNYHGFQEQRGTGLATVQEVLEAAL---SKVANETVQVIGAGRTDAGVHARG 63

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV +F +       E IH A+N LLP DI V +      +FHARFSA +K Y Y IYN  
Sbjct: 64  QVVNFRSTNWPVPTEKIHLAVNSLLPDDIAVIKAEEVPLDFHARFSATAKTYRYSIYNHR 123

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           VM P    YAYH    L+   MR+AA+Y +G HDF +F    +     + V++I+R +++
Sbjct: 124 VMSPLHRLYAYHEPRPLDIEAMRQAAQYLLGTHDFKSFQ--AQGTPVKDTVRTIYRAELV 181

Query: 206 EMGALLQLEVEGSGFLYRQVR 226
               L+ L + G+GFLY  VR
Sbjct: 182 SEPPLIHLYLRGNGFLYNMVR 202


>gi|375360838|ref|YP_005128877.1| tRNA pseudouridine synthase A [Bacillus amyloliquefaciens subsp.
           plantarum CAU B946]
 gi|371566832|emb|CCF03682.1| tRNA pseudouridine synthase A [Bacillus amyloliquefaciens subsp.
           plantarum CAU B946]
          Length = 247

 Score =  149 bits (376), Expect = 9e-34,   Method: Compositional matrix adjust.
 Identities = 86/200 (43%), Positives = 116/200 (58%), Gaps = 6/200 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  I YDG  + G+Q Q    T+Q  +EKAL  + K +   + ++ + RTD+ VHA GQV
Sbjct: 4   KCTIAYDGHLFNGYQVQPGKRTVQSELEKALAVIHKTDGR-VPVISSGRTDSDVHAAGQV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S    E    ALN LLP DI V+    A   FHARFSA  K Y Y +Y +   
Sbjct: 63  IHFDTPLSIPA-EKWPFALNALLPDDIAVKTAEIADDGFHARFSAVQKEYRYFVYTEKHP 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRAL-NPVKSIFRFDVIE 206
           D F+ HYAYH  Y+LN   MREA+ + +GKHDF++F      D A+ + V++I+  D  E
Sbjct: 122 DVFKRHYAYHFAYQLNVQKMREASRHLIGKHDFTSFCAA---DTAVQDKVRTIYELDWTE 178

Query: 207 MGALLQLEVEGSGFLYRQVR 226
            G  LQ+ + G+GFLY  VR
Sbjct: 179 TGDGLQMRITGNGFLYNMVR 198


>gi|110803601|ref|YP_698382.1| tRNA pseudouridine synthase A [Clostridium perfringens SM101]
 gi|110684102|gb|ABG87472.1| tRNA pseudouridine synthase A [Clostridium perfringens SM101]
          Length = 248

 Score =  149 bits (376), Expect = 9e-34,   Method: Compositional matrix adjust.
 Identities = 81/206 (39%), Positives = 122/206 (59%), Gaps = 10/206 (4%)

Query: 28  RLVIGYDGTRYAGWQFQ----TSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHA 83
           ++ + YDG++Y GWQ Q    ++  T+Q  +EK L   TK+  E+++L+G  RTD+GVHA
Sbjct: 5   KITLDYDGSKYKGWQKQNQKGSNVSTVQDKLEKVL---TKMTSEEIQLIGCGRTDSGVHA 61

Query: 84  WGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYN 143
              VA+F T  S   LE I   +N  LP DIRV+EI  A   FHARF+ KSK Y Y I N
Sbjct: 62  KNYVANFKTN-SLMTLEQIIKYINEYLPEDIRVKEIREASERFHARFNVKSKTYEYTIDN 120

Query: 144 DAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFD 203
           +   D F   YA+H   KL+   M E A+Y +G HDF +F +++  +++   +++I   +
Sbjct: 121 NKFKDVFLRKYAWHVEEKLDLEAMEEGAKYLLGTHDFKSFTSLKSKNKS--TLRTINSIE 178

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
             E   +L +++ G+GFL   VR +V
Sbjct: 179 FHENNNILSIKINGNGFLLNMVRIIV 204


>gi|189220286|ref|YP_001940926.1| pseudouridylate synthase [Methylacidiphilum infernorum V4]
 gi|259550415|sp|B3E0A0.1|TRUA_METI4 RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|189187144|gb|ACD84329.1| Pseudouridylate synthase [Methylacidiphilum infernorum V4]
          Length = 255

 Score =  149 bits (376), Expect = 9e-34,   Method: Compositional matrix adjust.
 Identities = 86/203 (42%), Positives = 118/203 (58%), Gaps = 5/203 (2%)

Query: 27  WRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           ++L + Y G+ + GWQ Q   PT+Q  +E+A   V K+  E + + GA RTD GVHA GQ
Sbjct: 8   YKLTLSYCGSGFHGWQRQGELPTVQRALEEA---VAKIWEEPIPVEGAGRTDAGVHAKGQ 64

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           VA F  P   +  E +  ALN  LP  +RV +      EF ARF A SK Y Y ++ND V
Sbjct: 65  VASFAAPRKLEP-EVLKRALNYHLPDTVRVWDARIVPREFSARFDAVSKTYQYLLWNDPV 123

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
           MDPF    A+H    ++  +M EAA  F+GKH+F+AFV+        NPV+++     +E
Sbjct: 124 MDPFYLGRAWHIPRAMDVEMMNEAARLFLGKHNFAAFVS-NPGMPVKNPVRTVLDCFFLE 182

Query: 207 MGALLQLEVEGSGFLYRQVRNMV 229
            G+L+   V+  GFLYR VRNMV
Sbjct: 183 QGSLVFFNVKADGFLYRMVRNMV 205


>gi|110800554|ref|YP_695694.1| tRNA pseudouridine synthase A [Clostridium perfringens ATCC 13124]
 gi|110675201|gb|ABG84188.1| tRNA pseudouridine synthase A [Clostridium perfringens ATCC 13124]
          Length = 248

 Score =  149 bits (376), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 81/206 (39%), Positives = 122/206 (59%), Gaps = 10/206 (4%)

Query: 28  RLVIGYDGTRYAGWQFQ----TSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHA 83
           ++ + YDG++Y GWQ Q    ++  T+Q  +EK L   TK+  E+++L+G  RTD+GVHA
Sbjct: 5   KITLDYDGSKYKGWQKQNQKGSNVSTVQDKLEKVL---TKMTSEEIQLIGCGRTDSGVHA 61

Query: 84  WGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYN 143
              VA+F T  S   LE I   +N  LP DIRV+EI  A   FHARF+ KSK Y Y I N
Sbjct: 62  KNYVANFKTN-SLMTLEQIIEYINEYLPEDIRVKEIREASERFHARFNVKSKTYEYTIDN 120

Query: 144 DAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFD 203
           +   D F   YA+H   KL+   M E A+Y +G HDF +F +++  +++   +++I   +
Sbjct: 121 NKFKDVFLRKYAWHVEEKLDLEAMEEGAKYLLGTHDFKSFTSLKSKNKS--TLRTINSIE 178

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
             E   +L +++ G+GFL   VR +V
Sbjct: 179 FHENNNILSIKINGNGFLLNMVRIIV 204


>gi|398309251|ref|ZP_10512725.1| tRNA pseudouridine synthase A [Bacillus mojavensis RO-H-1]
          Length = 247

 Score =  149 bits (376), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 85/202 (42%), Positives = 116/202 (57%), Gaps = 4/202 (1%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
            + +  I YDG  + G+Q Q    T+Q  +EKAL  + K  ++ + +V + RTD+GVHA 
Sbjct: 1   MRLKCTISYDGHLFNGYQVQPGKRTVQDELEKALAVLHK-SKDRIPVVSSGRTDSGVHAA 59

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           GQV HF TP S    E    ALN LLP D+ V+    A   FHARFSA  K Y Y +Y +
Sbjct: 60  GQVIHFDTPLSIPA-ERWPYALNALLPDDVAVKTAEIADDGFHARFSAVKKEYRYFVYTE 118

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
              D F+ HYAYH  Y+LN   MREAA++ +G HDF++F   +      + V++I+  D 
Sbjct: 119 KHPDVFKRHYAYHFSYRLNVQNMREAAKHLLGTHDFTSFCAAKTE--VQDKVRTIYELDW 176

Query: 205 IEMGALLQLEVEGSGFLYRQVR 226
            E    LQ+ + GSGFLY  VR
Sbjct: 177 TETDDGLQMRITGSGFLYNMVR 198


>gi|302388745|ref|YP_003824566.1| tRNA pseudouridine synthase A [Thermosediminibacter oceani DSM
           16646]
 gi|302199373|gb|ADL06943.1| tRNA pseudouridine synthase A [Thermosediminibacter oceani DSM
           16646]
          Length = 243

 Score =  149 bits (375), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 84/199 (42%), Positives = 116/199 (58%), Gaps = 6/199 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           ++++ YDGT Y GWQ Q +  ++Q ++EKA+  +T    E + ++GA RTD GVHA GQV
Sbjct: 4   KILLEYDGTNYHGWQKQNNALSVQEVLEKAIYALTG---ERVSIIGAGRTDAGVHARGQV 60

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A+F T      +E +  A+N  LP DI V+   A   +FHAR+SAK+K+Y Y IYN    
Sbjct: 61  ANFRTNTRIP-VERLPYAINSKLPEDIAVKGAEAVPDDFHARYSAKAKVYTYSIYNAPFP 119

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
            P    Y+Y     L+   MR AA+ F+G HDF+AF            V++I R DV + 
Sbjct: 120 SPLLRRYSYFFPLPLDVEAMRRAAKAFIGVHDFAAFR--ASGSSVKTSVRNITRLDVKKC 177

Query: 208 GALLQLEVEGSGFLYRQVR 226
           G LL +EVE  GFLY  VR
Sbjct: 178 GKLLTIEVEADGFLYNMVR 196


>gi|152974254|ref|YP_001373771.1| tRNA pseudouridine synthase A [Bacillus cytotoxicus NVH 391-98]
 gi|152023006|gb|ABS20776.1| tRNA pseudouridine synthase A [Bacillus cytotoxicus NVH 391-98]
          Length = 260

 Score =  149 bits (375), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 79/205 (38%), Positives = 121/205 (59%), Gaps = 9/205 (4%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG R+ GWQ    +  TIQ  +E  L   +++  +++ ++G SRTD GVHA  
Sbjct: 19  YKLTIQYDGGRFKGWQRLGNNDNTIQGKIESVL---SEMIGQEIEIIGCSRTDAGVHALN 75

Query: 86  QVAHFITPFSYDGLES-IHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           QVA+F        +E+ +   LN  LP DI + E+      FHAR+++K+K Y YKI+N+
Sbjct: 76  QVANF--KVDEKLVETKVKKYLNQYLPNDISITEVEQVPERFHARYNSKTKTYLYKIWNE 133

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
              +PF   Y+ H   KLN   M++AA YF+G HDF+AF N +   +++  V+ I+  DV
Sbjct: 134 EHTNPFMRKYSMHVPKKLNVENMKQAAHYFIGSHDFTAFSNAKSKKKSM--VREIYVLDV 191

Query: 205 IEMGALLQLEVEGSGFLYRQVRNMV 229
            E    +Q+ V G+GFL+  VR +V
Sbjct: 192 FESEGFIQIRVSGNGFLHNMVRKIV 216


>gi|229028278|ref|ZP_04184414.1| tRNA pseudouridine synthase A 2 [Bacillus cereus AH1271]
 gi|228733042|gb|EEL83888.1| tRNA pseudouridine synthase A 2 [Bacillus cereus AH1271]
          Length = 250

 Score =  148 bits (374), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 76/204 (37%), Positives = 120/204 (58%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG R+ GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA  
Sbjct: 9   YKLTIQYDGARFKGWQRLGNNDNTIQGKIESV---ISEMVGKEIEIIGCSRTDAGVHALN 65

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI V ++      FHAR+++K+K Y YKI+N+ 
Sbjct: 66  QVANFQSDEKLVE-HKVKKYLNQYLPNDISVTDVEEVPDRFHARYNSKAKTYLYKIWNEE 124

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   KLN   M+EAA++ VG HDF+AF N +   +++  V+ ++  DV+
Sbjct: 125 HTNPFMRKYSMHVNKKLNVKSMKEAAKHLVGSHDFTAFSNAKSKKKSM--VREVYTLDVM 182

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 183 EEAGFVQIRVSGNGFLHNMVRKIV 206


>gi|125975420|ref|YP_001039330.1| tRNA pseudouridine synthase A [Clostridium thermocellum ATCC 27405]
 gi|256005284|ref|ZP_05430250.1| tRNA pseudouridine synthase A [Clostridium thermocellum DSM 2360]
 gi|281419381|ref|ZP_06250396.1| tRNA pseudouridine synthase A [Clostridium thermocellum JW20]
 gi|385777865|ref|YP_005687030.1| tRNA pseudouridine synthase A [Clostridium thermocellum DSM 1313]
 gi|419723270|ref|ZP_14250403.1| tRNA pseudouridine synthase A [Clostridium thermocellum AD2]
 gi|419727085|ref|ZP_14254091.1| tRNA pseudouridine synthase A [Clostridium thermocellum YS]
 gi|166991160|sp|A3DJK8.1|TRUA_CLOTH RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|125715645|gb|ABN54137.1| tRNA pseudouridine synthase A [Clostridium thermocellum ATCC 27405]
 gi|255990720|gb|EEU00836.1| tRNA pseudouridine synthase A [Clostridium thermocellum DSM 2360]
 gi|281407001|gb|EFB37264.1| tRNA pseudouridine synthase A [Clostridium thermocellum JW20]
 gi|316939545|gb|ADU73579.1| tRNA pseudouridine synthase A [Clostridium thermocellum DSM 1313]
 gi|380769490|gb|EIC03404.1| tRNA pseudouridine synthase A [Clostridium thermocellum YS]
 gi|380780735|gb|EIC10400.1| tRNA pseudouridine synthase A [Clostridium thermocellum AD2]
          Length = 244

 Score =  148 bits (373), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 85/202 (42%), Positives = 114/202 (56%), Gaps = 6/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L+I YDGT Y GWQ Q +  T+Q  +E+A   +  L  E + L+GASRTD GVHA GQV
Sbjct: 5   KLIIEYDGTNYHGWQKQKNAKTVQDTIERA---IKGLTGEKVDLIGASRTDFGVHALGQV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A+FIT     G +    ALN +LP DI ++E      +FHAR+ AK K Y Y IYN    
Sbjct: 62  ANFITNSGIPG-DRFSYALNRMLPDDIVIKESQEVDMDFHARYKAKGKRYRYLIYNSQFP 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
                H  YH  +KL+   M+ AA YF+G HDFSAF +      A   V++I    +   
Sbjct: 121 SALLRHRTYHVSHKLDFESMQRAASYFLGTHDFSAFRS--SGSSAKTSVRTITDVSLERE 178

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
             +++ E+ G GFLY  VR +V
Sbjct: 179 DKIVKFEIAGDGFLYNMVRIIV 200


>gi|15618490|ref|NP_224776.1| tRNA pseudouridine synthase A [Chlamydophila pneumoniae CWL029]
 gi|33241935|ref|NP_876876.1| tRNA pseudouridine synthase A [Chlamydophila pneumoniae TW-183]
 gi|4376873|gb|AAD18719.1| Pseudouridylate Synthase I [Chlamydophila pneumoniae CWL029]
 gi|33236445|gb|AAP98533.1| pseudouridylate synthase I [Chlamydophila pneumoniae TW-183]
          Length = 267

 Score =  148 bits (373), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 81/208 (38%), Positives = 122/208 (58%), Gaps = 11/208 (5%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           K  L+I Y GT Y+GWQ Q +  +IQ ++E +L ++TK       L+ + RTD GVHA+G
Sbjct: 3   KVALLIAYQGTAYSGWQQQPNDLSIQEVIESSLKKITKTRTP---LIASGRTDAGVHAYG 59

Query: 86  QVAHFITP----FSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKI 141
           QVAHF  P    F+   L     ALN +LP DI +R+++     FHAR+ A +K Y Y +
Sbjct: 60  QVAHFRAPDHPLFANANLTK--KALNAILPKDIVIRDVALFDDNFHARYLAIAKEYRYSL 117

Query: 142 YNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFR 201
              A   P+Q H+ Y   +  +T LM+E A   +G HDF++F N  R+  +   V++I+ 
Sbjct: 118 SRLAKPLPWQRHFCYTPRHPFSTELMQEGANLLIGTHDFASFANHGRDYNST--VRTIYT 175

Query: 202 FDVIEMGALLQLEVEGSGFLYRQVRNMV 229
            D+++ G  L +   G+GFLY+ VRN+V
Sbjct: 176 LDIVDKGDSLSIICRGNGFLYKMVRNLV 203


>gi|423421412|ref|ZP_17398501.1| tRNA pseudouridine synthase A 2 [Bacillus cereus BAG3X2-1]
 gi|401098578|gb|EJQ06590.1| tRNA pseudouridine synthase A 2 [Bacillus cereus BAG3X2-1]
          Length = 245

 Score =  148 bits (373), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 76/204 (37%), Positives = 119/204 (58%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG RY GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA  
Sbjct: 4   YKLTIQYDGARYKGWQRLGNNDNTIQGKIESV---ISEMVGKEIEIIGCSRTDAGVHALN 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 61  QVANFKSDEKLVE-HKVKKYLNQYLPNDISITSVEEVPDRFHARYNSKAKTYLYKIWNEE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   ++ H   KLN   M+EAA++ VG HDF+AF N +   +++  V+ ++  DVI
Sbjct: 120 HTNPFMRKHSMHVNKKLNVKSMKEAAKHLVGSHDFTAFSNAKSKKKSM--VREVYSLDVI 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 178 EEAGFVQIRVSGNGFLHNMVRKIV 201


>gi|403237135|ref|ZP_10915721.1| tRNA pseudouridine synthase A [Bacillus sp. 10403023]
          Length = 245

 Score =  148 bits (373), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 78/204 (38%), Positives = 121/204 (59%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG RY GWQ       TIQ  +E  L   T+L  E + ++G+ RTD GVHA  
Sbjct: 4   YKLTIQYDGGRYKGWQRLGNGDNTIQGKIENVL---TELAGEKIEIIGSGRTDAGVHALA 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           Q+A+F    + +  E +H  LN  LP DI V +++     FHAR++AK K Y YKI+N+ 
Sbjct: 61  QIANFKMRKNANEDEVMHY-LNRYLPNDISVVDVTLVHDRFHARYNAKDKTYLYKIWNEQ 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
              PF   Y+ H   KL+   MR+A+ YF+GKHDF+++ N +   +++  V+ I+  ++ 
Sbjct: 120 YTHPFMRKYSMHVEEKLDIEKMRKASHYFLGKHDFTSYSNAKSKKKSM--VREIYSLEIN 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           +    ++++V G+GFLY  VR +V
Sbjct: 178 KNEGFIEIKVRGNGFLYNMVRKIV 201


>gi|168213913|ref|ZP_02639538.1| tRNA pseudouridine synthase A [Clostridium perfringens CPE str.
           F4969]
 gi|170714597|gb|EDT26779.1| tRNA pseudouridine synthase A [Clostridium perfringens CPE str.
           F4969]
          Length = 248

 Score =  148 bits (373), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 81/206 (39%), Positives = 121/206 (58%), Gaps = 10/206 (4%)

Query: 28  RLVIGYDGTRYAGWQFQ----TSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHA 83
           ++ + YDG++Y GWQ Q    ++  T+Q  +EK L   TK+  E+++L+G  RTD+GVHA
Sbjct: 5   KITLDYDGSKYKGWQKQNQKGSNVSTVQDKLEKVL---TKMTSEEIQLIGCGRTDSGVHA 61

Query: 84  WGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYN 143
              VA+F T  S   LE I   +N  LP DIRV EI  A   FHARF+ KSK Y Y I N
Sbjct: 62  KNYVANFKTN-SLMTLEQIIEYINEYLPEDIRVTEIREASERFHARFNVKSKTYEYTIDN 120

Query: 144 DAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFD 203
           +   D F   YA+H   KL+   M E A+Y +G HDF +F +++  +++   +++I   +
Sbjct: 121 NKFKDVFLRKYAWHVEEKLDLEAMEEGAKYLLGTHDFKSFTSLKSKNKS--TLRTINSIE 178

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
             E   +L +++ G+GFL   VR +V
Sbjct: 179 FHENNNILSIKINGNGFLLNMVRIIV 204


>gi|168211805|ref|ZP_02637430.1| tRNA pseudouridine synthase A [Clostridium perfringens B str. ATCC
           3626]
 gi|170710235|gb|EDT22417.1| tRNA pseudouridine synthase A [Clostridium perfringens B str. ATCC
           3626]
          Length = 248

 Score =  148 bits (373), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 81/206 (39%), Positives = 121/206 (58%), Gaps = 10/206 (4%)

Query: 28  RLVIGYDGTRYAGWQFQ----TSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHA 83
           ++ + YDG++Y GWQ Q    ++  T+Q  +EK L   TK+  E+++L+G  RTD+GVHA
Sbjct: 5   KITLDYDGSKYKGWQKQNQKGSNVSTVQDKLEKVL---TKMTSEEIQLIGCGRTDSGVHA 61

Query: 84  WGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYN 143
              VA+F T  S   LE I   +N  LP DIRV EI  A   FHARF+ KSK Y Y I N
Sbjct: 62  KNYVANFKTN-SLMTLEQIIEYINEYLPEDIRVTEIREASERFHARFNVKSKTYEYTIDN 120

Query: 144 DAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFD 203
           +   D F   YA+H   KL+   M E A+Y +G HDF +F +++  +++   +++I   +
Sbjct: 121 NKFKDVFLRKYAWHVEEKLDLEAMEEGAKYLLGTHDFKSFTSLKSKNKS--TLRTINSIE 178

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
             E   +L +++ G+GFL   VR +V
Sbjct: 179 FHENNNILSIKINGNGFLLNMVRIIV 204


>gi|334338934|ref|YP_004543914.1| tRNA pseudouridine synthase A [Desulfotomaculum ruminis DSM 2154]
 gi|334090288|gb|AEG58628.1| tRNA pseudouridine synthase A [Desulfotomaculum ruminis DSM 2154]
          Length = 251

 Score =  147 bits (372), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 81/201 (40%), Positives = 120/201 (59%), Gaps = 7/201 (3%)

Query: 28  RLVIGYDGTRYAGWQFQ--TSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +L + YDGT Y G+Q Q  T  PT+Q  +E  L   ++L ++ ++++GA RTD GVHA G
Sbjct: 7   KLTVAYDGTHYHGFQEQRGTGLPTVQEALEAVL---SQLAQKPVQVIGAGRTDAGVHALG 63

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV +F        +E    A+N LLP DI V +      +FHARFSA +K Y Y IY+  
Sbjct: 64  QVVNFRCDPWRIPVERTPLAMNPLLPADISVLKAEPVPQDFHARFSAIAKTYRYSIYHHR 123

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           +M P Q  Y +H   +L+T  M++AA+Y +G HDF +F    +     + V++I+R +V+
Sbjct: 124 IMSPLQRLYCHHEPRRLDTGAMKQAAQYLLGTHDFKSFQ--AQGTPVRDTVRTIYRAEVV 181

Query: 206 EMGALLQLEVEGSGFLYRQVR 226
           E G L+ + V G+GFLY  VR
Sbjct: 182 EEGPLIHIYVRGNGFLYNMVR 202


>gi|168208061|ref|ZP_02634066.1| tRNA pseudouridine synthase A [Clostridium perfringens E str.
           JGS1987]
 gi|168215906|ref|ZP_02641531.1| tRNA pseudouridine synthase A [Clostridium perfringens NCTC 8239]
 gi|169341141|ref|ZP_02863234.1| tRNA pseudouridine synthase A [Clostridium perfringens C str.
           JGS1495]
 gi|422345695|ref|ZP_16426609.1| tRNA pseudouridine synthase A 1 [Clostridium perfringens WAL-14572]
 gi|422873893|ref|ZP_16920378.1| tRNA pseudouridine synthase A [Clostridium perfringens F262]
 gi|169299748|gb|EDS81800.1| tRNA pseudouridine synthase A [Clostridium perfringens C str.
           JGS1495]
 gi|170660642|gb|EDT13325.1| tRNA pseudouridine synthase A [Clostridium perfringens E str.
           JGS1987]
 gi|182381869|gb|EDT79348.1| tRNA pseudouridine synthase A [Clostridium perfringens NCTC 8239]
 gi|373227360|gb|EHP49674.1| tRNA pseudouridine synthase A 1 [Clostridium perfringens WAL-14572]
 gi|380305126|gb|EIA17407.1| tRNA pseudouridine synthase A [Clostridium perfringens F262]
          Length = 248

 Score =  147 bits (372), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 81/206 (39%), Positives = 121/206 (58%), Gaps = 10/206 (4%)

Query: 28  RLVIGYDGTRYAGWQFQ----TSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHA 83
           ++ + YDG++Y GWQ Q    ++  T+Q  +EK L   TK+  E+++L+G  RTD+GVHA
Sbjct: 5   KITLDYDGSKYKGWQKQNQKGSNVSTVQDKLEKVL---TKMTSEEIQLIGCGRTDSGVHA 61

Query: 84  WGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYN 143
              VA+F T  S   LE I   +N  LP DIRV EI  A   FHARF+ KSK Y Y I N
Sbjct: 62  KNYVANFKTN-SLMTLEQIIEYINEYLPEDIRVTEIREASERFHARFNVKSKTYEYTIDN 120

Query: 144 DAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFD 203
           +   D F   YA+H   KL+   M E A+Y +G HDF +F +++  +++   +++I   +
Sbjct: 121 NKFKDVFLRKYAWHVEEKLDLEAMEEGAKYLLGTHDFKSFTSLKSKNKS--TLRTINSIE 178

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
             E   +L +++ G+GFL   VR +V
Sbjct: 179 FHENNNILSIKINGNGFLLNMVRIIV 204


>gi|223935594|ref|ZP_03627510.1| tRNA pseudouridine synthase A [bacterium Ellin514]
 gi|223895602|gb|EEF62047.1| tRNA pseudouridine synthase A [bacterium Ellin514]
          Length = 270

 Score =  147 bits (372), Expect = 3e-33,   Method: Compositional matrix adjust.
 Identities = 85/207 (41%), Positives = 115/207 (55%), Gaps = 6/207 (2%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
            K++L I YDG  Y+GWQ Q S   +Q  VE+AL   TKL     R+  +SRTDTGVHA 
Sbjct: 4   LKFKLTIAYDGKNYSGWQVQKSGIGVQQRVEEAL---TKLFPSVGRIHSSSRTDTGVHAI 60

Query: 85  GQVAHFITPFSYDGL--ESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIY 142
           G VAH   P +   +  E +  A+N  LP DIRV        +FHARF A  K Y Y ++
Sbjct: 61  GMVAHMEIPKAEFRMTSEKLALAINAHLPEDIRVMSAQKVAADFHARFDAAGKQYRYFVW 120

Query: 143 NDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRF 202
           N   M+P     A+    +L+   MR AA+ F GKHDF +F    RN    + V+++ R 
Sbjct: 121 NQTAMNPLLREQAWQVPKELDLKAMRSAAKLFPGKHDFRSFA-ASRNYEVESTVRTLARC 179

Query: 203 DVIEMGALLQLEVEGSGFLYRQVRNMV 229
           D+ + G+LL   +EG GFLY+  R +V
Sbjct: 180 DIKKSGSLLTFIIEGDGFLYKMCRGIV 206


>gi|167036834|ref|YP_001664412.1| tRNA pseudouridine synthase A [Thermoanaerobacter pseudethanolicus
           ATCC 33223]
 gi|167039553|ref|YP_001662538.1| tRNA pseudouridine synthase A [Thermoanaerobacter sp. X514]
 gi|256752665|ref|ZP_05493517.1| tRNA pseudouridine synthase A [Thermoanaerobacter ethanolicus
           CCSD1]
 gi|300915196|ref|ZP_07132511.1| tRNA pseudouridine synthase A [Thermoanaerobacter sp. X561]
 gi|307725120|ref|YP_003904871.1| tRNA pseudouridine synthase A [Thermoanaerobacter sp. X513]
 gi|320115256|ref|YP_004185415.1| tRNA pseudouridine synthase A [Thermoanaerobacter brockii subsp.
           finnii Ako-1]
 gi|238687621|sp|B0K5S6.1|TRUA_THEPX RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|238687718|sp|B0KCN3.1|TRUA_THEP3 RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|166853793|gb|ABY92202.1| tRNA pseudouridine synthase A [Thermoanaerobacter sp. X514]
 gi|166855668|gb|ABY94076.1| tRNA pseudouridine synthase A [Thermoanaerobacter pseudethanolicus
           ATCC 33223]
 gi|256748485|gb|EEU61537.1| tRNA pseudouridine synthase A [Thermoanaerobacter ethanolicus
           CCSD1]
 gi|300888920|gb|EFK84067.1| tRNA pseudouridine synthase A [Thermoanaerobacter sp. X561]
 gi|307582181|gb|ADN55580.1| tRNA pseudouridine synthase A [Thermoanaerobacter sp. X513]
 gi|319928347|gb|ADV79032.1| tRNA pseudouridine synthase A [Thermoanaerobacter brockii subsp.
           finnii Ako-1]
          Length = 244

 Score =  147 bits (372), Expect = 3e-33,   Method: Compositional matrix adjust.
 Identities = 81/201 (40%), Positives = 117/201 (58%), Gaps = 6/201 (2%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           +V+ YDGT Y GWQ+Q +  T+Q +++KA+ +VT    E++ L+GASRTDTGVHA  QVA
Sbjct: 6   IVVEYDGTNYHGWQYQKNAVTVQEVLQKAIKKVTG---EEVNLIGASRTDTGVHALYQVA 62

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +F T       E +  ALN +LP DI V +       FHAR+SAK K Y Y I N     
Sbjct: 63  NFKTNTKIPA-EKLPYALNSVLPDDIVVVQAKDVEDSFHARYSAKRKRYKYIILNRKFQM 121

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
           P   +Y +H  Y LN   M++AA Y +G HDFSAF          + +++++   + +  
Sbjct: 122 PTMRNYCWHISYPLNIEEMKKAASYLIGTHDFSAFK--ASGSSKTSTIRTVYDLTIEKNE 179

Query: 209 ALLQLEVEGSGFLYRQVRNMV 229
             + +E+E +GFLY  VR +V
Sbjct: 180 DFINIEIEANGFLYNMVRIIV 200


>gi|220930998|ref|YP_002507906.1| pseudouridylate synthase I [Halothermothrix orenii H 168]
 gi|220931093|ref|YP_002508001.1| pseudouridylate synthase I [Halothermothrix orenii H 168]
 gi|219992308|gb|ACL68911.1| pseudouridylate synthase I [Halothermothrix orenii H 168]
 gi|219992403|gb|ACL69006.1| pseudouridylate synthase I [Halothermothrix orenii H 168]
          Length = 246

 Score =  147 bits (372), Expect = 3e-33,   Method: Compositional matrix adjust.
 Identities = 80/200 (40%), Positives = 116/200 (58%), Gaps = 7/200 (3%)

Query: 28  RLVIGYDGTRYAGWQFQT-SPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           ++ + YDGT Y+GWQ Q  +P TIQ ++ K L  + K     ++L+GASRTD GVHA GQ
Sbjct: 6   KITVEYDGTNYSGWQIQNNTPETIQGVLSKCLFDINK---SPVKLIGASRTDAGVHARGQ 62

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           VA+F        +E I  ALN  LPPDI  ++      +FHARF A+ K Y Y+I N   
Sbjct: 63  VANFRLKVGIP-VERIPLALNSKLPPDIVCKDAEEVTEDFHARFDARGKRYIYRILNSEY 121

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
             PF  +Y Y   + LN   MREA    +G+HDF++F     +++    V++I + D+  
Sbjct: 122 PSPFLRNYTYFIPHNLNIDKMREAGSLLIGEHDFASFQASGGSNKTT--VRTITKLDIYR 179

Query: 207 MGALLQLEVEGSGFLYRQVR 226
               +++EV G+GFLY+ VR
Sbjct: 180 DQYQIKIEVCGNGFLYKMVR 199


>gi|182625331|ref|ZP_02953105.1| tRNA pseudouridine synthase A [Clostridium perfringens D str.
           JGS1721]
 gi|177909489|gb|EDT71936.1| tRNA pseudouridine synthase A [Clostridium perfringens D str.
           JGS1721]
          Length = 248

 Score =  147 bits (371), Expect = 4e-33,   Method: Compositional matrix adjust.
 Identities = 80/206 (38%), Positives = 121/206 (58%), Gaps = 10/206 (4%)

Query: 28  RLVIGYDGTRYAGWQFQ----TSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHA 83
           ++ + YDG++Y GWQ Q    ++  T+Q  +EK L   TK+  E+++L+G  RTD+GVHA
Sbjct: 5   KITLDYDGSKYKGWQKQNQKGSNVSTVQDKLEKVL---TKMTSEEIQLIGCGRTDSGVHA 61

Query: 84  WGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYN 143
              VA+F T  S   LE I   +N  LP DIR+ EI  A   FHARF+ KSK Y Y I N
Sbjct: 62  KNYVANFKTN-SLMTLEQIIEYINEYLPEDIRITEIREASERFHARFNVKSKTYEYTIDN 120

Query: 144 DAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFD 203
           +   D F   YA+H   KL+   M E A+Y +G HDF +F +++  +++   +++I   +
Sbjct: 121 NKFKDVFLRKYAWHVEEKLDLEAMEEGAKYLLGTHDFKSFTSLKSKNKS--TLRTINSIE 178

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
             E   +L +++ G+GFL   VR +V
Sbjct: 179 FHENNNILSIKINGNGFLLNMVRIIV 204


>gi|358065618|ref|ZP_09152154.1| hypothetical protein HMPREF9473_04217 [Clostridium hathewayi
           WAL-18680]
 gi|356696104|gb|EHI57727.1| hypothetical protein HMPREF9473_04217 [Clostridium hathewayi
           WAL-18680]
          Length = 496

 Score =  147 bits (371), Expect = 4e-33,   Method: Compositional matrix adjust.
 Identities = 81/199 (40%), Positives = 117/199 (58%), Gaps = 6/199 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           R+V+ YDGT Y GWQ Q +  TI+ ++ KAL   + L RE + ++GASRTD+GVHA G V
Sbjct: 5   RMVVAYDGTNYCGWQIQPNGITIEEVLNKAL---SDLLREPVVVIGASRTDSGVHAEGNV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A F T       E I  ALN  LP DIR+ +     P++H R    +K Y YKI N  + 
Sbjct: 62  AVFDTENRMPA-EKICFALNQRLPQDIRILKSEEVAPDWHPRKCNCTKTYEYKILNRKID 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
            P    Y++   + L+   M+EAA+Y VG+HDF +F  ++   +A   V++I+  DV + 
Sbjct: 121 MPTLRLYSHFCYFPLDVEKMKEAAKYLVGEHDFRSFCTVR--GQAEETVRTIYSLDVEKS 178

Query: 208 GALLQLEVEGSGFLYRQVR 226
           G ++ + + GSGFLY  VR
Sbjct: 179 GDMITIRISGSGFLYNMVR 197


>gi|451348462|ref|YP_007447093.1| tRNA pseudouridine synthase A [Bacillus amyloliquefaciens IT-45]
 gi|449852220|gb|AGF29212.1| tRNA pseudouridine synthase A [Bacillus amyloliquefaciens IT-45]
          Length = 247

 Score =  147 bits (371), Expect = 4e-33,   Method: Compositional matrix adjust.
 Identities = 85/200 (42%), Positives = 115/200 (57%), Gaps = 6/200 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  I YDG  + G+Q Q    T+Q  +EKAL  + K +   + ++ + RTD+ VHA GQV
Sbjct: 4   KCTIAYDGHLFNGYQVQPGKRTVQSELEKALAVIHKTDGR-VPVISSGRTDSDVHAAGQV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S    E    ALN LLP DI V+    A   FHARFSA  K Y Y +Y +   
Sbjct: 63  IHFDTPLSIPA-EKWPFALNALLPDDIAVKTAEIADDGFHARFSAVQKEYRYFVYTEKHP 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRAL-NPVKSIFRFDVIE 206
           D F+ HYAYH  Y+LN   MREA+ + +G HDF++F      D A+ + V++I+  D  E
Sbjct: 122 DVFKRHYAYHFAYQLNVQKMREASRHLIGTHDFTSFCAA---DTAVQDKVRTIYELDWTE 178

Query: 207 MGALLQLEVEGSGFLYRQVR 226
            G  LQ+ + G+GFLY  VR
Sbjct: 179 TGDGLQMRITGNGFLYNMVR 198


>gi|310829551|ref|YP_003961908.1| hypothetical protein [Eubacterium limosum KIST612]
 gi|308741285|gb|ADO38945.1| hypothetical protein ELI_4001 [Eubacterium limosum KIST612]
          Length = 244

 Score =  147 bits (371), Expect = 4e-33,   Method: Compositional matrix adjust.
 Identities = 84/203 (41%), Positives = 118/203 (58%), Gaps = 6/203 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +++I Y GTRYAGWQ Q + PT++  +  A+  VT    E + L G+ RTD GVHA GQ 
Sbjct: 5   QMIIAYKGTRYAGWQRQPNAPTVEEALTGAIKAVTG---ETVTLYGSGRTDAGVHALGQS 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           AHF T  S    E   AALN  LP DIRV     A   FH+R+SAK K+Y Y++Y + V+
Sbjct: 62  AHFHTE-SRVPPERFAAALNTRLPGDIRVLSSCEAPEGFHSRYSAKGKVYTYQLYLNPVL 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
            PF   Y++H  Y ++ + M+ A+  F+G+HDF  F+    + R    V++I      + 
Sbjct: 121 SPFYAEYSWHVNYPVDVSRMKAASAAFLGEHDFCGFMAAGSSVRGT--VRTIRAITFEQE 178

Query: 208 GALLQLEVEGSGFLYRQVRNMVN 230
           GALL++   G+GFLY  VR M  
Sbjct: 179 GALLRITYTGNGFLYNMVRIMTG 201


>gi|229137290|ref|ZP_04265906.1| tRNA pseudouridine synthase A 2 [Bacillus cereus BDRD-ST26]
 gi|228646193|gb|EEL02411.1| tRNA pseudouridine synthase A 2 [Bacillus cereus BDRD-ST26]
          Length = 250

 Score =  147 bits (370), Expect = 4e-33,   Method: Compositional matrix adjust.
 Identities = 75/204 (36%), Positives = 119/204 (58%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG R+ GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA  
Sbjct: 9   YKLTIQYDGARFKGWQRLGNNDNTIQGKIESV---ISEMVGKEIEIIGCSRTDAGVHALN 65

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 66  QVANFQSDEKLVE-HKVKKYLNQYLPNDISITNVEEVHDRFHARYNSKAKTYLYKIWNEE 124

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   KLN   M+EAA++ VG HDF+AF N +   +++  V+ ++  DV+
Sbjct: 125 HTNPFMRKYSMHVNKKLNVKSMKEAAKHLVGSHDFTAFSNAKSKKKSM--VREVYTLDVM 182

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 183 EEAGFVQIRVSGNGFLHNMVRKIV 206


>gi|229917326|ref|YP_002885972.1| tRNA pseudouridine synthase A [Exiguobacterium sp. AT1b]
 gi|259550390|sp|C4KZL4.1|TRUA_EXISA RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|229468755|gb|ACQ70527.1| tRNA pseudouridine synthase A [Exiguobacterium sp. AT1b]
          Length = 246

 Score =  147 bits (370), Expect = 4e-33,   Method: Compositional matrix adjust.
 Identities = 85/206 (41%), Positives = 115/206 (55%), Gaps = 12/206 (5%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + +L++ YDGT YAG+Q Q +  TIQ  +E  L R   + R  ++++ + RTD  VHA G
Sbjct: 3   RIKLIVAYDGTHYAGYQVQPNGNTIQAEIESVLAR---MHRHPVKIIASGRTDARVHALG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF T       E    ALN +LP DI V++       FHAR+ AK K Y Y I    
Sbjct: 60  QVIHFDTTLEMPA-ERFVKALNAMLPDDILVKQAEEMDDTFHARYGAKRKEYRYHIRQTE 118

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAF--VNIQRNDRALNPVKSIFRFD 203
             DPF+ HYA    YKL+   MR+A E  +G HDF++F     +  DR    V++I+  +
Sbjct: 119 --DPFRRHYAATVTYKLSLEAMRQAMERLIGTHDFTSFSVTKAEVEDR----VRTIYEAE 172

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
           V+EMG  +     GSGFLY QVR MV
Sbjct: 173 VLEMGDEIIFRFVGSGFLYNQVRIMV 198


>gi|89898653|ref|YP_515763.1| tRNA pseudouridine synthase A [Chlamydophila felis Fe/C-56]
 gi|123735904|sp|Q253C0.1|TRUA_CHLFF RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|89332025|dbj|BAE81618.1| tRNA pseudouridine synthase A [Chlamydophila felis Fe/C-56]
          Length = 268

 Score =  147 bits (370), Expect = 4e-33,   Method: Compositional matrix adjust.
 Identities = 77/203 (37%), Positives = 125/203 (61%), Gaps = 7/203 (3%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L++ Y GT YAGWQ Q +  +IQ ++E AL RV     + + +  + RTD+GVHA+GQVA
Sbjct: 6   LLLAYQGTAYAGWQRQPNDLSIQEVIESALARVLG---KPIVVSSSGRTDSGVHAYGQVA 62

Query: 89  HFITPFS--YDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           HF  P    +   +SI   LN +LP DI +R++  +   FHARFSA +K Y Y +     
Sbjct: 63  HFSQPDHPLFSQPQSIKKMLNAILPKDIVIRDVVLSDVNFHARFSAIAKEYRYSLTRSPK 122

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
             P+Q ++AY+  + +   LM++ A+Y +G HDF++F N  R+  +    +++F+ D+I+
Sbjct: 123 PLPWQRYFAYYPRHSIKIDLMQKGAKYLLGTHDFASFANHGRDYTSTE--RTLFKLDIID 180

Query: 207 MGALLQLEVEGSGFLYRQVRNMV 229
              ++ +  +G+GFLY+ VRN+V
Sbjct: 181 NEEIVTIICKGNGFLYKMVRNIV 203


>gi|228913175|ref|ZP_04076814.1| tRNA pseudouridine synthase A 2 [Bacillus thuringiensis serovar
           pulsiensis BGSC 4CC1]
 gi|228846580|gb|EEM91593.1| tRNA pseudouridine synthase A 2 [Bacillus thuringiensis serovar
           pulsiensis BGSC 4CC1]
          Length = 250

 Score =  147 bits (370), Expect = 4e-33,   Method: Compositional matrix adjust.
 Identities = 75/204 (36%), Positives = 119/204 (58%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG R+ GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA  
Sbjct: 9   YKLTIQYDGARFKGWQRLGNNDNTIQGKIESV---ISEMVGKEIEIIGCSRTDAGVHALN 65

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 66  QVANFQSDEKLVE-HKVKKYLNQYLPNDISITNVEEVHDRFHARYNSKAKTYLYKIWNEE 124

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   KLN   M+EAA++ VG HDF+AF N +   +++  V+ ++  DV+
Sbjct: 125 HTNPFMRKYSMHVNKKLNVKSMKEAAKHLVGSHDFTAFSNAKSKKKSM--VREVYTLDVM 182

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 183 EEAGFVQIRVSGNGFLHNMVRKIV 206


>gi|206974202|ref|ZP_03235119.1| tRNA pseudouridine synthase A [Bacillus cereus H3081.97]
 gi|217958024|ref|YP_002336568.1| tRNA pseudouridine synthase A [Bacillus cereus AH187]
 gi|222094223|ref|YP_002528280.1| tRNA pseudouridine synthase a [Bacillus cereus Q1]
 gi|375282560|ref|YP_005102997.1| tRNA pseudouridine synthase A [Bacillus cereus NC7401]
 gi|423356685|ref|ZP_17334287.1| tRNA pseudouridine synthase A 2 [Bacillus cereus IS075]
 gi|423375581|ref|ZP_17352917.1| tRNA pseudouridine synthase A 2 [Bacillus cereus AND1407]
 gi|423571396|ref|ZP_17547638.1| tRNA pseudouridine synthase A 2 [Bacillus cereus MSX-A12]
 gi|423577718|ref|ZP_17553837.1| tRNA pseudouridine synthase A 2 [Bacillus cereus MSX-D12]
 gi|423607751|ref|ZP_17583644.1| tRNA pseudouridine synthase A 2 [Bacillus cereus VD102]
 gi|206747442|gb|EDZ58832.1| tRNA pseudouridine synthase A [Bacillus cereus H3081.97]
 gi|217065270|gb|ACJ79520.1| tRNA pseudouridine synthase A [Bacillus cereus AH187]
 gi|221238278|gb|ACM10988.1| tRNA-pseudouridylate synthase I (tRNA pseudouridine synthase A)
           [Bacillus cereus Q1]
 gi|358351085|dbj|BAL16257.1| tRNA pseudouridine synthase A [Bacillus cereus NC7401]
 gi|401077272|gb|EJP85612.1| tRNA pseudouridine synthase A 2 [Bacillus cereus IS075]
 gi|401091845|gb|EJP99984.1| tRNA pseudouridine synthase A 2 [Bacillus cereus AND1407]
 gi|401200766|gb|EJR07645.1| tRNA pseudouridine synthase A 2 [Bacillus cereus MSX-A12]
 gi|401204422|gb|EJR11239.1| tRNA pseudouridine synthase A 2 [Bacillus cereus MSX-D12]
 gi|401239948|gb|EJR46356.1| tRNA pseudouridine synthase A 2 [Bacillus cereus VD102]
          Length = 245

 Score =  147 bits (370), Expect = 5e-33,   Method: Compositional matrix adjust.
 Identities = 75/204 (36%), Positives = 119/204 (58%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG R+ GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA  
Sbjct: 4   YKLTIQYDGARFKGWQRLGNNDNTIQGKIESV---ISEMVGKEIEIIGCSRTDAGVHALN 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 61  QVANFQSDEKLVE-HKVKKYLNQYLPNDISITNVEEVHDRFHARYNSKAKTYLYKIWNEE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   KLN   M+EAA++ VG HDF+AF N +   +++  V+ ++  DV+
Sbjct: 120 HTNPFMRKYSMHVNKKLNVKSMKEAAKHLVGSHDFTAFSNAKSKKKSM--VREVYTLDVM 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 178 EEAGFVQIRVSGNGFLHNMVRKIV 201


>gi|443634957|ref|ZP_21119128.1| tRNA pseudouridine synthase A [Bacillus subtilis subsp. inaquosorum
           KCTC 13429]
 gi|443345148|gb|ELS59214.1| tRNA pseudouridine synthase A [Bacillus subtilis subsp. inaquosorum
           KCTC 13429]
          Length = 247

 Score =  147 bits (370), Expect = 5e-33,   Method: Compositional matrix adjust.
 Identities = 85/202 (42%), Positives = 115/202 (56%), Gaps = 4/202 (1%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
            + +  I YDG  + G+Q Q    T+Q  +EKAL  + K  ++ + +V + RTD+GVHA 
Sbjct: 1   MRLKCTISYDGHLFNGYQVQPGKRTVQDELEKALAVLHK-SKDRIPVVSSGRTDSGVHAA 59

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           GQV HF T  S    E    ALN LLP DI V++   A   FHARFSA  K Y Y +Y +
Sbjct: 60  GQVIHFDTSLSIP-TERWPYALNALLPDDIAVKQAEIADDGFHARFSAVKKEYRYFVYTE 118

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
              D F+ HYAYH  Y LN   MREAA++ +G HDF++F   +      + V++I+  D 
Sbjct: 119 KHPDVFKRHYAYHFSYHLNVQNMREAAKHLIGTHDFTSFCATKTE--VQDKVRTIYELDW 176

Query: 205 IEMGALLQLEVEGSGFLYRQVR 226
            E    LQ+ + GSGFLY  VR
Sbjct: 177 TETDDGLQMRITGSGFLYNMVR 198


>gi|229194805|ref|ZP_04321592.1| tRNA pseudouridine synthase A 2 [Bacillus cereus m1293]
 gi|228588653|gb|EEK46684.1| tRNA pseudouridine synthase A 2 [Bacillus cereus m1293]
          Length = 250

 Score =  147 bits (370), Expect = 5e-33,   Method: Compositional matrix adjust.
 Identities = 75/204 (36%), Positives = 119/204 (58%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG R+ GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA  
Sbjct: 9   YKLTIQYDGARFKGWQRLGNNDNTIQGKIESV---ISEMVGKEIEIIGCSRTDAGVHALN 65

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 66  QVANFQSDEKLVE-HKVKKYLNQYLPNDISITNVEEVHDRFHARYNSKAKTYLYKIWNEE 124

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   KLN   M+EAA++ VG HDF+AF N +   +++  V+ ++  DV+
Sbjct: 125 HTNPFMRKYSMHVNKKLNVKSMKEAAKHLVGSHDFTAFSNAKSKKKSM--VREVYALDVM 182

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 183 EEAGFVQIRVSGNGFLHNMVRKIV 206


>gi|228983685|ref|ZP_04143885.1| tRNA pseudouridine synthase A 2 [Bacillus thuringiensis serovar
           tochigiensis BGSC 4Y1]
 gi|228776037|gb|EEM24403.1| tRNA pseudouridine synthase A 2 [Bacillus thuringiensis serovar
           tochigiensis BGSC 4Y1]
          Length = 250

 Score =  147 bits (370), Expect = 5e-33,   Method: Compositional matrix adjust.
 Identities = 77/204 (37%), Positives = 116/204 (56%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG R+ GWQ    +  TIQ  +E  +  +   E E   ++G SRTD GVHA  
Sbjct: 9   YKLTIQYDGARFKGWQRLGNNDNTIQGKIESVISEMVGKETE---IIGCSRTDAGVHALN 65

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 66  QVANFQSDEKLVE-HKVKKYLNQYLPNDISITNVEEVHDRFHARYNSKAKTYLYKIWNEE 124

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   KLN   M+EAA++ VG HDF+AF N +   +++  V+ ++  DV+
Sbjct: 125 HTNPFMRKYSMHVNKKLNVKSMKEAAKHLVGSHDFTAFSNAKSKKKSM--VREVYTLDVM 182

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 183 EEAGFVQIRVSGNGFLHNMVRKIV 206


>gi|47567253|ref|ZP_00237967.1| tRNA pseudouridine synthase A [Bacillus cereus G9241]
 gi|47556096|gb|EAL14433.1| tRNA pseudouridine synthase A [Bacillus cereus G9241]
          Length = 245

 Score =  147 bits (370), Expect = 5e-33,   Method: Compositional matrix adjust.
 Identities = 75/204 (36%), Positives = 119/204 (58%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG R+ GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA  
Sbjct: 4   YKLTIQYDGARFKGWQRLGNNDNTIQGKIESV---ISEMVGKEIEIIGCSRTDAGVHALN 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 61  QVANFQSDEKLVE-HKVKKYLNQYLPNDISITNVEEVHDRFHARYNSKAKTYLYKIWNEE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   KLN   M+EAA++ VG HDF+AF N +   +++  V+ ++  DV+
Sbjct: 120 HTNPFMRKYSMHVNKKLNVKSMKEAAKHLVGSHDFTAFSNAKSKKKSM--VREVYTLDVM 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 178 EEAGCVQIRVSGNGFLHNMVRKIV 201


>gi|424824853|ref|ZP_18249840.1| tRNA pseudouridine synthase A [Chlamydophila abortus LLG]
 gi|333409952|gb|EGK68939.1| tRNA pseudouridine synthase A [Chlamydophila abortus LLG]
          Length = 268

 Score =  147 bits (370), Expect = 5e-33,   Method: Compositional matrix adjust.
 Identities = 76/203 (37%), Positives = 123/203 (60%), Gaps = 7/203 (3%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           +++ Y GT YAGWQ Q +  +IQ ++E +L +V     + + +  + RTD GVHA+GQVA
Sbjct: 6   ILLAYQGTAYAGWQRQPNDLSIQEVIENSLAQVVG---KRIPVTSSGRTDAGVHAFGQVA 62

Query: 89  HFITP--FSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           HF  P    +    SI   LN LLP DI +R++     +FH+RFSA +K Y Y +     
Sbjct: 63  HFSQPDHPQFSQASSIKKMLNALLPKDIVIRDVVLGDDKFHSRFSAIAKEYRYVLTRSPK 122

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
             P++ ++AY+  + L T LM+E A+Y +G HDF++F N  R+    + ++++F  D+++
Sbjct: 123 PLPWERYFAYYPRHHLKTDLMQEGAQYLLGTHDFASFANHGRD--YTSTIRTLFNLDIVD 180

Query: 207 MGALLQLEVEGSGFLYRQVRNMV 229
            G  + +   G+GFLY+ VRN+V
Sbjct: 181 HGETVTIICRGNGFLYKMVRNIV 203


>gi|229154192|ref|ZP_04282315.1| tRNA pseudouridine synthase A 2 [Bacillus cereus ATCC 4342]
 gi|228629282|gb|EEK85986.1| tRNA pseudouridine synthase A 2 [Bacillus cereus ATCC 4342]
          Length = 250

 Score =  146 bits (369), Expect = 6e-33,   Method: Compositional matrix adjust.
 Identities = 75/206 (36%), Positives = 120/206 (58%), Gaps = 7/206 (3%)

Query: 25  FKWRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHA 83
           + ++L I YDG R+ GWQ    +  TIQ  +E     V+++  +++ ++G SRTD GVHA
Sbjct: 7   YNYKLTIQYDGARFKGWQRLGNNDNTIQGKIESV---VSEMVGKEIEIIGCSRTDAGVHA 63

Query: 84  WGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYN 143
             QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N
Sbjct: 64  LNQVANFQSDEKLVE-HKVKKYLNQYLPNDISITNVEEVHDRFHARYNSKAKTYLYKIWN 122

Query: 144 DAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFD 203
           +   +PF   Y+ H   KLN   M+EAA++ VG HDF+AF N +   +++  V+ ++  +
Sbjct: 123 EEHTNPFMRKYSMHVNKKLNVKSMKEAAKHLVGSHDFTAFSNAKSKKKSM--VREVYTLE 180

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
           V+E    +Q+ V G+GFL+  VR +V
Sbjct: 181 VMEEAGFVQIRVSGNGFLHNMVRKIV 206


>gi|184155960|ref|YP_001844300.1| tRNA pseudouridine synthase A [Lactobacillus fermentum IFO 3956]
 gi|238692990|sp|B2GDT8.1|TRUA_LACF3 RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|183227304|dbj|BAG27820.1| pseudouridylate synthase A [Lactobacillus fermentum IFO 3956]
          Length = 258

 Score =  146 bits (369), Expect = 6e-33,   Method: Compositional matrix adjust.
 Identities = 79/206 (38%), Positives = 121/206 (58%), Gaps = 5/206 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++++   YDG+ +AG+Q Q    T+Q ++E+A+ ++ K  +  L + G+ RTD GVHA G
Sbjct: 3   RYKITFAYDGSNFAGFQIQPGERTVQQVLERAVNKIAKKPQPPLMVFGSGRTDAGVHALG 62

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVAHF  P+   G  S+  ALN  LP D+ V+E +   P+FHARF A  K Y Y++    
Sbjct: 63  QVAHFDLPYQIPG-PSLVRALNSSLPLDVLVKEATEVAPDFHARFDAHHKRYRYRVVGGE 121

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF+ +Y  H  Y ++   M+ AA+ FVG+HDF++FV      +A + V+ I    V+
Sbjct: 122 FTNPFKRNYTGHYKYPVDVERMQTAAQDFVGEHDFTSFV--ASGSQATSNVRRIDEVTVV 179

Query: 206 --EMGALLQLEVEGSGFLYRQVRNMV 229
             E    +  +  G+GFLY QVR MV
Sbjct: 180 RDEENDEVVFDFVGNGFLYNQVRIMV 205


>gi|428171080|gb|EKX40000.1| hypothetical protein GUITHDRAFT_113994 [Guillardia theta CCMP2712]
          Length = 268

 Score =  146 bits (369), Expect = 6e-33,   Method: Compositional matrix adjust.
 Identities = 84/231 (36%), Positives = 129/231 (55%), Gaps = 15/231 (6%)

Query: 11  NNTVKPPTDDSFPGFKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLR 70
           NN       D    F++R  + YDGT Y G+Q Q   P+IQ ++E  L R  KL+R   R
Sbjct: 18  NNATASDDSDLDKTFRYRCNVMYDGTNYNGFQLQHYQPSIQGLLETVLSR--KLQRR-TR 74

Query: 71  LVGASRTDTGVHAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAA-----VP- 124
           +VGA RTD+GVH+ GQV HF +  +   L+     +N +LP D+++  +        VP 
Sbjct: 75  VVGAGRTDSGVHSRGQVVHFDSSENITDLQKFQHGMNLMLPLDVKICGLEHVQDLDFVPH 134

Query: 125 -----EFHARFSAKSKIYHYKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHD 179
                ++HA +SA+ K+Y Y+I+   V DP   H  +H    ++  L+RE A  F G HD
Sbjct: 135 LNETRKWHAIYSARKKLYSYRIFIGKVQDPITRHSRHHEYRNVDLDLLREVAAMFEGTHD 194

Query: 180 FSAFVNIQRNDRALNPVKSIFRFDVI-EMGALLQLEVEGSGFLYRQVRNMV 229
           FSAF N + ++  ++ V++I+R  V+ E    ++L+ E  G LY+ VRN+V
Sbjct: 195 FSAFSNTRGDNSTMDTVRTIYRVGVVFEGEGNVRLDFELDGALYKMVRNIV 245


>gi|15836112|ref|NP_300636.1| tRNA pseudouridine synthase A [Chlamydophila pneumoniae J138]
 gi|16752458|ref|NP_444720.1| tRNA pseudouridine synthase A [Chlamydophila pneumoniae AR39]
 gi|12644497|sp|Q9Z7X4.2|TRUA_CHLPN RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|7189101|gb|AAF38045.1| tRNA pseudouridine synthase A [Chlamydophila pneumoniae AR39]
 gi|8978952|dbj|BAA98787.1| pseudouridylate synthase I [Chlamydophila pneumoniae J138]
          Length = 267

 Score =  146 bits (369), Expect = 6e-33,   Method: Compositional matrix adjust.
 Identities = 80/208 (38%), Positives = 121/208 (58%), Gaps = 11/208 (5%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           K  L+I Y GT Y+GWQ Q +  +IQ ++E +L ++TK       L+ + RTD GVHA+G
Sbjct: 3   KVALLIAYQGTAYSGWQQQPNDLSIQEVIESSLKKITKTRTP---LIASGRTDAGVHAYG 59

Query: 86  QVAHFITP----FSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKI 141
           QVAHF  P    F+   L     ALN +LP DI +R+++     FHAR+   +K Y Y +
Sbjct: 60  QVAHFRAPDHPLFANANLTK--KALNAILPKDIVIRDVALFDDNFHARYLTIAKEYRYSL 117

Query: 142 YNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFR 201
              A   P+Q H+ Y   +  +T LM+E A   +G HDF++F N  R+  +   V++I+ 
Sbjct: 118 SRLAKPLPWQRHFCYTPRHPFSTELMQEGANLLIGTHDFASFANHGRDYNST--VRTIYT 175

Query: 202 FDVIEMGALLQLEVEGSGFLYRQVRNMV 229
            D+++ G  L +   G+GFLY+ VRN+V
Sbjct: 176 LDIVDKGDSLSIICRGNGFLYKMVRNLV 203


>gi|410668857|ref|YP_006921228.1| tRNA pseudouridine synthase A [Thermacetogenium phaeum DSM 12270]
 gi|409106604|gb|AFV12729.1| tRNA pseudouridine synthase A [Thermacetogenium phaeum DSM 12270]
          Length = 262

 Score =  146 bits (369), Expect = 6e-33,   Method: Compositional matrix adjust.
 Identities = 89/205 (43%), Positives = 113/205 (55%), Gaps = 8/205 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPP--TIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           RL + YDGT +AG+Q QT     T+Q ++E+AL R+T    E +++VGA RTD GVHA G
Sbjct: 5   RLCLEYDGTNFAGFQKQTGTGLRTVQGVLEEALARLTG---EGIKIVGAGRTDKGVHALG 61

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF T  S   +E   AALNGLLPPD+ V   + A   FHAR+ A  K Y Y I N  
Sbjct: 62  QVVHFDTCSSIP-VERFPAALNGLLPPDLVVLSAALADTSFHARYGAVGKRYSYLILNSR 120

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
                     Y   Y L+ T MR A ++F G+HDF  F        A + V+ IF FD+ 
Sbjct: 121 RPTALWRSRCYQYPYSLDLTAMRLAVQFFHGEHDFQGFSAT--GSSAQSTVRRIFSFDID 178

Query: 206 EMGALLQLEVEGSGFLYRQVRNMVN 230
           E G  +   V   GFLY+ VR MV 
Sbjct: 179 EQGDWICFSVTADGFLYKMVRLMVG 203


>gi|229083731|ref|ZP_04216052.1| tRNA pseudouridine synthase A 2 [Bacillus cereus Rock3-44]
 gi|228699589|gb|EEL52253.1| tRNA pseudouridine synthase A 2 [Bacillus cereus Rock3-44]
          Length = 268

 Score =  146 bits (369), Expect = 6e-33,   Method: Compositional matrix adjust.
 Identities = 75/204 (36%), Positives = 117/204 (57%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++  I YDG RY GWQ    +  TIQ  +E  L   +++  +++ ++G SRTD GVHA  
Sbjct: 27  YKFTIQYDGARYKGWQRLGNNDNTIQGKIESVL---SEMVGQEIEIIGCSRTDAGVHALN 83

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F           +   LN  LP DI + ++      FHAR+++K+K Y YKI+N+ 
Sbjct: 84  QVANFKIEEKLSE-PKVKKYLNQYLPNDISITDVEQVPERFHARYNSKAKTYLYKIWNEE 142

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   KLN   M++AA+Y +G HDF+AF N +   +++  V+ ++  DV 
Sbjct: 143 HTNPFMRKYSMHVQKKLNIESMQKAAQYLIGSHDFTAFSNAKSKKKSM--VREVYMLDVA 200

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 201 ESEGFIQIRVSGNGFLHNMVRKIV 224


>gi|229159574|ref|ZP_04287588.1| tRNA pseudouridine synthase A 2 [Bacillus cereus R309803]
 gi|228623876|gb|EEK80688.1| tRNA pseudouridine synthase A 2 [Bacillus cereus R309803]
          Length = 250

 Score =  146 bits (369), Expect = 7e-33,   Method: Compositional matrix adjust.
 Identities = 73/206 (35%), Positives = 120/206 (58%), Gaps = 7/206 (3%)

Query: 25  FKWRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHA 83
           + ++L I YDG R+ GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA
Sbjct: 7   YNYKLTIQYDGARFKGWQRLGNNDNTIQGKIESV---ISEMVGKEIEIIGCSRTDAGVHA 63

Query: 84  WGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYN 143
             Q+A+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N
Sbjct: 64  LNQIANFQSDEKLVE-HKVKKYLNQYLPNDISITNVEEVHERFHARYNSKAKTYLYKIWN 122

Query: 144 DAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFD 203
           +   +PF   Y+ H   KLN   M++AA++ VG HDF+AF N +   +++  V+ ++  D
Sbjct: 123 EEHTNPFMRKYSMHVNKKLNVESMKQAAKHLVGSHDFTAFSNAKSKKKSM--VREVYTLD 180

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
           V+E    +Q+ V G+GFL+  VR +V
Sbjct: 181 VMEEAGFVQIRVSGNGFLHNMVRKIV 206


>gi|229015811|ref|ZP_04172787.1| tRNA pseudouridine synthase A 2 [Bacillus cereus AH1273]
 gi|229022018|ref|ZP_04178574.1| tRNA pseudouridine synthase A 2 [Bacillus cereus AH1272]
 gi|228739274|gb|EEL89714.1| tRNA pseudouridine synthase A 2 [Bacillus cereus AH1272]
 gi|228745470|gb|EEL95496.1| tRNA pseudouridine synthase A 2 [Bacillus cereus AH1273]
          Length = 250

 Score =  146 bits (368), Expect = 7e-33,   Method: Compositional matrix adjust.
 Identities = 74/204 (36%), Positives = 119/204 (58%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG R+ GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA  
Sbjct: 9   YKLTIQYDGARFKGWQRLGNNDNTIQGKIESV---ISEMVGKEIEIIGCSRTDAGVHALN 65

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 66  QVANFQSDEKLVE-HKVKKYLNQYLPNDISITNVEEVQDRFHARYNSKAKTYLYKIWNEE 124

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   KLN   M+EAA++ VG HDF+AF N +   +++  V+ ++  +V+
Sbjct: 125 HTNPFMRKYSMHVNKKLNVKSMKEAAKHLVGSHDFTAFSNAKSKKKSM--VREVYTLEVM 182

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 183 EEAGFVQIRVSGNGFLHNMVRKIV 206


>gi|421733080|ref|ZP_16172195.1| tRNA pseudouridine synthase A [Bacillus amyloliquefaciens subsp.
           plantarum M27]
 gi|407073121|gb|EKE46119.1| tRNA pseudouridine synthase A [Bacillus amyloliquefaciens subsp.
           plantarum M27]
          Length = 247

 Score =  146 bits (368), Expect = 7e-33,   Method: Compositional matrix adjust.
 Identities = 85/200 (42%), Positives = 114/200 (57%), Gaps = 6/200 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  I YDG  + G+Q Q    T+Q  +EKAL  + K +   + ++ + RTD+ VHA GQV
Sbjct: 4   KCTIAYDGHLFNGYQVQPGKRTVQSELEKALAVIHKTDGR-VPVISSGRTDSDVHAAGQV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S    E    ALN LLP DI V+    A   FHARFSA  K Y Y +Y +   
Sbjct: 63  IHFDTPLSIPA-EKWPFALNALLPDDIAVKTAEIADDGFHARFSAVQKEYRYFVYTEKHP 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRAL-NPVKSIFRFDVIE 206
           D F+ HYAYH  Y+LN   MREA+ +  G HDF++F      D A+ + V++I+  D  E
Sbjct: 122 DVFKRHYAYHFAYQLNVQKMREASRHLTGTHDFTSFCAA---DTAVQDKVRTIYELDWTE 178

Query: 207 MGALLQLEVEGSGFLYRQVR 226
            G  LQ+ + G+GFLY  VR
Sbjct: 179 TGDGLQMRITGNGFLYNMVR 198


>gi|227515518|ref|ZP_03945567.1| tRNA-pseudouridine synthase I [Lactobacillus fermentum ATCC 14931]
 gi|227086131|gb|EEI21443.1| tRNA-pseudouridine synthase I [Lactobacillus fermentum ATCC 14931]
          Length = 258

 Score =  146 bits (368), Expect = 7e-33,   Method: Compositional matrix adjust.
 Identities = 79/206 (38%), Positives = 121/206 (58%), Gaps = 5/206 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++++   YDG+ +AG+Q Q    T+Q ++E+A+ ++ K  +  L + G+ RTD GVHA G
Sbjct: 3   RYKITFAYDGSNFAGFQVQPGERTVQQVLERAVNKIAKKPQPPLMVFGSGRTDAGVHALG 62

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVAHF  P+   G  S+  ALN  LP D+ V+E +   P+FHARF A  K Y Y++    
Sbjct: 63  QVAHFDLPYQIPG-PSLVRALNSSLPLDVLVKEATEVAPDFHARFDAHHKRYRYRVVGGE 121

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF+ +Y  H  Y ++   M+ AA+ FVG+HDF++FV      +A + V+ I    V+
Sbjct: 122 FTNPFKRNYTGHYKYPVDVERMQTAAQDFVGEHDFTSFV--ASGSQATSNVRRIDEVTVV 179

Query: 206 --EMGALLQLEVEGSGFLYRQVRNMV 229
             E    +  +  G+GFLY QVR MV
Sbjct: 180 RDEENDEVVFDFVGNGFLYNQVRIMV 205


>gi|365163525|ref|ZP_09359633.1| tRNA pseudouridine synthase A 2 [Bacillus sp. 7_6_55CFAA_CT2]
 gi|363615391|gb|EHL66855.1| tRNA pseudouridine synthase A 2 [Bacillus sp. 7_6_55CFAA_CT2]
          Length = 245

 Score =  146 bits (368), Expect = 7e-33,   Method: Compositional matrix adjust.
 Identities = 75/204 (36%), Positives = 119/204 (58%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG R+ GWQ    +  TIQ  +E     ++++  +++ ++G SRTDTGVHA  
Sbjct: 4   YKLTIQYDGARFKGWQRLGNNDNTIQGKIESV---ISEMVGKEIEIIGCSRTDTGVHALN 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 61  QVANFQSDEKLVE-HKVKKYLNQYLPNDISITNVEEVHDRFHARYNSKAKTYLYKIWNEE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   KLN   M+ AA++ VG HDF+AF N +   +++  V+ ++  DV+
Sbjct: 120 HTNPFMRKYSMHVNKKLNVKSMKAAAKHLVGSHDFTAFSNAKSKKKSM--VREVYTLDVM 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 178 EEAGFVQIRVSGNGFLHNMVRKIV 201


>gi|297545296|ref|YP_003677598.1| tRNA pseudouridine synthase A [Thermoanaerobacter mathranii subsp.
           mathranii str. A3]
 gi|296843071|gb|ADH61587.1| tRNA pseudouridine synthase A [Thermoanaerobacter mathranii subsp.
           mathranii str. A3]
          Length = 240

 Score =  146 bits (368), Expect = 7e-33,   Method: Compositional matrix adjust.
 Identities = 80/201 (39%), Positives = 116/201 (57%), Gaps = 6/201 (2%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           +V+ YDGT Y GWQ+Q +  T+Q +++KA+ +VT    E++ L+GASRTDTGVHA  QVA
Sbjct: 2   IVVQYDGTNYHGWQYQKNAITVQEVLQKAIKKVTG---EEVNLIGASRTDTGVHALYQVA 58

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +F T       E +  ALN +LP DI + +       FHAR+SAK K Y Y I N     
Sbjct: 59  NFKTNTKIPA-EKLPYALNSVLPDDIVITQAKDVEDSFHARYSAKRKRYKYLILNRKFRM 117

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
           P   +Y +H  Y LN   M++AA Y +G HDFSAF          + +++++   + +  
Sbjct: 118 PTMRNYCWHISYPLNVEKMKKAATYLIGTHDFSAFK--ASGSSKTSTIRTVYDLIIEKNE 175

Query: 209 ALLQLEVEGSGFLYRQVRNMV 229
             + +E+E  GFLY  VR +V
Sbjct: 176 DFINIEIEADGFLYNMVRIIV 196


>gi|423613864|ref|ZP_17589723.1| tRNA pseudouridine synthase A 2 [Bacillus cereus VD107]
 gi|401240464|gb|EJR46865.1| tRNA pseudouridine synthase A 2 [Bacillus cereus VD107]
          Length = 245

 Score =  146 bits (368), Expect = 7e-33,   Method: Compositional matrix adjust.
 Identities = 75/204 (36%), Positives = 118/204 (57%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG RY GWQ    +  TIQ  +E     ++++  +++ +VG SRTD GVHA  
Sbjct: 4   YKLTIQYDGARYKGWQRLGNNDNTIQGKIESV---ISEMVGKEIEIVGCSRTDAGVHALN 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 61  QVANFKSDEKLVE-HKVKKYLNQYLPNDISITNVEEVSDRFHARYNSKAKTYLYKIWNEE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   KLN   M+EAA++ VG HDF+AF N +   +++  V+ ++  +V 
Sbjct: 120 HTNPFMRKYSMHVNKKLNVKSMKEAAKHLVGSHDFTAFSNAKSKKKSM--VREVYTLEVS 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ + G+GFL+  VR +V
Sbjct: 178 EEAGFVQIRISGNGFLHNMVRKIV 201


>gi|423461506|ref|ZP_17438303.1| tRNA pseudouridine synthase A 2 [Bacillus cereus BAG5X2-1]
 gi|401136644|gb|EJQ44231.1| tRNA pseudouridine synthase A 2 [Bacillus cereus BAG5X2-1]
          Length = 245

 Score =  146 bits (368), Expect = 8e-33,   Method: Compositional matrix adjust.
 Identities = 74/204 (36%), Positives = 119/204 (58%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG R+ GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA  
Sbjct: 4   YKLTIQYDGARFKGWQRLGNNDNTIQGKIESV---ISEMIGKEIEIIGCSRTDAGVHALN 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 61  QVANFQSDEKLVE-HKVKKYLNQYLPNDISITNVEEVQERFHARYNSKAKTYLYKIWNEE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   KLN   M+EAA++ VG HDF+AF N +   +++  V+ ++  +V+
Sbjct: 120 HTNPFMRKYSMHVNKKLNVKSMKEAAKHLVGSHDFTAFSNAKSKKKSM--VREVYTLEVM 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 178 EAAGFVQIRVSGNGFLHNMVRKIV 201


>gi|228906232|ref|ZP_04070119.1| tRNA pseudouridine synthase A 2 [Bacillus thuringiensis IBL 200]
 gi|228853388|gb|EEM98158.1| tRNA pseudouridine synthase A 2 [Bacillus thuringiensis IBL 200]
          Length = 250

 Score =  146 bits (368), Expect = 8e-33,   Method: Compositional matrix adjust.
 Identities = 74/204 (36%), Positives = 119/204 (58%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG R+ GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA  
Sbjct: 9   YKLTIQYDGARFKGWQRLGNNDNTIQGKIESV---ISEMVGKEIEIIGCSRTDAGVHALN 65

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 66  QVANFQSDEKLVE-HKVKKYLNQYLPNDISITSVEEVQDRFHARYNSKAKTYLYKIWNEE 124

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   KLN   M+EAA++ VG HDF+AF N +   +++  V+ ++  +V+
Sbjct: 125 HTNPFMRKYSMHVNKKLNVKSMKEAAKHLVGSHDFTAFSNAKSKKKSM--VREVYTLEVM 182

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 183 EEAGFVQIRVSGNGFLHNMVRKIV 206


>gi|423393125|ref|ZP_17370351.1| tRNA pseudouridine synthase A 2 [Bacillus cereus BAG1X1-3]
 gi|401632158|gb|EJS49947.1| tRNA pseudouridine synthase A 2 [Bacillus cereus BAG1X1-3]
          Length = 245

 Score =  146 bits (368), Expect = 9e-33,   Method: Compositional matrix adjust.
 Identities = 74/204 (36%), Positives = 119/204 (58%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG R+ GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA  
Sbjct: 4   YKLTIQYDGARFKGWQRLGNNDNTIQGKIESV---ISEMVGKEIEIIGCSRTDAGVHALN 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 61  QVANFQSDEKLVE-HKVKKYLNQYLPNDISITNVEEVQDRFHARYNSKAKTYLYKIWNEE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   KLN   M+EAA++ VG HDF+AF N +   +++  V+ ++  +V+
Sbjct: 120 HTNPFMRKYSMHVNKKLNVKSMKEAAKHLVGSHDFTAFSNAKSKKKSM--VREVYTLEVM 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 178 EEAGFVQIRVSGNGFLHNMVRKIV 201


>gi|384178444|ref|YP_005564206.1| tRNA pseudouridine synthase A [Bacillus thuringiensis serovar
           finitimus YBT-020]
 gi|324324528|gb|ADY19788.1| tRNA pseudouridine synthase A [Bacillus thuringiensis serovar
           finitimus YBT-020]
          Length = 245

 Score =  145 bits (367), Expect = 9e-33,   Method: Compositional matrix adjust.
 Identities = 74/204 (36%), Positives = 119/204 (58%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG R+ GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA  
Sbjct: 4   YKLTIQYDGARFKGWQRLGNNDNTIQGKIESV---ISEMVGKEIEIIGCSRTDAGVHALN 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 61  QVANFQSDEKLVE-HKVKKYLNQYLPNDISITNVEEVQDRFHARYNSKAKTYLYKIWNEE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   KLN   M+EAA++ VG HDF+AF N +   +++  V+ ++  +V+
Sbjct: 120 HTNPFMRKYSMHVNKKLNVKSMKEAAKHLVGSHDFTAFSNAKSKKKSM--VREVYTLEVM 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 178 EEAGFVQIRVSGNGFLHNMVRKIV 201


>gi|407457717|ref|YP_006736022.1| tRNA pseudouridine synthase A [Chlamydia psittaci WS/RT/E30]
 gi|405785231|gb|AFS23977.1| tRNA pseudouridine synthase A [Chlamydia psittaci WS/RT/E30]
          Length = 268

 Score =  145 bits (367), Expect = 9e-33,   Method: Compositional matrix adjust.
 Identities = 75/203 (36%), Positives = 123/203 (60%), Gaps = 7/203 (3%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L++ Y GT YAGWQ Q +  ++Q ++E +L   TK+  + + +  + RTD GVHA+GQVA
Sbjct: 6   LLLAYQGTAYAGWQRQPNDLSVQEVIENSL---TKVVGKRIHVTSSGRTDAGVHAFGQVA 62

Query: 89  HFITPF--SYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           HF  P    +     I   LN LLP DI +R++      FH+RFSA +K Y Y +     
Sbjct: 63  HFPQPDHPRFSQASGIKKMLNALLPKDIVIRDVVLGDDTFHSRFSAIAKEYRYLLKRSPK 122

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
             P++ +++Y+  + L T LM+E A+Y +G HDF++F N  R+    + ++++F  D+++
Sbjct: 123 PLPWERYFSYYPRHHLRTDLMQEGAKYLIGTHDFASFANHGRD--YTSTIRTLFNLDIVD 180

Query: 207 MGALLQLEVEGSGFLYRQVRNMV 229
            G  + +  +G+GFLY+ VRN+V
Sbjct: 181 NGETVTIICKGNGFLYKMVRNIV 203


>gi|394994819|ref|ZP_10387526.1| tRNA pseudouridine synthase A [Bacillus sp. 916]
 gi|393804386|gb|EJD65798.1| tRNA pseudouridine synthase A [Bacillus sp. 916]
          Length = 247

 Score =  145 bits (367), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 86/200 (43%), Positives = 114/200 (57%), Gaps = 6/200 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  I YDG  + G+Q Q    T+Q  +EKAL  + K +   + +  + RTD+ VHA GQV
Sbjct: 4   KCTIAYDGHLFNGYQVQPGKRTVQSELEKALAVIHKTDGR-VPVYSSGRTDSDVHAAGQV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S    E    ALN LLP DI V+    A   FHARFSA  K Y Y +Y +   
Sbjct: 63  IHFDTPLSIPA-EKWPFALNALLPDDIAVKTAEIADDGFHARFSAVQKEYRYFVYTEKHP 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRAL-NPVKSIFRFDVIE 206
           D F+ HYAYH  Y+LN   MREA+ + VG HDF++F      D A+ + V++I+  D  E
Sbjct: 122 DVFKRHYAYHFAYQLNVQKMREASRHLVGTHDFTSFCAA---DTAVQDKVRTIYELDWTE 178

Query: 207 MGALLQLEVEGSGFLYRQVR 226
            G  LQ+ + G+GFLY  VR
Sbjct: 179 TGDGLQMRITGNGFLYNMVR 198


>gi|260584448|ref|ZP_05852195.1| tRNA pseudouridine synthase A [Granulicatella elegans ATCC 700633]
 gi|260157966|gb|EEW93035.1| tRNA pseudouridine synthase A [Granulicatella elegans ATCC 700633]
          Length = 250

 Score =  145 bits (367), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 77/209 (36%), Positives = 123/209 (58%), Gaps = 5/209 (2%)

Query: 24  GFKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHA 83
           GF++++++ YDGT Y G+Q Q +  +IQ  + KAL ++TK     + + G+ RTD+GVHA
Sbjct: 2   GFRYKVILSYDGTNYVGFQVQENGNSIQAELNKALRKMTKGLY--IPVCGSGRTDSGVHA 59

Query: 84  WGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYN 143
            GQV HF  P   +  E++  ALN LLP DI  +++ A   EFHAR+S   K Y Y++  
Sbjct: 60  NGQVIHFDYPTKIEE-ENLQRALNSLLPDDISAKQVMAVSDEFHARYSVTGKRYIYRVNI 118

Query: 144 DAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFD 203
              ++PF   Y  H  Y++N   M EA +  +G+HDF++F + + +  +   V+ + + +
Sbjct: 119 QKFVNPFSRLYTLHHPYRVNVDNMNEALQAVIGEHDFTSFCSTKTDKES--KVRIVTKAE 176

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMVNHS 232
           V+E    L    EG+GFLY  +R +V  S
Sbjct: 177 VVEKDGELVFTFEGNGFLYNMIRILVGTS 205


>gi|329942480|ref|ZP_08291290.1| tRNA pseudouridine synthase A [Chlamydophila psittaci Cal10]
 gi|332287117|ref|YP_004422018.1| tRNA pseudouridine synthase A [Chlamydophila psittaci 6BC]
 gi|384450263|ref|YP_005662863.1| tRNA pseudouridine synthase A [Chlamydophila psittaci 6BC]
 gi|384451268|ref|YP_005663866.1| tRNA pseudouridine synthase A [Chlamydophila psittaci 01DC11]
 gi|384452244|ref|YP_005664841.1| tRNA pseudouridine synthase A [Chlamydophila psittaci 08DC60]
 gi|384453218|ref|YP_005665814.1| tRNA pseudouridine synthase A [Chlamydophila psittaci C19/98]
 gi|384454196|ref|YP_005666791.1| tRNA pseudouridine synthase A [Chlamydophila psittaci 02DC15]
 gi|392376370|ref|YP_004064148.1| putative tRNA pseudouridine synthase a [Chlamydophila psittaci RD1]
 gi|406591982|ref|YP_006739162.1| tRNA pseudouridine synthase A [Chlamydia psittaci CP3]
 gi|406594329|ref|YP_006741314.1| tRNA pseudouridine synthase A [Chlamydia psittaci MN]
 gi|407453652|ref|YP_006732760.1| tRNA pseudouridine synthase A [Chlamydia psittaci 84/55]
 gi|407454984|ref|YP_006733875.1| tRNA pseudouridine synthase A [Chlamydia psittaci GR9]
 gi|407456353|ref|YP_006734926.1| tRNA pseudouridine synthase A [Chlamydia psittaci VS225]
 gi|407460334|ref|YP_006738109.1| tRNA pseudouridine synthase A [Chlamydia psittaci WC]
 gi|410858147|ref|YP_006974087.1| putative tRNA pseudouridine synthase a [Chlamydia psittaci 01DC12]
 gi|449070810|ref|YP_007437890.1| tRNA pseudouridine synthase A [Chlamydophila psittaci Mat116]
 gi|313847713|emb|CBY16703.1| putative tRNA pseudouridine synthase a [Chlamydophila psittaci RD1]
 gi|325507334|gb|ADZ18972.1| tRNA pseudouridine synthase A [Chlamydophila psittaci 6BC]
 gi|328815390|gb|EGF85378.1| tRNA pseudouridine synthase A [Chlamydophila psittaci Cal10]
 gi|328914357|gb|AEB55190.1| tRNA pseudouridine synthase A [Chlamydophila psittaci 6BC]
 gi|334691999|gb|AEG85218.1| tRNA pseudouridine synthase A [Chlamydophila psittaci C19/98]
 gi|334692978|gb|AEG86196.1| tRNA pseudouridine synthase A [Chlamydophila psittaci 01DC11]
 gi|334693953|gb|AEG87170.1| tRNA pseudouridine synthase A [Chlamydophila psittaci 02DC15]
 gi|334694933|gb|AEG88149.1| tRNA pseudouridine synthase A [Chlamydophila psittaci 08DC60]
 gi|405780411|gb|AFS19161.1| tRNA pseudouridine synthase A [Chlamydia psittaci 84/55]
 gi|405781527|gb|AFS20276.1| tRNA pseudouridine synthase A [Chlamydia psittaci GR9]
 gi|405782761|gb|AFS21509.1| tRNA pseudouridine synthase A [Chlamydia psittaci MN]
 gi|405783614|gb|AFS22361.1| tRNA pseudouridine synthase A [Chlamydia psittaci VS225]
 gi|405786876|gb|AFS25620.1| tRNA pseudouridine synthase A [Chlamydia psittaci WC]
 gi|405787854|gb|AFS26597.1| tRNA pseudouridine synthase A [Chlamydia psittaci CP3]
 gi|410811042|emb|CCO01685.1| putative tRNA pseudouridine synthase a [Chlamydia psittaci 01DC12]
 gi|449039318|gb|AGE74742.1| tRNA pseudouridine synthase A [Chlamydophila psittaci Mat116]
          Length = 268

 Score =  145 bits (367), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 75/203 (36%), Positives = 123/203 (60%), Gaps = 7/203 (3%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L++ Y GT YAGWQ Q +  ++Q ++E +L   TK+  + + +  + RTD GVHA+GQVA
Sbjct: 6   LLLAYQGTAYAGWQRQPNDLSVQEVIENSL---TKVVGKRIHVTSSGRTDAGVHAFGQVA 62

Query: 89  HFITPF--SYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           HF  P    +     I   LN LLP DI +R++      FH+RFSA +K Y Y +     
Sbjct: 63  HFPQPDHPRFSQASGIKKMLNALLPKDIVIRDVVLGDDTFHSRFSAIAKEYRYLLTRSPK 122

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
             P++ +++Y+  + L T LM+E A+Y +G HDF++F N  R+    + ++++F  D+++
Sbjct: 123 PLPWERYFSYYPRHHLRTDLMQEGAKYLIGTHDFASFANHGRD--YTSTIRTLFNLDIVD 180

Query: 207 MGALLQLEVEGSGFLYRQVRNMV 229
            G  + +  +G+GFLY+ VRN+V
Sbjct: 181 NGETVTIICKGNGFLYKMVRNIV 203


>gi|229165426|ref|ZP_04293210.1| tRNA pseudouridine synthase A 2 [Bacillus cereus AH621]
 gi|228618024|gb|EEK75065.1| tRNA pseudouridine synthase A 2 [Bacillus cereus AH621]
          Length = 268

 Score =  145 bits (367), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 75/204 (36%), Positives = 118/204 (57%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG RY GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA  
Sbjct: 27  YKLTIQYDGARYKGWQRLGNNDNTIQGKIESV---ISEMVGKEIEIIGCSRTDAGVHALN 83

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 84  QVANFQSDEKLVE-HKVKKYLNQYLPNDISITSVEEVPDRFHARYNSKAKTYLYKIWNEE 142

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   +LN   M+EAA++ VG HDF+AF N +   +++  V+ ++  DV 
Sbjct: 143 HTNPFMRKYSMHVNKQLNVKSMKEAAKHLVGSHDFTAFSNAKSKKKSM--VREVYTLDVS 200

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 201 EESGFVQIRVSGNGFLHNMVRKIV 224


>gi|423404869|ref|ZP_17382042.1| tRNA pseudouridine synthase A 2 [Bacillus cereus BAG2X1-2]
 gi|423479706|ref|ZP_17456420.1| tRNA pseudouridine synthase A 2 [Bacillus cereus BAG6X1-1]
 gi|401646175|gb|EJS63807.1| tRNA pseudouridine synthase A 2 [Bacillus cereus BAG2X1-2]
 gi|402424932|gb|EJV57094.1| tRNA pseudouridine synthase A 2 [Bacillus cereus BAG6X1-1]
          Length = 245

 Score =  145 bits (367), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 74/204 (36%), Positives = 119/204 (58%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG R+ GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA  
Sbjct: 4   YKLTIQYDGARFKGWQRLGNNDNTIQGKIESV---ISEMIGKEIEIIGCSRTDAGVHALN 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 61  QVANFQSDEKLVE-HKVKKYLNQYLPNDISITSVEEVQDRFHARYNSKAKTYLYKIWNEE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   KLN   M+EAA++ VG HDF+AF N +   +++  V+ ++  +V+
Sbjct: 120 HTNPFMRKYSMHVNKKLNVKSMKEAAKHLVGSHDFTAFSNAKSKKKSM--VREVYTLEVM 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 178 EEAGFVQIRVSGNGFLHNMVRKIV 201


>gi|308172039|ref|YP_003918744.1| pseudouridylate synthase I [Bacillus amyloliquefaciens DSM 7]
 gi|384157761|ref|YP_005539834.1| tRNA pseudouridine synthase A [Bacillus amyloliquefaciens TA208]
 gi|384162549|ref|YP_005543928.1| pseudouridylate synthase I [Bacillus amyloliquefaciens LL3]
 gi|384166770|ref|YP_005548148.1| tRNA pseudouridine synthase A [Bacillus amyloliquefaciens XH7]
 gi|307604903|emb|CBI41274.1| pseudouridylate synthase I [Bacillus amyloliquefaciens DSM 7]
 gi|328551849|gb|AEB22341.1| tRNA pseudouridine synthase A [Bacillus amyloliquefaciens TA208]
 gi|328910104|gb|AEB61700.1| pseudouridylate synthase I [Bacillus amyloliquefaciens LL3]
 gi|341826049|gb|AEK87300.1| tRNA pseudouridine synthase A [Bacillus amyloliquefaciens XH7]
          Length = 247

 Score =  145 bits (367), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 84/203 (41%), Positives = 116/203 (57%), Gaps = 6/203 (2%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
            + +  I YDG  + G+Q Q    T+Q  +EKAL  + K +   + +  + RTD+ VHA 
Sbjct: 1   MRMKCTIAYDGHLFNGYQVQPGKRTVQSELEKALAVIHKTDGR-VPVYSSGRTDSDVHAA 59

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           GQV HF TP S    E    ALN LLP DI V+    A   FHARFSA  K Y Y +Y +
Sbjct: 60  GQVIHFDTPLSIPA-EKWPFALNALLPDDIAVKTAEIADDGFHARFSAVQKEYRYFVYTE 118

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRAL-NPVKSIFRFD 203
              D F+ HYAYH  Y+LN   MREA+ + +G HDF++F  +   D A+ + V++I+  +
Sbjct: 119 KHPDVFKRHYAYHFAYQLNVQKMREASRHLIGTHDFTSFCAV---DTAVQDKVRTIYELE 175

Query: 204 VIEMGALLQLEVEGSGFLYRQVR 226
             E G  LQ+ + G+GFLY  VR
Sbjct: 176 WTETGDGLQMRITGNGFLYNMVR 198


>gi|229171272|ref|ZP_04298862.1| tRNA pseudouridine synthase A 2 [Bacillus cereus MM3]
 gi|228612229|gb|EEK69461.1| tRNA pseudouridine synthase A 2 [Bacillus cereus MM3]
          Length = 250

 Score =  145 bits (367), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 74/204 (36%), Positives = 119/204 (58%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG R+ GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA  
Sbjct: 9   YKLTIQYDGARFKGWQRLGNNDNTIQGKIESV---ISEMIGKEIEIIGCSRTDAGVHALN 65

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 66  QVANFQSDEKLVE-HKVKKYLNQHLPNDISITNVEEVQDRFHARYNSKAKTYLYKIWNEE 124

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   KLN   M+EAA++ VG HDF+AF N +   +++  V+ ++  +V+
Sbjct: 125 HTNPFMRKYSMHVNKKLNVKSMKEAAKHLVGSHDFTAFSNAKSKKKSM--VREVYSLEVM 182

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 183 EEAGFVQIRVSGNGFLHNMVRKIV 206


>gi|407978647|ref|ZP_11159476.1| tRNA pseudouridine synthase A [Bacillus sp. HYC-10]
 gi|407414843|gb|EKF36469.1| tRNA pseudouridine synthase A [Bacillus sp. HYC-10]
          Length = 247

 Score =  145 bits (366), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 83/204 (40%), Positives = 113/204 (55%), Gaps = 4/204 (1%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
            K +  + YDGT + G+Q Q    T+Q  +E AL ++ K + E + +V + RTD+GVHA 
Sbjct: 1   MKVKCTVSYDGTHFKGYQVQPGQRTVQTEIESALAKMHK-QDELIPIVASGRTDSGVHAK 59

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           GQV HF TP +   +E    ALN LLP DIRV +       FHARF   SK Y YK+  +
Sbjct: 60  GQVIHFDTPLAIP-MERWPFALNSLLPDDIRVLKAEEVDESFHARFGVASKEYRYKVSTE 118

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
              + F   YA H  Y L+   MREAAEY +G HDF++F     N    + V+ I+  + 
Sbjct: 119 THQNVFTRQYACHYPYPLDVDKMREAAEYLIGSHDFTSFCAA--NTEVQDKVRVIYALEW 176

Query: 205 IEMGALLQLEVEGSGFLYRQVRNM 228
             +   L++ V GSGFLY  VR M
Sbjct: 177 KNVSDGLEMRVRGSGFLYNMVRIM 200


>gi|228919351|ref|ZP_04082720.1| tRNA pseudouridine synthase A 2 [Bacillus thuringiensis serovar
           huazhongensis BGSC 4BD1]
 gi|228840287|gb|EEM85559.1| tRNA pseudouridine synthase A 2 [Bacillus thuringiensis serovar
           huazhongensis BGSC 4BD1]
          Length = 250

 Score =  145 bits (366), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 119/206 (57%), Gaps = 7/206 (3%)

Query: 25  FKWRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHA 83
           + ++L I YDG R+ GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA
Sbjct: 7   YNYKLTIQYDGARFKGWQRLGNNDNTIQGKIESV---ISEMVGKEIEIIGCSRTDAGVHA 63

Query: 84  WGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYN 143
             QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N
Sbjct: 64  LNQVANFQSDEKLVE-HKVKKYLNQYLPNDISITNVEEVHDRFHARYNSKAKTYLYKIWN 122

Query: 144 DAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFD 203
           +   +PF   Y+ H   KLN   M+ AA++ VG HDF+AF N +   +++  V+ ++  D
Sbjct: 123 EEHTNPFMRKYSMHVNKKLNVKSMKAAAKHLVGSHDFTAFSNAKSKKKSM--VREVYTLD 180

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
           V+E    +Q+ V G+GFL+  VR +V
Sbjct: 181 VMEEAGFVQIRVSGNGFLHNMVRKIV 206


>gi|118476179|ref|YP_893330.1| tRNA pseudouridine synthase A [Bacillus thuringiensis str. Al
           Hakam]
 gi|228925681|ref|ZP_04088768.1| tRNA pseudouridine synthase A 2 [Bacillus thuringiensis serovar
           pondicheriensis BGSC 4BA1]
 gi|228931917|ref|ZP_04094811.1| tRNA pseudouridine synthase A 2 [Bacillus thuringiensis serovar
           andalousiensis BGSC 4AW1]
 gi|228944241|ref|ZP_04106617.1| tRNA pseudouridine synthase A 2 [Bacillus thuringiensis serovar
           monterrey BGSC 4AJ1]
 gi|229089549|ref|ZP_04220816.1| tRNA pseudouridine synthase A 2 [Bacillus cereus Rock3-42]
 gi|229120089|ref|ZP_04249341.1| tRNA pseudouridine synthase A 2 [Bacillus cereus 95/8201]
 gi|118415404|gb|ABK83823.1| tRNA pseudouridine synthase A [Bacillus thuringiensis str. Al
           Hakam]
 gi|228663327|gb|EEL18915.1| tRNA pseudouridine synthase A 2 [Bacillus cereus 95/8201]
 gi|228693765|gb|EEL47461.1| tRNA pseudouridine synthase A 2 [Bacillus cereus Rock3-42]
 gi|228815392|gb|EEM61637.1| tRNA pseudouridine synthase A 2 [Bacillus thuringiensis serovar
           monterrey BGSC 4AJ1]
 gi|228827702|gb|EEM73442.1| tRNA pseudouridine synthase A 2 [Bacillus thuringiensis serovar
           andalousiensis BGSC 4AW1]
 gi|228833956|gb|EEM79506.1| tRNA pseudouridine synthase A 2 [Bacillus thuringiensis serovar
           pondicheriensis BGSC 4BA1]
          Length = 250

 Score =  145 bits (366), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 74/204 (36%), Positives = 119/204 (58%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG R+ GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA  
Sbjct: 9   YKLTIQYDGARFKGWQRLGNNDNTIQGKIESV---ISEMIGKEIEIIGCSRTDAGVHALN 65

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 66  QVANFQSDEKLVE-HKVKKYLNQYLPNDISITNVEEVHDRFHARYNSKAKTYLYKIWNEE 124

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   KLN   M+EAA++ VG HDF+AF N +   +++  V+ ++  +V+
Sbjct: 125 HTNPFMRKYSMHVNKKLNVKSMKEAAKHLVGSHDFTAFSNAKSKKKSM--VREVYSLEVM 182

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 183 EEAGFVQIRVSGNGFLHNMVRKIV 206


>gi|289579109|ref|YP_003477736.1| tRNA pseudouridine synthase A [Thermoanaerobacter italicus Ab9]
 gi|289528822|gb|ADD03174.1| tRNA pseudouridine synthase A [Thermoanaerobacter italicus Ab9]
          Length = 240

 Score =  145 bits (366), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 80/201 (39%), Positives = 115/201 (57%), Gaps = 6/201 (2%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           +V+ YDGT Y GWQ Q +  T+Q +++KA+ +VT    E++ L+GASRTDTGVHA  QVA
Sbjct: 2   IVVQYDGTNYHGWQLQKNAITVQEVLQKAIKKVTG---EEVNLIGASRTDTGVHALYQVA 58

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +F T       E +  ALN +LP DI + +       FHAR+SAK K Y Y I N     
Sbjct: 59  NFKTNTKMPA-EKLPYALNSVLPDDIVITQAKDVEDSFHARYSAKRKRYKYIILNRKFRM 117

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
           P   +Y +H  Y LN   M++AA Y +G HDFSAF          + +++++   + +  
Sbjct: 118 PTMRNYCWHISYPLNVEKMKKAATYLIGTHDFSAFK--ASGSSKTSTIRTVYDLIIEKNE 175

Query: 209 ALLQLEVEGSGFLYRQVRNMV 229
             + +E+E  GFLY  VR +V
Sbjct: 176 DFINIEIEADGFLYNMVRIIV 196


>gi|261417639|ref|YP_003251321.1| tRNA pseudouridine synthase A [Geobacillus sp. Y412MC61]
 gi|319765297|ref|YP_004130798.1| tRNA pseudouridine synthase A [Geobacillus sp. Y412MC52]
 gi|261374096|gb|ACX76839.1| tRNA pseudouridine synthase A [Geobacillus sp. Y412MC61]
 gi|317110163|gb|ADU92655.1| tRNA pseudouridine synthase A [Geobacillus sp. Y412MC52]
          Length = 258

 Score =  145 bits (366), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 84/203 (41%), Positives = 115/203 (56%), Gaps = 5/203 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           + +I YDGT ++G+Q Q    T+Q  +E+ L R+ K   + +R+  + RTD GVHA+GQV
Sbjct: 6   KCIIAYDGTHFSGYQIQPGKRTVQGELEEVLRRMHK--GKGVRVAASGRTDAGVHAYGQV 63

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF T  S    E    ALN  LP DI VR +  A  +FHARFSAK+K Y YK++  A  
Sbjct: 64  IHFDTSLSLSS-EQWKKALNAQLPDDIVVRFVQEADADFHARFSAKAKEYRYKVWTAAER 122

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ HY     Y L+   M EA   F G HDF++F + +      + V++I+R  V   
Sbjct: 123 DVFRRHYCAWHPYPLHMDAMNEALRLFCGTHDFTSFCSAKTTIE--DRVRTIYRAKVKVD 180

Query: 208 GALLQLEVEGSGFLYRQVRNMVN 230
           G +L+    GSGFLY  VR MV 
Sbjct: 181 GPMLEFRFVGSGFLYNMVRIMVG 203


>gi|229056264|ref|ZP_04195685.1| tRNA pseudouridine synthase A 2 [Bacillus cereus AH603]
 gi|228721069|gb|EEL72607.1| tRNA pseudouridine synthase A 2 [Bacillus cereus AH603]
          Length = 268

 Score =  145 bits (366), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 75/204 (36%), Positives = 118/204 (57%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG RY GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA  
Sbjct: 27  YKLTIQYDGARYKGWQRLGNNDNTIQGKIESI---ISEMVGKEIEIIGCSRTDAGVHALN 83

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 84  QVANFQSDEKLVE-HKVKKYLNQYLPNDISITSVEEVPDRFHARYNSKAKTYLYKIWNEE 142

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   +LN   M+EAA++ VG HDF+AF N +   +++  V+ ++  DV 
Sbjct: 143 HTNPFMRKYSMHVNKQLNVKSMKEAAKHLVGSHDFTAFSNAKSKKKSM--VREVYTLDVS 200

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 201 EESGFVQIRVSGNGFLHNMVRKIV 224


>gi|423556593|ref|ZP_17532896.1| tRNA pseudouridine synthase A 2 [Bacillus cereus MC67]
 gi|401194867|gb|EJR01835.1| tRNA pseudouridine synthase A 2 [Bacillus cereus MC67]
          Length = 245

 Score =  145 bits (366), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 77/204 (37%), Positives = 115/204 (56%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG RY GWQ    +  TIQ  +E  +  +   E E   ++G SRTD GVHA  
Sbjct: 4   YKLTIQYDGARYKGWQRLGNNDNTIQGKIESIISEMVGKETE---IIGCSRTDAGVHALN 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 61  QVANFQSDEKLVE-HKVKKYLNQYLPNDISITSVEEVPDRFHARYNSKAKTYLYKIWNEE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   +LN   M+EAA++ VG HDF+AF N +   +++  V+ ++  DV 
Sbjct: 120 HTNPFMRKYSMHVNKQLNVKSMKEAAKHLVGSHDFTAFSNAKSKKKSM--VREVYTLDVF 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 178 EESGFVQIRVSGNGFLHNMVRKIV 201


>gi|304315974|ref|YP_003851119.1| tRNA pseudouridine synthase A [Thermoanaerobacterium
           thermosaccharolyticum DSM 571]
 gi|433654133|ref|YP_007297841.1| pseudouridylate synthase I [Thermoanaerobacterium
           thermosaccharolyticum M0795]
 gi|302777476|gb|ADL68035.1| tRNA pseudouridine synthase A [Thermoanaerobacterium
           thermosaccharolyticum DSM 571]
 gi|433292322|gb|AGB18144.1| pseudouridylate synthase I [Thermoanaerobacterium
           thermosaccharolyticum M0795]
          Length = 248

 Score =  145 bits (366), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 83/201 (41%), Positives = 116/201 (57%), Gaps = 6/201 (2%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           LVI YDGT Y GWQ Q +  TIQ  + KA+ ++T    ED+ L+G+SRTD GVHA  QVA
Sbjct: 10  LVIEYDGTNYHGWQIQKNVVTIQETITKAIKKIT---NEDVDLIGSSRTDAGVHALHQVA 66

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +F T  +      I  ALN +LP DI +++   A  +FH+R+SAK K Y Y IYN     
Sbjct: 67  NFKTCTNIP-TSKIPNALNSVLPADIVIKDAFEADMDFHSRYSAKGKRYKYIIYNRRFSS 125

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
           P   +Y++H    L+   MRE+ +Y  G HDFSAF          +PV+++    + + G
Sbjct: 126 PILKNYSWHISKSLDVEKMRESLKYLEGTHDFSAFK--ASGSSVKSPVRTVRDISLKKNG 183

Query: 209 ALLQLEVEGSGFLYRQVRNMV 229
             ++ E+E  GFLY  VR +V
Sbjct: 184 FNVEFEIEADGFLYNMVRIIV 204


>gi|423638472|ref|ZP_17614124.1| tRNA pseudouridine synthase A 2 [Bacillus cereus VD156]
 gi|401270788|gb|EJR76807.1| tRNA pseudouridine synthase A 2 [Bacillus cereus VD156]
          Length = 245

 Score =  145 bits (366), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 119/206 (57%), Gaps = 7/206 (3%)

Query: 25  FKWRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHA 83
           + ++L I YDG R+ GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA
Sbjct: 2   YNYKLTIQYDGARFKGWQRLGNNDNTIQGKIESV---ISEMVGKEIEIIGCSRTDAGVHA 58

Query: 84  WGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYN 143
             QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N
Sbjct: 59  LNQVANFQSDEKLVE-HKVKKYLNQYLPNDISITNVEEVHDRFHARYNSKAKTYLYKIWN 117

Query: 144 DAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFD 203
           +   +PF   Y+ H   KLN   M+ AA++ VG HDF+AF N +   +++  V+ ++  D
Sbjct: 118 EEHTNPFMRKYSMHVNKKLNVKSMKAAAKHLVGSHDFTAFSNAKSKKKSM--VREVYTLD 175

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
           V+E    +Q+ V G+GFL+  VR +V
Sbjct: 176 VMEEAGFVQIRVSGNGFLHNMVRKIV 201


>gi|229009911|ref|ZP_04167130.1| tRNA pseudouridine synthase A 2 [Bacillus mycoides DSM 2048]
 gi|229131424|ref|ZP_04260320.1| tRNA pseudouridine synthase A 2 [Bacillus cereus BDRD-ST196]
 gi|228652008|gb|EEL07949.1| tRNA pseudouridine synthase A 2 [Bacillus cereus BDRD-ST196]
 gi|228751342|gb|EEM01149.1| tRNA pseudouridine synthase A 2 [Bacillus mycoides DSM 2048]
          Length = 268

 Score =  145 bits (366), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 75/204 (36%), Positives = 118/204 (57%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG RY GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA  
Sbjct: 27  YKLTIQYDGARYKGWQRLGNNDNTIQGKIESI---ISEMVGKEIEIIGCSRTDAGVHALN 83

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 84  QVANFQSDEKLVE-HKVKKYLNQYLPNDISITSVEEVPDRFHARYNSKAKTYLYKIWNEE 142

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   +LN   M+EAA++ VG HDF+AF N +   +++  V+ ++  DV 
Sbjct: 143 HTNPFMRKYSMHVNKQLNVKSMKEAAKHLVGSHDFTAFSNAKSKKKSM--VREVYTLDVS 200

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 201 EESGFVQIRVSGNGFLHNMVRKIV 224


>gi|386734334|ref|YP_006207515.1| tRNA pseudouridine synthase A 2 [Bacillus anthracis str. H9401]
 gi|384384186|gb|AFH81847.1| tRNA pseudouridine synthase A 2 [Bacillus anthracis str. H9401]
          Length = 250

 Score =  145 bits (366), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 76/204 (37%), Positives = 116/204 (56%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG R+ GWQ    +  TIQ  +E  +  +   E E   ++G SRTD GVHA  
Sbjct: 9   YKLTIQYDGARFKGWQRLGNNDNTIQGKIESVISEMVGKETE---IIGCSRTDAGVHALN 65

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 66  QVANFQSDEKLVE-HKVKKYLNQYLPNDISITNVEEVHDRFHARYNSKAKTYLYKIWNEE 124

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   KLN   M+EAA++ VG HDF+AF N +   +++  V+ ++  +V+
Sbjct: 125 HTNPFMRKYSMHVNKKLNVKSMKEAAKHLVGSHDFTAFSNAKSKKKSM--VREVYSLEVM 182

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 183 EEAGFVQIRVSGNGFLHNMVRKIV 206


>gi|163938417|ref|YP_001643301.1| tRNA pseudouridine synthase A [Bacillus weihenstephanensis KBAB4]
 gi|423485714|ref|ZP_17462396.1| tRNA pseudouridine synthase A 2 [Bacillus cereus BtB2-4]
 gi|423491438|ref|ZP_17468082.1| tRNA pseudouridine synthase A 2 [Bacillus cereus CER057]
 gi|423501769|ref|ZP_17478386.1| tRNA pseudouridine synthase A 2 [Bacillus cereus CER074]
 gi|423515265|ref|ZP_17491746.1| tRNA pseudouridine synthase A 2 [Bacillus cereus HuA2-4]
 gi|423596514|ref|ZP_17572541.1| tRNA pseudouridine synthase A 2 [Bacillus cereus VD048]
 gi|423664454|ref|ZP_17639619.1| tRNA pseudouridine synthase A 2 [Bacillus cereus VDM022]
 gi|423671861|ref|ZP_17646865.1| tRNA pseudouridine synthase A 2 [Bacillus cereus VDM034]
 gi|423677678|ref|ZP_17652613.1| tRNA pseudouridine synthase A 2 [Bacillus cereus VDM062]
 gi|163860614|gb|ABY41673.1| tRNA pseudouridine synthase A [Bacillus weihenstephanensis KBAB4]
 gi|401152216|gb|EJQ59655.1| tRNA pseudouridine synthase A 2 [Bacillus cereus CER074]
 gi|401159782|gb|EJQ67162.1| tRNA pseudouridine synthase A 2 [Bacillus cereus CER057]
 gi|401167391|gb|EJQ74675.1| tRNA pseudouridine synthase A 2 [Bacillus cereus HuA2-4]
 gi|401219684|gb|EJR26336.1| tRNA pseudouridine synthase A 2 [Bacillus cereus VD048]
 gi|401290702|gb|EJR96391.1| tRNA pseudouridine synthase A 2 [Bacillus cereus VDM034]
 gi|401293025|gb|EJR98674.1| tRNA pseudouridine synthase A 2 [Bacillus cereus VDM022]
 gi|401306148|gb|EJS11657.1| tRNA pseudouridine synthase A 2 [Bacillus cereus VDM062]
 gi|402440978|gb|EJV72956.1| tRNA pseudouridine synthase A 2 [Bacillus cereus BtB2-4]
          Length = 245

 Score =  145 bits (365), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 75/204 (36%), Positives = 118/204 (57%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG RY GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA  
Sbjct: 4   YKLTIQYDGARYKGWQRLGNNDNTIQGKIESI---ISEMVGKEIEIIGCSRTDAGVHALN 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 61  QVANFQSDEKLVE-HKVKKYLNQYLPNDISITSVEEVPDRFHARYNSKAKTYLYKIWNEE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   +LN   M+EAA++ VG HDF+AF N +   +++  V+ ++  DV 
Sbjct: 120 HTNPFMRKYSMHVNKQLNVKSMKEAAKHLVGSHDFTAFSNAKSKKKSM--VREVYTLDVS 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 178 EESGFVQIRVSGNGFLHNMVRKIV 201


>gi|52144819|ref|YP_082010.1| tRNA pseudouridine synthase A [Bacillus cereus E33L]
 gi|62901422|sp|Q63GF1.1|TRUA2_BACCZ RecName: Full=tRNA pseudouridine synthase A 2; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I 2; AltName: Full=tRNA-uridine
           isomerase I 2
 gi|51978288|gb|AAU19838.1| tRNA-pseudouridylate synthase I (tRNA pseudouridine synthase A)
           [Bacillus cereus E33L]
          Length = 245

 Score =  145 bits (365), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 74/204 (36%), Positives = 119/204 (58%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG R+ GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA  
Sbjct: 4   YKLTIQYDGARFKGWQRLGNNDNTIQGKIESV---ISEMIGKEIEIIGCSRTDAGVHALN 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 61  QVANFQSDEKLVE-HKVKKYLNQYLPNDISITNVEEVHDRFHARYNSKAKTYLYKIWNEE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   KLN   M+EAA++ VG HDF+AF N +   +++  V+ ++  +V+
Sbjct: 120 HTNPFMRKYSMHVNKKLNVKSMKEAAKHLVGSHDFTAFSNAKSKKKSM--VREVYSLEVM 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 178 EEAGFVQIRVSGNGFLHNMVRKIV 201


>gi|423514198|ref|ZP_17490714.1| tRNA pseudouridine synthase A 2 [Bacillus cereus HuA2-1]
 gi|402442881|gb|EJV74798.1| tRNA pseudouridine synthase A 2 [Bacillus cereus HuA2-1]
          Length = 245

 Score =  145 bits (365), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 75/204 (36%), Positives = 118/204 (57%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG RY GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA  
Sbjct: 4   YKLTIQYDGARYKGWQRLGNNDNTIQGKIESI---ISEMVGKEIEIIGCSRTDAGVHALN 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 61  QVANFQSDEKLVE-HKVKKYLNQYLPNDISITSVEEVPDRFHARYNSKAKTYLYKIWNEE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   +LN   M+EAA++ VG HDF+AF N +   +++  V+ ++  DV 
Sbjct: 120 HTNPFMRKYSMHVNKQLNVKSMKEAAKHLVGSHDFTAFSNAKSKKKSM--VREVYTLDVS 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 178 EESGFVQIRVSGNGFLHNMVRKIV 201


>gi|225862468|ref|YP_002747846.1| tRNA pseudouridine synthase A [Bacillus cereus 03BB102]
 gi|225790549|gb|ACO30766.1| tRNA pseudouridine synthase A [Bacillus cereus 03BB102]
          Length = 245

 Score =  145 bits (365), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 74/204 (36%), Positives = 119/204 (58%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG R+ GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA  
Sbjct: 4   YKLTIQYDGARFKGWQRLGNNDNTIQGKIESV---ISEMIGKEIEIIGCSRTDAGVHALN 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 61  QVANFQSDEKLVE-HKVKKYLNQYLPNDISITNVEEVHDRFHARYNSKAKTYLYKIWNEE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   KLN   M+EAA++ VG HDF+AF N +   +++  V+ ++  +V+
Sbjct: 120 HTNPFMRKYSMHVNKKLNVKSMKEAAKHLVGSHDFTAFSNAKSKKKSM--VREVYSLEVM 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 178 EEAGFVQIRVSGNGFLHNMVRKIV 201


>gi|94968472|ref|YP_590520.1| tRNA pseudouridine synthase A [Candidatus Koribacter versatilis
           Ellin345]
 gi|94550522|gb|ABF40446.1| tRNA pseudouridine synthase A [Candidatus Koribacter versatilis
           Ellin345]
          Length = 257

 Score =  145 bits (365), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 82/215 (38%), Positives = 116/215 (53%), Gaps = 18/215 (8%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           ++ + YDG  + GWQ Q   PTIQ  + + + R+T    E     G+ RTD GVHA GQV
Sbjct: 6   KITLAYDGHEFHGWQIQPGKPTIQGTLAETIERITG---EQTLPQGSGRTDAGVHALGQV 62

Query: 88  AH--FITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           A     TP   DGL   H ALN  LPP IR   +  A P+FHAR SAK K Y Y+IY  A
Sbjct: 63  ASVALQTPIPADGL---HIALNDKLPPSIRALTVGEAAPDFHARHSAKGKTYRYRIYRAA 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAF----------VNIQRNDRALNP 195
           +  PF  HY +H  ++L+ ++M+ A  +  G+HDF++F          +    ++   + 
Sbjct: 120 ICSPFLAHYVWHYPWRLDESVMQSATAFIQGEHDFTSFAASDPDRAQRIRDAEDEDGPSN 179

Query: 196 VKSIFRFDVIEMGALLQLEVEGSGFLYRQVRNMVN 230
           V++I+       G  L  EV G+GFL+  VRN+V 
Sbjct: 180 VRTIYDAVWRTEGHELIFEVRGNGFLHHMVRNLVG 214


>gi|423455957|ref|ZP_17432810.1| tRNA pseudouridine synthase A 2 [Bacillus cereus BAG5X1-1]
 gi|401133381|gb|EJQ41012.1| tRNA pseudouridine synthase A 2 [Bacillus cereus BAG5X1-1]
          Length = 245

 Score =  145 bits (365), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 76/204 (37%), Positives = 115/204 (56%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG RY GWQ    +  TIQ  +E  +  +   E E   ++G SRTD GVHA  
Sbjct: 4   YKLTIQYDGARYKGWQRLGNNDNTIQGKIESIISEMVGKETE---IIGCSRTDAGVHALN 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 61  QVANFQSDEKLVE-HKVKKYLNQYLPNDISITSVEEVPDRFHARYNSKAKTYLYKIWNEE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H    LN  +M+EAA++ +G HDF+AF N +   +++  V+ ++  DV 
Sbjct: 120 HTNPFMRKYSMHVNKPLNVKIMKEAAKHLIGSHDFTAFSNAKSKKKSM--VREVYTLDVF 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 178 EESGFVQIRVSGNGFLHNMVRKIV 201


>gi|196034640|ref|ZP_03102048.1| tRNA pseudouridine synthase A [Bacillus cereus W]
 gi|196045298|ref|ZP_03112530.1| tRNA pseudouridine synthase A [Bacillus cereus 03BB108]
 gi|218901631|ref|YP_002449465.1| tRNA pseudouridine synthase A [Bacillus cereus AH820]
 gi|300119051|ref|ZP_07056762.1| tRNA pseudouridine synthase A [Bacillus cereus SJ1]
 gi|301052143|ref|YP_003790354.1| tRNA pseudouridine synthase A [Bacillus cereus biovar anthracis
           str. CI]
 gi|423553655|ref|ZP_17529982.1| tRNA pseudouridine synthase A 2 [Bacillus cereus ISP3191]
 gi|195992683|gb|EDX56643.1| tRNA pseudouridine synthase A [Bacillus cereus W]
 gi|196023882|gb|EDX62557.1| tRNA pseudouridine synthase A [Bacillus cereus 03BB108]
 gi|218540034|gb|ACK92432.1| tRNA pseudouridine synthase A [Bacillus cereus AH820]
 gi|298723667|gb|EFI64398.1| tRNA pseudouridine synthase A [Bacillus cereus SJ1]
 gi|300374312|gb|ADK03216.1| tRNA pseudouridine synthase A [Bacillus cereus biovar anthracis
           str. CI]
 gi|401183428|gb|EJQ90544.1| tRNA pseudouridine synthase A 2 [Bacillus cereus ISP3191]
          Length = 245

 Score =  145 bits (365), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 74/204 (36%), Positives = 119/204 (58%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG R+ GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA  
Sbjct: 4   YKLTIQYDGARFKGWQRLGNNDNTIQGKIESV---ISEMIGKEIEIIGCSRTDAGVHALN 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 61  QVANFQSDEKLVE-HKVKKYLNQYLPNDISITNVEEVHDRFHARYNSKAKTYLYKIWNEE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   KLN   M+EAA++ VG HDF+AF N +   +++  V+ ++  +V+
Sbjct: 120 HTNPFMRKYSMHVNKKLNVKSMKEAAKHLVGSHDFTAFSNAKSKKKSM--VREVYSLEVM 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 178 EEAGFVQIRVSGNGFLHNMVRKIV 201


>gi|423602052|ref|ZP_17578052.1| tRNA pseudouridine synthase A 2 [Bacillus cereus VD078]
 gi|401227916|gb|EJR34444.1| tRNA pseudouridine synthase A 2 [Bacillus cereus VD078]
          Length = 245

 Score =  145 bits (365), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 75/204 (36%), Positives = 118/204 (57%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG RY GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA  
Sbjct: 4   YKLTIQYDGARYKGWQRLGNNDNTIQGKIESI---ISEMVGKEIEIIGCSRTDAGVHALN 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 61  QVANFQSDEKLVE-HKVKKYLNQYLPNDISITSVEEVPDRFHARYNSKAKTYLYKIWNEE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   +LN   M+EAA++ VG HDF+AF N +   +++  V+ ++  DV 
Sbjct: 120 HTNPFMRKYSMHVNKQLNVKSMKEAAKHLVGSHDFTAFSNAKSKKKSM--VREVYTLDVS 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 178 EESGFVQIRVSGNGFLHNMVRKIV 201


>gi|376264444|ref|YP_005117156.1| tRNA pseudouridine synthase A [Bacillus cereus F837/76]
 gi|364510244|gb|AEW53643.1| tRNA pseudouridine synthase A [Bacillus cereus F837/76]
          Length = 245

 Score =  145 bits (365), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 74/204 (36%), Positives = 119/204 (58%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG R+ GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA  
Sbjct: 4   YKLTIQYDGARFKGWQRLGNNDNTIQGKIESV---ISEMIGKEIEIIGCSRTDAGVHALN 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 61  QVANFQSDEKLVE-HKVKKYLNQYLPNDISITNVEEVHNRFHARYNSKAKTYLYKIWNEE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   KLN   M+EAA++ VG HDF+AF N +   +++  V+ ++  +V+
Sbjct: 120 HTNPFMRKYSMHVNKKLNVKSMKEAAKHLVGSHDFTAFSNAKSKKKSM--VREVYSLEVM 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 178 EEAGFVQIRVSGNGFLHNMVRKIV 201


>gi|338730830|ref|YP_004660222.1| tRNA pseudouridine synthase A [Thermotoga thermarum DSM 5069]
 gi|335365181|gb|AEH51126.1| tRNA pseudouridine synthase A [Thermotoga thermarum DSM 5069]
          Length = 260

 Score =  145 bits (365), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 82/205 (40%), Positives = 121/205 (59%), Gaps = 7/205 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           K+  VI YDG  + G+Q Q    T+Q ++E+AL R+ K +   + +V A RTDTGVHA G
Sbjct: 3   KFAAVISYDGNNFFGFQLQKDVRTVQGVIEQALERIFKTK---ISVVCAGRTDTGVHAVG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV  F  P+     E++  ALN  LP D+ VR++     +F+ RF A  +IYHY IYN  
Sbjct: 60  QVIAFDCPYDIPP-ENMKNALNANLPDDVYVRKVIEVPKDFNPRFCATRRIYHYFIYNGK 118

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             + F   Y +   Y+L+   MREAA+Y  G+HDF AF   + N+++   V++I+R  ++
Sbjct: 119 TPNVFTRKYYWWFPYELDVNKMREAAKYLEGEHDFKAFAKTEGNEKST--VRTIYRIRIL 176

Query: 206 EM-GALLQLEVEGSGFLYRQVRNMV 229
            +   L+ + VEG  FL R VRN+V
Sbjct: 177 RLRKNLILIRVEGRSFLRRMVRNIV 201


>gi|49183490|ref|YP_026742.1| tRNA pseudouridine synthase A [Bacillus anthracis str. Sterne]
 gi|165870784|ref|ZP_02215437.1| tRNA pseudouridine synthase A [Bacillus anthracis str. A0488]
 gi|167634709|ref|ZP_02393028.1| tRNA pseudouridine synthase A [Bacillus anthracis str. A0442]
 gi|167640831|ref|ZP_02399090.1| tRNA pseudouridine synthase A [Bacillus anthracis str. A0193]
 gi|170688574|ref|ZP_02879780.1| tRNA pseudouridine synthase A [Bacillus anthracis str. A0465]
 gi|170707209|ref|ZP_02897665.1| tRNA pseudouridine synthase A [Bacillus anthracis str. A0389]
 gi|177654958|ref|ZP_02936652.1| tRNA pseudouridine synthase A [Bacillus anthracis str. A0174]
 gi|227816641|ref|YP_002816650.1| tRNA pseudouridine synthase A [Bacillus anthracis str. CDC 684]
 gi|229600408|ref|YP_002865093.1| tRNA pseudouridine synthase A [Bacillus anthracis str. A0248]
 gi|254686878|ref|ZP_05150736.1| tRNA pseudouridine synthase A [Bacillus anthracis str. CNEVA-9066]
 gi|254725958|ref|ZP_05187740.1| tRNA pseudouridine synthase A [Bacillus anthracis str. A1055]
 gi|254738895|ref|ZP_05196597.1| tRNA pseudouridine synthase A [Bacillus anthracis str. Western
           North America USA6153]
 gi|254743721|ref|ZP_05201406.1| tRNA pseudouridine synthase A [Bacillus anthracis str. Kruger B]
 gi|254744486|ref|ZP_05202165.1| tRNA pseudouridine synthase A [Bacillus anthracis str. Kruger B]
 gi|254756260|ref|ZP_05208289.1| tRNA pseudouridine synthase A [Bacillus anthracis str. Vollum]
 gi|254762079|ref|ZP_05213928.1| tRNA pseudouridine synthase A [Bacillus anthracis str. Australia
           94]
 gi|270000592|ref|YP_003329030.1| tRNA pseudouridine synthase A [Bacillus anthracis str. Ames]
 gi|291612202|ref|YP_003541016.1| tRNA pseudouridine synthase A [Bacillus anthracis str. 'Ames
           Ancestor']
 gi|421509894|ref|ZP_15956795.1| tRNA pseudouridine synthase A [Bacillus anthracis str. UR-1]
 gi|421639061|ref|ZP_16079655.1| tRNA pseudouridine synthase A [Bacillus anthracis str. BF1]
 gi|62901431|sp|Q6I3T8.1|TRUA2_BACAN RecName: Full=tRNA pseudouridine synthase A 2; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I 2; AltName: Full=tRNA-uridine
           isomerase I 2
 gi|49177417|gb|AAT52793.1| tRNA pseudouridine synthase A [Bacillus anthracis str. Sterne]
 gi|164713618|gb|EDR19142.1| tRNA pseudouridine synthase A [Bacillus anthracis str. A0488]
 gi|167511225|gb|EDR86612.1| tRNA pseudouridine synthase A [Bacillus anthracis str. A0193]
 gi|167529783|gb|EDR92531.1| tRNA pseudouridine synthase A [Bacillus anthracis str. A0442]
 gi|170127987|gb|EDS96858.1| tRNA pseudouridine synthase A [Bacillus anthracis str. A0389]
 gi|170667434|gb|EDT18191.1| tRNA pseudouridine synthase A [Bacillus anthracis str. A0465]
 gi|172080343|gb|EDT65431.1| tRNA pseudouridine synthase A [Bacillus anthracis str. A0174]
 gi|224552835|gb|ACN55049.1| tRNA pseudouridine synthase A [Bacillus anthracis str. 'Ames
           Ancestor']
 gi|227002712|gb|ACP12455.1| tRNA pseudouridine synthase A [Bacillus anthracis str. CDC 684]
 gi|229264816|gb|ACQ46453.1| tRNA pseudouridine synthase A [Bacillus anthracis str. A0248]
 gi|269850281|gb|ACZ49994.1| tRNA pseudouridine synthase A [Bacillus anthracis str. Ames]
 gi|401820068|gb|EJT19237.1| tRNA pseudouridine synthase A [Bacillus anthracis str. UR-1]
 gi|403393976|gb|EJY91218.1| tRNA pseudouridine synthase A [Bacillus anthracis str. BF1]
          Length = 245

 Score =  145 bits (365), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 76/204 (37%), Positives = 116/204 (56%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG R+ GWQ    +  TIQ  +E  +  +   E E   ++G SRTD GVHA  
Sbjct: 4   YKLTIQYDGARFKGWQRLGNNDNTIQGKIESVISEMVGKETE---IIGCSRTDAGVHALN 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 61  QVANFQSDEKLVE-HKVKKYLNQYLPNDISITNVEEVHDRFHARYNSKAKTYLYKIWNEE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   KLN   M+EAA++ VG HDF+AF N +   +++  V+ ++  +V+
Sbjct: 120 HTNPFMRKYSMHVNKKLNVKSMKEAAKHLVGSHDFTAFSNAKSKKKSM--VREVYSLEVM 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 178 EEAGFVQIRVSGNGFLHNMVRKIV 201


>gi|423473427|ref|ZP_17450169.1| tRNA pseudouridine synthase A 2 [Bacillus cereus BAG6O-2]
 gi|402425912|gb|EJV58054.1| tRNA pseudouridine synthase A 2 [Bacillus cereus BAG6O-2]
          Length = 245

 Score =  145 bits (365), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 76/204 (37%), Positives = 115/204 (56%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG RY GWQ    +  TIQ  +E  +  +   E E   ++G SRTD GVHA  
Sbjct: 4   YKLTIQYDGARYKGWQRLGNNDNTIQGKIESIISEMVGKETE---IIGCSRTDAGVHALN 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 61  QVANFQSDEKLVE-HKVKKYLNQYLPNDISITSVEEVPDRFHARYNSKAKTYLYKIWNEE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   +LN   M+EAA++ +G HDF+AF N +   +++  V+ ++  DV 
Sbjct: 120 HTNPFMRKYSMHVNKQLNVKSMKEAAKHLIGSHDFTAFSNAKSKKKSM--VREVYTLDVF 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 178 EESGFVQIRVSGNGFLHNMVRKIV 201


>gi|291549528|emb|CBL25790.1| pseudouridylate synthase I [Ruminococcus torques L2-14]
          Length = 256

 Score =  145 bits (365), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 82/201 (40%), Positives = 113/201 (56%), Gaps = 6/201 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + RL + YDGT Y GWQ Q   PTI+  + +A+ R+TK   E++ ++GASRTD GVHA G
Sbjct: 3   RIRLRVAYDGTAYCGWQVQPEVPTIEGELNQAISRLTK---EEIIVIGASRTDAGVHAKG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
            VA F T  +    +    ALN LLP DI V        ++H R     K Y YKI N  
Sbjct: 60  NVAVFDTESTIPA-DRFAYALNPLLPEDIVVVASDEVEADWHPRHCDTEKTYEYKILNSK 118

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             DP +    YH  + LN   MREAAEY  G+HDF +F N+  + +  + V++I+  +V 
Sbjct: 119 FPDPMRRRDTYHVSFDLNLEKMREAAEYLKGEHDFKSFCNV--HTQVEDTVRTIYDLEVE 176

Query: 206 EMGALLQLEVEGSGFLYRQVR 226
           +   L+ + V G+GFLY  VR
Sbjct: 177 KEEELITIRVRGNGFLYNMVR 197


>gi|392939543|ref|ZP_10305187.1| pseudouridylate synthase I [Thermoanaerobacter siderophilus SR4]
 gi|392291293|gb|EIV99736.1| pseudouridylate synthase I [Thermoanaerobacter siderophilus SR4]
          Length = 244

 Score =  145 bits (365), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 81/201 (40%), Positives = 117/201 (58%), Gaps = 6/201 (2%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           +V+ YDGT Y GWQ+Q +  T+Q +++KA+ +VT    E++ L+GASRTDTGVHA  QVA
Sbjct: 6   IVVEYDGTNYHGWQYQENAVTVQEVLQKAIKKVTG---EEVNLIGASRTDTGVHALYQVA 62

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +F T       E +  ALN +LP DI V +       FHAR+SAK K Y Y I N     
Sbjct: 63  NFRTNTKIPA-EKLPYALNSVLPDDIVVVQAKDVEDSFHARYSAKRKRYKYIILNRKFPM 121

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
           P   +Y +H  Y LN   M++AA Y +G HDFSAF          + +++++   + +  
Sbjct: 122 PTMRNYCWHIGYPLNIEEMKKAASYLIGTHDFSAFR--ASGSSKTSTIRTVYDLTIEKNE 179

Query: 209 ALLQLEVEGSGFLYRQVRNMV 229
             + +E+E +GFLY  VR +V
Sbjct: 180 DFINIEIEANGFLYNMVRIIV 200


>gi|452854208|ref|YP_007495891.1| pseudouridylate synthase I [Bacillus amyloliquefaciens subsp.
           plantarum UCMB5036]
 gi|452078468|emb|CCP20218.1| pseudouridylate synthase I [Bacillus amyloliquefaciens subsp.
           plantarum UCMB5036]
          Length = 247

 Score =  145 bits (365), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 86/200 (43%), Positives = 113/200 (56%), Gaps = 6/200 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  I YDG  + G+Q Q    T+Q  +EKAL  + K +   + +  + RTD+ VHA GQV
Sbjct: 4   KCTIAYDGHLFNGYQVQPGKRTVQSELEKALAVIHKTDGR-VPVYSSGRTDSDVHAAGQV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S    E    ALN LLP DI V+    A   FHARFSA  K Y Y +Y +   
Sbjct: 63  IHFDTPLSIPA-EKWPFALNALLPDDIAVKTAEIADDGFHARFSAVQKEYRYFVYTEKHP 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRAL-NPVKSIFRFDVIE 206
           D F+ HYAYH  Y LN   MREA+ + VG HDF++F      D A+ + V++I+  D  E
Sbjct: 122 DVFKRHYAYHFAYPLNVQKMREASRHLVGTHDFTSFCAA---DTAVQDKVRTIYELDWTE 178

Query: 207 MGALLQLEVEGSGFLYRQVR 226
            G  LQ+ + G+GFLY  VR
Sbjct: 179 TGDGLQMRITGNGFLYNMVR 198


>gi|406593093|ref|YP_006740272.1| tRNA pseudouridine synthase A [Chlamydia psittaci NJ1]
 gi|405788965|gb|AFS27707.1| tRNA pseudouridine synthase A [Chlamydia psittaci NJ1]
          Length = 268

 Score =  145 bits (365), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 75/203 (36%), Positives = 123/203 (60%), Gaps = 7/203 (3%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L++ Y GT YAGWQ Q +  ++Q ++E +L   TK+  + + +  + RTD GVHA+GQVA
Sbjct: 6   LLLAYQGTAYAGWQRQPNDLSVQEVIENSL---TKVVGKRIHVTSSGRTDAGVHAFGQVA 62

Query: 89  HFITPF--SYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           HF  P    +     I   LN LLP DI +R++      FH+RFSA +K Y Y +     
Sbjct: 63  HFPQPDHPRFSQASGIKKMLNALLPKDIVIRDVVLGDDIFHSRFSAIAKEYRYLLTRSPK 122

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
             P++ +++Y+  + L T LM+E A+Y +G HDF++F N  R+    + ++++F  D+++
Sbjct: 123 PLPWERYFSYYPRHHLRTDLMQEGAKYLIGTHDFASFANHGRD--YTSTIRTLFNLDIVD 180

Query: 207 MGALLQLEVEGSGFLYRQVRNMV 229
            G  + +  +G+GFLY+ VRN+V
Sbjct: 181 NGETVTIICKGNGFLYKMVRNIV 203


>gi|42779623|ref|NP_976870.1| tRNA pseudouridine synthase A [Bacillus cereus ATCC 10987]
 gi|402553974|ref|YP_006595245.1| tRNA pseudouridine synthase A [Bacillus cereus FRI-35]
 gi|51316696|sp|Q73E17.1|TRUA2_BACC1 RecName: Full=tRNA pseudouridine synthase A 2; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I 2; AltName: Full=tRNA-uridine
           isomerase I 2
 gi|42735539|gb|AAS39478.1| tRNA pseudouridine synthase A [Bacillus cereus ATCC 10987]
 gi|401795184|gb|AFQ09043.1| tRNA pseudouridine synthase A [Bacillus cereus FRI-35]
          Length = 245

 Score =  144 bits (364), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 76/204 (37%), Positives = 116/204 (56%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG R+ GWQ    +  TIQ  +E  +  +   E E   ++G SRTD GVHA  
Sbjct: 4   YKLTIQYDGARFKGWQRLGNNDNTIQGKIESVISEMVGKETE---IIGCSRTDAGVHALN 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 61  QVANFQSDEKLVE-HKVKKYLNQYLPNDISITNVEEVHDRFHARYNSKAKTYLYKIWNEE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   KLN   M+EAA++ VG HDF+AF N +   +++  V+ ++  +V+
Sbjct: 120 HTNPFMRKYSMHVNKKLNVKSMKEAAKHLVGSHDFTAFSNAKSKKKSM--VREVYTLEVM 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 178 EEAGFVQIRVSGNGFLHNMVRKIV 201


>gi|326390628|ref|ZP_08212183.1| tRNA pseudouridine synthase A [Thermoanaerobacter ethanolicus JW
           200]
 gi|325993306|gb|EGD51743.1| tRNA pseudouridine synthase A [Thermoanaerobacter ethanolicus JW
           200]
          Length = 244

 Score =  144 bits (364), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 80/201 (39%), Positives = 117/201 (58%), Gaps = 6/201 (2%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           +V+ YDGT Y GWQ+Q +  T+Q +++KA+ +VT    E++ L+GASRTDTGVHA  QVA
Sbjct: 6   IVVEYDGTNYHGWQYQKNAVTVQEVLQKAIKKVTG---EEVNLIGASRTDTGVHALYQVA 62

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +F T       E +  ALN +LP DI V +       FHAR+SAK K Y Y I N     
Sbjct: 63  NFKTNTKIPA-EKLPYALNSVLPDDIVVVQAKDVEDSFHARYSAKRKRYKYIILNRKFQM 121

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
           P   +Y +H  Y L+   M++AA Y +G HDFSAF          + +++++   + +  
Sbjct: 122 PTMRNYCWHIDYPLSIEKMKKAASYLIGTHDFSAFK--ASGSSKTSTIRTVYDLTIEKDE 179

Query: 209 ALLQLEVEGSGFLYRQVRNMV 229
             + +E+E +GFLY  VR +V
Sbjct: 180 DFINIEIEANGFLYNMVRIIV 200


>gi|56418673|ref|YP_145991.1| tRNA pseudouridine synthase A [Geobacillus kaustophilus HTA426]
 gi|62901182|sp|Q5L3Q7.1|TRUA_GEOKA RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|56378515|dbj|BAD74423.1| pseudouridylate synthaseI [Geobacillus kaustophilus HTA426]
          Length = 258

 Score =  144 bits (364), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 82/203 (40%), Positives = 117/203 (57%), Gaps = 5/203 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           + +I YDGT ++G+Q Q    T+Q   E+ L R+ K  +  +R+  + RTD GVHA+GQV
Sbjct: 6   KCIIAYDGTHFSGYQIQPGKRTVQGEFEEVLRRMHKGTK--VRVAASGRTDAGVHAYGQV 63

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S    E    ALN  LP DI VR +  A  +FHARFSAK+K Y YK++  A  
Sbjct: 64  IHFDTPLSLSS-EQWKKALNAQLPDDIVVRFVQEADADFHARFSAKAKEYRYKVWTAAER 122

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ HY     Y L+ + M EA     G HDF++F + + +    + V++++R +V   
Sbjct: 123 DVFRRHYCAWHPYSLHISAMNEALRLLHGTHDFTSFCSAKTSIE--DRVRTMYRAEVKAD 180

Query: 208 GALLQLEVEGSGFLYRQVRNMVN 230
           G +L+    GSGFLY  VR +V 
Sbjct: 181 GPMLEFRFVGSGFLYNMVRIIVG 203


>gi|307244438|ref|ZP_07526548.1| tRNA pseudouridine synthase A [Peptostreptococcus stomatis DSM
           17678]
 gi|306492195|gb|EFM64238.1| tRNA pseudouridine synthase A [Peptostreptococcus stomatis DSM
           17678]
          Length = 253

 Score =  144 bits (364), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 78/198 (39%), Positives = 113/198 (57%), Gaps = 5/198 (2%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           LV+ Y+GTRY GWQ Q   P IQ  +E A  +     ++++ + G+ RTD GVHA GQVA
Sbjct: 8   LVVAYEGTRYCGWQKQPDSPGIQGELEYACTQA--FNKKNINITGSGRTDAGVHALGQVA 65

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +F    +   ++ I   LN  LP DI V        EFHAR SA  K Y Y+IY   +  
Sbjct: 66  NFTVDTTIP-VDKIPEVLNNRLPKDIAVLRAQEVKSEFHARHSAHKKTYRYQIYPSRIRS 124

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
           PF   +AY   Y L+   M+E   + +G+HDF  F++   + ++   V++I+R D+ + G
Sbjct: 125 PFLKDFAYQVKYDLDLDRMKEEIIHLLGQHDFKGFMSSGSDIKST--VRTIYRADIYKRG 182

Query: 209 ALLQLEVEGSGFLYRQVR 226
            L+ +EVEG+GFLY  VR
Sbjct: 183 DLIVIEVEGNGFLYNMVR 200


>gi|399889227|ref|ZP_10775104.1| tRNA pseudouridine synthase A [Clostridium arbusti SL206]
          Length = 245

 Score =  144 bits (364), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 82/203 (40%), Positives = 117/203 (57%), Gaps = 13/203 (6%)

Query: 28  RLVIGYDGTRYAGWQFQT-SPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           ++ I YDG+RY GWQ Q     TIQ  +E  L   +K+  ED++++G  RTD GVHA   
Sbjct: 5   KMTIEYDGSRYKGWQKQKYGESTIQYKIENVL---SKMTGEDIKVIGCGRTDLGVHAKNY 61

Query: 87  VAHFITPFSYDGLESIHAALNGL---LPPDIRVREISAAVPEFHARFSAKSKIYHYKIYN 143
           +A+F T        SI A L+ L   LP DI V+ +  A   FHAR++ KSK Y Y+I N
Sbjct: 62  IANFHTECEL----SIDAMLDYLYEFLPEDIVVKYMEDAAERFHARYNVKSKTYVYRINN 117

Query: 144 DAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFD 203
           +   + F   Y YH+  KL+   MR AAE  +G HDF +F N++ N ++   V+ I   D
Sbjct: 118 NKFRNVFDRKYTYHTDEKLDLDEMRNAAEVLIGTHDFQSFTNLKPNGKS--TVRIINYID 175

Query: 204 VIEMGALLQLEVEGSGFLYRQVR 226
           +IE   ++++EV G+GFL   VR
Sbjct: 176 IIEKEGIVEVEVNGNGFLLNMVR 198


>gi|260662783|ref|ZP_05863677.1| tRNA pseudouridine synthase A [Lactobacillus fermentum 28-3-CHN]
 gi|260552864|gb|EEX25863.1| tRNA pseudouridine synthase A [Lactobacillus fermentum 28-3-CHN]
          Length = 258

 Score =  144 bits (364), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 79/206 (38%), Positives = 120/206 (58%), Gaps = 5/206 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++++   YDG+ +AG+Q Q    T+Q  +E+A+ ++ K  +  L + G+ RTD GVHA G
Sbjct: 3   RYKITFAYDGSNFAGFQVQPGERTVQQALERAVNKIAKKPQPPLMVFGSGRTDAGVHALG 62

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVAHF  P+   G  S+  ALN  LP D+ V+E +   P+FHARF A  K Y Y++    
Sbjct: 63  QVAHFDLPYQIPG-PSLVRALNSSLPLDVLVKEATEVAPDFHARFDAHHKRYRYRVVGGE 121

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF+ +Y  H  Y ++   M+ AA+ FVG+HDF++FV      +A + V+ I    V+
Sbjct: 122 FTNPFKRNYTGHYKYPVDVERMQTAAQDFVGEHDFTSFV--ASGSQATSNVRRIDEVTVV 179

Query: 206 --EMGALLQLEVEGSGFLYRQVRNMV 229
             E    +  +  G+GFLY QVR MV
Sbjct: 180 RDEENDEVVFDFVGNGFLYNQVRIMV 205


>gi|429503682|ref|YP_007184866.1| tRNA pseudouridine synthase A [Bacillus amyloliquefaciens subsp.
           plantarum AS43.3]
 gi|429485272|gb|AFZ89196.1| tRNA pseudouridine synthase A [Bacillus amyloliquefaciens subsp.
           plantarum AS43.3]
          Length = 247

 Score =  144 bits (364), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 86/200 (43%), Positives = 113/200 (56%), Gaps = 6/200 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  I YDG  + G+Q Q    T+Q  +EKAL  + K +   + +  + RTD+ VHA GQV
Sbjct: 4   KCTIAYDGHLFNGYQVQPGKRTVQSELEKALAVIHKTDGR-VPVYSSGRTDSDVHAAGQV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S    E    ALN LLP DI V+    A   FHARFSA  K Y Y +Y +   
Sbjct: 63  IHFDTPLSIPA-EKWPFALNALLPDDIAVKTAEIADDGFHARFSAVQKEYRYFVYTEKHP 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRAL-NPVKSIFRFDVIE 206
           D F+ HYAYH  Y LN   MREA+ + VG HDF++F      D A+ + V++I+  D  E
Sbjct: 122 DVFKRHYAYHFAYPLNVQKMREASRHLVGTHDFTSFCAA---DTAVQDKVRTIYELDWTE 178

Query: 207 MGALLQLEVEGSGFLYRQVR 226
            G  LQ+ + G+GFLY  VR
Sbjct: 179 TGDGLQMRITGNGFLYNMVR 198


>gi|423526021|ref|ZP_17502473.1| tRNA pseudouridine synthase A 2 [Bacillus cereus HuA4-10]
 gi|401164847|gb|EJQ72179.1| tRNA pseudouridine synthase A 2 [Bacillus cereus HuA4-10]
          Length = 245

 Score =  144 bits (364), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 74/204 (36%), Positives = 118/204 (57%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG RY GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA  
Sbjct: 4   YKLTIQYDGARYKGWQRLGNNDNTIQGKIESV---ISEMIGKEIEIIGCSRTDAGVHALN 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 61  QVANFQSDEKLVE-HKVKKYLNQYLPNDISITSVEEVPDRFHARYNSKAKTYLYKIWNEE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   +LN   M+EAA++ VG HDF+AF N +   +++  V+ ++  DV 
Sbjct: 120 HTNPFMRKYSMHVNKQLNVKSMKEAAKHLVGSHDFTAFSNAKSKKKSM--VREVYTLDVS 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ + G+GFL+  VR +V
Sbjct: 178 EEAGFVQIRISGNGFLHNMVRKIV 201


>gi|23097605|ref|NP_691071.1| tRNA pseudouridine synthase A [Oceanobacillus iheyensis HTE831]
 gi|38258776|sp|Q8CXP1.1|TRUA_OCEIH RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|22775828|dbj|BAC12106.1| tRNA pseudouridine synthase A [Oceanobacillus iheyensis HTE831]
          Length = 253

 Score =  144 bits (364), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 76/205 (37%), Positives = 120/205 (58%), Gaps = 4/205 (1%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + +  + YDG+ +AG+Q Q    T+Q ++EKAL  + K   + +R+  + RTDTGVHA G
Sbjct: 3   RLKCTVSYDGSDFAGFQVQPDHRTVQGVLEKALYNMHK--GKSIRIQASGRTDTGVHAVG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF +P       +   ALN LLP D+R++++     EFHAR+S K K YHY + N+ 
Sbjct: 61  QVIHFDSPLEIPE-RNWKQALNTLLPDDVRIQKVEKKTEEFHARYSVKEKEYHYFVLNEE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             + FQ  Y YH   KL+   M+EA +Y  G HDF++F + + + +  + V++++     
Sbjct: 120 DPNVFQRGYVYHEPRKLDLERMQEACQYLEGTHDFTSFSSAKSSVKG-SKVRTLYHVSCH 178

Query: 206 EMGALLQLEVEGSGFLYRQVRNMVN 230
           + G  ++    GSGFLY  VR M++
Sbjct: 179 QTGTNIEFIFRGSGFLYNMVRIMMS 203


>gi|423578822|ref|ZP_17554933.1| tRNA pseudouridine synthase A 2 [Bacillus cereus VD014]
 gi|401219753|gb|EJR26404.1| tRNA pseudouridine synthase A 2 [Bacillus cereus VD014]
          Length = 245

 Score =  144 bits (364), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 119/206 (57%), Gaps = 7/206 (3%)

Query: 25  FKWRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHA 83
           + ++L I YDG R+ GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA
Sbjct: 2   YNYKLTIQYDGARFKGWQRLGNNDNTIQGKIESV---ISEMFGKEIEIIGCSRTDAGVHA 58

Query: 84  WGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYN 143
             QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N
Sbjct: 59  LNQVANFQSDEKLVE-HKVKKYLNQYLPNDISITNVEEVHDRFHARYNSKAKTYLYKIWN 117

Query: 144 DAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFD 203
           +   +PF   Y+ H   KLN   M+ AA++ VG HDF+AF N +   +++  V+ ++  D
Sbjct: 118 EEHTNPFMRKYSMHVNKKLNVKSMKAAAKHLVGSHDFTAFSNAKSKKKSM--VREVYTLD 175

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
           V+E    +Q+ V G+GFL+  VR +V
Sbjct: 176 VMEEAGFVQIRVSGNGFLHNMVRKIV 201


>gi|229143213|ref|ZP_04271645.1| tRNA pseudouridine synthase A 2 [Bacillus cereus BDRD-ST24]
 gi|229177012|ref|ZP_04304407.1| tRNA pseudouridine synthase A 2 [Bacillus cereus 172560W]
 gi|228606487|gb|EEK63913.1| tRNA pseudouridine synthase A 2 [Bacillus cereus 172560W]
 gi|228640294|gb|EEK96692.1| tRNA pseudouridine synthase A 2 [Bacillus cereus BDRD-ST24]
          Length = 250

 Score =  144 bits (364), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 74/204 (36%), Positives = 118/204 (57%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG R+ GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA  
Sbjct: 9   YKLTIQYDGARFKGWQRLGNNDNTIQGKIESV---ISEMVGKEIEIIGCSRTDAGVHALN 65

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 66  QVANFQSDEKLVE-HKVKKYLNQYLPNDISITNVEEVHDRFHARYNSKAKTYLYKIWNEE 124

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   KLN   M+ AA++ VG HDF+AF N +   +++  V+ ++  DV+
Sbjct: 125 HTNPFMRKYSMHVNKKLNVKSMKAAAKHLVGSHDFTAFSNAKSKKKSM--VREVYTLDVM 182

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 183 EEAGFVQIRVSGNGFLHNMVRKIV 206


>gi|229148825|ref|ZP_04277073.1| tRNA pseudouridine synthase A 2 [Bacillus cereus m1550]
 gi|228634619|gb|EEK91200.1| tRNA pseudouridine synthase A 2 [Bacillus cereus m1550]
          Length = 250

 Score =  144 bits (364), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 74/204 (36%), Positives = 118/204 (57%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG R+ GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA  
Sbjct: 9   YKLTIQYDGARFKGWQRLGNNDNTIQGKIESV---ISEMVGKEIEIIGCSRTDAGVHALN 65

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 66  QVANFQSDEKLVE-HKVKKYLNQYLPNDISITNVEEVHDRFHARYNSKAKTYLYKIWNEE 124

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   KLN   M+ AA++ VG HDF+AF N +   +++  V+ ++  DV+
Sbjct: 125 HTNPFMRKYSMHVNKKLNVKSMKAAAKHLVGSHDFTAFSNAKSKKKSM--VREVYTLDVM 182

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 183 EEAGFVQIRVSGNGFLHNMVRKIV 206


>gi|228956904|ref|ZP_04118685.1| tRNA pseudouridine synthase A 2 [Bacillus thuringiensis serovar
           pakistani str. T13001]
 gi|228802747|gb|EEM49583.1| tRNA pseudouridine synthase A 2 [Bacillus thuringiensis serovar
           pakistani str. T13001]
          Length = 250

 Score =  144 bits (364), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 74/204 (36%), Positives = 118/204 (57%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG R+ GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA  
Sbjct: 9   YKLTIQYDGVRFKGWQRLGNNDNTIQGKIESV---ISEMVGKEIEIIGCSRTDAGVHALN 65

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 66  QVANFQSDEKLVE-HKVKKYLNQYLPNDISITNVEEVHDRFHARYNSKAKTYLYKIWNEE 124

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   KLN   M+ AA++ VG HDF+AF N +   +++  V+ ++  DV+
Sbjct: 125 HTNPFMRKYSMHVNKKLNVKSMKAAAKHLVGSHDFTAFSNAKSKKKSM--VREVYTLDVM 182

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 183 EEAGFVQIRVSGNGFLHNMVRKIV 206


>gi|345018501|ref|YP_004820854.1| tRNA pseudouridine synthase A [Thermoanaerobacter wiegelii Rt8.B1]
 gi|344033844|gb|AEM79570.1| tRNA pseudouridine synthase A [Thermoanaerobacter wiegelii Rt8.B1]
          Length = 244

 Score =  144 bits (364), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 80/201 (39%), Positives = 117/201 (58%), Gaps = 6/201 (2%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           +V+ YDGT Y GWQ+Q +  T+Q +++KA+ +VT    E++ L+GASRTDTGVHA  QVA
Sbjct: 6   IVVEYDGTNYHGWQYQENAVTVQEVLQKAIKKVTG---EEVNLIGASRTDTGVHALYQVA 62

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +F T       E +  ALN +LP DI V +       FHAR+SAK K Y Y I N     
Sbjct: 63  NFRTNTKIPA-EKLPYALNSVLPDDIVVVQAKDVEDSFHARYSAKRKRYKYIILNRKFPM 121

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
           P   +Y +H  Y L+   M++AA Y +G HDFSAF          + +++++   + +  
Sbjct: 122 PTMRNYCWHISYPLSIEKMKKAASYLIGTHDFSAFK--ASGSSKTSTIRTVYDLTIEKNE 179

Query: 209 ALLQLEVEGSGFLYRQVRNMV 229
             + +E+E +GFLY  VR +V
Sbjct: 180 EFINIEIEANGFLYNMVRIIV 200


>gi|423370307|ref|ZP_17347729.1| tRNA pseudouridine synthase A 2 [Bacillus cereus VD142]
 gi|401074246|gb|EJP82651.1| tRNA pseudouridine synthase A 2 [Bacillus cereus VD142]
          Length = 245

 Score =  144 bits (364), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 74/204 (36%), Positives = 117/204 (57%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG RY GWQ    +  TIQ   E     ++++  +++ ++G SRTD GVHA  
Sbjct: 4   YKLTIQYDGARYKGWQRLGNNDNTIQGKTESI---ISEMVGKEIEIIGCSRTDAGVHALN 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 61  QVANFQSDEKLVE-HKVKKYLNQYLPNDISITSVEEVSDRFHARYNSKAKTYLYKIWNEE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   +LN   M+EAA++ +G HDF+AF N +   +++  V+ ++  DV 
Sbjct: 120 HTNPFMRKYSMHVNKQLNVKSMKEAAKHLIGSHDFTAFSNAKSKKKSM--VREVYTLDVS 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 178 EESGFVQIRVSGNGFLHNMVRKIV 201


>gi|196040200|ref|ZP_03107502.1| tRNA pseudouridine synthase A [Bacillus cereus NVH0597-99]
 gi|196029055|gb|EDX67660.1| tRNA pseudouridine synthase A [Bacillus cereus NVH0597-99]
          Length = 245

 Score =  144 bits (364), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 74/204 (36%), Positives = 119/204 (58%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG R+ GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA  
Sbjct: 4   YKLTIQYDGARFKGWQRLGNNDNTIQGKIESV---ISEMIGKEIEIIGCSRTDAGVHALN 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 61  QVANFQSDEKLVE-HKVKKYLNQHLPNDISITNVEEVHDRFHARYNSKAKTYLYKIWNEE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   KLN   M+EAA++ VG HDF+AF N +   +++  V+ ++  +V+
Sbjct: 120 HTNPFMRKYSMHVNKKLNVKSMKEAAKHLVGSHDFTAFSNAKSKKKSM--VREVYSLEVM 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 178 EEAGFVQIRVSGNGFLHNMVRKIV 201


>gi|30018678|ref|NP_830309.1| tRNA pseudouridine synthase A [Bacillus cereus ATCC 14579]
 gi|206967868|ref|ZP_03228824.1| tRNA pseudouridine synthase A [Bacillus cereus AH1134]
 gi|218230891|ref|YP_002365270.1| tRNA pseudouridine synthase A [Bacillus cereus B4264]
 gi|229068175|ref|ZP_04201482.1| tRNA pseudouridine synthase A 2 [Bacillus cereus F65185]
 gi|229108094|ref|ZP_04237719.1| tRNA pseudouridine synthase A 2 [Bacillus cereus Rock1-15]
 gi|229125922|ref|ZP_04254947.1| tRNA pseudouridine synthase A 2 [Bacillus cereus BDRD-Cer4]
 gi|296501252|ref|YP_003662952.1| tRNA pseudouridine synthase A [Bacillus thuringiensis BMB171]
 gi|423415688|ref|ZP_17392808.1| tRNA pseudouridine synthase A 2 [Bacillus cereus BAG3O-2]
 gi|423422657|ref|ZP_17399688.1| tRNA pseudouridine synthase A 2 [Bacillus cereus BAG3X2-2]
 gi|423428520|ref|ZP_17405524.1| tRNA pseudouridine synthase A 2 [Bacillus cereus BAG4O-1]
 gi|423644765|ref|ZP_17620381.1| tRNA pseudouridine synthase A 2 [Bacillus cereus VD166]
 gi|423653368|ref|ZP_17628667.1| tRNA pseudouridine synthase A 2 [Bacillus cereus VD200]
 gi|42559783|sp|Q813Z9.1|TRUA2_BACCR RecName: Full=tRNA pseudouridine synthase A 2; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I 2; AltName: Full=tRNA-uridine
           isomerase I 2
 gi|29894219|gb|AAP07510.1| tRNA pseudouridine synthase A [Bacillus cereus ATCC 14579]
 gi|206736788|gb|EDZ53935.1| tRNA pseudouridine synthase A [Bacillus cereus AH1134]
 gi|218158848|gb|ACK58840.1| tRNA pseudouridine synthase A [Bacillus cereus B4264]
 gi|228657580|gb|EEL13393.1| tRNA pseudouridine synthase A 2 [Bacillus cereus BDRD-Cer4]
 gi|228675369|gb|EEL30588.1| tRNA pseudouridine synthase A 2 [Bacillus cereus Rock1-15]
 gi|228714989|gb|EEL66857.1| tRNA pseudouridine synthase A 2 [Bacillus cereus F65185]
 gi|296322304|gb|ADH05232.1| tRNA pseudouridine synthase A [Bacillus thuringiensis BMB171]
 gi|401095423|gb|EJQ03481.1| tRNA pseudouridine synthase A 2 [Bacillus cereus BAG3O-2]
 gi|401119161|gb|EJQ26987.1| tRNA pseudouridine synthase A 2 [Bacillus cereus BAG3X2-2]
 gi|401124740|gb|EJQ32502.1| tRNA pseudouridine synthase A 2 [Bacillus cereus BAG4O-1]
 gi|401269381|gb|EJR75414.1| tRNA pseudouridine synthase A 2 [Bacillus cereus VD166]
 gi|401301532|gb|EJS07120.1| tRNA pseudouridine synthase A 2 [Bacillus cereus VD200]
          Length = 245

 Score =  144 bits (364), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 74/204 (36%), Positives = 118/204 (57%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG R+ GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA  
Sbjct: 4   YKLTIQYDGARFKGWQRLGNNDNTIQGKIESV---ISEMVGKEIEIIGCSRTDAGVHALN 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 61  QVANFQSDEKLVE-HKVKKYLNQYLPNDISITNVEEVHDRFHARYNSKAKTYLYKIWNEE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   KLN   M+ AA++ VG HDF+AF N +   +++  V+ ++  DV+
Sbjct: 120 HTNPFMRKYSMHVNKKLNVKSMKAAAKHLVGSHDFTAFSNAKSKKKSM--VREVYTLDVM 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 178 EEAGFVQIRVSGNGFLHNMVRKIV 201


>gi|384263778|ref|YP_005419485.1| tRNA pseudouridine synthase A [Bacillus amyloliquefaciens subsp.
           plantarum YAU B9601-Y2]
 gi|387896668|ref|YP_006326964.1| pseudouridylate synthase [Bacillus amyloliquefaciens Y2]
 gi|380497131|emb|CCG48169.1| tRNA pseudouridine synthase A [Bacillus amyloliquefaciens subsp.
           plantarum YAU B9601-Y2]
 gi|387170778|gb|AFJ60239.1| pseudouridylate synthase [Bacillus amyloliquefaciens Y2]
          Length = 247

 Score =  144 bits (364), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 85/200 (42%), Positives = 113/200 (56%), Gaps = 6/200 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  I YDG  + G+Q Q    T+Q  +EKAL  + K +   + +  + RTD+ VHA GQV
Sbjct: 4   KCTIAYDGHLFNGYQVQPGKRTVQSELEKALAVIHKTDGR-VPVYSSGRTDSDVHAAGQV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S    E    ALN LLP DI V+    A   FHARFSA  K Y Y +Y +   
Sbjct: 63  IHFDTPLSIPA-EKWPFALNALLPDDIAVKTAEIADDGFHARFSAVQKEYRYFVYTEKHP 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRAL-NPVKSIFRFDVIE 206
           D F+ HYAYH  Y LN   MREA+ + +G HDF++F      D A+ + V++I+  D  E
Sbjct: 122 DVFKRHYAYHFAYPLNVQKMREASRHLIGTHDFTSFCAA---DTAVQDKVRTIYELDWTE 178

Query: 207 MGALLQLEVEGSGFLYRQVR 226
            G  LQ+ + G+GFLY  VR
Sbjct: 179 TGDGLQMRITGNGFLYNMVR 198


>gi|423590246|ref|ZP_17566310.1| tRNA pseudouridine synthase A 2 [Bacillus cereus VD045]
 gi|401221068|gb|EJR27694.1| tRNA pseudouridine synthase A 2 [Bacillus cereus VD045]
          Length = 245

 Score =  144 bits (363), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 74/204 (36%), Positives = 118/204 (57%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG R+ GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA  
Sbjct: 4   YKLTIQYDGARFKGWQRLGNNDNTIQGKIESV---ISEMVGKEIEIIGCSRTDAGVHALN 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 61  QVANFQSDEKLVE-HKVKKYLNQYLPNDISITNVEEVHDRFHARYNSKAKTYLYKIWNEE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   KLN   M+ AA++ VG HDF+AF N +   +++  V+ ++  DV+
Sbjct: 120 HTNPFMRKYSMHVNKKLNVKSMKAAAKHLVGSHDFTAFSNAKSKKKSM--VREVYTLDVM 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 178 EEAGFVQIRVSGNGFLHNMVRKIV 201


>gi|229042328|ref|ZP_04190078.1| tRNA pseudouridine synthase A 2 [Bacillus cereus AH676]
 gi|228726987|gb|EEL78194.1| tRNA pseudouridine synthase A 2 [Bacillus cereus AH676]
          Length = 250

 Score =  144 bits (363), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 76/204 (37%), Positives = 115/204 (56%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG R+ GWQ    +  TIQ  +E  +  +   E E   ++G SRTD GVHA  
Sbjct: 9   YKLTIQYDGARFKGWQRLGNNDNTIQGKIESVISEMVGKETE---IIGCSRTDAGVHALN 65

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 66  QVANFQSDEKLVE-HKVKKYLNQYLPNDISITNVEEVHDRFHARYNSKAKTYLYKIWNEE 124

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   KLN   M+ AA++ VG HDF+AF N +   +++  V+ ++  DV+
Sbjct: 125 HTNPFMRKYSMHVNKKLNVKSMKAAAKHLVGSHDFTAFSNAKSKKKSM--VREVYTLDVM 182

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 183 EEAGFVQIRVSGNGFLHNMVRKIV 206


>gi|423632398|ref|ZP_17608144.1| tRNA pseudouridine synthase A 2 [Bacillus cereus VD154]
 gi|401261276|gb|EJR67438.1| tRNA pseudouridine synthase A 2 [Bacillus cereus VD154]
          Length = 245

 Score =  144 bits (363), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 74/204 (36%), Positives = 118/204 (57%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG R+ GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA  
Sbjct: 4   YKLTIQYDGVRFKGWQRLGNNDNTIQGKIESV---ISEMVGKEIEIIGCSRTDAGVHALN 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 61  QVANFQSDEKLVE-HKVKKYLNQYLPNDISITNVEEVHDRFHARYNSKAKTYLYKIWNEE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   KLN   M+ AA++ VG HDF+AF N +   +++  V+ ++  DV+
Sbjct: 120 HTNPFMRKYSMHVNKKLNVKSMKAAAKHLVGSHDFTAFSNAKSKKKSM--VREVYTLDVM 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 178 EEAGFVQIRVSGNGFLHNMVRKIV 201


>gi|423398620|ref|ZP_17375821.1| tRNA pseudouridine synthase A 2 [Bacillus cereus BAG2X1-1]
 gi|423409524|ref|ZP_17386673.1| tRNA pseudouridine synthase A 2 [Bacillus cereus BAG2X1-3]
 gi|401646788|gb|EJS64403.1| tRNA pseudouridine synthase A 2 [Bacillus cereus BAG2X1-1]
 gi|401655144|gb|EJS72679.1| tRNA pseudouridine synthase A 2 [Bacillus cereus BAG2X1-3]
          Length = 245

 Score =  144 bits (363), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 76/204 (37%), Positives = 115/204 (56%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG R+ GWQ    +  TIQ  +E  +  +   E E   ++G SRTD GVHA  
Sbjct: 4   YKLTIQYDGARFKGWQRLGNNDSTIQGKIESVISEMVGKETE---IIGCSRTDAGVHALN 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 61  QVANFKSDEKLVE-HKLKKYLNQYLPNDISITNVEEVSDRFHARYNSKAKTYLYKIWNEE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   KLN   M++AA++ VG HDF+AF N +   +++  V+ ++  DVI
Sbjct: 120 HTNPFMRKYSMHVNKKLNVESMKQAAKHLVGSHDFTAFSNAKSKKKSM--VREVYTLDVI 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    + + V G+GFL+  VR +V
Sbjct: 178 EEAGFVLIRVSGNGFLHNMVRKIV 201


>gi|153813476|ref|ZP_01966144.1| hypothetical protein RUMOBE_03896 [Ruminococcus obeum ATCC 29174]
 gi|149830420|gb|EDM85512.1| tRNA pseudouridine synthase A [Ruminococcus obeum ATCC 29174]
          Length = 250

 Score =  144 bits (363), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 81/198 (40%), Positives = 111/198 (56%), Gaps = 6/198 (3%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           LV+ YDGT Y+GWQ Q +  TIQ ++  AL   T L  E + ++GASRTD GVHA G VA
Sbjct: 10  LVVAYDGTNYSGWQIQPNGITIQGVLNDAL---TDLLGEKIEIMGASRTDAGVHALGNVA 66

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
            F T     G E I  ALN  LP DIR++      P+FH R+    K Y Y+I N     
Sbjct: 67  VFDTNTRIPG-EKISYALNQRLPEDIRIQLSEEVEPDFHPRYCDSEKTYEYRILNRKFPV 125

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
           P +  Y+Y   YKL+   MREA  Y +G+HDF++F       +  + V+++   D+   G
Sbjct: 126 PTERLYSYFYHYKLDVDKMREATSYLIGRHDFASFCGT--GAQVKSTVRTLTGIDIWRDG 183

Query: 209 ALLQLEVEGSGFLYRQVR 226
            ++ + V+G GFLY  VR
Sbjct: 184 DIVTIRVKGEGFLYNMVR 201


>gi|75761576|ref|ZP_00741532.1| tRNA pseudouridine synthase A [Bacillus thuringiensis serovar
           israelensis ATCC 35646]
 gi|218895546|ref|YP_002443957.1| tRNA pseudouridine synthase A [Bacillus cereus G9842]
 gi|228899172|ref|ZP_04063442.1| tRNA pseudouridine synthase A 2 [Bacillus thuringiensis IBL 4222]
 gi|228963570|ref|ZP_04124723.1| tRNA pseudouridine synthase A 2 [Bacillus thuringiensis serovar
           sotto str. T04001]
 gi|402562483|ref|YP_006605207.1| tRNA pseudouridine synthase A [Bacillus thuringiensis HD-771]
 gi|423363081|ref|ZP_17340580.1| tRNA pseudouridine synthase A 2 [Bacillus cereus VD022]
 gi|423565238|ref|ZP_17541514.1| tRNA pseudouridine synthase A 2 [Bacillus cereus MSX-A1]
 gi|434373539|ref|YP_006608183.1| tRNA pseudouridine synthase A [Bacillus thuringiensis HD-789]
 gi|74490946|gb|EAO54206.1| tRNA pseudouridine synthase A [Bacillus thuringiensis serovar
           israelensis ATCC 35646]
 gi|218543347|gb|ACK95741.1| tRNA pseudouridine synthase A [Bacillus cereus G9842]
 gi|228796088|gb|EEM43543.1| tRNA pseudouridine synthase A 2 [Bacillus thuringiensis serovar
           sotto str. T04001]
 gi|228860441|gb|EEN04831.1| tRNA pseudouridine synthase A 2 [Bacillus thuringiensis IBL 4222]
 gi|401076515|gb|EJP84869.1| tRNA pseudouridine synthase A 2 [Bacillus cereus VD022]
 gi|401194455|gb|EJR01435.1| tRNA pseudouridine synthase A 2 [Bacillus cereus MSX-A1]
 gi|401791135|gb|AFQ17174.1| tRNA pseudouridine synthase A [Bacillus thuringiensis HD-771]
 gi|401872096|gb|AFQ24263.1| tRNA pseudouridine synthase A [Bacillus thuringiensis HD-789]
          Length = 245

 Score =  144 bits (363), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 74/204 (36%), Positives = 118/204 (57%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG R+ GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA  
Sbjct: 4   YKLTIQYDGARFKGWQRLGNNDNTIQGKIESV---ISEMIGKEIEIIGCSRTDAGVHALN 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 61  QVANFQSDEKLVE-HKVKKYLNQYLPNDISITNVEEVHDRFHARYNSKAKTYLYKIWNEE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   KLN   M+ AA++ VG HDF+AF N +   +++  V+ ++  DV+
Sbjct: 120 HTNPFMRKYSMHVNKKLNVKSMKAAAKHLVGSHDFTAFSNAKSKKKSM--VREVYTLDVM 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 178 EEAGFVQIRVSGNGFLHNMVRKIV 201


>gi|374298040|ref|YP_005048231.1| pseudouridylate synthase I [Clostridium clariflavum DSM 19732]
 gi|359827534|gb|AEV70307.1| pseudouridylate synthase I [Clostridium clariflavum DSM 19732]
          Length = 244

 Score =  144 bits (363), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 83/202 (41%), Positives = 114/202 (56%), Gaps = 6/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L I YDGT Y GWQ Q++  T+Q  +EKA   +  L  E + + G+SRTD GVHA+GQV
Sbjct: 5   KLTIEYDGTNYHGWQAQSNAKTVQGTIEKA---IHGLTGEKIAITGSSRTDQGVHAYGQV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A+F T  S    E    ALN +LP DI +++      +FHAR+ +K K Y Y IYN++  
Sbjct: 62  ANFFTN-SNIPPERFSYALNRMLPDDIVIKKSEEVSMDFHARYCSKGKKYRYLIYNNSFP 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
                + AYH  ++L+   M  A E+F G HDFSAF     + +    V++IF   +   
Sbjct: 121 SAIYRNRAYHISHRLDLEKMNRAIEFFKGTHDFSAFRATGSSSKT--SVRTIFDVSLTSK 178

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
             L+  EV G GFLY  VR MV
Sbjct: 179 EDLICFEVSGDGFLYNMVRIMV 200


>gi|229188692|ref|ZP_04315731.1| tRNA pseudouridine synthase A 2 [Bacillus cereus ATCC 10876]
 gi|228594881|gb|EEK52661.1| tRNA pseudouridine synthase A 2 [Bacillus cereus ATCC 10876]
          Length = 250

 Score =  144 bits (363), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 74/204 (36%), Positives = 118/204 (57%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG R+ GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA  
Sbjct: 9   YKLTIQYDGARFKGWQRLGNNDNTIQGKIESV---ISEMIGKEIEIIGCSRTDAGVHALN 65

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 66  QVANFQSDEKLVE-HKVKKYLNQYLPNDISITNVEEVHDRFHARYNSKAKTYLYKIWNEE 124

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   KLN   M+ AA++ VG HDF+AF N +   +++  V+ ++  DV+
Sbjct: 125 HTNPFMRKYSMHVNKKLNVKSMKAAAKHLVGSHDFTAFSNAKSKKKSM--VREVYTLDVM 182

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 183 EEAGFVQIRVSGNGFLHNMVRKIV 206


>gi|255654196|ref|ZP_05399605.1| tRNA pseudouridine synthase 1 [Clostridium difficile QCD-23m63]
 gi|296449765|ref|ZP_06891534.1| tRNA-pseudouridine synthase I [Clostridium difficile NAP08]
 gi|296877828|ref|ZP_06901851.1| tRNA-pseudouridine synthase I [Clostridium difficile NAP07]
 gi|296261363|gb|EFH08189.1| tRNA-pseudouridine synthase I [Clostridium difficile NAP08]
 gi|296431170|gb|EFH16994.1| tRNA-pseudouridine synthase I [Clostridium difficile NAP07]
          Length = 243

 Score =  144 bits (363), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 77/202 (38%), Positives = 113/202 (55%), Gaps = 6/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           ++ I Y+G  Y GWQ Q     IQ  +E+A+  +TK   E + L+G+ RTD+GVHA GQ+
Sbjct: 5   KITIQYNGKNYCGWQKQLDSLGIQGTIERAIYDITK---EKVSLIGSGRTDSGVHAIGQI 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A+F T  S   +ESI  ALN  LP DI V +      +FH+R+SAK K Y Y +YN    
Sbjct: 62  ANFKTNSSI-SIESIPMALNAKLPKDISVIDACEVNDDFHSRYSAKGKTYKYLVYNSKFR 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           +P     +Y   Y+L+   M   A+  +G HDF  F++        + V++I+  D+I  
Sbjct: 121 NPILSEISYQVKYELDFDKMCSEAKLLLGTHDFKGFMS--SGSSVKDTVRTIYDIDIIRK 178

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
             L+  E+ G+GFLY  VR +V
Sbjct: 179 DDLITFEISGNGFLYNMVRIIV 200


>gi|423387092|ref|ZP_17364346.1| tRNA pseudouridine synthase A 2 [Bacillus cereus BAG1X1-2]
 gi|423531511|ref|ZP_17507956.1| tRNA pseudouridine synthase A 2 [Bacillus cereus HuB1-1]
 gi|401629986|gb|EJS47795.1| tRNA pseudouridine synthase A 2 [Bacillus cereus BAG1X1-2]
 gi|402443961|gb|EJV75853.1| tRNA pseudouridine synthase A 2 [Bacillus cereus HuB1-1]
          Length = 245

 Score =  144 bits (363), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 74/204 (36%), Positives = 118/204 (57%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG R+ GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA  
Sbjct: 4   YKLTIQYDGARFKGWQRLGNNDNTIQGKIESV---ISEMIGKEIEIIGCSRTDAGVHALN 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 61  QVANFQSDEKLVE-HKVKKYLNQYLPNDISITNVEEVHDRFHARYNSKAKTYLYKIWNEE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   KLN   M+ AA++ VG HDF+AF N +   +++  V+ ++  DV+
Sbjct: 120 HTNPFMRKYSMHVNKKLNVKSMKAAAKHLVGSHDFTAFSNAKSKKKSM--VREVYTLDVM 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 178 EEAGFVQIRVSGNGFLHNMVRKIV 201


>gi|406987977|gb|EKE08138.1| hypothetical protein ACD_17C00326G0001 [uncultured bacterium]
          Length = 220

 Score =  144 bits (363), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 78/176 (44%), Positives = 112/176 (63%), Gaps = 5/176 (2%)

Query: 54  VEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVAHFITPFSYDGLESIHAALNGLLPPD 113
           ++KAL  V    R  + L G+ RTD GVHA GQVAHF +  S+D   ++   LN LLP D
Sbjct: 1   MQKALQTVL---RHPVELTGSGRTDAGVHARGQVAHFDSNASFD-TATLRFHLNCLLPSD 56

Query: 114 IRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEY 173
           IRV++I  A   FHAR+S K KIY+Y ++   VM+PF+  Y+YH     N  L++ A+++
Sbjct: 57  IRVKKIEPAEGGFHARYSTKRKIYYYYLFTHPVMNPFRKLYSYHIRGPFNEKLLQTASQH 116

Query: 174 FVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMGALLQLEVEGSGFLYRQVRNMV 229
           FVG H+F++F N++ N    + +++IFR D+     LL LE EG GFLY+ VRN+ 
Sbjct: 117 FVGTHNFTSFANVKPNAPE-DQIRTIFRIDIRTSEDLLLLEFEGDGFLYKMVRNIT 171


>gi|375006952|ref|YP_004980582.1| tRNA pseudouridine synthase A 1 [Geobacillus thermoleovorans
           CCB_US3_UF5]
 gi|359285798|gb|AEV17482.1| tRNA pseudouridine synthase A 1 [Geobacillus thermoleovorans
           CCB_US3_UF5]
          Length = 258

 Score =  144 bits (363), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 82/203 (40%), Positives = 117/203 (57%), Gaps = 5/203 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           + +I YDGT ++G+Q Q    T+Q   E+ L R+ K  +  +R+  + RTD GVHA+GQV
Sbjct: 6   KCIIAYDGTHFSGYQIQPGKRTVQGEFEEVLRRMHKGTK--VRVAASGRTDAGVHAYGQV 63

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S    E    ALN  LP DI VR +  A  +FHARFSAK+K Y YK++  A  
Sbjct: 64  IHFDTPLSLSS-EQWKKALNAQLPDDIVVRFVQEADADFHARFSAKAKEYRYKVWTAAER 122

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ HY     Y L+ + M EA     G HDF++F + + +    + V++++R +V   
Sbjct: 123 DVFRRHYCAWHPYSLHISAMNEALGLLHGTHDFTSFCSAKTSIE--DRVRTMYRAEVKAD 180

Query: 208 GALLQLEVEGSGFLYRQVRNMVN 230
           G +L+    GSGFLY  VR +V 
Sbjct: 181 GPMLEFRFVGSGFLYNMVRIIVG 203


>gi|295109363|emb|CBL23316.1| pseudouridylate synthase I [Ruminococcus obeum A2-162]
          Length = 246

 Score =  144 bits (363), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 82/198 (41%), Positives = 111/198 (56%), Gaps = 6/198 (3%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           LV+ YDGT Y+GWQ Q +  TIQ ++  AL   + L  E + ++GASRTD GVHA G VA
Sbjct: 6   LVVAYDGTNYSGWQIQPNGITIQGVLNDAL---SDLLGEKIEIMGASRTDAGVHALGNVA 62

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
            F T     G E I  ALN  LP DIR++      P+FH R+    K Y Y+I N     
Sbjct: 63  VFDTNTRIPG-EKISYALNQRLPEDIRIQLSEEVEPDFHPRYCDSEKTYEYRILNRKFPV 121

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
           P +  Y+Y   YKL+   MREA  Y +G+HDF++F       +  + V++I   DV   G
Sbjct: 122 PTERLYSYFYHYKLDIEKMREATSYLIGRHDFASFCGT--GAQVKSTVRTITGIDVWRDG 179

Query: 209 ALLQLEVEGSGFLYRQVR 226
            ++ + V+G GFLY  VR
Sbjct: 180 DIVTIRVKGEGFLYNMVR 197


>gi|423646553|ref|ZP_17622123.1| tRNA pseudouridine synthase A 2 [Bacillus cereus VD169]
 gi|401287245|gb|EJR93046.1| tRNA pseudouridine synthase A 2 [Bacillus cereus VD169]
          Length = 245

 Score =  144 bits (362), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 76/204 (37%), Positives = 115/204 (56%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG R+ GWQ    +  TIQ  +E  +  +   E E   ++G SRTD GVHA  
Sbjct: 4   YKLTIQYDGARFKGWQRLGNNNNTIQGKIESVISEMVGKETE---IIGCSRTDAGVHALN 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 61  QVANFQSDEKLVE-HKVKKYLNQYLPNDISITNVEEVHDRFHARYNSKAKTYLYKIWNEE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   KLN   M+ AA++ VG HDF+AF N +   +++  V+ ++  DV+
Sbjct: 120 HTNPFMRKYSMHVNKKLNVKSMKAAAKHLVGSHDFTAFSNAKSKKKSM--VREVYTLDVM 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 178 EEAGFVQIRVSGNGFLHNMVRKIV 201


>gi|157690932|ref|YP_001485394.1| tRNA pseudouridine synthase A [Bacillus pumilus SAFR-032]
 gi|166991159|sp|A8F9B7.1|TRUA_BACP2 RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|157679690|gb|ABV60834.1| tRNA-pseudouridine synthase I [Bacillus pumilus SAFR-032]
          Length = 247

 Score =  144 bits (362), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 82/202 (40%), Positives = 113/202 (55%), Gaps = 4/202 (1%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
            K +  + YDGT + G+Q Q    T+Q  +E AL ++ K + E + +V + RTD+GVHA 
Sbjct: 1   MKVKCTVSYDGTHFKGYQVQPGQRTVQTEIESALAKMHK-QDELVPIVASGRTDSGVHAK 59

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           GQV HF TP S   +E    ALN LLP DIRV +       FHARFS  SK Y YK+  +
Sbjct: 60  GQVIHFDTPLSIP-MERWPFALNSLLPDDIRVLKAEEVDESFHARFSVVSKEYRYKVSTE 118

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
              + F   YA H  Y+L+   MREAA Y +G HDF++F     N    + V+ I+  + 
Sbjct: 119 THQNVFTRQYACHFPYRLDADKMREAAGYLIGTHDFTSFCAA--NTEVQDKVREIYTLEW 176

Query: 205 IEMGALLQLEVEGSGFLYRQVR 226
             +   L++ V G+GFLY  VR
Sbjct: 177 KNVSDGLEMRVRGNGFLYNMVR 198


>gi|354559009|ref|ZP_08978261.1| tRNA pseudouridine synthase A [Desulfitobacterium metallireducens
           DSM 15288]
 gi|353544179|gb|EHC13634.1| tRNA pseudouridine synthase A [Desulfitobacterium metallireducens
           DSM 15288]
          Length = 245

 Score =  144 bits (362), Expect = 4e-32,   Method: Compositional matrix adjust.
 Identities = 82/203 (40%), Positives = 114/203 (56%), Gaps = 7/203 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPP-TIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           +L I YDG+RY GWQ Q     TIQ  +E  L   +K+  E + LVG  RTD+GVHA   
Sbjct: 5   KLTIAYDGSRYKGWQKQKDNDLTIQGKIETVL---SKMTGESILLVGCGRTDSGVHAENY 61

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           +A+F T  +    E I   L   LP DI V+ I      FHAR++ KSK Y Y+I  D  
Sbjct: 62  IANFHTKCALSPNE-IVDYLYEYLPEDIVVKSIDEIAERFHARYNVKSKTYVYRINTDKF 120

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
            D F   Y YH   KLN   M+ A+E  +G HDF +F N++  D++   +++I   ++ E
Sbjct: 121 RDVFNRKYTYHLADKLNLREMKSASEVLIGTHDFQSFTNLKSRDKS--TIRTINYINIGE 178

Query: 207 MGALLQLEVEGSGFLYRQVRNMV 229
              LL++EV G+GFL+  VR +V
Sbjct: 179 QDGLLEIEVNGNGFLWNMVRIIV 201


>gi|229077782|ref|ZP_04210409.1| tRNA pseudouridine synthase A 2 [Bacillus cereus Rock4-2]
 gi|228705510|gb|EEL57869.1| tRNA pseudouridine synthase A 2 [Bacillus cereus Rock4-2]
          Length = 245

 Score =  144 bits (362), Expect = 4e-32,   Method: Compositional matrix adjust.
 Identities = 73/204 (35%), Positives = 118/204 (57%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG R+ GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA  
Sbjct: 4   YKLTIQYDGARFKGWQRLGNNDNTIQGKIESV---ISEMVGKEIEIIGCSRTDAGVHALN 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 61  QVANFQSDEKLVE-HKVKKYLNQYLPNDISITNVEEVHDRFHARYNSKAKTYLYKIWNEE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   KLN   M+ AA++ +G HDF+AF N +   +++  V+ ++  DV+
Sbjct: 120 HTNPFMRKYSMHVNKKLNVKSMKAAAKHLIGSHDFTAFSNAKSKKKSM--VREVYTLDVM 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 178 EEAGFVQIRVSGNGFLHNMVRKIV 201


>gi|62184804|ref|YP_219589.1| tRNA pseudouridine synthase A [Chlamydophila abortus S26/3]
 gi|81313017|sp|Q5L6V3.1|TRUA_CHLAB RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|62147871|emb|CAH63617.1| putative tRNA pseudouridine synthase a [Chlamydophila abortus
           S26/3]
          Length = 268

 Score =  144 bits (362), Expect = 4e-32,   Method: Compositional matrix adjust.
 Identities = 75/203 (36%), Positives = 122/203 (60%), Gaps = 7/203 (3%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           +++ Y GT YAGWQ Q +  +IQ ++E +L +V     + + +  + RTD  VHA+GQVA
Sbjct: 6   ILLAYQGTAYAGWQRQPNDLSIQEVIENSLAQVVG---KRIPVTSSGRTDAEVHAFGQVA 62

Query: 89  HFITPF--SYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           HF  P    +    SI   LN LLP DI +R++     +FH+RFSA +K Y Y +     
Sbjct: 63  HFSQPDHPQFSQASSIKKMLNALLPKDIVIRDVVLGDDKFHSRFSAIAKEYRYVLTRSPK 122

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
             P++ ++AY+  + L T LM+E A+Y +G HDF++F N  R+    + ++++F  D+++
Sbjct: 123 PLPWERYFAYYPRHHLKTDLMQEGAQYLLGTHDFASFANHGRD--YTSTIRTLFNLDIVD 180

Query: 207 MGALLQLEVEGSGFLYRQVRNMV 229
            G  + +   G+GFLY+ VRN+V
Sbjct: 181 HGETVTIICRGNGFLYKMVRNIV 203


>gi|392408581|ref|YP_006445188.1| pseudouridylate synthase I [Desulfomonile tiedjei DSM 6799]
 gi|390621717|gb|AFM22924.1| pseudouridylate synthase I [Desulfomonile tiedjei DSM 6799]
          Length = 246

 Score =  144 bits (362), Expect = 4e-32,   Method: Compositional matrix adjust.
 Identities = 83/207 (40%), Positives = 117/207 (56%), Gaps = 8/207 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           K+R+ + YDGT Y GWQ Q S PT+Q  +E AL R+  +    +R+ GA RTD GVHA G
Sbjct: 3   KFRITVEYDGTAYHGWQLQKSLPTVQGALEGALSRILTVP---VRVHGAGRTDAGVHATG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVAHF   ++   LE++  A N LLPPD+ VR + +A  +FHAR SA+SK Y Y I N  
Sbjct: 60  QVAHFSADWN-KSLEALQKACNALLPPDVVVRNLVSAPEDFHARHSAQSKTYVYTILNGP 118

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIF--RFD 203
           +      HY +H  + L+   M+ AA+   G HDF+AF +    +   + V+ I    + 
Sbjct: 119 LRCALNRHYTWHIPFSLDVDAMKHAAKLLEGTHDFAAFGS--PTEGTPSTVRRILSAHWS 176

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMVN 230
                  LQ  + G+GFL   VR++V 
Sbjct: 177 NGNSSDTLQFTIIGTGFLRYMVRSLVG 203


>gi|49476819|ref|YP_034755.1| tRNA pseudouridine synthase A [Bacillus thuringiensis serovar
           konkukian str. 97-27]
 gi|62901429|sp|Q6HNW5.1|TRUA2_BACHK RecName: Full=tRNA pseudouridine synthase A 2; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I 2; AltName: Full=tRNA-uridine
           isomerase I 2
 gi|49328375|gb|AAT59021.1| tRNA pseudouridine synthase I (tRNA pseudouridine synthase A)
           [Bacillus thuringiensis serovar konkukian str. 97-27]
          Length = 245

 Score =  144 bits (362), Expect = 4e-32,   Method: Compositional matrix adjust.
 Identities = 76/204 (37%), Positives = 115/204 (56%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG R+ GWQ    +  TIQ  +E  +  +   E E   ++G SRTD GVHA  
Sbjct: 4   YKLTIQYDGARFKGWQRLGNNDNTIQGKIESVISEMVGKETE---IIGCSRTDAGVHALN 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K K Y YKI+N+ 
Sbjct: 61  QVANFQSDEKLVE-HKVKKYLNQYLPNDISITNVEEVHNRFHARYNSKVKTYLYKIWNEE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   KLN   M+EAA++ VG HDF+AF N +   +++  V+ ++  +V+
Sbjct: 120 HTNPFMRKYSMHVNKKLNVKSMKEAAKHLVGSHDFTAFSNAKSKKKSM--VREVYSLEVM 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 178 EEAGFVQIRVSGNGFLHNMVRKIV 201


>gi|194017442|ref|ZP_03056053.1| tRNA pseudouridine synthase A [Bacillus pumilus ATCC 7061]
 gi|194010714|gb|EDW20285.1| tRNA pseudouridine synthase A [Bacillus pumilus ATCC 7061]
          Length = 247

 Score =  144 bits (362), Expect = 4e-32,   Method: Compositional matrix adjust.
 Identities = 82/202 (40%), Positives = 113/202 (55%), Gaps = 4/202 (1%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
            K +  + YDGT + G+Q Q    T+Q  +E AL R+ K + E + +V + RTD+GVHA 
Sbjct: 1   MKVKCTVSYDGTHFKGYQVQPGQRTVQTEIESALARMHK-QDELIPIVASGRTDSGVHAK 59

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           GQV HF TP S   +E    ALN LLP DIRV +       FHARFS  SK Y YK+  +
Sbjct: 60  GQVIHFDTPLSIP-MERWPFALNSLLPDDIRVLKAEEVDESFHARFSVVSKEYRYKVSTE 118

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
              + F   YA H  Y+L+   MREAA + +G HDF++F     N    + V+ I+  + 
Sbjct: 119 THQNVFTRQYACHFPYRLDADKMREAAGHLIGTHDFTSFCAA--NTEVQDKVREIYTLEW 176

Query: 205 IEMGALLQLEVEGSGFLYRQVR 226
             +   L++ V G+GFLY  VR
Sbjct: 177 KNVSDGLEMRVRGNGFLYNMVR 198


>gi|338733687|ref|YP_004672160.1| tRNA pseudouridine synthase A 2 [Simkania negevensis Z]
 gi|336483070|emb|CCB89669.1| tRNA pseudouridine synthase A 2 [Simkania negevensis Z]
          Length = 247

 Score =  144 bits (362), Expect = 4e-32,   Method: Compositional matrix adjust.
 Identities = 74/202 (36%), Positives = 119/202 (58%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L++ YDG+ Y GWQ      +I+  +++ L    K+ +++++L  ASRTD GVHA  QV
Sbjct: 6   KLILSYDGSAYLGWQASNVGVSIEGTLKEVL---EKILQQEVQLQAASRTDAGVHAEAQV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            +F      + LE +H +LN LLP DIRV  +  A  +FH    +K K YHY++    V 
Sbjct: 63  VNFFLEKPRN-LEHLHKSLNQLLPKDIRVAIVEEAPDDFHPTLKSKGKEYHYRLTRSHVQ 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
            PF   +A+H  + L+   M  A ++F+GKHDF AF N   + +  + +++++R D+I  
Sbjct: 122 LPFDRLFAWHYPFSLDLAKMETATKFFIGKHDFQAFGNAA-DPKPKDTIRTLYRLDIISS 180

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              L+ E+ G+ FLY+ VRN+V
Sbjct: 181 EEELRFEIHGNNFLYKMVRNLV 202


>gi|355626486|ref|ZP_09048761.1| hypothetical protein HMPREF1020_02840 [Clostridium sp. 7_3_54FAA]
 gi|354820806|gb|EHF05211.1| hypothetical protein HMPREF1020_02840 [Clostridium sp. 7_3_54FAA]
          Length = 341

 Score =  143 bits (361), Expect = 5e-32,   Method: Compositional matrix adjust.
 Identities = 79/201 (39%), Positives = 117/201 (58%), Gaps = 6/201 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + +L + YDGT Y GWQ Q +  TI+ ++ KAL   T L +E + ++GASRTD+GVHA G
Sbjct: 3   RIKLTVAYDGTAYCGWQIQPNGVTIEEVLNKAL---TGLLKEPVTVIGASRTDSGVHARG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
            VA F T     G + I  ALN  LP DIRV+        FH R +  +K Y YKI N  
Sbjct: 60  NVAVFDTESRIPG-DKICFALNQRLPDDIRVQASEEVPLSFHPRKANCTKTYEYKILNRK 118

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           +  P +  Y++   + L+   M++AA + VG+HDF +F  ++   +A   V++I+  DV 
Sbjct: 119 ISMPLERLYSHFCYFNLDVEKMKQAAAFLVGEHDFKSFCTVR--TQAEETVRTIYSLDVS 176

Query: 206 EMGALLQLEVEGSGFLYRQVR 226
           + G ++ + + GSGFLY  VR
Sbjct: 177 KDGDMITIRISGSGFLYNMVR 197


>gi|332798239|ref|YP_004459738.1| tRNA pseudouridine synthase A [Tepidanaerobacter acetatoxydans Re1]
 gi|332695974|gb|AEE90431.1| tRNA pseudouridine synthase A [Tepidanaerobacter acetatoxydans Re1]
          Length = 243

 Score =  143 bits (361), Expect = 5e-32,   Method: Compositional matrix adjust.
 Identities = 77/199 (38%), Positives = 117/199 (58%), Gaps = 6/199 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           ++++ Y+GT Y+GWQ Q +  +IQ ++E A+  +T    E + ++G+ RTD GVHA GQV
Sbjct: 4   KILLEYEGTAYSGWQRQKNAISIQEVLENAIKSITG---EAVNVIGSGRTDAGVHALGQV 60

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A+F T      +E +  A+N  LP DI V+       +FHARF AK+KIY Y IYN    
Sbjct: 61  ANFKTQTKIP-IEKLPYAINSKLPEDIVVKHAEIVPEDFHARFWAKAKIYTYTIYNAKFP 119

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
            P    Y+Y     LN   M++AA+  +G HDF++F  +  N    + V+ I R +V + 
Sbjct: 120 SPLLKRYSYFYPRPLNVRAMKKAADMLIGTHDFASF--MASNSPVKSTVRCIERLEVFQN 177

Query: 208 GALLQLEVEGSGFLYRQVR 226
           G +++ E+E +GFLY  VR
Sbjct: 178 GDIVKFEIEANGFLYNMVR 196


>gi|438001157|ref|YP_007270900.1| tRNA pseudouridine synthase A [Tepidanaerobacter acetatoxydans Re1]
 gi|432177951|emb|CCP24924.1| tRNA pseudouridine synthase A [Tepidanaerobacter acetatoxydans Re1]
          Length = 256

 Score =  143 bits (361), Expect = 5e-32,   Method: Compositional matrix adjust.
 Identities = 77/199 (38%), Positives = 117/199 (58%), Gaps = 6/199 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           ++++ Y+GT Y+GWQ Q +  +IQ ++E A+  +T    E + ++G+ RTD GVHA GQV
Sbjct: 17  KILLEYEGTAYSGWQRQKNAISIQEVLENAIKSITG---EAVNVIGSGRTDAGVHALGQV 73

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A+F T      +E +  A+N  LP DI V+       +FHARF AK+KIY Y IYN    
Sbjct: 74  ANFKTQTKIP-IEKLPYAINSKLPEDIVVKHAEIVPEDFHARFWAKAKIYTYTIYNAKFP 132

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
            P    Y+Y     LN   M++AA+  +G HDF++F  +  N    + V+ I R +V + 
Sbjct: 133 SPLLKRYSYFYPRPLNVRAMKKAADMLIGTHDFASF--MASNSPVKSTVRCIERLEVFQN 190

Query: 208 GALLQLEVEGSGFLYRQVR 226
           G +++ E+E +GFLY  VR
Sbjct: 191 GDIVKFEIEANGFLYNMVR 209


>gi|154684666|ref|YP_001419827.1| tRNA pseudouridine synthase A [Bacillus amyloliquefaciens FZB42]
 gi|166228678|sp|A7Z0S0.1|TRUA_BACA2 RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|154350517|gb|ABS72596.1| TruA [Bacillus amyloliquefaciens FZB42]
          Length = 247

 Score =  143 bits (361), Expect = 5e-32,   Method: Compositional matrix adjust.
 Identities = 86/200 (43%), Positives = 113/200 (56%), Gaps = 6/200 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  I YDG  + G+Q Q    T+Q  +EKAL  + K +   + +  + RTD+ VHA GQV
Sbjct: 4   KCTIAYDGHLFNGYQVQPGKRTVQSELEKALAVIHKTDGR-VPVYSSGRTDSDVHAAGQV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S  G E    ALN LLP DI V+    A   FHARFSA  K Y Y +Y +   
Sbjct: 63  IHFDTPLSIPG-EKWPFALNALLPDDIAVKTAEIADDGFHARFSAVQKEYRYFVYTEKHP 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRAL-NPVKSIFRFDVIE 206
           D F+ HYAYH  Y LN   MREA+ + VG HDF++F      D A+ + V++I+  D  E
Sbjct: 122 DVFKRHYAYHFAYPLNVQKMREASRHLVGTHDFTSFCAA---DTAVQDKVRTIYELDWTE 178

Query: 207 MGALLQLEVEGSGFLYRQVR 226
               LQ+ + G+GFLY  VR
Sbjct: 179 TVDGLQMRITGNGFLYNMVR 198


>gi|323483257|ref|ZP_08088647.1| tRNA pseudouridine synthase A [Clostridium symbiosum WAL-14163]
 gi|323691247|ref|ZP_08105522.1| pseudouridylate synthase [Clostridium symbiosum WAL-14673]
 gi|323403355|gb|EGA95663.1| tRNA pseudouridine synthase A [Clostridium symbiosum WAL-14163]
 gi|323504587|gb|EGB20374.1| pseudouridylate synthase [Clostridium symbiosum WAL-14673]
          Length = 341

 Score =  143 bits (361), Expect = 5e-32,   Method: Compositional matrix adjust.
 Identities = 79/201 (39%), Positives = 117/201 (58%), Gaps = 6/201 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + +L + YDGT Y GWQ Q +  TI+ ++ KAL   T L +E + ++GASRTD+GVHA G
Sbjct: 3   RIKLTVAYDGTAYCGWQIQPNGVTIEEVLNKAL---TGLLKEPVTVIGASRTDSGVHARG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
            VA F T     G + I  ALN  LP DIRV+        FH R +  +K Y YKI N  
Sbjct: 60  NVAVFDTESRIPG-DKICFALNQRLPDDIRVQASEEVPLSFHPRKANCTKTYEYKILNRK 118

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           +  P +  Y++   + L+   M++AA + VG+HDF +F  ++   +A   V++I+  DV 
Sbjct: 119 ISMPLERLYSHFCYFNLDVEKMKQAAAFLVGEHDFKSFCTVR--TQAEETVRTIYSLDVS 176

Query: 206 EMGALLQLEVEGSGFLYRQVR 226
           + G ++ + + GSGFLY  VR
Sbjct: 177 KDGDMITIRISGSGFLYNMVR 197


>gi|442803780|ref|YP_007371929.1| tRNA pseudouridine synthase A [Clostridium stercorarium subsp.
           stercorarium DSM 8532]
 gi|442739630|gb|AGC67319.1| tRNA pseudouridine synthase A [Clostridium stercorarium subsp.
           stercorarium DSM 8532]
          Length = 266

 Score =  143 bits (361), Expect = 5e-32,   Method: Compositional matrix adjust.
 Identities = 85/207 (41%), Positives = 114/207 (55%), Gaps = 7/207 (3%)

Query: 24  GFK-WRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVH 82
           GFK  +LVI YDG+ + GWQ Q +  ++Q  +EKA+ ++T    E + + G+ RTD GVH
Sbjct: 2   GFKRIKLVIEYDGSFFHGWQVQNNQLSVQGEIEKAIFKITG---EKVSVTGSGRTDAGVH 58

Query: 83  AWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIY 142
           A+GQVAHF T  S    E     LN +LPP I V       P+FHARFSA  K Y YK+ 
Sbjct: 59  AFGQVAHFDTQ-SRIPAEKFAVVLNTVLPPSIAVISSKEVSPDFHARFSAIKKTYKYKVL 117

Query: 143 NDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRF 202
           N  +  P     A+H  + L+   M  AA YF+G+HDF+AF     N +  N V+ I+  
Sbjct: 118 NRPMRSPIMDKRAWHVPWPLDIESMNRAAAYFIGRHDFTAFCASGHNVK--NFVREIYVS 175

Query: 203 DVIEMGALLQLEVEGSGFLYRQVRNMV 229
           +  E        V G+GFLY  VR M 
Sbjct: 176 EWTEEEGCFVYTVTGNGFLYNMVRIMT 202


>gi|332982675|ref|YP_004464116.1| tRNA pseudouridine synthase A [Mahella australiensis 50-1 BON]
 gi|332700353|gb|AEE97294.1| tRNA pseudouridine synthase A [Mahella australiensis 50-1 BON]
          Length = 245

 Score =  143 bits (361), Expect = 6e-32,   Method: Compositional matrix adjust.
 Identities = 80/202 (39%), Positives = 114/202 (56%), Gaps = 6/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L + YDGT YAGWQ+Q +  TIQ +VE+A   +  L  +   ++ A RTD GVHA GQV
Sbjct: 6   KLTLQYDGTAYAGWQYQKNALTIQQVVEEA---IESLTGQHSTVIAAGRTDRGVHALGQV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            +F T  +      ++A LN +LP DIRV +    +P FHARF AK K+Y Y I+N    
Sbjct: 63  TNFKTESNIPTDRWLYA-LNAVLPEDIRVIDAQDVLPSFHARFDAKGKLYRYIIWNAPYS 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
                +++ H    L+   M+ AA YFVG HDFS+F       R  + V++I+   +   
Sbjct: 122 SALLRNFSLHVARPLDADAMKRAALYFVGTHDFSSFQASGSTVR--DTVRNIWDISIQTE 179

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
           G ++ + + G GFLY  VR MV
Sbjct: 180 GKMISISISGDGFLYNMVRIMV 201


>gi|302876500|ref|YP_003845133.1| tRNA pseudouridine synthase A [Clostridium cellulovorans 743B]
 gi|307687172|ref|ZP_07629618.1| tRNA pseudouridine synthase A [Clostridium cellulovorans 743B]
 gi|302579357|gb|ADL53369.1| tRNA pseudouridine synthase A [Clostridium cellulovorans 743B]
          Length = 244

 Score =  143 bits (360), Expect = 6e-32,   Method: Compositional matrix adjust.
 Identities = 83/200 (41%), Positives = 118/200 (59%), Gaps = 8/200 (4%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L++ YDGT+Y+GWQ Q +  T+Q  +EKA+  +TK   E + L+G SRTD+GVHA G  
Sbjct: 5   KLILEYDGTKYSGWQKQKNSVTVQGTIEKAIEAITK---ESVELIGCSRTDSGVHAKGYT 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPE-FHARFSAKSKIYHYKIYNDAV 146
           A+F T  S   +E  + A+N  LP DI +   S  VPE FH+RF+   K Y Y + N   
Sbjct: 62  ANFFTN-SKIPIERFYIAINAKLPEDIVILS-SEEVPEDFHSRFNCIGKTYCYSVLNRVS 119

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
                 +Y YH   KL+   M++AAE FVG +DF+AF N+       + V++I R +V E
Sbjct: 120 YPAMYRNYLYHVPRKLSIDEMKKAAESFVGTYDFNAFRNL--GTEVASTVRTIHRIEVEE 177

Query: 207 MGALLQLEVEGSGFLYRQVR 226
            G ++ + V G GFLY  VR
Sbjct: 178 HGDIINILVTGDGFLYNMVR 197


>gi|260893342|ref|YP_003239439.1| tRNA pseudouridine synthase A [Ammonifex degensii KC4]
 gi|260865483|gb|ACX52589.1| tRNA pseudouridine synthase A [Ammonifex degensii KC4]
          Length = 259

 Score =  143 bits (360), Expect = 6e-32,   Method: Compositional matrix adjust.
 Identities = 87/199 (43%), Positives = 114/199 (57%), Gaps = 8/199 (4%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L + YDGT ++G+Q Q    T+Q ++E+AL R+TK   E  ++ GA RTD GVHA GQV 
Sbjct: 8   LKVAYDGTAFSGFQRQPGLRTVQGVLEEALARLTK---ETCQVKGAGRTDAGVHAEGQVV 64

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPE-FHARFSAKSKIYHYKIYNDAVM 147
            F T  S      +  ALNGLLPPD+ V   +A VPE FH R+ A SK+Y Y  +  AV 
Sbjct: 65  SFRTASSIP-TPRLVPALNGLLPPDVAVLA-AAEVPEQFHPRYDAVSKVYRYTFFRRAVR 122

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
            P    YA H    L+   MREAA Y  G+HDF AF N  R  +  + V+++F   + E 
Sbjct: 123 CPLTRFYALHVPEPLDVERMREAAAYLGGRHDFRAFQNTGRPVK--SSVRTVFSCRLEEA 180

Query: 208 GALLQLEVEGSGFLYRQVR 226
           G  L   +E  GFLY+ VR
Sbjct: 181 GPFLYFWIEADGFLYQMVR 199


>gi|169335662|ref|ZP_02862855.1| hypothetical protein ANASTE_02082 [Anaerofustis stercorihominis DSM
           17244]
 gi|169258400|gb|EDS72366.1| tRNA pseudouridine synthase A [Anaerofustis stercorihominis DSM
           17244]
          Length = 244

 Score =  143 bits (360), Expect = 6e-32,   Method: Compositional matrix adjust.
 Identities = 76/201 (37%), Positives = 117/201 (58%), Gaps = 6/201 (2%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           + I YDG  Y GWQ Q +  +++   EK    + KL +E+++L G+ RTD+GVHA GQ A
Sbjct: 6   ITIEYDGKNYVGWQMQNNGISVE---EKVKTAIEKLVKEEVKLYGSGRTDSGVHALGQAA 62

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
            F T  S    + +   +N  LP DIRV +      +FHAR+SAK K Y Y IYN ++M+
Sbjct: 63  SFYTN-SNISADKLPYGINSFLPEDIRVIKAEEKEEDFHARYSAKGKEYVYLIYNRSIMN 121

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
           P     A H  YKL+   M+ A++  +G HDF+ F+    + ++   V+ I+  D+ +  
Sbjct: 122 PIYKGRASHVFYKLDLDKMKRASKSLIGIHDFAGFMGSGSDVKS--TVREIYDIDITKDN 179

Query: 209 ALLQLEVEGSGFLYRQVRNMV 229
            L+++++ GSGFLY  VR +V
Sbjct: 180 DLIKIKISGSGFLYNMVRIIV 200


>gi|228937724|ref|ZP_04100358.1| tRNA pseudouridine synthase A 2 [Bacillus thuringiensis serovar
           berliner ATCC 10792]
 gi|228970604|ref|ZP_04131252.1| tRNA pseudouridine synthase A 2 [Bacillus thuringiensis serovar
           thuringiensis str. T01001]
 gi|228977183|ref|ZP_04137582.1| tRNA pseudouridine synthase A 2 [Bacillus thuringiensis Bt407]
 gi|228782492|gb|EEM30671.1| tRNA pseudouridine synthase A 2 [Bacillus thuringiensis Bt407]
 gi|228789070|gb|EEM37001.1| tRNA pseudouridine synthase A 2 [Bacillus thuringiensis serovar
           thuringiensis str. T01001]
 gi|228821932|gb|EEM67926.1| tRNA pseudouridine synthase A 2 [Bacillus thuringiensis serovar
           berliner ATCC 10792]
          Length = 250

 Score =  143 bits (360), Expect = 7e-32,   Method: Compositional matrix adjust.
 Identities = 73/204 (35%), Positives = 117/204 (57%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG R+ GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA  
Sbjct: 9   YKLTIQYDGARFKGWQRLGNNDNTIQGKIESV---ISEMIGKEIEIIGCSRTDAGVHALN 65

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 66  QVANFQSDEKLVE-HKVKKYLNQYLPNDISITNVEEVYDRFHARYNSKAKTYLYKIWNEE 124

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   KLN   M+ AA++  G HDF+AF N +   +++  V+ ++  DV+
Sbjct: 125 HTNPFMRKYSMHVNKKLNVESMKAAAKHLAGSHDFTAFSNAKSKKKSM--VREVYTLDVM 182

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 183 EEAGFVQIRVSGNGFLHNMVRKIV 206


>gi|295099211|emb|CBK88300.1| pseudouridylate synthase I [Eubacterium cylindroides T2-87]
          Length = 243

 Score =  143 bits (360), Expect = 7e-32,   Method: Compositional matrix adjust.
 Identities = 82/203 (40%), Positives = 119/203 (58%), Gaps = 6/203 (2%)

Query: 27  WRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           +++++ YDG+ YAGWQ Q +   IQ ++EKAL   T + ++++ +  + RTD  VHA GQ
Sbjct: 3   YKVILAYDGSNYAGWQKQENALGIQEVIEKAL---TTIHKKEIFITASGRTDAKVHALGQ 59

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           V HF       G +    ALN LLP DIR+ ++S    +FHARFSAKSK Y Y I     
Sbjct: 60  VFHFEADKKI-GPDRYKMALNALLPEDIRILKVSMEADDFHARFSAKSKRYDY-ICTYEK 117

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
            +PF + Y     + LN   MR+A+EY VG HDF++F + + + R    +K+I R D+ E
Sbjct: 118 ENPFVYKYKEILNHTLNIEAMRKASEYLVGTHDFTSFSSSKIDPRKPR-IKTITRIDIFE 176

Query: 207 MGALLQLEVEGSGFLYRQVRNMV 229
               ++   EG+GFL  QVR M 
Sbjct: 177 ENQDIRFIYEGTGFLRYQVRMMT 199


>gi|384184501|ref|YP_005570397.1| tRNA pseudouridine synthase A [Bacillus thuringiensis serovar
           chinensis CT-43]
 gi|410672790|ref|YP_006925161.1| tRNA pseudouridine synthase A 2 [Bacillus thuringiensis Bt407]
 gi|452196796|ref|YP_007476877.1| tRNA pseudouridine synthase A [Bacillus thuringiensis serovar
           thuringiensis str. IS5056]
 gi|326938210|gb|AEA14106.1| tRNA pseudouridine synthase A [Bacillus thuringiensis serovar
           chinensis CT-43]
 gi|409171919|gb|AFV16224.1| tRNA pseudouridine synthase A 2 [Bacillus thuringiensis Bt407]
 gi|452102189|gb|AGF99128.1| tRNA pseudouridine synthase A [Bacillus thuringiensis serovar
           thuringiensis str. IS5056]
          Length = 245

 Score =  143 bits (360), Expect = 8e-32,   Method: Compositional matrix adjust.
 Identities = 73/204 (35%), Positives = 117/204 (57%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG R+ GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA  
Sbjct: 4   YKLTIQYDGARFKGWQRLGNNDNTIQGKIESV---ISEMIGKEIEIIGCSRTDAGVHALN 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 61  QVANFQSDEKLVE-HKVKKYLNQYLPNDISITNVEEVYDRFHARYNSKAKTYLYKIWNEE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   KLN   M+ AA++  G HDF+AF N +   +++  V+ ++  DV+
Sbjct: 120 HTNPFMRKYSMHVNKKLNVESMKAAAKHLAGSHDFTAFSNAKSKKKSM--VREVYTLDVM 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 178 EEAGFVQIRVSGNGFLHNMVRKIV 201


>gi|52078642|ref|YP_077433.1| tRNA pseudouridine synthase A [Bacillus licheniformis DSM 13 = ATCC
           14580]
 gi|319649083|ref|ZP_08003291.1| tRNA pseudouridine synthase A [Bacillus sp. BT1B_CT2]
 gi|404487512|ref|YP_006711618.1| tRNA pseudouridine synthase A [Bacillus licheniformis DSM 13 = ATCC
           14580]
 gi|423680541|ref|ZP_17655380.1| tRNA pseudouridine synthetase A [Bacillus licheniformis WX-02]
 gi|62901269|sp|Q65P74.1|TRUA_BACLD RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|52001853|gb|AAU21795.1| pseudouridylate synthase I [Bacillus licheniformis DSM 13 = ATCC
           14580]
 gi|52346506|gb|AAU39140.1| tRNA pseudouridine synthase TruA [Bacillus licheniformis DSM 13 =
           ATCC 14580]
 gi|317388783|gb|EFV69602.1| tRNA pseudouridine synthase A [Bacillus sp. BT1B_CT2]
 gi|383441647|gb|EID49356.1| tRNA pseudouridine synthetase A [Bacillus licheniformis WX-02]
          Length = 247

 Score =  142 bits (359), Expect = 8e-32,   Method: Compositional matrix adjust.
 Identities = 83/202 (41%), Positives = 117/202 (57%), Gaps = 4/202 (1%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
            + +  I YDG  + G+Q Q    TIQ  +EKAL  + K  +E + +V + RTD+GVHA 
Sbjct: 1   MRMKCTISYDGHLFYGYQVQPGQRTIQDELEKALQTLHK-AKERIPVVSSGRTDSGVHAV 59

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           GQ  HF +P S    +  +A LN LLP DI VR+  A   +FHARFSAK K Y Y IY  
Sbjct: 60  GQTIHFDSPLSIPEAKWPYA-LNALLPDDISVRKAEAVNDQFHARFSAKRKEYRYMIYRG 118

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
              D F+ +YAYH  Y L+   ++EA+ Y VG HDF++F   +   +  + V+++   + 
Sbjct: 119 RHPDVFKRYYAYHVPYDLDMEKVKEASRYLVGTHDFTSFCATKTEVK--DKVRTVHELEW 176

Query: 205 IEMGALLQLEVEGSGFLYRQVR 226
            + G  LQ+ + GSGFLY  VR
Sbjct: 177 SDTGDGLQMRIVGSGFLYNMVR 198


>gi|423434091|ref|ZP_17411072.1| tRNA pseudouridine synthase A 2 [Bacillus cereus BAG4X12-1]
 gi|401127360|gb|EJQ35086.1| tRNA pseudouridine synthase A 2 [Bacillus cereus BAG4X12-1]
          Length = 245

 Score =  142 bits (359), Expect = 8e-32,   Method: Compositional matrix adjust.
 Identities = 74/204 (36%), Positives = 117/204 (57%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG R+ GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA  
Sbjct: 4   YKLTIQYDGARFKGWQRLGNNDNTIQGKIESV---ISEMVGKEIEIIGCSRTDAGVHALN 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 61  QVANFQSDEKLVE-HKVKKYLNQYLPNDISITNVEEVHDRFHARYNSKAKTYLYKIWNEE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H   KLN   M  AA++ VG HDF+AF N +   +++  V+ ++  DV+
Sbjct: 120 HTNPFMRKYSMHVNKKLNVKSMTAAAKHLVGSHDFTAFSNAKSKKKSM--VREVYTLDVM 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 178 EEAGFVQIRVSGNGFLHNMVRKIV 201


>gi|28211488|ref|NP_782432.1| tRNA pseudouridine synthase A [Clostridium tetani E88]
 gi|42559805|sp|Q893H3.1|TRUA1_CLOTE RecName: Full=tRNA pseudouridine synthase A 1; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I 1; AltName: Full=tRNA-uridine
           isomerase I 1
 gi|28203929|gb|AAO36369.1| tRNA pseudouridine synthase A [Clostridium tetani E88]
          Length = 245

 Score =  142 bits (359), Expect = 8e-32,   Method: Compositional matrix adjust.
 Identities = 75/200 (37%), Positives = 116/200 (58%), Gaps = 7/200 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPP-TIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           ++++ YDGTRY GWQ Q     TIQ  +E  L   +K+  ED++++G  RTD GVHA   
Sbjct: 5   KMILEYDGTRYKGWQKQKKDVLTIQDKIETVL---SKMTGEDIQVIGCGRTDAGVHAENY 61

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           VA+F T   +  ++ +   L   LP DI V+ +      FHAR++ KSK Y Y+I N+  
Sbjct: 62  VANFHTNCDF-TVDYMLDYLYEFLPEDIVVKTMKDTSERFHARYNVKSKTYVYRINNNKF 120

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
              F   YAYH   KLN + M++AAE+ +G HDF +F  ++ N ++   +++I   ++ E
Sbjct: 121 RSVFNKKYAYHDNEKLNISAMKDAAEFLIGTHDFKSFTRLKSNSKS--TIRAIKYINITE 178

Query: 207 MGALLQLEVEGSGFLYRQVR 226
              ++ +EV G+GFL   VR
Sbjct: 179 NQGIISIEVNGNGFLLNMVR 198


>gi|325265188|ref|ZP_08131914.1| tRNA pseudouridine synthase A [Clostridium sp. D5]
 gi|324029592|gb|EGB90881.1| tRNA pseudouridine synthase A [Clostridium sp. D5]
          Length = 263

 Score =  142 bits (359), Expect = 9e-32,   Method: Compositional matrix adjust.
 Identities = 77/204 (37%), Positives = 117/204 (57%), Gaps = 6/204 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + +L + YDGT Y GWQ Q +  TI+ I+ K L R+T    E++R++GASRTD+GVHA G
Sbjct: 3   RIKLTVAYDGTNYCGWQIQPNGITIEEILNKKLSRLTG---EEIRVIGASRTDSGVHALG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
            VA F T  +    + +  ALN  +P DI + +      ++H R+    K Y Y I N  
Sbjct: 60  NVAVFDTETTIPP-DRLAYALNQRMPEDIVIVKSEEVPADWHPRYCDTVKTYEYLILNAK 118

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           + DP +    Y   Y L+   MR AA Y  G+HDF++F N++ N    + V++I+  D++
Sbjct: 119 IPDPTRRLTTYFVSYDLDLQKMRRAAGYLSGEHDFASFCNVRTN--VEDTVRTIYELDIL 176

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E G  + + + G+GFLY  VR +V
Sbjct: 177 ENGEEITIRIRGNGFLYNMVRIIV 200


>gi|325261709|ref|ZP_08128447.1| tRNA pseudouridine synthase A [Clostridium sp. D5]
 gi|324033163|gb|EGB94440.1| tRNA pseudouridine synthase A [Clostridium sp. D5]
          Length = 248

 Score =  142 bits (359), Expect = 9e-32,   Method: Compositional matrix adjust.
 Identities = 79/201 (39%), Positives = 115/201 (57%), Gaps = 8/201 (3%)

Query: 27  WRLVIGYDGTRYAGWQFQTS-PPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L + YDG+RY GWQ Q S   T+Q I+E+A+  VT  + E   + G+ RTD GVHA G
Sbjct: 4   YKLTVVYDGSRYQGWQRQKSTEKTVQGILERAVTEVTGRQTE---IDGSGRTDGGVHAKG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           Q A  + P   +      A+LN  LP DIRV+E+      FHAR++AK K Y Y I    
Sbjct: 61  QTASMVLPGKVEET-GFCASLNNALPEDIRVKEMKLVKNGFHARYNAKGKRYEYFIDTRE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             D F   Y YH  Y+LN   M EAAEY +G HDF+ F + +     ++ +++I+   + 
Sbjct: 120 KPDVFTRKYCYHYPYELNIPAMEEAAEYLIGTHDFAGFTDKKDE---MSTIRTIYDIIIE 176

Query: 206 EMGALLQLEVEGSGFLYRQVR 226
           +  + +++E  G+GFLY  VR
Sbjct: 177 KQDSKIRMEFYGTGFLYHMVR 197


>gi|397905071|ref|ZP_10505943.1| tRNA pseudouridine synthase A [Caloramator australicus RC3]
 gi|397161866|emb|CCJ33277.1| tRNA pseudouridine synthase A [Caloramator australicus RC3]
          Length = 244

 Score =  142 bits (359), Expect = 9e-32,   Method: Compositional matrix adjust.
 Identities = 79/199 (39%), Positives = 120/199 (60%), Gaps = 6/199 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           ++VI YDGTRY GWQ Q +  +IQ  +EKA+ +VT    E   ++ +SRTD GVHA GQV
Sbjct: 5   KIVIEYDGTRYCGWQRQKNGVSIQETIEKAIEKVTG---EKTEIISSSRTDAGVHAKGQV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A+F+T  +    E I  A+N  LP DI +        +FH+R+S+K K Y Y I N  + 
Sbjct: 62  ANFLTSSTVPP-EKICYAINSFLPDDIVILSSQEVPLDFHSRYSSKGKKYSYTILNRKIP 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
                +Y+ H  Y+LN   M  A++YF+G+HDFSAF +   + +    V++I R ++I+ 
Sbjct: 121 SALLKNYSAHIPYELNIEDMIRASKYFLGEHDFSAFKSTGSSVKG--NVRTIKRLELIKD 178

Query: 208 GALLQLEVEGSGFLYRQVR 226
             ++++ +E +GFLY  VR
Sbjct: 179 EDIIKMFIEANGFLYNMVR 197


>gi|169830466|ref|YP_001716448.1| tRNA pseudouridine synthase A [Candidatus Desulforudis audaxviator
           MP104C]
 gi|238688213|sp|B1I1B5.1|TRUA_DESAP RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|169637310|gb|ACA58816.1| tRNA pseudouridine synthase A [Candidatus Desulforudis audaxviator
           MP104C]
          Length = 250

 Score =  142 bits (358), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 85/205 (41%), Positives = 114/205 (55%), Gaps = 7/205 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSP--PTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           RL + YDGT Y G+Q Q+    PTIQ  +E+ L    +L    L++ GASRTD GVHA G
Sbjct: 5   RLTLAYDGTAYHGFQKQSGSGLPTIQETLERCL---AELSGAALKVTGASRTDAGVHARG 61

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV +F+T       E I AALNG+LP DI   +      +FHAR+SA +K Y Y +YN  
Sbjct: 62  QVVNFVTGRWGIPTERIPAALNGVLPGDIAALDAREVPADFHARYSAVAKTYSYTLYNHP 121

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           V  PFQ  Y+ H    L+   MR AA + +G+HDFS F    R  +  + V+++ R D+ 
Sbjct: 122 VRSPFQRLYSLHVPRALDLRAMRLAARHLMGRHDFSTFQAAGRPVQ--SAVRTLTRADIE 179

Query: 206 EMGALLQLEVEGSGFLYRQVRNMVN 230
               L++L     GFLY  VR M  
Sbjct: 180 AQAPLVRLVFRADGFLYNMVRIMAG 204


>gi|134298133|ref|YP_001111629.1| tRNA pseudouridine synthase A [Desulfotomaculum reducens MI-1]
 gi|172044244|sp|A4J151.1|TRUA_DESRM RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|134050833|gb|ABO48804.1| tRNA pseudouridine synthase A [Desulfotomaculum reducens MI-1]
          Length = 247

 Score =  142 bits (358), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 81/201 (40%), Positives = 117/201 (58%), Gaps = 7/201 (3%)

Query: 28  RLVIGYDGTRYAGWQFQ--TSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +L + YDGT Y G+Q Q  T   TIQ  +EKAL   + + +  ++++GA RTD GVHA G
Sbjct: 5   KLTLAYDGTNYHGFQEQRGTGLATIQEALEKAL---STIAQTPIQVIGAGRTDAGVHAQG 61

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV +F +       E    ALN LLP DI+V +      +FHARFSA +K Y Y IY+  
Sbjct: 62  QVVNFRSEKWPVPAEKAPLALNVLLPGDIKVVKAEEVPMDFHARFSAVAKTYRYSIYHHR 121

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           VM PF  +Y YH   +L+   M+E A Y +G +DF +F    +     + +++I+R D+I
Sbjct: 122 VMSPFHRYYCYHEPRRLDVNAMQEGAAYLLGTYDFKSFQ--AQGTPVKDTIRTIYRADII 179

Query: 206 EMGALLQLEVEGSGFLYRQVR 226
           E   ++ L + G+GFLY  VR
Sbjct: 180 EDAPVINLYLRGNGFLYNMVR 200


>gi|325662523|ref|ZP_08151126.1| tRNA pseudouridine synthase A [Lachnospiraceae bacterium 4_1_37FAA]
 gi|325471219|gb|EGC74444.1| tRNA pseudouridine synthase A [Lachnospiraceae bacterium 4_1_37FAA]
          Length = 249

 Score =  142 bits (358), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 77/204 (37%), Positives = 116/204 (56%), Gaps = 6/204 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + +L I YDGT Y GWQ Q +  T++ ++ KAL ++T    ED+ ++GASRTD+GVHA G
Sbjct: 5   RIKLTIAYDGTNYCGWQVQPNGITVEEVINKALCKLTG---EDIAVIGASRTDSGVHALG 61

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
            VA F +  S    E I  ALN  LP DI + +     P+FH R+    K Y Y I N  
Sbjct: 62  NVAVFDSATSIPP-ERIAMALNQRLPDDIVIVKSEEVAPDFHPRYCDCEKTYEYHIINTR 120

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
              P +    Y   Y L+   M++AA+Y VG+HDF +F N++   +  + V+++   +V+
Sbjct: 121 TPIPTKRLTNYFVSYDLDVERMQQAADYLVGEHDFVSFCNVR--TQVEDTVRTVTELEVL 178

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
             G  + + + G+GFLY  VR +V
Sbjct: 179 REGEEITIRISGNGFLYNMVRIIV 202


>gi|307110841|gb|EFN59076.1| hypothetical protein CHLNCDRAFT_19189, partial [Chlorella
           variabilis]
          Length = 300

 Score =  142 bits (358), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 83/209 (39%), Positives = 118/209 (56%), Gaps = 10/209 (4%)

Query: 30  VIGYDGTRYAGWQFQTSP------PTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHA 83
           V+ YDGT Y G+Q Q +P      PT+Q  VE+AL R T   R+ LR+  A RTD GVHA
Sbjct: 7   VLQYDGTAYWGFQLQPAPQGRRAKPTVQLRVEQALCRATGQGRQALRVQAAGRTDAGVHA 66

Query: 84  WGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYN 143
            GQV  F       G   +  ALN L+PPDIR   +     +++ R++++ K Y Y ++ 
Sbjct: 67  RGQVVQFCC-ARRQGAAPLLRALNALMPPDIRAVAVQEVPLDWNVRYASR-KTYAYDLHL 124

Query: 144 DAVMDPFQHHYAYHS--VYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFR 201
           D V DPF H +  H     +L    M +AA  FVG HDFS F N+  +    +PVK++  
Sbjct: 125 DPVADPFLHRWRCHPRRPERLRLDAMADAAALFVGTHDFSRFANLGPDATRKSPVKTVLS 184

Query: 202 FDVIEMGALLQLEVEGSGFLYRQVRNMVN 230
           + ++ +    +LEV G+GFLY+QVR+M  
Sbjct: 185 YRLLPLEGGARLEVTGTGFLYKQVRHMTG 213


>gi|389573482|ref|ZP_10163556.1| tRNA pseudouridine synthase A [Bacillus sp. M 2-6]
 gi|388426797|gb|EIL84608.1| tRNA pseudouridine synthase A [Bacillus sp. M 2-6]
          Length = 247

 Score =  142 bits (357), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 82/202 (40%), Positives = 113/202 (55%), Gaps = 4/202 (1%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
            K +  + YDGT + G+Q Q    TIQ  +E AL R+ K + E + +V + RTD+GVHA 
Sbjct: 1   MKVKCTVSYDGTHFKGYQVQPGQRTIQTEIESALARMHK-QDELIPIVASGRTDSGVHAK 59

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           GQV HF TP +   +E    ALN LLP DIRV +       FHARFS  SK Y YK+  +
Sbjct: 60  GQVIHFDTPLAIP-MERWPFALNSLLPDDIRVLKAEEVDESFHARFSVVSKEYRYKVSTE 118

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
              + F   YA H  Y+L+   MREAA + +G HDF++F     N    + V+ I+  + 
Sbjct: 119 THQNVFTRQYACHFPYRLDADKMREAAGHLIGIHDFTSFCAA--NTEVQDKVREIYTLEW 176

Query: 205 IEMGALLQLEVEGSGFLYRQVR 226
             +   L++ V G+GFLY  VR
Sbjct: 177 KNVSDGLEMRVRGNGFLYNMVR 198


>gi|238925343|ref|YP_002938860.1| tRNA pseudouridine synthase A [Eubacterium rectale ATCC 33656]
 gi|238877019|gb|ACR76726.1| tRNA pseudouridine synthase A [Eubacterium rectale ATCC 33656]
          Length = 252

 Score =  142 bits (357), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 78/202 (38%), Positives = 114/202 (56%), Gaps = 6/202 (2%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
            + ++++ YDGT Y GWQ Q +  TI+ ++ + L R+ K   ED+++ GASRTD GVH+ 
Sbjct: 9   MRVKMIVAYDGTNYCGWQIQPNGITIEQVLNEHLSRLLK---EDIKVTGASRTDAGVHSL 65

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           G V  F T       E I  ALN  LP DI V +      +FH RFS   K Y Y+I N 
Sbjct: 66  GNVCMFDTNTRMPA-EKISYALNQKLPEDIVVVDSCEVSDDFHPRFSKSRKTYEYRILNA 124

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
              +P +    Y   Y L+T  M EAA+Y +G+HDF++F +   N +A   V++I+   V
Sbjct: 125 RFRNPTRRLDTYFYHYPLDTEKMSEAAKYLIGEHDFASFCSA--NSQAQTTVRTIYDCTV 182

Query: 205 IEMGALLQLEVEGSGFLYRQVR 226
            + G ++ + V G+GFLY  VR
Sbjct: 183 SKAGDIITIRVTGNGFLYNMVR 204


>gi|331091743|ref|ZP_08340575.1| tRNA pseudouridine synthase A [Lachnospiraceae bacterium 2_1_46FAA]
 gi|330402642|gb|EGG82209.1| tRNA pseudouridine synthase A [Lachnospiraceae bacterium 2_1_46FAA]
          Length = 245

 Score =  142 bits (357), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 79/204 (38%), Positives = 117/204 (57%), Gaps = 6/204 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + +L I YDGT Y GWQ Q +  TI+ IV KAL   +KL  E + ++GASRTD+GVHA G
Sbjct: 3   RVKLTIAYDGTNYCGWQIQPNGITIEEIVNKAL---SKLTGEKIVVIGASRTDSGVHAMG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
            VA F T  +    E +  A+N +LP DI V +      +FH R+    K Y Y I N  
Sbjct: 60  NVAVFDTETTIPP-ERVAMAVNRILPEDIVVVKSEEVPLDFHPRYCDCEKTYEYHIVNTR 118

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           +  P +    Y   Y+L+   MRE A Y +G+HDF++F NI+ +  +   V+++   +++
Sbjct: 119 IPIPTKRLTNYFVSYELDLDKMREGASYLIGEHDFASFCNIKTDVEST--VRTVKELEIL 176

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E G  + + + G+GFLY  VR +V
Sbjct: 177 ENGEEITIRISGNGFLYNMVRIIV 200


>gi|291524335|emb|CBK89922.1| pseudouridylate synthase I [Eubacterium rectale DSM 17629]
 gi|291527615|emb|CBK93201.1| pseudouridylate synthase I [Eubacterium rectale M104/1]
          Length = 244

 Score =  142 bits (357), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 78/202 (38%), Positives = 114/202 (56%), Gaps = 6/202 (2%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
            + ++++ YDGT Y GWQ Q +  TI+ ++ + L R+ K   ED+++ GASRTD GVH+ 
Sbjct: 1   MRVKMIVAYDGTNYCGWQIQPNGITIEQVLNEHLSRLLK---EDIKVTGASRTDAGVHSL 57

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           G V  F T       E I  ALN  LP DI V +      +FH RFS   K Y Y+I N 
Sbjct: 58  GNVCMFDTNTRMPA-EKISYALNQKLPEDIVVVDSCEVSDDFHPRFSKSRKTYEYRILNA 116

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
              +P +    Y   Y L+T  M EAA+Y +G+HDF++F +   N +A   V++I+   V
Sbjct: 117 RFRNPTRRLDTYFYHYPLDTEKMSEAAKYLIGEHDFASFCSA--NSQAQTTVRTIYDCTV 174

Query: 205 IEMGALLQLEVEGSGFLYRQVR 226
            + G ++ + V G+GFLY  VR
Sbjct: 175 SKAGDIITIRVTGNGFLYNMVR 196


>gi|390934155|ref|YP_006391660.1| tRNA pseudouridine synthase A [Thermoanaerobacterium
           saccharolyticum JW/SL-YS485]
 gi|389569656|gb|AFK86061.1| tRNA pseudouridine synthase A [Thermoanaerobacterium
           saccharolyticum JW/SL-YS485]
          Length = 239

 Score =  142 bits (357), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 79/201 (39%), Positives = 116/201 (57%), Gaps = 6/201 (2%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           +VI YDGT Y GWQ Q +  T+Q ++ KA+ ++T    ED+ L+G+SRTD GVHA  QVA
Sbjct: 1   MVIEYDGTNYHGWQMQKNAVTVQEVITKAIKKITS---EDVNLIGSSRTDAGVHALNQVA 57

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +FI+  +   L  I  ALN +LP DI +R+   A  +FH+R+SAK K Y Y IYN     
Sbjct: 58  NFISNCNIP-LSKIPNALNSVLPKDIVIRDAYEAGMDFHSRYSAKGKRYKYIIYNRKFNS 116

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
           P   +Y++H   +L+   M E+  Y  G HDFSAF          + ++++    + +  
Sbjct: 117 PICRNYSWHISDELDLDKMVESLTYLKGTHDFSAFK--ASGSSVKDSIRTVRDISLRKND 174

Query: 209 ALLQLEVEGSGFLYRQVRNMV 229
             ++ E+E  GFLY  VR +V
Sbjct: 175 FNVEFEIEADGFLYNMVRIIV 195


>gi|326203861|ref|ZP_08193723.1| tRNA pseudouridine synthase A [Clostridium papyrosolvens DSM 2782]
 gi|325985959|gb|EGD46793.1| tRNA pseudouridine synthase A [Clostridium papyrosolvens DSM 2782]
          Length = 245

 Score =  142 bits (357), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 82/202 (40%), Positives = 116/202 (57%), Gaps = 7/202 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           K +++I YDGT Y GWQ Q +  T+Q  V+KA   ++KL  E + + G SRTD GVHA+G
Sbjct: 3   KIKIIIEYDGTNYHGWQVQKNAKTVQETVQKA---ISKLLGEGVGVTGCSRTDVGVHAYG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVAHF+T     G +    A+N LLP DI ++       EFHAR+S K K Y Y IYN  
Sbjct: 60  QVAHFLTDSQIPG-DKFSYAINNLLPDDIVIKHSEEVSEEFHARYSTKGKKYRYLIYNAP 118

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
                  + + H    L+   M++AA YF+G+HDF+AF       R+   V+ I+  +V 
Sbjct: 119 HPSAIMRNRSCHVRPVLDIEQMKKAARYFIGEHDFAAFQATGGQVRS--TVREIYSMEVS 176

Query: 206 -EMGALLQLEVEGSGFLYRQVR 226
            +   ++ +EV G+GFLY  VR
Sbjct: 177 GKEDNMIYIEVSGNGFLYNMVR 198


>gi|423480567|ref|ZP_17457257.1| tRNA pseudouridine synthase A 2 [Bacillus cereus BAG6X1-2]
 gi|401147503|gb|EJQ55005.1| tRNA pseudouridine synthase A 2 [Bacillus cereus BAG6X1-2]
          Length = 245

 Score =  142 bits (357), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 71/204 (34%), Positives = 118/204 (57%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ I YDG RY GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA  
Sbjct: 4   YKVTIQYDGARYKGWQRLGNNDNTIQGKIESV---ISEMIGKEIEIIGCSRTDAGVHALN 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 61  QVANFKSDEKLVE-HKVKKYLNQYLPNDISITNVEEVSDRFHARYNSKAKTYLYKIWNEE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   ++ H   KLN   M+EAA++ +G HDF+AF N +   +++  V+ ++  ++ 
Sbjct: 120 HTNPFMRKHSMHVNKKLNVKSMKEAAKHLIGSHDFTAFSNAKSKKKSM--VREVYTLEIS 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 178 EEAGFVQIRVSGNGFLHNMVRKIV 201


>gi|229074353|ref|ZP_04207391.1| tRNA pseudouridine synthase A 2 [Bacillus cereus Rock4-18]
 gi|228708795|gb|EEL60930.1| tRNA pseudouridine synthase A 2 [Bacillus cereus Rock4-18]
          Length = 245

 Score =  142 bits (357), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 73/204 (35%), Positives = 118/204 (57%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG RY GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA  
Sbjct: 4   YKLTIQYDGARYKGWQRLGNNDNTIQGKIESV---ISEMVGKEIEIIGCSRTDAGVHALN 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 61  QVANFKSDEKLVE-HKVKKYLNQYLPNDISITNVEEVPDRFHARYNSKAKTYLYKIWNEE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   ++ H   KLN   M++AA++ VG HDF+AF N +   +++  V+ ++  +V 
Sbjct: 120 HTNPFMRKHSMHVNKKLNVESMKKAAKHLVGSHDFTAFSNAKSKKKSM--VREVYTLEVS 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 178 EEAGFVQIRVSGNGFLHNMVRKIV 201


>gi|407708451|ref|YP_006832036.1| Enzyme [Bacillus thuringiensis MC28]
 gi|407386136|gb|AFU16637.1| tRNA pseudouridine synthase A 2 [Bacillus thuringiensis MC28]
          Length = 245

 Score =  141 bits (356), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 73/204 (35%), Positives = 118/204 (57%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG RY GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA  
Sbjct: 4   YKLTIQYDGARYKGWQRLGNNDNTIQGKIESV---ISEMVGKEIEIIGCSRTDAGVHALN 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 61  QVANFKSDEKLVE-HKVKKYLNQYLPNDISITNVEEVPDRFHARYNSKAKTYLYKIWNEE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   ++ H   KLN   M++AA++ VG HDF+AF N +   +++  V+ ++  +V 
Sbjct: 120 HTNPFMRKHSMHVNKKLNVESMKKAAKHLVGSHDFTAFSNAKSKKKSM--VREVYMLEVS 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 178 EEAGFVQIRVSGNGFLHNMVRKIV 201


>gi|229095128|ref|ZP_04226123.1| tRNA pseudouridine synthase A 2 [Bacillus cereus Rock3-29]
 gi|423444609|ref|ZP_17421514.1| tRNA pseudouridine synthase A 2 [Bacillus cereus BAG4X2-1]
 gi|423450436|ref|ZP_17427314.1| tRNA pseudouridine synthase A 2 [Bacillus cereus BAG5O-1]
 gi|423467658|ref|ZP_17444426.1| tRNA pseudouridine synthase A 2 [Bacillus cereus BAG6O-1]
 gi|423537060|ref|ZP_17513478.1| tRNA pseudouridine synthase A 2 [Bacillus cereus HuB2-9]
 gi|423542785|ref|ZP_17519174.1| tRNA pseudouridine synthase A 2 [Bacillus cereus HuB4-10]
 gi|228688313|gb|EEL42196.1| tRNA pseudouridine synthase A 2 [Bacillus cereus Rock3-29]
 gi|401124821|gb|EJQ32582.1| tRNA pseudouridine synthase A 2 [Bacillus cereus BAG5O-1]
 gi|401167843|gb|EJQ75117.1| tRNA pseudouridine synthase A 2 [Bacillus cereus HuB4-10]
 gi|402410531|gb|EJV42932.1| tRNA pseudouridine synthase A 2 [Bacillus cereus BAG4X2-1]
 gi|402413273|gb|EJV45619.1| tRNA pseudouridine synthase A 2 [Bacillus cereus BAG6O-1]
 gi|402460244|gb|EJV91967.1| tRNA pseudouridine synthase A 2 [Bacillus cereus HuB2-9]
          Length = 245

 Score =  141 bits (356), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 73/204 (35%), Positives = 118/204 (57%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG RY GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA  
Sbjct: 4   YKLTIQYDGARYKGWQRLGNNDNTIQGKIESV---ISEMVGKEIEIIGCSRTDAGVHALN 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 61  QVANFKSDEKLVE-HKVKKYLNQYLPNDISITSVEEVPDRFHARYNSKAKTYLYKIWNEE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   ++ H   KLN   M++AA++ VG HDF+AF N +   +++  V+ ++  +V 
Sbjct: 120 HTNPFMRKHSMHVNKKLNVESMKKAAKHLVGSHDFTAFSNAKSKKKSM--VREVYTLEVS 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 178 EEAGFVQIRVSGNGFLHNMVRKIV 201


>gi|229101230|ref|ZP_04231994.1| tRNA pseudouridine synthase A 2 [Bacillus cereus Rock3-28]
 gi|228682198|gb|EEL36311.1| tRNA pseudouridine synthase A 2 [Bacillus cereus Rock3-28]
          Length = 245

 Score =  141 bits (356), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 73/204 (35%), Positives = 118/204 (57%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG RY GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA  
Sbjct: 4   YKLTIQYDGARYKGWQRLGNNDNTIQGKIESV---ISEMVGKEIEIIGCSRTDAGVHALN 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 61  QVANFKSDEKLVE-HKVKKYLNQYLPNDISITNVEEVPDRFHARYNSKAKTYLYKIWNEE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   ++ H   KLN   M++AA++ VG HDF+AF N +   +++  V+ ++  +V 
Sbjct: 120 HTNPFMRKHSMHVNKKLNVESMKKAAKHLVGSHDFTAFSNAKSKKKSM--VREVYMLEVS 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 178 EEAGFVQIRVSGNGFLHNMVRKIV 201


>gi|423543905|ref|ZP_17520263.1| tRNA pseudouridine synthase A 2 [Bacillus cereus HuB5-5]
 gi|423626368|ref|ZP_17602145.1| tRNA pseudouridine synthase A 2 [Bacillus cereus VD148]
 gi|401185609|gb|EJQ92701.1| tRNA pseudouridine synthase A 2 [Bacillus cereus HuB5-5]
 gi|401252547|gb|EJR58805.1| tRNA pseudouridine synthase A 2 [Bacillus cereus VD148]
          Length = 245

 Score =  141 bits (356), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 73/204 (35%), Positives = 118/204 (57%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG RY GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA  
Sbjct: 4   YKLTIQYDGARYKGWQRLGNNDNTIQGKIESV---ISEMVGKEIEIIGCSRTDAGVHALN 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 61  QVANFKSDEKLVE-HKVKKYLNQYLPNDISITSVEEVPDRFHARYNSKAKTYLYKIWNEE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   ++ H   KLN   M++AA++ VG HDF+AF N +   +++  V+ ++  +V 
Sbjct: 120 HTNPFMRKHSMHVNKKLNVESMKKAAKHLVGSHDFTAFSNAKSKKKSM--VREVYTLEVS 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 178 EEAGFVQIRVSGNGFLHNMVRKIV 201


>gi|421875306|ref|ZP_16306900.1| tRNA pseudouridine synthase A [Brevibacillus laterosporus GI-9]
 gi|372455774|emb|CCF16449.1| tRNA pseudouridine synthase A [Brevibacillus laterosporus GI-9]
          Length = 250

 Score =  141 bits (356), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 79/197 (40%), Positives = 113/197 (57%), Gaps = 6/197 (3%)

Query: 30  VIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVAH 89
           ++ YDGT Y+G+Q Q    TIQ  +E A++R+T    E +++ G+ RTD GVHA GQ  H
Sbjct: 11  IVAYDGTDYSGFQVQPEQVTIQGKIEAAIMRITG---ETIQIHGSGRTDAGVHAKGQTFH 67

Query: 90  FITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDP 149
           F T  S   +E     LN  LP  I ++ I    P FHARF  + K Y Y I N  V D 
Sbjct: 68  FDTK-STIPIEKWCWILNNQLPDSIVIQTIEEVEPSFHARFDVREKEYRYCINNTQVPDI 126

Query: 150 FQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMGA 209
           F+H YA+H  Y L+   MR+AA + +G HDF++F + + +    N V++I+   + + G 
Sbjct: 127 FRHRYAWHVRYPLDVEAMRQAATHLIGTHDFTSFCSARTH--VENKVRTIYDVKIEQEGT 184

Query: 210 LLQLEVEGSGFLYRQVR 226
           LL +   G+GFLY  VR
Sbjct: 185 LLWIICRGNGFLYNMVR 201


>gi|297528514|ref|YP_003669789.1| tRNA pseudouridine synthase A [Geobacillus sp. C56-T3]
 gi|297251766|gb|ADI25212.1| tRNA pseudouridine synthase A [Geobacillus sp. C56-T3]
          Length = 258

 Score =  141 bits (356), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 83/205 (40%), Positives = 116/205 (56%), Gaps = 9/205 (4%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           + +I YDGT ++G+Q Q    T+Q   E+ L R+ K  +  +R+  + RTD GVHA+GQV
Sbjct: 6   KCIIAYDGTHFSGYQIQPGKRTVQGEFEEVLRRMHKGTK--VRVAASGRTDAGVHAYGQV 63

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF T  S    E    ALN  LP DI VR +  A  +FHARFSAK+K Y YK++  A  
Sbjct: 64  IHFDTSLSLSS-EQWKKALNAQLPDDIVVRFVQEADADFHARFSAKAKEYRYKVWTAAER 122

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQR--NDRALNPVKSIFRFDVI 205
           D F+ HY     Y L+ + M EA     G HDF++F + +    DR    V++++R +V 
Sbjct: 123 DVFRRHYCAWHPYSLHISAMNEALRLLHGTHDFTSFCSAKTLIEDR----VRTMYRAEVK 178

Query: 206 EMGALLQLEVEGSGFLYRQVRNMVN 230
             G +L+    GSGFLY  VR +V 
Sbjct: 179 ADGPMLEFRFVGSGFLYNMVRIIVG 203


>gi|229114082|ref|ZP_04243507.1| tRNA pseudouridine synthase A 2 [Bacillus cereus Rock1-3]
 gi|423381543|ref|ZP_17358826.1| tRNA pseudouridine synthase A 2 [Bacillus cereus BAG1O-2]
 gi|228669352|gb|EEL24769.1| tRNA pseudouridine synthase A 2 [Bacillus cereus Rock1-3]
 gi|401629452|gb|EJS47269.1| tRNA pseudouridine synthase A 2 [Bacillus cereus BAG1O-2]
          Length = 245

 Score =  141 bits (356), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 73/204 (35%), Positives = 118/204 (57%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG RY GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA  
Sbjct: 4   YKLTIQYDGARYKGWQRLGNNDNTIQGKIESV---ISEMVGKEIEIIGCSRTDAGVHALN 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 61  QVANFKSDEKLVE-HKVKKYLNQYLPNDISITSVEEVPDRFHARYNSKAKTYLYKIWNEE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   ++ H   KLN   M++AA++ VG HDF+AF N +   +++  V+ ++  +V 
Sbjct: 120 HTNPFMRKHSMHVNKKLNVESMKKAAKHLVGSHDFTAFSNAKSKKKSM--VREVYTLEVS 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 178 EEAGFVQIRVSGNGFLHNMVRKIV 201


>gi|154483152|ref|ZP_02025600.1| hypothetical protein EUBVEN_00853 [Eubacterium ventriosum ATCC
           27560]
 gi|149735960|gb|EDM51846.1| tRNA pseudouridine synthase A [Eubacterium ventriosum ATCC 27560]
          Length = 246

 Score =  141 bits (356), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 78/202 (38%), Positives = 116/202 (57%), Gaps = 6/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           RL+I YDGT Y GWQ Q +  T++ ++ KAL     L  E++ ++GASRTD+GVHA G V
Sbjct: 5   RLIIAYDGTNYCGWQVQINGITVEEVLNKAL---KDLLNEEIAVIGASRTDSGVHAMGNV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A F T       E I  ALN  LP DIR+++      ++H R+   +K Y YKI N    
Sbjct: 62  AVFDTETRIPA-EKISFALNQRLPNDIRIQKSDEVPLDWHPRYRDSTKTYEYKILNRRFP 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           DP Q  Y +     L+   M+EAAEY VG+HDF++F +     +  + V++++   V + 
Sbjct: 121 DPLQRFYTHFMYMPLDEQKMKEAAEYIVGEHDFASFCSA--GSQVDSTVRTVYSLSVNKR 178

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
             ++ + + G+GFLY  VR +V
Sbjct: 179 DDVISIRITGNGFLYNMVRIIV 200


>gi|423619896|ref|ZP_17595727.1| tRNA pseudouridine synthase A 2 [Bacillus cereus VD115]
 gi|401250584|gb|EJR56878.1| tRNA pseudouridine synthase A 2 [Bacillus cereus VD115]
          Length = 245

 Score =  141 bits (356), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 73/204 (35%), Positives = 118/204 (57%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG RY GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA  
Sbjct: 4   YKLTIQYDGARYKGWQRLGNNDNTIQGKIESV---ISEMVGKEIEIIGCSRTDAGVHALN 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 61  QVANFKSDEKLVE-HKVKKYLNQYLPNDISITNVEEVPDRFHARYNSKAKTYLYKIWNEE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   ++ H   KLN   M++AA++ VG HDF+AF N +   +++  V+ ++  +V 
Sbjct: 120 HTNPFMRKHSMHVNKKLNVESMKKAAKHLVGSHDFTAFSNAKSKKKSM--VREVYMLEVS 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 178 EEAGFVQIRVSGNGFLHNMVRKIV 201


>gi|387928079|ref|ZP_10130757.1| tRNA pseudouridine synthase A [Bacillus methanolicus PB1]
 gi|387587665|gb|EIJ79987.1| tRNA pseudouridine synthase A [Bacillus methanolicus PB1]
          Length = 245

 Score =  141 bits (356), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 78/205 (38%), Positives = 116/205 (56%), Gaps = 5/205 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDG++++G+Q Q    TIQ  +E AL ++ K +R  +++  + RTD GVHA G
Sbjct: 3   RFKCTITYDGSQFSGYQIQPGKRTIQGEIEVALSKLHKGKR--IKISASGRTDAGVHAKG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF +  +    E    ALN +LP DI V  +  A P FHARF A  K Y Y ++   
Sbjct: 61  QVIHFDSALAIS-TEKWEIALNSILPDDIAVIRVEKAAPGFHARFDAFGKEYRYFVHLSP 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             DPF+ HYAY   Y L+   M+EA +Y +G HDF++F + +      + V++I + D  
Sbjct: 120 KRDPFKRHYAYQFPYPLDYAAMKEALKYLIGTHDFTSFCSAKTEIE--DKVRTIEKIDFF 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMVN 230
           + G LL     G+GFLY  VR +  
Sbjct: 178 QEGDLLVFRFIGNGFLYNMVRILTG 202


>gi|255526720|ref|ZP_05393623.1| tRNA pseudouridine synthase A [Clostridium carboxidivorans P7]
 gi|255509607|gb|EET85944.1| tRNA pseudouridine synthase A [Clostridium carboxidivorans P7]
          Length = 249

 Score =  141 bits (356), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 82/207 (39%), Positives = 117/207 (56%), Gaps = 11/207 (5%)

Query: 28  RLVIGYDGTRYAGWQFQT-----SPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVH 82
           +++I YDG+RY GWQ Q      S  TIQ  +E  L   +K+  ED+++VG  RTDTGVH
Sbjct: 5   KMLIQYDGSRYKGWQKQNHKDNNSVSTIQDKIESVL---SKMTGEDIQVVGCGRTDTGVH 61

Query: 83  AWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIY 142
           A   VA+F T  S   +E +   L   LP DI V+ +      FHAR++AKSK Y Y I 
Sbjct: 62  AENYVANFHTD-SILTVEDMLKYLYEFLPEDIVVKSLRDTSERFHARYNAKSKTYLYTIN 120

Query: 143 NDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRF 202
           N+   + F   YAYH    LN + MR+AAE   G HDF +F +++ N ++   V++I   
Sbjct: 121 NNKFRNVFNRKYAYHVEENLNLSEMRDAAEVLTGTHDFQSFTSLKSNTKS--TVRTINYI 178

Query: 203 DVIEMGALLQLEVEGSGFLYRQVRNMV 229
            + E   ++ +EV G+ FL   VR +V
Sbjct: 179 SITEEHGMIGIEVNGNSFLLNMVRIIV 205


>gi|339006512|ref|ZP_08639087.1| tRNA pseudouridine synthase A [Brevibacillus laterosporus LMG
           15441]
 gi|338775721|gb|EGP35249.1| tRNA pseudouridine synthase A [Brevibacillus laterosporus LMG
           15441]
          Length = 246

 Score =  141 bits (355), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 79/197 (40%), Positives = 113/197 (57%), Gaps = 6/197 (3%)

Query: 30  VIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVAH 89
           ++ YDGT Y+G+Q Q    TIQ  +E A++R+T    E +++ G+ RTD GVHA GQ  H
Sbjct: 7   IVAYDGTDYSGFQVQPEQVTIQGEIEAAIMRITG---ETIQIHGSGRTDAGVHAKGQTFH 63

Query: 90  FITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDP 149
           F T  S   +E     LN  LP  I ++ I    P FHARF  + K Y Y I N  V D 
Sbjct: 64  FDTK-STIPIEKWCWILNNQLPNSIVIQTIEEVEPSFHARFDVREKEYRYCINNTQVPDI 122

Query: 150 FQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMGA 209
           F+H YA+H  Y L+   MR+AA + +G HDF++F + + +    N V++I+   + + G 
Sbjct: 123 FRHRYAWHVRYPLDVEAMRQAATHLIGTHDFTSFCSARTH--VENKVRTIYDVKIEQEGT 180

Query: 210 LLQLEVEGSGFLYRQVR 226
           LL +   G+GFLY  VR
Sbjct: 181 LLWIICRGNGFLYNMVR 197


>gi|448236447|ref|YP_007400505.1| tRNA pseudouridine synthase [Geobacillus sp. GHH01]
 gi|445205289|gb|AGE20754.1| tRNA pseudouridine synthase [Geobacillus sp. GHH01]
          Length = 258

 Score =  141 bits (355), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 81/203 (39%), Positives = 116/203 (57%), Gaps = 5/203 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           + +I YDGT ++G+Q Q    T+Q   E+ L R+ K  +  +R+  + RTD GVHA+GQV
Sbjct: 6   KCIIAYDGTHFSGYQIQPGKRTVQGEFEEVLRRMHKGTK--VRVAASGRTDAGVHAYGQV 63

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF T  S    E    ALN  LP DI VR +  A  +FHARFSAK+K Y YK++  A  
Sbjct: 64  IHFDTSLSLSS-EQWKKALNAQLPDDIVVRFVQEADADFHARFSAKAKEYRYKVWTAAER 122

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ HY     Y L+ + M EA     G HDF++F + + +    + V++++R +V   
Sbjct: 123 DVFRRHYCAWHPYSLHISAMNEALGLLHGTHDFTSFCSAKTSIE--DRVRTMYRAEVKAD 180

Query: 208 GALLQLEVEGSGFLYRQVRNMVN 230
           G +L+    GSGFLY  VR +V 
Sbjct: 181 GPMLEFRFVGSGFLYNMVRIIVG 203


>gi|39997968|ref|NP_953919.1| tRNA pseudouridine synthase A [Geobacter sulfurreducens PCA]
 gi|409913323|ref|YP_006891788.1| tRNA pseudouridines 38,39,40 synthase [Geobacter sulfurreducens
           KN400]
 gi|42559718|sp|P60350.1|TRUA_GEOSL RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|39984913|gb|AAR36269.1| tRNA pseudouridines 38,39,40 synthase [Geobacter sulfurreducens
           PCA]
 gi|298506909|gb|ADI85632.1| tRNA pseudouridines 38,39,40 synthase [Geobacter sulfurreducens
           KN400]
          Length = 244

 Score =  141 bits (355), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 86/206 (41%), Positives = 112/206 (54%), Gaps = 12/206 (5%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L++ YDGT YAGWQ Q +  +IQ +VE AL R+ K   E +RL  + RTD GVHA G V
Sbjct: 5   KLILEYDGTNYAGWQLQPNGLSIQEVVEGALARLLK---EPVRLRASGRTDAGVHARGMV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A F T  S   L +    LN LLPPDI VR    A+P F+ RF+A  K Y Y I+     
Sbjct: 62  AAFDTDRSIP-LRAFSDGLNALLPPDIAVRSADEALPGFNPRFAATGKHYRYTIHRGERR 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
            P     ++H    LN   MREAA +  G+ DF++F       R      +I R D +E+
Sbjct: 121 SPLVRLQSWHVRGALNLAAMREAARHLTGERDFASFRTAGCAART-----TIRRVDAVEI 175

Query: 208 ---GALLQLEVEGSGFLYRQVRNMVN 230
              G +L ++V GSGFL   VR MV 
Sbjct: 176 SDDGEMLTVDVHGSGFLRNMVRIMVG 201


>gi|284047733|ref|YP_003398072.1| tRNA pseudouridine synthase A [Acidaminococcus fermentans DSM
           20731]
 gi|283951954|gb|ADB46757.1| tRNA pseudouridine synthase A [Acidaminococcus fermentans DSM
           20731]
          Length = 245

 Score =  141 bits (355), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 83/202 (41%), Positives = 110/202 (54%), Gaps = 6/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDGTRY G+Q Q +   +Q ++EKAL  V K   E + +  A RTD GVHA GQV
Sbjct: 6   KATVAYDGTRYQGFQRQKNGVGVQQVLEKALTEVLK---EPILIKAAGRTDAGVHALGQV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
             F T  S    E+   AL   LPPDI +RE      +FHARF A  K Y YKIY   + 
Sbjct: 63  ISFATS-SRIPPENYRRALEPHLPPDIAIREAEVVRDDFHARFDAVDKTYQYKIYYSPLP 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           DP Q +  +    KL+   M  AA   +GKHDF++F N    D   +PV+++     ++ 
Sbjct: 122 DPTQRNTTWEIREKLDVEAMNRAAALLLGKHDFTSFKNQGSQD--TSPVRTLTEAHWVQD 179

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
           G L    + G GFLYR VRN+V
Sbjct: 180 GNLYTFTITGDGFLYRMVRNIV 201


>gi|187776609|ref|ZP_02993082.1| hypothetical protein CLOSPO_00123 [Clostridium sporogenes ATCC
           15579]
 gi|187775268|gb|EDU39070.1| tRNA pseudouridine synthase A [Clostridium sporogenes ATCC 15579]
          Length = 246

 Score =  141 bits (355), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 79/204 (38%), Positives = 115/204 (56%), Gaps = 8/204 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPP--TIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +L + YDGT Y GWQ Q +    T+Q  +EK +  +TK   E + + GASRTD+GVHA G
Sbjct: 5   KLKLEYDGTNYCGWQKQKNEKFITLQGTLEKVISNITK---EKVEITGASRTDSGVHAKG 61

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
            + +F T  S    E++   +N  LPPDI V        EFH+RF +K K Y Y I N +
Sbjct: 62  YMCNFFTN-SRIPPENLQRVINNNLPPDIVVLSSEEVSSEFHSRFCSKGKTYEYTILNKS 120

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
                  +Y +H  YKL+   M+ A++YF+G HDFSAF    +       V++I +F++ 
Sbjct: 121 EPIAIGRNYVFHFKYKLDIDKMKIASKYFIGTHDFSAFQT--KGSSVKTSVRTISKFEIN 178

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           + G L++  + G GFLY  VR +V
Sbjct: 179 KSGDLIKFIITGDGFLYNMVRIIV 202


>gi|149196320|ref|ZP_01873375.1| tRNA pseudouridine synthase A [Lentisphaera araneosa HTCC2155]
 gi|149140581|gb|EDM28979.1| tRNA pseudouridine synthase A [Lentisphaera araneosa HTCC2155]
          Length = 276

 Score =  141 bits (355), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 78/204 (38%), Positives = 115/204 (56%), Gaps = 4/204 (1%)

Query: 27  WRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           ++L I +DGT + GWQ Q     +Q  +EKAL   T     ++++ G+ RTD GVHA+G 
Sbjct: 4   YKLSIQFDGTTWFGWQSQNDFEAVQEQIEKAL--NTLYNCSEIKIDGSGRTDAGVHAFGL 61

Query: 87  VAHFITP-FSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
            A F  P  S    +++   LN LLP  IR+R       +FHARFS   K Y Y I N  
Sbjct: 62  CATFTEPKISKFTSDTLRKGLNALLPVSIRIRSALQCETDFHARFSCIGKTYVYFIDNST 121

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
              P    Y++H   KLN   MR++ ++  GKHDFSAF  + R +   + ++++F+ ++I
Sbjct: 122 TSSPILAPYSWHMRKKLNREKMRQSLQHLEGKHDFSAFT-VDRKNLQGHAIRTVFKAELI 180

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E+G ++ L   G GFLYR VR+M 
Sbjct: 181 EIGHIVALLFTGDGFLYRMVRSMA 204


>gi|325294776|ref|YP_004281290.1| tRNA pseudouridine synthase A [Desulfurobacterium
           thermolithotrophum DSM 11699]
 gi|325065224|gb|ADY73231.1| tRNA pseudouridine synthase A [Desulfurobacterium
           thermolithotrophum DSM 11699]
          Length = 250

 Score =  141 bits (355), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 79/202 (39%), Positives = 117/202 (57%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L I Y GT Y GWQ     PTIQ  + K L R+ +     ++L GASRTD GVHA+GQV
Sbjct: 5   KLTIEYLGTNYFGWQILPEKPTIQGEIIKVLERILQ---HPVKLTGASRTDAGVHAFGQV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A+F T      L  + +ALNGLLPPDI++  +     EF +R  AK K Y Y+I+N  V 
Sbjct: 62  ANFKTKKEIP-LYKLQSALNGLLPPDIKIISVEEVPLEFDSRRWAKGKRYRYRIFNRKVP 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
            PF++  ++   Y+L+ +LM +A E+ +G  DF++F    RN   +NPV+++   ++++ 
Sbjct: 121 SPFEYKRSWFVPYQLDISLMEKAKEFLIGTFDFTSFSKSDRN-VDINPVRTVDNIEIVKK 179

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
            + +     G  FL   VR MV
Sbjct: 180 ESHIDFIFYGRSFLRHMVRIMV 201


>gi|28212149|ref|NP_783093.1| tRNA pseudouridine synthase A [Clostridium tetani E88]
 gi|38258761|sp|Q890R5.1|TRUA2_CLOTE RecName: Full=tRNA pseudouridine synthase A 2; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I 2; AltName: Full=tRNA-uridine
           isomerase I 2
 gi|28204593|gb|AAO37030.1| tRNA pseudouridine synthase A [Clostridium tetani E88]
          Length = 248

 Score =  140 bits (354), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 80/201 (39%), Positives = 112/201 (55%), Gaps = 8/201 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSP--PTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           RL + YDGT Y+GWQ Q      TIQ  +EKA+   TK   E++ L+G+SRTD GVHA  
Sbjct: 6   RLKVEYDGTNYSGWQKQKDKNIKTIQSSIEKAIEEATK---EEVELIGSSRTDAGVHALA 62

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
             A+F T  +  G E    ALN  LP DI + E      EFH+RF    K Y YKI N  
Sbjct: 63  YTANFKTCSTIPG-EKFKHALNRFLPEDIVILESEEVPMEFHSRFDCIGKTYVYKILNRP 121

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           +  P Q +Y YH   +L+   M EA+++ +G HDF+AF     N +    V++I   +++
Sbjct: 122 LFSPIQRNYIYHVKDELDINSMIEASKFLIGTHDFNAFKKSGGNLKT--TVRTITNINIL 179

Query: 206 EMGALLQLEVEGSGFLYRQVR 226
           +   ++++ V G GFLY  VR
Sbjct: 180 KSNDIVEIHVSGDGFLYNMVR 200


>gi|302388052|ref|YP_003823874.1| tRNA pseudouridine synthase A [Clostridium saccharolyticum WM1]
 gi|302198680|gb|ADL06251.1| tRNA pseudouridine synthase A [Clostridium saccharolyticum WM1]
          Length = 341

 Score =  140 bits (354), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 76/199 (38%), Positives = 112/199 (56%), Gaps = 6/199 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           ++++ YDGT Y GWQ Q +  TI+ ++ K L   T L +E + ++GASRTD+GVH+ G V
Sbjct: 5   KMIVAYDGTNYCGWQIQNNGITIEEVLNKEL---TSLLKEPITVIGASRTDSGVHSEGNV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A F T       + I  ALN  LP DIR+ +     P++H R     K Y YKI N  + 
Sbjct: 62  AVFDTENRMPA-DKICFALNQRLPDDIRILQSQEVRPDYHPRKQNCVKTYEYKIMNRKIE 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
            P    Y+Y   + L+   MRE   Y VG+HDF +F   +   +A   V++I+  D+ + 
Sbjct: 121 VPTLRLYSYFCYFPLDVERMREGGAYLVGEHDFKSFCTAR--GQAEETVRTIYSLDIEKS 178

Query: 208 GALLQLEVEGSGFLYRQVR 226
           G L+ + ++GSGFLY  VR
Sbjct: 179 GDLITIRIKGSGFLYNMVR 197


>gi|296131870|ref|YP_003639117.1| tRNA pseudouridine synthase A [Thermincola potens JR]
 gi|296030448|gb|ADG81216.1| tRNA pseudouridine synthase A [Thermincola potens JR]
          Length = 246

 Score =  140 bits (354), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 85/201 (42%), Positives = 116/201 (57%), Gaps = 8/201 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSP--PTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++ I YDGT Y G+Q Q     PTIQ  +EKAL    KL  E++ + GA RTD GVHA G
Sbjct: 5   KMTIEYDGTSYHGFQKQADQNLPTIQEALEKAL---RKLTGEEISVTGAGRTDAGVHALG 61

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV +F T  S      + A LN +LP DI  ++   A  +FHA+F AK K Y Y I+ND 
Sbjct: 62  QVINFYTESSIPTGNFVRA-LNSVLPEDIVAKDAVEAPGDFHAQFWAKKKTYRYTIFNDT 120

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           V   F   Y+     KLN   MR+AA + VG+HDFSAF       R+   +++++R +V 
Sbjct: 121 VPSVFYRRYSLFVPCKLNVDNMRKAASFLVGQHDFSAFRAAGSTARS--SIRTMYRAEVE 178

Query: 206 EMGALLQLEVEGSGFLYRQVR 226
           + G L+ + +E +GFLY  VR
Sbjct: 179 QEGELIHVYLEANGFLYNMVR 199


>gi|228950979|ref|ZP_04113100.1| tRNA pseudouridine synthase A 2 [Bacillus thuringiensis serovar
           kurstaki str. T03a001]
 gi|228808706|gb|EEM55204.1| tRNA pseudouridine synthase A 2 [Bacillus thuringiensis serovar
           kurstaki str. T03a001]
          Length = 250

 Score =  140 bits (354), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 73/204 (35%), Positives = 117/204 (57%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG R+ GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA  
Sbjct: 9   YKLTIQYDGARFKGWQRLGNNDNTIQGKIESV---ISEMVGKEIEIIGCSRTDAGVHALN 65

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 66  QVANFQSDEKLVE-HKVKKYLNQYLPNDISITNVEEVHDRFHARYNSKAKTYLYKIWNEE 124

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             + F   Y+ H   KLN   M+ AA++ VG HDF+AF N +   +++  V+ ++  DV+
Sbjct: 125 HTNLFMRKYSMHVNKKLNVKSMKAAAKHLVGSHDFTAFSNAKSKKKSM--VREVYTLDVM 182

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 183 EEAGFVQIRVSGNGFLHNMVRKIV 206


>gi|374709786|ref|ZP_09714220.1| tRNA pseudouridine synthase A [Sporolactobacillus inulinus CASD]
          Length = 245

 Score =  140 bits (354), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 77/204 (37%), Positives = 117/204 (57%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG+RY GWQ    +  TIQ  +E+ L   T +  + + +VG SRTD GVHA G
Sbjct: 4   YKLTIQYDGSRYKGWQRLGDTRNTIQGKIEQTL---TVIIGQSIEIVGCSRTDAGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F T    D  + ++  LN  LP DI V  +      FHAR++AK+K Y YKI+N+ 
Sbjct: 61  QVANFKTETLLDEADFLNQ-LNHQLPRDICVPAMEHVSDRFHARYNAKAKTYLYKIWNEP 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           + +PF   ++ H   KL+   MR+A ++F+G HDF+A+ N +   +++    S  + D  
Sbjct: 120 ISNPFMRKFSMHVEEKLDVARMRQAGKHFLGTHDFTAYANAKSKKKSMVRTISAIKMDAH 179

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           +    + + + G GFLY   R MV
Sbjct: 180 D--GFIDIRLTGDGFLYNMARKMV 201


>gi|423507193|ref|ZP_17483776.1| tRNA pseudouridine synthase A 2 [Bacillus cereus HD73]
 gi|449087217|ref|YP_007419658.1| tRNA pseudouridine synthase A 2 [Bacillus thuringiensis serovar
           kurstaki str. HD73]
 gi|402444711|gb|EJV76590.1| tRNA pseudouridine synthase A 2 [Bacillus cereus HD73]
 gi|449020974|gb|AGE76137.1| tRNA pseudouridine synthase A 2 [Bacillus thuringiensis serovar
           kurstaki str. HD73]
          Length = 245

 Score =  140 bits (353), Expect = 4e-31,   Method: Compositional matrix adjust.
 Identities = 73/204 (35%), Positives = 117/204 (57%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG R+ GWQ    +  TIQ  +E     ++++  +++ ++G SRTD GVHA  
Sbjct: 4   YKLTIQYDGARFKGWQRLGNNDNTIQGKIESV---ISEMVGKEIEIIGCSRTDAGVHALN 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F +         +   LN  LP DI +  +      FHAR+++K+K Y YKI+N+ 
Sbjct: 61  QVANFQSDEKLVE-HKVKKYLNQYLPNDISITNVEEVHDRFHARYNSKAKTYLYKIWNEE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             + F   Y+ H   KLN   M+ AA++ VG HDF+AF N +   +++  V+ ++  DV+
Sbjct: 120 HTNLFMRKYSMHVNKKLNVKSMKAAAKHLVGSHDFTAFSNAKSKKKSM--VREVYTLDVM 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E    +Q+ V G+GFL+  VR +V
Sbjct: 178 EEAGFVQIRVSGNGFLHNMVRKIV 201


>gi|402300073|ref|ZP_10819622.1| tRNA pseudouridine synthase A [Bacillus alcalophilus ATCC 27647]
 gi|401724764|gb|EJS98096.1| tRNA pseudouridine synthase A [Bacillus alcalophilus ATCC 27647]
          Length = 241

 Score =  140 bits (353), Expect = 4e-31,   Method: Compositional matrix adjust.
 Identities = 73/204 (35%), Positives = 114/204 (55%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG RY GWQ       TIQ  +E     V+++    + ++G+ RTD GVHA  
Sbjct: 4   YKLTIQYDGGRYKGWQRLGNGENTIQAKIEHV---VSEMAGVPIEIIGSGRTDAGVHALA 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           Q+A+F         +++   LN  LP DI V  +      +HARF    K+Y YKI+N+A
Sbjct: 61  QIANFKMEKEMTE-QAVQTYLNKYLPQDIVVTNVEIVADRYHARFHTTEKMYLYKIWNEA 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   Y+ H    L+   M+ AA +F+G+HDF+AF N + N +    V+ I+ F++ 
Sbjct: 120 YTNPFIRKYSTHIEEPLDLEKMKMAASFFIGEHDFTAFSNAKSNKKT--KVREIYSFEIT 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           +   L+++ + G+GFLY  VR +V
Sbjct: 178 KENGLIEVRISGNGFLYNMVRKIV 201


>gi|210618029|ref|ZP_03291864.1| hypothetical protein CLONEX_04097 [Clostridium nexile DSM 1787]
 gi|210149022|gb|EEA80031.1| hypothetical protein CLONEX_04097 [Clostridium nexile DSM 1787]
          Length = 245

 Score =  140 bits (353), Expect = 4e-31,   Method: Compositional matrix adjust.
 Identities = 78/204 (38%), Positives = 117/204 (57%), Gaps = 6/204 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + +L I YDGT Y GWQ Q +  T++ +V KAL    KL  ED++++GASRTD+GVHA G
Sbjct: 3   RIKLTIAYDGTNYCGWQVQPNGITVEEVVNKAL---KKLTGEDIQVIGASRTDSGVHALG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
            VA F T  +    E I  ALN  LP DI + +      +FH R+   SK Y Y I N  
Sbjct: 60  NVAVFDTHTTIPP-ERISYALNQRLPEDIVIVKSEEVAEDFHPRYCDCSKTYEYHILNMR 118

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           +  P +    Y   Y L+   MR+AA Y +G+HDF +F N++ +    + V+++   +++
Sbjct: 119 IPIPTKRLTNYFVSYDLDVEKMRKAAGYLIGEHDFVSFCNVRTD--VEDTVRTVTELEIL 176

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           + G  + + + G+GFLY  VR +V
Sbjct: 177 KDGEEITIRISGNGFLYNMVRIIV 200


>gi|293402539|ref|ZP_06646674.1| tRNA pseudouridine synthase A [Erysipelotrichaceae bacterium
           5_2_54FAA]
 gi|373453099|ref|ZP_09544997.1| tRNA pseudouridine synthase A [Eubacterium sp. 3_1_31]
 gi|291304053|gb|EFE45307.1| tRNA pseudouridine synthase A [Erysipelotrichaceae bacterium
           5_2_54FAA]
 gi|371964246|gb|EHO81776.1| tRNA pseudouridine synthase A [Eubacterium sp. 3_1_31]
          Length = 251

 Score =  140 bits (353), Expect = 4e-31,   Method: Compositional matrix adjust.
 Identities = 76/203 (37%), Positives = 117/203 (57%), Gaps = 6/203 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ V+ YDG+ Y GWQ Q +  +IQ ++E+AL    K+ + D+ +V + RTD GVHA  
Sbjct: 3   RYKAVVSYDGSSYGGWQKQLNTTSIQEVIEQAL---AKMHKHDVAIVASGRTDAGVHAIA 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF +         I  ALN LLP DIR++ +      FHARF A  K Y Y I ND 
Sbjct: 60  QVFHFDSEMKIQEKHWI-KALNSLLPKDIRIQSVKQVTEAFHARFDAIGKRYDYLISND- 117

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           +++PF+ +Y     +KL+   M+E A   +G HDF++F + + + R    VK+I R +V+
Sbjct: 118 ILNPFKENYMAKDAHKLDVAYMQECATVLIGTHDFTSFTSNKIDPRKPR-VKTITRLEVL 176

Query: 206 EMGALLQLEVEGSGFLYRQVRNM 228
           +    + +  EG+GFL   VR +
Sbjct: 177 QEKDHVHMIFEGNGFLRYMVRML 199


>gi|325660678|ref|ZP_08149308.1| tRNA pseudouridine synthase A [Lachnospiraceae bacterium 4_1_37FAA]
 gi|325473039|gb|EGC76247.1| tRNA pseudouridine synthase A [Lachnospiraceae bacterium 4_1_37FAA]
          Length = 249

 Score =  140 bits (353), Expect = 4e-31,   Method: Compositional matrix adjust.
 Identities = 77/201 (38%), Positives = 113/201 (56%), Gaps = 9/201 (4%)

Query: 27  WRLVIGYDGTRYAGWQFQTSPP-TIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ I YDG  Y GWQ  T+ P TIQ  +E+ L   +++E   +++ G+ RTD GVHA G
Sbjct: 9   YKMTIAYDGGGYKGWQRLTNEPGTIQGTIERVL---SEIEGSPVKISGSGRTDAGVHAKG 65

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVAH     + D  E +   LN +LP DIR+  + +    FH+R+SA SK+Y Y+I   +
Sbjct: 66  QVAHVFLKTNEDP-ELLRQELNRMLPEDIRICRVESVSQSFHSRYSAVSKVYEYRIDQRS 124

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             D F   Y YH    L+   MR+AA++  G HDF +F     +++  + V++IF  D+ 
Sbjct: 125 RADVFTRKYCYHRPVHLDLDRMRQAADHLTGTHDFGSFT----DNKEADSVRTIFSIDMK 180

Query: 206 EMGALLQLEVEGSGFLYRQVR 226
           E    L L   G GFLY  VR
Sbjct: 181 EENEKLVLAFCGDGFLYHMVR 201


>gi|452972629|gb|EME72458.1| tRNA pseudouridine synthase A [Bacillus sonorensis L12]
          Length = 247

 Score =  140 bits (353), Expect = 4e-31,   Method: Compositional matrix adjust.
 Identities = 80/202 (39%), Positives = 118/202 (58%), Gaps = 4/202 (1%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
            + +  I YDG  + G+Q Q    T+Q  +E+AL  + K  +E + +V + RTD+GVHA 
Sbjct: 1   MRMKCTISYDGHLFYGYQVQPGQRTVQDELERALKTLHK-SKERIPVVASGRTDSGVHAV 59

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           GQ  HF T  S    +  +A LN LLP DI V +  A   +FHARFSAK K Y Y IY  
Sbjct: 60  GQTIHFDTQLSIPETKWPYA-LNALLPDDIAVTKAEAVDDQFHARFSAKKKEYRYMIYRG 118

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
             ++ F+ HYAYH  Y+L+  ++ +AA++ VG HDF++F   +   +  + V++I+  + 
Sbjct: 119 RHLNVFKRHYAYHVPYELDLQMVEKAAQHLVGTHDFTSFCTAKTEVK--DKVRTIYELEW 176

Query: 205 IEMGALLQLEVEGSGFLYRQVR 226
            E    LQ+ + GSGFLY  VR
Sbjct: 177 SETEDGLQMRIVGSGFLYNMVR 198


>gi|163816009|ref|ZP_02207379.1| hypothetical protein COPEUT_02189 [Coprococcus eutactus ATCC 27759]
 gi|158448819|gb|EDP25814.1| tRNA pseudouridine synthase A [Coprococcus eutactus ATCC 27759]
          Length = 254

 Score =  140 bits (353), Expect = 5e-31,   Method: Compositional matrix adjust.
 Identities = 76/202 (37%), Positives = 116/202 (57%), Gaps = 6/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +LV+ YDGT Y GWQ Q +  T++ ++ K L   ++L  E+++++GASRTD+GVHA G V
Sbjct: 14  KLVVAYDGTNYCGWQVQINGITVEEVLNKTL---SELCHENIKVIGASRTDSGVHALGNV 70

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A F T     G E    ALN  LP DIR++E      +FH R+    K Y YKI N    
Sbjct: 71  AVFDTESGIPG-EKFSFALNQRLPEDIRIQESCQVADDFHPRYCDTIKTYEYKILNRRFD 129

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
            P +  Y+    Y L+   M+ AA   VG+HDF++F + +   +  N V++I    + ++
Sbjct: 130 MPTERLYSTFVYYPLDIDKMKRAAAVLVGEHDFNSFCSTR--SQVENTVRTITDITIDKV 187

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
           G ++ + + G+GFLY  VR +V
Sbjct: 188 GDMIHIRISGNGFLYNMVRIIV 209


>gi|412988146|emb|CCO17482.1| tRNA pseudouridine synthase A [Bathycoccus prasinos]
          Length = 314

 Score =  140 bits (353), Expect = 5e-31,   Method: Compositional matrix adjust.
 Identities = 90/221 (40%), Positives = 119/221 (53%), Gaps = 18/221 (8%)

Query: 27  WRLVIGYDGTRYAGWQFQTSPP-TIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +R ++ YDGT Y G+Q Q     TIQ  +E+ L+++T L+RE L L  A RTD GVHA  
Sbjct: 33  YRGIVSYDGTNYFGFQKQGEDKITIQSELERCLMQITCLDRELLCLGAAGRTDAGVHARK 92

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF T        +   A N LL  D+RV EI+   P FH+RF A  K Y Y I    
Sbjct: 93  QVFHFYTKEPLKDELNFMRACNRLLNEDVRVMEIAKPHPMFHSRFHAIEKTYRYTIDFGL 152

Query: 146 VMDPFQHHYAYHSVYK-LNTTLMREAAEYFVGKHDFSAFVNIQRNDRAL--NPVKSIFRF 202
              PF    A    Y+  +  L+ EA + FVG HDF+AF+N  R+ + L  N  ++I+ F
Sbjct: 153 PHSPFHRKTALSVGYREYDMKLLEEACKVFVGTHDFAAFMNRSRDGKNLERNSERTIYSF 212

Query: 203 DVIEM--------------GALLQLEVEGSGFLYRQVRNMV 229
           DVI                 +L+ L V G+GFLY+QVRNMV
Sbjct: 213 DVIRGGGEEEGGERYEDPSSSLVYLYVTGNGFLYKQVRNMV 253


>gi|440780606|ref|ZP_20959077.1| tRNA pseudouridine synthase A [Clostridium pasteurianum DSM 525]
 gi|440221194|gb|ELP60399.1| tRNA pseudouridine synthase A [Clostridium pasteurianum DSM 525]
          Length = 245

 Score =  140 bits (353), Expect = 5e-31,   Method: Compositional matrix adjust.
 Identities = 75/206 (36%), Positives = 122/206 (59%), Gaps = 13/206 (6%)

Query: 28  RLVIGYDGTRYAGWQFQT-SPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           ++ I YDG+RY GWQ Q     TIQ  +E  L   +K+  E+++++G  RTD GVHA   
Sbjct: 5   KMTIQYDGSRYKGWQKQKYGESTIQYKIENIL---SKMTGENIQVIGCGRTDAGVHAENY 61

Query: 87  VAHFITPFSYDGLESIHAALNGL---LPPDIRVREISAAVPEFHARFSAKSKIYHYKIYN 143
           +A+F T        +I+  L+ L   LP DI V+E+      FHAR++AKSK Y Y+I N
Sbjct: 62  IANFHTECEL----TINTMLDYLYEFLPEDIVVKEMEDVHERFHARYNAKSKTYVYRIDN 117

Query: 144 DAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFD 203
           +   D F   Y YH+  +LN   M++AAE  +G HDF +F N++ N+++   ++++   +
Sbjct: 118 NKFRDVFTRKYIYHTDEQLNLKEMKKAAEILIGTHDFKSFTNLKSNNKS--TIRTLNYIN 175

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
           ++E   ++++E+  +GFL   VR +V
Sbjct: 176 ILEKDNIIEMELNANGFLLNMVRIIV 201


>gi|385267176|ref|ZP_10045263.1| pseudouridylate synthase I [Bacillus sp. 5B6]
 gi|385151672|gb|EIF15609.1| pseudouridylate synthase I [Bacillus sp. 5B6]
          Length = 247

 Score =  140 bits (353), Expect = 5e-31,   Method: Compositional matrix adjust.
 Identities = 83/200 (41%), Positives = 113/200 (56%), Gaps = 6/200 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  I YDG  + G+Q Q    T+Q  +EKAL  + K +   + +  + RTD+ VHA GQV
Sbjct: 4   KCTIAYDGHLFNGYQVQPGKRTVQSELEKALAVIHKTDGR-VPVYSSGRTDSDVHAAGQV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF T  S    E    ALN LLP DI V+    A   FHARFSA  K Y Y +Y +   
Sbjct: 63  IHFDTSLSIPA-EKWPFALNALLPDDIAVKTAEIADDGFHARFSAVQKEYRYIVYTEKHP 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRAL-NPVKSIFRFDVIE 206
           D F+ +YAYH  Y+LN   MREA+ + +G HDF++F      D A+ + V++I+  D  E
Sbjct: 122 DVFKRYYAYHFAYQLNVQKMREASRHLIGTHDFTSFCAA---DTAVQDKVRTIYELDWTE 178

Query: 207 MGALLQLEVEGSGFLYRQVR 226
            G  LQ+ + G+GFLY  VR
Sbjct: 179 TGDGLQMRITGNGFLYNMVR 198


>gi|255284006|ref|ZP_05348561.1| tRNA pseudouridine synthase A [Bryantella formatexigens DSM 14469]
 gi|255265459|gb|EET58664.1| tRNA pseudouridine synthase A [Marvinbryantia formatexigens DSM
           14469]
          Length = 245

 Score =  140 bits (353), Expect = 5e-31,   Method: Compositional matrix adjust.
 Identities = 75/204 (36%), Positives = 114/204 (55%), Gaps = 6/204 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + +L++ YDGT Y+GWQ Q +  TI+ ++    + +++L  E +R++GASRTD GVHA G
Sbjct: 3   RVKLIVAYDGTNYSGWQIQPNAVTIESMLN---LHLSELLGEPIRVIGASRTDAGVHALG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
            VA F T       E I  A+N  LP DIR+++      +FH RF    K Y Y+I N  
Sbjct: 60  NVAVFDTSARMPA-EKISYAMNTRLPQDIRIQDSCEVAADFHPRFCKTIKTYEYRILNRR 118

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             DP +  Y+    Y L+   MR A  Y VG+HDF +       +   N V++I+  D+ 
Sbjct: 119 FPDPTRRLYSLFYYYPLDVENMRRALAYLVGEHDFKSLCT--HKEEVENTVRTIYEADIQ 176

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           + G ++ + + G+GFLY  VR +V
Sbjct: 177 KDGDMISIRISGNGFLYNMVRIIV 200


>gi|238916297|ref|YP_002929814.1| tRNA-pseudouridine synthase I [Eubacterium eligens ATCC 27750]
 gi|238871657|gb|ACR71367.1| tRNA-pseudouridine synthase I [Eubacterium eligens ATCC 27750]
          Length = 253

 Score =  140 bits (353), Expect = 5e-31,   Method: Compositional matrix adjust.
 Identities = 73/199 (36%), Positives = 118/199 (59%), Gaps = 6/199 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L++ YDGT Y+GWQ Q   PTI+  ++KA   + +L  E++ + GASRTD GVHA+G V
Sbjct: 5   KLIVAYDGTEYSGWQIQPEAPTIEMCLDKA---IRELTGENVHVTGASRTDAGVHAYGNV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A F T  +  G +    ALN  LP  I +++      +FH R     K Y Y+I N  V 
Sbjct: 62  AVFDTESTIPG-DRFTFALNRFLPDSIVIQDSWEVSGDFHPRHCNTRKTYEYRILNTVVP 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
            P + ++ +H    ++   M+EAA Y VG+HDF +F  ++   +A + V++I+  +V++ 
Sbjct: 121 LPQKRNFTWHVTGSIDIEKMKEAAAYIVGEHDFKSFCCVR--TQAESTVRTIYSLEVLQE 178

Query: 208 GALLQLEVEGSGFLYRQVR 226
           G+ + + ++G+GFLY  VR
Sbjct: 179 GSEIIIRIKGNGFLYNMVR 197


>gi|295093665|emb|CBK82756.1| pseudouridylate synthase I [Coprococcus sp. ART55/1]
          Length = 247

 Score =  140 bits (352), Expect = 6e-31,   Method: Compositional matrix adjust.
 Identities = 76/202 (37%), Positives = 113/202 (55%), Gaps = 6/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L++ YDGT Y GWQ Q +  T++ ++ K L   ++L  ED++++GASRTD+GVHA G V
Sbjct: 7   KLIVAYDGTNYCGWQVQINGITVEEVLNKTL---SELCHEDIKVIGASRTDSGVHALGNV 63

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A F T     G E    ALN  LP DIR++E      +FH R+    K Y YKI N    
Sbjct: 64  AVFDTESGIPG-EKFSFALNQRLPEDIRIQESCQVADDFHPRYCDTIKTYEYKILNRRFD 122

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
            P +  Y+    Y L+   M+ AA   VG+HDF +F +     +  N V++I    + + 
Sbjct: 123 MPTERLYSTFVYYPLDIDKMKRAAAVLVGEHDFKSFCS--SRSQVENTVRTITDITIDKA 180

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
           G ++ + + G+GFLY  VR +V
Sbjct: 181 GDMIHIRISGNGFLYNMVRIIV 202


>gi|306820983|ref|ZP_07454602.1| tRNA pseudouridine synthase A [Eubacterium yurii subsp. margaretiae
           ATCC 43715]
 gi|304550924|gb|EFM38896.1| tRNA pseudouridine synthase A [Eubacterium yurii subsp. margaretiae
           ATCC 43715]
          Length = 245

 Score =  140 bits (352), Expect = 6e-31,   Method: Compositional matrix adjust.
 Identities = 75/202 (37%), Positives = 115/202 (56%), Gaps = 6/202 (2%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L I YDGT Y+GWQ Q +  +IQ  +E A   ++ +  E++ ++ + RTD GVHA  Q+A
Sbjct: 6   LEISYDGTNYSGWQRQKNAISIQEKIEDA---ISLICNEEINVIASGRTDAGVHALSQIA 62

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +F T  S D  +    A+N  LP DIR+        +F+ARFSAK K Y Y I N  + +
Sbjct: 63  NFSTSSSIDA-KKFAKAINTKLPDDIRILSSKEVDEDFNARFSAKKKTYIYHILNREIKN 121

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM- 207
           PF   Y+ H   KL+  LM+  +   +G HDF++F   + N+   N +K+I+  D++++ 
Sbjct: 122 PFWDKYSMHINRKLDLELMKSNSNMLIGTHDFTSFYTYEENNPK-NTIKTIYSSDIVKIY 180

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
             +L   + G GFLY  VR +V
Sbjct: 181 EDILTFSITGDGFLYNMVRIIV 202


>gi|424835359|ref|ZP_18260024.1| tRNA pseudouridine synthase A [Clostridium sporogenes PA 3679]
 gi|365978152|gb|EHN14247.1| tRNA pseudouridine synthase A [Clostridium sporogenes PA 3679]
          Length = 246

 Score =  140 bits (352), Expect = 6e-31,   Method: Compositional matrix adjust.
 Identities = 78/204 (38%), Positives = 115/204 (56%), Gaps = 8/204 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPP--TIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +L + YDGT Y GWQ Q +    T+Q  +EK +  +TK   E + + GASRTD+GVHA G
Sbjct: 5   KLKLEYDGTNYCGWQKQKNEKFITLQGTLEKVISNITK---EKVEITGASRTDSGVHAKG 61

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
            + +F T  S    E++   +N  LPPDI V        EFH+RF +K K Y Y I N +
Sbjct: 62  YICNFFTN-SRIPPENLQKVINNNLPPDIVVLSSEEVSSEFHSRFCSKGKTYEYTILNKS 120

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
                  +Y +H  +KLN   MR A++YF+G +DFSAF    +       V++I +F++ 
Sbjct: 121 EPIAIGRNYVFHFKHKLNIDKMRIASKYFIGTYDFSAFQT--KGSSVKTSVRTISKFEIN 178

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           + G  ++  + G+GFLY  VR +V
Sbjct: 179 KSGDFIKFIITGNGFLYNMVRIIV 202


>gi|315651854|ref|ZP_07904857.1| tRNA pseudouridine synthase A [Lachnoanaerobaculum saburreum DSM
           3986]
 gi|315485856|gb|EFU76235.1| tRNA pseudouridine synthase A [Lachnoanaerobaculum saburreum DSM
           3986]
          Length = 245

 Score =  140 bits (352), Expect = 6e-31,   Method: Compositional matrix adjust.
 Identities = 72/201 (35%), Positives = 120/201 (59%), Gaps = 6/201 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + RL++ YDGT Y GWQ Q +  T++ I+ +A   ++KL  E++ ++GASRTD+GVHA+G
Sbjct: 3   RIRLIVSYDGTNYCGWQKQPNGITVEEILNRA---ISKLTGEEIEVIGASRTDSGVHAYG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
            VA F T       +    A+N  LP DIR++       ++H R +   K Y Y+I N  
Sbjct: 60  NVAVFDTNVRM-AADKFAFAINQRLPDDIRIQYSDEVESDWHPRKNDCIKTYTYRILNRK 118

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           +  P +  YA+   + L+   MREA+ YF+G HDF++F +  +  +A +P++++F  +V+
Sbjct: 119 IDIPTERLYAHFCYFNLDVEKMREASGYFIGTHDFTSFCS--QKSQASSPIRTVFSLEVL 176

Query: 206 EMGALLQLEVEGSGFLYRQVR 226
           +   ++ + V G GFLY  +R
Sbjct: 177 QDEDMITIVVRGDGFLYNMIR 197


>gi|309809150|ref|ZP_07703023.1| tRNA pseudouridine synthase A [Lactobacillus iners SPIN 2503V10-D]
 gi|308170595|gb|EFO72615.1| tRNA pseudouridine synthase A [Lactobacillus iners SPIN 2503V10-D]
          Length = 260

 Score =  140 bits (352), Expect = 6e-31,   Method: Compositional matrix adjust.
 Identities = 76/201 (37%), Positives = 121/201 (60%), Gaps = 4/201 (1%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++L++ YDGT + G+Q Q +  TIQ ++E AL+++TK +   + + G+ RTD GVHA G
Sbjct: 3   RYKLILAYDGTLFHGFQKQPNQRTIQGVIEDALLKMTKGKH--VIVHGSGRTDAGVHAKG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P +    +++  ALN L+P DI   +      +FH ++S K+K Y Y I    
Sbjct: 61  QVIHFDYPGNVIPAKNMLLALNALMPRDIIFLDSELVNDDFHVQYSTKAKWYRYIINQSR 120

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             DPF+ +Y  H  YKL+   M++AA Y +GKHDF++F       + ++ V++IF  ++ 
Sbjct: 121 FTDPFRRNYTGHCPYKLDMLKMKKAATYLLGKHDFTSFA--ASGGQIVDKVRTIFYINLE 178

Query: 206 EMGALLQLEVEGSGFLYRQVR 226
           + G  + L+V G GFLY  VR
Sbjct: 179 QNGDEIVLDVIGDGFLYNMVR 199


>gi|196233677|ref|ZP_03132518.1| tRNA pseudouridine synthase A [Chthoniobacter flavus Ellin428]
 gi|196222347|gb|EDY16876.1| tRNA pseudouridine synthase A [Chthoniobacter flavus Ellin428]
          Length = 251

 Score =  140 bits (352), Expect = 6e-31,   Method: Compositional matrix adjust.
 Identities = 77/205 (37%), Positives = 115/205 (56%), Gaps = 8/205 (3%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLV--GASRTDTGVH 82
            + +++I YDG  + GWQ Q +   +Q  +E A  +         R+V  G+ RTD GVH
Sbjct: 5   LRLKMLIAYDGRPFRGWQSQATKDAVQDHMEAAFAKTI-----GGRVVVHGSGRTDAGVH 59

Query: 83  AWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIY 142
           A  Q+AH   P +   + +   ALN  LPP+IRV  +S A P+FHARF A+ KIY Y+++
Sbjct: 60  ALAQIAHADVPAARLEVSAWRGALNNFLPPEIRVLRVSRAAPDFHARFHARGKIYTYRMW 119

Query: 143 NDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAF-VNIQRNDRALNPVKSIFR 201
           N + + P +   A+H   KL+  ++R+ A+   GKHDF+ F  N      A + V++I  
Sbjct: 120 NASYLHPLEIGRAWHMPSKLDLDILRQGAQMLEGKHDFAGFAANRAPGYAAEDTVRTIQH 179

Query: 202 FDVIEMGALLQLEVEGSGFLYRQVR 226
             +   G LL L  EG+GFLY+ VR
Sbjct: 180 ICLTRRGDLLNLRFEGNGFLYKMVR 204


>gi|312874027|ref|ZP_07734062.1| tRNA pseudouridine synthase A [Lactobacillus iners LEAF 2052A-d]
 gi|312874727|ref|ZP_07734746.1| tRNA pseudouridine synthase A [Lactobacillus iners LEAF 2053A-b]
 gi|325912360|ref|ZP_08174756.1| tRNA pseudouridine synthase A [Lactobacillus iners UPII 143-D]
 gi|329920629|ref|ZP_08277316.1| tRNA pseudouridine synthase A [Lactobacillus iners SPIN 1401G]
 gi|349611897|ref|ZP_08891127.1| tRNA pseudouridine synthase A [Lactobacillus sp. 7_1_47FAA]
 gi|311089472|gb|EFQ47897.1| tRNA pseudouridine synthase A [Lactobacillus iners LEAF 2053A-b]
 gi|311090367|gb|EFQ48776.1| tRNA pseudouridine synthase A [Lactobacillus iners LEAF 2052A-d]
 gi|325475831|gb|EGC79001.1| tRNA pseudouridine synthase A [Lactobacillus iners UPII 143-D]
 gi|328935887|gb|EGG32347.1| tRNA pseudouridine synthase A [Lactobacillus iners SPIN 1401G]
 gi|348608362|gb|EGY58347.1| tRNA pseudouridine synthase A [Lactobacillus sp. 7_1_47FAA]
          Length = 260

 Score =  140 bits (352), Expect = 6e-31,   Method: Compositional matrix adjust.
 Identities = 76/201 (37%), Positives = 121/201 (60%), Gaps = 4/201 (1%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++L++ YDGT + G+Q Q +  TIQ ++E AL+++TK   + + + G+ RTD GVHA G
Sbjct: 3   RYKLILAYDGTLFHGFQKQPNQRTIQGVIEDALLKMTK--GKHVIVHGSGRTDAGVHAKG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P +    +++  ALN L+P DI   +      +FH ++S K+K Y Y I    
Sbjct: 61  QVIHFDYPGNVIPAKNMLLALNALMPRDIIFLDSELVNDDFHVQYSTKAKWYRYIINQSR 120

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             DPF+ +Y  H  YKL+   M++AA Y +GKHDF++F       + ++ V++IF  ++ 
Sbjct: 121 FTDPFRRNYTGHCPYKLDMLKMKKAATYLLGKHDFTSFA--ASGGQIVDKVRTIFYINLE 178

Query: 206 EMGALLQLEVEGSGFLYRQVR 226
           + G  + L+V G GFLY  VR
Sbjct: 179 QHGDEIVLDVIGDGFLYNMVR 199


>gi|259500923|ref|ZP_05743825.1| tRNA pseudouridine synthase A [Lactobacillus iners DSM 13335]
 gi|302190624|ref|ZP_07266878.1| tRNA pseudouridine synthase A [Lactobacillus iners AB-1]
 gi|309803645|ref|ZP_07697735.1| tRNA pseudouridine synthase A [Lactobacillus iners LactinV 11V1-d]
 gi|309804945|ref|ZP_07699003.1| tRNA pseudouridine synthase A [Lactobacillus iners LactinV 09V1-c]
 gi|309806696|ref|ZP_07700691.1| tRNA pseudouridine synthase A [Lactobacillus iners LactinV 03V1-b]
 gi|309808529|ref|ZP_07702428.1| tRNA pseudouridine synthase A [Lactobacillus iners LactinV 01V1-a]
 gi|312871160|ref|ZP_07731258.1| tRNA pseudouridine synthase A [Lactobacillus iners LEAF 3008A-a]
 gi|312872668|ref|ZP_07732733.1| tRNA pseudouridine synthase A [Lactobacillus iners LEAF 2062A-h1]
 gi|315653995|ref|ZP_07906911.1| tRNA pseudouridine synthase A [Lactobacillus iners ATCC 55195]
 gi|259167617|gb|EEW52112.1| tRNA pseudouridine synthase A [Lactobacillus iners DSM 13335]
 gi|308164243|gb|EFO66500.1| tRNA pseudouridine synthase A [Lactobacillus iners LactinV 11V1-d]
 gi|308165705|gb|EFO67930.1| tRNA pseudouridine synthase A [Lactobacillus iners LactinV 09V1-c]
 gi|308166876|gb|EFO69060.1| tRNA pseudouridine synthase A [Lactobacillus iners LactinV 03V1-b]
 gi|308168357|gb|EFO70476.1| tRNA pseudouridine synthase A [Lactobacillus iners LactinV 01V1-a]
 gi|311091710|gb|EFQ50089.1| tRNA pseudouridine synthase A [Lactobacillus iners LEAF 2062A-h1]
 gi|311093174|gb|EFQ51520.1| tRNA pseudouridine synthase A [Lactobacillus iners LEAF 3008A-a]
 gi|315488691|gb|EFU78337.1| tRNA pseudouridine synthase A [Lactobacillus iners ATCC 55195]
          Length = 260

 Score =  140 bits (352), Expect = 6e-31,   Method: Compositional matrix adjust.
 Identities = 76/201 (37%), Positives = 121/201 (60%), Gaps = 4/201 (1%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++L++ YDGT + G+Q Q +  TIQ ++E AL+++TK +   + + G+ RTD GVHA G
Sbjct: 3   RYKLILAYDGTLFHGFQKQPNQRTIQGVIEDALLKMTKGKH--VIVHGSGRTDAGVHAKG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P +    +++  ALN L+P DI   +      +FH ++S K+K Y Y I    
Sbjct: 61  QVIHFDYPGNVIPAKNMLLALNALMPRDIIFLDSELVNDDFHVQYSTKAKWYRYIINQSR 120

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             DPF+ +Y  H  YKL+   M++AA Y +GKHDF++F       + ++ V++IF  ++ 
Sbjct: 121 FTDPFRRNYTGHCPYKLDMLKMKKAATYLLGKHDFTSFA--ASGGQIVDKVRTIFYINLE 178

Query: 206 EMGALLQLEVEGSGFLYRQVR 226
           + G  + L+V G GFLY  VR
Sbjct: 179 QNGDEIVLDVIGDGFLYNMVR 199


>gi|227543592|ref|ZP_03973641.1| tRNA pseudouridine synthase A [Lactobacillus reuteri CF48-3A]
 gi|338202916|ref|YP_004649061.1| tRNA pseudouridine synthase A [Lactobacillus reuteri SD2112]
 gi|227186432|gb|EEI66503.1| tRNA pseudouridine synthase A [Lactobacillus reuteri CF48-3A]
 gi|336448156|gb|AEI56771.1| tRNA pseudouridine synthase A [Lactobacillus reuteri SD2112]
          Length = 256

 Score =  140 bits (352), Expect = 6e-31,   Method: Compositional matrix adjust.
 Identities = 74/207 (35%), Positives = 120/207 (57%), Gaps = 5/207 (2%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
           +++++   YDGT ++G+Q Q +  T++  ++ A+ ++ K     + ++G+ RTD GVHA 
Sbjct: 2   YRYKITFAYDGTNFSGFQIQPNKRTVEQTLKNAVNKIAKHPNPAIPVIGSGRTDAGVHAL 61

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
            QVAHF  P+     ES+  ALN +LP DI +++      +FHAR+SA  K Y Y++   
Sbjct: 62  NQVAHFDIPYHLSN-ESMRKALNSILPLDILIKKAELVDNDFHARYSAHRKTYRYRVDQG 120

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
             ++PF+ +Y  H  Y LN   MR+AA   VG HDF++FV      +A + V++I    +
Sbjct: 121 EFVNPFKRNYTSHFKYPLNLEKMRKAANDLVGTHDFTSFV--ASGSQAKSNVRTIESITI 178

Query: 205 I--EMGALLQLEVEGSGFLYRQVRNMV 229
              E+   +  +  G+GFLY QVR MV
Sbjct: 179 KRDELRNEVVFDFTGNGFLYNQVRIMV 205


>gi|148544665|ref|YP_001272035.1| tRNA pseudouridine synthase A [Lactobacillus reuteri DSM 20016]
 gi|184154018|ref|YP_001842359.1| tRNA pseudouridine synthase A [Lactobacillus reuteri JCM 1112]
 gi|194466922|ref|ZP_03072909.1| tRNA pseudouridine synthase A [Lactobacillus reuteri 100-23]
 gi|227363788|ref|ZP_03847895.1| tRNA pseudouridine synthase A [Lactobacillus reuteri MM2-3]
 gi|325682999|ref|ZP_08162515.1| tRNA pseudouridine synthase A [Lactobacillus reuteri MM4-1A]
 gi|166991164|sp|A5VLH4.1|TRUA_LACRD RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|229557996|sp|B2G8U7.1|TRUA_LACRJ RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|148531699|gb|ABQ83698.1| tRNA pseudouridine synthase A [Lactobacillus reuteri DSM 20016]
 gi|183225362|dbj|BAG25879.1| tRNA pseudouridine synthase A [Lactobacillus reuteri JCM 1112]
 gi|194453958|gb|EDX42855.1| tRNA pseudouridine synthase A [Lactobacillus reuteri 100-23]
 gi|227071145|gb|EEI09461.1| tRNA pseudouridine synthase A [Lactobacillus reuteri MM2-3]
 gi|324977349|gb|EGC14300.1| tRNA pseudouridine synthase A [Lactobacillus reuteri MM4-1A]
          Length = 256

 Score =  140 bits (352), Expect = 6e-31,   Method: Compositional matrix adjust.
 Identities = 74/207 (35%), Positives = 121/207 (58%), Gaps = 5/207 (2%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
           +++++   YDGT ++G+Q Q +  T++  ++ A+ ++ K     + ++G+ RTD GVHA 
Sbjct: 2   YRYKITFAYDGTNFSGFQIQPNKRTVEQTLKNAVNKIAKHPTPAIPVIGSGRTDAGVHAL 61

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
            QVAHF  P+     ES+  ALN +LP DI +++      +FHAR+SA  K Y Y++   
Sbjct: 62  NQVAHFDIPYHLSN-ESMRKALNSILPLDILIKKAELVDNDFHARYSAHRKTYRYRVDQG 120

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
             ++PF+ +Y  H  Y LN   MR+AA+  VG HDF++FV      +A + V++I    +
Sbjct: 121 EFVNPFKRNYTSHFKYPLNLEKMRKAADDLVGTHDFTSFV--ASGSQAKSNVRTIENITI 178

Query: 205 I--EMGALLQLEVEGSGFLYRQVRNMV 229
              E+   +  +  G+GFLY QVR MV
Sbjct: 179 KRDEVRNEVVFDFTGNGFLYNQVRIMV 205


>gi|291542954|emb|CBL16064.1| pseudouridylate synthase I [Ruminococcus bromii L2-63]
          Length = 266

 Score =  140 bits (352), Expect = 6e-31,   Method: Compositional matrix adjust.
 Identities = 80/206 (38%), Positives = 114/206 (55%), Gaps = 15/206 (7%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG--- 85
           L I YDG  + GWQ Q +  T+Q   + AL   +K+   D  + G SRTD+GVHA     
Sbjct: 15  LTISYDGKEFHGWQIQQNAMTVQEAFQTAL---SKIIGNDFDVKGCSRTDSGVHANMYCI 71

Query: 86  --QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYN 143
             +  H I P      E + AALN  LP  I V +     P+FHAR+S  SK Y YKI+N
Sbjct: 72  SLKTEHPIKP------ERLKAALNRWLPLSIAVLDCKEVAPDFHARYSCTSKEYIYKIWN 125

Query: 144 DAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFD 203
             V +PF   YA H  YK++  L+ +AA+ +VG+HDF++F  +   ++  +  +++  F 
Sbjct: 126 SEVRNPFLDGYALHYRYKIDENLLDKAAQAYVGRHDFTSFCTLDNREKG-DMTRNVKAFS 184

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
           V   G L+ ++VE  GFLY  VR MV
Sbjct: 185 VTREGDLVTMKVEADGFLYNMVRIMV 210


>gi|138893815|ref|YP_001124268.1| tRNA pseudouridine synthase A [Geobacillus thermodenitrificans
           NG80-2]
 gi|196250992|ref|ZP_03149674.1| tRNA pseudouridine synthase A [Geobacillus sp. G11MC16]
 gi|166228701|sp|A4IJL9.1|TRUA_GEOTN RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|134265328|gb|ABO65523.1| tRNA pseudouridine synthase A [Geobacillus thermodenitrificans
           NG80-2]
 gi|196209464|gb|EDY04241.1| tRNA pseudouridine synthase A [Geobacillus sp. G11MC16]
          Length = 253

 Score =  140 bits (352), Expect = 6e-31,   Method: Compositional matrix adjust.
 Identities = 83/205 (40%), Positives = 113/205 (55%), Gaps = 9/205 (4%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           + V+ YDGT ++G+Q Q    T+Q   E  L R+ K   +D+R+  + RTD GVHA+GQV
Sbjct: 6   KCVVAYDGTYFSGYQVQPGKRTVQGEFEGVLKRMHK--GDDVRITASGRTDAGVHAYGQV 63

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP +    E    ALN  LP DI VR +  A   FHARFSAK+K Y Y ++  A  
Sbjct: 64  IHFDTPLALSP-EQWKKALNAQLPDDIAVRSVDEADSTFHARFSAKAKEYRYNVWTAAER 122

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQR--NDRALNPVKSIFRFDVI 205
           D F+ HY     Y L    M EA     G HDF++F + +    DR    V++I++ ++ 
Sbjct: 123 DVFRRHYCAWHPYPLRVDAMSEALGLLKGTHDFTSFCSAKTVIEDR----VRTIYQAEME 178

Query: 206 EMGALLQLEVEGSGFLYRQVRNMVN 230
             G +LQ    GSGFLY  VR +V 
Sbjct: 179 VDGPMLQFRFVGSGFLYNMVRIIVG 203


>gi|325913236|ref|ZP_08175605.1| tRNA pseudouridine synthase A [Lactobacillus iners UPII 60-B]
 gi|325477500|gb|EGC80643.1| tRNA pseudouridine synthase A [Lactobacillus iners UPII 60-B]
          Length = 260

 Score =  140 bits (352), Expect = 6e-31,   Method: Compositional matrix adjust.
 Identities = 76/201 (37%), Positives = 121/201 (60%), Gaps = 4/201 (1%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++L++ YDGT + G+Q Q +  TIQ ++E AL+++TK +   + + G+ RTD GVHA G
Sbjct: 3   RYKLILAYDGTLFHGFQKQPNQRTIQGVIEDALLKMTKGKH--VIVHGSGRTDAGVHAKG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P +    +++  ALN L+P DI   +      +FH ++S K+K Y Y I    
Sbjct: 61  QVIHFDYPGNVIPAKNMLLALNALMPRDIIFLDSELVNDDFHVQYSTKAKWYRYIINQSR 120

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             DPF+ +Y  H  YKL+   M++AA Y +GKHDF++F       + ++ V++IF  ++ 
Sbjct: 121 FTDPFRRNYTGHCPYKLDMLKMKKAATYLLGKHDFTSFA--ASGGQIVDKVRTIFYINLE 178

Query: 206 EMGALLQLEVEGSGFLYRQVR 226
           + G  + L+V G GFLY  VR
Sbjct: 179 QHGDEIVLDVIGDGFLYNMVR 199


>gi|291548427|emb|CBL21535.1| pseudouridylate synthase I [Ruminococcus sp. SR1/5]
          Length = 245

 Score =  139 bits (351), Expect = 7e-31,   Method: Compositional matrix adjust.
 Identities = 76/198 (38%), Positives = 109/198 (55%), Gaps = 6/198 (3%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           LV+ YDGT+Y+GWQ Q +  TIQ ++   L   ++L  E +  +GASRTD GVHA G VA
Sbjct: 6   LVVAYDGTKYSGWQTQPNGITIQGVLNDTL---SELLGEKIETIGASRTDAGVHALGNVA 62

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
            F T     G E    ALN  LP DIR++      P+FH R+    K Y Y+I N     
Sbjct: 63  VFDTESRIPG-EKFSYALNQRLPEDIRIQLSEEVEPDFHPRYCDSEKTYEYRILNRKFPV 121

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
           P +  Y+Y   YKL+   M+EA  Y +G+HDF++F       +    ++++   DV   G
Sbjct: 122 PTERLYSYFYHYKLDVDKMKEATSYLIGRHDFASFCG--SGAQVKTTIRTVTSMDVWRDG 179

Query: 209 ALLQLEVEGSGFLYRQVR 226
            ++ + + G+GFLY  VR
Sbjct: 180 DMVTIRISGTGFLYNMVR 197


>gi|15605190|ref|NP_219976.1| tRNA pseudouridine synthase A [Chlamydia trachomatis D/UW-3/CX]
 gi|385240910|ref|YP_005808751.1| tRNA pseudouridine synthase A [Chlamydia trachomatis G/11222]
 gi|385243671|ref|YP_005811517.1| tRNA pseudouridine synthase A [Chlamydia trachomatis D-EC]
 gi|385244551|ref|YP_005812395.1| tRNA pseudouridine synthase A [Chlamydia trachomatis D-LC]
 gi|8134751|sp|O84469.1|TRUA_CHLTR RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|3328897|gb|AAC68063.1| Pseudouridylate Synthase I [Chlamydia trachomatis D/UW-3/CX]
 gi|296436918|gb|ADH19088.1| tRNA pseudouridine synthase A [Chlamydia trachomatis G/11222]
 gi|297748594|gb|ADI51140.1| tRNA pseudouridine synthase A [Chlamydia trachomatis D-EC]
 gi|297749474|gb|ADI52152.1| tRNA pseudouridine synthase A [Chlamydia trachomatis D-LC]
 gi|440525385|emb|CCP50636.1| tRNA pseudouridine synthase A [Chlamydia trachomatis K/SotonK1]
 gi|440528062|emb|CCP53546.1| tRNA pseudouridine synthase A [Chlamydia trachomatis D/SotonD5]
 gi|440528952|emb|CCP54436.1| tRNA pseudouridine synthase A [Chlamydia trachomatis D/SotonD6]
 gi|440532527|emb|CCP58037.1| tRNA pseudouridine synthase A [Chlamydia trachomatis G/SotonG1]
          Length = 267

 Score =  139 bits (351), Expect = 7e-31,   Method: Compositional matrix adjust.
 Identities = 78/208 (37%), Positives = 118/208 (56%), Gaps = 11/208 (5%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           K  L I Y GT Y+GWQ+Q +  +IQ ++E  L ++       + ++ + RTD GVHA G
Sbjct: 4   KIVLQIAYQGTSYSGWQYQPNALSIQEVLETILKKIAGFR---ISVISSGRTDAGVHAQG 60

Query: 86  QVAHFITP--FSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYN 143
           Q+AHF  P    +     I   LN LLP DI +R+      +FH+RFSA +K Y Y +  
Sbjct: 61  QIAHFHCPDHPHFTDPRQIQKMLNALLPHDIVIRDAVMTDEDFHSRFSAIAKEYRYTL-- 118

Query: 144 DAVMDPFQHH--YAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFR 201
             +  P  HH  + +   YKLN   M+EAA+Y VG HDF++F N+ R   +   +++++ 
Sbjct: 119 SLLPKPLPHHRLFCFSPRYKLNIARMQEAAQYLVGTHDFASFANLGREYSST--IRTLYT 176

Query: 202 FDVIEMGALLQLEVEGSGFLYRQVRNMV 229
            D+ E   L+ +   G+GFLY+ VRN+V
Sbjct: 177 LDLSEQEHLVTVICRGNGFLYKMVRNIV 204


>gi|160941032|ref|ZP_02088370.1| hypothetical protein CLOBOL_05925 [Clostridium bolteae ATCC
           BAA-613]
 gi|158435981|gb|EDP13748.1| hypothetical protein CLOBOL_05925 [Clostridium bolteae ATCC
           BAA-613]
          Length = 247

 Score =  139 bits (351), Expect = 7e-31,   Method: Compositional matrix adjust.
 Identities = 81/203 (39%), Positives = 121/203 (59%), Gaps = 9/203 (4%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + RLV+ YDGT+Y GWQ Q    TI+ ++ +AL   T+L RE ++++GASRTD+GVHA G
Sbjct: 3   RIRLVVAYDGTQYHGWQIQPGAVTIESVLNEAL---TQLMREPIQVIGASRTDSGVHARG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVP-EFHARFSAKSKIYHYKIYND 144
            VA F T  S    + I  ALN  LP DIRV ++S  VP ++H R     K Y Y+I N 
Sbjct: 60  NVAVFDTE-SQMPPDKICMALNQRLPEDIRV-QVSEEVPSDWHPRKCTCIKTYEYRILNR 117

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
            +  P +  Y++   YKL+   M+ AA    G+HDF +F +++   +  + V++++R DV
Sbjct: 118 RINMPMERLYSHFCYYKLDVDRMQAAANMLAGEHDFKSFCSVR--TQVTDTVRTVYRIDV 175

Query: 205 IEMG-ALLQLEVEGSGFLYRQVR 226
                 ++ + V G+GFLY  VR
Sbjct: 176 TRNADDIITIRVTGNGFLYNMVR 198


>gi|386813930|ref|ZP_10101154.1| tRNA pseudouridine synthase [planctomycete KSU-1]
 gi|386403427|dbj|GAB64035.1| tRNA pseudouridine synthase [planctomycete KSU-1]
          Length = 246

 Score =  139 bits (351), Expect = 7e-31,   Method: Compositional matrix adjust.
 Identities = 76/202 (37%), Positives = 119/202 (58%), Gaps = 6/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L+I YDGT YAGWQ+Q +  TIQ  +  A+ +  +   E ++L GASRTD GVHA+GQV
Sbjct: 5   QLLIEYDGTHYAGWQWQKNEKTIQETLTGAIEQAIQ---EQIKLYGASRTDAGVHAFGQV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A+F T  S    E +  A+N  LP DI V++++     FHA++ AKSKIY Y ++ND + 
Sbjct: 62  ANFKT-ISDIPPERLLLAINFYLPCDITVKKVTDVPESFHAQYGAKSKIYQYTLFNDWIR 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
                ++ Y   + ++   +  AA + +G HDF++F    R ++  + +++I   DV + 
Sbjct: 121 TSLNRYFCYLYGFHMDMNKIVTAARHLIGTHDFTSFTTKARYEK--DRIRTIKSLDVKKE 178

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
           G  +   +E  GFLY  VR +V
Sbjct: 179 GKYIYFTIEADGFLYNMVRTIV 200


>gi|404493538|ref|YP_006717644.1| tRNA pseudouridine synthase A [Pelobacter carbinolicus DSM 2380]
 gi|123756611|sp|Q3A3B5.1|TRUA_PELCD RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|77545580|gb|ABA89142.1| tRNA pseudouridines 38,39,40 synthase [Pelobacter carbinolicus DSM
           2380]
          Length = 252

 Score =  139 bits (351), Expect = 7e-31,   Method: Compositional matrix adjust.
 Identities = 80/203 (39%), Positives = 111/203 (54%), Gaps = 6/203 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           RL+I YDGT Y GWQ Q +  ++Q +VE+AL +V         LV + RTD GVHA G V
Sbjct: 5   RLIIEYDGTPYVGWQRQPNGLSVQQVVEEALAKVCGGPHS---LVSSGRTDAGVHARGMV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           AHF+TP     + +    +N  LP  I VR+ +    +FHAR+SA  K Y Y IY   V 
Sbjct: 62  AHFVTPQPLP-MAAYREGVNRFLPAQIAVRDAALMPDDFHARYSAVGKWYRYSIYRSPVR 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
            P    +++H    L+   MR+AA   VG+HDF+AF        A   V+ +F  D+++ 
Sbjct: 121 SPLACRFSWHVRTVLDLQAMRQAARLLVGRHDFAAFRA--SGCAARTTVREVFSVDIVDA 178

Query: 208 GALLQLEVEGSGFLYRQVRNMVN 230
              + ++V GSGFL   VR MV 
Sbjct: 179 EEWVYVDVRGSGFLRNMVRIMVG 201


>gi|399055838|ref|ZP_10743488.1| pseudouridylate synthase I [Brevibacillus sp. CF112]
 gi|433543260|ref|ZP_20499670.1| tRNA pseudouridine synthase A [Brevibacillus agri BAB-2500]
 gi|398046701|gb|EJL39295.1| pseudouridylate synthase I [Brevibacillus sp. CF112]
 gi|432185389|gb|ELK42880.1| tRNA pseudouridine synthase A [Brevibacillus agri BAB-2500]
          Length = 244

 Score =  139 bits (351), Expect = 8e-31,   Method: Compositional matrix adjust.
 Identities = 79/204 (38%), Positives = 117/204 (57%), Gaps = 6/204 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + R V+GYDGT ++G+Q Q    T+Q  +E AL R+T    ED+++ G+ RTD GVHA G
Sbjct: 3   RLRCVLGYDGTDFSGFQVQPDQVTVQGEIEAALKRITG---EDIQIHGSGRTDAGVHARG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF T  S+  L+     LN  LP  I +R +      FHARF  + K Y Y I N+ 
Sbjct: 60  QVIHFDTN-SHIPLDKWRFVLNNQLPDAIVIRSVEEVAESFHARFDVRVKEYRYCIDNNP 118

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           V D F+H YA H  + L+   M++AA + VG+HDF++F + +      + V++++   V 
Sbjct: 119 VADVFRHRYADHIRFPLDVEAMQQAARHLVGEHDFTSFCSAKTF--VEDKVRTVYSLTVE 176

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
             G  + +   G+GFLY  VR +V
Sbjct: 177 RSGGEVWVTCRGNGFLYNMVRIIV 200


>gi|237802891|ref|YP_002888085.1| tRNA pseudouridine synthase A [Chlamydia trachomatis B/Jali20/OT]
 gi|237804813|ref|YP_002888967.1| tRNA pseudouridine synthase A [Chlamydia trachomatis B/TZ1A828/OT]
 gi|255311275|ref|ZP_05353845.1| tRNA pseudouridine synthase A [Chlamydia trachomatis 6276]
 gi|255317577|ref|ZP_05358823.1| tRNA pseudouridine synthase A [Chlamydia trachomatis 6276s]
 gi|376282472|ref|YP_005156298.1| tRNA pseudouridine synthase A [Chlamydia trachomatis A2497]
 gi|385270163|ref|YP_005813323.1| tRNA pseudouridine synthase A [Chlamydia trachomatis A2497]
 gi|231273113|emb|CAX10026.1| tRNA pseudouridine synthase A [Chlamydia trachomatis B/TZ1A828/OT]
 gi|231274125|emb|CAX10919.1| tRNA pseudouridine synthase A [Chlamydia trachomatis B/Jali20/OT]
 gi|347975303|gb|AEP35324.1| tRNA pseudouridine synthase A [Chlamydia trachomatis A2497]
 gi|371908502|emb|CAX09132.1| tRNA pseudouridine synthase A [Chlamydia trachomatis A2497]
 gi|438690396|emb|CCP49653.1| tRNA pseudouridine synthase A [Chlamydia trachomatis A/7249]
 gi|438691481|emb|CCP48755.1| tRNA pseudouridine synthase A [Chlamydia trachomatis A/5291]
 gi|438692854|emb|CCP47856.1| tRNA pseudouridine synthase A [Chlamydia trachomatis A/363]
 gi|440533420|emb|CCP58930.1| tRNA pseudouridine synthase A [Chlamydia trachomatis Ia/SotonIa1]
 gi|440534314|emb|CCP59824.1| tRNA pseudouridine synthase A [Chlamydia trachomatis Ia/SotonIa3]
          Length = 267

 Score =  139 bits (351), Expect = 8e-31,   Method: Compositional matrix adjust.
 Identities = 78/208 (37%), Positives = 118/208 (56%), Gaps = 11/208 (5%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           K  L I Y GT Y+GWQ+Q +  +IQ ++E  L ++       + ++ + RTD GVHA G
Sbjct: 4   KIVLQIAYQGTSYSGWQYQPNALSIQEVLETILKKIAGFR---ISVISSGRTDAGVHAQG 60

Query: 86  QVAHFITP--FSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYN 143
           Q+AHF  P    +     I   LN LLP DI +R+      +FH+RFSA +K Y Y +  
Sbjct: 61  QIAHFHCPDHPHFTDPRQIQKMLNALLPHDIVIRDAVMTDGDFHSRFSAIAKEYRYTL-- 118

Query: 144 DAVMDPFQHH--YAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFR 201
             +  P  HH  + +   YKLN   M+EAA+Y VG HDF++F N+ R   +   +++++ 
Sbjct: 119 SLLPKPLPHHRLFCFSPRYKLNIARMQEAAQYLVGTHDFASFANLGREYSST--IRTLYT 176

Query: 202 FDVIEMGALLQLEVEGSGFLYRQVRNMV 229
            D+ E   L+ +   G+GFLY+ VRN+V
Sbjct: 177 LDLSEQEHLVTVICRGNGFLYKMVRNIV 204


>gi|423334733|ref|ZP_17312511.1| tRNA pseudouridine synthase A [Lactobacillus reuteri ATCC 53608]
 gi|337728254|emb|CCC03349.1| tRNA pseudouridine synthase A [Lactobacillus reuteri ATCC 53608]
          Length = 256

 Score =  139 bits (351), Expect = 8e-31,   Method: Compositional matrix adjust.
 Identities = 74/207 (35%), Positives = 120/207 (57%), Gaps = 5/207 (2%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
           +++++   YDGT ++G+Q Q +  T++  ++ A+ ++ K     + ++G+ RTD GVHA 
Sbjct: 2   YRYKITFAYDGTNFSGFQIQPNKRTVEQTLKNAVNKIAKHPTPAIPVIGSGRTDAGVHAL 61

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
            QVAHF  P+     ES+  ALN +LP DI +++      +FHAR+SA  K Y Y++   
Sbjct: 62  NQVAHFDIPYHLSN-ESMRKALNSILPLDILIKKAELVDNDFHARYSAHRKTYRYRVDQG 120

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
             ++PF+ +Y  H  Y LN   MR+AA   VG HDF++FV      +A + V++I    +
Sbjct: 121 EFVNPFKRNYTSHFKYPLNLEKMRKAASDLVGTHDFTSFV--ASGSQAKSNVRTIENITI 178

Query: 205 --IEMGALLQLEVEGSGFLYRQVRNMV 229
              E+   +  +  G+GFLY QVR MV
Sbjct: 179 RRDELRNEVVFDFTGNGFLYNQVRIMV 205


>gi|154505512|ref|ZP_02042250.1| hypothetical protein RUMGNA_03049 [Ruminococcus gnavus ATCC 29149]
 gi|336431647|ref|ZP_08611492.1| tRNA pseudouridine synthase A [Lachnospiraceae bacterium 2_1_58FAA]
 gi|153794170|gb|EDN76590.1| tRNA pseudouridine synthase A [Ruminococcus gnavus ATCC 29149]
 gi|336019920|gb|EGN49638.1| tRNA pseudouridine synthase A [Lachnospiraceae bacterium 2_1_58FAA]
          Length = 246

 Score =  139 bits (351), Expect = 8e-31,   Method: Compositional matrix adjust.
 Identities = 78/207 (37%), Positives = 121/207 (58%), Gaps = 12/207 (5%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + +L + YDGT Y GWQ Q +  T++ ++ +AL    KL  E++ ++GASRTD+GVHA G
Sbjct: 3   RLKLTVAYDGTNYCGWQIQPNGITVEEVLNRAL---RKLTGEEITVIGASRTDSGVHALG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDI---RVREISAAVPEFHARFSAKSKIYHYKIY 142
            VA F +  S    E I  ALN  LP DI   R  E+SA   ++H R+    K Y Y I 
Sbjct: 60  NVAVFDSETSIPP-ERISYALNQRLPDDIVVIRSEEVSA---DWHPRYCNSKKTYEYHIL 115

Query: 143 NDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRF 202
           N  + DP +    Y   + L+   M++AA+Y VG HDF +F N++ +    + V++I+  
Sbjct: 116 NAKIPDPTRRLTRYFVSFDLDIEKMKKAAQYLVGTHDFVSFCNVRTD--VEDTVRTIYSL 173

Query: 203 DVIEMGALLQLEVEGSGFLYRQVRNMV 229
           D++ +G  + + ++G+GFLY  VR +V
Sbjct: 174 DILPVGDEITIRIQGNGFLYNMVRIIV 200


>gi|255507054|ref|ZP_05382693.1| tRNA pseudouridine synthase A [Chlamydia trachomatis D(s)2923]
 gi|385241841|ref|YP_005809681.1| tRNA pseudouridine synthase A [Chlamydia trachomatis E/11023]
 gi|385245448|ref|YP_005814271.1| tRNA pseudouridine synthase A [Chlamydia trachomatis E/150]
 gi|386262820|ref|YP_005816099.1| tRNA pseudouridine synthase A [Chlamydia trachomatis Sweden2]
 gi|389858159|ref|YP_006360401.1| tRNA pseudouridine synthase A [Chlamydia trachomatis F/SW4]
 gi|389859035|ref|YP_006361276.1| tRNA pseudouridine synthase A [Chlamydia trachomatis E/SW3]
 gi|389859911|ref|YP_006362151.1| tRNA pseudouridine synthase A [Chlamydia trachomatis F/SW5]
 gi|289525508|emb|CBJ14985.1| tRNA pseudouridine synthase A [Chlamydia trachomatis Sweden2]
 gi|296435064|gb|ADH17242.1| tRNA pseudouridine synthase A [Chlamydia trachomatis E/150]
 gi|296438784|gb|ADH20937.1| tRNA pseudouridine synthase A [Chlamydia trachomatis E/11023]
 gi|380249231|emb|CCE14523.1| tRNA pseudouridine synthase A [Chlamydia trachomatis F/SW5]
 gi|380250106|emb|CCE13634.1| tRNA pseudouridine synthase A [Chlamydia trachomatis F/SW4]
 gi|380250984|emb|CCE12745.1| tRNA pseudouridine synthase A [Chlamydia trachomatis E/SW3]
 gi|440527170|emb|CCP52654.1| tRNA pseudouridine synthase A [Chlamydia trachomatis D/SotonD1]
 gi|440529844|emb|CCP55328.1| tRNA pseudouridine synthase A [Chlamydia trachomatis E/SotonE4]
 gi|440530743|emb|CCP56227.1| tRNA pseudouridine synthase A [Chlamydia trachomatis E/SotonE8]
 gi|440531634|emb|CCP57144.1| tRNA pseudouridine synthase A [Chlamydia trachomatis F/SotonF3]
 gi|440535211|emb|CCP60721.1| tRNA pseudouridine synthase A [Chlamydia trachomatis E/Bour]
          Length = 267

 Score =  139 bits (351), Expect = 8e-31,   Method: Compositional matrix adjust.
 Identities = 78/208 (37%), Positives = 118/208 (56%), Gaps = 11/208 (5%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           K  L I Y GT Y+GWQ+Q +  +IQ ++E  L ++       + ++ + RTD GVHA G
Sbjct: 4   KIVLQIAYQGTSYSGWQYQPNALSIQEVLETILKKIAGFR---ISVISSGRTDAGVHAQG 60

Query: 86  QVAHFITP--FSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYN 143
           Q+AHF  P    +     I   LN LLP DI +R+      +FH+RFSA +K Y Y +  
Sbjct: 61  QIAHFHCPDHPHFTDPRQIQKMLNALLPHDIVIRDAVMTDGDFHSRFSAIAKEYRYTL-- 118

Query: 144 DAVMDPFQHH--YAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFR 201
             +  P  HH  + +   YKLN   M+EAA+Y VG HDF++F N+ R   +   +++++ 
Sbjct: 119 SLLPKPLPHHRLFCFSPRYKLNIARMQEAAQYLVGTHDFASFANLGREYSST--IRTLYT 176

Query: 202 FDVIEMGALLQLEVEGSGFLYRQVRNMV 229
            D+ E   L+ +   G+GFLY+ VRN+V
Sbjct: 177 LDLSEQEHLVTVICRGNGFLYKMVRNIV 204


>gi|313891575|ref|ZP_07825185.1| tRNA pseudouridine synthase A [Dialister microaerophilus UPII
           345-E]
 gi|313120034|gb|EFR43216.1| tRNA pseudouridine synthase A [Dialister microaerophilus UPII
           345-E]
          Length = 244

 Score =  139 bits (351), Expect = 8e-31,   Method: Compositional matrix adjust.
 Identities = 76/204 (37%), Positives = 118/204 (57%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQFQT-SPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++++I YDGTRY GWQ Q  S  T+Q  +EKA  +VT    E+++++GA RTD+GVHA G
Sbjct: 3   YKMIIEYDGTRYEGWQKQKHSDETLQGKIEKAFEKVTG---ENVQIIGAGRTDSGVHAKG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV +   P+  +  E++   LN +LP DI +++ +    +FH+RF AKSKIY Y +   +
Sbjct: 60  QVVNVHLPYDLNA-ENLKNELNEILPDDIYIKQCTEVEEKFHSRFHAKSKIYEYNLRIGS 118

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             D FQ  + +     L    M+ AAE   G HDF+AF N +   ++   V++++  ++ 
Sbjct: 119 NKDVFQKRFIWQFAKPLCIEKMKRAAEILQGTHDFTAFCNNKNFKKS--AVRTVYSIEIS 176

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
               +L L   G GFL   +R MV
Sbjct: 177 TSNDILHLRFCGDGFLQGMIRIMV 200


>gi|153938429|ref|YP_001392800.1| tRNA pseudouridine synthase A [Clostridium botulinum F str.
           Langeland]
 gi|384463763|ref|YP_005676358.1| tRNA pseudouridine synthase A [Clostridium botulinum F str. 230613]
 gi|152934325|gb|ABS39823.1| tRNA pseudouridine synthase A [Clostridium botulinum F str.
           Langeland]
 gi|295320780|gb|ADG01158.1| tRNA pseudouridine synthase A [Clostridium botulinum F str. 230613]
          Length = 246

 Score =  139 bits (351), Expect = 8e-31,   Method: Compositional matrix adjust.
 Identities = 77/204 (37%), Positives = 112/204 (54%), Gaps = 8/204 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPP--TIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +L + YDG  Y GWQ Q +    T+Q  +EKA+  +TK   E + ++GASRTD+GVHA G
Sbjct: 5   KLKLEYDGANYCGWQKQKNEKFITLQGTLEKAISNITK---EKIEVIGASRTDSGVHAKG 61

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
            + +F T       E++   +N  LPPDI V     A  EFH+RF +K K Y Y + N +
Sbjct: 62  YICNFFTNTKIPP-ENLQKVINNNLPPDIVVLSSEEASSEFHSRFCSKGKTYEYTVLNSS 120

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
                  +Y +    KLN   M+ A+ YF+G HDFSAF    +       V++I +F++ 
Sbjct: 121 QPIAIGRNYIFQFKNKLNIDNMKMASRYFIGTHDFSAFKT--KGSSIKTSVRTISKFEIN 178

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           + G  ++  + G GFLY  VR MV
Sbjct: 179 KKGDFIKFIITGDGFLYNMVRIMV 202


>gi|126699393|ref|YP_001088290.1| tRNA pseudouridine synthase A [Clostridium difficile 630]
 gi|254975421|ref|ZP_05271893.1| tRNA pseudouridine synthase A [Clostridium difficile QCD-66c26]
 gi|255092808|ref|ZP_05322286.1| tRNA pseudouridine synthase A [Clostridium difficile CIP 107932]
 gi|255100921|ref|ZP_05329898.1| tRNA pseudouridine synthase A [Clostridium difficile QCD-63q42]
 gi|255306811|ref|ZP_05350982.1| tRNA pseudouridine synthase A [Clostridium difficile ATCC 43255]
 gi|255314550|ref|ZP_05356133.1| tRNA pseudouridine synthase A [Clostridium difficile QCD-76w55]
 gi|255517225|ref|ZP_05384901.1| tRNA pseudouridine synthase A [Clostridium difficile QCD-97b34]
 gi|255650331|ref|ZP_05397233.1| tRNA pseudouridine synthase A [Clostridium difficile QCD-37x79]
 gi|260683444|ref|YP_003214729.1| tRNA pseudouridine synthase A [Clostridium difficile CD196]
 gi|260687040|ref|YP_003218173.1| tRNA pseudouridine synthase A [Clostridium difficile R20291]
 gi|306520297|ref|ZP_07406644.1| tRNA pseudouridine synthase A [Clostridium difficile QCD-32g58]
 gi|384361061|ref|YP_006198913.1| tRNA pseudouridine synthase A [Clostridium difficile BI1]
 gi|423083748|ref|ZP_17072278.1| tRNA pseudouridine synthase A [Clostridium difficile 002-P50-2011]
 gi|423088200|ref|ZP_17076583.1| tRNA pseudouridine synthase A [Clostridium difficile 050-P50-2011]
 gi|423091504|ref|ZP_17079625.1| tRNA pseudouridine synthase A [Clostridium difficile 70-100-2010]
 gi|115250830|emb|CAJ68654.1| Pseudouridylate synthase (tRNA pseudouridine synthase A)
           [Clostridium difficile 630]
 gi|260209607|emb|CBA63265.1| tRNA pseudouridine synthase 2 [Clostridium difficile CD196]
 gi|260213056|emb|CBE04418.1| tRNA pseudouridine synthase 2 [Clostridium difficile R20291]
 gi|357542772|gb|EHJ24807.1| tRNA pseudouridine synthase A [Clostridium difficile 050-P50-2011]
 gi|357544508|gb|EHJ26512.1| tRNA pseudouridine synthase A [Clostridium difficile 002-P50-2011]
 gi|357554986|gb|EHJ36679.1| tRNA pseudouridine synthase A [Clostridium difficile 70-100-2010]
          Length = 245

 Score =  139 bits (351), Expect = 8e-31,   Method: Compositional matrix adjust.
 Identities = 77/203 (37%), Positives = 120/203 (59%), Gaps = 7/203 (3%)

Query: 28  RLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           ++++ YDG+RY G+Q    +  TIQ  +E  L   +K+  E + ++G+ RTD G HA GQ
Sbjct: 5   KMIVAYDGSRYKGYQKLGDNNMTIQEKLENVL---SKMTNETVEIIGSGRTDMGAHARGQ 61

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           V +F T    D L+ I   L   LP DI V+ +      FH+R++ KSK Y YKI N+  
Sbjct: 62  VVNFRTN-CMDSLDKIQKYLYEYLPEDIVVKTVEEVDERFHSRYNVKSKTYMYKIDNNKY 120

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
            +PF   YA H   KL+   MR+A+EY VG+HDF++F + +   +  + V+ I+  ++ E
Sbjct: 121 HNPFIRKYATHVSKKLDLDRMRKASEYLVGEHDFTSFASSKS--KKKSNVREIYSINIKE 178

Query: 207 MGALLQLEVEGSGFLYRQVRNMV 229
              ++++ VEG+GFLY  VR +V
Sbjct: 179 DDNVIEIYVEGNGFLYNMVRIIV 201


>gi|331002224|ref|ZP_08325743.1| tRNA pseudouridine synthase A [Lachnospiraceae oral taxon 107 str.
           F0167]
 gi|330411318|gb|EGG90734.1| tRNA pseudouridine synthase A [Lachnospiraceae oral taxon 107 str.
           F0167]
          Length = 245

 Score =  139 bits (350), Expect = 9e-31,   Method: Compositional matrix adjust.
 Identities = 72/201 (35%), Positives = 119/201 (59%), Gaps = 6/201 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + RL++ YDGT Y GWQ Q +  TI+ ++  A   +TKL  ED+ ++GASRTD+GVHA+G
Sbjct: 3   RIRLIVSYDGTNYCGWQKQPNGITIEEVLNNA---ITKLTGEDIEVIGASRTDSGVHAYG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
            +A F T  +    +    A+N  LP DIR++        +H R +   K Y Y+I N  
Sbjct: 60  NIAVFDTN-ARIAADKFAFAINQRLPEDIRIQYSDEVESGWHPRKNDCIKTYTYRILNRK 118

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           +  P +  YA+   + L+   MREA+ YF+G HDF++F +  +  +A +P+++IF  +++
Sbjct: 119 IDIPTERLYAHFCYFNLDVEKMREASGYFIGTHDFTSFCS--QKSQASSPIRTIFSLEIL 176

Query: 206 EMGALLQLEVEGSGFLYRQVR 226
           +   ++ + + G GFLY  +R
Sbjct: 177 QDEDMVTIVIRGDGFLYNMIR 197


>gi|452821814|gb|EME28840.1| tRNA pseudouridine synthase A [Galdieria sulphuraria]
          Length = 329

 Score =  139 bits (350), Expect = 9e-31,   Method: Compositional matrix adjust.
 Identities = 79/217 (36%), Positives = 127/217 (58%), Gaps = 14/217 (6%)

Query: 24  GFKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHA 83
           GF++RL + YDGT ++GWQFQ    ++Q ++E+ L +  +L R  +R++GA RTD+GVHA
Sbjct: 71  GFRYRLRVAYDGTDFSGWQFQEKRRSVQGVLEQVLSK--RLNRS-IRIIGAGRTDSGVHA 127

Query: 84  WGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVP-------EFHARFSAKSKI 136
            GQVAHF T  S+     +   LN +L  DIRV ++    P        +HA FSA+ K+
Sbjct: 128 RGQVAHFDT-VSFSDCPHLEYTLNRMLSGDIRVYDLQQKEPISSDPRNNWHAIFSARKKV 186

Query: 137 YHYKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFV--NIQRNDRALN 194
           Y Y+      +DP +  + +H   + N   + +A + F+G HDF++F   N +  +   N
Sbjct: 187 YSYRFSIAKELDPLERRFRFHFYRRCNLERLYDATKVFLGTHDFTSFCSRNTEMKEMEKN 246

Query: 195 PVKSIFRFDVI-EMGALLQLEVEGSGFLYRQVRNMVN 230
             ++I+R D++ E G   +LE E +G LYR +RN+ +
Sbjct: 247 MCRTIYRIDLVHESGDSYRLEYELNGALYRMIRNITS 283


>gi|302669997|ref|YP_003829957.1| tRNA pseudouridine synthase A [Butyrivibrio proteoclasticus B316]
 gi|302394470|gb|ADL33375.1| tRNA pseudouridine synthase A TruA1 [Butyrivibrio proteoclasticus
           B316]
          Length = 262

 Score =  139 bits (350), Expect = 9e-31,   Method: Compositional matrix adjust.
 Identities = 82/199 (41%), Positives = 111/199 (55%), Gaps = 7/199 (3%)

Query: 29  LVIGYDGTRYAGWQFQTSPP-TIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           L + YDGT Y GW  QTS P TI+  + +A+ R+T    E + ++GASRTD GVHA+G V
Sbjct: 9   LTVSYDGTAYNGWAEQTSTPNTIEGELNRAIERLTG---EPVHVIGASRTDAGVHAYGNV 65

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A F T  S  G   + A LN  LP DIR+         FH R     K Y Y+I+N  +M
Sbjct: 66  AVFDTASSIPGDRFVFA-LNHELPQDIRIVNSREVATSFHPRHCDTEKTYEYRIFNSQIM 124

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           DP +  Y  H    L+   M  AA Y VG+HDF++F N++   +AL+ V++I    V   
Sbjct: 125 DPTKRFYTCHFSMPLDIGRMNAAAHYLVGEHDFTSFCNVE--SQALSHVRTIKDIRVTRN 182

Query: 208 GALLQLEVEGSGFLYRQVR 226
           G  + + V G+GFLY  VR
Sbjct: 183 GDEVVISVTGNGFLYNMVR 201


>gi|331086292|ref|ZP_08335372.1| tRNA pseudouridine synthase A [Lachnospiraceae bacterium
           9_1_43BFAA]
 gi|330406058|gb|EGG85581.1| tRNA pseudouridine synthase A [Lachnospiraceae bacterium
           9_1_43BFAA]
          Length = 249

 Score =  139 bits (350), Expect = 9e-31,   Method: Compositional matrix adjust.
 Identities = 76/204 (37%), Positives = 115/204 (56%), Gaps = 6/204 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + +L I YDGT Y GWQ Q +  T++ ++ KAL ++T    ED+ ++GASRTD+GVHA G
Sbjct: 5   RIKLTIAYDGTNYCGWQVQPNGITVEEVINKALCKLTG---EDIAVIGASRTDSGVHALG 61

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
            VA F +  S    E I  ALN  LP DI + +      +FH R+    K Y Y I N  
Sbjct: 62  NVAVFDSATSIPP-ERIAMALNQRLPDDIVIVKSEEVATDFHPRYCDCEKTYEYHIINTR 120

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
              P +    Y   Y L+   M++AA+Y VG+HDF +F N++   +  + V+++   +V+
Sbjct: 121 TPIPTKRLTNYFVSYDLDVERMQQAADYLVGEHDFVSFCNVR--TQVEDTVRTVTELEVL 178

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
             G  + + + G+GFLY  VR +V
Sbjct: 179 REGEEITIRISGNGFLYNMVRIIV 202


>gi|266620223|ref|ZP_06113158.1| tRNA pseudouridine synthase A [Clostridium hathewayi DSM 13479]
 gi|288868186|gb|EFD00485.1| tRNA pseudouridine synthase A [Clostridium hathewayi DSM 13479]
          Length = 354

 Score =  139 bits (350), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 81/199 (40%), Positives = 114/199 (57%), Gaps = 6/199 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L++ YDGT Y GWQ Q +  TI+ ++ +AL   T L  E + ++GASRTD+GVHA G V
Sbjct: 5   KLIVAYDGTNYCGWQIQNNGRTIEEVLNEAL---TALLHEKVAVIGASRTDSGVHAEGNV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A F T       + I  ALN  LP DIRV +       +H R     K Y Y+I N  + 
Sbjct: 62  AVFDTENRMPA-DKICFALNQRLPEDIRVLKSEEVPLTWHPRKCNCVKTYEYRILNRRIE 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
            P    YAY   Y L+   M++AAEY VG+HDF++F   +   +A + V++I+  DV + 
Sbjct: 121 VPTLRLYAYFCYYPLDVEKMKQAAEYLVGEHDFTSFCAPR--TQAEDMVRTIYSLDVGKT 178

Query: 208 GALLQLEVEGSGFLYRQVR 226
           G ++ + V GSGFLY  VR
Sbjct: 179 GDMITIRVSGSGFLYNMVR 197


>gi|170017912|ref|YP_001728831.1| tRNA pseudouridine synthase A [Leuconostoc citreum KM20]
 gi|414596266|ref|ZP_11445842.1| tRNA pseudouridine synthase A [Leuconostoc citreum LBAE E16]
 gi|421876113|ref|ZP_16307673.1| tRNA pseudouridine synthase A [Leuconostoc citreum LBAE C10]
 gi|421878492|ref|ZP_16309972.1| tRNA pseudouridine synthase A [Leuconostoc citreum LBAE C11]
 gi|238688937|sp|B1MVY3.1|TRUA_LEUCK RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|169804769|gb|ACA83387.1| tRNA pseudouridine synthase A [Leuconostoc citreum KM20]
 gi|372558148|emb|CCF23793.1| tRNA pseudouridine synthase A [Leuconostoc citreum LBAE C10]
 gi|390447619|emb|CCF26092.1| tRNA pseudouridine synthase A [Leuconostoc citreum LBAE C11]
 gi|390483199|emb|CCF27903.1| tRNA pseudouridine synthase A [Leuconostoc citreum LBAE E16]
          Length = 260

 Score =  139 bits (350), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 77/211 (36%), Positives = 124/211 (58%), Gaps = 10/211 (4%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPP-----TIQCIVEKALIRVTKLEREDLRLVGASRTDTG 80
           +++ ++ YDG+ + G+Q QT        T+Q  + KA+ ++ K     +++VGASRTDTG
Sbjct: 3   RYKAIVAYDGSNFFGFQVQTKSGVEVQRTVQGELNKAVNQMAKQPVTPIKVVGASRTDTG 62

Query: 81  VHAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYK 140
           VHA+GQV HF  PF  + +  +   LN LLP DI ++ ++    +FHARFS  +K Y Y+
Sbjct: 63  VHAFGQVVHFDLPFDINPV-GVSKGLNTLLPRDILIKAVTKVSDDFHARFSTHAKRYFYR 121

Query: 141 IYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIF 200
           +   A  DPF+ HY  H  + L+T+ ++EA    +G+HDF++F      ++  + V++I 
Sbjct: 122 VSTTAFTDPFKRHYTGHFHWHLDTSRIQEALPDLIGEHDFASFA--ASGNQTASTVRTIT 179

Query: 201 RFDVIEMGALLQL--EVEGSGFLYRQVRNMV 229
              +IE     +L    EG+ FLY Q+R MV
Sbjct: 180 SAQLIEKPDEQELVFVFEGNAFLYNQIRIMV 210


>gi|329121886|ref|ZP_08250501.1| tRNA pseudouridine synthase A [Dialister micraerophilus DSM 19965]
 gi|327467824|gb|EGF13316.1| tRNA pseudouridine synthase A [Dialister micraerophilus DSM 19965]
          Length = 244

 Score =  139 bits (350), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 77/204 (37%), Positives = 118/204 (57%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQFQT-SPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++++I YDGTRY GWQ Q  S  T+Q  +EKA  +VT    E+++++GA RTD+GVHA G
Sbjct: 3   YKMIIEYDGTRYEGWQKQKHSDETLQGKIEKAFEKVTG---ENVQIIGAGRTDSGVHAKG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+   P+  +  E++   LN +LP DI +++      +FH+RF AKSKIY Y +   +
Sbjct: 60  QVANVHLPYDLNA-ENLKNELNEILPDDIYIKQCIEVEEKFHSRFHAKSKIYEYNLRIGS 118

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             D FQ  + +     L    M+ AAE   G HDF+AF N +   ++   V++++  ++ 
Sbjct: 119 NKDVFQKRFIWQFAKPLCIEKMKRAAEILQGTHDFTAFCNNKHFKKS--AVRTVYSIEIS 176

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
               +L L   G GFL   +R MV
Sbjct: 177 TSNDILHLRFCGDGFLQGMIRIMV 200


>gi|392958512|ref|ZP_10324021.1| tRNA pseudouridine synthase A [Bacillus macauensis ZFHKF-1]
 gi|391875413|gb|EIT84024.1| tRNA pseudouridine synthase A [Bacillus macauensis ZFHKF-1]
          Length = 245

 Score =  139 bits (350), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 76/204 (37%), Positives = 115/204 (56%), Gaps = 5/204 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +W+ ++ YDGT + G+Q Q S  T+Q  +E  L ++ K     +R+  + RTD GVHA G
Sbjct: 3   RWKAIVSYDGTNFLGYQVQASGRTVQQEIETVLKKMHK--GLAVRIAASGRTDAGVHAIG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV H+ +  +    E+   ALN +LP DI + ++     +FHAR+ A  K YHY ++  +
Sbjct: 61  QVIHWDSALTLAS-EAWKKALNAMLPHDIHIEKVERVNDDFHARYGAVKKTYHYHLHIGS 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             + F  H+AYH  Y L    MREA E   G HDF++F + +      + V++I+ ++V 
Sbjct: 120 EPNVFNRHFAYHFPYPLALAPMREAMERLCGTHDFTSFSSARST--VEDKVRTIYSYEVQ 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E G  L  +V GSGFLY  VR M 
Sbjct: 178 ERGQELIFKVTGSGFLYNMVRIMT 201


>gi|419720324|ref|ZP_14247561.1| tRNA pseudouridine(38-40) synthase [Lachnoanaerobaculum saburreum
           F0468]
 gi|383303509|gb|EIC94957.1| tRNA pseudouridine(38-40) synthase [Lachnoanaerobaculum saburreum
           F0468]
          Length = 245

 Score =  139 bits (350), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 71/201 (35%), Positives = 120/201 (59%), Gaps = 6/201 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + RL++ YDGT Y GWQ Q +  T++ ++ +A   ++KL  E++ ++GASRTD+GVHA+G
Sbjct: 3   RIRLIVSYDGTNYCGWQKQPNGITVEEVLNRA---ISKLTGEEIEVIGASRTDSGVHAYG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
            VA F T       +    A+N  LP DIR++       ++H R +   K Y Y+I N  
Sbjct: 60  NVAVFDTNVRM-AADKFAFAINQRLPDDIRIQYSDEVESDWHPRKNDCIKTYTYRILNRK 118

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           +  P +  YA+   + L+   MREA+ YF+G HDF++F +  +  +A +P++++F  +V+
Sbjct: 119 IDIPTERLYAHFCYFNLDVEKMREASGYFIGTHDFTSFCS--QKSQASSPIRTVFSLEVL 176

Query: 206 EMGALLQLEVEGSGFLYRQVR 226
           +   ++ + V G GFLY  +R
Sbjct: 177 QDEDMITIVVRGDGFLYNMIR 197


>gi|403071277|ref|ZP_10912609.1| tRNA pseudouridine synthase A [Oceanobacillus sp. Ndiop]
          Length = 249

 Score =  139 bits (350), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 76/203 (37%), Positives = 117/203 (57%), Gaps = 4/203 (1%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  I YDG+ ++G+Q Q    T+Q ++E  L  + K    ++RL  + RTDTGVHA GQV
Sbjct: 5   KCKIKYDGSEFSGFQVQPQNRTVQGVLESVLKEMHK--GAEIRLQASGRTDTGVHAIGQV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF +PF     ++   ALN LLP DI ++E++    EFHAR+S K K YHY ++N    
Sbjct: 63  IHFDSPFDIPE-KNWKRALNTLLPDDIYIQEVTKVSDEFHARYSVKEKEYHYYVWNAEEP 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y+++  Y+L+   M EA  Y  G HDF+ F + +   +    ++++F     + 
Sbjct: 122 DIFKRNYSFYFPYQLDIDKMLEACRYLEGTHDFTTFSSAKSTIKG-EKIRTLFHASCKKQ 180

Query: 208 GALLQLEVEGSGFLYRQVRNMVN 230
           G  ++    GSGFLY  VR MV+
Sbjct: 181 GNEVEFIFRGSGFLYNMVRIMVS 203


>gi|423081690|ref|ZP_17070292.1| tRNA pseudouridine synthase A [Clostridium difficile 002-P50-2011]
 gi|423085156|ref|ZP_17073611.1| tRNA pseudouridine synthase A [Clostridium difficile 050-P50-2011]
 gi|357550268|gb|EHJ32093.1| tRNA pseudouridine synthase A [Clostridium difficile 002-P50-2011]
 gi|357550488|gb|EHJ32302.1| tRNA pseudouridine synthase A [Clostridium difficile 050-P50-2011]
          Length = 243

 Score =  139 bits (350), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 76/202 (37%), Positives = 111/202 (54%), Gaps = 6/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           ++ I Y G  Y GWQ Q     IQ  +E+A+  +TK   E+  L+G+ RTD+GVHA GQ+
Sbjct: 5   KITIQYKGKNYCGWQKQPDSLGIQGTIERAIYDITK---EETNLIGSGRTDSGVHAIGQI 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A+F    S   +ESI  ALN  LP DI V E      +FH+R+SAK K Y Y +YN    
Sbjct: 62  ANFKIN-SGISIESIPMALNAKLPKDISVIEACEVNDDFHSRYSAKGKTYKYLVYNSKFR 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           +P     +Y   Y+L+   M   A+  +G HDF  F++        + V++I+  D+ + 
Sbjct: 121 NPILSEISYQVKYELDFDKMCSEAKSLLGTHDFKGFMS--SGSSVKDTVRTIYDIDISKK 178

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
             L+  E+ G+GFLY  VR +V
Sbjct: 179 DDLITFEISGNGFLYNMVRIIV 200


>gi|319654901|ref|ZP_08008976.1| tRNA pseudouridine synthase A [Bacillus sp. 2_A_57_CT2]
 gi|317393464|gb|EFV74227.1| tRNA pseudouridine synthase A [Bacillus sp. 2_A_57_CT2]
          Length = 269

 Score =  139 bits (350), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 75/201 (37%), Positives = 114/201 (56%), Gaps = 5/201 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDGT +AG+Q Q    T+Q  +E+AL ++ K   ED+++  + RTD GVHA G
Sbjct: 3   RFKCNITYDGTHFAGYQVQPGKRTVQGELERALKKLHK--GEDIKVTASGRTDAGVHARG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF +P +   +E    ALN LLP ++ +        +FH RF AK K Y Y ++  +
Sbjct: 61  QVIHFDSPLNIP-IEKWEIALNSLLPDEVAIVGAETVPDDFHVRFDAKGKEYRYFVHCSS 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             DPF+ HYAY   Y LNT  +++AA   +G HDF++F + +      + V+ +   +V 
Sbjct: 120 RRDPFKRHYAYQYSYPLNTDAIKQAAADLIGTHDFTSFCSAKTE--VEDKVRELQEIEVQ 177

Query: 206 EMGALLQLEVEGSGFLYRQVR 226
           E   +L     G+GFLY  VR
Sbjct: 178 EKEDMLIFRFRGTGFLYNMVR 198


>gi|288554758|ref|YP_003426693.1| tRNA pseudouridine synthase A [Bacillus pseudofirmus OF4]
 gi|288545918|gb|ADC49801.1| tRNA pseudouridine synthase A [Bacillus pseudofirmus OF4]
          Length = 247

 Score =  139 bits (350), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 78/201 (38%), Positives = 113/201 (56%), Gaps = 5/201 (2%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
            +I YDGT ++G+Q Q +  T+Q  +E+AL RV K   +++ +  + RTD GVHA GQV 
Sbjct: 6   CIISYDGTNFSGYQVQPNKRTVQLEIEQALKRVHK--GQEVSVTASGRTDAGVHAKGQVI 63

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           HF +PF     +    ALN  LP DIRV     A  +FHAR+    K Y Y++ N    D
Sbjct: 64  HFDSPFRIPAAQ-WPKALNACLPDDIRVLSAHYAEKDFHARYHTTGKEYRYRVLNAEDPD 122

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
            F+ H+  H +Y L+   MR+AA Y +G HDFSAF     N   ++ V++++  D+    
Sbjct: 123 VFRRHHTAHVLYALDIDKMRQAAAYLIGTHDFSAFC--AANTSVIDKVRTLYAVDINVHE 180

Query: 209 ALLQLEVEGSGFLYRQVRNMV 229
             L   + G+GFLY  VR +V
Sbjct: 181 DELHFILRGNGFLYNMVRIIV 201


>gi|148381387|ref|YP_001255928.1| tRNA pseudouridine synthase A [Clostridium botulinum A str. ATCC
           3502]
 gi|153931537|ref|YP_001385762.1| tRNA pseudouridine synthase A [Clostridium botulinum A str. ATCC
           19397]
 gi|153934471|ref|YP_001389169.1| tRNA pseudouridine synthase A [Clostridium botulinum A str. Hall]
 gi|148290871|emb|CAL85007.1| tRNA pseudouridine synthase [Clostridium botulinum A str. ATCC
           3502]
 gi|152927581|gb|ABS33081.1| tRNA pseudouridine synthase A [Clostridium botulinum A str. ATCC
           19397]
 gi|152930385|gb|ABS35884.1| tRNA pseudouridine synthase A [Clostridium botulinum A str. Hall]
          Length = 246

 Score =  139 bits (350), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 76/204 (37%), Positives = 113/204 (55%), Gaps = 8/204 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPP--TIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +L + YDG  Y GWQ Q +    T+Q  +EKA+  +TK   E + ++GASRTD+GVHA G
Sbjct: 5   KLKLEYDGANYCGWQKQKNEKFITLQGTLEKAISNITK---EKIEVIGASRTDSGVHARG 61

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
            + +F T       E++   +N +LPPDI V     A  EFH+RF +K K Y Y + N +
Sbjct: 62  YICNFFTNTKIPP-ENLQKVINNILPPDIVVLSSEEASSEFHSRFCSKGKTYEYTVLNSS 120

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
                  +Y +    KLN   M+ A+ YF+G HDFSAF    +       V++I +F++ 
Sbjct: 121 KPIAIGRNYIFQFKDKLNIDNMKMASRYFIGTHDFSAFKT--KGSSIKTSVRTISKFEIN 178

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           + G  ++  + G GFLY  VR +V
Sbjct: 179 KKGDFIKFIITGDGFLYNMVRIIV 202


>gi|331085595|ref|ZP_08334679.1| tRNA pseudouridine synthase A [Lachnospiraceae bacterium
           9_1_43BFAA]
 gi|330407482|gb|EGG86984.1| tRNA pseudouridine synthase A [Lachnospiraceae bacterium
           9_1_43BFAA]
          Length = 239

 Score =  139 bits (350), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 78/199 (39%), Positives = 111/199 (55%), Gaps = 9/199 (4%)

Query: 29  LVIGYDGTRYAGWQFQTSPP-TIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           + I YDG  Y GWQ  T+ P TIQ  +E+ L   +K+E   +++ G+ RTD GVHA GQV
Sbjct: 1   MTIAYDGGGYKGWQRLTNEPGTIQGTIERVL---SKIEGSPVKISGSGRTDAGVHAKGQV 57

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           AH     + D  E +   LN +LP DIR+  + +    FH+R+SA SK+Y Y+I   +  
Sbjct: 58  AHAFLKTNEDP-ELLRQELNRMLPEDIRICLVESVSQSFHSRYSAVSKVYEYRIDQRSRA 116

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F   Y YH    L+   MR+AA++  G HDF +F     +++  + V++IF  D+ E 
Sbjct: 117 DVFTRKYCYHRPVHLDLDRMRQAADHLTGTHDFGSFT----DNKEADSVRTIFSIDMKEE 172

Query: 208 GALLQLEVEGSGFLYRQVR 226
              L L   G GFLY  VR
Sbjct: 173 NEKLVLAFRGDGFLYHMVR 191


>gi|333896222|ref|YP_004470096.1| tRNA pseudouridine synthase A [Thermoanaerobacterium xylanolyticum
           LX-11]
 gi|333111487|gb|AEF16424.1| tRNA pseudouridine synthase A [Thermoanaerobacterium xylanolyticum
           LX-11]
          Length = 239

 Score =  139 bits (350), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 77/201 (38%), Positives = 116/201 (57%), Gaps = 6/201 (2%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           +VI YDGT Y GWQ Q +  T+Q ++ KA+ ++T    ED+ L+G+SRTD GVHA  QVA
Sbjct: 1   MVIEYDGTNYHGWQIQKNAVTVQEVITKAIKKITS---EDVNLIGSSRTDAGVHALNQVA 57

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +FI+  +   L  +  ALN +LP DI ++    A  +FH+R+SAK K Y Y IYN     
Sbjct: 58  NFISNCNI-PLSKMPNALNSVLPKDIVIKNAYEADMDFHSRYSAKGKRYKYIIYNRKFNS 116

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
           P   +Y++H   +L+   M E+  Y  G HDFSAF +        + ++++    + +  
Sbjct: 117 PVYRNYSWHISDELDLDKMIESLTYLKGTHDFSAFKS--SGSSVKDSIRTVRDISLRKND 174

Query: 209 ALLQLEVEGSGFLYRQVRNMV 229
             ++ E+E  GFLY  VR +V
Sbjct: 175 FNVEFEIEADGFLYNMVRIIV 195


>gi|225872353|ref|YP_002753808.1| tRNA pseudouridine synthase A [Acidobacterium capsulatum ATCC
           51196]
 gi|225793375|gb|ACO33465.1| tRNA pseudouridine synthase A [Acidobacterium capsulatum ATCC
           51196]
          Length = 254

 Score =  139 bits (350), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 85/213 (39%), Positives = 112/213 (52%), Gaps = 11/213 (5%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
             W+L + YDGT Y GWQ Q   PTIQ  +  A+ R+T    E +   G+ RTD GVHA 
Sbjct: 3   LNWKLTLAYDGTDYRGWQVQPELPTIQGELAAAVERITG---ERVLPQGSGRTDAGVHAL 59

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           GQVA F+        E++H ALN  LP  IRV    +   +FHAR SA+SK Y Y+I+  
Sbjct: 60  GQVASFVLKAPIPA-ENLHRALNRTLPAAIRVLGAESMPEDFHARHSARSKWYEYRIFRG 118

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRN-------DRALNPVK 197
            V  P+   Y Y   + L+   MR AA  FVG+HDF +F     +       D   + V+
Sbjct: 119 EVCPPWTARYVYALHWPLDVEAMRRAAAAFVGEHDFRSFAASDPDVAARGSEDAEESHVR 178

Query: 198 SIFRFDVIEMGALLQLEVEGSGFLYRQVRNMVN 230
           +IF     E   LL   V G+GFL+  VRN+V 
Sbjct: 179 TIFASGWAEEDDLLIYRVHGNGFLHHMVRNLVG 211


>gi|170756303|ref|YP_001783087.1| tRNA pseudouridine synthase A [Clostridium botulinum B1 str. Okra]
 gi|429245536|ref|ZP_19208916.1| tRNA pseudouridine synthase A [Clostridium botulinum CFSAN001628]
 gi|169121515|gb|ACA45351.1| tRNA pseudouridine synthase A [Clostridium botulinum B1 str. Okra]
 gi|428757422|gb|EKX79914.1| tRNA pseudouridine synthase A [Clostridium botulinum CFSAN001628]
          Length = 246

 Score =  139 bits (350), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 77/204 (37%), Positives = 112/204 (54%), Gaps = 8/204 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPP--TIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +L + YDG  Y GWQ Q +    T+Q  +EKA+  +TK   E + ++GASRTD+GVHA G
Sbjct: 5   KLKLEYDGANYCGWQKQKNEKFITLQGTLEKAISNITK---EKIEVIGASRTDSGVHAKG 61

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
            + +F T       E++   +N  LPPDI V     A  EFH+RF +K K Y Y + N +
Sbjct: 62  YICNFFTNTKIPP-ENLQKVINNNLPPDIVVLSSEEASSEFHSRFCSKGKTYEYTVLNSS 120

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
                  +Y +    KLN   M+ A+ YF+G HDFSAF    +       V++I +F++ 
Sbjct: 121 QPIAIGRNYIFQFKDKLNIDNMKMASRYFIGTHDFSAFKT--KGSSIKTSVRTISKFEIN 178

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           + G  ++  + G GFLY  VR MV
Sbjct: 179 KKGDFIKFIITGDGFLYNMVRIMV 202


>gi|365157295|ref|ZP_09353569.1| tRNA pseudouridine synthase A [Bacillus smithii 7_3_47FAA]
 gi|363625441|gb|EHL76480.1| tRNA pseudouridine synthase A [Bacillus smithii 7_3_47FAA]
          Length = 247

 Score =  139 bits (349), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 76/204 (37%), Positives = 114/204 (55%), Gaps = 5/204 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + + VI YDG+ +AG+Q Q +  T+Q  +E AL  + K   E +++  + RTD GVHA G
Sbjct: 3   RMKCVISYDGSGFAGYQIQPAKRTVQSEIESALKVLHK--GEAVKVTASGRTDAGVHARG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF T       + +   LN + P DI   ++ A    FHARFSA  K Y Y++Y   
Sbjct: 61  QVIHFDTSLPIPETKWVQV-LNSIFPEDIAAIQVEAVDDAFHARFSATGKEYRYRLYTTP 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             DP +  YAYH  Y LN   M EAA Y  G HDF++F + +   +  + V++I +  ++
Sbjct: 120 HRDPLKRFYAYHFPYSLNIEAMEEAARYLTGTHDFTSFCSAKTEVK--DKVRTIRKIAIV 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           + G  +  ++ G+GFLY  VR +V
Sbjct: 178 QEGEEIVFQLVGNGFLYNMVRIIV 201


>gi|223984957|ref|ZP_03635058.1| hypothetical protein HOLDEFILI_02362 [Holdemania filiformis DSM
           12042]
 gi|223963077|gb|EEF67488.1| hypothetical protein HOLDEFILI_02362 [Holdemania filiformis DSM
           12042]
          Length = 268

 Score =  139 bits (349), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 83/208 (39%), Positives = 115/208 (55%), Gaps = 12/208 (5%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSP--PTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHA 83
           +++ V+ YDG  YAGWQ Q +    TIQ  ++ A   ++ + ++ + + G+ RTD  VHA
Sbjct: 4   RFKAVVSYDGFDYAGWQIQPAERGATIQQTIQDA---ISVICQQPVSITGSGRTDAQVHA 60

Query: 84  WGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYN 143
           WGQV HF   FS +  +    A+NG LP DI +R + A    FHARF A  K Y Y+I  
Sbjct: 61  WGQVFHFDVDFSLNAFQ-WKRAINGHLPKDIHIRSVEAVDSRFHARFDAIGKRYEYRI-Q 118

Query: 144 DAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNP--VKSIFR 201
               + F   YA+ S + LN   MRE A Y +G+HDFS+F     N RA  P   ++I R
Sbjct: 119 LGEANVFTRRYAFQSPWTLNVQAMREGAAYLIGEHDFSSFCA---NSRAEMPDQARTITR 175

Query: 202 FDVIEMGALLQLEVEGSGFLYRQVRNMV 229
            ++ E    L+L  EGSGFL   VR M 
Sbjct: 176 LELAEENDQLRLIYEGSGFLRYMVRMMT 203


>gi|385239986|ref|YP_005807828.1| tRNA pseudouridine synthase A [Chlamydia trachomatis G/9768]
 gi|385242764|ref|YP_005810603.1| tRNA pseudouridine synthase A [Chlamydia trachomatis G/9301]
 gi|385246373|ref|YP_005815195.1| tRNA pseudouridine synthase A [Chlamydia trachomatis G/11074]
 gi|296435991|gb|ADH18165.1| tRNA pseudouridine synthase A [Chlamydia trachomatis G/9768]
 gi|296437852|gb|ADH20013.1| tRNA pseudouridine synthase A [Chlamydia trachomatis G/11074]
 gi|297140352|gb|ADH97110.1| tRNA pseudouridine synthase A [Chlamydia trachomatis G/9301]
          Length = 267

 Score =  139 bits (349), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 78/208 (37%), Positives = 118/208 (56%), Gaps = 11/208 (5%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           K  L I Y GT Y+GWQ+Q +  +IQ ++E  L ++       + ++ + RTD GVHA G
Sbjct: 4   KIVLQIAYQGTSYSGWQYQPNALSIQEVLETILKKIAGFR---ISVISSGRTDAGVHAQG 60

Query: 86  QVAHFITP--FSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYN 143
           Q+AHF  P    +     I   LN LLP DI +R+      +FH+RFSA +K Y Y +  
Sbjct: 61  QIAHFHCPDHPHFTDPRQIQKMLNALLPHDIVIRDAVMTDGDFHSRFSAIAKEYRYTL-- 118

Query: 144 DAVMDPFQHH--YAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFR 201
             +  P  HH  + +   YKLN   M+EAA+Y VG HDF++F N+ R   +   +++++ 
Sbjct: 119 SLLPKPVPHHRLFCFSPRYKLNIARMQEAAQYLVGTHDFASFANLGREYSST--IRTLYT 176

Query: 202 FDVIEMGALLQLEVEGSGFLYRQVRNMV 229
            D+ E   L+ +   G+GFLY+ VRN+V
Sbjct: 177 LDLSEQEHLVTVICRGNGFLYKMVRNIV 204


>gi|251778715|ref|ZP_04821635.1| tRNA pseudouridine synthase A [Clostridium botulinum E1 str. 'BoNT
           E Beluga']
 gi|243083030|gb|EES48920.1| tRNA pseudouridine synthase A [Clostridium botulinum E1 str. 'BoNT
           E Beluga']
          Length = 244

 Score =  139 bits (349), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 81/202 (40%), Positives = 112/202 (55%), Gaps = 6/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L+I +DGT + GWQ Q    T+Q  +E A++++T    E     G+SRTD GVHA   V
Sbjct: 5   KLIIEFDGTNFCGWQRQVKDRTVQGCLENAILKITG---EKSLTNGSSRTDGGVHAKAMV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A+FIT  S  G E    ALN  LP DI + +      EFHAR+S+K K+Y Y I N    
Sbjct: 62  ANFITNSSIPG-EKFREALNTKLPDDISIIKSEEVDMEFHARYSSKGKMYSYTIVNRYEK 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
             F   Y +H   +LN   M++A EYFVGKHDF AF  +     A   V++I  F + E 
Sbjct: 121 LAFGKQYLHHVRKELNVEDMKKACEYFVGKHDFKAF--MSPGSSAKTTVRTITDFYIEEN 178

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
             ++++ +   GFLY  VR +V
Sbjct: 179 KNVIRIFISADGFLYNMVRIIV 200


>gi|433461721|ref|ZP_20419324.1| tRNA pseudouridine synthase A [Halobacillus sp. BAB-2008]
 gi|432189736|gb|ELK46813.1| tRNA pseudouridine synthase A [Halobacillus sp. BAB-2008]
          Length = 247

 Score =  139 bits (349), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 82/205 (40%), Positives = 118/205 (57%), Gaps = 6/205 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + +  + YDGT YAG+Q Q +  TIQ  +EKAL ++ K   E +++  + RTD GVHA G
Sbjct: 3   RMKFTLQYDGTAYAGYQVQPNGNTIQAELEKALAKIHK--GETVKVTASGRTDAGVHAMG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPE-FHARFSAKSKIYHYKIYND 144
           QV HF TP S    E+   A+N LLP DI +   S AVPE FHAR+    K Y Y ++ND
Sbjct: 61  QVIHFDTPLSIPD-ENWKRAVNSLLPDDIMITH-SEAVPEDFHARYGTVGKEYRYYVWND 118

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
                F+ H+ YH   +L+   M+EA     G+HDF++F +  + D   + V++I+   +
Sbjct: 119 RDRQLFKRHHTYHVKAELDMAAMKEACRLLEGEHDFTSFCS-PKTDIKGDKVRTIYEASI 177

Query: 205 IEMGALLQLEVEGSGFLYRQVRNMV 229
            + GA +     GSGFLY  VR +V
Sbjct: 178 RKEGAEIVFLFRGSGFLYNMVRILV 202


>gi|126697674|ref|YP_001086571.1| transfer RNA pseudouridine synthase A 1 [Clostridium difficile 630]
 gi|254973765|ref|ZP_05270237.1| tRNA pseudouridine synthase 1 [Clostridium difficile QCD-66c26]
 gi|255091155|ref|ZP_05320633.1| tRNA pseudouridine synthase 1 [Clostridium difficile CIP 107932]
 gi|255099266|ref|ZP_05328243.1| tRNA pseudouridine synthase 1 [Clostridium difficile QCD-63q42]
 gi|255305049|ref|ZP_05349221.1| tRNA pseudouridine synthase 1 [Clostridium difficile ATCC 43255]
 gi|255312809|ref|ZP_05354392.1| tRNA pseudouridine synthase 1 [Clostridium difficile QCD-76w55]
 gi|255515568|ref|ZP_05383244.1| tRNA pseudouridine synthase 1 [Clostridium difficile QCD-97b34]
 gi|255648663|ref|ZP_05395565.1| tRNA pseudouridine synthase 1 [Clostridium difficile QCD-37x79]
 gi|260681880|ref|YP_003213165.1| tRNA pseudouridine synthase 1 [Clostridium difficile CD196]
 gi|260685478|ref|YP_003216611.1| tRNA pseudouridine synthase 1 [Clostridium difficile R20291]
 gi|306518785|ref|ZP_07405132.1| tRNA pseudouridine synthase ACD [Clostridium difficile QCD-32g58]
 gi|384359433|ref|YP_006197285.1| tRNA pseudouridine synthase ACD [Clostridium difficile BI1]
 gi|423089471|ref|ZP_17077829.1| tRNA pseudouridine synthase A [Clostridium difficile 70-100-2010]
 gi|115249111|emb|CAJ66922.1| transfer RNA pseudouridine synthase A 1 [Clostridium difficile 630]
 gi|260208043|emb|CBA60248.1| tRNA pseudouridine synthase 1 [Clostridium difficile CD196]
 gi|260211494|emb|CBE01638.1| tRNA pseudouridine synthase 1 [Clostridium difficile R20291]
 gi|357558081|gb|EHJ39588.1| tRNA pseudouridine synthase A [Clostridium difficile 70-100-2010]
          Length = 243

 Score =  139 bits (349), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 76/202 (37%), Positives = 112/202 (55%), Gaps = 6/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           ++ I Y+G  Y GWQ Q     IQ  +E+A+  +TK   E+  L+G+ RTD+GVHA GQ+
Sbjct: 5   KIKIQYNGKNYCGWQKQPDSLGIQGTIERAIYDITK---EETSLIGSGRTDSGVHAIGQI 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A+F    S   +ESI  ALN  LP DI V E      +FH+R+SAK K Y Y +YN    
Sbjct: 62  ANFKIN-SGISIESIPMALNAKLPKDISVIEACEVNDDFHSRYSAKGKTYKYLVYNSKFR 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           +P     +Y   Y+L+   M   A+  +G HDF  F++        + V++I+  D+ + 
Sbjct: 121 NPILSEISYQVKYELDFDKMCSEAKSLLGTHDFKGFMS--SGSSVKDTVRTIYDIDISKK 178

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
             L+  E+ G+GFLY  VR +V
Sbjct: 179 DDLITFEISGNGFLYNMVRIIV 200


>gi|255348836|ref|ZP_05380843.1| tRNA pseudouridine synthase A [Chlamydia trachomatis 70]
 gi|255503376|ref|ZP_05381766.1| tRNA pseudouridine synthase A [Chlamydia trachomatis 70s]
          Length = 267

 Score =  139 bits (349), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 78/208 (37%), Positives = 118/208 (56%), Gaps = 11/208 (5%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           K  L I Y GT Y+GWQ+Q +  +IQ ++E  L ++       + ++ + RTD GVHA G
Sbjct: 4   KIVLQIAYQGTSYSGWQYQPNALSIQEVLETILKKIAGFR---ISVISSGRTDAGVHAQG 60

Query: 86  QVAHFITP--FSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYN 143
           Q+AHF  P    +     I   LN LLP DI +R+      +FH+RFSA +K Y Y +  
Sbjct: 61  QIAHFHCPDHPHFTDPRQIQKMLNALLPHDIVIRDAVMTDGDFHSRFSAIAKEYRYTL-- 118

Query: 144 DAVMDPFQHH--YAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFR 201
             +  P  HH  + +   YKLN   M+EAA+Y VG HDF++F N+ R   +   +++++ 
Sbjct: 119 SLLPKPVPHHRLFCFSPRYKLNIARMQEAAQYLVGTHDFASFANLGREYSST--IRTLYT 176

Query: 202 FDVIEMGALLQLEVEGSGFLYRQVRNMV 229
            D+ E   L+ +   G+GFLY+ VRN+V
Sbjct: 177 LDLSEQEHLVTVICRGNGFLYKMVRNIV 204


>gi|326790769|ref|YP_004308590.1| tRNA pseudouridine synthase A [Clostridium lentocellum DSM 5427]
 gi|326541533|gb|ADZ83392.1| tRNA pseudouridine synthase A [Clostridium lentocellum DSM 5427]
          Length = 246

 Score =  139 bits (349), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 75/207 (36%), Positives = 117/207 (56%), Gaps = 18/207 (8%)

Query: 27  WRLVIGYDGTRYAGWQFQTSPP--TIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
           ++L I YDG++Y G+Q Q+  P  TIQ  +E  L   T+   ED++++ + RTD GVH+ 
Sbjct: 4   YKLTIAYDGSKYNGFQKQSKHPEKTIQGRLENVL---TQCFEEDIQIIASGRTDAGVHSK 60

Query: 85  GQVA-----HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHY 139
           GQV      H++ P       ++   L+  LP DI + E+S A P FHAR++   K Y Y
Sbjct: 61  GQVCNFHAEHYLEP------TTVLNYLSNYLPQDIAILELSIASPRFHARYNVLRKCYTY 114

Query: 140 KIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSI 199
            I N    +PF   YAYH    L+ + M+ AA Y +G HDF AF +++   ++    + +
Sbjct: 115 TIDNGLFANPFTLKYAYHLASPLDISRMQAAANYLLGTHDFKAFTSLKSKTKS--TTRHL 172

Query: 200 FRFDVIEMGALLQLEVEGSGFLYRQVR 226
           F  D+ + G++++L  EG+GFL   VR
Sbjct: 173 FNIDITQEGSMIKLTYEGNGFLQHMVR 199


>gi|407473172|ref|YP_006787572.1| tRNA pseudouridine synthase A [Clostridium acidurici 9a]
 gi|407049680|gb|AFS77725.1| tRNA pseudouridine synthase A [Clostridium acidurici 9a]
          Length = 251

 Score =  139 bits (349), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 77/203 (37%), Positives = 116/203 (57%), Gaps = 7/203 (3%)

Query: 28  RLVIGYDGTRYAGWQFQ-TSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           +L I YDG+RY GWQ Q  +  T+Q  +E  L R+T    E++ ++G+ RTD GVHA GQ
Sbjct: 5   KLTIKYDGSRYKGWQRQENTDMTVQEKIENVLKRIT---NENIEIIGSGRTDAGVHAIGQ 61

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           VA+F T  S   L+ I    +  LP DI +  +      FH+R++A SK Y YKI+N   
Sbjct: 62  VANFKTE-SDMSLKEIKKYFSIYLPDDIVIDRVEEVEERFHSRYNAISKKYLYKIWNGDN 120

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
           +DPF   Y+ H    LN   MR+ A Y +G+HDF++F       +  + V++I+  D+ +
Sbjct: 121 LDPFSRKYSVHIEQSLNLEKMRKGAGYLIGEHDFTSFTT--DKSKKKSKVRTIYSIDITK 178

Query: 207 MGALLQLEVEGSGFLYRQVRNMV 229
               +++   G+GFLY  VR +V
Sbjct: 179 NDKSVEILFHGNGFLYNMVRIIV 201


>gi|366163712|ref|ZP_09463467.1| tRNA pseudouridine synthase A [Acetivibrio cellulolyticus CD2]
          Length = 260

 Score =  139 bits (349), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 84/209 (40%), Positives = 116/209 (55%), Gaps = 20/209 (9%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L+I YDGT Y GWQ Q++  T+Q  VEKA+  +T    E + + G+SRTD GVHA+GQV
Sbjct: 20  KLIIEYDGTNYHGWQSQSNAKTVQETVEKAIYGLTG---EVININGSSRTDQGVHAYGQV 76

Query: 88  AHFITP-------FSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYK 140
           A+F T        FSY        ALN +LP DI +R+      +FHAR+ AK K Y Y 
Sbjct: 77  ANFFTKSNIPHDRFSY--------ALNRMLPEDIIIRKSEEVSMDFHARYCAKGKKYRYL 128

Query: 141 IYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIF 200
           IYN +       + +YH  + L+   M++A  +F G HDFSAF     + +    V++IF
Sbjct: 129 IYNSSFPSAIFRNRSYHVSHNLDMDSMKKAIPFFKGTHDFSAFKATGSSVKT--SVRTIF 186

Query: 201 RFDVIEMGALLQLEVEGSGFLYRQVRNMV 229
             ++      +  EV G GFLY  VR MV
Sbjct: 187 DVNLSRAEDNIWFEVSGDGFLYNMVRIMV 215


>gi|226309840|ref|YP_002769734.1| tRNA pseudouridine synthase A [Brevibacillus brevis NBRC 100599]
 gi|254789606|sp|C0ZIL2.1|TRUA_BREBN RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|226092788|dbj|BAH41230.1| tRNA pseudouridine synthase A [Brevibacillus brevis NBRC 100599]
          Length = 244

 Score =  139 bits (349), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 79/204 (38%), Positives = 117/204 (57%), Gaps = 6/204 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + R V+ YDGT ++G+Q Q    T+Q  +E AL RVT    ED+++ G+ RTD GVHA G
Sbjct: 3   RLRCVLAYDGTDFSGFQVQPDQVTVQGEIEAALNRVTG---EDIQVFGSGRTDAGVHARG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF T  S   ++     LN  LP  I +R +      FHARF  + K Y Y I N+ 
Sbjct: 60  QVIHFDTA-SNIPMDKWRFVLNNQLPDSIVIRTVEEVDASFHARFDVQVKEYRYCIDNNP 118

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           V D F+H YA H  + L+   M++AA Y VG+HDF++F + +      + V++++   V 
Sbjct: 119 VADVFRHRYADHVRFPLDVDAMQQAAHYLVGEHDFTSFCSAKT--YVEDKVRTVYGLSVE 176

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           ++G  + +   G+GFLY  VR +V
Sbjct: 177 KIGDEVWVTCRGNGFLYNMVRIIV 200


>gi|255655803|ref|ZP_05401212.1| tRNA pseudouridine synthase A [Clostridium difficile QCD-23m63]
 gi|296450959|ref|ZP_06892706.1| tRNA-pseudouridine synthase I [Clostridium difficile NAP08]
 gi|296879075|ref|ZP_06903071.1| tRNA-pseudouridine synthase I [Clostridium difficile NAP07]
 gi|296260177|gb|EFH07025.1| tRNA-pseudouridine synthase I [Clostridium difficile NAP08]
 gi|296429948|gb|EFH15799.1| tRNA-pseudouridine synthase I [Clostridium difficile NAP07]
          Length = 245

 Score =  138 bits (348), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 76/203 (37%), Positives = 120/203 (59%), Gaps = 7/203 (3%)

Query: 28  RLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           ++++ YDG+RY G+Q    +  TIQ  +E  L   +K+  E + ++G+ RTD G HA GQ
Sbjct: 5   KMIVAYDGSRYKGYQKLGDNNMTIQEKLENVL---SKMTNETVEIIGSGRTDMGAHARGQ 61

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           V +F T    D L+ I   L   LP DI V+ +      FH+R++ KSK Y Y+I N+  
Sbjct: 62  VVNFRTN-CMDSLDKIQKYLYEYLPEDIVVKAVEEVDERFHSRYNVKSKTYMYRIDNNKY 120

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
            +PF   YA H   KL+   MR+A+EY VG+HDF++F + +   +  + V+ I+  ++ E
Sbjct: 121 HNPFIRKYATHVSKKLDLDRMRKASEYLVGEHDFTSFASSKS--KKKSNVREIYSINIKE 178

Query: 207 MGALLQLEVEGSGFLYRQVRNMV 229
              ++++ VEG+GFLY  VR +V
Sbjct: 179 DDNIIEIYVEGNGFLYNMVRIIV 201


>gi|340356749|ref|ZP_08679390.1| tRNA pseudouridine synthase A [Sporosarcina newyorkensis 2681]
 gi|339620087|gb|EGQ24658.1| tRNA pseudouridine synthase A [Sporosarcina newyorkensis 2681]
          Length = 245

 Score =  138 bits (348), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 79/204 (38%), Positives = 115/204 (56%), Gaps = 7/204 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + +  I YDGT +AG+Q Q +  T+Q  ++KAL+++ K     +  V + RTD GVHA G
Sbjct: 3   RMKATIAYDGTNFAGYQSQPNMRTVQSEIDKALVKLHK--DSSVYSVASGRTDAGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF TP   D  +    ALN LLP D+RV  +  A  +FHAR+ A  K Y Y+     
Sbjct: 61  QVIHFDTPL--DLADRWKMALNVLLPKDVRVIGVEEAAVDFHARYGATGKTYVYRWSYSE 118

Query: 146 VMDPFQHHYAYH-SVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
           V  PF+ ++A H   +  +   MRE A++ +G HDF++F + +      N V++I +  +
Sbjct: 119 VQSPFERNFAVHLGRWNPDVERMREGAQHLIGTHDFTSFCSAKTA--TTNKVRTIRKLSL 176

Query: 205 IEMGALLQLEVEGSGFLYRQVRNM 228
              G  L LEVEG GFLY  VR +
Sbjct: 177 ERQGDHLVLEVEGDGFLYNMVRTI 200


>gi|423462584|ref|ZP_17439378.1| tRNA pseudouridine synthase A 1 [Bacillus cereus BAG5X2-1]
 gi|401130763|gb|EJQ38419.1| tRNA pseudouridine synthase A 1 [Bacillus cereus BAG5X2-1]
          Length = 247

 Score =  138 bits (348), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 74/202 (36%), Positives = 117/202 (57%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 5   KCTVAYDGMHFCGYQIQPQHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  +A LN +LP DI +R++     EFHAR+  + K Y Y++      
Sbjct: 63  IHFDTPLSLEEWQWSNA-LNTMLPDDIVIRQVEKKTEEFHARYGVERKEYRYRVLLSKTA 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L  + +R+A  YF+G HDF++F + + + +  + V++I+  ++IE 
Sbjct: 122 DVFRRNYVYQYPYPLEISSIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 179

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
           G  L     G+GFLY  VR +V
Sbjct: 180 GDELIFRFVGNGFLYNMVRIIV 201


>gi|317123065|ref|YP_004103068.1| tRNA pseudouridine synthase A [Thermaerobacter marianensis DSM
           12885]
 gi|315593045|gb|ADU52341.1| tRNA pseudouridine synthase A [Thermaerobacter marianensis DSM
           12885]
          Length = 298

 Score =  138 bits (348), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 79/203 (38%), Positives = 107/203 (52%), Gaps = 6/203 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           R V+ YDGT +AGWQ Q    T+Q +VE AL R+       +R+  A RTD GVHA  QV
Sbjct: 47  RAVLAYDGTDFAGWQRQPRQRTVQQVVEDALERLLG---HPVRVTAAGRTDAGVHARAQV 103

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            H+ TP  +  ++ +  AL GLLP D+   E   A P FHAR+SA+ K Y Y ++ D V 
Sbjct: 104 IHWRTPRPFP-VDRLVPALRGLLPADVVAVEAGEAPPGFHARYSARRKTYAYHVWRDPVP 162

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           DP    + +H    L+   M EAA    G HDF+ F       R     ++++R  V E 
Sbjct: 163 DPLHRRWQWHLPLDLDVDAMVEAARRLEGTHDFAPFKAAGSPVRRTR--RTLYRCAVEER 220

Query: 208 GALLQLEVEGSGFLYRQVRNMVN 230
           G LL+  +E  GFL    R +V 
Sbjct: 221 GPLLRFVLEADGFLMHMARGIVG 243


>gi|423405134|ref|ZP_17382307.1| tRNA pseudouridine synthase A 1 [Bacillus cereus BAG2X1-2]
 gi|423479977|ref|ZP_17456691.1| tRNA pseudouridine synthase A 1 [Bacillus cereus BAG6X1-1]
 gi|401645504|gb|EJS63159.1| tRNA pseudouridine synthase A 1 [Bacillus cereus BAG2X1-2]
 gi|402423961|gb|EJV56157.1| tRNA pseudouridine synthase A 1 [Bacillus cereus BAG6X1-1]
          Length = 247

 Score =  138 bits (348), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 74/202 (36%), Positives = 117/202 (57%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 5   KCTVAYDGMHFCGYQIQPQHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  +A LN +LP DI +R++     EFHAR+  + K Y Y++      
Sbjct: 63  IHFDTPLSLEEWQWSNA-LNTMLPDDIVIRQVEKKTEEFHARYGVERKEYRYRVLLSKTA 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L  + +R+A  YF+G HDF++F + + + +  + V++I+  ++IE 
Sbjct: 122 DVFRRNYVYQYPYPLEISSIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 179

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
           G  L     G+GFLY  VR +V
Sbjct: 180 GDELIFRFVGNGFLYNMVRIIV 201


>gi|197117301|ref|YP_002137728.1| tRNA pseudouridine synthase A [Geobacter bemidjiensis Bem]
 gi|238690881|sp|B5EFM8.1|TRUA_GEOBB RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|197086661|gb|ACH37932.1| tRNA pseudouridines 38,39,40 synthase [Geobacter bemidjiensis Bem]
          Length = 250

 Score =  138 bits (348), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 83/199 (41%), Positives = 108/199 (54%), Gaps = 6/199 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L+I YDGT Y GWQ Q +  T+Q ++++AL     +  E   L G+ RTD GVHA G V
Sbjct: 5   KLIIEYDGTAYCGWQVQPNGRTVQEVLQEAL---AAMLGEKTPLHGSGRTDAGVHARGMV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A F T  +   L +    LN LLP DI VRE      EFH RF A +K Y Y I  D + 
Sbjct: 62  ACFKTDKAMP-LRAFREGLNCLLPGDIAVREACEVPLEFHPRFDAHAKHYRYTILLDDLR 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
            P      +    KL+   MR A   FVG+HDF+AF     N  A   V+ I+  D+++ 
Sbjct: 121 SPLSRLTVWRLKGKLDIQAMRAACAAFVGEHDFAAFR--ASNCAAKTTVRRIYSMDLVQE 178

Query: 208 GALLQLEVEGSGFLYRQVR 226
           G LL L+V+GSGFL   VR
Sbjct: 179 GCLLHLDVKGSGFLKNMVR 197


>gi|373471181|ref|ZP_09562252.1| tRNA pseudouridine synthase A [Lachnospiraceae bacterium oral taxon
           082 str. F0431]
 gi|371761011|gb|EHO49663.1| tRNA pseudouridine synthase A [Lachnospiraceae bacterium oral taxon
           082 str. F0431]
          Length = 245

 Score =  138 bits (347), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 73/201 (36%), Positives = 118/201 (58%), Gaps = 6/201 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + RL++ YDGT Y GWQ Q +  TI+ ++  A   ++KL  E++ ++GASRTD+GVHA+G
Sbjct: 3   RIRLIVSYDGTNYCGWQKQPNGITIEEVLNNA---ISKLTGEEIEIIGASRTDSGVHAYG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
            VA F T       +    A+N  LP DIR++        +H R +   K Y Y+I N  
Sbjct: 60  NVAVFDTNARM-AADKFAFAINQRLPDDIRIQYSDEVEAGWHPRKNDCIKTYTYRILNRK 118

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           +  P +  YA+   + L+   MREA+ YF+G HDF++F +  +  +A +PV++IF  +V+
Sbjct: 119 IDIPTERLYAHFCYFNLDVDKMREASGYFIGTHDFTSFCS--QKSQASSPVRTIFSLEVL 176

Query: 206 EMGALLQLEVEGSGFLYRQVR 226
           +   ++ + + G GFLY  +R
Sbjct: 177 QDEDMITIVIRGDGFLYNMIR 197


>gi|312898257|ref|ZP_07757648.1| tRNA pseudouridine synthase A [Megasphaera micronuciformis F0359]
 gi|310620754|gb|EFQ04323.1| tRNA pseudouridine synthase A [Megasphaera micronuciformis F0359]
          Length = 266

 Score =  138 bits (347), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 83/200 (41%), Positives = 113/200 (56%), Gaps = 6/200 (3%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L + YDGT + G+Q Q+S P++Q  VE AL   + +   ++R+ GA+RTD+GVHA GQV 
Sbjct: 9   LRLAYDGTEFYGFQRQSSLPSVQQHVEAAL---SGIYGRNIRIYGAARTDSGVHARGQVV 65

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +F    +   +E +  AL G LPP I V   +     F  R   K K Y Y + ND V D
Sbjct: 66  NFYGDDTIP-VERLPYALKGSLPPAIVVLSATLERENFSVRHDNKGKHYRYTLVNDGVPD 124

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
           PF   YA++    LN   M+EAA Y  G HDFSAF     N   +NPVK+++   V+   
Sbjct: 125 PFMLRYAWYIRKPLNCESMKEAASYLKGTHDFSAFEGA--NTTPMNPVKTMYGIFVVSKK 182

Query: 209 ALLQLEVEGSGFLYRQVRNM 228
             + ++V GSGFLY  VRNM
Sbjct: 183 NRIIIDVVGSGFLYHMVRNM 202


>gi|345862115|ref|ZP_08814350.1| tRNA pseudouridine synthase A [Desulfosporosinus sp. OT]
 gi|344324730|gb|EGW36273.1| tRNA pseudouridine synthase A [Desulfosporosinus sp. OT]
          Length = 245

 Score =  138 bits (347), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 77/206 (37%), Positives = 119/206 (57%), Gaps = 13/206 (6%)

Query: 28  RLVIGYDGTRYAGWQFQTSPP-TIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           ++ I +DG++Y GWQ Q     TIQ  +E  L   +K+  ED+++VG  RTD+GVHA   
Sbjct: 5   KMTIAFDGSKYKGWQRQKENDLTIQGKIEAVL---SKMTGEDIQIVGCGRTDSGVHAENY 61

Query: 87  VAHFITPFSYDGLESIHAALNGL---LPPDIRVREISAAVPEFHARFSAKSKIYHYKIYN 143
           +A+F T  ++    S +  L+ L   LP DI V+ I      FHAR++  SK Y Y++  
Sbjct: 62  IANFHTKSTF----STNRMLDYLYEYLPEDIGVKSIEDVAERFHARYNVISKTYVYRMNT 117

Query: 144 DAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFD 203
           +   D F   YAYH   KLN   MR+A+E  +G HDF ++ N + +D++   +++I   +
Sbjct: 118 NKFRDVFNRKYAYHLAEKLNLVEMRKASEVLIGTHDFQSYTNSRNSDKS--TIRTINYIN 175

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
           +IE    L +EV G+GFL+  VR +V
Sbjct: 176 IIEKEGHLAIEVNGNGFLWNMVRIIV 201


>gi|322418344|ref|YP_004197567.1| tRNA pseudouridine synthase A [Geobacter sp. M18]
 gi|320124731|gb|ADW12291.1| tRNA pseudouridine synthase A [Geobacter sp. M18]
          Length = 250

 Score =  138 bits (347), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 83/199 (41%), Positives = 111/199 (55%), Gaps = 6/199 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L+I YDGT Y+GWQ Q +  T+Q ++E AL R+   ER  L   G  RTD GVHA G V
Sbjct: 5   KLIIEYDGTAYSGWQVQPNGVTVQAVMEDALSRMLG-ERTPLHASG--RTDAGVHARGMV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A F T  +   L +    LN LLP DI VRE +     FH RF A++K Y Y +  D + 
Sbjct: 62  ACFKTGKTMP-LRAFREGLNTLLPSDIAVREAAEVPLGFHPRFDAQAKHYRYTMLLDDLR 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
            P   H A+    KL+   MR A   FVG+HDF+AF     N  A   V+ I+  ++++ 
Sbjct: 121 SPLSRHTAWRIKGKLDLEAMRAACTVFVGEHDFAAFRGA--NCAAKTTVRRIYSMELVQE 178

Query: 208 GALLQLEVEGSGFLYRQVR 226
             LL L+++GSGFL   VR
Sbjct: 179 DRLLHLDIKGSGFLKNMVR 197


>gi|342214140|ref|ZP_08706848.1| tRNA pseudouridine synthase A [Veillonella sp. oral taxon 780 str.
           F0422]
 gi|341595825|gb|EGS38464.1| tRNA pseudouridine synthase A [Veillonella sp. oral taxon 780 str.
           F0422]
          Length = 260

 Score =  138 bits (347), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 78/201 (38%), Positives = 118/201 (58%), Gaps = 6/201 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L++ YDGT   G+Q Q + PT+Q  +E+AL   +K+  E + + G+SRTD GVHA GQV
Sbjct: 6   QLIVAYDGTELCGYQRQQNGPTVQGYLEEAL---SKVCNESITIYGSSRTDAGVHARGQV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
             F T      ++++  AL   +PP I VRE      +++ R   K K Y Y I+NDAV+
Sbjct: 63  VAFTTTGKIP-VDNLMRALIAHMPPYIVVREAQELPSDWNPRNYVKGKEYIYTIHNDAVV 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           DP Q  YAYH    L+ + M++AA+   G H+FS F     N    +PVK+++   V + 
Sbjct: 122 DPLQLRYAYHVRKPLDISSMKQAAKALEGTHNFSTFKG--HNTTIQDPVKTMYAVKVSQQ 179

Query: 208 GALLQLEVEGSGFLYRQVRNM 228
           G+ +++ V G GF+Y  VRN+
Sbjct: 180 GSTVRIHVLGDGFVYHMVRNI 200


>gi|402299426|ref|ZP_10819037.1| tRNA pseudouridine synthase A [Bacillus alcalophilus ATCC 27647]
 gi|401725464|gb|EJS98749.1| tRNA pseudouridine synthase A [Bacillus alcalophilus ATCC 27647]
          Length = 251

 Score =  138 bits (347), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 81/205 (39%), Positives = 117/205 (57%), Gaps = 5/205 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           K    + Y+GT +AG+Q Q    TIQ  +E +L ++ K   E+LR+  + RTD+ VHA G
Sbjct: 3   KMACKVAYEGTYFAGYQVQPGKRTIQGEIEASLKKIHK--GEELRIHSSGRTDSLVHATG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF T  +   +     ALN LLP DIR+ E      +FHAR+SA SK Y Y+I    
Sbjct: 61  QVFHFETSLAIP-VSRWAKALNALLPADIRIIEAVEVSKDFHARYSAISKQYRYRILLTK 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             D F+ ++ YH    L+   ++EAA++ +GKHDFSAF     N   ++ ++++ R ++ 
Sbjct: 120 EGDLFRRNHCYHFTEMLDIEAIKEAAQHILGKHDFSAFCAA--NTSVIDKIRTVTRLELQ 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMVN 230
            +G  L   VEG GFLY  VR MV 
Sbjct: 178 HVGDELLFIVEGDGFLYNMVRIMVG 202


>gi|150392315|ref|YP_001322364.1| tRNA pseudouridine synthase A [Alkaliphilus metalliredigens QYMF]
 gi|149952177|gb|ABR50705.1| tRNA pseudouridine synthase A [Alkaliphilus metalliredigens QYMF]
          Length = 246

 Score =  138 bits (347), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 73/200 (36%), Positives = 121/200 (60%), Gaps = 7/200 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPP-TIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           R+++ YDGT+Y GWQ QT+   TIQ  +E     ++++  +   +VG+ RTD G HA+GQ
Sbjct: 5   RMIVEYDGTKYRGWQRQTATDMTIQGKLEHV---ISEMVGKKTEIVGSGRTDAGAHAYGQ 61

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           VA+F T  S   ++ ++  +N  LP DI V+E+  A P FH+R++ K K Y Y+I+N++ 
Sbjct: 62  VANFHTK-STLSIKEMYQYINQYLPQDIVVKELKEAGPRFHSRYNVKGKKYVYRIWNEST 120

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
              F   ++YH    LN  LM+EAA   VG +DF  F +++++++    V++I    + +
Sbjct: 121 ASVFHRKHSYHVPQALNLELMQEAAAKLVGTYDFLPFSSVKKSEKT--TVRTIESITIEK 178

Query: 207 MGALLQLEVEGSGFLYRQVR 226
             A +++ + G GFLY  VR
Sbjct: 179 KDAFVEITIVGDGFLYNMVR 198


>gi|218230830|ref|YP_002364991.1| tRNA pseudouridine synthase A [Bacillus cereus B4264]
 gi|228950690|ref|ZP_04112824.1| tRNA pseudouridine synthase A [Bacillus thuringiensis serovar
           kurstaki str. T03a001]
 gi|229077443|ref|ZP_04210092.1| tRNA pseudouridine synthase A [Bacillus cereus Rock4-2]
 gi|229148551|ref|ZP_04276807.1| tRNA pseudouridine synthase A [Bacillus cereus m1550]
 gi|229176742|ref|ZP_04304146.1| tRNA pseudouridine synthase A [Bacillus cereus 172560W]
 gi|449086809|ref|YP_007419250.1| TruA [Bacillus thuringiensis serovar kurstaki str. HD73]
 gi|218158787|gb|ACK58779.1| tRNA pseudouridine synthase A [Bacillus cereus B4264]
 gi|228606785|gb|EEK64202.1| tRNA pseudouridine synthase A [Bacillus cereus 172560W]
 gi|228634967|gb|EEK91540.1| tRNA pseudouridine synthase A [Bacillus cereus m1550]
 gi|228705869|gb|EEL58206.1| tRNA pseudouridine synthase A [Bacillus cereus Rock4-2]
 gi|228809041|gb|EEM55526.1| tRNA pseudouridine synthase A [Bacillus thuringiensis serovar
           kurstaki str. T03a001]
 gi|449020566|gb|AGE75729.1| TruA [Bacillus thuringiensis serovar kurstaki str. HD73]
          Length = 252

 Score =  137 bits (346), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 73/202 (36%), Positives = 117/202 (57%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q +  T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 10  KCTVAYDGMHFCGYQIQPNHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 67

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  + I+A LN +LP DI +R++     EFHAR+  + K Y Y++      
Sbjct: 68  IHFDTPLSLEEWQWINA-LNTMLPDDIVIRQVEKKTEEFHARYGVEKKEYRYRVLLSKTA 126

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++I+  ++IE 
Sbjct: 127 DVFRRNYVYQYPYPLEINSIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 184

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              +     G+GFLY  VR +V
Sbjct: 185 NDEIIFRFVGNGFLYNMVRIIV 206


>gi|225387194|ref|ZP_03756958.1| hypothetical protein CLOSTASPAR_00946 [Clostridium asparagiforme
           DSM 15981]
 gi|225046673|gb|EEG56919.1| hypothetical protein CLOSTASPAR_00946 [Clostridium asparagiforme
           DSM 15981]
          Length = 259

 Score =  137 bits (346), Expect = 3e-30,   Method: Compositional matrix adjust.
 Identities = 78/200 (39%), Positives = 115/200 (57%), Gaps = 7/200 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           RLV+ YDGT Y GWQ+Q +  TI+ ++ KAL   T+L RE + ++GASRTD GVHA G V
Sbjct: 11  RLVVAYDGTNYHGWQYQPNAVTIEEVLNKAL---TELLREPIAVIGASRTDAGVHAQGNV 67

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A F T       + I  A+N  LP DIRV+       ++H R     K Y YKI N  + 
Sbjct: 68  AVFDTKNRM-AADKICLAVNQRLPEDIRVQSSEEVATDWHPRKRRCVKTYEYKILNRRIE 126

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV-IE 206
            P +  Y YH  Y L+   MR+AAE+ +G+HDF +F + +   +  + V++++   +  +
Sbjct: 127 MPDKRLYTYHCYYDLDLEKMRQAAEFILGEHDFKSFCSAK--TQVTDTVRTVYDLKLERD 184

Query: 207 MGALLQLEVEGSGFLYRQVR 226
              ++ + + GSGFLY  VR
Sbjct: 185 QEDVITIRITGSGFLYNMVR 204


>gi|166154677|ref|YP_001654795.1| tRNA pseudouridine synthase A [Chlamydia trachomatis 434/Bu]
 gi|166155552|ref|YP_001653807.1| tRNA pseudouridine synthase A [Chlamydia trachomatis
           L2b/UCH-1/proctitis]
 gi|301335947|ref|ZP_07224191.1| tRNA pseudouridine synthase A [Chlamydia trachomatis L2tet1]
 gi|339626142|ref|YP_004717621.1| tRNA pseudouridine synthase A [Chlamydia trachomatis L2c]
 gi|238687386|sp|B0B836.1|TRUA_CHLT2 RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|238687485|sp|B0BCA1.1|TRUA_CHLTB RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|165930665|emb|CAP04162.1| tRNA pseudouridine synthase A [Chlamydia trachomatis 434/Bu]
 gi|165931540|emb|CAP07116.1| tRNA pseudouridine synthase A [Chlamydia trachomatis
           L2b/UCH-1/proctitis]
 gi|339460521|gb|AEJ77024.1| tRNA pseudouridine synthase A [Chlamydia trachomatis L2c]
 gi|440526272|emb|CCP51756.1| tRNA pseudouridine synthase A [Chlamydia trachomatis L2b/8200/07]
 gi|440536097|emb|CCP61610.1| tRNA pseudouridine synthase A [Chlamydia trachomatis L2b/795]
 gi|440536990|emb|CCP62504.1| tRNA pseudouridine synthase A [Chlamydia trachomatis L1/440/LN]
 gi|440537879|emb|CCP63393.1| tRNA pseudouridine synthase A [Chlamydia trachomatis L1/1322/p2]
 gi|440538769|emb|CCP64283.1| tRNA pseudouridine synthase A [Chlamydia trachomatis L1/115]
 gi|440539658|emb|CCP65172.1| tRNA pseudouridine synthase A [Chlamydia trachomatis L1/224]
 gi|440540550|emb|CCP66064.1| tRNA pseudouridine synthase A [Chlamydia trachomatis L2/25667R]
 gi|440541438|emb|CCP66952.1| tRNA pseudouridine synthase A [Chlamydia trachomatis L3/404/LN]
 gi|440542325|emb|CCP67839.1| tRNA pseudouridine synthase A [Chlamydia trachomatis L2b/UCH-2]
 gi|440543216|emb|CCP68730.1| tRNA pseudouridine synthase A [Chlamydia trachomatis L2b/Canada2]
 gi|440544107|emb|CCP69621.1| tRNA pseudouridine synthase A [Chlamydia trachomatis L2b/LST]
 gi|440544997|emb|CCP70511.1| tRNA pseudouridine synthase A [Chlamydia trachomatis L2b/Ams1]
 gi|440545887|emb|CCP71401.1| tRNA pseudouridine synthase A [Chlamydia trachomatis L2b/CV204]
 gi|440914149|emb|CCP90566.1| tRNA pseudouridine synthase A [Chlamydia trachomatis L2b/Ams2]
 gi|440915039|emb|CCP91456.1| tRNA pseudouridine synthase A [Chlamydia trachomatis L2b/Ams3]
 gi|440915930|emb|CCP92347.1| tRNA pseudouridine synthase A [Chlamydia trachomatis L2b/Canada1]
 gi|440916825|emb|CCP93242.1| tRNA pseudouridine synthase A [Chlamydia trachomatis L2b/Ams4]
 gi|440917715|emb|CCP94132.1| tRNA pseudouridine synthase A [Chlamydia trachomatis L2b/Ams5]
          Length = 267

 Score =  137 bits (346), Expect = 3e-30,   Method: Compositional matrix adjust.
 Identities = 77/208 (37%), Positives = 118/208 (56%), Gaps = 11/208 (5%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           K  L I Y GT Y+GWQ+Q +  +IQ +++  L ++       + ++ + RTD GVHA G
Sbjct: 4   KIVLQIAYQGTSYSGWQYQPNALSIQEVLKTILKKIAGFR---ISVISSGRTDAGVHAQG 60

Query: 86  QVAHFITP--FSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYN 143
           Q+AHF  P    +     I   LN LLP DI +R+      +FH+RFSA +K Y Y +  
Sbjct: 61  QIAHFHCPDHPHFTDPRQIQKMLNALLPHDIVIRDAVMTDGDFHSRFSAIAKEYRYTL-- 118

Query: 144 DAVMDPFQHH--YAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFR 201
             +  P  HH  + +   YKLN   M+EAA+Y VG HDF++F N+ R   +   +++++ 
Sbjct: 119 SLLPKPLPHHRLFCFSPRYKLNIARMQEAAQYLVGTHDFASFANLGREYSST--IRTLYT 176

Query: 202 FDVIEMGALLQLEVEGSGFLYRQVRNMV 229
            D+ E   L+ +   G+GFLY+ VRN+V
Sbjct: 177 LDLSEQEHLVTVICRGNGFLYKMVRNIV 204


>gi|85859802|ref|YP_462004.1| tRNA pseudouridine synthase A [Syntrophus aciditrophicus SB]
 gi|85722893|gb|ABC77836.1| tRNA pseudouridine synthase A [Syntrophus aciditrophicus SB]
          Length = 259

 Score =  137 bits (346), Expect = 3e-30,   Method: Compositional matrix adjust.
 Identities = 83/203 (40%), Positives = 117/203 (57%), Gaps = 7/203 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +LV+ YDGT Y GWQ Q + PTIQ I+E+++ R+T+   E + L G+ RTD GVHA  QV
Sbjct: 19  KLVLEYDGTAYRGWQRQGNLPTIQKILEESIARITQ---EPVILHGSGRTDAGVHALNQV 75

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A+F T  S     ++   LN LLP DI +RE      EFH+R+SAKSK Y Y+I N  V 
Sbjct: 76  ANFRTS-SRIPAANLLRGLNSLLPGDIVIRETEDVDEEFHSRYSAKSKSYLYRILNSPVR 134

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV-IE 206
            P Q + A+     L+   M  A     GKHDF++F     + ++   V++I R ++  E
Sbjct: 135 SPLQRNSAWFIRCCLDLEKMAGAISLLCGKHDFTSFCAAGSDVKSC--VRTIIRAEIERE 192

Query: 207 MGALLQLEVEGSGFLYRQVRNMV 229
              ++ + VE  GFL   VRN+V
Sbjct: 193 TEQVITISVEADGFLRHMVRNIV 215


>gi|218282056|ref|ZP_03488361.1| hypothetical protein EUBIFOR_00932 [Eubacterium biforme DSM 3989]
 gi|218216974|gb|EEC90512.1| hypothetical protein EUBIFOR_00932 [Eubacterium biforme DSM 3989]
          Length = 247

 Score =  137 bits (346), Expect = 3e-30,   Method: Compositional matrix adjust.
 Identities = 80/201 (39%), Positives = 118/201 (58%), Gaps = 6/201 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           + ++ YDG  YAGWQ Q +   IQ ++E+AL ++TK   E++ +V + RTD GVHA+GQV
Sbjct: 4   KALVSYDGFNYAGWQKQENALGIQQVIEEALYKITK---ENVDVVASGRTDAGVHAFGQV 60

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF T  +   ++    ALN LLP DIR+ +      +FHARFSA  K Y Y    D + 
Sbjct: 61  FHFETNKNIPAIQ-YERALNALLPKDIRILKTEEMPDDFHARFSAVGKRYDYYCSYD-IK 118

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           +PF + Y      KL+   M+ A++ F+G HDF++F + + + R    VK+I   ++IE 
Sbjct: 119 NPFNYKYRNLLTKKLDIEAMKNASKVFLGSHDFTSFASSKIDPRKPR-VKTISNIEIIEE 177

Query: 208 GALLQLEVEGSGFLYRQVRNM 228
           G  +    EG+GFL  QVR M
Sbjct: 178 GMDVHFIFEGTGFLRYQVRMM 198


>gi|229159315|ref|ZP_04287339.1| tRNA pseudouridine synthase A [Bacillus cereus R309803]
 gi|228624207|gb|EEK81009.1| tRNA pseudouridine synthase A [Bacillus cereus R309803]
          Length = 252

 Score =  137 bits (346), Expect = 3e-30,   Method: Compositional matrix adjust.
 Identities = 74/202 (36%), Positives = 116/202 (57%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 10  KCTVAYDGMHFCGYQIQPQHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 67

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  +A LN +LP DI +R++     EFHAR+  + K Y Y++      
Sbjct: 68  IHFDTPLSLEEWQWSNA-LNTMLPDDIVIRQVEKKTEEFHARYGVERKEYRYRVLLSKTA 126

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++I+  ++IE 
Sbjct: 127 DVFRRNYVYQYPYPLEINSIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 184

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
           G  L     G+GFLY  VR +V
Sbjct: 185 GDELIFRFVGNGFLYNMVRIIV 206


>gi|188590732|ref|YP_001919706.1| tRNA pseudouridine synthase A [Clostridium botulinum E3 str. Alaska
           E43]
 gi|238689635|sp|B2UYE4.1|TRUA_CLOBA RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|188501013|gb|ACD54149.1| tRNA pseudouridine synthase A [Clostridium botulinum E3 str. Alaska
           E43]
          Length = 244

 Score =  137 bits (346), Expect = 3e-30,   Method: Compositional matrix adjust.
 Identities = 80/202 (39%), Positives = 112/202 (55%), Gaps = 6/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L+I +DGT + GWQ Q    T+Q  +E A++++T    E     G+SRTD GVHA   V
Sbjct: 5   KLIIEFDGTNFCGWQRQVKDRTVQGCLENAILKITG---EKSLTNGSSRTDGGVHAKAMV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A+FIT  S  G E    ALN  LP DI + +      EFHAR+S+K K+Y Y I N    
Sbjct: 62  ANFITNSSIPG-EKFREALNTKLPDDISIIKSEEVDMEFHARYSSKGKMYSYTIVNRYEK 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
             F   Y +H   +LN   M++A EYF+GKHDF AF  +     A   V++I  F + E 
Sbjct: 121 LAFGKQYLHHVRKELNVEDMKKACEYFLGKHDFKAF--MSPGSSAKTTVRTITDFYIEEN 178

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
             ++++ +   GFLY  VR +V
Sbjct: 179 KNVIRIFISADGFLYNMVRIIV 200


>gi|404482547|ref|ZP_11017774.1| tRNA pseudouridine synthase A [Clostridiales bacterium OBRC5-5]
 gi|404344708|gb|EJZ71065.1| tRNA pseudouridine synthase A [Clostridiales bacterium OBRC5-5]
          Length = 245

 Score =  137 bits (346), Expect = 3e-30,   Method: Compositional matrix adjust.
 Identities = 73/201 (36%), Positives = 118/201 (58%), Gaps = 6/201 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + RL++ YDGT Y GWQ Q +  TI+ ++  A   ++KL  E++ ++GASRTD+GVHA+G
Sbjct: 3   RIRLIVSYDGTNYCGWQKQPNGITIEEVLNNA---ISKLTGEEIEIIGASRTDSGVHAYG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
            VA F T       +    A+N  LP DIR++        +H R +   K Y Y+I N  
Sbjct: 60  NVAVFDTNARM-AADKFAFAINQRLPDDIRIQYSDEVEAGWHPRKNDCIKTYTYRILNRK 118

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           +  P +  YA+   + L+   MREA+ YF+G HDF++F +  +  +A +PV++IF  +V+
Sbjct: 119 IDIPTERLYAHFCYFNLDVEKMREASGYFIGTHDFTSFCS--QKSQASSPVRTIFSLEVL 176

Query: 206 EMGALLQLEVEGSGFLYRQVR 226
           +   ++ + + G GFLY  +R
Sbjct: 177 QDEDMITVVIRGDGFLYNMIR 197


>gi|365164116|ref|ZP_09360202.1| tRNA pseudouridine synthase A 1 [Bacillus sp. 7_6_55CFAA_CT2]
 gi|423415958|ref|ZP_17393078.1| tRNA pseudouridine synthase A 1 [Bacillus cereus BAG3O-2]
 gi|423422375|ref|ZP_17399406.1| tRNA pseudouridine synthase A 1 [Bacillus cereus BAG3X2-2]
 gi|423428248|ref|ZP_17405252.1| tRNA pseudouridine synthase A 1 [Bacillus cereus BAG4O-1]
 gi|423439403|ref|ZP_17416341.1| tRNA pseudouridine synthase A 1 [Bacillus cereus BAG4X12-1]
 gi|423507832|ref|ZP_17484399.1| tRNA pseudouridine synthase A 1 [Bacillus cereus HD73]
 gi|363613417|gb|EHL64934.1| tRNA pseudouridine synthase A 1 [Bacillus sp. 7_6_55CFAA_CT2]
 gi|401094405|gb|EJQ02486.1| tRNA pseudouridine synthase A 1 [Bacillus cereus BAG3O-2]
 gi|401112757|gb|EJQ20631.1| tRNA pseudouridine synthase A 1 [Bacillus cereus BAG4X12-1]
 gi|401120092|gb|EJQ27893.1| tRNA pseudouridine synthase A 1 [Bacillus cereus BAG3X2-2]
 gi|401127170|gb|EJQ34899.1| tRNA pseudouridine synthase A 1 [Bacillus cereus BAG4O-1]
 gi|402442619|gb|EJV74540.1| tRNA pseudouridine synthase A 1 [Bacillus cereus HD73]
          Length = 247

 Score =  137 bits (346), Expect = 3e-30,   Method: Compositional matrix adjust.
 Identities = 73/202 (36%), Positives = 117/202 (57%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q +  T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 5   KCTVAYDGMHFCGYQIQPNHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  + I+A LN +LP DI +R++     EFHAR+  + K Y Y++      
Sbjct: 63  IHFDTPLSLEEWQWINA-LNTMLPDDIVIRQVEKKTEEFHARYGVEKKEYRYRVLLSKTA 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++I+  ++IE 
Sbjct: 122 DVFRRNYVYQYPYPLEINSIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 179

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              +     G+GFLY  VR +V
Sbjct: 180 NDEIIFRFVGNGFLYNMVRIIV 201


>gi|386712499|ref|YP_006178821.1| tRNA pseudouridine synthase A [Halobacillus halophilus DSM 2266]
 gi|384072054|emb|CCG43544.1| tRNA pseudouridine synthase A [Halobacillus halophilus DSM 2266]
          Length = 247

 Score =  137 bits (346), Expect = 3e-30,   Method: Compositional matrix adjust.
 Identities = 76/202 (37%), Positives = 118/202 (58%), Gaps = 4/202 (1%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           R +I YDGT YAG+Q Q +  T+Q  +EK L ++ K  +  ++++ + RTD+GVHA GQV
Sbjct: 5   RCIIQYDGTNYAGYQVQLNGKTVQEKLEKVLTKIHKGRK--IKVIASGRTDSGVHAIGQV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF T      +E+   AL  +LP DI V +      +FHAR+    K Y Y I+N    
Sbjct: 63  IHFDTELKLP-MENWKRALATMLPADITVTKAEPVSSDFHARYDTTGKEYRYFIWNSKEP 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           + F+ HY YH   +L+   M+EA  Y  G+H+F++F +  ++D   + V++I +  V++ 
Sbjct: 122 NIFKRHYYYHIRKELDVPAMKEACRYIEGEHNFTSFCS-PKSDVKGSKVRTIHQASVVQK 180

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
           G  L  + +GSGFLY  VR +V
Sbjct: 181 GEELIFQFKGSGFLYNMVRIIV 202


>gi|357055030|ref|ZP_09116108.1| tRNA pseudouridine synthase A [Clostridium clostridioforme
           2_1_49FAA]
 gi|355383730|gb|EHG30807.1| tRNA pseudouridine synthase A [Clostridium clostridioforme
           2_1_49FAA]
          Length = 247

 Score =  137 bits (346), Expect = 3e-30,   Method: Compositional matrix adjust.
 Identities = 80/203 (39%), Positives = 121/203 (59%), Gaps = 9/203 (4%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + RLV+ YDGT+Y GWQ Q    TI+ ++ +AL   T+L RE ++++GASRTD+GVHA G
Sbjct: 3   RIRLVVAYDGTQYHGWQIQPGAVTIESVLNEAL---TQLMREPIQVIGASRTDSGVHARG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVP-EFHARFSAKSKIYHYKIYND 144
            VA F T  S    + I  ALN  LP DIRV ++S  VP ++H R     K Y Y+I N 
Sbjct: 60  NVAVFDTE-SQMPPDKICMALNQRLPEDIRV-QVSEEVPSDWHPRKCTCVKTYEYRILNR 117

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
            +  P +  Y++   YKL+   M+ AA    G+HDF +F +++   +  + V+++++ DV
Sbjct: 118 RINMPMERLYSHFCYYKLDVDRMQAAANMLAGEHDFKSFCSVR--TQVTDTVRTVYKIDV 175

Query: 205 IEM-GALLQLEVEGSGFLYRQVR 226
                 ++ + V G+GFLY  VR
Sbjct: 176 ERNDNDIITIRVTGNGFLYNMVR 198


>gi|358066723|ref|ZP_09153213.1| tRNA pseudouridine synthase A [Johnsonella ignava ATCC 51276]
 gi|356694994|gb|EHI56645.1| tRNA pseudouridine synthase A [Johnsonella ignava ATCC 51276]
          Length = 249

 Score =  137 bits (345), Expect = 3e-30,   Method: Compositional matrix adjust.
 Identities = 74/201 (36%), Positives = 117/201 (58%), Gaps = 6/201 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + +L++ YDGT Y GWQ Q +  TI+ ++ KA    + L  E++ ++GASRTD+GVHA+G
Sbjct: 6   RIKLIVSYDGTNYCGWQKQPNGVTIEEVLNKA---ASSLCGEEIEVIGASRTDSGVHAFG 62

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
            VA F T    D       ALN  LP DIR++E      ++H R     K Y Y+I N  
Sbjct: 63  NVAVFDTDMKMDA-GKFAFALNQRLPDDIRIQESYEVEKKWHPRKCDCIKTYIYRILNRK 121

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           +  P +  YA+   ++L+   M EAA YF+G HDF++F +  +  +A +PV++I   +V+
Sbjct: 122 INIPTERLYAHFCYFRLDIDKMNEAAGYFIGTHDFTSFCS--QKTQAQSPVRTIHLLEVL 179

Query: 206 EMGALLQLEVEGSGFLYRQVR 226
           +   ++ + + G GFLY  +R
Sbjct: 180 KDDDMITIAISGDGFLYNMIR 200


>gi|302038272|ref|YP_003798594.1| tRNA pseudouridine synthase A [Candidatus Nitrospira defluvii]
 gi|300606336|emb|CBK42669.1| tRNA pseudouridine synthase A [Candidatus Nitrospira defluvii]
          Length = 253

 Score =  137 bits (345), Expect = 3e-30,   Method: Compositional matrix adjust.
 Identities = 82/203 (40%), Positives = 109/203 (53%), Gaps = 6/203 (2%)

Query: 27  WRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           ++LV+ YDGT+YAGWQ Q + PTIQ  VE+AL  + +     L ++GA RTD GVHA+GQ
Sbjct: 4   FKLVLEYDGTQYAGWQRQPNAPTIQAAVEEALAAIAQTR---LTIIGAGRTDAGVHAFGQ 60

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           VA F T       E + A LN  LP DI    + A    FHAR+SA  K+Y Y + N + 
Sbjct: 61  VASFRTDRGLSQREWLRA-LNAHLPADISALSVKAVPDHFHARYSANGKLYEYHLMNRSE 119

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
             P     A+     L+   M EAA Y  G HDFS+F     ++   NP   + R D+  
Sbjct: 120 RAPLLRERAWMLYKPLDFAAMTEAAAYLTGSHDFSSFETAPTDNE--NPQCRLQRADLRR 177

Query: 207 MGALLQLEVEGSGFLYRQVRNMV 229
            G L+ L      FL + VR+MV
Sbjct: 178 QGDLIILSFYADRFLKQMVRSMV 200


>gi|225573074|ref|ZP_03781829.1| hypothetical protein RUMHYD_01265 [Blautia hydrogenotrophica DSM
           10507]
 gi|225039560|gb|EEG49806.1| tRNA pseudouridine synthase A [Blautia hydrogenotrophica DSM 10507]
          Length = 245

 Score =  137 bits (345), Expect = 4e-30,   Method: Compositional matrix adjust.
 Identities = 79/199 (39%), Positives = 112/199 (56%), Gaps = 8/199 (4%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L++ YDGT Y GWQ Q +  TIQ  + + L   ++L  E++  +GASRTD GVHA G VA
Sbjct: 6   LIVAYDGTNYCGWQVQPNGITIQGELNRCL---SELLGEEIETIGASRTDAGVHAMGNVA 62

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVP-EFHARFSAKSKIYHYKIYNDAVM 147
            F T     G E I  ALN  LP DIR+ ++S  +P +FH R+    K Y Y+I N    
Sbjct: 63  VFDTETRMPG-EKISYALNQRLPEDIRI-QLSEEMPMDFHPRYCDSVKTYEYRILNRRFQ 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
            P +  Y+Y   YKL+   MREA  Y +G+HDF++F       +  + V++I   +V   
Sbjct: 121 IPTERLYSYFYHYKLDEKKMREATSYLIGRHDFASFCGA--GAQVKSTVRTIRSVEVERF 178

Query: 208 GALLQLEVEGSGFLYRQVR 226
           G ++ + + G GFLY  VR
Sbjct: 179 GDMVTIRISGEGFLYNMVR 197


>gi|421834688|ref|ZP_16269660.1| tRNA pseudouridine synthase A [Clostridium botulinum CFSAN001627]
 gi|409743837|gb|EKN42645.1| tRNA pseudouridine synthase A [Clostridium botulinum CFSAN001627]
          Length = 246

 Score =  137 bits (345), Expect = 4e-30,   Method: Compositional matrix adjust.
 Identities = 76/204 (37%), Positives = 112/204 (54%), Gaps = 8/204 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPP--TIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +L + YDG  Y GWQ Q +    T+Q  +EKA+  +TK   E + ++GASRTD+GVHA G
Sbjct: 5   KLKLEYDGANYCGWQKQKNEKFITLQGTLEKAISNITK---EKIEVIGASRTDSGVHAKG 61

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
            + +F T       E++   +N  LPPDI V     A  EFH+RF +K K Y Y + N +
Sbjct: 62  YICNFFTNTKIPP-ENLQKVINNNLPPDIVVLSSEEASSEFHSRFCSKGKTYEYTVLNSS 120

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
                  +Y +    KLN   M+ A+ YF+G HDFSAF    +       V++I +F++ 
Sbjct: 121 KPIAIGRNYIFQFKDKLNIDNMKMASRYFIGTHDFSAFKT--KGSSIKTSVRTISKFEIN 178

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           + G  ++  + G GFLY  VR +V
Sbjct: 179 KKGDFIKFIITGDGFLYNMVRIIV 202


>gi|210615874|ref|ZP_03290836.1| hypothetical protein CLONEX_03055 [Clostridium nexile DSM 1787]
 gi|210150077|gb|EEA81086.1| hypothetical protein CLONEX_03055 [Clostridium nexile DSM 1787]
          Length = 247

 Score =  137 bits (345), Expect = 4e-30,   Method: Compositional matrix adjust.
 Identities = 77/199 (38%), Positives = 105/199 (52%), Gaps = 4/199 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L I YDG+RY GWQ      +   I  K    + K+  ED+ L   SRT+ GVHA+GQ 
Sbjct: 5   KLTIEYDGSRYQGWQRLGKDESTNTIANKITEVIKKMTNEDIELFCGSRTEVGVHAYGQA 64

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A F T      +E I   LN  LP DI + +I      FHA  +A SKIY Y+I    V 
Sbjct: 65  ASFKTTTDMTLIE-IQHYLNRYLPMDIAITDIEEKPERFHASLNATSKIYMYRISVSEVP 123

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
             F+  Y YHS  + +  LM++AA   VGKHDF  F  +++N    + VK I+  DV + 
Sbjct: 124 SVFERKYVYHSFKRPDVDLMKQAAILLVGKHDFKKFSTVKKNK---STVKEIYDIDVYDD 180

Query: 208 GALLQLEVEGSGFLYRQVR 226
           G  LQ+ + G+ FL+   R
Sbjct: 181 GEELQITLHGNDFLHNMAR 199


>gi|420146270|ref|ZP_14653698.1| Pseudouridine synthase [Lactobacillus coryniformis subsp.
           coryniformis CECT 5711]
 gi|398402001|gb|EJN55400.1| Pseudouridine synthase [Lactobacillus coryniformis subsp.
           coryniformis CECT 5711]
          Length = 261

 Score =  137 bits (345), Expect = 4e-30,   Method: Compositional matrix adjust.
 Identities = 83/210 (39%), Positives = 118/210 (56%), Gaps = 10/210 (4%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLV--GASRTDTGVH 82
            ++++ I YDGT++AG+Q Q    T+Q ++EKA   V  + +   R+V  G+ RTD GVH
Sbjct: 2   LRYKVTIAYDGTQFAGFQLQVKQRTVQGVMEKA---VRTIAKSPTRIVVNGSGRTDAGVH 58

Query: 83  AWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIY 142
           A GQV HF  PF+     ++  ALN LLP D+ V++   A PEFHAR+    K Y Y++ 
Sbjct: 59  ALGQVVHFDFPFALPA-AAMLKALNSLLPLDVVVKDCQVADPEFHARYDTTGKRYVYRVS 117

Query: 143 NDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRF 202
                DPF+  Y  H  Y L+   ++ A   F+G HDFS+F     + +  N V++IF  
Sbjct: 118 RGYYTDPFRRFYTGHWKYALDVDKIQLALTDFIGTHDFSSFAASGGSIK--NKVRTIFAA 175

Query: 203 DVIEMGALLQL--EVEGSGFLYRQVRNMVN 230
            V E  A  +L  E  G+GFLY  VR MV 
Sbjct: 176 TVTEDPASDELIFEFYGNGFLYNMVRIMVG 205


>gi|433447344|ref|ZP_20410941.1| tRNA pseudouridine synthase A [Anoxybacillus flavithermus
           TNO-09.006]
 gi|432000008|gb|ELK20915.1| tRNA pseudouridine synthase A [Anoxybacillus flavithermus
           TNO-09.006]
          Length = 246

 Score =  137 bits (345), Expect = 4e-30,   Method: Compositional matrix adjust.
 Identities = 83/203 (40%), Positives = 113/203 (55%), Gaps = 8/203 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  I YDGT +AG+Q Q    T+Q  +E+AL  + K   + +R+  + RTD  VHA GQV
Sbjct: 5   KCTIAYDGTYFAGYQIQQQKRTVQGELERALSLIHK--GQFVRVYASGRTDATVHAHGQV 62

Query: 88  AHFITPFSY-DGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
            HF TP S  DG      ALN LLP D+ V+E S   P FHARFS K K Y Y+++    
Sbjct: 63  IHFDTPLSIPDG--KWPKALNALLPDDVIVKEASEVSPSFHARFSVKKKEYRYRVWTGE- 119

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
            + F  HY YH  Y LN   M EA    +G HDF++F + +      + V++I+  +VI 
Sbjct: 120 KNVFLRHYVYHYPYPLNVAAMNEALHDLIGTHDFTSFCSAKTEIE--DKVRTIYEAEVIP 177

Query: 207 MGALLQLEVEGSGFLYRQVRNMV 229
            G  L   + G+GFLY  VR +V
Sbjct: 178 QGDELIFRLVGNGFLYNMVRIIV 200


>gi|76789199|ref|YP_328285.1| tRNA pseudouridine synthase A [Chlamydia trachomatis A/HAR-13]
 gi|123606852|sp|Q3KLN5.1|TRUA_CHLTA RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|76167729|gb|AAX50737.1| tRNA pseudouridine synthase A [Chlamydia trachomatis A/HAR-13]
          Length = 267

 Score =  137 bits (345), Expect = 4e-30,   Method: Compositional matrix adjust.
 Identities = 77/208 (37%), Positives = 117/208 (56%), Gaps = 11/208 (5%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           K  L I Y GT Y+GWQ+Q +  +IQ ++E  L ++       + ++ + RTD GVHA G
Sbjct: 4   KIVLQIAYQGTSYSGWQYQPNALSIQEVLETILKKIAGFR---ISVISSGRTDAGVHAQG 60

Query: 86  QVAHFITP--FSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYN 143
           Q+AHF  P    +     I   LN LLP DI + +      +FH+RFSA +K Y Y +  
Sbjct: 61  QIAHFHCPDHPHFTDPRQIQKMLNALLPHDIVIHDAVMTDGDFHSRFSAIAKEYRYTL-- 118

Query: 144 DAVMDPFQHH--YAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFR 201
             +  P  HH  + +   YKLN   M+EAA+Y VG HDF++F N+ R   +   +++++ 
Sbjct: 119 SLLPKPLPHHRLFCFSPRYKLNIARMQEAAQYLVGTHDFASFANLGREYSST--IRTLYT 176

Query: 202 FDVIEMGALLQLEVEGSGFLYRQVRNMV 229
            D+ E   L+ +   G+GFLY+ VRN+V
Sbjct: 177 LDLSEQEHLVTVICRGNGFLYKMVRNIV 204


>gi|387819728|ref|YP_005680075.1| tRNA pseudouridine synthase A [Clostridium botulinum H04402 065]
 gi|322807772|emb|CBZ05347.1| tRNA pseudouridine synthase A [Clostridium botulinum H04402 065]
          Length = 246

 Score =  137 bits (345), Expect = 4e-30,   Method: Compositional matrix adjust.
 Identities = 76/204 (37%), Positives = 112/204 (54%), Gaps = 8/204 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPP--TIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +L + YDG  Y GWQ Q +    T+Q  +EKA+  +TK   E + ++GASRTD+GVHA G
Sbjct: 5   KLKLEYDGANYCGWQKQKNEKFITLQGTLEKAISNITK---EKIEVIGASRTDSGVHAKG 61

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
            + +F T       E++   +N  LPPDI V     A  EFH+RF +K K Y Y + N +
Sbjct: 62  YICNFFTNTKIPP-ENLQKVINNNLPPDIVVLSSEEASSEFHSRFCSKGKTYEYTVLNSS 120

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
                  +Y +    KLN   M+ A+ YF+G HDFSAF    +       V++I +F++ 
Sbjct: 121 QPIAIGRNYIFQFKDKLNIDNMKMASRYFIGTHDFSAFKT--KGSSIKTSVRTISKFEIN 178

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           + G  ++  + G GFLY  VR +V
Sbjct: 179 KKGDFIKFIITGDGFLYNMVRIIV 202


>gi|312870517|ref|ZP_07730636.1| tRNA pseudouridine synthase A [Lactobacillus oris PB013-T2-3]
 gi|417886814|ref|ZP_12530958.1| tRNA pseudouridine synthase A [Lactobacillus oris F0423]
 gi|311093979|gb|EFQ52304.1| tRNA pseudouridine synthase A [Lactobacillus oris PB013-T2-3]
 gi|341593205|gb|EGS36062.1| tRNA pseudouridine synthase A [Lactobacillus oris F0423]
          Length = 256

 Score =  137 bits (345), Expect = 4e-30,   Method: Compositional matrix adjust.
 Identities = 73/207 (35%), Positives = 120/207 (57%), Gaps = 5/207 (2%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
           +++++   YDG  ++G+Q Q    T++ +++ A+ ++ K     + ++G+ RTD GVHA 
Sbjct: 2   YRYKITFAYDGANFSGFQIQPHKRTVEQVLKNAVNKIAKYPDPPISVIGSGRTDAGVHAL 61

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
            QVAHF  P+     ES+  ALN LLP DI V++       FHAR+SA  K Y Y++   
Sbjct: 62  NQVAHFDLPYQLSD-ESMRKALNSLLPLDILVKKAERVDESFHARYSAHRKTYRYRVDQG 120

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
             +DPF+ +Y  H    ++   MR AA+ F+G+HDF++FV      +A + V+++ +  V
Sbjct: 121 DFVDPFKRNYTAHYKVPVDIDKMRLAAKDFIGEHDFTSFV--ASGSQAKSNVRTVEKITV 178

Query: 205 IEMGALLQL--EVEGSGFLYRQVRNMV 229
               A  ++  E  G+GFLY Q+R MV
Sbjct: 179 DRDPAQNEVVFEFTGNGFLYNQIRIMV 205


>gi|229170993|ref|ZP_04298594.1| tRNA pseudouridine synthase A [Bacillus cereus MM3]
 gi|228612533|gb|EEK69754.1| tRNA pseudouridine synthase A [Bacillus cereus MM3]
          Length = 252

 Score =  137 bits (344), Expect = 4e-30,   Method: Compositional matrix adjust.
 Identities = 73/202 (36%), Positives = 117/202 (57%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 10  KCTVAYDGMHFCGYQIQPQHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 67

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  +A LN +LP DI ++++     EFHAR+  + K Y Y++      
Sbjct: 68  IHFDTPLSLEEWQWSNA-LNTMLPDDIVIKQVEKKTEEFHARYGVERKEYRYRVLLSKTA 126

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L  + +R+A  YF+G HDF++F + + + +  + V++I+  ++IE 
Sbjct: 127 DVFRRNYVYQYPYPLEISSIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 184

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
           G  L     G+GFLY  VR +V
Sbjct: 185 GDELIFRFVGNGFLYNMVRIIV 206


>gi|168178866|ref|ZP_02613530.1| tRNA pseudouridine synthase A [Clostridium botulinum NCTC 2916]
 gi|226950899|ref|YP_002805990.1| tRNA pseudouridine synthase A [Clostridium botulinum A2 str. Kyoto]
 gi|182670055|gb|EDT82031.1| tRNA pseudouridine synthase A [Clostridium botulinum NCTC 2916]
 gi|226843785|gb|ACO86451.1| tRNA pseudouridine synthase A [Clostridium botulinum A2 str. Kyoto]
          Length = 246

 Score =  137 bits (344), Expect = 4e-30,   Method: Compositional matrix adjust.
 Identities = 76/204 (37%), Positives = 112/204 (54%), Gaps = 8/204 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPP--TIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +L + YDG  Y GWQ Q +    T+Q  +EKA+  +TK   E + ++GASRTD+GVHA G
Sbjct: 5   KLKLEYDGANYCGWQKQKNEKFITLQGTLEKAISNITK---EKIEVIGASRTDSGVHAKG 61

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
            + +F T       E++   +N  LPPDI V     A  EFH+RF +K K Y Y + N +
Sbjct: 62  YICNFFTNTKIPP-ENLQKVINNNLPPDIVVLSSEEASSEFHSRFCSKGKTYEYTVLNSS 120

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
                  +Y +    KLN   M+ A+ YF+G HDFSAF    +       V++I +F++ 
Sbjct: 121 KPIAIGRNYIFQFKDKLNIDNMKMASRYFIGTHDFSAFKT--KGSSIKTSVRTISKFEIN 178

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           + G  ++  + G GFLY  VR +V
Sbjct: 179 KKGDFIKFIITGDGFLYNMVRIIV 202


>gi|326792573|ref|YP_004310394.1| tRNA pseudouridine synthase A [Clostridium lentocellum DSM 5427]
 gi|326543337|gb|ADZ85196.1| tRNA pseudouridine synthase A [Clostridium lentocellum DSM 5427]
          Length = 245

 Score =  137 bits (344), Expect = 5e-30,   Method: Compositional matrix adjust.
 Identities = 73/204 (35%), Positives = 115/204 (56%), Gaps = 6/204 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++L++ YDGT Y G+  Q +  TIQ  ++ A+ ++ + E   +R +GA RTD GVHA+ 
Sbjct: 3   RFKLIVAYDGTNYNGFAKQPNATTIQGTLDVAIAKIVQHE---VRTLGAGRTDRGVHAFA 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           Q   F +       + +  A+N  LP DI V+ +     +FH RF AK K Y Y+I N  
Sbjct: 60  QCCVFDSDTKIPA-DRLAKAINSQLPADISVKSVEEVSEDFHPRFGAKRKTYRYQILNAK 118

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           + DPF + YA    Y+L+   M+EAA   +G+HDF+ F          + V+ I+  DV 
Sbjct: 119 IRDPFLYKYALLYPYELDVERMQEAANEMIGEHDFACFC--AAGSTVKDTVRIIYSIDVK 176

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           + G L+ ++V G+GFLY  VR ++
Sbjct: 177 KEGDLVSIDVCGNGFLYNMVRIII 200


>gi|150020829|ref|YP_001306183.1| tRNA pseudouridine synthase ACD [Thermosipho melanesiensis BI429]
 gi|166229846|sp|A6LLJ7.1|TRUA_THEM4 RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|149793350|gb|ABR30798.1| tRNA pseudouridine synthase A [Thermosipho melanesiensis BI429]
          Length = 244

 Score =  137 bits (344), Expect = 5e-30,   Method: Compositional matrix adjust.
 Identities = 81/198 (40%), Positives = 113/198 (57%), Gaps = 8/198 (4%)

Query: 33  YDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVAHFIT 92
           YDGT + G+Q Q +  T+Q  +EKAL R+ K   E +   GA RTD GVHA GQVA F  
Sbjct: 10  YDGTNFFGYQGQPNVRTVQGELEKALERIFK---ERIFTQGAGRTDAGVHANGQVAAFNC 66

Query: 93  PFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDPFQH 152
           P        I  ALN  LP DI V++       F+ RF AK +IYHY +  +   D F+ 
Sbjct: 67  PIDRLAAIDIKNALNANLPEDIYVKKAWEVEKNFNPRFRAKKRIYHYLVSTNE-KDVFKR 125

Query: 153 HYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMGA-LL 211
           +Y +H  YKLN   MR AA Y  G+HDFS+F   ++ +   NP+++++R  ++ +   L+
Sbjct: 126 NYVWHFKYKLNIEAMRIAARYLEGEHDFSSF---KKGNDKKNPIRTVYRIRILNVKKELI 182

Query: 212 QLEVEGSGFLYRQVRNMV 229
            + VEG  FL   VRN+V
Sbjct: 183 LIRVEGRSFLRSMVRNIV 200


>gi|402313098|ref|ZP_10832020.1| tRNA pseudouridine(38-40) synthase [Lachnospiraceae bacterium ICM7]
 gi|400367137|gb|EJP20155.1| tRNA pseudouridine(38-40) synthase [Lachnospiraceae bacterium ICM7]
          Length = 245

 Score =  137 bits (344), Expect = 5e-30,   Method: Compositional matrix adjust.
 Identities = 73/201 (36%), Positives = 117/201 (58%), Gaps = 6/201 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + RL++ YDGT Y GWQ Q +  TI+ ++  A   ++KL  E+  ++GASRTD+GVHA+G
Sbjct: 3   RIRLIVSYDGTNYCGWQKQPNGITIEEVLNNA---ISKLTGEETEIIGASRTDSGVHAYG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
            VA F T       +    A+N  LP DIR++        +H R +   K Y Y+I N  
Sbjct: 60  NVAVFDTNARM-AADKFAFAINQRLPDDIRIQYSDEVEAGWHPRKNDCIKTYTYRILNRK 118

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           +  P +  YA+   + L+   MREA+ YF+G HDF++F +  +  +A +PV++IF  +V+
Sbjct: 119 IDIPTERLYAHFCYFNLDVDKMREASGYFIGTHDFTSFCS--QKSQASSPVRTIFSLEVL 176

Query: 206 EMGALLQLEVEGSGFLYRQVR 226
           +   ++ + + G GFLY  +R
Sbjct: 177 QDEDMITIVIRGDGFLYNMIR 197


>gi|404495464|ref|YP_006719570.1| tRNA pseudouridine synthase A [Geobacter metallireducens GS-15]
 gi|418068143|ref|ZP_12705458.1| tRNA pseudouridine synthase A [Geobacter metallireducens RCH3]
 gi|373557514|gb|EHP83923.1| tRNA pseudouridine synthase A [Geobacter metallireducens RCH3]
 gi|403377973|gb|ABB30848.2| tRNA pseudouridines 38,39,40 synthase [Geobacter metallireducens
           GS-15]
          Length = 244

 Score =  137 bits (344), Expect = 5e-30,   Method: Compositional matrix adjust.
 Identities = 82/203 (40%), Positives = 110/203 (54%), Gaps = 6/203 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +LV+ YDGT YAGWQ Q +  ++Q +VE+AL R+ K   E +R+  + RTD GVHA G V
Sbjct: 5   KLVLEYDGTNYAGWQIQPNGISVQQVVEEALARLLK---EPVRVHSSGRTDAGVHARGMV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A F T      + +    LN LLPPDI V E   A   F+ RF A  K Y Y I+     
Sbjct: 62  AAFTTAKGLP-MRAFSDGLNALLPPDIAVMEALEAPDGFNPRFDAAGKHYRYTIHRGERR 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
            P   HY +H+   L+   M + A + VG+HDF++F       R    V+ I   D+   
Sbjct: 121 SPLCRHYVWHARETLDLAAMEKGASHMVGEHDFASFRTAGCAAR--TTVRRIDAVDLALE 178

Query: 208 GALLQLEVEGSGFLYRQVRNMVN 230
           G LL ++V+GSGFL   VR MV 
Sbjct: 179 GDLLHIDVKGSGFLRNMVRIMVG 201


>gi|317055617|ref|YP_004104084.1| tRNA pseudouridine synthase A [Ruminococcus albus 7]
 gi|315447886|gb|ADU21450.1| tRNA pseudouridine synthase A [Ruminococcus albus 7]
          Length = 245

 Score =  137 bits (344), Expect = 5e-30,   Method: Compositional matrix adjust.
 Identities = 78/201 (38%), Positives = 111/201 (55%), Gaps = 6/201 (2%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           + + YDG+ Y GWQ Q++   +Q +VE A+ ++T    E++ + G SRTD GVHA   V 
Sbjct: 1   MTLAYDGSNYHGWQRQSNALAVQEVVEDAIFKLTG---ENVVVQGCSRTDAGVHAREYVL 57

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
            F      +    I   LN  LP DI V     A   FHAR+  K K Y Y ++N  + D
Sbjct: 58  SFGLELPIN-CRGIQLGLNSWLPDDISVIGCEEADEGFHARYMCKGKEYEYIVHNSRIKD 116

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
           PF  + A+ + Y ++  L+  AA+YFVG+HDF AF +    D+ +  V+ I+RFDV   G
Sbjct: 117 PFMRNTAFRNTYPIDEVLLDRAAKYFVGEHDFKAFCSTA-CDKEIT-VRKIYRFDVRREG 174

Query: 209 ALLQLEVEGSGFLYRQVRNMV 229
             +   V G+GFLY  VR MV
Sbjct: 175 DKVIFTVAGNGFLYNMVRIMV 195


>gi|407474680|ref|YP_006789080.1| tRNA pseudouridine synthase A [Clostridium acidurici 9a]
 gi|407051188|gb|AFS79233.1| tRNA pseudouridine synthase A [Clostridium acidurici 9a]
          Length = 246

 Score =  137 bits (344), Expect = 5e-30,   Method: Compositional matrix adjust.
 Identities = 77/200 (38%), Positives = 121/200 (60%), Gaps = 8/200 (4%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L I YDGT + GWQ Q +  +IQ  +E A+  +TK   E++ +VG+ RTD+ VHA+GQV
Sbjct: 7   KLTIEYDGTNFCGWQKQPNGQSIQQALEDAIYSITK---ENVNIVGSGRTDSKVHAFGQV 63

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVP-EFHARFSAKSKIYHYKIYNDAV 146
           A+F T  S    E    A+N  LP DI V++ S  VP +FH+R+ A  K Y Y IYND  
Sbjct: 64  ANFYTS-SKIPQEKFTNAINSKLPSDISVKD-SIEVPCDFHSRYGALGKEYKYIIYNDRT 121

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
             P   +Y+YH  Y+LN   M+ A E F G +DF  F++   + ++   +++I + ++ +
Sbjct: 122 RSPILRNYSYHVPYELNIGHMKNAIESFRGTYDFRGFMSTGSSVKS--TIRTINKAELNK 179

Query: 207 MGALLQLEVEGSGFLYRQVR 226
              ++++ ++G+GFLY  VR
Sbjct: 180 KDEIIEITLQGNGFLYNMVR 199


>gi|253579808|ref|ZP_04857076.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39B_FAA]
 gi|251848807|gb|EES76769.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39BFAA]
          Length = 246

 Score =  137 bits (344), Expect = 5e-30,   Method: Compositional matrix adjust.
 Identities = 76/198 (38%), Positives = 107/198 (54%), Gaps = 6/198 (3%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           LV+ YDGT Y GWQ Q +  T+Q ++   L   ++L  E +  +GASRTD GVHA G VA
Sbjct: 6   LVVAYDGTNYCGWQTQPNGITVQGVLNDTL---SELLGEKIETIGASRTDAGVHAMGNVA 62

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
            F T     G E I  ALN  LP DIR++      P+FH R+    K Y Y+I N     
Sbjct: 63  VFDTNTRIPG-EKISYALNQRLPEDIRIQLSEEVEPDFHPRYCDSEKTYEYRILNRKFPV 121

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
           P +  Y Y   YKL+   M+ A  Y +G+HDF++F   +   +    ++++   DV   G
Sbjct: 122 PTERLYTYFYHYKLDVDKMKAATSYLIGQHDFASFCGAKAQVKTT--IRTVTGIDVWRDG 179

Query: 209 ALLQLEVEGSGFLYRQVR 226
            ++ + V G+GFLY  VR
Sbjct: 180 DIVTIRVTGTGFLYNMVR 197


>gi|160881752|ref|YP_001560720.1| tRNA pseudouridine synthase A [Clostridium phytofermentans ISDg]
 gi|160430418|gb|ABX43981.1| tRNA pseudouridine synthase A [Clostridium phytofermentans ISDg]
          Length = 245

 Score =  137 bits (344), Expect = 5e-30,   Method: Compositional matrix adjust.
 Identities = 75/198 (37%), Positives = 112/198 (56%), Gaps = 6/198 (3%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L + YDGT Y GWQ Q +  TI+ ++ + L   TKL +E++ ++GASRTD GVHA+G VA
Sbjct: 6   LKVAYDGTNYCGWQVQPNAKTIEGVLNECL---TKLLKEEIVIIGASRTDAGVHAYGNVA 62

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
            F T  S    E +  ALN  LP DI ++       +FH R+    K Y Y+IYN     
Sbjct: 63  VFDTN-SRIPAEKLSYALNAHLPEDIVIQASMEVESDFHPRYCDTRKTYEYRIYNATFPL 121

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
           P    YA+   Y L+   MR+AA Y +G+HDF +F +   N +  +  ++I+   + +  
Sbjct: 122 PTNRRYAHFVYYDLDLEAMRKAASYLIGEHDFVSFCSA--NTQVKDTTRTIYDIQIEKER 179

Query: 209 ALLQLEVEGSGFLYRQVR 226
            L+ + ++G+GFLY  VR
Sbjct: 180 ELIVIRIKGNGFLYNMVR 197


>gi|164688053|ref|ZP_02212081.1| hypothetical protein CLOBAR_01698 [Clostridium bartlettii DSM
           16795]
 gi|164602466|gb|EDQ95931.1| tRNA pseudouridine synthase A [Clostridium bartlettii DSM 16795]
          Length = 245

 Score =  136 bits (343), Expect = 6e-30,   Method: Compositional matrix adjust.
 Identities = 74/202 (36%), Positives = 118/202 (58%), Gaps = 11/202 (5%)

Query: 28  RLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           ++V+ YDG+ + G+Q  + +  TIQ  +E  L   +++  E++ ++G+ RTD GVHA+GQ
Sbjct: 5   KMVVEYDGSNFKGFQKLKDNENTIQGKLESVL---SQMADENIEIIGSGRTDMGVHAYGQ 61

Query: 87  VAHFIT--PFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           V +F T  P S   L  +H  L   LP  I +REI      FH+R++AK K+Y YKI N+
Sbjct: 62  VVNFKTNSPLS---LNKMHKYLYEYLPQSIAIREIEEVDDRFHSRYNAKRKVYLYKIDNN 118

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
              +PF   Y  H   K++   MR  A+  VG+HDF++F + +   ++   V+ I+   +
Sbjct: 119 EYPNPFNRKYTCHVPKKIDLDKMRAVADVLVGEHDFTSFCSSRSKKKS--HVREIYSISI 176

Query: 205 IEMGALLQLEVEGSGFLYRQVR 226
            E   L+++ VEG+GFLY  VR
Sbjct: 177 NENNGLIEIYVEGNGFLYNMVR 198


>gi|452994614|emb|CCQ93719.1| tRNA pseudouridine synthase A [Clostridium ultunense Esp]
          Length = 256

 Score =  136 bits (343), Expect = 6e-30,   Method: Compositional matrix adjust.
 Identities = 80/205 (39%), Positives = 112/205 (54%), Gaps = 6/205 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           K  +++ YDGTRY G+Q Q++ PTIQ  +E+AL R   L +    + GA RTD  VHA G
Sbjct: 6   KMAMIVAYDGTRYYGFQRQSTLPTIQERLEEALFR---LHQRKTGVTGAGRTDARVHATG 62

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF+T       E    AL   LP DI++R        FHAR+SA  K Y Y+I    
Sbjct: 63  QVIHFMTDLRIPP-ERWPYALQAFLPEDIQIRAAYPVEDSFHARYSAVGKRYRYRIDRGK 121

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           + + F  +YA H  Y L    ++EA+ + +G+HDFSAF          N +++++   V+
Sbjct: 122 MRNLFTRNYALHYPYPLEIDKIKEASSFLLGRHDFSAFA--ASGSSVKNHIRTLYDIQVV 179

Query: 206 EMGALLQLEVEGSGFLYRQVRNMVN 230
           E+G  LQ    G GFLY  VR +V 
Sbjct: 180 EVGDELQFTFWGDGFLYNMVRILVG 204


>gi|229094864|ref|ZP_04225869.1| tRNA pseudouridine synthase A [Bacillus cereus Rock3-29]
 gi|229100941|ref|ZP_04231745.1| tRNA pseudouridine synthase A [Bacillus cereus Rock3-28]
 gi|229113818|ref|ZP_04243253.1| tRNA pseudouridine synthase A [Bacillus cereus Rock1-3]
 gi|228669689|gb|EEL25096.1| tRNA pseudouridine synthase A [Bacillus cereus Rock1-3]
 gi|228682520|gb|EEL36593.1| tRNA pseudouridine synthase A [Bacillus cereus Rock3-28]
 gi|228688607|gb|EEL42480.1| tRNA pseudouridine synthase A [Bacillus cereus Rock3-29]
          Length = 252

 Score =  136 bits (343), Expect = 6e-30,   Method: Compositional matrix adjust.
 Identities = 74/202 (36%), Positives = 115/202 (56%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 10  KCTVAYDGMHFCGYQIQPQHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 67

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  +A LN +LP DI +R++     EFHAR+  + K Y Y++      
Sbjct: 68  IHFDTPLSLEEWQWSNA-LNTMLPDDIVIRQVEKKTEEFHARYGVERKEYRYRVLLSKTA 126

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++IF  ++IE 
Sbjct: 127 DVFRRNYVYQYPYPLEINSIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIFEIELIEQ 184

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              L     G+GFLY  VR +V
Sbjct: 185 DDELIFRFVGNGFLYNMVRIIV 206


>gi|302390990|ref|YP_003826810.1| tRNA pseudouridine synthase A [Acetohalobium arabaticum DSM 5501]
 gi|302203067|gb|ADL11745.1| tRNA pseudouridine synthase A [Acetohalobium arabaticum DSM 5501]
          Length = 244

 Score =  136 bits (343), Expect = 6e-30,   Method: Compositional matrix adjust.
 Identities = 81/202 (40%), Positives = 117/202 (57%), Gaps = 6/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           + +I YDGT Y G+Q Q   PTIQ  +E++L  +TK   E  +++ A RTD GVHA  QV
Sbjct: 5   KAIIAYDGTNYYGFQHQPDVPTIQDELEESLRILTK---EKNKVIVAGRTDRGVHAQNQV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            +F T  S   LE+I  A N  LP DI ++E+     +FHAR+ A+ KIY Y+I N  + 
Sbjct: 62  INFKTE-SPIPLENIRFAWNNCLPNDILIKEVEDVNADFHARYDAEGKIYEYRILNQPLP 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
             F+ +Y YH   +L++  M EAAE  +G +DFS+F     N      V++I + +V + 
Sbjct: 121 SVFKRNYTYHIKEELDSAAMAEAAECLIGTYDFSSFQASGSN--VQTTVRTIQQAEVTQQ 178

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
             L+   +EG GFLY  VR +V
Sbjct: 179 DRLVIFRIEGDGFLYNMVRIIV 200


>gi|410454358|ref|ZP_11308297.1| tRNA pseudouridine synthase A [Bacillus bataviensis LMG 21833]
 gi|409932173|gb|EKN69140.1| tRNA pseudouridine synthase A [Bacillus bataviensis LMG 21833]
          Length = 246

 Score =  136 bits (343), Expect = 6e-30,   Method: Compositional matrix adjust.
 Identities = 76/204 (37%), Positives = 115/204 (56%), Gaps = 5/204 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDG+ ++G+Q Q +  T+Q ++E  L ++ K     ++++G+ RTD GVHA G
Sbjct: 3   RYKCIITYDGSGFSGYQVQPNKRTVQSVLEAVLAKMHK--GNPIKVLGSGRTDAGVHAKG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF +P      E    ALN +LP DI VR +      FHARF A  K Y Y ++  A
Sbjct: 61  QVIHFDSPLLIPE-ERWETALNSMLPEDISVRSVMKVESSFHARFDAVGKEYRYVLHLSA 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             DPFQ +YA    Y LN   M+ A++YF+G HDF++F + +      + +++I   D +
Sbjct: 120 QRDPFQRNYACRYPYPLNLEDMQAASKYFLGSHDFTSFCSAKTE--VADKIRTIEAIDFM 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
                L L   G GFLY  VR +V
Sbjct: 178 IEDDHLTLRFVGDGFLYNMVRILV 201


>gi|229074203|ref|ZP_04207249.1| tRNA pseudouridine synthase A [Bacillus cereus Rock4-18]
 gi|228708973|gb|EEL61100.1| tRNA pseudouridine synthase A [Bacillus cereus Rock4-18]
          Length = 252

 Score =  136 bits (343), Expect = 6e-30,   Method: Compositional matrix adjust.
 Identities = 74/202 (36%), Positives = 115/202 (56%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 10  KCTVAYDGMHFCGYQIQPQHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 67

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  +A LN +LP DI +R++     EFHAR+  + K Y Y++      
Sbjct: 68  IHFDTPLSLEEWQWSNA-LNTMLPDDIVIRQVEKKTEEFHARYGVERKEYRYRVLLSKTA 126

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++IF  ++IE 
Sbjct: 127 DVFRRNYVYQYPYPLEINSIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIFEIELIEQ 184

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              L     G+GFLY  VR +V
Sbjct: 185 DDELIFRFVGNGFLYNMVRIIV 206


>gi|407708090|ref|YP_006831675.1| phosphoribosylformylglycinamidine synthase 1 [Bacillus
           thuringiensis MC28]
 gi|407385775|gb|AFU16276.1| tRNA pseudouridine synthase A [Bacillus thuringiensis MC28]
          Length = 257

 Score =  136 bits (343), Expect = 7e-30,   Method: Compositional matrix adjust.
 Identities = 74/202 (36%), Positives = 115/202 (56%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 15  KCTVAYDGMHFCGYQIQPQHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 72

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  +A LN +LP DI +R++     EFHAR+  + K Y Y++      
Sbjct: 73  IHFDTPLSLEEWQWSNA-LNTMLPDDIVIRQVEKKTEEFHARYGVERKEYRYRVLLSKTA 131

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++IF  ++IE 
Sbjct: 132 DVFRRNYVYQYPYPLEINSIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIFEIELIEQ 189

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              L     G+GFLY  VR +V
Sbjct: 190 DDELIFRFVGNGFLYNMVRIIV 211


>gi|398813206|ref|ZP_10571908.1| pseudouridylate synthase I [Brevibacillus sp. BC25]
 gi|398039367|gb|EJL32505.1| pseudouridylate synthase I [Brevibacillus sp. BC25]
          Length = 244

 Score =  136 bits (343), Expect = 7e-30,   Method: Compositional matrix adjust.
 Identities = 79/204 (38%), Positives = 116/204 (56%), Gaps = 6/204 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + R V+ YDGT ++G+Q Q    T+Q  +E AL RVT    ED+++ G+ RTD GVHA G
Sbjct: 3   RLRCVLAYDGTDFSGFQVQPDQVTVQGEIEAALNRVTG---EDIQVFGSGRTDAGVHARG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF T  S   ++     LN  LP  I +R +      FHARF  + K Y Y I N+ 
Sbjct: 60  QVIHFDTS-SNIPMDKWRFVLNNQLPDSIVIRTVEEVDASFHARFDVQVKEYRYCIDNNP 118

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           V D F+H YA H  + L+   M++AA Y VG+HDF++F + +      + V++++   V 
Sbjct: 119 VADVFRHRYADHIRFPLDVDAMQQAAHYLVGEHDFTSFCSAKT--FVEDKVRTVYGLTVE 176

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           + G  + +   G+GFLY  VR +V
Sbjct: 177 KNGDEVWVTCRGNGFLYNMVRIIV 200


>gi|451982071|ref|ZP_21930405.1| tRNA pseudouridine synthase A [Nitrospina gracilis 3/211]
 gi|451760736|emb|CCQ91683.1| tRNA pseudouridine synthase A [Nitrospina gracilis 3/211]
          Length = 258

 Score =  136 bits (343), Expect = 7e-30,   Method: Compositional matrix adjust.
 Identities = 80/202 (39%), Positives = 116/202 (57%), Gaps = 6/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L++ Y+G++Y GWQ+Q +  TIQ ++EK L  +T    +   +VG+ RTD+GVHA GQV
Sbjct: 5   KLLLEYEGSQYHGWQYQPNGITIQEVLEKRLETITG---KKTPVVGSGRTDSGVHAEGQV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           AHF T  +    + +  ALN LLP DI VR +     +FHAR SAK KIY Y + N    
Sbjct: 62  AHFNTASNMTPRQFL-KALNSLLPHDIVVRAVEEVDSDFHARKSAKRKIYRYTLLNRDYP 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
              +   A++    L  T MR+AA + VGKH+F +F        A + V+ I    + + 
Sbjct: 121 SALRCRQAHYVAQPLKVTAMRKAARHLVGKHNFKSFQGA--GCEAKSAVREIHDLSIKKR 178

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
           G  ++  V+GSGFL   VRN+V
Sbjct: 179 GDWIEFSVDGSGFLKHMVRNLV 200


>gi|415886248|ref|ZP_11548071.1| tRNA pseudouridine synthase A [Bacillus methanolicus MGA3]
 gi|387588901|gb|EIJ81222.1| tRNA pseudouridine synthase A [Bacillus methanolicus MGA3]
          Length = 245

 Score =  136 bits (343), Expect = 7e-30,   Method: Compositional matrix adjust.
 Identities = 79/201 (39%), Positives = 113/201 (56%), Gaps = 5/201 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDG++++G+Q Q    TIQ  +E AL ++ K ER  +++  + RTD GVHA G
Sbjct: 3   RYKCTITYDGSQFSGYQIQPGMRTIQGEIEAALSKLHKGER--IKISASGRTDAGVHAKG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF +  +         ALN +LP DI V  +  A P FHARF A  K Y Y +Y   
Sbjct: 61  QVIHFDSALAIP-TAKWEIALNSVLPDDIAVIRVEKAAPNFHARFDAVGKEYRYFVYLSP 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             DPF+ HYAY   Y L+   M+EA +Y +G HDF++F + +      + V++I   +  
Sbjct: 120 KRDPFKRHYAYQFPYPLDYVAMKEALKYLIGTHDFTSFCSAKTEIE--DKVRTIEEIEFF 177

Query: 206 EMGALLQLEVEGSGFLYRQVR 226
           E G LL     G+GFLY  VR
Sbjct: 178 EEGDLLVFRFVGNGFLYNMVR 198


>gi|423381811|ref|ZP_17359094.1| tRNA pseudouridine synthase A 1 [Bacillus cereus BAG1O-2]
 gi|423439680|ref|ZP_17416586.1| tRNA pseudouridine synthase A 1 [Bacillus cereus BAG4X2-1]
 gi|423450163|ref|ZP_17427041.1| tRNA pseudouridine synthase A 1 [Bacillus cereus BAG5O-1]
 gi|423467937|ref|ZP_17444705.1| tRNA pseudouridine synthase A 1 [Bacillus cereus BAG6O-1]
 gi|423537337|ref|ZP_17513755.1| tRNA pseudouridine synthase A 1 [Bacillus cereus HuB2-9]
 gi|423543065|ref|ZP_17519453.1| tRNA pseudouridine synthase A 1 [Bacillus cereus HuB4-10]
 gi|423543629|ref|ZP_17519987.1| tRNA pseudouridine synthase A 1 [Bacillus cereus HuB5-5]
 gi|423620250|ref|ZP_17596081.1| tRNA pseudouridine synthase A 1 [Bacillus cereus VD115]
 gi|423626916|ref|ZP_17602691.1| tRNA pseudouridine synthase A 1 [Bacillus cereus VD148]
 gi|401126786|gb|EJQ34520.1| tRNA pseudouridine synthase A 1 [Bacillus cereus BAG5O-1]
 gi|401166765|gb|EJQ74065.1| tRNA pseudouridine synthase A 1 [Bacillus cereus HuB4-10]
 gi|401187794|gb|EJQ94866.1| tRNA pseudouridine synthase A 1 [Bacillus cereus HuB5-5]
 gi|401248810|gb|EJR55131.1| tRNA pseudouridine synthase A 1 [Bacillus cereus VD115]
 gi|401250111|gb|EJR56415.1| tRNA pseudouridine synthase A 1 [Bacillus cereus VD148]
 gi|401628437|gb|EJS46278.1| tRNA pseudouridine synthase A 1 [Bacillus cereus BAG1O-2]
 gi|402411804|gb|EJV44167.1| tRNA pseudouridine synthase A 1 [Bacillus cereus BAG6O-1]
 gi|402421861|gb|EJV54105.1| tRNA pseudouridine synthase A 1 [Bacillus cereus BAG4X2-1]
 gi|402459043|gb|EJV90781.1| tRNA pseudouridine synthase A 1 [Bacillus cereus HuB2-9]
          Length = 247

 Score =  136 bits (342), Expect = 7e-30,   Method: Compositional matrix adjust.
 Identities = 74/202 (36%), Positives = 115/202 (56%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 5   KCTVAYDGMHFCGYQIQPQHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  +A LN +LP DI +R++     EFHAR+  + K Y Y++      
Sbjct: 63  IHFDTPLSLEEWQWSNA-LNTMLPDDIVIRQVEKKTEEFHARYGVERKEYRYRVLLSKTA 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++IF  ++IE 
Sbjct: 122 DVFRRNYVYQYPYPLEINSIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIFEIELIEQ 179

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              L     G+GFLY  VR +V
Sbjct: 180 DDELIFRFVGNGFLYNMVRIIV 201


>gi|333980376|ref|YP_004518321.1| tRNA pseudouridine synthase A [Desulfotomaculum kuznetsovii DSM
           6115]
 gi|333823857|gb|AEG16520.1| tRNA pseudouridine synthase A [Desulfotomaculum kuznetsovii DSM
           6115]
          Length = 248

 Score =  136 bits (342), Expect = 7e-30,   Method: Compositional matrix adjust.
 Identities = 89/210 (42%), Positives = 113/210 (53%), Gaps = 16/210 (7%)

Query: 28  RLVIGYDGTRYAGWQFQ--TSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +L I YDGT Y G+Q Q  T   TIQ ++EK L R+   E   +R++GA RTD GVHA G
Sbjct: 5   KLTIAYDGTNYHGFQEQRGTGLVTIQGVLEKCLRRLVGRE---IRVIGAGRTDAGVHARG 61

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV +F         E I  ALNG+LP DI   +     PEFHAR+SA +K Y Y IYN  
Sbjct: 62  QVVNFDACGWSIPTERIVLALNGMLPRDIAALKAEEVGPEFHARYSALAKTYRYTIYNSR 121

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVK----SIFR 201
           +  PF   Y++     L+   M  AA+  VG HDF++F        A +PVK    ++F 
Sbjct: 122 IPSPFWRLYSHFVPRPLDVQAMARAAQRLVGTHDFASF------QAAGSPVKHTVRTLFS 175

Query: 202 FDVIEMGA-LLQLEVEGSGFLYRQVRNMVN 230
            DV   G  L+ L   G GFLY  VR MV 
Sbjct: 176 ADVCREGKELVHLTFRGDGFLYNMVRIMVG 205


>gi|330444180|ref|YP_004377166.1| tRNA pseudouridine synthase A [Chlamydophila pecorum E58]
 gi|328807290|gb|AEB41463.1| tRNA pseudouridine synthase A [Chlamydophila pecorum E58]
          Length = 267

 Score =  136 bits (342), Expect = 7e-30,   Method: Compositional matrix adjust.
 Identities = 74/207 (35%), Positives = 119/207 (57%), Gaps = 9/207 (4%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           K  L++ Y GT YAGWQ Q    TIQ ++E   + +       + +V + RTD+GVHA+G
Sbjct: 3   KIVLLLAYQGTAYAGWQRQPQHLTIQEVLETLFMPIL---HSRVPMVASGRTDSGVHAYG 59

Query: 86  QVAHFITP---FSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIY 142
           QV HF  P    + D  + +   LN  LP DI VR+I+     FHAR+ A +K YHY + 
Sbjct: 60  QVVHFSLPDHPLTSDPCK-LKKLLNARLPKDIVVRDIALTDASFHARYCAIAKEYHYTLS 118

Query: 143 NDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRF 202
            +    P+Q +++Y   +++   LM + A+Y +G HDF++F N+ R   +   ++++++ 
Sbjct: 119 KNIKPLPWQRNFSYSPPHRIRADLMHQGAQYLIGTHDFASFANLGREYTST--IRTLYKV 176

Query: 203 DVIEMGALLQLEVEGSGFLYRQVRNMV 229
            + E    L L  +G+GFLY+ VRN+V
Sbjct: 177 AIEETEHTLTLIFKGNGFLYKMVRNLV 203


>gi|374307823|ref|YP_005054254.1| tRNA pseudouridine synthase A [Filifactor alocis ATCC 35896]
 gi|291166165|gb|EFE28211.1| tRNA pseudouridine synthase A [Filifactor alocis ATCC 35896]
          Length = 244

 Score =  136 bits (342), Expect = 8e-30,   Method: Compositional matrix adjust.
 Identities = 72/198 (36%), Positives = 117/198 (59%), Gaps = 6/198 (3%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L I Y GT Y GWQ Q +  +IQ  +E+A+  VT    + + L G+ RTD+GVHA GQVA
Sbjct: 7   LKIQYIGTNYCGWQKQNNGKSIQQEIERAICEVTG---KQVNLTGSGRTDSGVHALGQVA 63

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +F+   +   +E I  A+N  LP DIR+ E  A    FHAR+S+K K Y Y+I  + +  
Sbjct: 64  NFVIDTTIP-VEKIKYAINYYLPDDIRIIESKAVEDSFHARYSSKKKTYCYRINMNEIES 122

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
           PF+ + +Y    +L+ + M+E +++ +G+HDF+AF +          V++I+  ++  + 
Sbjct: 123 PFEKNRSYFVGKELDLSKMKEQSKFLMGEHDFAAFQS--EGSSVKTTVRTIYSLEINCIN 180

Query: 209 ALLQLEVEGSGFLYRQVR 226
            + ++ + G+GFLY  VR
Sbjct: 181 NIAEIHIIGNGFLYNMVR 198


>gi|229003158|ref|ZP_04161004.1| tRNA pseudouridine synthase A [Bacillus mycoides Rock1-4]
 gi|228758121|gb|EEM07320.1| tRNA pseudouridine synthase A [Bacillus mycoides Rock1-4]
          Length = 252

 Score =  136 bits (342), Expect = 8e-30,   Method: Compositional matrix adjust.
 Identities = 73/202 (36%), Positives = 117/202 (57%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 10  KCTVAYDGINFCGYQIQPQHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHARGQV 67

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  + ++A LN +LP DI VR++   + +FHAR+  + K Y Y++      
Sbjct: 68  IHFDTPLSLEEWQWMNA-LNTMLPDDIVVRQVEKKIEDFHARYGVERKEYRYRVLLSKNA 126

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++I+  D++E 
Sbjct: 127 DVFRRNYVYQYPYPLEIESIRKAIPYFIGTHDFTSFCSTKTDKK--DKVRTIYEIDLMEQ 184

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              L     G+GFLY  VR +V
Sbjct: 185 DDELIFRFVGNGFLYNMVRIIV 206


>gi|379012659|ref|YP_005270471.1| tRNA pseudouridylate synthase A [Acetobacterium woodii DSM 1030]
 gi|375303448|gb|AFA49582.1| tRNA pseudouridylate synthase A [Acetobacterium woodii DSM 1030]
          Length = 246

 Score =  136 bits (342), Expect = 8e-30,   Method: Compositional matrix adjust.
 Identities = 82/206 (39%), Positives = 110/206 (53%), Gaps = 6/206 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L+I Y GT Y GWQ Q +  TIQ    K +  + +L  E + L G+ RTD GVHA GQ 
Sbjct: 7   KLIISYRGTHYCGWQIQPNGVTIQA---KIIQGIRELTGETVNLNGSGRTDAGVHAVGQC 63

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A+F T  +    +    ALN  LP DIRV         FH+RF+AK K Y YKIY + V 
Sbjct: 64  ANFHTSSTIPA-DKFFRALNTRLPADIRVISSEECDLAFHSRFNAKGKSYVYKIYENPVA 122

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
            PF    A+H   KL+   M+EAA Y +G+HDF AF  +         +++I      + 
Sbjct: 123 SPFVFDLAFHVQRKLDWKAMKEAAGYLIGEHDFKAF--MASGSAVKTTIRTIEEISFEKN 180

Query: 208 GALLQLEVEGSGFLYRQVRNMVNHSY 233
           G L ++  +G+GFLY  VR MV   Y
Sbjct: 181 GELREITFKGNGFLYNMVRIMVGTLY 206


>gi|319760619|ref|YP_004124557.1| tRNA pseudouridine synthase A [Candidatus Blochmannia vafer str.
           BVAF]
 gi|318039333|gb|ADV33883.1| tRNA pseudouridine synthase A [Candidatus Blochmannia vafer str.
           BVAF]
          Length = 255

 Score =  136 bits (342), Expect = 9e-30,   Method: Compositional matrix adjust.
 Identities = 77/201 (38%), Positives = 114/201 (56%), Gaps = 6/201 (2%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L I YDG+RY GWQ Q +  ++Q  VE AL  VT    E + +  A RTD+GVHA GQV 
Sbjct: 6   LGIEYDGSRYCGWQKQKNGISVQDCVENALNIVTA---ESVSVFCAGRTDSGVHALGQVV 62

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           HF T   Y    +    +N  LP  I +R +S    +FHARFSA S+ Y+Y IYND +  
Sbjct: 63  HFETDVKYSK-SAWTFGVNRYLPRSICIRWVSLMKQDFHARFSAVSRRYYYYIYNDKIRS 121

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
                  +H    L+   M  AA+Y +G++DFSAF +     ++ +  ++++   VI +G
Sbjct: 122 AILFQKTWHYTKLLDVCKMSRAAQYLLGENDFSAFRSA--GCQSYSRCRNLYHLRVIRIG 179

Query: 209 ALLQLEVEGSGFLYRQVRNMV 229
             + ++++ + FLYR VRN+V
Sbjct: 180 QCVIIDIQANSFLYRMVRNIV 200


>gi|152973988|ref|YP_001373505.1| tRNA pseudouridine synthase A [Bacillus cytotoxicus NVH 391-98]
 gi|152022740|gb|ABS20510.1| tRNA pseudouridine synthase A [Bacillus cytotoxicus NVH 391-98]
          Length = 247

 Score =  135 bits (341), Expect = 9e-30,   Method: Compositional matrix adjust.
 Identities = 74/202 (36%), Positives = 115/202 (56%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 5   KCTVAYDGINFCGYQIQPQHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  +A LN LLP DI + ++     EFHAR+    K Y Y++      
Sbjct: 63  IHFDTPLSLEEWQWGNA-LNTLLPDDIVIVQVEKKTEEFHARYGVVKKEYRYRVLLSKTA 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y ++  L+R+A  YF+G HDF++F + + + +  + V++I+  D+ E 
Sbjct: 122 DVFRRNYVYQYPYPIDIQLIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIDLFEQ 179

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
           G  L     G+GFLY  VR +V
Sbjct: 180 GDELVFRFVGNGFLYNMVRIIV 201


>gi|317495541|ref|ZP_07953909.1| tRNA pseudouridine synthase A [Gemella morbillorum M424]
 gi|316914355|gb|EFV35833.1| tRNA pseudouridine synthase A [Gemella morbillorum M424]
          Length = 265

 Score =  135 bits (341), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 74/204 (36%), Positives = 119/204 (58%), Gaps = 9/204 (4%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L+  YDG+ Y G+Q Q +  T+Q  +EKAL    K+ ++D+R+  + RTD+GVHA+GQV 
Sbjct: 5   LLCRYDGSGYHGFQIQPNNNTVQEEIEKAL---KKINKKDIRVYMSGRTDSGVHAYGQVL 61

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           HF T  +    E+   ALN  LP DIR+  ++ +  +FH R+++  K YHYK+Y    +D
Sbjct: 62  HFDTELNIPN-EAWKKALNANLPADIRIFGVTTSNEDFHVRYNSTRKTYHYKLYIGQNVD 120

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
           PF  +Y     Y  N    ++A  YF+G+HDFS+F    +N    + ++ I+ F++    
Sbjct: 121 PFLLNYVGQHKYNFNFEKAQKALNYFIGEHDFSSFC--SKNSSVEDKIREIYYFNMYYDK 178

Query: 209 A---LLQLEVEGSGFLYRQVRNMV 229
               ++  +V G+GFLY  VR ++
Sbjct: 179 TNPRVINFDVCGNGFLYNMVRIII 202


>gi|346312869|ref|ZP_08854404.1| tRNA pseudouridine synthase A [Erysipelotrichaceae bacterium
           2_2_44A]
 gi|345906020|gb|EGX75754.1| tRNA pseudouridine synthase A [Erysipelotrichaceae bacterium
           2_2_44A]
          Length = 252

 Score =  135 bits (341), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 79/201 (39%), Positives = 117/201 (58%), Gaps = 6/201 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++++++ YDGT Y GWQ QT+  +IQ  +E A+    K+E   +R+  + RTD  VHA G
Sbjct: 3   RYKVILSYDGTAYGGWQRQTNTHSIQQEIEAAM---EKIEGSFIRITASGRTDAHVHALG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF +       E+   ALN LLP DIR++++     +FHARF A SK Y Y I  D 
Sbjct: 60  QVFHFDSAKDL-APENWRRALNSLLPHDIRIQDVCLVEDDFHARFHAVSKRYDYLITTD- 117

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           V +PF +HY       L+   M E A  F+G HDF++F + + + R  + VK+I R D++
Sbjct: 118 VNNPFYYHYMGKDRKVLDVKRMSECARVFLGTHDFTSFTSSKLDPRK-SKVKTITRLDIV 176

Query: 206 EMGALLQLEVEGSGFLYRQVR 226
           +    ++L  EG+GFL   VR
Sbjct: 177 QEEHAVRLVFEGNGFLRYMVR 197


>gi|218895277|ref|YP_002443688.1| tRNA pseudouridine synthase A [Bacillus cereus G9842]
 gi|218542262|gb|ACK94656.1| tRNA pseudouridine synthase A [Bacillus cereus G9842]
          Length = 252

 Score =  135 bits (341), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 74/202 (36%), Positives = 114/202 (56%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  I YDG  + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 10  KCTIAYDGMHFCGYQIQPKHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 67

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  + ALN +LP DI +R +     EFHAR+  + K Y Y++      
Sbjct: 68  IHFDTPLSLEEWQ-WNNALNTMLPDDIVIRRVEKKTEEFHARYGVEKKEYRYRVLLSKTA 126

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++I+  ++IE 
Sbjct: 127 DVFRRNYVYQYPYPLEINSIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 184

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              L     G+GFLY  VR +V
Sbjct: 185 DDELIFRFVGNGFLYNMVRIIV 206


>gi|408355518|ref|YP_006844049.1| tRNA pseudouridine synthase A [Amphibacillus xylanus NBRC 15112]
 gi|407726289|dbj|BAM46287.1| tRNA pseudouridine synthase A [Amphibacillus xylanus NBRC 15112]
          Length = 248

 Score =  135 bits (341), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 77/206 (37%), Positives = 115/206 (55%), Gaps = 6/206 (2%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
            ++  +I YDG+ Y+G+Q Q +  TIQ ++E AL ++ K   E +++  + RTD GVHA+
Sbjct: 1   MRYLAIISYDGSNYSGYQIQPNQLTIQAVIEAALTKMHK--GEPVKITASGRTDAGVHAY 58

Query: 85  GQVAHFITPFSYDGLESI-HAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYN 143
           GQV HF +    D  ES    ALN LLP DI V ++      FHARF A  K Y Y I N
Sbjct: 59  GQVIHFDSEL--DIPESNWKKALNSLLPGDIVVLDVKQVSENFHARFDAIKKTYIYTILN 116

Query: 144 DAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFD 203
            A  +PF+ +Y  H   +LN  LM +A +  +G+HDF+AF       +  + +++I+   
Sbjct: 117 SADANPFEINYCAHVKERLNVDLMNQALQDLIGEHDFTAFCAANSYVKG-DKIRTIYHAS 175

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
              +   +   V G+GFLY  VR +V
Sbjct: 176 CQRVNNKVVFSVTGNGFLYNMVRIIV 201


>gi|150392126|ref|YP_001322175.1| tRNA pseudouridine synthase A [Alkaliphilus metalliredigens QYMF]
 gi|149951988|gb|ABR50516.1| tRNA pseudouridine synthase A [Alkaliphilus metalliredigens QYMF]
          Length = 255

 Score =  135 bits (341), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 80/199 (40%), Positives = 111/199 (55%), Gaps = 6/199 (3%)

Query: 31  IGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVAHF 90
           I YDGT Y+GWQ Q + P+IQ  + KAL +VT    E++   G+ RTD GVHA GQVA F
Sbjct: 8   IEYDGTNYSGWQIQQNAPSIQEEIAKALKKVTG---EEITTHGSGRTDAGVHAQGQVASF 64

Query: 91  ITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDPF 150
               S    E I  ALNG LP DI + E      +FHAR+SA  K Y Y I N+      
Sbjct: 65  -QLHSKIPAERISFALNGKLPRDITILEAKEMPEDFHARYSAIGKRYGYCIMNNTHGSAL 123

Query: 151 QHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMGAL 210
             +Y YH  YKL+   M++A+E  +G HDF  F  +    +  + V+ I   +    G+ 
Sbjct: 124 LRNYCYHVPYKLDLQKMKQASETLLGTHDFKGF--MASGSQVKSTVRRIDEINFDTQGSQ 181

Query: 211 LQLEVEGSGFLYRQVRNMV 229
           + + ++G+GFLY+ VR +V
Sbjct: 182 IWITMQGNGFLYKMVRIIV 200


>gi|339634773|ref|YP_004726414.1| tRNA pseudouridine synthase A [Weissella koreensis KACC 15510]
 gi|420160761|ref|ZP_14667533.1| pseudouridylate synthase [Weissella koreensis KCTC 3621]
 gi|338854569|gb|AEJ23735.1| tRNA pseudouridine synthase A [Weissella koreensis KACC 15510]
 gi|394746053|gb|EJF34858.1| pseudouridylate synthase [Weissella koreensis KCTC 3621]
          Length = 249

 Score =  135 bits (341), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 122/206 (59%), Gaps = 5/206 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++R ++ YDGT ++GWQ Q S  T+Q  +EKA+ R+ K   + +R+ G+ RTD GVHA G
Sbjct: 3   RYRAIVAYDGTDFSGWQVQPSKRTVQGELEKAVNRMAKNPEQPIRVQGSGRTDAGVHALG 62

Query: 86  QVAHFITPFSYDGLES-IHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           QVAHF  PF  D  ES +   L  +LP DI ++++     +FHA++SA +K Y Y++ N 
Sbjct: 63  QVAHFDLPF--DIPESGVRKGLATMLPFDIEIKKVEKVDADFHAQYSAHTKTYQYRLSNR 120

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQ-RNDRALNPVKSIFRFD 203
           A  DPF+ +Y  +   +++ + +  A   ++G+HD+ +F     +    +  V ++   +
Sbjct: 121 AFRDPFKRNYTGYWPRRIDPSKIEMAINDYLGEHDWQSFAASGFQAKTTIRTVTAVKFMN 180

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
            +E   L+  E  G+GFLY Q+R MV
Sbjct: 181 DVEHEELI-FEFTGTGFLYNQIRIMV 205


>gi|91200879|emb|CAJ73934.1| strongly similar to tRNA pseudouridine synthase I [Candidatus
           Kuenenia stuttgartiensis]
          Length = 244

 Score =  135 bits (341), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 73/202 (36%), Positives = 120/202 (59%), Gaps = 6/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           RL I Y+GT YAGWQ+Q +  ++Q  +  A+  V    RE++ + GA RTD GVHA GQV
Sbjct: 5   RLTIEYEGTNYAGWQWQKNAISVQETLTHAVRTVI---REEVEIHGAGRTDAGVHALGQV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A+F T +S    + +  A+N  LP DI +++++     FHAR+SA SK+Y Y + ND + 
Sbjct: 62  ANFKT-YSAIPAKQLLRAINFHLPQDITIKDVADMEEGFHARYSATSKVYRYTVLNDWLR 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
                ++ Y   + L+ + M  AA+Y +G HDF++F     +++  + +++I   ++ + 
Sbjct: 121 TSLNRNFCYVYGFPLDLSKMMTAAQYLIGTHDFTSFTTKALDNK--DRIRTIKNLEIQKE 178

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
           G  +   VE +GFLY+ VR +V
Sbjct: 179 GKYIYFVVEANGFLYKMVRTIV 200


>gi|402310991|ref|ZP_10829947.1| tRNA pseudouridine(38-40) synthase [Eubacterium sp. AS15]
 gi|400366495|gb|EJP19527.1| tRNA pseudouridine(38-40) synthase [Eubacterium sp. AS15]
          Length = 245

 Score =  135 bits (340), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 73/200 (36%), Positives = 113/200 (56%), Gaps = 6/200 (3%)

Query: 31  IGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVAHF 90
           I YDGT Y+GWQ Q +  +IQ  +E A   ++ +  E++ ++ + RTD GVHA  Q+A+F
Sbjct: 8   ISYDGTNYSGWQRQKNAISIQEKIEDA---ISLICNEEINVIASGRTDAGVHALSQIANF 64

Query: 91  ITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDPF 150
            T    D  +    A+N  LP DIR+        +F+ARFSAK K Y Y I N  + +PF
Sbjct: 65  NTSSRIDA-KKFAKAINTKLPDDIRILSSKEVDEDFNARFSAKKKTYVYHILNREIKNPF 123

Query: 151 QHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM-GA 209
              Y+ H   KL+  LM+  +   +G HDF++F   + N+   N +K+I+  D++++   
Sbjct: 124 WDRYSMHINRKLDLELMKYNSNMLIGTHDFTSFYTYEENNPK-NTIKTIYSSDIVKIYED 182

Query: 210 LLQLEVEGSGFLYRQVRNMV 229
           +L   + G GFLY  VR +V
Sbjct: 183 ILTFSITGDGFLYNMVRIIV 202


>gi|212637986|ref|YP_002314506.1| Pseudouridylate synthase I [Anoxybacillus flavithermus WK1]
 gi|226708641|sp|B7GJ99.1|TRUA_ANOFW RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|212559466|gb|ACJ32521.1| Pseudouridylate synthase I [Anoxybacillus flavithermus WK1]
          Length = 246

 Score =  135 bits (340), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 78/202 (38%), Positives = 114/202 (56%), Gaps = 6/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  I YDGT +AG+Q Q    T+Q  +E+AL  + K   + +R+  + RTD  VHA+GQV
Sbjct: 5   KCTIAYDGTNFAGYQIQQQKRTVQGELERALSIIHK--GQFVRVYASGRTDATVHAYGQV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP +    E    ALN LLP D+ V+E S     FHARFS K K Y Y+++     
Sbjct: 63  IHFDTPLTIPD-ERWPKALNALLPDDVIVKEASEVPSSFHARFSVKKKEYRYRVWIGE-K 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           + F  HY YH  Y ++   M EA  Y +G HDF++F + +      + V++I+  +V++ 
Sbjct: 121 NVFLRHYVYHHPYDVSVPAMNEALRYLIGTHDFTSFCSAK--TEVDDKVRTIYEAEVVQE 178

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
           G  L   + G+GFLY  VR +V
Sbjct: 179 GEELIFRLVGNGFLYNMVRIIV 200


>gi|374339101|ref|YP_005095837.1| pseudouridylate synthase I [Marinitoga piezophila KA3]
 gi|372100635|gb|AEX84539.1| pseudouridylate synthase I [Marinitoga piezophila KA3]
          Length = 244

 Score =  135 bits (340), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 81/201 (40%), Positives = 114/201 (56%), Gaps = 7/201 (3%)

Query: 30  VIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVAH 89
           ++ YDGT++ G+Q Q    T+Q   EK L R+ K   + +   GA RTDTGVH +GQV  
Sbjct: 6   IVAYDGTKFNGFQGQPKVRTVQGEFEKVLKRIFK---QKVISWGAGRTDTGVHGYGQVIA 62

Query: 90  FITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDP 149
           F  P     LE+I  ALN  LP DI VR++     +F  R  A  +IYHY IY +   + 
Sbjct: 63  FDVPNERMTLENIKDALNANLPEDIYVRKVLKVRDKFSPRHEATKRIYHYFIYQNDEPNI 122

Query: 150 FQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM-G 208
           F     +   Y LN   MR+AA+Y  G+HDF+ F     +DR  NPV++I+R  +++M  
Sbjct: 123 FLRDRVWWFPYDLNIEKMRKAAKYLEGEHDFTTF-KTGNDDR--NPVRTIYRIRILKMRN 179

Query: 209 ALLQLEVEGSGFLYRQVRNMV 229
            ++ + VEG  FL R VRN+V
Sbjct: 180 NIILIRVEGHSFLRRMVRNIV 200


>gi|423387372|ref|ZP_17364626.1| tRNA pseudouridine synthase A 1 [Bacillus cereus BAG1X1-2]
 gi|423526560|ref|ZP_17503005.1| tRNA pseudouridine synthase A 1 [Bacillus cereus HuB1-1]
 gi|401628955|gb|EJS46783.1| tRNA pseudouridine synthase A 1 [Bacillus cereus BAG1X1-2]
 gi|402455600|gb|EJV87381.1| tRNA pseudouridine synthase A 1 [Bacillus cereus HuB1-1]
          Length = 247

 Score =  135 bits (340), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 73/202 (36%), Positives = 115/202 (56%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 5   KCTVAYDGMHFCGYQIQPKHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  +A LN +LP DI +R++     EFHAR+  + K Y Y++      
Sbjct: 63  IHFDTPLSLEEWQWSNA-LNTMLPDDIVIRQVEKKTEEFHARYGVEKKEYRYRVLLSKTA 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++I+  ++IE 
Sbjct: 122 DVFRRNYVYQYPYPLEIKKIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 179

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              L     G+GFLY  VR +V
Sbjct: 180 DDELIFRFVGNGFLYNMVRIIV 201


>gi|423602329|ref|ZP_17578329.1| tRNA pseudouridine synthase A 1 [Bacillus cereus VD078]
 gi|423665345|ref|ZP_17640484.1| tRNA pseudouridine synthase A 1 [Bacillus cereus VDM022]
 gi|401225868|gb|EJR32412.1| tRNA pseudouridine synthase A 1 [Bacillus cereus VD078]
 gi|401290252|gb|EJR95947.1| tRNA pseudouridine synthase A 1 [Bacillus cereus VDM022]
          Length = 247

 Score =  135 bits (340), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 73/202 (36%), Positives = 115/202 (56%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 5   KCTVAYDGIHFCGYQIQPQHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  +A LN +LP DI +R++     EFHAR+  + K Y Y++      
Sbjct: 63  IHFDTPLSLEEWQWSNA-LNTMLPDDIIIRQVEKKTEEFHARYGVEKKEYRYRVLLSKTA 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++I+  ++IE 
Sbjct: 122 DVFRRNYVYQYPYPLEINSIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 179

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              L     G+GFLY  VR +V
Sbjct: 180 DDELIFRFVGNGFLYNMVRIIV 201


>gi|339498019|ref|ZP_08658995.1| tRNA pseudouridine synthase A [Leuconostoc pseudomesenteroides KCTC
           3652]
          Length = 256

 Score =  135 bits (340), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 77/211 (36%), Positives = 119/211 (56%), Gaps = 10/211 (4%)

Query: 26  KWRLVIGYDGTRYAGWQFQT-----SPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTG 80
           +++ ++ YDGT + G+Q QT     S  T+Q  + K + ++ K  +  +++VGASRTDTG
Sbjct: 3   RYKAIVAYDGTDFFGFQLQTKNGVESARTVQGELNKVVNQMAKKPQPPIKVVGASRTDTG 62

Query: 81  VHAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYK 140
           VHA+GQV HF  P+     ++    LN LLP D+ V+ ++    +FHARF+  +K Y Y+
Sbjct: 63  VHAFGQVVHFDFPYDI-ASDNFRKGLNTLLPRDVLVKSVTRVSDDFHARFNTHAKRYIYR 121

Query: 141 IYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIF 200
           I      DPF+ HY  H  + L+   M+ A   F+G+HDF++F      +     V+ I 
Sbjct: 122 ISTLDYTDPFKRHYTGHFHWHLDVDRMKSALPDFIGEHDFASFA--ASGNETATTVRRIT 179

Query: 201 RFDVIEMGA--LLQLEVEGSGFLYRQVRNMV 229
           R ++ E      L L  EG+ FLY Q+R MV
Sbjct: 180 RVELTEKAEEHELVLVFEGNAFLYNQIRIMV 210


>gi|229009651|ref|ZP_04166877.1| tRNA pseudouridine synthase A [Bacillus mycoides DSM 2048]
 gi|229131150|ref|ZP_04260062.1| tRNA pseudouridine synthase A [Bacillus cereus BDRD-ST196]
 gi|229165130|ref|ZP_04292925.1| tRNA pseudouridine synthase A [Bacillus cereus AH621]
 gi|228618393|gb|EEK75423.1| tRNA pseudouridine synthase A [Bacillus cereus AH621]
 gi|228652363|gb|EEL08288.1| tRNA pseudouridine synthase A [Bacillus cereus BDRD-ST196]
 gi|228751673|gb|EEM01473.1| tRNA pseudouridine synthase A [Bacillus mycoides DSM 2048]
          Length = 252

 Score =  135 bits (340), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 73/202 (36%), Positives = 115/202 (56%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 10  KCTVAYDGIHFCGYQIQPQHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 67

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  +A LN +LP DI +R++     EFHAR+  + K Y Y++      
Sbjct: 68  IHFDTPLSLEEWQWSNA-LNTMLPDDIIIRQVEKKTEEFHARYGVEKKEYRYRVLLSKTA 126

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++I+  ++IE 
Sbjct: 127 DVFRRNYVYQYPYPLEINSIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 184

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              L     G+GFLY  VR +V
Sbjct: 185 DDELIFRFVGNGFLYNMVRIIV 206


>gi|423485441|ref|ZP_17462123.1| tRNA pseudouridine synthase A 1 [Bacillus cereus BtB2-4]
 gi|423491166|ref|ZP_17467810.1| tRNA pseudouridine synthase A 1 [Bacillus cereus CER057]
 gi|423502038|ref|ZP_17478655.1| tRNA pseudouridine synthase A 1 [Bacillus cereus CER074]
 gi|423526356|ref|ZP_17502805.1| tRNA pseudouridine synthase A 1 [Bacillus cereus HuA4-10]
 gi|423556862|ref|ZP_17533165.1| tRNA pseudouridine synthase A 1 [Bacillus cereus MC67]
 gi|423597031|ref|ZP_17573041.1| tRNA pseudouridine synthase A 1 [Bacillus cereus VD048]
 gi|423671591|ref|ZP_17646595.1| tRNA pseudouridine synthase A 1 [Bacillus cereus VDM034]
 gi|423672605|ref|ZP_17647544.1| tRNA pseudouridine synthase A 1 [Bacillus cereus VDM062]
 gi|401151432|gb|EJQ58883.1| tRNA pseudouridine synthase A 1 [Bacillus cereus CER074]
 gi|401162091|gb|EJQ69450.1| tRNA pseudouridine synthase A 1 [Bacillus cereus CER057]
 gi|401163406|gb|EJQ70752.1| tRNA pseudouridine synthase A 1 [Bacillus cereus HuA4-10]
 gi|401194177|gb|EJR01169.1| tRNA pseudouridine synthase A 1 [Bacillus cereus MC67]
 gi|401218208|gb|EJR24892.1| tRNA pseudouridine synthase A 1 [Bacillus cereus VD048]
 gi|401291980|gb|EJR97645.1| tRNA pseudouridine synthase A 1 [Bacillus cereus VDM034]
 gi|401311465|gb|EJS16760.1| tRNA pseudouridine synthase A 1 [Bacillus cereus VDM062]
 gi|402441632|gb|EJV73582.1| tRNA pseudouridine synthase A 1 [Bacillus cereus BtB2-4]
          Length = 247

 Score =  135 bits (340), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 73/202 (36%), Positives = 115/202 (56%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 5   KCTVAYDGIHFCGYQIQPQHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  +A LN +LP DI +R++     EFHAR+  + K Y Y++      
Sbjct: 63  IHFDTPLSLEEWQWSNA-LNTMLPDDIIIRQVEKKTEEFHARYGVEKKEYRYRVLLSKTA 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++I+  ++IE 
Sbjct: 122 DVFRRNYVYQYPYPLEINSIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 179

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              L     G+GFLY  VR +V
Sbjct: 180 DDELIFRFVGNGFLYNMVRIIV 201


>gi|160934132|ref|ZP_02081519.1| hypothetical protein CLOLEP_02995 [Clostridium leptum DSM 753]
 gi|156866805|gb|EDO60177.1| tRNA pseudouridine synthase A [Clostridium leptum DSM 753]
          Length = 251

 Score =  135 bits (340), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 79/201 (39%), Positives = 111/201 (55%), Gaps = 5/201 (2%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L I YDG  Y GWQ Q +  ++Q + + AL +V     +D  + G SRTD+GVHA  Q  
Sbjct: 8   LTIAYDGRAYHGWQIQENALSVQEVFQGALRQVIG---DDFDVKGCSRTDSGVHA-NQYC 63

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
             +        E + AALN  LP D+ V+   +   +FHAR+S K K Y Y I+ND V +
Sbjct: 64  ISLKTGHRIPCERLVAALNRFLPMDMAVKGCRSVSLDFHARYSCKGKEYQYLIWNDPVRN 123

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
           PF    A+H  Y L+T ++ +AA+ FVGKHDF++F  +   +R  N  + +    V   G
Sbjct: 124 PFLDGRAFHYWYPLDTDMLNQAAQAFVGKHDFTSFCTLDHRERD-NMERMVKCCSVSREG 182

Query: 209 ALLQLEVEGSGFLYRQVRNMV 229
           +L+   VE  GFLY  VR MV
Sbjct: 183 SLVTFRVEADGFLYNMVRIMV 203


>gi|166030569|ref|ZP_02233398.1| hypothetical protein DORFOR_00232 [Dorea formicigenerans ATCC
           27755]
 gi|346308968|ref|ZP_08851072.1| tRNA pseudouridine synthase A [Dorea formicigenerans 4_6_53AFAA]
 gi|166029571|gb|EDR48328.1| tRNA pseudouridine synthase A [Dorea formicigenerans ATCC 27755]
 gi|345901517|gb|EGX71316.1| tRNA pseudouridine synthase A [Dorea formicigenerans 4_6_53AFAA]
          Length = 244

 Score =  135 bits (340), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 80/204 (39%), Positives = 114/204 (55%), Gaps = 8/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQFQ-TSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDGTRY GWQ Q T+  TIQ I+E +   + KL    +R+ G+ RTD GVHA G
Sbjct: 4   YKLTISYDGTRYQGWQRQATTDNTIQHILEWS---IGKLVGYRVRVDGSGRTDAGVHARG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA       YD ++ +  ++N  LP DIR+ ++      FHAR SAK K Y Y I    
Sbjct: 61  QVASVQLSKLYD-VKELKDSINRYLPEDIRIMKVELMKNGFHARKSAKGKKYEYYIDCRE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             D F   Y YH  +KL+   MREAA+Y +G  +F++F +   N    +PV+ +    ++
Sbjct: 120 KPDVFSRRYCYHYPHKLDIEAMREAADYMIGPKNFTSFTDDSENK---DPVRRVTNIKIV 176

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
             G  L++   G+GF+Y  VR M 
Sbjct: 177 SNGEKLRITYYGTGFMYHMVRIMT 200


>gi|163938150|ref|YP_001643034.1| tRNA pseudouridine synthase A [Bacillus weihenstephanensis KBAB4]
 gi|163860347|gb|ABY41406.1| tRNA pseudouridine synthase A [Bacillus weihenstephanensis KBAB4]
          Length = 252

 Score =  135 bits (340), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 73/202 (36%), Positives = 115/202 (56%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 10  KCTVAYDGIHFCGYQIQPHHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 67

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  +A LN +LP DI +R++     EFHAR+  + K Y Y++      
Sbjct: 68  IHFDTPLSLEEWQWSNA-LNSMLPDDIIIRQVEKKTEEFHARYGVEKKEYRYRVLLSKTA 126

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++I+  ++IE 
Sbjct: 127 DVFRRNYVYQYPYPLEINSIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 184

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              L     G+GFLY  VR +V
Sbjct: 185 DDELIFRFVGNGFLYNMVRIIV 206


>gi|423480286|ref|ZP_17456976.1| tRNA pseudouridine synthase A 1 [Bacillus cereus BAG6X1-2]
 gi|401149291|gb|EJQ56766.1| tRNA pseudouridine synthase A 1 [Bacillus cereus BAG6X1-2]
          Length = 247

 Score =  135 bits (340), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 73/202 (36%), Positives = 115/202 (56%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 5   KCTVAYDGIHFCGYQIQPQHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  +A LN +LP DI +R++     EFHAR+  + K Y Y++      
Sbjct: 63  IHFDTPLSLEEWQWSNA-LNTMLPDDIVIRQVEKKTEEFHARYGVEKKEYRYRVLLSKTA 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++I+  ++IE 
Sbjct: 122 DVFRRNYVYQYPYPLEIDSIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 179

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              L     G+GFLY  VR +V
Sbjct: 180 DDELIFRFVGNGFLYNMVRIIV 201


>gi|228905939|ref|ZP_04069836.1| tRNA pseudouridine synthase A [Bacillus thuringiensis IBL 200]
 gi|228853754|gb|EEM98514.1| tRNA pseudouridine synthase A [Bacillus thuringiensis IBL 200]
          Length = 252

 Score =  135 bits (339), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 73/202 (36%), Positives = 114/202 (56%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 10  KCTVAYDGMHFCGYQIQPKHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 67

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  + ALN +LP DI +R +     EFHAR+  + K Y Y++      
Sbjct: 68  IHFDTPLSLEEWQ-WNNALNTMLPDDIVIRRVEKKTEEFHARYGVEKKEYRYRVLLSKTA 126

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++I+  ++IE 
Sbjct: 127 DVFRRNYVYQYPYPLEINSIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 184

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              L     G+GFLY  VR +V
Sbjct: 185 DDELIFRFVGNGFLYNMVRIIV 206


>gi|225570923|ref|ZP_03779946.1| hypothetical protein CLOHYLEM_07027 [Clostridium hylemonae DSM
           15053]
 gi|225160385|gb|EEG73004.1| hypothetical protein CLOHYLEM_07027 [Clostridium hylemonae DSM
           15053]
          Length = 282

 Score =  135 bits (339), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 78/200 (39%), Positives = 112/200 (56%), Gaps = 7/200 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           RLVI YDGT Y GWQ Q +  TI+ ++   L   TKL  ED+ ++GASRTD+GVHA G V
Sbjct: 40  RLVIAYDGTDYCGWQIQPNGITIEEVLNGVL---TKLTGEDIHVIGASRTDSGVHALGNV 96

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARF-SAKSKIYHYKIYNDAV 146
           A F T  S    E +  ALN  LP DI +         +H R+     K Y Y IYN  V
Sbjct: 97  AVFDTASSIPP-ERMAYALNQRLPKDIVIVRSDEVPAGWHPRYRDVVIKTYEYHIYNAPV 155

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
            +P +   + H  + LN   MRE A+Y +G+HDF++F N++ + +  + V+++    +  
Sbjct: 156 QNPLKRRTSTHISFPLNVEKMREGAKYLIGEHDFASFCNVRTSVK--DTVRTVTELRIDS 213

Query: 207 MGALLQLEVEGSGFLYRQVR 226
            G  + + + G+GFLY  VR
Sbjct: 214 DGPEIIMRITGNGFLYNMVR 233


>gi|228989350|ref|ZP_04149341.1| tRNA pseudouridine synthase A [Bacillus pseudomycoides DSM 12442]
 gi|228995533|ref|ZP_04155201.1| tRNA pseudouridine synthase A [Bacillus mycoides Rock3-17]
 gi|228764262|gb|EEM13141.1| tRNA pseudouridine synthase A [Bacillus mycoides Rock3-17]
 gi|228770428|gb|EEM19001.1| tRNA pseudouridine synthase A [Bacillus pseudomycoides DSM 12442]
          Length = 252

 Score =  135 bits (339), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 73/202 (36%), Positives = 116/202 (57%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 10  KCTVAYDGINFCGYQIQPQHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHARGQV 67

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  + ++A LN +LP DI VR++     +FHAR+  + K Y Y++      
Sbjct: 68  IHFDTPLSLEEWQWMNA-LNTMLPDDIVVRQVEKKTEDFHARYGVERKEYRYRVLLSKNA 126

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++I+  D++E 
Sbjct: 127 DVFRRNYVYQYPYPLEIESIRKAIPYFIGTHDFTSFCSTKTDKK--DKVRTIYEIDLMEQ 184

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              L     G+GFLY  VR +V
Sbjct: 185 DDELIFRFVGNGFLYNMVRIIV 206


>gi|259502563|ref|ZP_05745465.1| tRNA pseudouridine synthase A [Lactobacillus antri DSM 16041]
 gi|259169515|gb|EEW54010.1| tRNA pseudouridine synthase A [Lactobacillus antri DSM 16041]
          Length = 256

 Score =  135 bits (339), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 72/207 (34%), Positives = 120/207 (57%), Gaps = 5/207 (2%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
           +++++   YDG  ++G+Q Q    T++ +++ A+ ++ K     + ++G+ RTD GVHA 
Sbjct: 2   YRYKITFAYDGANFSGFQIQPHKRTVEQVLKNAVNKIAKHPDPPVSVIGSGRTDAGVHAL 61

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
            QVAHF  P+     E++  ALN LLP DI V++       FHAR+SA  K Y Y++   
Sbjct: 62  NQVAHFDIPYQLSD-EAMRKALNSLLPLDILVKKAERVDENFHARYSAHRKTYRYRVDQG 120

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
             +DPF+ +Y  H    ++   MR AA+ F+G+HDF++FV      +A + V+++ +  V
Sbjct: 121 DFVDPFKRNYTAHYKVPVDIEKMRLAAKDFIGEHDFTSFV--ASGSQAKSNVRTVEKITV 178

Query: 205 IEMGALLQL--EVEGSGFLYRQVRNMV 229
               A  ++  E  G+GFLY Q+R MV
Sbjct: 179 NRDPAQNEVVFEFTGNGFLYNQIRIMV 205


>gi|228898895|ref|ZP_04063177.1| tRNA pseudouridine synthase A [Bacillus thuringiensis IBL 4222]
 gi|228963242|ref|ZP_04124411.1| tRNA pseudouridine synthase A [Bacillus thuringiensis serovar sotto
           str. T04001]
 gi|402562765|ref|YP_006605489.1| tRNA pseudouridine synthase A [Bacillus thuringiensis HD-771]
 gi|434378787|ref|YP_006613431.1| tRNA pseudouridine synthase A [Bacillus thuringiensis HD-789]
 gi|228796500|gb|EEM43939.1| tRNA pseudouridine synthase A [Bacillus thuringiensis serovar sotto
           str. T04001]
 gi|228860795|gb|EEN05173.1| tRNA pseudouridine synthase A [Bacillus thuringiensis IBL 4222]
 gi|401791417|gb|AFQ17456.1| tRNA pseudouridine synthase A [Bacillus thuringiensis HD-771]
 gi|401877344|gb|AFQ29511.1| tRNA pseudouridine synthase A [Bacillus thuringiensis HD-789]
          Length = 252

 Score =  135 bits (339), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 73/202 (36%), Positives = 114/202 (56%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 10  KCTVAYDGMHFCGYQIQPKHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 67

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  + ALN +LP DI +R +     EFHAR+  + K Y Y++      
Sbjct: 68  IHFDTPLSLEEWQ-WNNALNTMLPDDIVIRRVEKKTEEFHARYGVEKKEYRYRVLLSKTA 126

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++I+  ++IE 
Sbjct: 127 DVFRRNYVYQYPYPLEINSIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 184

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              L     G+GFLY  VR +V
Sbjct: 185 DDELIFRFVGNGFLYNMVRIIV 206


>gi|423364434|ref|ZP_17341924.1| tRNA pseudouridine synthase A 1 [Bacillus cereus VD022]
 gi|423565500|ref|ZP_17541776.1| tRNA pseudouridine synthase A 1 [Bacillus cereus MSX-A1]
 gi|401072853|gb|EJP81307.1| tRNA pseudouridine synthase A 1 [Bacillus cereus VD022]
 gi|401193702|gb|EJR00705.1| tRNA pseudouridine synthase A 1 [Bacillus cereus MSX-A1]
          Length = 247

 Score =  135 bits (339), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 73/202 (36%), Positives = 114/202 (56%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 5   KCTVAYDGMHFCGYQIQPKHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  + ALN +LP DI +R +     EFHAR+  + K Y Y++      
Sbjct: 63  IHFDTPLSLEEWQ-WNNALNTMLPDDIVIRRVEKKTEEFHARYGVEKKEYRYRVLLSKTA 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++I+  ++IE 
Sbjct: 122 DVFRRNYVYQYPYPLEINSIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 179

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              L     G+GFLY  VR +V
Sbjct: 180 DDELIFRFVGNGFLYNMVRIIV 201


>gi|312109293|ref|YP_003987609.1| tRNA pseudouridine synthase A [Geobacillus sp. Y4.1MC1]
 gi|423718408|ref|ZP_17692590.1| tRNA pseudouridine synthase A [Geobacillus thermoglucosidans
           TNO-09.020]
 gi|311214394|gb|ADP72998.1| tRNA pseudouridine synthase A [Geobacillus sp. Y4.1MC1]
 gi|383365218|gb|EID42519.1| tRNA pseudouridine synthase A [Geobacillus thermoglucosidans
           TNO-09.020]
          Length = 248

 Score =  135 bits (339), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 78/203 (38%), Positives = 112/203 (55%), Gaps = 5/203 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDGT + G+Q Q    T+Q  +E+AL ++ K   + +R+  + RTD GVHA+GQV
Sbjct: 6   KCTLSYDGTHFFGYQIQPGKRTVQGELEQALEQIHK--GKAIRVTASGRTDAGVHAYGQV 63

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF T  S    E    ALN LLP DI +++   A P FHARFSA +K Y YK+      
Sbjct: 64  IHFDTFLSLSP-EQWKKALNALLPDDIVIKDAQEAAPSFHARFSATAKEYRYKVRIAQER 122

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F  HY YH  Y L+   M  A     G HDF++F + + +    + V++I++ D+   
Sbjct: 123 DVFLRHYCYHYPYPLDMEAMGRALRLIEGTHDFTSFCSAKTD--VDDRVRTIYKADMTVR 180

Query: 208 GALLQLEVEGSGFLYRQVRNMVN 230
             LL+    G+GFLY  VR +V 
Sbjct: 181 DDLLEFRFIGNGFLYNMVRIIVG 203


>gi|359410104|ref|ZP_09202569.1| tRNA pseudouridine synthase A [Clostridium sp. DL-VIII]
 gi|357168988|gb|EHI97162.1| tRNA pseudouridine synthase A [Clostridium sp. DL-VIII]
          Length = 244

 Score =  135 bits (339), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 72/202 (35%), Positives = 115/202 (56%), Gaps = 6/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L+I +DG+ + GWQ Q    T+Q ++E A+ + T    E++++ G+SRTD GVHA   V
Sbjct: 5   KLIIEFDGSNFCGWQRQPKGRTVQKVIETAIYKATG---EEIQINGSSRTDAGVHAREMV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A+F T  +  G +    A+N  LP D+ + +      EFHAR+S+K K Y Y I N +  
Sbjct: 62  ANFFTDSTIPG-DKFREAINTRLPEDVSIIKSEEVDQEFHARYSSKGKTYSYTIVNRSER 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
               H Y YH  Y+L+   MR+A  YF+GKHDF AF++   + +    +++I    + + 
Sbjct: 121 LSLGHQYLYHYKYRLDVDKMRKACNYFIGKHDFKAFMSPGSSIKT--TIRTITELYIEQD 178

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
           G  +++ +   GFLY  VR +V
Sbjct: 179 GEKIKIFITADGFLYNMVRIIV 200


>gi|410672513|ref|YP_006924884.1| tRNA pseudouridine synthase A 1 [Bacillus thuringiensis Bt407]
 gi|452196520|ref|YP_007476601.1| tRNA pseudouridine synthase A [Bacillus thuringiensis serovar
           thuringiensis str. IS5056]
 gi|409171642|gb|AFV15947.1| tRNA pseudouridine synthase A 1 [Bacillus thuringiensis Bt407]
 gi|452101913|gb|AGF98852.1| tRNA pseudouridine synthase A [Bacillus thuringiensis serovar
           thuringiensis str. IS5056]
          Length = 247

 Score =  135 bits (339), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 73/202 (36%), Positives = 115/202 (56%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 5   KCTVAYDGMHFCGYQIQPKHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  +A LN +LP DI +R++     EFHAR+  + K Y Y++      
Sbjct: 63  IHFDTPLSLEEWQWSNA-LNTMLPDDIVIRQVEKKTEEFHARYGVERKEYRYRVLLSKTA 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++I+  ++IE 
Sbjct: 122 DVFRRNYVYQYPYPLEIKKIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 179

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              L     G+GFLY  VR +V
Sbjct: 180 DDELIFRFVGNGFLYNMVRIIV 201


>gi|75764616|ref|ZP_00744060.1| tRNA pseudouridine synthase A [Bacillus thuringiensis serovar
           israelensis ATCC 35646]
 gi|74487896|gb|EAO51668.1| tRNA pseudouridine synthase A [Bacillus thuringiensis serovar
           israelensis ATCC 35646]
          Length = 264

 Score =  135 bits (339), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 73/202 (36%), Positives = 114/202 (56%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 22  KCTVAYDGMHFCGYQIQPKHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 79

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  + ALN +LP DI +R +     EFHAR+  + K Y Y++      
Sbjct: 80  IHFDTPLSLEEWQW-NNALNTMLPDDIVIRRVEKKTEEFHARYGVEKKEYRYRVLLSKTA 138

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++I+  ++IE 
Sbjct: 139 DVFRRNYVYQYPYPLEINSIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 196

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              L     G+GFLY  VR +V
Sbjct: 197 DDELIFRFVGNGFLYNMVRIIV 218


>gi|228937445|ref|ZP_04100091.1| tRNA pseudouridine synthase A [Bacillus thuringiensis serovar
           berliner ATCC 10792]
 gi|228970331|ref|ZP_04130990.1| tRNA pseudouridine synthase A [Bacillus thuringiensis serovar
           thuringiensis str. T01001]
 gi|228976901|ref|ZP_04137313.1| tRNA pseudouridine synthase A [Bacillus thuringiensis Bt407]
 gi|384184228|ref|YP_005570124.1| tRNA pseudouridine synthase A [Bacillus thuringiensis serovar
           chinensis CT-43]
 gi|228782871|gb|EEM31037.1| tRNA pseudouridine synthase A [Bacillus thuringiensis Bt407]
 gi|228789440|gb|EEM37360.1| tRNA pseudouridine synthase A [Bacillus thuringiensis serovar
           thuringiensis str. T01001]
 gi|228822278|gb|EEM68260.1| tRNA pseudouridine synthase A [Bacillus thuringiensis serovar
           berliner ATCC 10792]
 gi|326937937|gb|AEA13833.1| tRNA pseudouridine synthase A [Bacillus thuringiensis serovar
           chinensis CT-43]
          Length = 252

 Score =  135 bits (339), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 73/202 (36%), Positives = 115/202 (56%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 10  KCTVAYDGMHFCGYQIQPKHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 67

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  +A LN +LP DI +R++     EFHAR+  + K Y Y++      
Sbjct: 68  IHFDTPLSLEEWQWSNA-LNTMLPDDIVIRQVEKKTEEFHARYGVERKEYRYRVLLSKTA 126

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++I+  ++IE 
Sbjct: 127 DVFRRNYVYQYPYPLEIKKIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 184

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              L     G+GFLY  VR +V
Sbjct: 185 DDELIFRFVGNGFLYNMVRIIV 206


>gi|30018411|ref|NP_830042.1| tRNA pseudouridine synthase A [Bacillus cereus ATCC 14579]
 gi|206972233|ref|ZP_03233180.1| tRNA pseudouridine synthase A [Bacillus cereus AH1134]
 gi|228956583|ref|ZP_04118379.1| tRNA pseudouridine synthase A [Bacillus thuringiensis serovar
           pakistani str. T13001]
 gi|229041047|ref|ZP_04189810.1| tRNA pseudouridine synthase A [Bacillus cereus AH676]
 gi|229125659|ref|ZP_04254691.1| tRNA pseudouridine synthase A [Bacillus cereus BDRD-Cer4]
 gi|229142948|ref|ZP_04271389.1| tRNA pseudouridine synthase A [Bacillus cereus BDRD-ST24]
 gi|229188427|ref|ZP_04315475.1| tRNA pseudouridine synthase A [Bacillus cereus ATCC 10876]
 gi|296500975|ref|YP_003662675.1| tRNA pseudouridine synthase A [Bacillus thuringiensis BMB171]
 gi|29893951|gb|AAP07243.1| tRNA pseudouridine synthase A [Bacillus cereus ATCC 14579]
 gi|206732807|gb|EDZ49982.1| tRNA pseudouridine synthase A [Bacillus cereus AH1134]
 gi|228595101|gb|EEK52872.1| tRNA pseudouridine synthase A [Bacillus cereus ATCC 10876]
 gi|228640569|gb|EEK96958.1| tRNA pseudouridine synthase A [Bacillus cereus BDRD-ST24]
 gi|228657851|gb|EEL13657.1| tRNA pseudouridine synthase A [Bacillus cereus BDRD-Cer4]
 gi|228727344|gb|EEL78538.1| tRNA pseudouridine synthase A [Bacillus cereus AH676]
 gi|228803148|gb|EEM49970.1| tRNA pseudouridine synthase A [Bacillus thuringiensis serovar
           pakistani str. T13001]
 gi|296322027|gb|ADH04955.1| tRNA pseudouridine synthase A [Bacillus thuringiensis BMB171]
          Length = 252

 Score =  135 bits (339), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 72/202 (35%), Positives = 116/202 (57%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q +  T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 10  KCTVAYDGMHFCGYQIQPNHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 67

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  +A LN +LP DI +R++     EFHAR+  + K Y Y++      
Sbjct: 68  IHFDTPLSLEEWQWSNA-LNTMLPDDIVIRQVEKKTEEFHARYGVEKKEYRYRVLLSKTA 126

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++I+  ++IE 
Sbjct: 127 DVFRRNYVYQYPYPLEINSIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 184

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              +     G+GFLY  VR +V
Sbjct: 185 DDEIIFRFVGNGFLYNMVRIIV 206


>gi|313897268|ref|ZP_07830812.1| tRNA pseudouridine synthase A [Clostridium sp. HGF2]
 gi|373122788|ref|ZP_09536648.1| tRNA pseudouridine synthase A [Erysipelotrichaceae bacterium 21_3]
 gi|422327013|ref|ZP_16408041.1| tRNA pseudouridine synthase A [Erysipelotrichaceae bacterium
           6_1_45]
 gi|312957989|gb|EFR39613.1| tRNA pseudouridine synthase A [Clostridium sp. HGF2]
 gi|371662740|gb|EHO27938.1| tRNA pseudouridine synthase A [Erysipelotrichaceae bacterium 21_3]
 gi|371664503|gb|EHO29676.1| tRNA pseudouridine synthase A [Erysipelotrichaceae bacterium
           6_1_45]
          Length = 252

 Score =  135 bits (339), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 79/201 (39%), Positives = 116/201 (57%), Gaps = 6/201 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++++ + YDGT Y GWQ QT+  +IQ  +E A+    K+E   +R+  + RTD  VHA G
Sbjct: 3   RYKVTLSYDGTAYGGWQRQTNTHSIQQEIEAAM---EKIEGNFIRITASGRTDAHVHALG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF +       E+   ALN LLP DIR++++     +FHARF A SK Y Y I  D 
Sbjct: 60  QVFHFDSAKDL-APENWRRALNSLLPHDIRIQDVCLVEDDFHARFHAVSKRYDYLITTD- 117

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           V +PF +HY       L+   M E A  F+G HDF++F + + + R  + VK+I R D++
Sbjct: 118 VNNPFYYHYMGKDRKVLDVKRMSECARVFLGTHDFTSFTSSKLDPRK-SKVKTITRLDIV 176

Query: 206 EMGALLQLEVEGSGFLYRQVR 226
           +    ++L  EG+GFL   VR
Sbjct: 177 QEEHAVRLVFEGNGFLRYMVR 197


>gi|228919092|ref|ZP_04082471.1| tRNA pseudouridine synthase A [Bacillus thuringiensis serovar
           huazhongensis BGSC 4BD1]
 gi|228840617|gb|EEM85879.1| tRNA pseudouridine synthase A [Bacillus thuringiensis serovar
           huazhongensis BGSC 4BD1]
          Length = 252

 Score =  135 bits (339), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 72/202 (35%), Positives = 116/202 (57%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q +  T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 10  KCTVAYDGMHFCGYQIQPNHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 67

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  +A LN +LP DI +R++     EFHAR+  + K Y Y++      
Sbjct: 68  IHFDTPLSLEEWQWSNA-LNTMLPDDIVIRQVEKKTEEFHARYGVEKKEYRYRVLLSKTA 126

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++I+  ++IE 
Sbjct: 127 DVFRRNYVYQYPYPLEINSIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 184

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              +     G+GFLY  VR +V
Sbjct: 185 DDEIIFRFVGNGFLYNMVRIIV 206


>gi|229107828|ref|ZP_04237464.1| tRNA pseudouridine synthase A [Bacillus cereus Rock1-15]
 gi|228675677|gb|EEL30885.1| tRNA pseudouridine synthase A [Bacillus cereus Rock1-15]
          Length = 252

 Score =  135 bits (339), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 72/202 (35%), Positives = 116/202 (57%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q +  T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 10  KCTVAYDGMHFCGYQIQPNHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 67

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  +A LN +LP DI +R++     EFHAR+  + K Y Y++      
Sbjct: 68  IHFDTPLSLEEWQWSNA-LNTMLPDDIVIRQVEKKTEEFHARYGVEKKEYRYRVLLSKTA 126

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++I+  ++IE 
Sbjct: 127 DVFRRNYVYQYPYPLEINSIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 184

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              +     G+GFLY  VR +V
Sbjct: 185 DDEIIFRFVGNGFLYNMVRIIV 206


>gi|304405587|ref|ZP_07387246.1| tRNA pseudouridine synthase A [Paenibacillus curdlanolyticus YK9]
 gi|304345626|gb|EFM11461.1| tRNA pseudouridine synthase A [Paenibacillus curdlanolyticus YK9]
          Length = 248

 Score =  135 bits (339), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 87/198 (43%), Positives = 111/198 (56%), Gaps = 6/198 (3%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           + + YDGT Y+G+Q Q S  TIQ IVE A+  +T    E LR++G+ RTD GVHA GQV 
Sbjct: 7   MTVSYDGTTYSGFQSQPSGNTIQDIVETAIHSLTG---EQLRIIGSGRTDAGVHARGQVF 63

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +F T  S    E    A+N  LP DI + E   A   FHAR SAK K Y Y I      D
Sbjct: 64  NFHTE-SRIPQERWALAMNTRLPDDIVILEAWEAPEAFHARHSAKRKTYRYTIDRRKFPD 122

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
            F   YA+H    L    MREA  + +G+HDF++F +IQ      + V++IF   + E G
Sbjct: 123 VFSRMYAFHHPTPLQVGAMREALTHLIGEHDFTSFTSIQSTQP--HHVRTIFEAWLEEDG 180

Query: 209 ALLQLEVEGSGFLYRQVR 226
            LL L V G+GFLY  VR
Sbjct: 181 PLLYLFVTGNGFLYNMVR 198


>gi|423473167|ref|ZP_17449909.1| tRNA pseudouridine synthase A 1 [Bacillus cereus BAG6O-2]
 gi|402426665|gb|EJV58786.1| tRNA pseudouridine synthase A 1 [Bacillus cereus BAG6O-2]
          Length = 247

 Score =  135 bits (339), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 73/202 (36%), Positives = 115/202 (56%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 5   KCTVAYDGIHFCGYQIQPQHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  +A LN +LP DI +R++     EFHAR+  + K Y Y++      
Sbjct: 63  IHFDTPLSLEEWQWSNA-LNTMLPDDIIIRQVEKKTEEFHARYGVEKKEYRYRVLLSKTA 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++I+  ++IE 
Sbjct: 122 DVFRRNYVYQYPYPLEIDSIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 179

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              L     G+GFLY  VR +V
Sbjct: 180 DDELIFRFVGNGFLYNMVRIIV 201


>gi|423456237|ref|ZP_17433090.1| tRNA pseudouridine synthase A 1 [Bacillus cereus BAG5X1-1]
 gi|401130836|gb|EJQ38491.1| tRNA pseudouridine synthase A 1 [Bacillus cereus BAG5X1-1]
          Length = 247

 Score =  135 bits (339), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 73/202 (36%), Positives = 115/202 (56%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 5   KCTVAYDGIHFCGYQIQPQHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  +A LN +LP DI +R++     EFHAR+  + K Y Y++      
Sbjct: 63  IHFDTPLSLEEWQWSNA-LNTMLPDDIIIRQVEKKTEEFHARYGVEKKEYRYRVLLSKTA 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++I+  ++IE 
Sbjct: 122 DVFRRNYVYQYPYPLEIDSIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 179

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              L     G+GFLY  VR +V
Sbjct: 180 DDELIFRFVGNGFLYNMVRIIV 201


>gi|366089434|ref|ZP_09455907.1| tRNA pseudouridine synthase A [Lactobacillus acidipiscis KCTC
           13900]
          Length = 290

 Score =  134 bits (338), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 78/206 (37%), Positives = 121/206 (58%), Gaps = 6/206 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++++ I YDGTR+AG+Q Q    T+Q ++E+AL +++K + E + + G+ RTD+GVHA G
Sbjct: 4   RYKITIAYDGTRFAGFQSQPKQRTVQSVLEQALNKMSKFD-EYITIFGSGRTDSGVHALG 62

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVAHF  P      +++   LN +LP DI + +       FHAR+ A +K Y Y++    
Sbjct: 63  QVAHFDFPHDMPA-DAMLRGLNSMLPLDIEIVDCQIVPQTFHARYEAHAKRYMYRVSRSW 121

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
            +DPF+  Y  H  Y L+   +++A    VG HDFS+FV      +  + V++I+   V 
Sbjct: 122 FIDPFKRFYTGHYKYPLDIERIKQAMGDVVGTHDFSSFV--ASGSQTKSHVRTIYEATVR 179

Query: 206 EMGALLQL--EVEGSGFLYRQVRNMV 229
           E  A  ++  E  G+GFLY QVR MV
Sbjct: 180 EDQANNEVIFEFCGNGFLYNQVRIMV 205


>gi|423590571|ref|ZP_17566633.1| tRNA pseudouridine synthase A 1 [Bacillus cereus VD045]
 gi|423632051|ref|ZP_17607797.1| tRNA pseudouridine synthase A 1 [Bacillus cereus VD154]
 gi|423645039|ref|ZP_17620655.1| tRNA pseudouridine synthase A 1 [Bacillus cereus VD166]
 gi|423646277|ref|ZP_17621847.1| tRNA pseudouridine synthase A 1 [Bacillus cereus VD169]
 gi|51340814|sp|Q814C2.2|TRUA1_BACCR RecName: Full=tRNA pseudouridine synthase A 1; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I 1; AltName: Full=tRNA-uridine
           isomerase I 1
 gi|401220208|gb|EJR26850.1| tRNA pseudouridine synthase A 1 [Bacillus cereus VD045]
 gi|401262770|gb|EJR68908.1| tRNA pseudouridine synthase A 1 [Bacillus cereus VD154]
 gi|401267734|gb|EJR73790.1| tRNA pseudouridine synthase A 1 [Bacillus cereus VD166]
 gi|401287906|gb|EJR93673.1| tRNA pseudouridine synthase A 1 [Bacillus cereus VD169]
          Length = 247

 Score =  134 bits (338), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 72/202 (35%), Positives = 116/202 (57%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q +  T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 5   KCTVAYDGMHFCGYQIQPNHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  +A LN +LP DI +R++     EFHAR+  + K Y Y++      
Sbjct: 63  IHFDTPLSLEEWQWSNA-LNTMLPDDIVIRQVEKKTEEFHARYGVEKKEYRYRVLLSKTA 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++I+  ++IE 
Sbjct: 122 DVFRRNYVYQYPYPLEINSIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 179

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              +     G+GFLY  VR +V
Sbjct: 180 DDEIIFRFVGNGFLYNMVRIIV 201


>gi|423578549|ref|ZP_17554660.1| tRNA pseudouridine synthase A 1 [Bacillus cereus VD014]
 gi|423638145|ref|ZP_17613797.1| tRNA pseudouridine synthase A 1 [Bacillus cereus VD156]
 gi|401221274|gb|EJR27898.1| tRNA pseudouridine synthase A 1 [Bacillus cereus VD014]
 gi|401271869|gb|EJR77872.1| tRNA pseudouridine synthase A 1 [Bacillus cereus VD156]
          Length = 247

 Score =  134 bits (338), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 72/202 (35%), Positives = 116/202 (57%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q +  T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 5   KCTVAYDGMHFCGYQIQPNHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  +A LN +LP DI +R++     EFHAR+  + K Y Y++      
Sbjct: 63  IHFDTPLSLEEWQWSNA-LNTMLPDDIVIRQVEKKTEEFHARYGVEKKEYRYRVLLSKTA 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++I+  ++IE 
Sbjct: 122 DVFRRNYVYQYPYPLEINSIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 179

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              +     G+GFLY  VR +V
Sbjct: 180 DDEIIFRFVGNGFLYNMVRIIV 201


>gi|423514594|ref|ZP_17491101.1| tRNA pseudouridine synthase A 1 [Bacillus cereus HuA2-1]
 gi|423514994|ref|ZP_17491475.1| tRNA pseudouridine synthase A 1 [Bacillus cereus HuA2-4]
 gi|401168495|gb|EJQ75758.1| tRNA pseudouridine synthase A 1 [Bacillus cereus HuA2-4]
 gi|402441994|gb|EJV73938.1| tRNA pseudouridine synthase A 1 [Bacillus cereus HuA2-1]
          Length = 247

 Score =  134 bits (338), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 73/202 (36%), Positives = 115/202 (56%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 5   KCTVAYDGIHFCGYQIQPHHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  +A LN +LP DI +R++     EFHAR+  + K Y Y++      
Sbjct: 63  IHFDTPLSLEEWQWSNA-LNTMLPDDIIIRQVEKKTEEFHARYGVEKKEYRYRVLLSKTA 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++I+  ++IE 
Sbjct: 122 DVFRRNYVYQYPYPLEINSIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 179

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              L     G+GFLY  VR +V
Sbjct: 180 DDELIFRFVGNGFLYNMVRIIV 201


>gi|218134082|ref|ZP_03462886.1| hypothetical protein BACPEC_01972 [[Bacteroides] pectinophilus ATCC
           43243]
 gi|217991457|gb|EEC57463.1| tRNA pseudouridine synthase A [[Bacteroides] pectinophilus ATCC
           43243]
          Length = 272

 Score =  134 bits (338), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 68/205 (33%), Positives = 112/205 (54%), Gaps = 4/205 (1%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
           + +R+ + YDG RYAGWQ          +  K    + K+   D+ +   SRT+TGVHA+
Sbjct: 28  YNYRMTLEYDGGRYAGWQRMGRDDNSNTVSAKITEVLKKMTGSDVEIFCGSRTETGVHAY 87

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           GQVA+F     Y   E I   LN  LP DI V E+      FH++ +AKS+ Y Y++   
Sbjct: 88  GQVANFKLDREYRARE-IQNYLNRYLPQDIAVLELEETQERFHSQLNAKSRTYVYRVDTK 146

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
            + + F+  Y YH+ +K +   M +AA+YF+G+HD+  F  +++N   +  V+S+   D+
Sbjct: 147 NIANVFERRYMYHTFHKPDVDAMNKAAQYFLGEHDYKVFSTVKKNKSTVRNVESV---DI 203

Query: 205 IEMGALLQLEVEGSGFLYRQVRNMV 229
            + G  L++ ++   FL+   R M+
Sbjct: 204 YDDGDTLEITIKADDFLHNMARLMI 228


>gi|423653076|ref|ZP_17628375.1| tRNA pseudouridine synthase A 1 [Bacillus cereus VD200]
 gi|401303184|gb|EJS08747.1| tRNA pseudouridine synthase A 1 [Bacillus cereus VD200]
          Length = 247

 Score =  134 bits (338), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 72/202 (35%), Positives = 116/202 (57%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q +  T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 5   KCTVAYDGMHFCGYQIQPNHRTVQHEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  +A LN +LP DI +R++     EFHAR+  + K Y Y++      
Sbjct: 63  IHFDTPLSLEEWQWSNA-LNTMLPDDIVIRQVEKKTEEFHARYGVEKKEYRYRVLLSKTA 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++I+  ++IE 
Sbjct: 122 DVFRRNYVYQYPYPLEINSIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 179

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              +     G+GFLY  VR +V
Sbjct: 180 DDEIIFRFVGNGFLYNMVRIIV 201


>gi|187933357|ref|YP_001884507.1| tRNA pseudouridine synthase A [Clostridium botulinum B str. Eklund
           17B]
 gi|238691608|sp|B2TIK9.1|TRUA_CLOBB RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|187721510|gb|ACD22731.1| tRNA pseudouridine synthase A [Clostridium botulinum B str. Eklund
           17B]
          Length = 244

 Score =  134 bits (338), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 79/202 (39%), Positives = 113/202 (55%), Gaps = 6/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L+I +DGT + GWQ Q    T+Q  +EKA++++T    E     G+SRTD GVHA   V
Sbjct: 5   KLIIEFDGTNFCGWQRQIKDRTVQGCLEKAILKITG---EKSLTNGSSRTDGGVHAKAMV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A+FIT  S  G E    ALN  LP DI V +      +FHAR+S+K K+Y Y I N    
Sbjct: 62  ANFITNSSIPG-EKFREALNTKLPDDIAVIKSEEVDMDFHARYSSKGKMYSYTIVNRYEK 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
             F   Y +H   +LN   M++A E F+GKHDF AF++      A   V++I  F + + 
Sbjct: 121 LSFGKQYVHHVRKELNVEDMKKACECFIGKHDFKAFMS--PGSSAKTTVRTIQEFYIEKN 178

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
             ++++ +   GFLY  VR +V
Sbjct: 179 EDVIKIFISADGFLYNMVRIIV 200


>gi|229067907|ref|ZP_04201224.1| tRNA pseudouridine synthase A [Bacillus cereus F65185]
 gi|228715266|gb|EEL67125.1| tRNA pseudouridine synthase A [Bacillus cereus F65185]
          Length = 252

 Score =  134 bits (338), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 72/202 (35%), Positives = 116/202 (57%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q +  T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 10  KCTVAYDGMHFCGYQIQPNHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 67

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF T  S +  + I+A LN +LP DI +R++     EFHAR+  + K Y Y++      
Sbjct: 68  IHFDTSLSLEEWQWINA-LNTMLPDDIVIRQVEKKTEEFHARYGVEKKEYRYRVLLSKTA 126

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++I+  ++IE 
Sbjct: 127 DVFRRNYVYQYPYPLEINSIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 184

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              +     G+GFLY  VR +V
Sbjct: 185 NDEIIFRFVGNGFLYNMVRIIV 206


>gi|147676690|ref|YP_001210905.1| tRNA pseudouridine synthase A [Pelotomaculum thermopropionicum SI]
 gi|146272787|dbj|BAF58536.1| pseudouridylate synthase [Pelotomaculum thermopropionicum SI]
          Length = 273

 Score =  134 bits (338), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 91/226 (40%), Positives = 120/226 (53%), Gaps = 31/226 (13%)

Query: 14  VKPPTDDSFPGFKWRLVIGYDGTRYAGWQFQ--TSPPTIQCIVEKALIRVTKLEREDLRL 71
           +KP  + +    K  + I YDGT Y G+Q Q  T   T+Q ++E+   R+++L  E +R+
Sbjct: 18  IKPDPEAAMRNIK--VTIAYDGTNYYGFQEQRGTKFRTVQEVIEE---RLSRLAGEQIRV 72

Query: 72  VGASRTDTGVHAWGQVAHF------ITPFSYDGLESIHAALNGLLPPDIRVREISAAVPE 125
           +GA RTD GVHA GQV +F      I P      E +  ALN LLP DI   E     P 
Sbjct: 73  IGAGRTDAGVHARGQVINFNPGNWPIPP------ERVAYALNSLLPRDIAALESVEVPPS 126

Query: 126 FHARFSAKSKIYHYKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVN 185
           FHARFSA +K Y Y IYN  V  PF   Y+YH   +L+   M+  A   +G+HDFSAF  
Sbjct: 127 FHARFSAVAKTYRYTIYNARVHSPFLRLYSYHVPRRLDVEAMQAGAALLIGRHDFSAF-- 184

Query: 186 IQRNDRAL-NPVKSIFRF----DVIEMGALLQLEVEGSGFLYRQVR 226
                RAL  PVKS  R      V   G L+ ++++  GFLY   R
Sbjct: 185 -----RALGTPVKSTVRTMLEACVSREGDLVYIDLKADGFLYHMAR 225


>gi|403388244|ref|ZP_10930301.1| tRNA pseudouridine synthase A [Clostridium sp. JC122]
          Length = 244

 Score =  134 bits (338), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 74/202 (36%), Positives = 107/202 (52%), Gaps = 6/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L + YDGT Y GWQ Q +  T+Q  +E     ++ L +ED+ ++G SRTD+GVH+ G +
Sbjct: 5   KLTLEYDGTNYFGWQKQKTKVTLQGTIEDI---ISNLTKEDIEIIGCSRTDSGVHSKGYI 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            +F+T  S    E    ALN  LP DI V +      EFH+R+S + K Y Y I    + 
Sbjct: 62  CNFVTNSSIPS-EKFKDALNVKLPDDIAVLKSEEVPEEFHSRYSCRGKKYSYTILERPMK 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
                +Y     Y L+   M EA +YF+G HDFSAF N  +       V++I    V + 
Sbjct: 121 ATIDRNYVCQCKYNLDIEKMNEACKYFIGTHDFSAFKN--KGSSVKTSVRTISELYVEKT 178

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
           G  +++ V   GFLY  VR +V
Sbjct: 179 GNYVKIFVSADGFLYNMVRIIV 200


>gi|229083462|ref|ZP_04215810.1| tRNA pseudouridine synthase A [Bacillus cereus Rock3-44]
 gi|228699895|gb|EEL52532.1| tRNA pseudouridine synthase A [Bacillus cereus Rock3-44]
          Length = 252

 Score =  134 bits (338), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 71/202 (35%), Positives = 115/202 (56%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q    T+Q  +EKAL ++ K   E++R+  + RTD+ VHA GQV
Sbjct: 10  KCTVAYDGINFCGYQIQPQHRTVQQEIEKALQKLHK--GENVRVQASGRTDSTVHAKGQV 67

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP + +  +  +A LN +LP DI +R++     EFHAR+  + K Y Y++      
Sbjct: 68  IHFDTPLTLEEWQWSNA-LNTMLPDDIVIRQVEKKTEEFHARYGVEKKEYRYRVLLSKTA 126

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  Y +G HDF++F + + + +  + V++I+  ++IE 
Sbjct: 127 DVFRRNYVYQYPYPLEINSIRKAIPYLIGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 184

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              L     G+GFLY  VR +V
Sbjct: 185 DDELIFRFVGNGFLYNMVRIIV 206


>gi|146296772|ref|YP_001180543.1| tRNA pseudouridine synthase A [Caldicellulosiruptor saccharolyticus
           DSM 8903]
 gi|166228689|sp|A4XKB7.1|TRUA_CALS8 RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|145410348|gb|ABP67352.1| tRNA pseudouridine synthase A [Caldicellulosiruptor saccharolyticus
           DSM 8903]
          Length = 244

 Score =  134 bits (338), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 76/198 (38%), Positives = 111/198 (56%), Gaps = 6/198 (3%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L I YDGT Y GWQ Q +  T+Q ++E A+ ++T    ED+ LVG+ RTD GVHA GQ A
Sbjct: 6   LTIEYDGTNYFGWQKQPNKKTVQGVIEDAIKKITG---EDVNLVGSGRTDRGVHALGQKA 62

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +F T  S    E    ALN +LP DI +++ +    +F AR+SAK K Y Y IYN     
Sbjct: 63  NFKTE-SKIPTEKFPLALNSVLPNDISIKDAAEVSLDFSARYSAKQKTYKYLIYNHKFRP 121

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
               +Y YH  Y+L+   M+++ EYF+G++DFS+F +        + V+ IF   +    
Sbjct: 122 AILCNYVYHFPYELDLVSMQKSCEYFIGEYDFSSFCS--SGSETNSKVRRIFDCYLTFEN 179

Query: 209 ALLQLEVEGSGFLYRQVR 226
             + + +  +GFLY   R
Sbjct: 180 DCIAIYITANGFLYNMAR 197


>gi|153853813|ref|ZP_01995169.1| hypothetical protein DORLON_01160 [Dorea longicatena DSM 13814]
 gi|149753563|gb|EDM63494.1| tRNA pseudouridine synthase A [Dorea longicatena DSM 13814]
          Length = 246

 Score =  134 bits (337), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 78/202 (38%), Positives = 114/202 (56%), Gaps = 7/202 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + R+ + YDGT Y GWQ Q +  TI+  + K+L R+T    E++R++GASRTD+GVHA G
Sbjct: 3   RIRIFVAYDGTNYCGWQVQPNGVTIEEKLNKSLARLTG---EEIRIIGASRTDSGVHALG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAK-SKIYHYKIYND 144
            VA F T  S    E    ALN  LP DI V        ++H R+    SK Y Y IYN 
Sbjct: 60  NVAVFDTESSIPP-ERFAYALNQRLPEDIVVVRSDEVPADWHPRYQENISKTYEYHIYNA 118

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
           AV +P +  Y     + ++   MR  A+Y VG+HDF +F NI+ N +  + V++++   +
Sbjct: 119 AVPNPLKTRYCTFVSFPMDVEAMRAGAKYLVGEHDFVSFCNIRTNTQ--DTVRTVYDLII 176

Query: 205 IEMGALLQLEVEGSGFLYRQVR 226
            +    + L + G+GFLY  VR
Sbjct: 177 EKKDDEIVLRITGNGFLYNMVR 198


>gi|291528184|emb|CBK93770.1| pseudouridylate synthase I [Eubacterium rectale M104/1]
          Length = 254

 Score =  134 bits (337), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 81/203 (39%), Positives = 114/203 (56%), Gaps = 11/203 (5%)

Query: 27  WRLVIGYDGTRYAGWQFQTSPP-TIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++++ YDGTRY GWQ Q S   TIQ  ++  L   + L  + + ++G+ RTD GVHA G
Sbjct: 8   YKIIVAYDGTRYKGWQVQKSTDDTIQGKLQHVL---STLAGKPVEVIGSGRTDAGVHAVG 64

Query: 86  QVAHFITP--FSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYN 143
           QVA F  P  FS D    I   LN  LP DI V +IS     FHAR++A SK Y Y I+ 
Sbjct: 65  QVASFHMPKHFSKD---EIFIWLNEHLPADIAVTDISNVPDRFHARYNAVSKTYVYTIHT 121

Query: 144 DAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFD 203
             V D F+  Y Y     L+T  M++AA Y +G+HDF AF   +   ++   V++IF  D
Sbjct: 122 GIVSDVFRRKYVYDYDKPLDTDRMKKAAAYLLGEHDFKAFCGNKHMKKS--TVRTIFSID 179

Query: 204 VIEMGALLQLEVEGSGFLYRQVR 226
           + + GA + +   G GFL   +R
Sbjct: 180 IEKTGADIVISYTGDGFLQNMIR 202


>gi|242277723|ref|YP_002989852.1| tRNA pseudouridine synthase A [Desulfovibrio salexigens DSM 2638]
 gi|259550311|sp|C6BW69.1|TRUA_DESAD RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|242120617|gb|ACS78313.1| tRNA pseudouridine synthase A [Desulfovibrio salexigens DSM 2638]
          Length = 271

 Score =  134 bits (337), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 78/206 (37%), Positives = 118/206 (57%), Gaps = 10/206 (4%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L+I YDGT + GWQ Q    T+Q  +EKA+ R+T      +R+ G+ RTD+GVHA GQV
Sbjct: 5   KLIIAYDGTNFCGWQLQPKLRTVQGDLEKAITRITGTT---VRVHGSGRTDSGVHALGQV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIY-NDAV 146
           AHF     +  ++    ALN LLP D+ + +     PEFH+R+SA  K Y Y ++  ++ 
Sbjct: 62  AHFDVDSCFASVK-WQRALNSLLPDDVTILDAQLVSPEFHSRYSAIRKTYTYTLWLENSF 120

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI- 205
             P++ HY +     L+   + +  +YF+G+HDFS+F N     ++   V++I  F    
Sbjct: 121 FLPWRRHYVW-KCGPLDFCALDQGMQYFLGEHDFSSFQNTGTEIKS--TVRTIHEFKRYP 177

Query: 206 -EMGALLQLEVEGSGFLYRQVRNMVN 230
            +    + LEV GSGFL + VRNMV 
Sbjct: 178 GQTEQEMILEVCGSGFLKQMVRNMVG 203


>gi|160894723|ref|ZP_02075498.1| hypothetical protein CLOL250_02274 [Clostridium sp. L2-50]
 gi|156863657|gb|EDO57088.1| tRNA pseudouridine synthase A [Clostridium sp. L2-50]
          Length = 245

 Score =  134 bits (337), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 73/201 (36%), Positives = 113/201 (56%), Gaps = 6/201 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + +LV+ YDGT Y GWQ Q +  TI+ ++ +    +++L +ED++++GASRTD GVHA G
Sbjct: 3   RVKLVVAYDGTNYHGWQVQDNGITIEEVLNRT---ISELVQEDIKVIGASRTDAGVHACG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
            VA F T     G +    ALN  LP DIR++E      +FH R++   K Y Y I N  
Sbjct: 60  NVAVFDTESRIPG-DKFSFALNQRLPDDIRIQESCEVDADFHPRYADTVKTYEYNILNRR 118

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
              P +  YA    Y ++   M +AA Y VG+HDF +F +     +    V++I+  +V 
Sbjct: 119 FEMPSKRLYAAFCYYPMDIERMNQAAAYLVGEHDFKSFCSA--GAQVQTTVRTIYAVNVT 176

Query: 206 EMGALLQLEVEGSGFLYRQVR 226
           +   ++ + + G+GFLY  VR
Sbjct: 177 KEDDMVHIRITGNGFLYNMVR 197


>gi|392948176|ref|ZP_10313791.1| tRNA pseudouridine synthase A [Lactobacillus pentosus KCA1]
 gi|392436621|gb|EIW14530.1| tRNA pseudouridine synthase A [Lactobacillus pentosus KCA1]
          Length = 262

 Score =  134 bits (337), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 73/206 (35%), Positives = 116/206 (56%), Gaps = 5/206 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++++V+ YDGT +AG+Q Q    T++ ++ KA+ ++ K   + + + GA RTD GVHA+G
Sbjct: 4   RYKVVLAYDGTNFAGFQRQPHQRTVEQVLTKAVNKMAKDPDDPIVIYGAGRTDAGVHAFG 63

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           Q  HF  P+     E +   LN +LP D+ ++ +S   P+FHAR+    K Y Y+ Y + 
Sbjct: 64  QTLHFDLPYEIKP-EGVRRGLNSMLPTDMIIKAVSIVAPDFHARYDTVGKRYWYRAYQNE 122

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
            +DPF+ HY  H  +  +   +++A     G+HDFS FV      +A + V+ I+     
Sbjct: 123 FVDPFKRHYTGHFKFHADIDRIQQAIGDLEGRHDFSTFV--ASGSQAHDHVREIYSAKAW 180

Query: 206 EM--GALLQLEVEGSGFLYRQVRNMV 229
            +     +Q E  GSGFLY QVR MV
Sbjct: 181 ALPDEDEIQFEFCGSGFLYNQVRIMV 206


>gi|399516876|ref|ZP_10758457.1| tRNA pseudouridine synthase A [Leuconostoc pseudomesenteroides
           4882]
 gi|398648256|emb|CCJ66484.1| tRNA pseudouridine synthase A [Leuconostoc pseudomesenteroides
           4882]
          Length = 256

 Score =  134 bits (337), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 78/211 (36%), Positives = 119/211 (56%), Gaps = 10/211 (4%)

Query: 26  KWRLVIGYDGTRYAGWQFQT-----SPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTG 80
           +++ ++ YDGT + G+Q QT     S  T+Q  + K + ++ K  +  +++VGASRTDTG
Sbjct: 3   RYKAIVAYDGTDFFGFQLQTKNGVESARTVQGELNKVVNQMAKKPQPPIKVVGASRTDTG 62

Query: 81  VHAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYK 140
           VHA+GQV HF  P+     ++    LN LLP DI V+ ++    +FHARF+  +K Y Y+
Sbjct: 63  VHAFGQVVHFDFPYDI-ASDNFRKGLNTLLPRDILVKSVTRVSDDFHARFNTHAKRYIYR 121

Query: 141 IYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIF 200
           I      DPF+ HY  H  + L+   M+ A   F+G+HDF++F      +     V+ I 
Sbjct: 122 ISTLDYTDPFKRHYTGHFHWHLDVDRMKLALPDFLGEHDFASFA--ASGNETATTVRRIT 179

Query: 201 RFDVIEMGA--LLQLEVEGSGFLYRQVRNMV 229
           R ++ E      L L  EG+ FLY Q+R MV
Sbjct: 180 RVELTEKAEEHELVLVFEGNAFLYNQIRIMV 210


>gi|336233687|ref|YP_004586303.1| tRNA pseudouridine synthase A [Geobacillus thermoglucosidasius
           C56-YS93]
 gi|335360542|gb|AEH46222.1| tRNA pseudouridine synthase A [Geobacillus thermoglucosidasius
           C56-YS93]
          Length = 248

 Score =  134 bits (337), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 78/203 (38%), Positives = 112/203 (55%), Gaps = 5/203 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDGT + G+Q Q    T+Q  +E+AL ++ K   + +R+  + RTD GVHA+GQV
Sbjct: 6   KCTLSYDGTHFFGYQIQPGKRTVQGELEQALEQIHK--GKAIRVTASGRTDAGVHAYGQV 63

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF T  S    E    ALN LLP DI +++   A P FHARFSA +K Y YK+      
Sbjct: 64  IHFDTFLSLSP-EQWKKALNALLPDDIVIKDAQEAAPSFHARFSATAKEYRYKVRIAQER 122

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F  HY YH  Y L+   M  A     G HDF++F + + +    + V++I++ D+   
Sbjct: 123 DVFLRHYCYHYPYPLDMEAMGRALRLIEGTHDFTSFCSAKTD--VDDRVRTIYKADMTVR 180

Query: 208 GALLQLEVEGSGFLYRQVRNMVN 230
             LL+    G+GFLY  VR +V 
Sbjct: 181 DDLLEFCFIGNGFLYNMVRIIVG 203


>gi|241890020|ref|ZP_04777318.1| tRNA pseudouridine synthase A [Gemella haemolysans ATCC 10379]
 gi|241863642|gb|EER68026.1| tRNA pseudouridine synthase A [Gemella haemolysans ATCC 10379]
          Length = 265

 Score =  134 bits (337), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 75/205 (36%), Positives = 122/205 (59%), Gaps = 11/205 (5%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L+  YDG+ Y G+Q Q +  TIQ  +EK+L    K+ ++D+RL  + RTD+GVHA+GQV 
Sbjct: 5   LLCRYDGSNYHGFQIQPNNNTIQEEIEKSL---KKINKKDVRLYMSGRTDSGVHAYGQVL 61

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           HF T  +    E+   ALN  +P DIR+   ++A  +FH R+++  K Y+YK++    +D
Sbjct: 62  HFDTDLNIPD-EAWVKALNATIPKDIRIVGATSASEDFHVRYNSTQKTYYYKLHIGREVD 120

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRF----DV 204
           PF  +Y     +  N    +EA +YF+G+HDFS+F +  +N    + V++I+      D+
Sbjct: 121 PFLLNYVGKHSFDFNFEKAQEALQYFIGEHDFSSFCS--KNSSVEDKVRTIYSLTMEKDL 178

Query: 205 IEMGALLQLEVEGSGFLYRQVRNMV 229
           I    ++  E+ G+GFLY  VR ++
Sbjct: 179 INPN-IVNFEITGNGFLYNMVRIII 202


>gi|188584870|ref|YP_001916415.1| tRNA pseudouridine synthase A [Natranaerobius thermophilus
           JW/NM-WN-LF]
 gi|229557997|sp|B2A4Q5.1|TRUA_NATTJ RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|179349557|gb|ACB83827.1| tRNA pseudouridine synthase A [Natranaerobius thermophilus
           JW/NM-WN-LF]
          Length = 253

 Score =  134 bits (337), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 85/207 (41%), Positives = 117/207 (56%), Gaps = 8/207 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L I YDG+ Y G+Q Q +  T+Q  +EKAL  V    +  +    ASRTD+GVHA GQV
Sbjct: 5   KLTIAYDGSNYHGYQLQENAVTVQEKLEKALNTVYYPYK--ITPYSASRTDSGVHAKGQV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A+F  P     +  I  ALN  LP DI +         F AR  A  K Y Y +Y+   M
Sbjct: 63  ANFFAPKQIP-IHKIPLALNTNLPNDIAIINAEVVGSNFRARRDAIKKEYRYYVYHAPYM 121

Query: 148 DPFQHHYAYH-SVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI- 205
           DPF  +YA H     L+ T +++AA  F+GKHDFS F  IQ ++ +++PVK I+ FD+  
Sbjct: 122 DPFWRNYALHYREQNLDYTKLQQAANDFIGKHDFSPFRAIQGSNPSIDPVKEIYEFDIDV 181

Query: 206 ---EMGALLQLEVEGSGFLYRQVRNMV 229
              E G L+  +V G+ FLY+ VR +V
Sbjct: 182 NAGEDGNLIIFKVIGNAFLYKMVRILV 208


>gi|229015543|ref|ZP_04172540.1| tRNA pseudouridine synthase A [Bacillus cereus AH1273]
 gi|229021754|ref|ZP_04178334.1| tRNA pseudouridine synthase A [Bacillus cereus AH1272]
 gi|228739541|gb|EEL89957.1| tRNA pseudouridine synthase A [Bacillus cereus AH1272]
 gi|228745766|gb|EEL95771.1| tRNA pseudouridine synthase A [Bacillus cereus AH1273]
          Length = 252

 Score =  134 bits (337), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 73/202 (36%), Positives = 114/202 (56%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 10  KCTVAYDGMHFCGYQIQPQHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 67

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S    +  +A LN +LP DI +R++     EFHAR+  + K Y Y++      
Sbjct: 68  IHFDTPLSLAEWQWSNA-LNTMLPDDIVIRQVEKKTEEFHARYGVEKKEYRYRVLLSKTA 126

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++I+  ++IE 
Sbjct: 127 DVFRRNYVYQYPYPLEINSIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 184

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              L     G+GFLY  VR +V
Sbjct: 185 DDELIFRFVGNGFLYNMVRIIV 206


>gi|423393405|ref|ZP_17370631.1| tRNA pseudouridine synthase A 1 [Bacillus cereus BAG1X1-3]
 gi|423421692|ref|ZP_17398781.1| tRNA pseudouridine synthase A 1 [Bacillus cereus BAG3X2-1]
 gi|401096811|gb|EJQ04848.1| tRNA pseudouridine synthase A 1 [Bacillus cereus BAG3X2-1]
 gi|401629512|gb|EJS47325.1| tRNA pseudouridine synthase A 1 [Bacillus cereus BAG1X1-3]
          Length = 247

 Score =  134 bits (337), Expect = 4e-29,   Method: Compositional matrix adjust.
 Identities = 73/202 (36%), Positives = 114/202 (56%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 5   KCTVAYDGMHFCGYQIQPQHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S    +  +A LN +LP DI +R++     EFHAR+  + K Y Y++      
Sbjct: 63  IHFDTPLSLAEWQWSNA-LNTMLPDDIVIRQVEKKTEEFHARYGVEKKEYRYRVLLSKTA 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++I+  ++IE 
Sbjct: 122 DVFRRNYVYQYPYPLEINSIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 179

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              L     G+GFLY  VR +V
Sbjct: 180 DDELIFRFVGNGFLYNMVRIIV 201


>gi|347751562|ref|YP_004859127.1| tRNA pseudouridine synthase A [Bacillus coagulans 36D1]
 gi|347584080|gb|AEP00347.1| tRNA pseudouridine synthase A [Bacillus coagulans 36D1]
          Length = 245

 Score =  134 bits (337), Expect = 4e-29,   Method: Compositional matrix adjust.
 Identities = 78/199 (39%), Positives = 110/199 (55%), Gaps = 5/199 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG+R+AG+Q Q    T+Q  +EKAL  + K     ++   + RTD GVHA GQV
Sbjct: 5   KCTVSYDGSRFAGYQVQPGQRTVQQEIEKALATLHK--GRHVKTAASGRTDAGVHAMGQV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF T  S     S  AALN LLP DI V + + A P FHAR+S K K Y Y+IY   V 
Sbjct: 63  IHFDTDLSIPET-SWPAALNSLLPGDISVSKAAYADPAFHARYSVKEKEYRYRIYFSHVR 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
            PF+H YA    Y L+   M  AAE  +G HDF++F + +      + ++++     ++ 
Sbjct: 122 SPFKHRYALRVWYSLDIEAMEAAAETVLGTHDFTSFCSAKTE--VEDKIRTLKEIRFLQQ 179

Query: 208 GALLQLEVEGSGFLYRQVR 226
              L +  +G+GFLY  VR
Sbjct: 180 DDELVICFKGNGFLYNMVR 198


>gi|238923689|ref|YP_002937205.1| tRNA pseudouridine synthase A [Eubacterium rectale ATCC 33656]
 gi|238875364|gb|ACR75071.1| tRNA pseudouridine synthase A [Eubacterium rectale ATCC 33656]
          Length = 276

 Score =  134 bits (336), Expect = 4e-29,   Method: Compositional matrix adjust.
 Identities = 81/203 (39%), Positives = 114/203 (56%), Gaps = 11/203 (5%)

Query: 27  WRLVIGYDGTRYAGWQFQTSPP-TIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++++ YDGTRY GWQ Q S   TIQ  ++  L   + L  + + ++G+ RTD GVHA G
Sbjct: 30  YKIIVAYDGTRYKGWQVQKSTDDTIQGKLQHVL---STLAGKPVEVIGSGRTDAGVHAVG 86

Query: 86  QVAHFITP--FSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYN 143
           QVA F  P  FS D    I   LN  LP DI V +IS     FHAR++A SK Y Y I+ 
Sbjct: 87  QVASFHMPKHFSKD---EIFIWLNEHLPADIAVTDISNVPDRFHARYNAVSKTYVYTIHT 143

Query: 144 DAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFD 203
             V D F+  Y Y     L+T  M++AA Y +G+HDF AF   +   ++   V++IF  D
Sbjct: 144 GIVSDVFRRKYVYDYDKPLDTDRMKKAAAYLLGEHDFKAFCGNRHMKKS--TVRTIFSID 201

Query: 204 VIEMGALLQLEVEGSGFLYRQVR 226
           + + GA + +   G GFL   +R
Sbjct: 202 IEKTGADIVISYTGDGFLQNMIR 224


>gi|329768896|ref|ZP_08260324.1| tRNA pseudouridine synthase A [Gemella sanguinis M325]
 gi|328837259|gb|EGF86896.1| tRNA pseudouridine synthase A [Gemella sanguinis M325]
          Length = 262

 Score =  134 bits (336), Expect = 4e-29,   Method: Compositional matrix adjust.
 Identities = 73/206 (35%), Positives = 120/206 (58%), Gaps = 13/206 (6%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L+  YDG+RY G+Q Q +  T+Q  +EK+L    K+ ++++R+  + RTD+GVHA+GQV 
Sbjct: 5   LICRYDGSRYHGFQIQPNNNTVQEEIEKSL---RKIHKKNVRIYMSGRTDSGVHAYGQVL 61

Query: 89  HFITPFSY--DGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           HF T  +   DG      A+N ++P DIR+        EFH R+++  K Y YK+Y    
Sbjct: 62  HFDTDLNIPTDGWVK---AINAMIPKDIRIVSAKVVNDEFHVRYNSIKKTYSYKLYLGRE 118

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI- 205
           +DPF  +Y     +  N    +EA +YF+G+HDFS+F +  +N    + V++I+ F +  
Sbjct: 119 IDPFLINYVGQHKFNFNFDKAKEALKYFIGEHDFSSFCS--KNTSVEDKVRTIYSFKMDR 176

Query: 206 --EMGALLQLEVEGSGFLYRQVRNMV 229
             +   ++  E+ G+GFLY  VR ++
Sbjct: 177 DNQNDNIINFEITGNGFLYNMVRIII 202


>gi|229053988|ref|ZP_04195422.1| tRNA pseudouridine synthase A [Bacillus cereus AH603]
 gi|228721406|gb|EEL72927.1| tRNA pseudouridine synthase A [Bacillus cereus AH603]
          Length = 252

 Score =  134 bits (336), Expect = 4e-29,   Method: Compositional matrix adjust.
 Identities = 73/202 (36%), Positives = 114/202 (56%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 10  KCTVAYDGIHFCGYQIQPQHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 67

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  +A LN +LP DI +R++     EFHAR+  + K Y Y++      
Sbjct: 68  IHFDTPLSLEEWQWSNA-LNTMLPDDIIIRQVEKKTEEFHARYGVEKKEYRYRVLLSKTA 126

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++I+   +IE 
Sbjct: 127 DVFRRNYVYQYPYPLEINSIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIGLIEQ 184

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              L     G+GFLY  VR +V
Sbjct: 185 DDELIFRFVGNGFLYNMVRIIV 206


>gi|423370724|ref|ZP_17348129.1| tRNA pseudouridine synthase A 1 [Bacillus cereus VD142]
 gi|401073460|gb|EJP81882.1| tRNA pseudouridine synthase A 1 [Bacillus cereus VD142]
          Length = 247

 Score =  134 bits (336), Expect = 4e-29,   Method: Compositional matrix adjust.
 Identities = 73/202 (36%), Positives = 115/202 (56%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 5   KCTVAYDGIHFCGYQIQPQHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  +A LN +LP DI +R++     EFHAR+  + K Y Y++      
Sbjct: 63  IHFDTPLSLEEWQWSNA-LNTMLPDDIIIRQVEKKTEEFHARYGVEKKEYRYRVLLSKPA 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++I+  ++IE 
Sbjct: 122 DVFRRNYVYQYPYPLEINSIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 179

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              L     G+GFLY  VR +V
Sbjct: 180 DDELIFRFVGNGFLYNMVRIIV 201


>gi|168216665|ref|ZP_02642290.1| tRNA pseudouridine synthase A [Clostridium perfringens NCTC 8239]
 gi|182381201|gb|EDT78680.1| tRNA pseudouridine synthase A [Clostridium perfringens NCTC 8239]
          Length = 244

 Score =  134 bits (336), Expect = 4e-29,   Method: Compositional matrix adjust.
 Identities = 81/203 (39%), Positives = 113/203 (55%), Gaps = 8/203 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L I YDGT Y GWQ Q    TIQ  VE+A+ +VTK   E++ ++G+SRTD+GVHA   V
Sbjct: 5   KLTIEYDGTSYFGWQKQPIGNTIQQKVEEAIKKVTK---EEVEILGSSRTDSGVHAKAYV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A+F T  +  G ++  AALN  LP DI +        +FHAR+    K Y Y I N    
Sbjct: 62  ANFKTNSNIPG-KNFKAALNSKLPKDIVIMNSEEVAEDFHARYMTTGKTYCYTILNREEP 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALN-PVKSIFRFDVIE 206
              + +Y YH   +L+   M+EA +YF+GKHDF AF   QR    +   V++I    +  
Sbjct: 121 PALERNYVYHVKKQLDVESMKEACKYFLGKHDFKAF---QRPGGTVKTSVRTITDIHIET 177

Query: 207 MGALLQLEVEGSGFLYRQVRNMV 229
            G  +++ V   GFLY  VR +V
Sbjct: 178 EGNKIKIYVSADGFLYNMVRLIV 200


>gi|171910331|ref|ZP_02925801.1| putative tRNA pseudouridylate synthase I [Verrucomicrobium spinosum
           DSM 4136]
          Length = 258

 Score =  134 bits (336), Expect = 4e-29,   Method: Compositional matrix adjust.
 Identities = 79/211 (37%), Positives = 111/211 (52%), Gaps = 11/211 (5%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L I YDG  + GWQ Q +  T+Q  VE AL  +T  +   + + G+ RTD GVHA  QV
Sbjct: 7   KLTIAYDGRPWRGWQSQANSVTVQDQVETALRDLTGTQ---VNVQGSGRTDAGVHALAQV 63

Query: 88  AHFITPFSYD-GLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           AH   P +   G E+   ALN  LP  IRV +   A  EFHARF A  KIY Y+++   V
Sbjct: 64  AHADVPDALKMGREAWVRALNVRLPQSIRVMDCEDAAGEFHARFDAVGKIYCYRLWRGDV 123

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFS-------AFVNIQRNDRALNPVKSI 199
           M PF+   A+H    L+  L+   A    G H+F+            +R + A    +++
Sbjct: 124 MSPFEQGRAWHVYGALDLDLLHHGAGILTGTHNFARLSANRGGMSEDERREDAEALTRTV 183

Query: 200 FRFDVIEMGALLQLEVEGSGFLYRQVRNMVN 230
            R D+I  G ++++E EG GFLY+ VR M  
Sbjct: 184 RRIDIIPEGEVIRIEFEGDGFLYKMVRLMTG 214


>gi|110799502|ref|YP_697060.1| tRNA pseudouridine synthase A [Clostridium perfringens ATCC 13124]
 gi|168205200|ref|ZP_02631205.1| tRNA pseudouridine synthase A [Clostridium perfringens E str.
           JGS1987]
 gi|168211871|ref|ZP_02637496.1| tRNA pseudouridine synthase A [Clostridium perfringens B str. ATCC
           3626]
 gi|110674149|gb|ABG83136.1| tRNA pseudouridine synthase A [Clostridium perfringens ATCC 13124]
 gi|170663322|gb|EDT16005.1| tRNA pseudouridine synthase A [Clostridium perfringens E str.
           JGS1987]
 gi|170710156|gb|EDT22338.1| tRNA pseudouridine synthase A [Clostridium perfringens B str. ATCC
           3626]
          Length = 244

 Score =  134 bits (336), Expect = 4e-29,   Method: Compositional matrix adjust.
 Identities = 81/203 (39%), Positives = 113/203 (55%), Gaps = 8/203 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L I YDGT Y GWQ Q    TIQ  VE+A+ +VTK   E++ ++G+SRTD+GVHA   V
Sbjct: 5   KLTIEYDGTSYFGWQKQPIGNTIQQKVEEAIKKVTK---EEVEILGSSRTDSGVHAKAYV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A+F T  +  G ++  AALN  LP DI +        +FHAR+    K Y Y I N    
Sbjct: 62  ANFKTNSNIPG-KNFKAALNSKLPKDIVIMNSEEVAEDFHARYMTTGKTYCYTILNREEP 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALN-PVKSIFRFDVIE 206
              + +Y YH   +L+   M+EA +YF+GKHDF AF   QR    +   V++I    +  
Sbjct: 121 PALERNYVYHVKKQLDVESMKEACKYFLGKHDFKAF---QRPGGTVKTSVRTITDIHIET 177

Query: 207 MGALLQLEVEGSGFLYRQVRNMV 229
            G  +++ V   GFLY  VR +V
Sbjct: 178 EGNKIKIYVSADGFLYNMVRLIV 200


>gi|357039717|ref|ZP_09101509.1| tRNA pseudouridine synthase A [Desulfotomaculum gibsoniae DSM 7213]
 gi|355357523|gb|EHG05296.1| tRNA pseudouridine synthase A [Desulfotomaculum gibsoniae DSM 7213]
          Length = 247

 Score =  134 bits (336), Expect = 4e-29,   Method: Compositional matrix adjust.
 Identities = 79/203 (38%), Positives = 111/203 (54%), Gaps = 7/203 (3%)

Query: 28  RLVIGYDGTRYAGWQFQ--TSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +L + YDGT Y G+Q Q  T   T+Q ++E  L R   L    +++ GA RTD GVHA G
Sbjct: 5   KLTVAYDGTNYHGFQEQRGTGLATVQEVLELCLGR---LAGRRVQVTGAGRTDAGVHALG 61

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV +F        +E I  A+NGLLP D+ V E      +FHARFSA++KIY Y I+N+ 
Sbjct: 62  QVVNFDAAGWPIPVERIPLAMNGLLPGDVVVTEAREVGQDFHARFSARAKIYRYTIWNNR 121

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           +  PF   Y+      LN   M +A ++ +G+HDF  F            V++++R +VI
Sbjct: 122 IPSPFNRLYSSFWPVPLNDEAMSQACDHLLGRHDFKCFQ--ASGATVKTTVRTLYRAEVI 179

Query: 206 EMGALLQLEVEGSGFLYRQVRNM 228
             G L+    +G GFLY  VR M
Sbjct: 180 REGTLVHFVFKGDGFLYNMVRIM 202


>gi|253701944|ref|YP_003023133.1| tRNA pseudouridine synthase A [Geobacter sp. M21]
 gi|259550393|sp|C6E4S9.1|TRUA_GEOSM RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|251776794|gb|ACT19375.1| tRNA pseudouridine synthase A [Geobacter sp. M21]
          Length = 247

 Score =  134 bits (336), Expect = 4e-29,   Method: Compositional matrix adjust.
 Identities = 82/199 (41%), Positives = 106/199 (53%), Gaps = 6/199 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L+I YDGT Y GWQ Q +  T+Q  +E+AL  +   +     L G+ RTD GVHA G V
Sbjct: 5   KLIIEYDGTAYCGWQVQPNGRTVQEALEEALASMLGGKTA---LHGSGRTDAGVHARGMV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A F T      L +    LN LLP DI VRE      EFH RF A +K Y Y +  D + 
Sbjct: 62  ACFQTDKGMP-LRAFREGLNCLLPADIAVREACEVPLEFHPRFDALAKHYRYTMLLDDLR 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
            P     A+    KL+   MR A   FVG+HDF+AF     N  A   V+ I+  D+++ 
Sbjct: 121 SPLSRLTAWRLKGKLDVDAMRSACAAFVGEHDFAAFR--ASNCAAKTTVRRIYSMDLVQE 178

Query: 208 GALLQLEVEGSGFLYRQVR 226
           G  L L+V+GSGFL   VR
Sbjct: 179 GPFLHLDVKGSGFLKNMVR 197


>gi|422347433|ref|ZP_16428345.1| tRNA pseudouridine synthase A 2 [Clostridium perfringens WAL-14572]
 gi|422875317|ref|ZP_16921802.1| tRNA pseudouridine synthase A [Clostridium perfringens F262]
 gi|373224731|gb|EHP47068.1| tRNA pseudouridine synthase A 2 [Clostridium perfringens WAL-14572]
 gi|380303847|gb|EIA16143.1| tRNA pseudouridine synthase A [Clostridium perfringens F262]
          Length = 244

 Score =  134 bits (336), Expect = 4e-29,   Method: Compositional matrix adjust.
 Identities = 81/203 (39%), Positives = 113/203 (55%), Gaps = 8/203 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L I YDGT Y GWQ Q    TIQ  VE+A+ +VTK   E++ ++G+SRTD+GVHA   V
Sbjct: 5   KLTIEYDGTSYFGWQKQPIGNTIQQKVEEAIKKVTK---EEVEILGSSRTDSGVHAKAYV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A+F T  +  G ++  AALN  LP DI +        +FHAR+    K Y Y I N    
Sbjct: 62  ANFKTNSNIPG-KNFKAALNSKLPKDIVIMNSEEVAEDFHARYMTTGKTYCYTILNREEP 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALN-PVKSIFRFDVIE 206
              + +Y YH   +L+   M+EA +YF+GKHDF AF   QR    +   V++I    +  
Sbjct: 121 PALERNYVYHVKKQLDVESMKEACKYFLGKHDFKAF---QRPGGTVKTSVRTITDIHIET 177

Query: 207 MGALLQLEVEGSGFLYRQVRNMV 229
            G  +++ V   GFLY  VR +V
Sbjct: 178 EGNKIKIYVSADGFLYNMVRLIV 200


>gi|374672511|dbj|BAL50402.1| tRNA pseudouridine synthase A [Lactococcus lactis subsp. lactis
           IO-1]
          Length = 253

 Score =  134 bits (336), Expect = 4e-29,   Method: Compositional matrix adjust.
 Identities = 74/205 (36%), Positives = 112/205 (54%), Gaps = 5/205 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDGT +AG+Q QT+  T+Q  +EK L ++   E   + L G+ RTD+GVHA+G
Sbjct: 3   RYKATIAYDGTDFAGFQSQTNQRTVQEEIEKVLTKLNSFE--PVILQGSGRTDSGVHAFG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF        LE +   L+   P DI V+++     ++HAR+    K Y Y + N  
Sbjct: 61  QVIHFDLKGKVRDLERLRFGLDTQTPADIAVKKVELVPDDWHARYQKHEKTYEYYLENSI 120

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
              PFQ H   +  Y LN   M+EA    VG+HDF+ F          + V++I++ ++I
Sbjct: 121 TRSPFQRHSKAYFRYPLNFERMQEAMSKLVGEHDFTGFT--ASGSSVDDKVRTIYQAEII 178

Query: 206 EMGAL-LQLEVEGSGFLYRQVRNMV 229
            +     +    G+GFLY+QVRNMV
Sbjct: 179 RLDEENFKFIFRGNGFLYKQVRNMV 203


>gi|283796516|ref|ZP_06345669.1| tRNA pseudouridine synthase A [Clostridium sp. M62/1]
 gi|291075930|gb|EFE13294.1| tRNA pseudouridine synthase A [Clostridium sp. M62/1]
 gi|295092580|emb|CBK78687.1| pseudouridylate synthase I [Clostridium cf. saccharolyticum K10]
          Length = 368

 Score =  134 bits (336), Expect = 4e-29,   Method: Compositional matrix adjust.
 Identities = 78/203 (38%), Positives = 117/203 (57%), Gaps = 9/203 (4%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + RL + YDGT Y GWQ Q +  TI+ ++ +AL   ++L +E++++VGASRTD+GVHA G
Sbjct: 3   RIRLTVAYDGTNYCGWQLQPNGITIEEVLNRAL---SELLKEEIQVVGASRTDSGVHAMG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
            +A F T  S    E I  ALN  LP D+RV++       FH R +   K Y YKI N  
Sbjct: 60  NIAVFDTE-SRIPPEKICFALNQRLPEDVRVQKSEEVPLTFHPRKANCVKTYEYKILNRK 118

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           +  P    Y +   + L+   MR AA + VG+HDF +F  ++   +A   V++I+    +
Sbjct: 119 IDMPLNRLYCHFCYFDLDVEKMRRAAAFLVGEHDFKSFCTVR--TQAEETVRTIYSL-TV 175

Query: 206 EMGA--LLQLEVEGSGFLYRQVR 226
           + GA  ++ + + GSGFLY  VR
Sbjct: 176 DRGADDVIVIRISGSGFLYNMVR 198


>gi|373859661|ref|ZP_09602387.1| tRNA pseudouridine synthase A [Bacillus sp. 1NLA3E]
 gi|372450656|gb|EHP24141.1| tRNA pseudouridine synthase A [Bacillus sp. 1NLA3E]
          Length = 245

 Score =  134 bits (336), Expect = 4e-29,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 120/206 (58%), Gaps = 9/206 (4%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  + Y GTR++G+Q Q +  T+Q  +EKAL ++ K     + +  + RTD GVHA G
Sbjct: 3   RYKCKVAYTGTRFSGYQVQPNKRTVQSEIEKALKKIHK--GAHIFINASGRTDAGVHAKG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV +F +  +      I  ALN +LP DI + ++     EFHARF+A  K Y Y ++  A
Sbjct: 61  QVINFDSSLAISEDRWI-IALNSVLPDDISILQVEKVPAEFHARFNAVEKEYRYFLHLSA 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVN--IQRNDRALNPVKSIFRFD 203
           + DPFQ +++Y   Y LN + +  A+ + +G HDF++F +   ++ DR    V++I + +
Sbjct: 120 IRDPFQQYFSYQYSYSLNYSDIVTASRFLIGTHDFTSFCSAKTEKEDR----VRTIHKLE 175

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
           + E   LL   V G+GFLY  VR +V
Sbjct: 176 LFEENGLLVFRVVGNGFLYNMVRILV 201


>gi|374295486|ref|YP_005045677.1| pseudouridylate synthase I [Clostridium clariflavum DSM 19732]
 gi|359824980|gb|AEV67753.1| pseudouridylate synthase I [Clostridium clariflavum DSM 19732]
          Length = 245

 Score =  134 bits (336), Expect = 4e-29,   Method: Compositional matrix adjust.
 Identities = 80/203 (39%), Positives = 114/203 (56%), Gaps = 7/203 (3%)

Query: 28  RLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           +L+I YDGT+Y GWQ    S  TIQ  +E  L   +K+  E + L+G+ RTD GVHA+ Q
Sbjct: 5   KLIIQYDGTKYRGWQKLGDSDKTIQGKLEDVL---SKMTNEKIELIGSGRTDAGVHAFKQ 61

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           VA+F T  S    E +   L   LP DI V E+      FH+R+  K K Y Y+I+N   
Sbjct: 62  VANFHTE-SKMSEEDMLDYLYRYLPQDIVVTEVVEVDERFHSRYHVKGKKYLYRIWNAKR 120

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
            +PF   Y  H    L+  LMR+AAEY VG+HDFS+F +++  +++   V+ IF  ++  
Sbjct: 121 HNPFLRKYCTHVPEPLDIDLMRKAAEYLVGEHDFSSFTSLKSKNKS--KVREIFSIEIKN 178

Query: 207 MGALLQLEVEGSGFLYRQVRNMV 229
              L+++   G GFLY   R M 
Sbjct: 179 DNELVEIMFHGDGFLYNMARIMA 201


>gi|87308089|ref|ZP_01090231.1| Pseudouridylate synthase (tRNA [Blastopirellula marina DSM 3645]
 gi|87289171|gb|EAQ81063.1| Pseudouridylate synthase (tRNA [Blastopirellula marina DSM 3645]
          Length = 260

 Score =  134 bits (336), Expect = 5e-29,   Method: Compositional matrix adjust.
 Identities = 78/213 (36%), Positives = 116/213 (54%), Gaps = 10/213 (4%)

Query: 21  SFPGFKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTG 80
             P    +L++ YDGT YAGWQ Q    TIQ  +E+ L+++T    E +R+ G+ RTD+G
Sbjct: 3   ELPERALQLIVSYDGTNYAGWQIQNDQRTIQGALERTLLKITG---EKIRVTGSGRTDSG 59

Query: 81  VHAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYK 140
           VHA GQV  F    S    + +  ALN  LPPDI V+    A+PEF+A   A  K Y Y 
Sbjct: 60  VHAIGQVVSFRMQ-SQLSPDVMRRALNAELPPDIVVQSARNAIPEFNAIDCAIKKRYRYL 118

Query: 141 IYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIF 200
           +    + D F   YA+    +LN   M+ AA++ +G+HDF++F ++      +  V+ +F
Sbjct: 119 LQEGRIDDVFSRQYAWFVKKELNFAAMQAAAQHLIGEHDFASFESV--GSERMTTVRHVF 176

Query: 201 RFDVIEMGA----LLQLEVEGSGFLYRQVRNMV 229
              V+         + +EVE +GFLY  VR +V
Sbjct: 177 DVQVLRSERHEFDKVAIEVEANGFLYNMVRIIV 209


>gi|423409809|ref|ZP_17386958.1| tRNA pseudouridine synthase A 1 [Bacillus cereus BAG2X1-3]
 gi|401652349|gb|EJS69906.1| tRNA pseudouridine synthase A 1 [Bacillus cereus BAG2X1-3]
          Length = 247

 Score =  133 bits (335), Expect = 5e-29,   Method: Compositional matrix adjust.
 Identities = 73/202 (36%), Positives = 115/202 (56%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 5   KCTVAYDGMHFYGYQIQPQHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  +A LN +LP DI +R++     EFHAR+  + K Y Y++      
Sbjct: 63  IHFDTPLSLEEWQWSNA-LNTMLPDDIVIRQVEKKTEEFHARYGVERKEYRYRVLLSKTA 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y +    +R+A  YFVG HDF++F + + + +  + V++I+  ++IE 
Sbjct: 122 DVFRRNYVYQYPYPIQIESIRKAIPYFVGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 179

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              L     G+GFLY  VR +V
Sbjct: 180 NDELIFRFVGNGFLYNMVRIIV 201


>gi|291533595|emb|CBL06708.1| pseudouridylate synthase I [Megamonas hypermegale ART12/1]
          Length = 256

 Score =  133 bits (335), Expect = 5e-29,   Method: Compositional matrix adjust.
 Identities = 80/205 (39%), Positives = 116/205 (56%), Gaps = 12/205 (5%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L + YDGT Y G+Q QT    +Q ++E AL    KL  + + L  A RTD GVHA GQV
Sbjct: 17  KLTLSYDGTNYHGFQRQTKVVAVQNVLEGALF---KLFGDSIELAAAGRTDAGVHAIGQV 73

Query: 88  AHFITPFSYDG---LESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
            +F T    DG   ++++  A N LLP DI + +   A  +F A  S KSKIY YK++ +
Sbjct: 74  VNFFT----DGTIPIQNVVRAGNRLLPDDIVLLKAEEADRDFSALHSVKSKIYIYKVFEN 129

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
            + DPF   + +H   KLN   M+EA +Y  G+HDFS+F +   ND +  P++ I+    
Sbjct: 130 ELADPFMSRFYWHVNKKLNLEDMQEALKYIEGEHDFSSFRSAGGNDTS--PIREIYEASC 187

Query: 205 IEMGALLQLEVEGSGFLYRQVRNMV 229
            +   +   +  GSGFLY  VRN++
Sbjct: 188 TKENNVYTFKFWGSGFLYHMVRNIM 212


>gi|150015077|ref|YP_001307331.1| tRNA pseudouridine synthase A [Clostridium beijerinckii NCIMB 8052]
 gi|189030131|sp|A6LPU5.1|TRUA_CLOB8 RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|149901542|gb|ABR32375.1| tRNA pseudouridine synthase A [Clostridium beijerinckii NCIMB 8052]
          Length = 244

 Score =  133 bits (335), Expect = 5e-29,   Method: Compositional matrix adjust.
 Identities = 73/202 (36%), Positives = 113/202 (55%), Gaps = 6/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L+I +DG+ + GWQ Q    TIQ ++E A+ + T    E++ + G+SRTD GVHA   V
Sbjct: 5   KLIIEFDGSNFCGWQRQPKGRTIQKVIETAIFKATG---EEIMINGSSRTDAGVHAREMV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A+F+T  S  G +    A+N  LP D+ + +      +FHAR+S+K K Y Y I N    
Sbjct: 62  ANFLTNSSIPG-DKFREAINTRLPEDVSIIKSEEVSEDFHARYSSKGKTYSYTIINRYER 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
               H Y YH  Y+L+   MR A EYF+G+HDF AF++   + +     ++I    + + 
Sbjct: 121 LSLGHQYLYHYKYRLDVNEMRRACEYFIGRHDFRAFMSPGSSIKT--TTRTIHDLYIDQN 178

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
           G  +++ +   GFLY  VR +V
Sbjct: 179 GNEIKIFITADGFLYNMVRIIV 200


>gi|15672468|ref|NP_266642.1| tRNA pseudouridine synthase A [Lactococcus lactis subsp. lactis
           Il1403]
 gi|281490978|ref|YP_003352958.1| tRNA pseudouridine synthase A [Lactococcus lactis subsp. lactis
           KF147]
 gi|385830005|ref|YP_005867818.1| tRNA pseudouridine synthase A [Lactococcus lactis subsp. lactis
           CV56]
 gi|418038482|ref|ZP_12676811.1| tRNA pseudouridine(38-40) synthase [Lactococcus lactis subsp.
           cremoris CNCM I-1631]
 gi|13878837|sp|Q9CI80.1|TRUA_LACLA RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|12723367|gb|AAK04584.1|AE006284_2 tRNA pseudouridine synthase A [Lactococcus lactis subsp. lactis
           Il1403]
 gi|281374736|gb|ADA64256.1| tRNA pseudouridine synthase A [Lactococcus lactis subsp. lactis
           KF147]
 gi|326406013|gb|ADZ63084.1| tRNA pseudouridine synthase A [Lactococcus lactis subsp. lactis
           CV56]
 gi|354693130|gb|EHE92907.1| tRNA pseudouridine(38-40) synthase [Lactococcus lactis subsp.
           cremoris CNCM I-1631]
          Length = 253

 Score =  133 bits (335), Expect = 5e-29,   Method: Compositional matrix adjust.
 Identities = 74/205 (36%), Positives = 112/205 (54%), Gaps = 5/205 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDGT +AG+Q QT+  T+Q  +EK L ++   E   + L G+ RTD+GVHA+G
Sbjct: 3   RYKATIAYDGTDFAGFQSQTNQRTVQKEIEKILTKLNSFE--PVILQGSGRTDSGVHAFG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF        LE +   L+   P DI V+++     ++HAR+    K Y Y + N  
Sbjct: 61  QVIHFDLKGKVRDLERLRFGLDTQTPADIAVKKVELVPDDWHARYQKHEKTYEYYLENSI 120

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
              PFQ H   +  Y LN   M+EA    VG+HDF+ F          + V++I++ ++I
Sbjct: 121 TRSPFQRHSKAYFRYPLNFERMQEAMSKLVGEHDFTGFT--ASGSSVDDKVRTIYQAEII 178

Query: 206 EMGAL-LQLEVEGSGFLYRQVRNMV 229
            +     +    G+GFLY+QVRNMV
Sbjct: 179 RLDEENFKFIFRGNGFLYKQVRNMV 203


>gi|85057773|ref|YP_456689.1| tRNA pseudouridine synthase A [Aster yellows witches'-broom
           phytoplasma AYWB]
 gi|123738898|sp|Q2NIY3.1|TRUA_AYWBP RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|84789878|gb|ABC65610.1| tRNA pseudouridine synthase A [Aster yellows witches'-broom
           phytoplasma AYWB]
          Length = 243

 Score =  133 bits (335), Expect = 5e-29,   Method: Compositional matrix adjust.
 Identities = 79/205 (38%), Positives = 116/205 (56%), Gaps = 9/205 (4%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
           F ++L++ YDGT Y G+Q Q    T+Q   EKAL ++T    +++    ASRTD GVH+ 
Sbjct: 4   FFYKLILSYDGTFYCGYQKQPQKKTVQQTFEKALKKMT---HQNIPTFAASRTDKGVHSQ 60

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           GQ  HF T FS    +     LN LLPPDIRVR++  A P FHAR+SAKSKIY Y +++ 
Sbjct: 61  GQTLHFQTTFSLKP-KHFQKTLNYLLPPDIRVRQMHFATPNFHARYSAKSKIYQY-VFSK 118

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
             ++ F HH+   +  K +   + +A ++  G H+F AF +     +  N  K+IF+  +
Sbjct: 119 KPLNAFNHHFQIFAD-KFDFVKITKALKFIEGTHNFFAFTS---ETQPKNFSKTIFQASL 174

Query: 205 IEMGALLQLEVEGSGFLYRQVRNMV 229
            E      L   G+GFL   +R +V
Sbjct: 175 KETVHKYILVFHGNGFLKYMIRFLV 199


>gi|258513673|ref|YP_003189895.1| tRNA pseudouridine synthase A [Desulfotomaculum acetoxidans DSM
           771]
 gi|257777378|gb|ACV61272.1| tRNA pseudouridine synthase A [Desulfotomaculum acetoxidans DSM
           771]
          Length = 250

 Score =  133 bits (335), Expect = 5e-29,   Method: Compositional matrix adjust.
 Identities = 75/205 (36%), Positives = 114/205 (55%), Gaps = 7/205 (3%)

Query: 24  GFKWRLVIGYDGTRYAGWQFQTSP--PTIQCIVEKALIRVTKLEREDLRLVGASRTDTGV 81
           G   ++++ YDGT Y G+Q Q     PTIQ ++++ L   + L +E + +  A RTD+GV
Sbjct: 4   GRNIKVILAYDGTNYHGFQIQKGKRLPTIQGVLQREL---SHLAKETITVTTAGRTDSGV 60

Query: 82  HAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKI 141
           HA GQV +F T      ++ +  ALN +LPPDIR          FHAR+SA +K Y Y I
Sbjct: 61  HARGQVFNFFTGNWQIPVDRVIYALNSVLPPDIRALSAEEVDLGFHARYSALAKTYCYYI 120

Query: 142 YNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFR 201
             D ++ PF   Y+Y   Y L+   MR+A  +  G+HDF +F  +       + +++I++
Sbjct: 121 SRDQIVSPFTRLYSYQYNYPLDLDDMRQAVLHITGEHDFKSF--MASGSLVKSTIRTIYQ 178

Query: 202 FDVIEMGALLQLEVEGSGFLYRQVR 226
            D+IE   +L     G+GFLY  VR
Sbjct: 179 IDLIEKDKMLIFTFRGNGFLYHMVR 203


>gi|337286733|ref|YP_004626206.1| tRNA pseudouridine synthase A [Thermodesulfatator indicus DSM
           15286]
 gi|335359561|gb|AEH45242.1| tRNA pseudouridine synthase A [Thermodesulfatator indicus DSM
           15286]
          Length = 266

 Score =  133 bits (335), Expect = 5e-29,   Method: Compositional matrix adjust.
 Identities = 77/205 (37%), Positives = 113/205 (55%), Gaps = 9/205 (4%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L I YDGT Y GWQ Q   PTIQ ++E  L R   L    ++L  A RTD GVHA GQV
Sbjct: 5   KLTISYDGTNYLGWQKQKVGPTIQGVLEDTLKR---LLGHKIKLRAAGRTDAGVHALGQV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A+F+T      LE +H ALN LLP DI + ++     +F+A++ A+ K Y Y+IYN  + 
Sbjct: 62  ANFLTTNKM-ALEDMHRALNALLPRDISIVKVEEVPIKFNAQYDARYKTYFYQIYNHPIR 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFD---V 204
           +P    Y++    KL+   M+     FVG+ DF++F       +    V+++   +   V
Sbjct: 121 NPIVRLYSWWVPQKLDIEAMKACVPLFVGQKDFASFKKAGTETK--TTVRTVLSAELKRV 178

Query: 205 IEMGALLQLEVEGSGFLYRQVRNMV 229
             +  +L+ E+ G GFL   VRN+V
Sbjct: 179 PGVAGMLRFEISGRGFLRYMVRNIV 203


>gi|402554270|ref|YP_006595541.1| tRNA pseudouridine synthase A [Bacillus cereus FRI-35]
 gi|401795480|gb|AFQ09339.1| tRNA pseudouridine synthase A [Bacillus cereus FRI-35]
          Length = 252

 Score =  133 bits (335), Expect = 5e-29,   Method: Compositional matrix adjust.
 Identities = 72/202 (35%), Positives = 114/202 (56%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 10  KCTVAYDGMHFCGYQIQPQHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 67

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  + ALN +LP DI + ++     EFHAR+  + K Y Y++      
Sbjct: 68  IHFDTPLSLEEWQ-WNNALNTMLPDDIVITQVEKKTEEFHARYGVERKEYRYRVLLSKTA 126

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++I+  ++IE 
Sbjct: 127 DVFRRNYVYQYPYPLEINAIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 184

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              L     G+GFLY  VR +V
Sbjct: 185 DDELIFRFVGNGFLYNMVRIIV 206


>gi|375086470|ref|ZP_09732877.1| tRNA pseudouridine synthase A [Megamonas funiformis YIT 11815]
 gi|374564815|gb|EHR36095.1| tRNA pseudouridine synthase A [Megamonas funiformis YIT 11815]
          Length = 256

 Score =  133 bits (335), Expect = 5e-29,   Method: Compositional matrix adjust.
 Identities = 80/205 (39%), Positives = 116/205 (56%), Gaps = 12/205 (5%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L + YDGT Y G+Q QT    +Q ++E AL    KL  + + L  A RTD GVHA GQV
Sbjct: 17  KLTLSYDGTNYHGFQRQTKVVAVQNVLEGALF---KLFGDSIELAAAGRTDAGVHAIGQV 73

Query: 88  AHFITPFSYDG---LESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
            +F T    DG   ++++  A N LLP DI + +   A  +F A  S KSKIY YK++ +
Sbjct: 74  VNFFT----DGTIPIQNVVRAGNRLLPDDIVLLKAEEADRDFSALHSVKSKIYIYKVFEN 129

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
            + DPF   + +H   KLN   M+EA +Y  G+HDFS+F +   ND +  P++ I+    
Sbjct: 130 ELADPFMSRFYWHVNKKLNLEDMQEALKYIEGEHDFSSFRSAGGNDTS--PIREIYEASC 187

Query: 205 IEMGALLQLEVEGSGFLYRQVRNMV 229
            +   +   +  GSGFLY  VRN++
Sbjct: 188 TKENNVYTFKFWGSGFLYHMVRNIM 212


>gi|294055498|ref|YP_003549156.1| tRNA pseudouridine synthase A [Coraliomargarita akajimensis DSM
           45221]
 gi|293614831|gb|ADE54986.1| tRNA pseudouridine synthase A [Coraliomargarita akajimensis DSM
           45221]
          Length = 250

 Score =  133 bits (335), Expect = 6e-29,   Method: Compositional matrix adjust.
 Identities = 78/210 (37%), Positives = 113/210 (53%), Gaps = 6/210 (2%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
            +W+ +  YDGT + GWQ Q +   +Q ++E AL ++  L    L+  G+ RTD GVHA 
Sbjct: 1   MRWKCICSYDGTDFEGWQRQRNGLAVQNVLEAALSQIFNLP---LKTHGSGRTDAGVHAR 57

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           GQ  HF   + +D  + I A L+ +LP  +R+  I      FHAR SA  K Y Y+ Y+ 
Sbjct: 58  GQCFHFDGDWPHDTGKLIRA-LHSILPKSLRIERIDLVDERFHARHSAIGKRYVYR-YHL 115

Query: 145 AVMDPFQHHYAYHSV-YKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFD 203
               P +  Y +      +N   M+EAA   VG HDFSA+      D   NPVK+++R D
Sbjct: 116 GRAHPLEQRYVWACRDTAINFGAMQEAALRLVGTHDFSAYGATHGKDSDPNPVKNVYRLD 175

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMVNHSY 233
           +++ G  + L  EGSG+LYR VR+     Y
Sbjct: 176 LVKHGRQIILTTEGSGYLYRMVRSFAGALY 205


>gi|196041154|ref|ZP_03108450.1| tRNA pseudouridine synthase A [Bacillus cereus NVH0597-99]
 gi|196028089|gb|EDX66700.1| tRNA pseudouridine synthase A [Bacillus cereus NVH0597-99]
          Length = 252

 Score =  133 bits (335), Expect = 6e-29,   Method: Compositional matrix adjust.
 Identities = 72/202 (35%), Positives = 114/202 (56%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 10  KCTVAYDGMHFCGYQIQPQHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 67

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  +A LN +LP DI + ++     EFHAR+  + K Y Y++      
Sbjct: 68  IHFDTPLSLEEWQWSNA-LNTMLPDDIVITQVEKKTEEFHARYGVERKEYRYRVLVSKTA 126

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++I+  ++IE 
Sbjct: 127 DVFRRNYVYQYPYSLEVNSIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 184

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              L     G+GFLY  VR +V
Sbjct: 185 DDELIFRFVGNGFLYNMVRIIV 206


>gi|310659467|ref|YP_003937188.1| tRNA pseudouridine synthase A 1 (tRNA-uridine isomerase I 1) (tRNA
           pseudouridylate synthase I 1) [[Clostridium]
           sticklandii]
 gi|308826245|emb|CBH22283.1| tRNA pseudouridine synthase A 1 (tRNA-uridine isomerase I 1) (tRNA
           pseudouridylate synthase I 1) [[Clostridium]
           sticklandii]
          Length = 249

 Score =  133 bits (335), Expect = 6e-29,   Method: Compositional matrix adjust.
 Identities = 74/201 (36%), Positives = 113/201 (56%), Gaps = 6/201 (2%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           ++I YDGT Y GWQ Q +  ++Q  +EKA+ +VTK + +   + G+ RTD  VHA GQVA
Sbjct: 6   ILIEYDGTNYNGWQRQPNAASVQEEIEKAIYKVTKKQTD---IYGSGRTDAKVHALGQVA 62

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +F T  S    E    ALN  LP DI +        EFH+R+SAK K Y Y++ N  V  
Sbjct: 63  NFHTD-SAIPTEKFAVALNTNLPDDIVILNSIEVPEEFHSRYSAKVKTYRYRVLNTPVRR 121

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
           P + +YAYH    L+  +++  A+  +G+HDF AF +          +++I+   + +  
Sbjct: 122 PIERNYAYHVREDLDLDIIKTMAKLLIGEHDFKAFSS--SGSSVKTTIRTIYDIKITKEN 179

Query: 209 ALLQLEVEGSGFLYRQVRNMV 229
            +++ E  G+GFLY  VR +V
Sbjct: 180 DIIEFEFTGNGFLYNMVRIIV 200


>gi|42779223|ref|NP_976470.1| tRNA pseudouridine synthase A [Bacillus cereus ATCC 10987]
 gi|51316699|sp|Q73F64.1|TRUA1_BACC1 RecName: Full=tRNA pseudouridine synthase A 1; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I 1; AltName: Full=tRNA-uridine
           isomerase I 1
 gi|42735138|gb|AAS39078.1| tRNA pseudouridine synthase A [Bacillus cereus ATCC 10987]
          Length = 247

 Score =  133 bits (335), Expect = 6e-29,   Method: Compositional matrix adjust.
 Identities = 72/202 (35%), Positives = 114/202 (56%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 5   KCTVAYDGMHFCGYQIQPQHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  + ALN +LP DI + ++     EFHAR+  + K Y Y++      
Sbjct: 63  IHFDTPLSLEEWQW-NNALNTMLPDDIVITQVEKKTEEFHARYGVERKEYRYRVLLSKTA 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++I+  ++IE 
Sbjct: 122 DVFRRNYVYQYPYPLEINAIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 179

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              L     G+GFLY  VR +V
Sbjct: 180 DDELIFRFVGNGFLYNMVRIIV 201


>gi|423399415|ref|ZP_17376613.1| tRNA pseudouridine synthase A 1 [Bacillus cereus BAG2X1-1]
 gi|401644515|gb|EJS62205.1| tRNA pseudouridine synthase A 1 [Bacillus cereus BAG2X1-1]
          Length = 247

 Score =  133 bits (335), Expect = 6e-29,   Method: Compositional matrix adjust.
 Identities = 73/202 (36%), Positives = 115/202 (56%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 5   KCTVAYDGMHFYGYQIQPQHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  +A LN +LP DI +R++     EFHAR+  + K Y Y++      
Sbjct: 63  IHFDTPLSLEEWQWSNA-LNTMLPDDIVIRQVEKKTEEFHARYGVERKEYRYRVLLSKTA 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y +    +R+A  YFVG HDF++F + + + +  + V++I+  ++IE 
Sbjct: 122 DVFRRNYVYQYPYPIQIESIRKAIPYFVGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 179

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              L     G+GFLY  VR +V
Sbjct: 180 DDELIFRFVGNGFLYNMVRIIV 201


>gi|338733784|ref|YP_004672257.1| tRNA pseudouridine synthase A 1 [Simkania negevensis Z]
 gi|336483167|emb|CCB89766.1| tRNA pseudouridine synthase A 1 [Simkania negevensis Z]
          Length = 245

 Score =  133 bits (335), Expect = 6e-29,   Method: Compositional matrix adjust.
 Identities = 74/205 (36%), Positives = 112/205 (54%), Gaps = 8/205 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           K+++ + YDG  + GWQ Q +  +IQ  +++       L  E + ++G+ RTD GVHA  
Sbjct: 3   KYKITLSYDGYPFGGWQIQPNTSSIQGHLQQVF---ELLIGEPITVIGSGRTDAGVHAKK 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVAHF T        +     N  LP +IR+  I      FHARFSA  K YHY I    
Sbjct: 60  QVAHFETEKELPS--TFLDDANSKLPSEIRLLSIEKVEANFHARFSAVQKTYHYHISTAP 117

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           V+ PF+  Y  H  Y+++   +++A +YF+G HDFS+F N        +P+K++   + +
Sbjct: 118 VLSPFECRYRTHLYYEMDLENLQQALKYFIGTHDFSSFAN--ERGTPCSPIKTLHALNYV 175

Query: 206 EMG-ALLQLEVEGSGFLYRQVRNMV 229
             G    +LE  G+GFLY+ VRN+V
Sbjct: 176 PEGDGKFRLEFTGNGFLYKMVRNLV 200


>gi|167767771|ref|ZP_02439824.1| hypothetical protein CLOSS21_02306 [Clostridium sp. SS2/1]
 gi|167710510|gb|EDS21089.1| tRNA pseudouridine synthase A [Clostridium sp. SS2/1]
 gi|291558888|emb|CBL37688.1| pseudouridylate synthase I [butyrate-producing bacterium SSC/2]
          Length = 252

 Score =  133 bits (335), Expect = 6e-29,   Method: Compositional matrix adjust.
 Identities = 76/204 (37%), Positives = 115/204 (56%), Gaps = 12/204 (5%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L++ YDGT Y GWQ Q +  T++ ++ K    +++L  ED++++GASRTD+GVHA G V
Sbjct: 5   KLIVAYDGTGYCGWQVQPNEITVEGVLNK---HISELTGEDIKVIGASRTDSGVHALGNV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A F T     G E +  ALN  LP DI +++      ++H RF    K Y Y  YN    
Sbjct: 62  AVFDTESRIPG-EKMAKALNARLPEDIIIQDSKEVPLDYHPRFQDTRKTYEYTFYNARYD 120

Query: 148 DPF---QHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
           +P     HH+ Y     L+   M+EAA YF+G+H F +  + +   +  + V+ I+  DV
Sbjct: 121 NPVTSRHHHFVY---VPLDVEKMKEAASYFLGEHCFISMCSSKA--QVTSYVREIYECDV 175

Query: 205 IEMGALLQLEVEGSGFLYRQVRNM 228
            + G  +++ V GSGFLY  VR M
Sbjct: 176 TQNGRYIKMRVTGSGFLYNMVRLM 199


>gi|337293193|emb|CCB91184.1| trNA pseudouridine synthase A 2 [Waddlia chondrophila 2032/99]
          Length = 254

 Score =  133 bits (334), Expect = 6e-29,   Method: Compositional matrix adjust.
 Identities = 79/209 (37%), Positives = 117/209 (55%), Gaps = 11/209 (5%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
           F + L I YDGT + GWQ     P+I+  ++KAL  + K   E+++L GASRTD GVHA 
Sbjct: 5   FNFLLTIAYDGTPFLGWQETKEGPSIEGELKKALRIILK---EEIKLNGASRTDAGVHAL 61

Query: 85  GQVAHFIT---PFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKI 141
           GQ+A+F T   P  +  L+SI    N LLP +I+V  I      FHA      K Y Y++
Sbjct: 62  GQLANFHTTKKPHLFTLLKSI----NALLPDEIKVTAIEEVEASFHATLDNTGKQYRYRL 117

Query: 142 YNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFR 201
               V  P   H  +H   KL+   MR AA+   G HDF AF N+++ND   + ++++ +
Sbjct: 118 SFGPVQFPHVRHREWHIPGKLDIETMRLAAKSLEGTHDFKAFCNVKKNDTYDSTIRTLSK 177

Query: 202 FDVIEM-GALLQLEVEGSGFLYRQVRNMV 229
             + E+    L++ +EG+ FLY+  RN+V
Sbjct: 178 LSLAELENDTLEVIMEGNHFLYKMARNIV 206


>gi|206978041|ref|ZP_03238926.1| tRNA pseudouridine synthase A [Bacillus cereus H3081.97]
 gi|217957717|ref|YP_002336261.1| tRNA pseudouridine synthase A [Bacillus cereus AH187]
 gi|229136988|ref|ZP_04265615.1| tRNA pseudouridine synthase A [Bacillus cereus BDRD-ST26]
 gi|375282240|ref|YP_005102675.1| tRNA pseudouridine synthase A [Bacillus cereus NC7401]
 gi|206743754|gb|EDZ55176.1| tRNA pseudouridine synthase A [Bacillus cereus H3081.97]
 gi|217063029|gb|ACJ77279.1| tRNA pseudouridine synthase A [Bacillus cereus AH187]
 gi|228646526|gb|EEL02733.1| tRNA pseudouridine synthase A [Bacillus cereus BDRD-ST26]
 gi|358350763|dbj|BAL15935.1| tRNA pseudouridine synthase A [Bacillus cereus NC7401]
          Length = 252

 Score =  133 bits (334), Expect = 6e-29,   Method: Compositional matrix adjust.
 Identities = 72/202 (35%), Positives = 114/202 (56%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 10  KCTVAYDGMHFCGYQIQPQHRTVQQEIEKALQKLHKGEL--IRVQASGRTDSTVHAKGQV 67

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  +A LN +LP DI + ++     EFHAR+  + K Y Y++      
Sbjct: 68  IHFDTPLSLEEWQWSNA-LNTMLPDDIVITQVEKKTEEFHARYGVERKEYRYRVLLSKTA 126

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++I+  ++IE 
Sbjct: 127 DVFRRNYVYQYPYPLEINAIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 184

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              L     G+GFLY  VR +V
Sbjct: 185 DDELIFRFVGNGFLYNMVRIIV 206


>gi|197302933|ref|ZP_03167984.1| hypothetical protein RUMLAC_01661 [Ruminococcus lactaris ATCC
           29176]
 gi|197298014|gb|EDY32563.1| tRNA pseudouridine synthase A [Ruminococcus lactaris ATCC 29176]
          Length = 297

 Score =  133 bits (334), Expect = 6e-29,   Method: Compositional matrix adjust.
 Identities = 75/201 (37%), Positives = 109/201 (54%), Gaps = 6/201 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + RL + YDGT Y GWQ Q +  TI+  +   L   T+L  + ++++GASRTD GVHA G
Sbjct: 28  RIRLTVAYDGTDYCGWQVQNNVATIEGELNTVL---TQLTGQTVKVIGASRTDAGVHARG 84

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
            VA F T  S    E    A+N LLP DI V +      ++H R     K Y Y++ N  
Sbjct: 85  NVAVFDTESSIPP-ERFLYAVNALLPEDIVVVDSCEVAADWHPRHCNTEKTYEYRVLNQK 143

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           + DP +    Y   + L+   MR+AA Y  G+HDF +F N+  +    + V++I+R +VI
Sbjct: 144 LPDPMRRRDTYFVSFPLDLERMRQAAGYLEGEHDFKSFCNVHTH--VEDTVRTIYRLEVI 201

Query: 206 EMGALLQLEVEGSGFLYRQVR 226
               ++   V G+GFLY  VR
Sbjct: 202 REENVITFRVRGNGFLYNMVR 222


>gi|297620993|ref|YP_003709130.1| tRNA pseudouridine synthase A [Waddlia chondrophila WSU 86-1044]
 gi|297376294|gb|ADI38124.1| tRNA pseudouridine synthase A [Waddlia chondrophila WSU 86-1044]
          Length = 254

 Score =  133 bits (334), Expect = 6e-29,   Method: Compositional matrix adjust.
 Identities = 79/209 (37%), Positives = 118/209 (56%), Gaps = 11/209 (5%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
           F + L I YDGT + GWQ     P+I+  ++KAL  + K   E+++L GASRTD GVHA 
Sbjct: 5   FNFLLTIAYDGTPFLGWQETKEGPSIEGELKKALRIILK---EEIKLNGASRTDAGVHAL 61

Query: 85  GQVAHFIT---PFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKI 141
           GQ+A+F T   P  +  L+SI    N LLP +I+V  I      FHA  +   K Y Y++
Sbjct: 62  GQLANFHTTKKPHLFTLLKSI----NALLPGEIKVTAIEEVEASFHATLNNTGKQYRYRL 117

Query: 142 YNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFR 201
               V  P   H  +H   KL+   MR AA+   G HDF AF N+++ND   + ++++ +
Sbjct: 118 SFGPVQFPHVRHREWHIPGKLDIEAMRLAAKSLEGTHDFKAFCNVKKNDTYDSTIRTLSK 177

Query: 202 FDVIEM-GALLQLEVEGSGFLYRQVRNMV 229
             + E+    L++ +EG+ FLY+  RN+V
Sbjct: 178 LSLAELENDTLEVIMEGNHFLYKMARNIV 206


>gi|333396575|ref|ZP_08478392.1| tRNA pseudouridine synthase A [Lactobacillus coryniformis subsp.
           coryniformis KCTC 3167]
          Length = 261

 Score =  133 bits (334), Expect = 7e-29,   Method: Compositional matrix adjust.
 Identities = 82/210 (39%), Positives = 113/210 (53%), Gaps = 10/210 (4%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLV--GASRTDTGVH 82
            ++++ I YDGT++AG+Q Q    T+Q ++EKA   V  + +   R+V  G+ RTD GVH
Sbjct: 2   LRYKVTIAYDGTQFAGFQLQVKQRTVQGVMEKA---VRTIAKSPTRIVVNGSGRTDAGVH 58

Query: 83  AWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIY 142
           A GQV HF  PF      ++  ALN LLP D+ V++   A P FHAR+    K Y Y++ 
Sbjct: 59  ALGQVVHFDFPFVLPA-AAMLKALNSLLPLDVVVKDCQVADPGFHARYDTTGKRYVYRVS 117

Query: 143 NDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRF 202
                DPF+  Y  H  Y L+   +  A   F+G HDFS+F          N V++IF  
Sbjct: 118 RGYYTDPFRRFYTGHWKYALDVDKIELALTDFIGTHDFSSFA--ASGGSIKNKVRTIFAA 175

Query: 203 DVIEMGALLQL--EVEGSGFLYRQVRNMVN 230
            V E  A  +L  E  G+GFLY  VR MV 
Sbjct: 176 TVTEDPASDELIFEFYGNGFLYNMVRIMVG 205


>gi|423357567|ref|ZP_17335162.1| tRNA pseudouridine synthase A 1 [Bacillus cereus IS075]
 gi|423376266|ref|ZP_17353580.1| tRNA pseudouridine synthase A 1 [Bacillus cereus AND1407]
 gi|423572574|ref|ZP_17548753.1| tRNA pseudouridine synthase A 1 [Bacillus cereus MSX-A12]
 gi|401074433|gb|EJP82833.1| tRNA pseudouridine synthase A 1 [Bacillus cereus IS075]
 gi|401088723|gb|EJP96905.1| tRNA pseudouridine synthase A 1 [Bacillus cereus AND1407]
 gi|401195972|gb|EJR02920.1| tRNA pseudouridine synthase A 1 [Bacillus cereus MSX-A12]
          Length = 247

 Score =  133 bits (334), Expect = 7e-29,   Method: Compositional matrix adjust.
 Identities = 72/202 (35%), Positives = 114/202 (56%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 5   KCTVAYDGMHFCGYQIQPQHRTVQQEIEKALQKLHKGEL--IRVQASGRTDSTVHAKGQV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  +A LN +LP DI + ++     EFHAR+  + K Y Y++      
Sbjct: 63  IHFDTPLSLEEWQWSNA-LNTMLPDDIVITQVEKKTEEFHARYGVERKEYRYRVLLSKTA 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++I+  ++IE 
Sbjct: 122 DVFRRNYVYQYPYPLEINAIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 179

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              L     G+GFLY  VR +V
Sbjct: 180 DDELIFRFVGNGFLYNMVRIIV 201


>gi|423614568|ref|ZP_17590425.1| tRNA pseudouridine synthase A 1 [Bacillus cereus VD107]
 gi|401237412|gb|EJR43864.1| tRNA pseudouridine synthase A 1 [Bacillus cereus VD107]
          Length = 247

 Score =  133 bits (334), Expect = 7e-29,   Method: Compositional matrix adjust.
 Identities = 73/202 (36%), Positives = 114/202 (56%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 5   KCTVAYDGIHFCGYQIQPQHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  +A LN +LP DI +R+      EFHAR+  + K Y Y++      
Sbjct: 63  IHFDTPLSLEEWQWSNA-LNTMLPDDIVIRQAEKKTEEFHARYGVEKKEYRYRVLLSKTA 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + +   ++ V++I+  ++IE 
Sbjct: 122 DVFRRNYVYQYPYPLEIESIRKAIPYFIGTHDFTSFCSAKTD--KVDKVRTIYEIELIEQ 179

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              L     G+GFLY  VR +V
Sbjct: 180 DDELIFRFVGNGFLYNMVRIIV 201


>gi|65317587|ref|ZP_00390546.1| COG0101: Pseudouridylate synthase [Bacillus anthracis str. A2012]
 gi|376264171|ref|YP_005116883.1| tRNA pseudouridine synthase A [Bacillus cereus F837/76]
 gi|386734008|ref|YP_006207189.1| tRNA pseudouridine synthase A 1 [Bacillus anthracis str. H9401]
 gi|364509971|gb|AEW53370.1| tRNA pseudouridine synthase A [Bacillus cereus F837/76]
 gi|384383860|gb|AFH81521.1| tRNA pseudouridine synthase A 1 [Bacillus anthracis str. H9401]
          Length = 257

 Score =  133 bits (334), Expect = 7e-29,   Method: Compositional matrix adjust.
 Identities = 72/202 (35%), Positives = 114/202 (56%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 15  KCTVAYDGMHFCGYQIQPQHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 72

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  +A LN +LP DI + ++     EFHAR+  + K Y Y++      
Sbjct: 73  IHFDTPLSLEEWQWSNA-LNTMLPDDIVITQVEKKTEEFHARYGVERKEYRYRVLVSKTA 131

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++I+  ++IE 
Sbjct: 132 DVFRRNYVYQYPYPLEVNSIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 189

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              L     G+GFLY  VR +V
Sbjct: 190 DDELIFRFVGNGFLYNMVRIIV 211


>gi|18311353|ref|NP_563287.1| tRNA pseudouridine synthase A [Clostridium perfringens str. 13]
 gi|42559846|sp|Q8XHV5.1|TRUA2_CLOPE RecName: Full=tRNA pseudouridine synthase A 2; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I 2; AltName: Full=tRNA-uridine
           isomerase I 2
 gi|18146037|dbj|BAB82077.1| tRNA-pseudouridine synthase I [Clostridium perfringens str. 13]
          Length = 244

 Score =  133 bits (334), Expect = 7e-29,   Method: Compositional matrix adjust.
 Identities = 81/203 (39%), Positives = 113/203 (55%), Gaps = 8/203 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L I YDGT Y GWQ Q    TIQ  VE+A+ +VTK   E++ ++G+SRTD+GVHA   V
Sbjct: 5   KLTIEYDGTSYFGWQKQPIGNTIQQKVEEAIKKVTK---EEVEILGSSRTDSGVHAKAYV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A+F T  +  G ++  AALN  LP DI +        +FHAR+    K Y Y I N    
Sbjct: 62  ANFKTNSNIPG-KNFKAALNSKLPKDIVIINSEEVAEDFHARYMTTGKTYCYTILNREEP 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALN-PVKSIFRFDVIE 206
              + +Y YH   +L+   M+EA +YF+GKHDF AF   QR    +   V++I    +  
Sbjct: 121 PALERNYVYHVKKQLDVESMKEACKYFLGKHDFKAF---QRPGGTVKTSVRTITDIHIET 177

Query: 207 MGALLQLEVEGSGFLYRQVRNMV 229
            G  +++ V   GFLY  VR +V
Sbjct: 178 EGNKIKIYVSADGFLYNMVRLIV 200


>gi|374851921|dbj|BAL54867.1| tRNA pseudouridine synthase A [uncultured Acidobacteria bacterium]
          Length = 244

 Score =  133 bits (334), Expect = 7e-29,   Method: Compositional matrix adjust.
 Identities = 76/203 (37%), Positives = 110/203 (54%), Gaps = 6/203 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L++ YDGT + GWQ Q    T+Q ++   L   ++LE   + + GA RTD GVHA GQV
Sbjct: 5   KLLLQYDGTDFYGWQIQAEARTVQGVLTDVL---SRLEHRPVTVHGAGRTDRGVHAHGQV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A           E    ALN  LPPD+RV  +    P+FHAR+SA SK Y Y +    V+
Sbjct: 62  ASVFLTREMSEAE-WQRALNANLPPDVRVMAVEFVPPDFHARYSAVSKTYRYTLCLGPVL 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
            PF + Y +H  + L+   MREA E  +G+HDF++F   +R  +    V+ +    +   
Sbjct: 121 SPFLYRYVHHFPFPLDLAAMREALEVIIGEHDFASFGTRERAGK--TTVRRVHEARLWCE 178

Query: 208 GALLQLEVEGSGFLYRQVRNMVN 230
           G LL LE+  +GFL   VR ++ 
Sbjct: 179 GDLLHLEITANGFLRYMVRTLMG 201


>gi|377556458|ref|ZP_09786163.1| tRNA pseudouridine synthase A [Lactobacillus gastricus PS3]
 gi|376168386|gb|EHS87160.1| tRNA pseudouridine synthase A [Lactobacillus gastricus PS3]
          Length = 260

 Score =  133 bits (334), Expect = 7e-29,   Method: Compositional matrix adjust.
 Identities = 75/209 (35%), Positives = 118/209 (56%), Gaps = 9/209 (4%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
           +++++   YDG  ++G+Q Q    T++  ++ A+ ++ K     L ++G+ RTD GVHA 
Sbjct: 2   YRYKITFAYDGAGFSGFQIQPHKRTVEQTLKTAVNKIAKNPDPPLHVIGSGRTDAGVHAL 61

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
            QVAHF  P+     ES+  ALN +LP DI V++      +FHAR+   SK Y Y++   
Sbjct: 62  NQVAHFDMPYLIPD-ESMRKALNSILPLDILVKKAERVPNDFHARYDTHSKRYRYRVDQG 120

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFV----NIQRNDRALNPVKSIF 200
             ++PF+  Y  H  Y L+   M+ AA+  +G+HDF++FV      Q N R ++ V  + 
Sbjct: 121 EFVNPFKRLYTAHYKYPLDLAKMQRAAQDLLGEHDFTSFVASGSQAQSNVRRIDDV--LV 178

Query: 201 RFDVIEMGALLQLEVEGSGFLYRQVRNMV 229
           + D I    +   E EG+GFLY QVR MV
Sbjct: 179 KRDEINHEVI--FEFEGNGFLYNQVRIMV 205


>gi|300119545|ref|ZP_07057089.1| tRNA pseudouridine synthase A [Bacillus cereus SJ1]
 gi|298723017|gb|EFI63915.1| tRNA pseudouridine synthase A [Bacillus cereus SJ1]
          Length = 252

 Score =  133 bits (334), Expect = 7e-29,   Method: Compositional matrix adjust.
 Identities = 72/202 (35%), Positives = 114/202 (56%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 10  KCTVAYDGMHFCGYQIQPQHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 67

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  +A LN +LP DI + ++     EFHAR+  + K Y Y++      
Sbjct: 68  IHFDTPLSLEEWQWSNA-LNTMLPDDIVITQVEKKTEEFHARYGVERKEYRYRVLVSKTA 126

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++I+  ++IE 
Sbjct: 127 DVFRRNYVYQYPYPLEVNSIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 184

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              L     G+GFLY  VR +V
Sbjct: 185 DDELIFRFVGNGFLYNMVRIIV 206


>gi|375091938|ref|ZP_09738226.1| tRNA pseudouridine synthase A [Helcococcus kunzii ATCC 51366]
 gi|374562825|gb|EHR34152.1| tRNA pseudouridine synthase A [Helcococcus kunzii ATCC 51366]
          Length = 242

 Score =  133 bits (334), Expect = 8e-29,   Method: Compositional matrix adjust.
 Identities = 76/202 (37%), Positives = 117/202 (57%), Gaps = 7/202 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L I YDG+++ G+Q Q    T+Q  +E+A+ +VT    ED+ ++ A RTDTGVHA   V
Sbjct: 5   KLEISYDGSKFFGFQIQPDVRTVQGELEEAIKKVTG---EDITIISAGRTDTGVHAKSHV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           ++FIT      + S    L   L  DI V+  +    +F+AR+ AKSK Y Y IYND   
Sbjct: 62  SNFITKNDMPAM-SYKYKLRLFLSDDIIVQNSTEVDLDFNARYDAKSKTYRYIIYNDRKF 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
            P+ + Y  H  +KL+   M EA++  +G+HDFSAF+ + ++    NPV+ I + D+ ++
Sbjct: 121 YPYFNDYKLHIKHKLDIDKMIEASKLLIGRHDFSAFMKLGQDK---NPVRKIDKIDIYKV 177

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              + LE     FL+ Q+R MV
Sbjct: 178 DKEIYLEFTAKSFLHNQIRIMV 199


>gi|170689686|ref|ZP_02880864.1| tRNA pseudouridine synthase A [Bacillus anthracis str. A0465]
 gi|177656196|ref|ZP_02937177.1| tRNA pseudouridine synthase A [Bacillus anthracis str. A0174]
 gi|190567334|ref|ZP_03020248.1| tRNA pseudouridine synthase A [Bacillus anthracis str.
           Tsiankovskii-I]
 gi|196036037|ref|ZP_03103438.1| tRNA pseudouridine synthase A [Bacillus cereus W]
 gi|218901347|ref|YP_002449181.1| tRNA pseudouridine synthase A [Bacillus cereus AH820]
 gi|225862194|ref|YP_002747572.1| tRNA pseudouridine synthase A [Bacillus cereus 03BB102]
 gi|227812815|ref|YP_002812824.1| tRNA pseudouridine synthase A [Bacillus anthracis str. CDC 684]
 gi|228912881|ref|ZP_04076528.1| tRNA pseudouridine synthase A [Bacillus thuringiensis serovar
           pulsiensis BGSC 4CC1]
 gi|228925395|ref|ZP_04088491.1| tRNA pseudouridine synthase A [Bacillus thuringiensis serovar
           pondicheriensis BGSC 4BA1]
 gi|228943947|ref|ZP_04106332.1| tRNA pseudouridine synthase A [Bacillus thuringiensis serovar
           monterrey BGSC 4AJ1]
 gi|229089273|ref|ZP_04220554.1| tRNA pseudouridine synthase A [Bacillus cereus Rock3-42]
 gi|229119804|ref|ZP_04249065.1| tRNA pseudouridine synthase A [Bacillus cereus 95/8201]
 gi|229182536|ref|ZP_04309787.1| tRNA pseudouridine synthase A [Bacillus cereus BGSC 6E1]
 gi|229604554|ref|YP_002864793.1| tRNA pseudouridine synthase A [Bacillus anthracis str. A0248]
 gi|254686641|ref|ZP_05150500.1| tRNA pseudouridine synthase A [Bacillus anthracis str. CNEVA-9066]
 gi|254726279|ref|ZP_05188061.1| tRNA pseudouridine synthase A [Bacillus anthracis str. A1055]
 gi|254735284|ref|ZP_05192992.1| tRNA pseudouridine synthase A [Bacillus anthracis str. Western
           North America USA6153]
 gi|254739476|ref|ZP_05197174.1| tRNA pseudouridine synthase A [Bacillus anthracis str. Kruger B]
 gi|254755530|ref|ZP_05207564.1| tRNA pseudouridine synthase A [Bacillus anthracis str. Vollum]
 gi|301051879|ref|YP_003790090.1| tRNA pseudouridine synthase A [Bacillus cereus biovar anthracis
           str. CI]
 gi|421510470|ref|ZP_15957363.1| tRNA pseudouridine synthase A [Bacillus anthracis str. UR-1]
 gi|421640558|ref|ZP_16081140.1| tRNA pseudouridine synthase A [Bacillus anthracis str. BF1]
 gi|170666357|gb|EDT17142.1| tRNA pseudouridine synthase A [Bacillus anthracis str. A0465]
 gi|172079844|gb|EDT64958.1| tRNA pseudouridine synthase A [Bacillus anthracis str. A0174]
 gi|190561461|gb|EDV15432.1| tRNA pseudouridine synthase A [Bacillus anthracis str.
           Tsiankovskii-I]
 gi|195991406|gb|EDX55373.1| tRNA pseudouridine synthase A [Bacillus cereus W]
 gi|218535501|gb|ACK87899.1| tRNA pseudouridine synthase A [Bacillus cereus AH820]
 gi|225789774|gb|ACO29991.1| tRNA pseudouridine synthase A [Bacillus cereus 03BB102]
 gi|227005095|gb|ACP14838.1| tRNA pseudouridine synthase A [Bacillus anthracis str. CDC 684]
 gi|228600991|gb|EEK58560.1| tRNA pseudouridine synthase A [Bacillus cereus BGSC 6E1]
 gi|228663705|gb|EEL19284.1| tRNA pseudouridine synthase A [Bacillus cereus 95/8201]
 gi|228694112|gb|EEL47794.1| tRNA pseudouridine synthase A [Bacillus cereus Rock3-42]
 gi|228815780|gb|EEM62016.1| tRNA pseudouridine synthase A [Bacillus thuringiensis serovar
           monterrey BGSC 4AJ1]
 gi|228834317|gb|EEM79858.1| tRNA pseudouridine synthase A [Bacillus thuringiensis serovar
           pondicheriensis BGSC 4BA1]
 gi|228846817|gb|EEM91822.1| tRNA pseudouridine synthase A [Bacillus thuringiensis serovar
           pulsiensis BGSC 4CC1]
 gi|229268962|gb|ACQ50599.1| tRNA pseudouridine synthase A [Bacillus anthracis str. A0248]
 gi|300374048|gb|ADK02952.1| tRNA pseudouridine synthase A [Bacillus cereus biovar anthracis
           str. CI]
 gi|401819552|gb|EJT18729.1| tRNA pseudouridine synthase A [Bacillus anthracis str. UR-1]
 gi|403392374|gb|EJY89628.1| tRNA pseudouridine synthase A [Bacillus anthracis str. BF1]
          Length = 252

 Score =  133 bits (334), Expect = 8e-29,   Method: Compositional matrix adjust.
 Identities = 72/202 (35%), Positives = 114/202 (56%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 10  KCTVAYDGMHFCGYQIQPQHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 67

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  +A LN +LP DI + ++     EFHAR+  + K Y Y++      
Sbjct: 68  IHFDTPLSLEEWQWSNA-LNTMLPDDIVITQVEKKTEEFHARYGVERKEYRYRVLVSKTA 126

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++I+  ++IE 
Sbjct: 127 DVFRRNYVYQYPYPLEVNSIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 184

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              L     G+GFLY  VR +V
Sbjct: 185 DDELIFRFVGNGFLYNMVRIIV 206


>gi|255974352|ref|ZP_05424938.1| tRNA pseudouridine synthase [Enterococcus faecalis T2]
 gi|257088141|ref|ZP_05582502.1| tRNA pseudouridine synthase [Enterococcus faecalis D6]
 gi|307278161|ref|ZP_07559243.1| tRNA pseudouridine synthase A [Enterococcus faecalis TX0860]
 gi|422723100|ref|ZP_16779642.1| tRNA pseudouridine synthase A [Enterococcus faecalis TX2137]
 gi|424672437|ref|ZP_18109400.1| tRNA pseudouridine synthase A [Enterococcus faecalis 599]
 gi|255967224|gb|EET97846.1| tRNA pseudouridine synthase [Enterococcus faecalis T2]
 gi|256996171|gb|EEU83473.1| tRNA pseudouridine synthase [Enterococcus faecalis D6]
 gi|306505150|gb|EFM74338.1| tRNA pseudouridine synthase A [Enterococcus faecalis TX0860]
 gi|315026898|gb|EFT38830.1| tRNA pseudouridine synthase A [Enterococcus faecalis TX2137]
 gi|402355807|gb|EJU90568.1| tRNA pseudouridine synthase A [Enterococcus faecalis 599]
          Length = 246

 Score =  133 bits (334), Expect = 8e-29,   Method: Compositional matrix adjust.
 Identities = 72/203 (35%), Positives = 116/203 (57%), Gaps = 7/203 (3%)

Query: 28  RLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           +L I YDG RY+GWQ    S  TIQ  +E  L   T++  E + ++G+ RTD G HA GQ
Sbjct: 5   KLTIEYDGKRYSGWQRLGNSEKTIQGKIESIL---TQMTGEPIEIIGSGRTDAGTHARGQ 61

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           VA+F T  S    E + + LN  LP DI V+E++     FHAR++A  K Y Y ++N  +
Sbjct: 62  VANFKTTSSLTTTEML-SFLNRYLPGDIVVKEVTEMPERFHARYNATGKQYSYYVWNSPI 120

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
            + F+ ++++H    L+   M +A +  +G HDF  F  +++N ++    ++I +  +  
Sbjct: 121 PNAFERYHSFHFPKALDQEKMEQACQKLIGTHDFIGFSALKKNKKS--TTRTIEKITIER 178

Query: 207 MGALLQLEVEGSGFLYRQVRNMV 229
            G +LQ    G+GFL++ VR +V
Sbjct: 179 NGEMLQFTFVGNGFLHKMVRILV 201


>gi|229194532|ref|ZP_04321335.1| tRNA pseudouridine synthase A [Bacillus cereus m1293]
 gi|384178049|ref|YP_005563811.1| tRNA pseudouridine synthase A [Bacillus thuringiensis serovar
           finitimus YBT-020]
 gi|228588998|gb|EEK47013.1| tRNA pseudouridine synthase A [Bacillus cereus m1293]
 gi|324324133|gb|ADY19393.1| tRNA pseudouridine synthase A [Bacillus thuringiensis serovar
           finitimus YBT-020]
          Length = 252

 Score =  133 bits (334), Expect = 8e-29,   Method: Compositional matrix adjust.
 Identities = 72/202 (35%), Positives = 114/202 (56%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 10  KCTVAYDGMHFCGYQIQPQHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 67

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  +A LN +LP DI + ++     EFHAR+  + K Y Y++      
Sbjct: 68  IHFDTPLSLEEWQWSNA-LNTMLPDDIVITQVEKKTEEFHARYGVERKEYRYRVLLSKTA 126

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++I+  ++IE 
Sbjct: 127 DVFRRNYVYQYPYPLEINAIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 184

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              L     G+GFLY  VR +V
Sbjct: 185 DDELIFRFVGNGFLYNMVRIIV 206


>gi|171777516|ref|ZP_02919238.1| hypothetical protein STRINF_00067 [Streptococcus infantarius subsp.
           infantarius ATCC BAA-102]
 gi|379704648|ref|YP_005203107.1| tRNA pseudouridylate synthase I [Streptococcus infantarius subsp.
           infantarius CJ18]
 gi|171283226|gb|EDT48650.1| tRNA pseudouridine synthase A [Streptococcus infantarius subsp.
           infantarius ATCC BAA-102]
 gi|374681347|gb|AEZ61636.1| tRNA pseudouridylate synthase I [Streptococcus infantarius subsp.
           infantarius CJ18]
          Length = 249

 Score =  132 bits (333), Expect = 8e-29,   Method: Compositional matrix adjust.
 Identities = 76/206 (36%), Positives = 114/206 (55%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDG  +AG+Q Q S  ++Q  +EK L R+     + +++ GA RTD+GVHA+G
Sbjct: 3   RYKATISYDGRLFAGFQRQPSERSVQEELEKTLQRLN--SGQPVKVHGAGRTDSGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P + D +E +   L+   P DI V ++     +FH+R++  SK Y + + +  
Sbjct: 61  QVVHFDLPQARD-VEKLRFGLDTQSPEDIDVVKVELVSDDFHSRYNKHSKTYEFLVDSGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFR--FD 203
             +P   HYA H  Y L+  LM+EA +  VG HDF+ F          N V++I R   D
Sbjct: 120 PKNPMMRHYATHYPYPLDLALMQEAIKDLVGTHDFTGFT--ASGTSVENKVRTITRATVD 177

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
           + E          G+GFLY+QVRNMV
Sbjct: 178 IDEKTGFFVFTFSGNGFLYKQVRNMV 203


>gi|222093912|ref|YP_002527962.1| tRNA pseudouridine synthase A [Bacillus cereus Q1]
 gi|423578006|ref|ZP_17554125.1| tRNA pseudouridine synthase A 1 [Bacillus cereus MSX-D12]
 gi|423608033|ref|ZP_17583926.1| tRNA pseudouridine synthase A 1 [Bacillus cereus VD102]
 gi|221237960|gb|ACM10670.1| tRNA pseudouridine synthase A [Bacillus cereus Q1]
 gi|401203586|gb|EJR10422.1| tRNA pseudouridine synthase A 1 [Bacillus cereus MSX-D12]
 gi|401238716|gb|EJR45149.1| tRNA pseudouridine synthase A 1 [Bacillus cereus VD102]
          Length = 247

 Score =  132 bits (333), Expect = 9e-29,   Method: Compositional matrix adjust.
 Identities = 72/202 (35%), Positives = 114/202 (56%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 5   KCTVAYDGMHFCGYQIQPQHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  +A LN +LP DI + ++     EFHAR+  + K Y Y++      
Sbjct: 63  IHFDTPLSLEEWQWSNA-LNTMLPDDIVITQVEKKTEEFHARYGVERKEYRYRVLLSKTA 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++I+  ++IE 
Sbjct: 122 DVFRRNYVYQYPYPLEINAIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 179

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              L     G+GFLY  VR +V
Sbjct: 180 DDELIFRFVGNGFLYNMVRIIV 201


>gi|336430376|ref|ZP_08610324.1| tRNA pseudouridine synthase A [Lachnospiraceae bacterium
           3_1_57FAA_CT1]
 gi|336018360|gb|EGN48109.1| tRNA pseudouridine synthase A [Lachnospiraceae bacterium
           3_1_57FAA_CT1]
          Length = 257

 Score =  132 bits (333), Expect = 9e-29,   Method: Compositional matrix adjust.
 Identities = 71/198 (35%), Positives = 114/198 (57%), Gaps = 6/198 (3%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L + YDGT Y GWQ Q++  +I+ ++ + L   T+L +E ++++GASRTD+GVHA+G +A
Sbjct: 6   LTVAYDGTNYHGWQLQSNGISIEEVLNRCL---TELLKEPVQVIGASRTDSGVHAFGNIA 62

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
            F T     G +    ALN  LP DIR+R        FH R +   K Y Y+I N+   +
Sbjct: 63  VFDTQARMPG-DKFSYALNQRLPEDIRIRGSREVPLTFHPRKTDSIKTYEYRILNEEFPN 121

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
           P +  Y++ +   L+   M E A++ +G+HDF +F ++  N +  + V++I+  +V   G
Sbjct: 122 PVKRLYSHFTYLPLDEKKMNEGAKFLIGEHDFKSFCSV--NAQVESTVRTIYSCEVQREG 179

Query: 209 ALLQLEVEGSGFLYRQVR 226
             L + + G GFLY  VR
Sbjct: 180 TELVIRISGGGFLYNMVR 197


>gi|422699954|ref|ZP_16757812.1| tRNA pseudouridine synthase A [Enterococcus faecalis TX1342]
 gi|422734009|ref|ZP_16790307.1| tRNA pseudouridine synthase A [Enterococcus faecalis TX1341]
 gi|315169224|gb|EFU13241.1| tRNA pseudouridine synthase A [Enterococcus faecalis TX1341]
 gi|315171531|gb|EFU15548.1| tRNA pseudouridine synthase A [Enterococcus faecalis TX1342]
          Length = 277

 Score =  132 bits (333), Expect = 9e-29,   Method: Compositional matrix adjust.
 Identities = 72/203 (35%), Positives = 116/203 (57%), Gaps = 7/203 (3%)

Query: 28  RLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           +L I YDG RY+GWQ    S  TIQ  +E  L ++T    E + ++G+ RTD G HA GQ
Sbjct: 36  KLTIEYDGKRYSGWQRLGNSEKTIQGKIESILTQMTG---EPIEIIGSGRTDAGTHARGQ 92

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           VA+F T  S    E + + LN  LP DI V+E++     FHAR++A  K Y Y ++N  +
Sbjct: 93  VANFKTTSSLTTTEML-SFLNRYLPGDIVVKEVTEMPERFHARYNATGKQYSYYVWNSPI 151

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
            + F+ ++++H    L+   M +A +  +G HDF  F  +++N ++    ++I +  +  
Sbjct: 152 PNAFERYHSFHFPKALDQEKMEQACQKLIGTHDFIGFSALKKNKKS--TTRTIEKITIER 209

Query: 207 MGALLQLEVEGSGFLYRQVRNMV 229
            G +LQ    G+GFL++ VR +V
Sbjct: 210 NGEMLQFTFVGNGFLHKMVRILV 232


>gi|49183176|ref|YP_026428.1| tRNA pseudouridine synthase A [Bacillus anthracis str. Sterne]
 gi|49476722|ref|YP_034493.1| tRNA pseudouridine synthase A [Bacillus thuringiensis serovar
           konkukian str. 97-27]
 gi|52145077|ref|YP_081752.1| tRNA pseudouridine synthase A [Bacillus cereus E33L]
 gi|165873347|ref|ZP_02217948.1| tRNA pseudouridine synthase A [Bacillus anthracis str. A0488]
 gi|167642077|ref|ZP_02400301.1| tRNA pseudouridine synthase A [Bacillus anthracis str. A0193]
 gi|196046214|ref|ZP_03113441.1| tRNA pseudouridine synthase A [Bacillus cereus 03BB108]
 gi|270000591|ref|YP_003329029.1| tRNA pseudouridine synthase A [Bacillus anthracis str. Ames]
 gi|291612229|ref|YP_003541012.1| tRNA pseudouridine synthase A [Bacillus anthracis str. 'Ames
           Ancestor']
 gi|423553924|ref|ZP_17530251.1| tRNA pseudouridine synthase A 1 [Bacillus cereus ISP3191]
 gi|62901423|sp|Q63H59.1|TRUA1_BACCZ RecName: Full=tRNA pseudouridine synthase A 1; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I 1; AltName: Full=tRNA-uridine
           isomerase I 1
 gi|62901430|sp|Q6HPM7.1|TRUA1_BACHK RecName: Full=tRNA pseudouridine synthase A 1; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I 1; AltName: Full=tRNA-uridine
           isomerase I 1
 gi|62901432|sp|Q6I4Q2.1|TRUA1_BACAN RecName: Full=tRNA pseudouridine synthase A 1; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I 1; AltName: Full=tRNA-uridine
           isomerase I 1
 gi|49177103|gb|AAT52479.1| tRNA pseudouridine synthase A [Bacillus anthracis str. Sterne]
 gi|49328278|gb|AAT58924.1| tRNA pseudouridine synthase A (pseudouridylate synthase) [Bacillus
           thuringiensis serovar konkukian str. 97-27]
 gi|51978546|gb|AAU20096.1| tRNA-pseudouridylate synthase I [Bacillus cereus E33L]
 gi|164710915|gb|EDR16491.1| tRNA pseudouridine synthase A [Bacillus anthracis str. A0488]
 gi|167509964|gb|EDR85386.1| tRNA pseudouridine synthase A [Bacillus anthracis str. A0193]
 gi|196022959|gb|EDX61639.1| tRNA pseudouridine synthase A [Bacillus cereus 03BB108]
 gi|224552852|gb|ACN55064.1| tRNA pseudouridine synthase A [Bacillus anthracis str. 'Ames
           Ancestor']
 gi|269850235|gb|ACZ49980.1| tRNA pseudouridine synthase A [Bacillus anthracis str. Ames]
 gi|401182131|gb|EJQ89270.1| tRNA pseudouridine synthase A 1 [Bacillus cereus ISP3191]
          Length = 247

 Score =  132 bits (333), Expect = 9e-29,   Method: Compositional matrix adjust.
 Identities = 72/202 (35%), Positives = 114/202 (56%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 5   KCTVAYDGMHFCGYQIQPQHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  +A LN +LP DI + ++     EFHAR+  + K Y Y++      
Sbjct: 63  IHFDTPLSLEEWQWSNA-LNTMLPDDIVITQVEKKTEEFHARYGVERKEYRYRVLVSKTA 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++I+  ++IE 
Sbjct: 122 DVFRRNYVYQYPYPLEVNSIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 179

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              L     G+GFLY  VR +V
Sbjct: 180 DDELIFRFVGNGFLYNMVRIIV 201


>gi|3915176|sp|Q45557.1|TRUA_BACSV RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|289265|gb|AAA73188.1| unknown [Bacillus sp. KSM-64]
          Length = 244

 Score =  132 bits (333), Expect = 9e-29,   Method: Compositional matrix adjust.
 Identities = 74/204 (36%), Positives = 113/204 (55%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L+I YDG RY GWQ       TIQ  +E  L   +++    + ++G+ RTD GVHA G
Sbjct: 4   YKLMIQYDGGRYKGWQRLGNGENTIQGKIETVL---SEMVGRKIEIIGSGRTDAGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+     ++  ++ +   LN  LP DI V E++     FH+R++AK K Y YKI+N+ 
Sbjct: 61  QVANVKLSENFT-VKEVKEYLNRYLPHDISVTEVTLVPDRFHSRYNAKDKTYLYKIWNED 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
              PF   Y+ H   KL+   M +A++ FVG+HDF+AF N +   +     ++I    + 
Sbjct: 120 YTHPFMRKYSLHIEKKLHIDNMVKASQLFVGEHDFTAFSNAKSKKKT--NTRTIHSITIQ 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           +    + + V G GFLY  VR MV
Sbjct: 178 DNQGFIDIRVCGDGFLYNMVRKMV 201


>gi|326692205|ref|ZP_08229210.1| tRNA pseudouridine synthase A [Leuconostoc argentinum KCTC 3773]
          Length = 261

 Score =  132 bits (333), Expect = 9e-29,   Method: Compositional matrix adjust.
 Identities = 75/211 (35%), Positives = 119/211 (56%), Gaps = 10/211 (4%)

Query: 26  KWRLVIGYDGTRYAGWQFQTS-----PPTIQCIVEKALIRVTKLEREDLRLVGASRTDTG 80
           +++ V+ YDG+ + G+Q QT        T+Q  + +A+ ++ KL    +++VGASRTDTG
Sbjct: 3   RYKAVVAYDGSEFFGFQVQTKNGVERQRTVQGELNRAVNQMAKLPTPAIKVVGASRTDTG 62

Query: 81  VHAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYK 140
           VHA+GQV HF  PF     E +   LN LLP DI ++++     +FHARF+  +K Y Y+
Sbjct: 63  VHAFGQVVHFDLPFDIQP-EGVRKGLNTLLPRDIMIKQVEKVADDFHARFNTHAKRYIYR 121

Query: 141 IYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIF 200
           +      DPF+  Y  H  ++L+   ++ A    +G+HDF++F      ++    V++I 
Sbjct: 122 VSTQDFTDPFKRRYTGHFHWRLDVARIQAALPDLLGEHDFASFA--ASGNQTATTVRTIT 179

Query: 201 RFDVIEMGALLQL--EVEGSGFLYRQVRNMV 229
           R DV       +L    EG+ FLY Q+R MV
Sbjct: 180 RADVEVKPDEQELVFTFEGNAFLYNQIRIMV 210


>gi|433448925|ref|ZP_20411790.1| tRNA pseudouridine synthase A [Weissella ceti NC36]
 gi|429539314|gb|ELA07351.1| tRNA pseudouridine synthase A [Weissella ceti NC36]
          Length = 249

 Score =  132 bits (333), Expect = 9e-29,   Method: Compositional matrix adjust.
 Identities = 73/206 (35%), Positives = 118/206 (57%), Gaps = 5/206 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDGT + GWQ Q    T+Q  +E A+ ++ K   E +R+ G+ RTD  VHA G
Sbjct: 3   RYKATIAYDGTDFFGWQVQPGKRTVQLELEAAVNKMAKNPAEPIRVQGSGRTDARVHAIG 62

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVAHF  PF+    E++   L+ +LP DI ++++     EFHA+++A  K Y Y+     
Sbjct: 63  QVAHFDLPFNIPA-EAVRKGLSTMLPYDIGIKDVEIVDDEFHAQYAAHDKTYRYRFSTTE 121

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             DPF+ +Y  H   +L+T LM++A   +VG+HD+ +FV      +    V++++  ++I
Sbjct: 122 FRDPFKRNYTGHWNRRLDTDLMQQAIGDYVGEHDWLSFVAAGFQQKTT--VRTVYSAEMI 179

Query: 206 --EMGALLQLEVEGSGFLYRQVRNMV 229
                  +  E  G+GFLY Q+R MV
Sbjct: 180 LKPEENEIWFEFSGNGFLYNQIRIMV 205


>gi|228931644|ref|ZP_04094550.1| tRNA pseudouridine synthase A [Bacillus thuringiensis serovar
           andalousiensis BGSC 4AW1]
 gi|228828072|gb|EEM73800.1| tRNA pseudouridine synthase A [Bacillus thuringiensis serovar
           andalousiensis BGSC 4AW1]
          Length = 252

 Score =  132 bits (333), Expect = 9e-29,   Method: Compositional matrix adjust.
 Identities = 72/202 (35%), Positives = 114/202 (56%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 10  KCTVAYDGMHFCGYQIQPQHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 67

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  +A LN +LP DI + ++     EFHAR+  + K Y Y++      
Sbjct: 68  IHFDTPLSLEEWQWSNA-LNTMLPNDIVITQVEKKTEEFHARYGVERKEYRYRVLVSKTA 126

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++I+  ++IE 
Sbjct: 127 DVFRRNYVYQYPYPLEVNSIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 184

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              L     G+GFLY  VR +V
Sbjct: 185 DDELIFRFVGNGFLYNMVRIIV 206


>gi|110802389|ref|YP_699630.1| tRNA pseudouridine synthase A [Clostridium perfringens SM101]
 gi|110682890|gb|ABG86260.1| tRNA pseudouridine synthase A [Clostridium perfringens SM101]
          Length = 244

 Score =  132 bits (333), Expect = 9e-29,   Method: Compositional matrix adjust.
 Identities = 81/203 (39%), Positives = 113/203 (55%), Gaps = 8/203 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L I YDGT Y GWQ Q    TIQ  VE+A+ +VTK   E++ ++G+SRTD+GVHA   V
Sbjct: 5   KLTIEYDGTSYFGWQKQPIGNTIQQKVEEAIKKVTK---EEVEILGSSRTDSGVHAKAYV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A+F T  +  G ++  AALN  LP DI +        +FHAR+    K Y Y I N    
Sbjct: 62  ANFKTNSNIPG-KNFKAALNSKLPKDIVIMNSEEVAEDFHARYMTTGKTYCYTILNREEP 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALN-PVKSIFRFDVIE 206
              + +Y YH   +L+   M+EA +YF+GKHDF AF   QR    +   V++I    +  
Sbjct: 121 PALERNYVYHVKKQLDVESMKEACKYFLGKHDFKAF---QRPGGTVKTSVRTITDIHIEI 177

Query: 207 MGALLQLEVEGSGFLYRQVRNMV 229
            G  +++ V   GFLY  VR +V
Sbjct: 178 EGNKIKIYVSADGFLYNMVRLIV 200


>gi|336233235|ref|YP_004589981.1| pseudouridylate synthase I [Buchnera aphidicola (Cinara
           tujafilina)]
 gi|335345176|gb|AEH39722.1| pseudouridylate synthase I [Buchnera aphidicola (Cinara
           tujafilina)]
          Length = 264

 Score =  132 bits (333), Expect = 9e-29,   Method: Compositional matrix adjust.
 Identities = 75/204 (36%), Positives = 113/204 (55%), Gaps = 6/204 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           KW   I YDGT+Y GWQ Q    TIQ  +E  L   +K+   ++ L+ A RTD GVH   
Sbjct: 2   KWVCGIEYDGTKYFGWQKQKLVCTIQESIENVL---SKIANHNINLICAGRTDRGVHGIT 58

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           Q+ HF+T FS    +      N LLP DI +  +      F ARFSA S+ Y Y I+N A
Sbjct: 59  QIVHFLT-FSVRSKKEWLLGANSLLPSDITILWLKKIPENFDARFSALSRSYRYIIFNSA 117

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           +   F   Y+YH    L+   M+ A++Y +G+H+FSAF +     ++L+P ++IF   ++
Sbjct: 118 IRSSFLKRYSYHLRKILDIKKMKHASQYLIGQHNFSAFRS--SGCQSLSPYRTIFFIHIL 175

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           +    + +++  + FLY  VRN+V
Sbjct: 176 QFKKFIIIDIIANSFLYHMVRNIV 199


>gi|118475910|ref|YP_893061.1| tRNA pseudouridine synthase A [Bacillus thuringiensis str. Al
           Hakam]
 gi|118415135|gb|ABK83554.1| tRNA pseudouridine synthase A [Bacillus thuringiensis str. Al
           Hakam]
          Length = 264

 Score =  132 bits (333), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 72/202 (35%), Positives = 114/202 (56%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 22  KCTVAYDGMHFCGYQIQPQHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 79

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  +A LN +LP DI + ++     EFHAR+  + K Y Y++      
Sbjct: 80  IHFDTPLSLEEWQWSNA-LNTMLPDDIVITQVEKKTEEFHARYGVERKEYRYRVLVSKTA 138

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++I+  ++IE 
Sbjct: 139 DVFRRNYVYQYPYPLEVNSIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 196

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              L     G+GFLY  VR +V
Sbjct: 197 DDELIFRFVGNGFLYNMVRIIV 218


>gi|323141117|ref|ZP_08076020.1| tRNA pseudouridine synthase A [Phascolarctobacterium succinatutens
           YIT 12067]
 gi|322414383|gb|EFY05199.1| tRNA pseudouridine synthase A [Phascolarctobacterium succinatutens
           YIT 12067]
          Length = 250

 Score =  132 bits (333), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 81/202 (40%), Positives = 110/202 (54%), Gaps = 6/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +LV+ YDG+ Y G+Q Q +  T+Q ++E+AL   T L  E +   G+ RTDTGVHA  Q 
Sbjct: 5   KLVVAYDGSAYHGFQKQKNVQTVQNVLEEAL---TMLCGEKVVTAGSGRTDTGVHALAQT 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
             F T         + AA + LLP DI V         FHARFSA+ K YHYK+  +  +
Sbjct: 62  VTFTTNGRIPCANLVRAAAS-LLPEDIVVVSAEEMPEGFHARFSARWKTYHYKLLVNEHV 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           +PF   YA+    +L    M EAAE  +G HDFSAF +    D +  P+K+IF     + 
Sbjct: 121 NPFMVRYAWQLRQQLEVKAMNEAAELLLGTHDFSAFRSSGSVDTS--PIKTIFAAKWQQQ 178

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
           G  +   + G GFLY  VRN+V
Sbjct: 179 GEEILFRISGDGFLYHMVRNIV 200


>gi|366052631|ref|ZP_09450353.1| tRNA pseudouridine synthase A [Lactobacillus suebicus KCTC 3549]
          Length = 251

 Score =  132 bits (333), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 73/208 (35%), Positives = 117/208 (56%), Gaps = 5/208 (2%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
           ++++++  YDG+ +AG+Q Q    T++  ++ A+ ++ K     + + G+ RTD GVHA 
Sbjct: 2   YRYKIIFAYDGSDFAGFQVQPHQRTVEKTLKIAVNKIAKNPDPAIEVYGSGRTDAGVHAL 61

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           GQVAHF  PF     +S+  ALN LLP D+ V+        FHAR+SA  K+Y Y++   
Sbjct: 62  GQVAHFDIPFDLPD-DSMRRALNSLLPLDMMVKSAEHVDANFHARYSAHRKLYRYRVSQG 120

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
             +DPF+  Y  H  Y L+   M+ A +  +G+HDF++ V      +  + V+ I+   +
Sbjct: 121 EFVDPFKRRYTAHYKYPLDIERMQIAVKDLIGEHDFTSLV--ASGSQTKSNVRIIYHAQI 178

Query: 205 --IEMGALLQLEVEGSGFLYRQVRNMVN 230
              E    +  E EG+GFLY QVR MV+
Sbjct: 179 WRDEHDQEIIFEFEGNGFLYNQVRIMVS 206


>gi|307702068|ref|ZP_07639075.1| tRNA pseudouridine synthase A [Streptococcus mitis NCTC 12261]
 gi|307616555|gb|EFN95745.1| tRNA pseudouridine synthase A [Streptococcus mitis NCTC 12261]
          Length = 249

 Score =  132 bits (333), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 76/206 (36%), Positives = 109/206 (52%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDG  +AG+Q QT   ++Q  +EK L R+ K   + + + GA RTD+GVHA G
Sbjct: 3   RYKATISYDGYAFAGFQRQTHARSVQEEIEKTLTRLNK--GKAITVHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D  E +  AL+   P DI V  I     +FH R++  SK Y + +    
Sbjct: 61  QVIHFDLPYQMDE-EKLRFALDTQSPEDIDVISIELVADDFHCRYAKHSKTYEFIVDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFV--NIQRNDRALNPVKSIFRFD 203
             +P + HYA H  Y L+   M+EA +   G HDF+ F        D+     ++  R D
Sbjct: 120 PKNPMRRHYATHFPYPLDVERMQEAVKKLEGTHDFTGFTASGTSVEDKVRTITEASLRVD 179

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
             E G  L     G+GFLY+Q+RNMV
Sbjct: 180 --ETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|329900760|ref|ZP_08272580.1| tRNA pseudouridine synthase A [Oxalobacteraceae bacterium IMCC9480]
 gi|327549402|gb|EGF33969.1| tRNA pseudouridine synthase A [Oxalobacteraceae bacterium IMCC9480]
          Length = 267

 Score =  132 bits (333), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 84/208 (40%), Positives = 117/208 (56%), Gaps = 12/208 (5%)

Query: 28  RLVIG--YDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           RLV+G  YDGT + GWQ Q S  T+Q  +++AL + T+    D+    A RTDTGVHA  
Sbjct: 5   RLVLGVQYDGTPWHGWQTQLSGNTVQDRLQQALFKFTQ---SDITTHCAGRTDTGVHAIE 61

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAA----VPEFHARFSAKSKIYHYKI 141
           QV HF TP     + S    LN  LPP I VR  + A      EFHARFSA+S+ YHY +
Sbjct: 62  QVVHFDTPLDR-PISSWVRGLNTHLPPSIAVRWATVARLDPQHEFHARFSARSRTYHYLL 120

Query: 142 YNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFR 201
           YN+ V  P  +  A      L+   MREAA+  +G HDF+AF +   + +A +PVK +  
Sbjct: 121 YNNPVRSPLWNDKAGWVFRPLDLDRMREAAQSLIGTHDFTAFRSA--DCQAKSPVKMMHE 178

Query: 202 FDVIEMGALLQLEVEGSGFLYRQVRNMV 229
             +     L+ +++  + FL+  VRN+V
Sbjct: 179 IAITRRDDLIVIKLHANAFLHHMVRNLV 206


>gi|317497062|ref|ZP_07955389.1| tRNA pseudouridine synthase A [Lachnospiraceae bacterium 5_1_63FAA]
 gi|429762537|ref|ZP_19294926.1| tRNA pseudouridine synthase A [Anaerostipes hadrus DSM 3319]
 gi|316895607|gb|EFV17762.1| tRNA pseudouridine synthase A [Lachnospiraceae bacterium 5_1_63FAA]
 gi|429181527|gb|EKY22686.1| tRNA pseudouridine synthase A [Anaerostipes hadrus DSM 3319]
          Length = 252

 Score =  132 bits (333), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 76/204 (37%), Positives = 114/204 (55%), Gaps = 12/204 (5%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L++ YDGT Y GWQ Q +  T++ ++ K    +++L  ED++++GASRTD+GVHA G V
Sbjct: 5   KLIVAYDGTGYCGWQVQPNEITVEGVLNK---HISELTGEDIKVIGASRTDSGVHALGNV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A F T     G E +  ALN  LP DI +++      ++H RF    K Y Y  YN    
Sbjct: 62  AVFDTESRIPG-EKMAKALNARLPEDIIIQDSKEVPLDYHPRFQDTRKTYEYTFYNARYD 120

Query: 148 DPF---QHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
           +P     HH+ Y     L+   M+EAA YF+G+H F +  + +   +  + V+ I+  DV
Sbjct: 121 NPVTSRHHHFVY---VPLDVEKMKEAASYFLGEHCFISMCSSKA--QVTSYVREIYECDV 175

Query: 205 IEMGALLQLEVEGSGFLYRQVRNM 228
            + G  + + V GSGFLY  VR M
Sbjct: 176 TQNGRYITMRVTGSGFLYNMVRLM 199


>gi|228983397|ref|ZP_04143610.1| tRNA pseudouridine synthase A [Bacillus thuringiensis serovar
           tochigiensis BGSC 4Y1]
 gi|228776387|gb|EEM24740.1| tRNA pseudouridine synthase A [Bacillus thuringiensis serovar
           tochigiensis BGSC 4Y1]
          Length = 252

 Score =  132 bits (332), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 72/202 (35%), Positives = 114/202 (56%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 10  KCTVAYDGMHFCGYQIQPQHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 67

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  +A LN +LP DI + ++     EFHAR+  + K Y Y++      
Sbjct: 68  IHFDTPLSLEEWQWSNA-LNTMLPDDIVITQVEKKTEEFHARYGVERKEYRYRVLLSKTA 126

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++I+  ++IE 
Sbjct: 127 DVFRRNYVYQYPYPLEINSIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 184

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              L     G+GFLY  VR +V
Sbjct: 185 DDELIFRFVGNGFLYNMVRIIV 206


>gi|229153920|ref|ZP_04282050.1| tRNA pseudouridine synthase A [Bacillus cereus ATCC 4342]
 gi|228629601|gb|EEK86298.1| tRNA pseudouridine synthase A [Bacillus cereus ATCC 4342]
          Length = 252

 Score =  132 bits (332), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 72/202 (35%), Positives = 114/202 (56%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 10  KCTVAYDGIHFCGYQIQPQHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 67

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  +A LN +LP DI + ++     EFHAR+  + K Y Y++      
Sbjct: 68  IHFDTPLSLEEWQWSNA-LNTMLPDDIVITQVEKKTEEFHARYGVERKEYRYRVLLSKTA 126

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++I+  ++IE 
Sbjct: 127 DVFRRNYVYQYPYPLEINSIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 184

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              L     G+GFLY  VR +V
Sbjct: 185 DDELIFRFVGNGFLYNMVRIIV 206


>gi|373463259|ref|ZP_09554886.1| tRNA pseudouridine synthase A [Lactobacillus kisonensis F0435]
 gi|371764947|gb|EHO53312.1| tRNA pseudouridine synthase A [Lactobacillus kisonensis F0435]
          Length = 265

 Score =  132 bits (332), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 76/208 (36%), Positives = 119/208 (57%), Gaps = 9/208 (4%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++++ I YDGT ++G+Q Q +  TI+ ++ + +  + K  +  + + G+ RTD GVHA+G
Sbjct: 3   RYKVTIAYDGTLFSGFQRQPNKRTIEGVLTQKVNLMAKNPQLPIVVYGSGRTDAGVHAFG 62

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  PF     E+I+  LN +LP D+ V ++    P FHAR+    K Y Y++    
Sbjct: 63  QVVHFDFPFDLP-TEAIYRGLNSMLPLDMEVMKVETVSPNFHARYDVSGKRYFYRVDLGE 121

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFR---- 201
            ++PF+ +Y  H  + L+   +R A   F+G+HDFS+FV       A + V++I+     
Sbjct: 122 FLNPFKRNYTGHWKFPLDVERVRAALPDFIGEHDFSSFV--ASGSTAKSNVRTIYEATAN 179

Query: 202 FDVIEMGALLQLEVEGSGFLYRQVRNMV 229
           FD  E    LQLE  G+GFLY  VR MV
Sbjct: 180 FD--EKANELQLEFYGNGFLYNMVRIMV 205


>gi|291460751|ref|ZP_06600141.1| tRNA pseudouridine synthase A [Oribacterium sp. oral taxon 078 str.
           F0262]
 gi|291416710|gb|EFE90429.1| tRNA pseudouridine synthase A [Oribacterium sp. oral taxon 078 str.
           F0262]
          Length = 266

 Score =  132 bits (332), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 81/203 (39%), Positives = 108/203 (53%), Gaps = 5/203 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + RL I YDGT Y GWQ+Q    TI+  + +AL  +  L  E++ L GASRTD GVHA  
Sbjct: 3   RIRLDIAYDGTNYHGWQYQEGQSTIEGELRRALSEL--LPGEEIGLTGASRTDAGVHARQ 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
             A F T     G  +   ALN  LP DIR+     A  +FH RFS   K+Y Y+I    
Sbjct: 61  NTACFDTKSRIPG-ANFSMALNCRLPEDIRILRSMEAGEDFHPRFSPHKKVYEYRIGRSR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVN--IQRNDRALNPVKSIFRFD 203
           + DP +  Y +   + L+ + MR AAE  VG+HDF +F N   Q        V++++   
Sbjct: 120 IPDPLKRLYCFPFSFPLSLSEMRLAAEELVGEHDFRSFANPDSQVLMHGGAAVRTLYELS 179

Query: 204 VIEMGALLQLEVEGSGFLYRQVR 226
           + E G  L L  EGSGFLY  +R
Sbjct: 180 LREEGEELILHFEGSGFLYHMIR 202


>gi|168181898|ref|ZP_02616562.1| tRNA pseudouridine synthase A [Clostridium botulinum Bf]
 gi|237796908|ref|YP_002864460.1| tRNA pseudouridine synthase A [Clostridium botulinum Ba4 str. 657]
 gi|182674803|gb|EDT86764.1| tRNA pseudouridine synthase A [Clostridium botulinum Bf]
 gi|229262719|gb|ACQ53752.1| tRNA pseudouridine synthase A [Clostridium botulinum Ba4 str. 657]
          Length = 246

 Score =  132 bits (332), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 75/204 (36%), Positives = 110/204 (53%), Gaps = 8/204 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPP--TIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +L + YDG  Y GWQ Q +    T+Q  +EKA+  +TK   E + ++G SRTD+GVHA G
Sbjct: 5   KLKLEYDGANYCGWQKQKNEKFITLQGTLEKAISNITK---EKIEVIGVSRTDSGVHAKG 61

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
            V +F T       E++   +N  LP DI V     A  EFH+RF +K K Y Y + N +
Sbjct: 62  YVCNFFTNTKIPP-ENLQKVINNNLPADIVVLSSEEASNEFHSRFCSKGKTYEYTVLNSS 120

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
                  +Y +    KLN   M+ A+ YF+G HDFSAF    +       V++I +F++ 
Sbjct: 121 QPIAIGRNYIFQFKDKLNIDNMKMASRYFIGTHDFSAFKT--KGSSIKTSVRTISKFEIN 178

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           + G  ++  + G GFLY  VR +V
Sbjct: 179 KKGDFIKFIITGDGFLYNMVRIIV 202


>gi|251781741|ref|YP_002996043.1| tRNA pseudouridine synthase A [Streptococcus dysgalactiae subsp.
           equisimilis GGS_124]
 gi|242390370|dbj|BAH80829.1| phosphomethylpyrimidine kinase [Streptococcus dysgalactiae subsp.
           equisimilis GGS_124]
          Length = 249

 Score =  132 bits (332), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 76/206 (36%), Positives = 112/206 (54%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++R  I YDGT ++G+Q Q+   T+Q  +EK L ++  ++   + + GA RTD GVHA+G
Sbjct: 3   RYRATISYDGTLFSGFQRQSHARTVQEEIEKTLQKLASVQ--PVPIHGAGRTDAGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P   D LE +  AL+   P DI V +++    +FH R+   SK Y + + N  
Sbjct: 61  QVIHFDLPQKRD-LEKLRFALDTQTPADIDVVDLAIVADDFHCRYQKHSKTYEFLVDNGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +P   HYA H  Y L+   M+EA +  VG HDF+ F          N V++I    ++
Sbjct: 120 PKNPMMRHYATHYPYPLDINKMQEAIKDLVGTHDFTGFTAA--GTSVENKVRTITEATLV 177

Query: 206 E--MGALLQLEVEGSGFLYRQVRNMV 229
           +      L     G+GFLY+QVRNMV
Sbjct: 178 QDDKTGFLVFTFSGNGFLYKQVRNMV 203


>gi|47570254|ref|ZP_00240905.1| tRNA pseudouridine synthase A [Bacillus cereus G9241]
 gi|47553078|gb|EAL11478.1| tRNA pseudouridine synthase A [Bacillus cereus G9241]
          Length = 247

 Score =  132 bits (332), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 72/202 (35%), Positives = 114/202 (56%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG  + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV
Sbjct: 5   KCTVAYDGMHFCGYQIQPQHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF TP S +  +  +A LN +LP DI + ++     EFHAR+  + K Y Y++      
Sbjct: 63  IHFDTPLSLEEWQWSNA-LNTMLPDDIVITQVEKKTEEFHARYGVERKEYRYRVLLSKTA 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F+ +Y Y   Y L    +R+A  YF+G HDF++F + + + +  + V++I+  ++IE 
Sbjct: 122 DVFRRNYVYQYPYPLEINSIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQ 179

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              L     G+GFLY  VR +V
Sbjct: 180 DDELIFRFVGNGFLYNMVRIIV 201


>gi|422758243|ref|ZP_16812005.1| tRNA pseudouridine synthase A [Streptococcus dysgalactiae subsp.
           dysgalactiae ATCC 27957]
 gi|322411078|gb|EFY01986.1| tRNA pseudouridine synthase A [Streptococcus dysgalactiae subsp.
           dysgalactiae ATCC 27957]
          Length = 249

 Score =  132 bits (332), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 76/206 (36%), Positives = 114/206 (55%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDGT ++G+Q Q+   T+Q  +EK L ++T    + + + GA RTD GVHA+G
Sbjct: 3   RYKATISYDGTLFSGFQRQSHERTVQEEIEKTLQKLTG--GQPVPIHGAGRTDAGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P   D LE +  AL+   P DI V +++    +FH R+   SK Y + + N  
Sbjct: 61  QVIHFDLPQKRD-LEKLRFALDTQTPDDIDVVDLAIVADDFHCRYQKHSKTYEFLVDNGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +P   HYA H  Y L+   M+EA +  VG HDF+ F     + +  N V++I    ++
Sbjct: 120 PKNPMMRHYATHYPYPLDMNKMQEAIKTLVGTHDFTGFTAAGTSVK--NKVRTITEATLV 177

Query: 206 E--MGALLQLEVEGSGFLYRQVRNMV 229
           +      L     G+GFLY+QVRNMV
Sbjct: 178 QDDKTGFLVFTFSGNGFLYKQVRNMV 203


>gi|329767334|ref|ZP_08258859.1| tRNA pseudouridine synthase A [Gemella haemolysans M341]
 gi|328836023|gb|EGF85714.1| tRNA pseudouridine synthase A [Gemella haemolysans M341]
          Length = 265

 Score =  132 bits (332), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 73/207 (35%), Positives = 120/207 (57%), Gaps = 15/207 (7%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L+  YDG+ Y G+Q Q +  TIQ  +EK+L    K+ ++D+RL  + RTD+GVHA+GQV 
Sbjct: 5   LLCRYDGSNYHGFQIQPNNNTIQEEIEKSL---KKINKKDVRLYMSGRTDSGVHAYGQVL 61

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           HF T  +   +  +  ALN  +P DIR+   +    +FH R+++  K Y+YK+Y    +D
Sbjct: 62  HFDTDLNIPDVAWV-KALNATIPKDIRIVGATTVSEDFHVRYNSTQKTYYYKLYIGREID 120

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
           PF  +Y     +  N    +E+ +YF+G+HDFS+F +  +N    + V++I+    + MG
Sbjct: 121 PFLLNYVGKHSFDFNFEKAQESLKYFIGEHDFSSFCS--KNSSVEDKVRTIYS---LTMG 175

Query: 209 A------LLQLEVEGSGFLYRQVRNMV 229
                  ++  E+ G+GFLY  VR ++
Sbjct: 176 KDPINPNIVNFEITGNGFLYNMVRIII 202


>gi|258646072|ref|ZP_05733541.1| tRNA pseudouridine synthase A [Dialister invisus DSM 15470]
 gi|260403447|gb|EEW96994.1| tRNA pseudouridine synthase A [Dialister invisus DSM 15470]
          Length = 246

 Score =  132 bits (332), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 71/205 (34%), Positives = 115/205 (56%), Gaps = 7/205 (3%)

Query: 27  WRLVIGYDGTRYAGWQFQT-SPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +R ++ YDGTRY GWQ Q  +  TIQ  +EK L ++T    E+++++GA RTD GVH+ G
Sbjct: 3   YRCIVQYDGTRYEGWQKQKRTEETIQGKLEKTLRKITG---EEVQVIGAGRTDAGVHSLG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV +F     +   E +  ALNG LP DI ++ +  A   FH+RFS   K Y Y+I    
Sbjct: 60  QVVNFHLKGRWKA-EELETALNGDLPDDIALKHMETAEERFHSRFSTLEKTYRYRIRTST 118

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             + F+  + +     L+   M++AA + +G +DF++F   ++  ++   V+ I   ++ 
Sbjct: 119 EKNVFERRFVWQYGKSLDIEAMKKAAAFLIGTYDFTSFCGNKKMKKS--AVRCISGIEMK 176

Query: 206 EMGALLQLEVEGSGFLYRQVRNMVN 230
           E+   LQ++  G GFL   VR +V 
Sbjct: 177 EIKGELQIDFTGDGFLQGMVRILVG 201


>gi|410657269|ref|YP_006909640.1| tRNA pseudouridine synthase A [Dehalobacter sp. DCA]
 gi|410660306|ref|YP_006912677.1| tRNA pseudouridine synthase A [Dehalobacter sp. CF]
 gi|409019624|gb|AFV01655.1| tRNA pseudouridine synthase A [Dehalobacter sp. DCA]
 gi|409022662|gb|AFV04692.1| tRNA pseudouridine synthase A [Dehalobacter sp. CF]
          Length = 239

 Score =  132 bits (331), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 77/202 (38%), Positives = 111/202 (54%), Gaps = 8/202 (3%)

Query: 29  LVIGYDGTRYAGWQFQTSPP-TIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           + I YDGT+Y GWQ Q     TIQ  +E  L    K+  E ++++G  RTD GVHA   +
Sbjct: 1   MTIAYDGTKYKGWQKQKDTDLTIQGKIETVL---AKMAEEKIQVIGCGRTDAGVHAENYI 57

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A+F T  ++   + I A L   LP DI V+ +      FHAR++ K+K Y Y I N+   
Sbjct: 58  ANFHTTSTFK-TKKILAYLYEFLPEDIVVKSMEEVSERFHARYNVKAKTYVYTINNNKFR 116

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F   Y YH   KL+   MR AAE  +G HDF +F N +R+  A + VK+I    + E 
Sbjct: 117 DVFNRKYTYHLADKLDLEQMRTAAELLIGTHDFQSFTN-ERS--AKSTVKTINSILINEN 173

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
             L+++E  G+ FL+  +R +V
Sbjct: 174 KGLIKIEFNGNSFLWNMLRIIV 195


>gi|256618219|ref|ZP_05475065.1| tRNA pseudouridine synthase [Enterococcus faecalis ATCC 4200]
 gi|422719066|ref|ZP_16775716.1| tRNA pseudouridine synthase A [Enterococcus faecalis TX0017]
 gi|256597746|gb|EEU16922.1| tRNA pseudouridine synthase [Enterococcus faecalis ATCC 4200]
 gi|315033638|gb|EFT45570.1| tRNA pseudouridine synthase A [Enterococcus faecalis TX0017]
          Length = 246

 Score =  132 bits (331), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 72/203 (35%), Positives = 116/203 (57%), Gaps = 7/203 (3%)

Query: 28  RLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           +L I YDG RY+GWQ    S  TIQ  +E  L ++T    E + ++G+ RTD G HA GQ
Sbjct: 5   KLTIEYDGKRYSGWQRLGNSEKTIQGKIESILKQMTG---EPIEIIGSGRTDAGTHARGQ 61

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           VA+F T  S    E + + LN  LP DI V+E++     FHAR++A  K Y Y ++N  +
Sbjct: 62  VANFKTTSSLTTTEML-SFLNRYLPGDIVVKEVTEMPERFHARYNATGKQYSYYVWNSPI 120

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
            + F+ ++++H    L+   M +A +  +G HDF  F  +++N ++    ++I +  +  
Sbjct: 121 PNAFERYHSFHFPKALDQEKMEQACQKLIGTHDFIGFSALKKNKKS--TTRTIEKITIER 178

Query: 207 MGALLQLEVEGSGFLYRQVRNMV 229
            G +LQ    G+GFL++ VR +V
Sbjct: 179 NGEMLQFTFVGNGFLHKMVRILV 201


>gi|210617714|ref|ZP_03291708.1| hypothetical protein CLONEX_03932 [Clostridium nexile DSM 1787]
 gi|210149156|gb|EEA80165.1| hypothetical protein CLONEX_03932 [Clostridium nexile DSM 1787]
          Length = 249

 Score =  132 bits (331), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 79/201 (39%), Positives = 112/201 (55%), Gaps = 9/201 (4%)

Query: 27  WRLVIGYDGTRYAGWQFQT-SPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++++I YDG+RY GWQ Q  +  TIQ I+E+ + ++     E   + G+ RTD GVHA G
Sbjct: 4   YKMIIVYDGSRYKGWQRQNLTNLTIQTILERTVEQIVGYPVE---IDGSGRTDAGVHANG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+       D  ES    LN LLP DI V+E+      FH+R+SAK+K Y Y I    
Sbjct: 61  QVANMKVSGLLD--ESFVGELNCLLPEDICVKEMELVPGSFHSRYSAKAKKYKYCIDTRK 118

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
               F   Y YH   +L+   M++AAEY  G HDFSAF +   N    + V++I+   ++
Sbjct: 119 KPCVFTRRYTYHFTKELHLDDMKKAAEYLKGTHDFSAFTD---NKDEKSKVRTIYEIKIV 175

Query: 206 EMGALLQLEVEGSGFLYRQVR 226
           +    L+ E  G+GFLY  VR
Sbjct: 176 KKWTRLEFEFYGTGFLYHMVR 196


>gi|336112827|ref|YP_004567594.1| tRNA pseudouridine synthase A [Bacillus coagulans 2-6]
 gi|335366257|gb|AEH52208.1| tRNA pseudouridine synthase A [Bacillus coagulans 2-6]
          Length = 245

 Score =  132 bits (331), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 79/199 (39%), Positives = 109/199 (54%), Gaps = 5/199 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDG+R+AG+Q Q    T+Q  +EKAL  + K     ++   + RTD GVHA GQV
Sbjct: 5   KCTVSYDGSRFAGYQVQPGQRTVQQEIEKALAALHK--GRPVKTAASGRTDAGVHAMGQV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF T  S     S  AALN LLP DI V   + A P FHAR+S K K Y Y+IY   V 
Sbjct: 63  VHFDTDLSIPET-SWPAALNSLLPGDISVSAAAYAGPGFHARYSVKEKEYRYRIYFSHVR 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
            PF+H YA    + L+T  M  AA   +G HDF++F + +    A + V+++     +  
Sbjct: 122 SPFKHRYALRVWFPLDTGAMEAAANAVLGTHDFTSFCSAK--TEAEDRVRTLKEIRFLRQ 179

Query: 208 GALLQLEVEGSGFLYRQVR 226
              L +  +G+GFLY  VR
Sbjct: 180 DDELVICFKGNGFLYNMVR 198


>gi|407476024|ref|YP_006789901.1| tRNA pseudouridine synthase A [Exiguobacterium antarcticum B7]
 gi|407060103|gb|AFS69293.1| tRNA pseudouridine synthase A [Exiguobacterium antarcticum B7]
          Length = 249

 Score =  132 bits (331), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 78/204 (38%), Positives = 111/204 (54%), Gaps = 8/204 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDGT Y+G+Q Q +  TIQ ++EK L R   + +  ++++G+ RTD  VHA G
Sbjct: 3   RFKCTIQYDGTDYSGYQVQPNGLTIQEVIEKTLER---MHKHPVKIIGSGRTDARVHAQG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF T  S     S+  ALN LLP DIR+R+      +F AR+    K Y Y +    
Sbjct: 60  QVIHFNTELSI-APASMVKALNTLLPDDIRIRDCKEVASDFEARYDVVGKEYRYFVRQ-- 116

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             D F+ H +    Y L+   +R    Y VG HDFS+F   +      N V++I+  ++I
Sbjct: 117 TEDAFRRHQSVLIPYSLDVAQIRLGLAYLVGTHDFSSFCVAKTETD--NRVRTIYEAELI 174

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E G  L     GSGFLY Q+R MV
Sbjct: 175 EQGDELIFRFHGSGFLYNQIRIMV 198


>gi|401565544|ref|ZP_10806376.1| tRNA pseudouridine(38-40) synthase [Selenomonas sp. FOBRC6]
 gi|400187025|gb|EJO21228.1| tRNA pseudouridine(38-40) synthase [Selenomonas sp. FOBRC6]
          Length = 258

 Score =  132 bits (331), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 83/207 (40%), Positives = 116/207 (56%), Gaps = 14/207 (6%)

Query: 29  LVIGYDGTRYAGWQFQTSPP-TIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           L + YDGT Y G+Q QT P   +Q ++E+AL +V     E++ L  A RTD GVHA+GQV
Sbjct: 10  LKVAYDGTNYRGFQRQTPPVVAVQNVLERALAKVCA---EEVELAAAGRTDAGVHAYGQV 66

Query: 88  AHFITPFSYDG---LESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
            +F T    DG   ++ +  A+NGLLPPDI V E   A   F AR SA  K Y Y++   
Sbjct: 67  VNFFT----DGRIPVKRLPRAVNGLLPPDIVVTEAWEAARVFSARHSATGKAYVYRLEQC 122

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
            V DPF  +YA+     L+   MR A    VG HD+S+F         ++PV+++    +
Sbjct: 123 TVPDPFTRNYAWQIFQPLDVEAMRAALAMLVGTHDYSSFRAA--GGAPMSPVRTLDEIRL 180

Query: 205 IEMGA-LLQLEVEGSGFLYRQVRNMVN 230
            E GA  L   + G+GFLY  VRN+++
Sbjct: 181 REEGAGRLSCYLHGNGFLYHMVRNIMS 207


>gi|390629491|ref|ZP_10257485.1| Pseudouridine synthase [Weissella confusa LBAE C39-2]
 gi|390485127|emb|CCF29833.1| Pseudouridine synthase [Weissella confusa LBAE C39-2]
          Length = 249

 Score =  132 bits (331), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 72/206 (34%), Positives = 118/206 (57%), Gaps = 5/206 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDGT + GWQ Q    T+Q  +EK + ++ K   E +R+ G+ RTD  VHA G
Sbjct: 3   RYKATISYDGTEFYGWQVQPGKRTVQLEMEKVVNKMAKDPTEHIRVQGSGRTDARVHAKG 62

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  PF     E++   L+ +LP DI ++ +      FHA+FSA +K Y Y++    
Sbjct: 63  QVVHFDLPFDIPN-EAVRKGLSTMLPYDIGIKSVEKVDESFHAQFSAHNKTYLYRLSTTE 121

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
            +DPF+ +Y  H   +++T+LM++A   +VG+HD+ +FV      +    V++++   + 
Sbjct: 122 FIDPFKRNYTGHWHRRIDTSLMQQAIGDYVGEHDWLSFVASGFQQKTT--VRTVYSAKMW 179

Query: 206 EMGALLQL--EVEGSGFLYRQVRNMV 229
           E     ++  E  G+GFLY Q+R MV
Sbjct: 180 EKPEEDEIWFEFSGNGFLYNQIRIMV 205


>gi|429765159|ref|ZP_19297461.1| tRNA pseudouridine synthase A [Clostridium celatum DSM 1785]
 gi|429186902|gb|EKY27831.1| tRNA pseudouridine synthase A [Clostridium celatum DSM 1785]
          Length = 244

 Score =  132 bits (331), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 80/202 (39%), Positives = 108/202 (53%), Gaps = 6/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L + YDGT Y GWQ Q    TIQ  +E+A+  VTK   E   L G+SRTD GVHA G +
Sbjct: 5   KLTLEYDGTNYYGWQKQNGMKTIQGELEEAIFNVTK---EKCDLTGSSRTDAGVHAKGFI 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A+F T  S         ALN  LP DI V +       FHAR+ AK K Y Y I N  V 
Sbjct: 62  ANFKTN-SKVPPNKFREALNVKLPNDIVVVKSEEVEESFHARYCAKGKTYEYSILNSDVP 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
                +  YH  Y L+   M+ AA+ F+G HDF+AF    +       +++IF  +V + 
Sbjct: 121 SALIRNTVYHYKYNLDVEAMKIAAKQFIGTHDFAAFK--TQGSSVKGTIRTIFDVNVEKN 178

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
             ++++ V+G GFLY  VR +V
Sbjct: 179 DEIIKISVKGDGFLYNMVRIIV 200


>gi|320101703|ref|YP_004177294.1| tRNA pseudouridine synthase A [Isosphaera pallida ATCC 43644]
 gi|319748985|gb|ADV60745.1| tRNA pseudouridine synthase A [Isosphaera pallida ATCC 43644]
          Length = 275

 Score =  132 bits (331), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 79/201 (39%), Positives = 107/201 (53%), Gaps = 6/201 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L++ YDGT ++GWQ Q    T+Q +VE AL  +T    E + +  + RTD GVHA GQV
Sbjct: 6   KLILAYDGTEFSGWQRQPGHRTVQEVVESALRPLTG---EPVAVTASGRTDAGVHALGQV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           AHF T  +    E    ALN  LPPD+RV     A   FHA   A+SK Y Y I N    
Sbjct: 63  AHFHT-IARHPPEVFLKALNATLPPDVRVVWAEEAPQSFHATLDAQSKRYRYVIDNGPFA 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           DPF    A+H    L+   M  A +   G+HDF +F     N   ++ V++I    V  +
Sbjct: 122 DPFLRRTAWHLFRPLDAPRMNRAVQALRGRHDFRSFETNWPNR--MSSVRTILDVQVRRI 179

Query: 208 GALLQLEVEGSGFLYRQVRNM 228
              ++LEVE  GFLY  VR++
Sbjct: 180 DHRVELEVEADGFLYNMVRSI 200


>gi|169347102|ref|ZP_02866044.1| tRNA pseudouridine synthase A [Clostridium perfringens C str.
           JGS1495]
 gi|169296785|gb|EDS78914.1| tRNA pseudouridine synthase A [Clostridium perfringens C str.
           JGS1495]
          Length = 244

 Score =  132 bits (331), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 80/203 (39%), Positives = 113/203 (55%), Gaps = 8/203 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L+I YDGT Y GWQ Q    TIQ  VE+A+ +VTK   E++ ++G+SRTD+GVHA   V
Sbjct: 5   KLIIEYDGTSYFGWQKQPIGNTIQQKVEEAIKKVTK---EEVEILGSSRTDSGVHAKAYV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A+F T  +  G ++  AALN  LP DI +        +FHAR+    K Y Y I N    
Sbjct: 62  ANFKTNSNIPG-KNFKAALNSKLPKDIVIMNSEEVAEDFHARYMTTGKTYCYTILNREEP 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALN-PVKSIFRFDVIE 206
              + +  YH   +L+   M+EA +YF+GKHDF AF   QR    +   V++I    +  
Sbjct: 121 PALERNCVYHVKKQLDVESMKEACKYFLGKHDFKAF---QRPGGTVKTSVRTITDIHIET 177

Query: 207 MGALLQLEVEGSGFLYRQVRNMV 229
            G  +++ V   GFLY  VR +V
Sbjct: 178 EGNKIKIYVSADGFLYNMVRLIV 200


>gi|308270748|emb|CBX27358.1| tRNA pseudouridine synthase A [uncultured Desulfobacterium sp.]
          Length = 246

 Score =  132 bits (331), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 76/204 (37%), Positives = 114/204 (55%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           ++L I YDGT + GWQ Q +  TIQ  +EKA+  +TK   + + L GA RTD GVHA  Q
Sbjct: 5   FKLTIEYDGTAFNGWQRQLNGRTIQGEIEKAIFAMTK---QKIALTGAGRTDAGVHALAQ 61

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           VA+FI   + +  +S +  LN LLP DI ++       +FH+R+ +KSK+Y YKI N  +
Sbjct: 62  VANFICDTNLEP-DSFYRGLNSLLPGDIIIKLCEQVCEKFHSRYDSKSKLYRYKILNRPL 120

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
                 +Y +     L+   MREA  +  G  DF AF       ++   ++++ R ++IE
Sbjct: 121 PSAIGRNYLWFIKSPLDLKAMREAVLFIAGTRDFKAFEGSGSPRKS--TIRTVLRSELIE 178

Query: 207 -MGALLQLEVEGSGFLYRQVRNMV 229
               ++Q E+E  GFL   VRN+V
Sbjct: 179 NEDNIIQFEIEADGFLRFMVRNIV 202


>gi|325678788|ref|ZP_08158386.1| tRNA pseudouridine synthase A [Ruminococcus albus 8]
 gi|324109292|gb|EGC03510.1| tRNA pseudouridine synthase A [Ruminococcus albus 8]
          Length = 250

 Score =  132 bits (331), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 78/208 (37%), Positives = 114/208 (54%), Gaps = 16/208 (7%)

Query: 27  WRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           +++ + YDG+ Y GWQ Q++   +Q +VE A+ ++T    E + + G SRTD GVHA   
Sbjct: 4   FKVTLAYDGSGYHGWQRQSNALAVQEVVENAIFKLTG---EKVVVQGCSRTDAGVHARMY 60

Query: 87  VAHF-----ITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKI 141
           V        ITP        I   LN  LP DI V         FHAR+  K K Y Y +
Sbjct: 61  VLSMELESTITP------RGIQLGLNSWLPDDISVIGCEECEAGFHARYHCKGKEYEYIV 114

Query: 142 YNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFR 201
           +N  + DPF  + A+ + Y ++  L+ +AA+ +VG+HDF AF +    D+ +  V++I+R
Sbjct: 115 HNSRIKDPFLKNTAFRNTYPIDEVLLDKAAKDYVGEHDFKAFCSTA-CDKEIT-VRTIYR 172

Query: 202 FDVIEMGALLQLEVEGSGFLYRQVRNMV 229
           FDV   G L+   V G+GFLY  VR MV
Sbjct: 173 FDVRREGELVIFTVAGNGFLYNMVRIMV 200


>gi|153816265|ref|ZP_01968933.1| hypothetical protein RUMTOR_02514 [Ruminococcus torques ATCC 27756]
 gi|317501758|ref|ZP_07959944.1| pseudouridylate synthase [Lachnospiraceae bacterium 8_1_57FAA]
 gi|331088721|ref|ZP_08337631.1| tRNA pseudouridine synthase A [Lachnospiraceae bacterium 3_1_46FAA]
 gi|336439604|ref|ZP_08619215.1| tRNA pseudouridine synthase A [Lachnospiraceae bacterium 1_1_57FAA]
 gi|145846448|gb|EDK23366.1| tRNA pseudouridine synthase A [Ruminococcus torques ATCC 27756]
 gi|316896791|gb|EFV18876.1| pseudouridylate synthase [Lachnospiraceae bacterium 8_1_57FAA]
 gi|330407244|gb|EGG86747.1| tRNA pseudouridine synthase A [Lachnospiraceae bacterium 3_1_46FAA]
 gi|336015833|gb|EGN45635.1| tRNA pseudouridine synthase A [Lachnospiraceae bacterium 1_1_57FAA]
          Length = 271

 Score =  131 bits (330), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 75/199 (37%), Positives = 111/199 (55%), Gaps = 6/199 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L + YDGT Y GWQ Q +  T++ ++ KAL  +TK   E ++++GASRTD GVHA G V
Sbjct: 5   KLTVAYDGTDYCGWQIQPNGITVEEVLNKALSDLTK---ETVKVIGASRTDAGVHARGNV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A F T  S    E I  A+N LLP DI V        ++H R+    K Y Y I N  + 
Sbjct: 62  AVFDTK-SPIPPERIAYAVNALLPDDIVVVRSEEVGCDWHPRYQNSIKTYEYTIVNREMP 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           DP +   ++   + L+   M++AA YF+G+HDF  F ++    +    V+ I   DV + 
Sbjct: 121 DPLRRRDSWFVSFPLDIDDMKKAARYFIGEHDFKTFCSVHTGVKTT--VRRIDSLDVEKK 178

Query: 208 GALLQLEVEGSGFLYRQVR 226
           G  +++ + G+GFLY  VR
Sbjct: 179 GERIKIRISGNGFLYNMVR 197


>gi|260588018|ref|ZP_05853931.1| tRNA pseudouridine synthase A [Blautia hansenii DSM 20583]
 gi|331082412|ref|ZP_08331538.1| tRNA pseudouridine synthase A [Lachnospiraceae bacterium 6_1_63FAA]
 gi|260541545|gb|EEX22114.1| tRNA pseudouridine synthase A [Blautia hansenii DSM 20583]
 gi|330400898|gb|EGG80499.1| tRNA pseudouridine synthase A [Lachnospiraceae bacterium 6_1_63FAA]
          Length = 244

 Score =  131 bits (330), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 74/203 (36%), Positives = 114/203 (56%), Gaps = 7/203 (3%)

Query: 25  FKWRLVIGYDGTRYAGWQFQT-SPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHA 83
             +RL I YDG+RY GWQ Q  +  TIQ  +E  L   TK+   ++++ GA RTD GVHA
Sbjct: 1   MNYRLDIQYDGSRYGGWQRQKDTDNTIQGKIEDVL---TKMLGTEVQIQGAGRTDAGVHA 57

Query: 84  WGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYN 143
            GQVA+F         E I   LN  LP DI + ++S A   FH+R +AK K+Y Y+I +
Sbjct: 58  KGQVANFHADCE-KSCEEICQYLNEYLPEDIEISKVSEAEERFHSRLNAKEKVYQYRIVS 116

Query: 144 DAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFD 203
               + F+  Y       L+   M+EAA+Y  G HDF +F + ++  ++   V++I+  +
Sbjct: 117 GIHKNVFERKYQCPLHETLDVNAMQEAAKYLEGTHDFKSFCSNKKMKKS--SVRTIYSIE 174

Query: 204 VIEMGALLQLEVEGSGFLYRQVR 226
           ++++   + +   G+GFLY  VR
Sbjct: 175 IVDLTQEIVITYTGNGFLYNMVR 197


>gi|403238438|ref|ZP_10917024.1| tRNA pseudouridine synthase A [Bacillus sp. 10403023]
          Length = 256

 Score =  131 bits (330), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 75/204 (36%), Positives = 113/204 (55%), Gaps = 5/204 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDGT ++G+Q Q +  T+Q   E AL ++ K   E + +V + RTD  VHA G
Sbjct: 3   RYKCIISYDGTHFSGYQVQPNKRTVQSEFETALQKMHK--GEPVSIVASGRTDAKVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF +  S   +E    ALN LLP DI VR +     +FHARF  K+K Y Y++    
Sbjct: 61  QVIHFDSRISIP-VEGWKRALNSLLPNDISVRSVEMVALDFHARFDVKAKEYRYRLLVSK 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
               F+ HY Y+  Y LN   MREA++Y +G +DF++F          + V++I++  + 
Sbjct: 120 EPCVFKRHYTYYYPYPLNLAAMREASDYLIGTYDFTSFC--ASKTEVQDKVRTIYQIKIE 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           +    L     G+GFLY  VR +V
Sbjct: 178 KHEDELIFSFVGNGFLYNMVRILV 201


>gi|116617361|ref|YP_817732.1| tRNA pseudouridine synthase A [Leuconostoc mesenteroides subsp.
           mesenteroides ATCC 8293]
 gi|339481338|ref|ZP_08656997.1| tRNA pseudouridine synthase A [Leuconostoc pseudomesenteroides KCTC
           3652]
 gi|122272438|sp|Q03ZL3.1|TRUA_LEUMM RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|116096208|gb|ABJ61359.1| Pseudouridylate synthase [Leuconostoc mesenteroides subsp.
           mesenteroides ATCC 8293]
          Length = 255

 Score =  131 bits (330), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 77/211 (36%), Positives = 116/211 (54%), Gaps = 10/211 (4%)

Query: 26  KWRLVIGYDGTRYAGWQFQT-----SPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTG 80
           +++ VI YDG  + G+Q QT     S  T+Q  + K + ++ K     +++VGASRTDTG
Sbjct: 3   RYKAVIAYDGAEFFGFQLQTKNGVESVRTVQGELNKVINKMAKNPSPQIKVVGASRTDTG 62

Query: 81  VHAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYK 140
           VHA+GQV HF  PF+ D  E +   +N LLP D+ V  +     +FHARF+  SK Y Y+
Sbjct: 63  VHAFGQVVHFDLPFNIDP-EGVRKGMNTLLPFDVVVNHVEHVSDDFHARFNTHSKRYIYR 121

Query: 141 IYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIF 200
           +      DPF+  Y  H  +KL+   ++ A    +G+HDF++F      +     ++ I 
Sbjct: 122 VSTTDYKDPFKRKYTGHFHWKLDINRIKAALPDLLGEHDFASFA--ASGNETATTIRLIT 179

Query: 201 RFDVIEMGALLQL--EVEGSGFLYRQVRNMV 229
           R DV E     ++    EG+ FLY Q+R MV
Sbjct: 180 RADVDEKPEEHEIVFTFEGNAFLYNQIRIMV 210


>gi|389816155|ref|ZP_10207342.1| tRNA pseudouridine synthase A [Planococcus antarcticus DSM 14505]
 gi|388465419|gb|EIM07737.1| tRNA pseudouridine synthase A [Planococcus antarcticus DSM 14505]
          Length = 247

 Score =  131 bits (330), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 79/201 (39%), Positives = 106/201 (52%), Gaps = 5/201 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + +  I YDG+ +AG+Q Q    T+Q  + K L  + K   E +++V + RTD  VHA G
Sbjct: 3   RLKATIAYDGSGFAGYQVQPETRTVQLELMKVLKTIHK--GEVVQVVASGRTDAKVHATG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF T FS   +     ALN LLP DIRV  I      FHAR+    K Y YK     
Sbjct: 61  QVIHFDTEFSIP-VSGWLKALNVLLPEDIRVSSIEEVDVSFHARYHTTGKTYRYKWDCSG 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           ++ PF  ++  H    L+   MR AA   +G HDFS+F     N   ++ V++I R D  
Sbjct: 120 IISPFTRNHMVHVKQPLDIEAMRTAARALIGTHDFSSFC--AANTAVIDKVRTIQRLDFE 177

Query: 206 EMGALLQLEVEGSGFLYRQVR 226
           E G  L + +EGSGFLY  VR
Sbjct: 178 EHGNELHMIIEGSGFLYNMVR 198


>gi|381335836|ref|YP_005173611.1| tRNA pseudouridine synthase A [Leuconostoc mesenteroides subsp.
           mesenteroides J18]
 gi|356643802|gb|AET29645.1| tRNA pseudouridine synthase A [Leuconostoc mesenteroides subsp.
           mesenteroides J18]
          Length = 255

 Score =  131 bits (330), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 77/211 (36%), Positives = 116/211 (54%), Gaps = 10/211 (4%)

Query: 26  KWRLVIGYDGTRYAGWQFQT-----SPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTG 80
           +++ VI YDG  + G+Q QT     S  T+Q  + K + ++ K     +++VGASRTDTG
Sbjct: 3   RYKAVIAYDGAEFFGFQLQTKNGVESVRTVQGELNKVINKMAKNPSPQIKVVGASRTDTG 62

Query: 81  VHAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYK 140
           VHA+GQV HF  PF+ D  E +   +N LLP D+ V  +     +FHARF+  SK Y Y+
Sbjct: 63  VHAFGQVVHFDLPFNIDP-EGVRKGMNTLLPFDVVVNHVEHVSDDFHARFNTHSKRYIYR 121

Query: 141 IYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIF 200
           +      DPF+  Y  H  +KL+   ++ A    +G+HDF++F      +     ++ I 
Sbjct: 122 VSTTDYKDPFKRKYTGHFHWKLDINRIKAALPDLLGEHDFASFA--ASGNETATTIRLIT 179

Query: 201 RFDVIEMGALLQL--EVEGSGFLYRQVRNMV 229
           R DV E     ++    EG+ FLY Q+R MV
Sbjct: 180 RADVDEKPEEHEIVFTFEGNAFLYNQIRIMV 210


>gi|222056725|ref|YP_002539087.1| tRNA pseudouridine synthase A [Geobacter daltonii FRC-32]
 gi|254789637|sp|B9M6W5.1|TRUA_GEOSF RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|221566014|gb|ACM21986.1| tRNA pseudouridine synthase A [Geobacter daltonii FRC-32]
          Length = 244

 Score =  131 bits (330), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 79/199 (39%), Positives = 109/199 (54%), Gaps = 6/199 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L+I YDGT Y GWQ Q +  TIQ ++E++L    K+  + +RL  + RTD GVHA G V
Sbjct: 5   KLIIEYDGTAYCGWQLQPNGITIQQVIEESL---EKMLGQSVRLQSSGRTDAGVHALGMV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A F T      + +    LN LLPPDI +R+ S     F+ R  A SK Y Y IYN    
Sbjct: 62  AVFKTQKDLP-VRAFSDGLNCLLPPDIAIRDASEVPLSFNPRADAISKHYRYTIYNSKRR 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
            P     ++H    LN  LM+  A +FVG+HDF+AF     N  A   ++ +F   V ++
Sbjct: 121 SPLTRLNSWHLRGILNMELMQLGASHFVGEHDFAAFR--ASNCVAKTTIRRMFHVSVAKV 178

Query: 208 GALLQLEVEGSGFLYRQVR 226
           G  + ++V GSGFL   VR
Sbjct: 179 GDSVIIDVHGSGFLKNMVR 197


>gi|254556054|ref|YP_003062471.1| tRNA pseudouridine synthase A [Lactobacillus plantarum JDM1]
 gi|308180048|ref|YP_003924176.1| tRNA-pseudouridine synthase I [Lactobacillus plantarum subsp.
           plantarum ST-III]
 gi|380032005|ref|YP_004888996.1| tRNA pseudouridine synthase A [Lactobacillus plantarum WCFS1]
 gi|418274636|ref|ZP_12890134.1| tRNA pseudouridine synthase A [Lactobacillus plantarum subsp.
           plantarum NC8]
 gi|448820634|ref|YP_007413796.1| tRNA pseudouridine synthase A [Lactobacillus plantarum ZJ316]
 gi|38258756|sp|Q88XU9.1|TRUA_LACPL RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|254044981|gb|ACT61774.1| tRNA pseudouridine synthase A [Lactobacillus plantarum JDM1]
 gi|308045539|gb|ADN98082.1| tRNA-pseudouridine synthase I [Lactobacillus plantarum subsp.
           plantarum ST-III]
 gi|342241248|emb|CCC78482.1| tRNA pseudouridine synthase A [Lactobacillus plantarum WCFS1]
 gi|376010202|gb|EHS83528.1| tRNA pseudouridine synthase A [Lactobacillus plantarum subsp.
           plantarum NC8]
 gi|448274131|gb|AGE38650.1| tRNA pseudouridine synthase A [Lactobacillus plantarum ZJ316]
          Length = 262

 Score =  131 bits (330), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 75/206 (36%), Positives = 115/206 (55%), Gaps = 5/206 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++++V+ YDGT +AG+Q Q    T++ +V KA+ ++ K   E + + GA RTD GVHA+G
Sbjct: 4   RYKVVLAYDGTNFAGFQRQPHQRTVEQVVTKAVNKMAKDPVEPIVIYGAGRTDAGVHAFG 63

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           Q  HF  P+  +  E +   LN +LP D  V+ +S    +FHAR+    K Y Y+ Y + 
Sbjct: 64  QTLHFDLPYEINP-EGVRRGLNSMLPMDTIVKAVSIVPNDFHARYDTVGKRYWYRAYQNE 122

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
            +DPF+ HY  H  +  +   +++A     G+HDFS FV      +A + V+ I+     
Sbjct: 123 FVDPFKRHYTGHFKFAADIDRIQQAIGDLEGRHDFSTFV--ASGSQAHDHVREIYSAKAW 180

Query: 206 EM--GALLQLEVEGSGFLYRQVRNMV 229
            +     +Q E  GSGFLY QVR MV
Sbjct: 181 ALPDEREIQFEFCGSGFLYNQVRIMV 206


>gi|300767857|ref|ZP_07077767.1| tRNA-pseudouridine synthase I [Lactobacillus plantarum subsp.
           plantarum ATCC 14917]
 gi|300494842|gb|EFK30000.1| tRNA-pseudouridine synthase I [Lactobacillus plantarum subsp.
           plantarum ATCC 14917]
          Length = 273

 Score =  131 bits (330), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 75/206 (36%), Positives = 115/206 (55%), Gaps = 5/206 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++++V+ YDGT +AG+Q Q    T++ +V KA+ ++ K   E + + GA RTD GVHA+G
Sbjct: 15  RYKVVLAYDGTNFAGFQRQPHQRTVEQVVTKAVNKMAKDPVEPIVIYGAGRTDAGVHAFG 74

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           Q  HF  P+  +  E +   LN +LP D  V+ +S    +FHAR+    K Y Y+ Y + 
Sbjct: 75  QTLHFDLPYEINP-EGVRRGLNSMLPMDTIVKAVSIVPNDFHARYDTVGKRYWYRAYQNE 133

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
            +DPF+ HY  H  +  +   +++A     G+HDFS FV      +A + V+ I+     
Sbjct: 134 FVDPFKRHYTGHFKFAADIDRIQQAIGDLEGRHDFSTFV--ASGSQAHDHVREIYSAKAW 191

Query: 206 EM--GALLQLEVEGSGFLYRQVRNMV 229
            +     +Q E  GSGFLY QVR MV
Sbjct: 192 ALPDEREIQFEFCGSGFLYNQVRIMV 217


>gi|336392514|ref|ZP_08573913.1| tRNA pseudouridine synthase A [Lactobacillus coryniformis subsp.
           torquens KCTC 3535]
          Length = 265

 Score =  131 bits (330), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 81/210 (38%), Positives = 113/210 (53%), Gaps = 10/210 (4%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLV--GASRTDTGVH 82
            ++++ I YDGT++AG+Q Q    T+Q ++EKA   V  + +   R+V  G+ RTD GVH
Sbjct: 6   LRYKVTIAYDGTQFAGFQLQVKQRTVQGVMEKA---VRTIAKSPTRIVVNGSGRTDAGVH 62

Query: 83  AWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIY 142
           A GQV HF  PF+     ++  ALN LLP D+ V++   A   FHAR+    K Y Y++ 
Sbjct: 63  ALGQVVHFDFPFALPA-AAMLKALNSLLPLDVVVKDCQVADSGFHARYDTTGKRYVYRVS 121

Query: 143 NDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRF 202
                DPF+  Y  H  Y L+   +  A   F+G HDFS+F          N V++IF  
Sbjct: 122 RGYYTDPFRRFYTGHWKYALDVDKIELALNDFIGTHDFSSFA--ASGGSIKNKVRTIFAA 179

Query: 203 DVIEMGALLQL--EVEGSGFLYRQVRNMVN 230
            V E  A  +L  E  G+GFLY  VR MV 
Sbjct: 180 TVTEDPASDELIFEFYGNGFLYNMVRIMVG 209


>gi|331268447|ref|YP_004394939.1| tRNA pseudouridine synthase A [Clostridium botulinum BKT015925]
 gi|329124997|gb|AEB74942.1| tRNA pseudouridine synthase A [Clostridium botulinum BKT015925]
          Length = 246

 Score =  131 bits (330), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 75/201 (37%), Positives = 112/201 (55%), Gaps = 5/201 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L+I YDG+ Y+GWQ Q    T+Q  +E+A+ ++TK + E   ++G SRTD GVHA   V
Sbjct: 6   KLIIEYDGSNYSGWQKQKHSITVQQKIEEAISQITKTDTE---IIGCSRTDAGVHARNFV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A+FIT  S         A+N  LP DI +++ S    +FHARF +K K Y Y I N    
Sbjct: 63  ANFITNSSVPP-SKFKYAINSKLPKDIVIKKSSEVSLDFHARFHSKGKKYVYTILNREEP 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
                +  YH    LN   M+EA++YF+G H+F +F   +      + +++I+  DV + 
Sbjct: 122 PTIDRNVMYHFNKDLNVDAMKEASKYFIGSHEFDSFYK-KSGSSVKSTLRTIYYCDVTKC 180

Query: 208 GALLQLEVEGSGFLYRQVRNM 228
             +++  V G GFLY  VR M
Sbjct: 181 EDVIKFTVIGEGFLYNMVRIM 201


>gi|323703112|ref|ZP_08114766.1| tRNA pseudouridine synthase A [Desulfotomaculum nigrificans DSM
           574]
 gi|333923190|ref|YP_004496770.1| tRNA pseudouridine synthase A [Desulfotomaculum carboxydivorans
           CO-1-SRB]
 gi|323531889|gb|EGB21774.1| tRNA pseudouridine synthase A [Desulfotomaculum nigrificans DSM
           574]
 gi|333748751|gb|AEF93858.1| tRNA pseudouridine synthase A [Desulfotomaculum carboxydivorans
           CO-1-SRB]
          Length = 245

 Score =  131 bits (330), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 78/203 (38%), Positives = 116/203 (57%), Gaps = 7/203 (3%)

Query: 28  RLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           +L I YDG+RY GWQ    +  TIQ  +E  L R+T    E++ + G+ RTDTGVHA  Q
Sbjct: 5   KLTIQYDGSRYRGWQRLGDTDVTIQGKIEAVLSRMTG---EEIEIFGSGRTDTGVHALAQ 61

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           VA+F T  +    E I   L   LP DI V  +      FHAR++ KSK Y YKI+N   
Sbjct: 62  VANFKTNSNMSTGE-IMDYLYHYLPEDIVVTRVEEVSDRFHARYNVKSKKYLYKIWNHKY 120

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
            DPF+  + +H    L    M++AA + +G+HDF++F       +  + VK+I+  D+++
Sbjct: 121 HDPFRRKFVHHVPEPLQIKAMQKAAAFLIGEHDFASFR--ASKSKKKSSVKTIYAIDIVK 178

Query: 207 MGALLQLEVEGSGFLYRQVRNMV 229
              L+++ V G+GFL+  VR +V
Sbjct: 179 KDPLIKITVHGNGFLHNMVRIIV 201


>gi|332638011|ref|ZP_08416874.1| tRNA pseudouridine synthase A [Weissella cibaria KACC 11862]
          Length = 249

 Score =  131 bits (330), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 71/206 (34%), Positives = 118/206 (57%), Gaps = 5/206 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDGT + GWQ Q    T+Q  +EK + ++ K   + +R+ G+ RTD  VHA G
Sbjct: 3   RYKATISYDGTEFYGWQVQPGKRTVQLEMEKVVNKMAKDPADHIRVQGSGRTDARVHAQG 62

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  PF     E++   L+ +LP DI ++ +      FHA+FSA +K Y Y++    
Sbjct: 63  QVVHFDLPFDIPN-EAVRKGLSTMLPYDIGIKSVEKVDESFHAQFSAHNKTYRYRLSTTE 121

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
            +DPF+ +Y  H   +++T+LM++A   +VG+HD+ +FV      +    V++++   + 
Sbjct: 122 FIDPFKRNYTGHWHRRIDTSLMQQAIGDYVGEHDWLSFVASGFQQKTT--VRTVYSAKMW 179

Query: 206 EMGALLQL--EVEGSGFLYRQVRNMV 229
           E     ++  E  G+GFLY Q+R MV
Sbjct: 180 EKPEEDEIWFEFTGNGFLYNQIRIMV 205


>gi|220915529|ref|YP_002490833.1| tRNA pseudouridine synthase A [Anaeromyxobacter dehalogenans 2CP-1]
 gi|219953383|gb|ACL63767.1| tRNA pseudouridine synthase A [Anaeromyxobacter dehalogenans 2CP-1]
          Length = 245

 Score =  131 bits (330), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 82/205 (40%), Positives = 113/205 (55%), Gaps = 9/205 (4%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +LV+ YDGT Y GWQ Q + P+IQ  VE+AL  + K  R   R+  A RTD GVHA GQV
Sbjct: 5   KLVLEYDGTAYVGWQVQPNGPSIQAEVERALATLHKAPR---RVTAAGRTDAGVHARGQV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
             F        +++    +N LLPPD+ VR  S A   F AR SA+ K Y Y I N    
Sbjct: 62  VSFPEERPLP-VKAYVMGMNALLPPDVAVRAASLAPDGFDARRSARGKRYRYVIENLPTR 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRAL-NPVKSIFRFDVI- 205
            P     A+   + L    +REAA + VG+HDF+AF   Q +D A  + V+ + R DV+ 
Sbjct: 121 APLTRLQAWQHFHPLELANVREAAAHLVGRHDFAAF---QASDCACEHAVREVRRLDVVG 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMVN 230
           E G  +++ +E + F+   VRN+V 
Sbjct: 178 EGGGRIEVVIEATAFVKHMVRNIVG 202


>gi|429736840|ref|ZP_19270716.1| tRNA pseudouridine synthase A [Selenomonas sp. oral taxon 138 str.
           F0429]
 gi|429153820|gb|EKX96585.1| tRNA pseudouridine synthase A [Selenomonas sp. oral taxon 138 str.
           F0429]
          Length = 258

 Score =  131 bits (329), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 82/207 (39%), Positives = 116/207 (56%), Gaps = 14/207 (6%)

Query: 29  LVIGYDGTRYAGWQFQTSPP-TIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           L + Y GT Y G+Q QT P   +Q ++E+AL +V     E++ L  A RTD GVHA+GQV
Sbjct: 10  LKVAYAGTNYHGFQRQTPPVVAVQNVLERALAKVCA---EEVELAAAGRTDAGVHAYGQV 66

Query: 88  AHFITPFSYDG---LESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
            +F T    DG   ++ +  A+NGLLPPDI V E   A  +F AR SA  K Y Y++   
Sbjct: 67  VNFFT----DGRIPVKRLPRAVNGLLPPDIVVTEAWEAARDFSARHSATGKAYVYRLEQC 122

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
            V DPF  +YA+     L+   MR A    VG HD+S+F         ++PV+++    +
Sbjct: 123 TVPDPFTRNYAWQIFQPLDVEAMRAALAMLVGTHDYSSFRAA--GGAPMSPVRTLDEIRL 180

Query: 205 IEMGA-LLQLEVEGSGFLYRQVRNMVN 230
            E GA  L   + G+GFLY  VRN+++
Sbjct: 181 TEEGAGRLSCYLHGNGFLYHMVRNIMS 207


>gi|295398321|ref|ZP_06808363.1| tRNA pseudouridine synthase A [Aerococcus viridans ATCC 11563]
 gi|294973460|gb|EFG49245.1| tRNA pseudouridine synthase A [Aerococcus viridans ATCC 11563]
          Length = 285

 Score =  131 bits (329), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 76/206 (36%), Positives = 115/206 (55%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++++ + YDGT + G+Q Q +  T+Q  +EKAL  ++K    D+++VG+ RTD+GVHA G
Sbjct: 3   RFKVTLQYDGTPFVGFQVQPNGHTVQEALEKALKLMSK--GHDIQVVGSGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P    G E++  A+N +L   IR+ ++     +FHARF    K Y YK+    
Sbjct: 61  QVIHFDYPAEI-GEEAVLRAMNSILDDAIRITKVERVEDDFHARFHTNGKKYIYKVDTSK 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
              PF   Y YH  Y+ + T M+ A +  +G HDF +F + + +    N V+ I+R +V 
Sbjct: 120 FPSPFTRQYMYHHPYRTDVTRMQTALKDIIGVHDFKSFCSTKTD--KTNFVREIYRAEVT 177

Query: 206 E--MGALLQLEVEGSGFLYRQVRNMV 229
                  L    EGSGFLY  VR +V
Sbjct: 178 ADPDAETLTFVFEGSGFLYNMVRILV 203


>gi|355621607|ref|ZP_09046208.1| tRNA pseudouridine synthase A [Clostridium sp. 7_3_54FAA]
 gi|354823414|gb|EHF07745.1| tRNA pseudouridine synthase A [Clostridium sp. 7_3_54FAA]
          Length = 265

 Score =  131 bits (329), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 81/211 (38%), Positives = 115/211 (54%), Gaps = 14/211 (6%)

Query: 28  RLVIGYDGTRYAGWQFQ-TSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           R+++ YDGTRY GWQ Q  +  T+Q  +E  L   ++L    + + G+ RTD GVHA GQ
Sbjct: 7   RILLQYDGTRYDGWQKQGNTQQTVQGKLEAVL---SRLAGGPVEVHGSGRTDAGVHALGQ 63

Query: 87  VAHFITPFSYDGLESIHAA--------LNGLLPPDIRVREISAAVPEFHARFSAKSKIYH 138
           VA+F  P S        AA        LN  LP DIRV     A P FH+R +A SK Y 
Sbjct: 64  VANFHLPLSAFCGSQTEAADLIRIKNYLNEYLPEDIRVLAAEEARPRFHSRLNALSKTYI 123

Query: 139 YKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKS 198
           Y+I      D F+  Y Y    + +  +M+ AA   VG HDF AF ++++  ++   V++
Sbjct: 124 YRIETADKNDVFERKYRYGLGKEPDLEIMKRAASILVGTHDFRAFSSLKKTKKS--TVRT 181

Query: 199 IFRFDVIEMGALLQLEVEGSGFLYRQVRNMV 229
           I R D+   G  L++ +EG+GFLY  VR +V
Sbjct: 182 ISRIDIRRDGTQLEILLEGNGFLYNMVRIIV 212


>gi|257083304|ref|ZP_05577665.1| tRNA pseudouridine synthase [Enterococcus faecalis Fly1]
 gi|256991334|gb|EEU78636.1| tRNA pseudouridine synthase [Enterococcus faecalis Fly1]
          Length = 246

 Score =  131 bits (329), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 71/203 (34%), Positives = 116/203 (57%), Gaps = 7/203 (3%)

Query: 28  RLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           +L I YDG RY+GWQ    S  TIQ  +E  L   T++  E + ++G+ RTD G HA GQ
Sbjct: 5   KLTIEYDGKRYSGWQRLGNSEKTIQGKIESIL---TQMTGEPIEIIGSGRTDAGTHARGQ 61

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           VA+F T  S    E + + LN  LP DI V+E++     FHAR++A  K Y Y ++N  +
Sbjct: 62  VANFKTTSSLTTTEML-SFLNRYLPGDIVVKEVTEMPERFHARYNATGKQYSYYVWNSPI 120

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
            + F+ ++++H    L+   M +A +  +G HDF  F  +++ +++    ++I +  +  
Sbjct: 121 PNAFERYHSFHFPKALDQEKMEQACQKLIGTHDFIGFSALKKTNKS--TTRTIEKITIER 178

Query: 207 MGALLQLEVEGSGFLYRQVRNMV 229
            G +LQ    G+GFL++ VR +V
Sbjct: 179 NGEMLQFTFVGNGFLHKMVRILV 201


>gi|429204100|ref|ZP_19195393.1| tRNA pseudouridine synthase [Lactobacillus saerimneri 30a]
 gi|428147599|gb|EKW99822.1| tRNA pseudouridine synthase [Lactobacillus saerimneri 30a]
          Length = 253

 Score =  131 bits (329), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 78/206 (37%), Positives = 115/206 (55%), Gaps = 6/206 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++++ I YDGT +AG+Q Q    T+Q ++E AL ++ K + E + +VG+ RTD GVHA  
Sbjct: 4   RYKVTIAYDGTNFAGFQKQPQQRTVQSVIEDALNKMNKTD-EHIFIVGSGRTDAGVHALA 62

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P     L  +   LN +LP D+ V++       FHARFS   K Y Y++    
Sbjct: 63  QVIHFDFPHDIPAL-GMKRGLNSMLPLDLEVKDCEIVDDSFHARFSTHGKRYMYRVSRGE 121

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
            ++PF+  Y  H  Y L+   +R A    VG HDF++FV      +A + V++I+   V 
Sbjct: 122 FVNPFKRFYTAHYKYPLDIDKIRAALPDVVGTHDFTSFVAA--GSQARDHVRTIYEATVR 179

Query: 206 EMGALLQL--EVEGSGFLYRQVRNMV 229
           E  A  ++  E  G+GFLY QVR MV
Sbjct: 180 EDHANDEVIFEFYGNGFLYNQVRIMV 205


>gi|227431309|ref|ZP_03913362.1| pseudouridylate synthase [Leuconostoc mesenteroides subsp. cremoris
           ATCC 19254]
 gi|227352902|gb|EEJ43075.1| pseudouridylate synthase [Leuconostoc mesenteroides subsp. cremoris
           ATCC 19254]
          Length = 255

 Score =  131 bits (329), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 77/211 (36%), Positives = 116/211 (54%), Gaps = 10/211 (4%)

Query: 26  KWRLVIGYDGTRYAGWQFQT-----SPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTG 80
           +++ VI YDG  + G+Q QT     S  T+Q  + K + ++ K     +++VGASRTDTG
Sbjct: 3   RYKAVIAYDGAEFFGFQLQTKNGVESVRTVQGELNKVINKMAKNPSPQIKVVGASRTDTG 62

Query: 81  VHAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYK 140
           VHA+GQV HF  PF+ D  E +   +N LLP D+ V  +     +FHARF+  SK Y Y+
Sbjct: 63  VHAFGQVIHFDLPFNIDP-EGVRKGMNTLLPFDVVVNHVEHVSDDFHARFNTHSKRYIYR 121

Query: 141 IYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIF 200
           +      DPF+  Y  H  +KL+   ++ A    +G+HDF++F      +     ++ I 
Sbjct: 122 VSTTDYKDPFKRKYTGHFHWKLDINRIKAALPDLLGEHDFASFA--ASGNETATTIRLIT 179

Query: 201 RFDVIEMGALLQL--EVEGSGFLYRQVRNMV 229
           R DV E     ++    EG+ FLY Q+R MV
Sbjct: 180 RADVDEKPEEHEIVFTFEGNAFLYNQIRIMV 210


>gi|15612730|ref|NP_241033.1| tRNA pseudouridine synthase A [Bacillus halodurans C-125]
 gi|8134764|sp|Q9Z9J0.1|TRUA_BACHD RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|4512436|dbj|BAA75303.1| truA [Bacillus halodurans]
 gi|10172779|dbj|BAB03886.1| tRNA pseudouridine synthase A (pseudouridylate synthase I)
           [Bacillus halodurans C-125]
          Length = 263

 Score =  131 bits (329), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 77/201 (38%), Positives = 111/201 (55%), Gaps = 5/201 (2%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L + YDGT +AG+Q Q +  T+Q  +E  L  + K     +R+  + RTDTGVHA GQ+ 
Sbjct: 6   LKVAYDGTDFAGYQIQPNERTVQGELESVLKNIHK--GMSIRVTASGRTDTGVHARGQIV 63

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           HF T  S+  ++    ALN  LP DI V E +    +FHAR+SAK+K Y Y++   A  D
Sbjct: 64  HFDTSLSFP-VDRWPIALNSQLPADICVLEAADVPADFHARYSAKTKEYRYRVLTSAQAD 122

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
            F+ +Y YH  Y L+   M+ AA   +G HDFS+F   +      + V++I    +   G
Sbjct: 123 VFRRNYTYHVRYPLDVEAMQRAAVQLLGTHDFSSFCAAKAE--VEDKVRTIEDVALWREG 180

Query: 209 ALLQLEVEGSGFLYRQVRNMV 229
             L   + G+GFLY  VR +V
Sbjct: 181 DELIFSIRGNGFLYNMVRIIV 201


>gi|270291103|ref|ZP_06197326.1| tRNA pseudouridine synthase A [Pediococcus acidilactici 7_4]
 gi|304385383|ref|ZP_07367728.1| tRNA pseudouridine synthase A [Pediococcus acidilactici DSM 20284]
 gi|418069660|ref|ZP_12706937.1| pseudouridylate synthase [Pediococcus acidilactici MA18/5M]
 gi|270280499|gb|EFA26334.1| tRNA pseudouridine synthase A [Pediococcus acidilactici 7_4]
 gi|304328590|gb|EFL95811.1| tRNA pseudouridine synthase A [Pediococcus acidilactici DSM 20284]
 gi|357536191|gb|EHJ20222.1| pseudouridylate synthase [Pediococcus acidilactici MA18/5M]
          Length = 248

 Score =  131 bits (329), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 70/207 (33%), Positives = 121/207 (58%), Gaps = 5/207 (2%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
            ++++ + YDGT +AG+Q Q +  T++ ++++A+ ++ K  + ++ + G+ RTD GVHA+
Sbjct: 1   MRYKITMAYDGTNFAGFQAQPNQRTVEGVLKRAVNKIAKNPQPEIPIFGSGRTDAGVHAF 60

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           GQV HF  P        +H ALN +LP D +V+++     +FHARF+   K Y Y++   
Sbjct: 61  GQVVHFDLPIEMTANNMLH-ALNSILPLDTQVKKVEIVDEDFHARFTTHGKRYQYRMALG 119

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
             +DPF+ +Y  H  + ++  L+++A +   G HDFS+FV       A N V++I+    
Sbjct: 120 EFVDPFKRNYTGHWKFPISIELIQQAIKDLEGTHDFSSFV--ASGSTAKNHVRTIYEAKA 177

Query: 205 IEMGALLQL--EVEGSGFLYRQVRNMV 229
            +  A  ++  E  G+GFLY  VR MV
Sbjct: 178 WKDEAQNEIIFEFYGNGFLYNMVRIMV 204


>gi|408401009|ref|YP_006858972.1| phosphomethyl pyrimidine kinase [Streptococcus dysgalactiae subsp.
           equisimilis RE378]
 gi|407967237|dbj|BAM60475.1| phosphomethyl pyrimidine kinase [Streptococcus dysgalactiae subsp.
           equisimilis RE378]
          Length = 249

 Score =  131 bits (329), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 75/206 (36%), Positives = 113/206 (54%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDGT ++G+Q Q+   T+Q  +EK L ++  ++   + + GA RTD GVHA+G
Sbjct: 3   RYKATISYDGTLFSGFQRQSHARTVQEEIEKTLQKLASVQ--PVPIHGAGRTDAGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P   D LE +  AL+   P DI V +++    +FH R+   SK Y + + N  
Sbjct: 61  QVIHFDLPQKRD-LEKLRFALDTQTPDDIDVVDLAIVADDFHCRYQKHSKTYEFLVDNGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +P   HYA H  Y L+   M+EA +  VG HDF+ F     +    N V++I    ++
Sbjct: 120 PKNPMMRHYATHYPYPLDINKMQEAIKDLVGTHDFTGFTAAGTS--VENKVRTITEATLV 177

Query: 206 E--MGALLQLEVEGSGFLYRQVRNMV 229
           +      L     G+GFLY+QVRNMV
Sbjct: 178 QDDKTGFLVFTFSGNGFLYKQVRNMV 203


>gi|239825725|ref|YP_002948349.1| tRNA pseudouridine synthase A [Geobacillus sp. WCH70]
 gi|259550397|sp|C5D3U9.1|TRUA_GEOSW RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|239806018|gb|ACS23083.1| tRNA pseudouridine synthase A [Geobacillus sp. WCH70]
          Length = 248

 Score =  131 bits (329), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 76/202 (37%), Positives = 113/202 (55%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +  + YDGT + G+Q Q    T+Q  +E+ L ++ K   + +R+  + RTD GVHA+GQV
Sbjct: 6   KCTLSYDGTHFFGYQIQPGKRTVQGELERVLEQMHK--GKAIRVTASGRTDAGVHAYGQV 63

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF T  S    +    ALN  LP DI ++++  A P FHARFSAK+K Y YK+      
Sbjct: 64  IHFDTFLSLSP-DQWKKALNAQLPDDIVIKDVQEADPSFHARFSAKAKEYRYKVRIAQER 122

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           D F  +Y YH  Y L+   MR A     G HDF++F + + +    + V++I++ D+   
Sbjct: 123 DVFLRNYCYHYPYPLDMEAMRHALRLIEGTHDFTSFCSAKTD--VDDRVRTIYKADMAMH 180

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
             LL+    G+GFLY  VR +V
Sbjct: 181 DDLLEFCFIGNGFLYNMVRIIV 202


>gi|167759245|ref|ZP_02431372.1| hypothetical protein CLOSCI_01592 [Clostridium scindens ATCC 35704]
 gi|167663119|gb|EDS07249.1| tRNA pseudouridine synthase A [Clostridium scindens ATCC 35704]
          Length = 248

 Score =  131 bits (329), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 75/202 (37%), Positives = 112/202 (55%), Gaps = 7/202 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + +L I YDGT Y GWQ Q +  T++ I+ K L    KL  ED+ ++GASRTD+GVHA G
Sbjct: 3   RIKLTIAYDGTDYCGWQIQPNGITVEEILNKKL---KKLTGEDIHVIGASRTDSGVHALG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKS-KIYHYKIYND 144
            VA F T  S    E +  ALN  LP DI +        ++H R+  +  K Y Y IYN 
Sbjct: 60  NVAVFDTESSIPA-ERMAYALNQRLPDDIVIVSSKEVPLDWHPRYQDEILKTYEYHIYNA 118

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
            V +P +  Y+    + +N   MRE A Y +G+HDF +F N++ +    + V+++    +
Sbjct: 119 PVQNPLKRRYSAFVSFPMNVEKMREGAAYLLGEHDFVSFCNVRTS--VEDTVRTVKELMI 176

Query: 205 IEMGALLQLEVEGSGFLYRQVR 226
            + G  + + + G+GFLY  VR
Sbjct: 177 EQEGPDITIRITGNGFLYNMVR 198


>gi|116511297|ref|YP_808513.1| tRNA pseudouridine synthase A [Lactococcus lactis subsp. cremoris
           SK11]
 gi|385839085|ref|YP_005876715.1| tRNA pseudouridine synthase A [Lactococcus lactis subsp. cremoris
           A76]
 gi|414073743|ref|YP_006998960.1| tRNA pseudouridine synthase A [Lactococcus lactis subsp. cremoris
           UC509.9]
 gi|123320604|sp|Q031N1.1|TRUA_LACLS RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|116106951|gb|ABJ72091.1| Pseudouridylate synthase [Lactococcus lactis subsp. cremoris SK11]
 gi|358750313|gb|AEU41292.1| tRNA pseudouridine synthase A [Lactococcus lactis subsp. cremoris
           A76]
 gi|413973663|gb|AFW91127.1| tRNA pseudouridine synthase A [Lactococcus lactis subsp. cremoris
           UC509.9]
          Length = 253

 Score =  131 bits (329), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 73/205 (35%), Positives = 112/205 (54%), Gaps = 5/205 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDGT +AG+Q QT+  T+Q  +EK L ++   E   + L G+ RTD+GVHA+G
Sbjct: 3   RYKATIAYDGTDFAGFQSQTNQRTVQEEIEKVLSKLNSFE--PVILQGSGRTDSGVHAFG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF        LE +   L+   P DI V+++     ++HAR+    K Y Y + N  
Sbjct: 61  QVIHFDLNGKARDLERLRFGLDTQTPADIAVKKVELVPDDWHARYQKHEKTYEYYLENSV 120

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
              PF  H   +  Y LN  LM+ A    VG+HDF+ F          + V++I++ ++I
Sbjct: 121 TRSPFHRHSKAYFRYPLNFELMQGAMAKLVGQHDFTGFT--ASGSSVDDKVRTIYQAEII 178

Query: 206 EMGAL-LQLEVEGSGFLYRQVRNMV 229
           ++     +    G+GFLY+QVRNMV
Sbjct: 179 QLDKENFKFIFRGNGFLYKQVRNMV 203


>gi|291520511|emb|CBK75732.1| pseudouridylate synthase I [Butyrivibrio fibrisolvens 16/4]
          Length = 245

 Score =  131 bits (329), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 75/198 (37%), Positives = 114/198 (57%), Gaps = 6/198 (3%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           +V+ YDG+ Y+GWQ Q +  TI+  + +AL   T L +E + ++GASRTD GVH+ G VA
Sbjct: 5   IVVAYDGSNYSGWQIQPNGVTIEQKLNEAL---TDLLQEPISIMGASRTDAGVHSLGNVA 61

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
            F T  S    + I  ALN  LP DI V+       +FH R++A  K Y YKI N  + D
Sbjct: 62  VFDTN-SRMPADKISFALNQRLPDDIVVQYSCQVEDDFHPRYAACRKTYEYKILNRKMPD 120

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
           P +    +H  Y L+   M EAA Y +G+HDF++F +++   ++   V++I+   V +  
Sbjct: 121 PTKRKDTFHYYYDLDVEKMNEAAAYLIGQHDFTSFSSVKAQVKSR--VRTIYTAKVYKED 178

Query: 209 ALLQLEVEGSGFLYRQVR 226
            ++ + + G GFLY  VR
Sbjct: 179 DVIHIRLTGDGFLYNMVR 196


>gi|335040764|ref|ZP_08533886.1| tRNA pseudouridine synthase A [Caldalkalibacillus thermarum TA2.A1]
 gi|334179339|gb|EGL81982.1| tRNA pseudouridine synthase A [Caldalkalibacillus thermarum TA2.A1]
          Length = 287

 Score =  130 bits (328), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 78/197 (39%), Positives = 106/197 (53%), Gaps = 8/197 (4%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           KW+  + YDGT YAG+Q Q +  TIQ  +E  L R   + R  +++VG+ RTD GVHA G
Sbjct: 10  KWKCTVAYDGTAYAGFQRQPNAVTIQGELEAVLKR---MHRHPVQVVGSGRTDAGVHARG 66

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF +  + +  E   A LN  LP DIR+         FHAR+  + K Y Y I N  
Sbjct: 67  QVIHFESSLALEENEWTKA-LNAQLPGDIRILRTEKVPASFHARYDVRGKEYRYFICNAP 125

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSI--FRFD 203
           V DPF   Y+YH    L+ TLM+EA   F G HDF+AF + +      + V++I     +
Sbjct: 126 VHDPFVRQYSYHVPLPLDVTLMQEAGRLFEGTHDFTAFSSAK--TEVADKVRTIDKLTLE 183

Query: 204 VIEMGALLQLEVEGSGF 220
           V+ +G   Q E    GF
Sbjct: 184 VLPVGRGTQAEQAKPGF 200


>gi|168493506|ref|ZP_02717649.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae CDC3059-06]
 gi|183576362|gb|EDT96890.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae CDC3059-06]
          Length = 249

 Score =  130 bits (328), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 75/208 (36%), Positives = 109/208 (52%), Gaps = 11/208 (5%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDG  +AG+Q Q+   ++Q  +EK L R+ K   + + + GA RTD+GVHA G
Sbjct: 3   RYKATISYDGYAFAGFQRQSHARSVQEEIEKTLTRLNK--GQTITVHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D  E +  AL+   P DI V  I     +FH R++  SK Y + +    
Sbjct: 61  QVLHFDLPYQMDE-EKLRFALDTQSPEDIDVISIELVADDFHCRYAKHSKTYEFIVDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAF----VNIQRNDRALNPVKSIFR 201
             +P + HYA H  Y L+   MREA +   G HDF+ F     +++   R +        
Sbjct: 120 PKNPMRRHYATHFPYPLDVERMREAIKKLEGTHDFTGFTASGTSVEDKIRTITEAS---- 175

Query: 202 FDVIEMGALLQLEVEGSGFLYRQVRNMV 229
             V E G  L     G+GFLY+Q+RNMV
Sbjct: 176 LTVDETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|336435341|ref|ZP_08615056.1| tRNA pseudouridine synthase A [Lachnospiraceae bacterium 1_4_56FAA]
 gi|336000794|gb|EGN30940.1| tRNA pseudouridine synthase A [Lachnospiraceae bacterium 1_4_56FAA]
          Length = 257

 Score =  130 bits (328), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 77/203 (37%), Positives = 113/203 (55%), Gaps = 10/203 (4%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + +L + YDGT Y GWQ Q +  T++ ++ +AL  +T  +   + ++GASRTD+GVHA G
Sbjct: 3   RIKLTVAYDGTNYCGWQVQPNGITVEEVLNRALSALTGTK---VNVIGASRTDSGVHARG 59

Query: 86  QVAHFIT--PFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYN 143
            VA F T  P   D    I  A+N  LP DI V +      ++H R+    K Y Y I N
Sbjct: 60  NVAIFDTDSPIPPD---RISYAVNQKLPDDIVVVKSEEVPKDWHPRYQNSVKTYEYHILN 116

Query: 144 DAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFD 203
             + DP + +  Y   Y L+   MR+AA Y VG+HDF++F NI  +    + V++I+   
Sbjct: 117 ARMPDPTRRYTTYFVSYHLDLEQMRKAAGYLVGEHDFASFCNIHTD--VEDTVRTIYELT 174

Query: 204 VIEMGALLQLEVEGSGFLYRQVR 226
           V + G  L + V G+GFLY  VR
Sbjct: 175 VEKSGEDLTIRVRGNGFLYNMVR 197


>gi|168186842|ref|ZP_02621477.1| tRNA pseudouridine synthase A [Clostridium botulinum C str. Eklund]
 gi|169295253|gb|EDS77386.1| tRNA pseudouridine synthase A [Clostridium botulinum C str. Eklund]
          Length = 245

 Score =  130 bits (328), Expect = 4e-28,   Method: Compositional matrix adjust.
 Identities = 76/203 (37%), Positives = 113/203 (55%), Gaps = 7/203 (3%)

Query: 28  RLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           +L I YDGTRY GWQ    +  TIQ  +E  L    +L  E + L+ + RTD GVHA  Q
Sbjct: 5   KLTIQYDGTRYKGWQKLGNNDTTIQHKIESVL---NELLGEKVSLMASGRTDAGVHANMQ 61

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           VA+F T       E I   L   LP DI V  ++ A   FH+R++ K K+Y Y+I+N  V
Sbjct: 62  VANFKTDSEISNDE-IFKYLYKYLPQDIVVTSVNNASDNFHSRYNVKEKVYTYRIHNSEV 120

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
            D F   Y+YH   KL+   M+EA++ F+G+HDF +F  ++   ++   VK+I      +
Sbjct: 121 HDVFTRKYSYHIKEKLDLKKMKEASKLFIGEHDFKSFTALKSKKKS--TVKAINSITFRK 178

Query: 207 MGALLQLEVEGSGFLYRQVRNMV 229
               +++   G+GFLY+ +R +V
Sbjct: 179 KENDIEIVFSGNGFLYKMIRILV 201


>gi|83594681|ref|YP_428433.1| pseudouridylate synthase [Rhodospirillum rubrum ATCC 11170]
 gi|386351446|ref|YP_006049694.1| pseudouridylate synthase [Rhodospirillum rubrum F11]
 gi|123725839|sp|Q2RNZ9.1|TRUA_RHORT RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|83577595|gb|ABC24146.1| Pseudouridylate synthase [Rhodospirillum rubrum ATCC 11170]
 gi|346719882|gb|AEO49897.1| pseudouridylate synthase [Rhodospirillum rubrum F11]
          Length = 278

 Score =  130 bits (328), Expect = 4e-28,   Method: Compositional matrix adjust.
 Identities = 77/206 (37%), Positives = 112/206 (54%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++RL + YDG  Y GWQ Q + PTIQ  +E+A  R+  +     R+ G+ RTD+GVHA G
Sbjct: 3   RYRLTVEYDGRGYCGWQRQDNGPTIQQSLEEAAFRLCGVA---TRVHGSGRTDSGVHALG 59

Query: 86  QVAHFITPFSYDGLESIHAALNG-LLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           QVAH   P +Y G  ++  ALN  L P  I V + +    +FHARFSA+ + Y Y+I N 
Sbjct: 60  QVAHLDLPRAY-GAATVMKALNAHLRPQPIAVIDAAEVAEDFHARFSAEERSYRYRILNR 118

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
                      +     +   +M EAA+  VG+HDFS+F   +   +A +PVK++    V
Sbjct: 119 IAPPTLDQGRVWWVARPMEAAIMDEAAQVLVGRHDFSSFRAAE--CQADSPVKTLSELRV 176

Query: 205 IEMGALLQLEVEGSGFLYRQVRNMVN 230
             +G  + +      FL+ QVRNMV 
Sbjct: 177 TRVGDEIHVFARARSFLHHQVRNMVG 202


>gi|289167524|ref|YP_003445793.1| tRNA pseudouridine synthase A [Streptococcus mitis B6]
 gi|288907091|emb|CBJ21925.1| tRNA pseudouridine synthase A [Streptococcus mitis B6]
          Length = 249

 Score =  130 bits (328), Expect = 4e-28,   Method: Compositional matrix adjust.
 Identities = 76/206 (36%), Positives = 108/206 (52%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDG  +AG+Q Q    ++Q  +EK L R+ K   + + + GA RTD+GVHA G
Sbjct: 3   RYKATISYDGYAFAGFQRQPHARSVQEEIEKTLTRLNK--EQAITVHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D  E +  AL+   P DI V  I     +FH R++  SK Y + +    
Sbjct: 61  QVIHFDLPYQMDE-EKLRFALDTQSPEDIDVISIELVADDFHCRYTKHSKTYEFIVDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFR--FD 203
             +P + HYA H  Y L+   MREA +   G HDF+ F          + V++I      
Sbjct: 120 PKNPMRRHYATHFPYPLDVERMREAIKKLEGTHDFTGFT--ASGTSVEDKVRTITEASLT 177

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
           V E G  L     G+GFLY+Q+RNMV
Sbjct: 178 VDETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|330718940|ref|ZP_08313540.1| tRNA pseudouridine synthase A [Leuconostoc fallax KCTC 3537]
          Length = 250

 Score =  130 bits (327), Expect = 4e-28,   Method: Compositional matrix adjust.
 Identities = 72/206 (34%), Positives = 117/206 (56%), Gaps = 5/206 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ ++ YDG+ + G+Q Q    T+Q  + K + ++ K     +R++GASRTDTGVHA G
Sbjct: 3   RYKAIVSYDGSGFFGFQVQNDVRTVQGELNKVVNQMAKNPATPIRVIGASRTDTGVHALG 62

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV +F  PF+     S+   LN LLP DI +RE+     +FHARF++  K Y Y++    
Sbjct: 63  QVINFDLPFNIPA-ASVRKGLNTLLPRDIMIREVEIVNDDFHARFNSHHKRYFYRLSTQD 121

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
            +DPF+  YA H  + L+   + +A    +G+HDF++F      ++    ++ I R D+I
Sbjct: 122 FVDPFKRKYAGHFHWPLDIQRIEKALPDLLGEHDFASFA--ASGNQTQTTIRRITRADII 179

Query: 206 EMGALLQLE--VEGSGFLYRQVRNMV 229
                 ++    EG+ FLY Q+R MV
Sbjct: 180 NKPDEQEIVFIFEGNAFLYNQIRIMV 205


>gi|313884603|ref|ZP_07818364.1| tRNA pseudouridine synthase A [Eremococcus coleocola
           ACS-139-V-Col8]
 gi|312620387|gb|EFR31815.1| tRNA pseudouridine synthase A [Eremococcus coleocola
           ACS-139-V-Col8]
          Length = 256

 Score =  130 bits (327), Expect = 4e-28,   Method: Compositional matrix adjust.
 Identities = 76/208 (36%), Positives = 119/208 (57%), Gaps = 8/208 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRL-VGASRTDTGVHAW 84
           ++ + + YDG+ Y G+Q Q + P++Q  +++AL+++ K   +   L V + RTD+GVHA 
Sbjct: 3   RYAIKVEYDGSNYVGYQVQPNGPSVQAQLDRALLKLAKRPADHPVLTVASGRTDSGVHAL 62

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           GQV HF   F    L ++  ALN +L  DIRV  +S   P+FHAR+ A  K Y Y+I   
Sbjct: 63  GQVVHFDLDFEIHPL-ALAKALNSILNKDIRVVAVSQVAPDFHARYHAIGKAYLYRIDTQ 121

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
           A  DPF+  Y  H  Y+ +   M+ A    VG+HDF++F +   +    + V++I +F  
Sbjct: 122 AYPDPFKRFYTLHHPYRYDLGKMQRALTDLVGQHDFTSFCSTHSDKE--DKVRTI-KFAT 178

Query: 205 IE---MGALLQLEVEGSGFLYRQVRNMV 229
           IE   +   L+  + G+GFLY  VR +V
Sbjct: 179 IEEDLVNQELRFMIAGNGFLYNMVRIIV 206


>gi|365905446|ref|ZP_09443205.1| tRNA pseudouridine synthase A [Lactobacillus versmoldensis KCTC
           3814]
          Length = 248

 Score =  130 bits (327), Expect = 4e-28,   Method: Compositional matrix adjust.
 Identities = 77/206 (37%), Positives = 118/206 (57%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++L I YDG ++ G+Q Q +  T+Q ++EKAL ++TK   +++ LVG+ RTD GVHA+G
Sbjct: 3   RYKLTIAYDGAKFHGFQSQPNLRTVQGVIEKALSKMTK--GKEIILVGSGRTDAGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P  Y   E++  A+N L+P DI V++      +FHAR+  K K Y Y++    
Sbjct: 61  QVIHFDYP-GYIPAENMLKAINSLMPLDIVVKDSQIVDEDFHARYGVKRKTYLYRVDCGH 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             DPF+  YA H  Y  +   ++ A +  +G+HDFS+F          N V++I+   V 
Sbjct: 120 YTDPFKRFYAGHYSYSYDLEKIQTALKDLIGEHDFSSFA--ASGGVIENKVRTIYEAQVK 177

Query: 206 EM--GALLQLEVEGSGFLYRQVRNMV 229
            +     L  E  G+GFLY  VR +V
Sbjct: 178 YLPDENELVFEFTGNGFLYNMVRILV 203


>gi|342164215|ref|YP_004768854.1| tRNA pseudouridine synthase A [Streptococcus pseudopneumoniae
           IS7493]
 gi|341934097|gb|AEL10994.1| tRNA pseudouridine synthase A [Streptococcus pseudopneumoniae
           IS7493]
          Length = 249

 Score =  130 bits (327), Expect = 4e-28,   Method: Compositional matrix adjust.
 Identities = 75/206 (36%), Positives = 108/206 (52%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDG  +AG+Q Q    ++Q  +EK L R+ K   + + + GA RTD+GVHA G
Sbjct: 3   RYKATISYDGYAFAGFQRQPHARSVQEEIEKTLTRLNK--GQAITVHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D  E +  AL+   P DI V  I     +FH R++  SK Y + +    
Sbjct: 61  QVLHFDLPYQMDE-EKLRFALDTQSPEDIDVISIDLVADDFHCRYAKHSKTYEFIVDGGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFV--NIQRNDRALNPVKSIFRFD 203
             +P + HYA H  Y L+   M+EA +   G HDF+ F        D+     ++  R D
Sbjct: 120 PKNPMRRHYATHFPYPLDVERMQEAVKKLEGTHDFTGFTASGTSVEDKVRTITEASLRVD 179

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
             E G  L     G+GFLY+Q+RNMV
Sbjct: 180 --ETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|450007375|ref|ZP_21827750.1| tRNA pseudouridine synthase A [Streptococcus mutans NMT4863]
 gi|449186450|gb|EMB88281.1| tRNA pseudouridine synthase A [Streptococcus mutans NMT4863]
          Length = 249

 Score =  130 bits (327), Expect = 4e-28,   Method: Compositional matrix adjust.
 Identities = 75/206 (36%), Positives = 114/206 (55%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++++I YDGT ++G+Q Q    T+Q  +EK L+R+     + +++ GA RTD GVHA+G
Sbjct: 3   RYKVIISYDGTNFSGFQRQPQMRTVQEEIEKTLLRLN--SGQAVKIHGAGRTDAGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P   D LE +   L+   P DI V ++     +FHAR+    K Y + +    
Sbjct: 61  QVIHFDLPQQRD-LEKLRFGLDTQTPDDIDVIQVEQVADDFHARYQKHRKTYEFLVDLGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +P   HYA H  YK++ ++++ A +   G HDF+ F     +    N V++I R  V 
Sbjct: 120 PKNPLMRHYATHFPYKVDFSVVKAAIKKLRGTHDFTGFTAAGTS--VENKVRTISRATVE 177

Query: 206 EMG--ALLQLEVEGSGFLYRQVRNMV 229
           + G    L     GSGFLY+QVRNMV
Sbjct: 178 KDGKTGFLIFTFTGSGFLYKQVRNMV 203


>gi|336422160|ref|ZP_08602312.1| tRNA pseudouridine synthase A [Lachnospiraceae bacterium 5_1_57FAA]
 gi|336009070|gb|EGN39068.1| tRNA pseudouridine synthase A [Lachnospiraceae bacterium 5_1_57FAA]
          Length = 248

 Score =  130 bits (327), Expect = 4e-28,   Method: Compositional matrix adjust.
 Identities = 74/202 (36%), Positives = 112/202 (55%), Gaps = 7/202 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + +L I YDGT Y GWQ Q +  T++ ++ K L    KL  ED+ ++GASRTD+GVHA G
Sbjct: 3   RIKLTIAYDGTDYCGWQIQPNGITVEEVLNKKL---KKLTGEDIHVIGASRTDSGVHALG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKS-KIYHYKIYND 144
            VA F T  S    E +  ALN  LP DI +        ++H R+  +  K Y Y IYN 
Sbjct: 60  NVAVFDTESSIPA-ERMAYALNQRLPDDIVIVSSKEVPLDWHPRYQDEILKTYEYHIYNA 118

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
            V +P +  Y+    + +N   MRE A Y +G+HDF +F N++ +    + V+++    +
Sbjct: 119 PVQNPLKRRYSAFVSFPMNVEKMREGAAYLLGEHDFVSFCNVRTS--VEDTVRTVKELMI 176

Query: 205 IEMGALLQLEVEGSGFLYRQVR 226
            + G  + + + G+GFLY  VR
Sbjct: 177 EQEGPDITIRITGNGFLYNMVR 198


>gi|418973282|ref|ZP_13521291.1| tRNA pseudouridine synthase A [Streptococcus pseudopneumoniae ATCC
           BAA-960]
 gi|383349792|gb|EID27712.1| tRNA pseudouridine synthase A [Streptococcus pseudopneumoniae ATCC
           BAA-960]
          Length = 249

 Score =  130 bits (327), Expect = 4e-28,   Method: Compositional matrix adjust.
 Identities = 75/206 (36%), Positives = 108/206 (52%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDG  +AG+Q Q    ++Q  +EK L R+ K   + + + GA RTD+GVHA G
Sbjct: 3   RYKATISYDGYAFAGFQRQPHARSVQEEIEKTLTRLNK--GQAITVHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D  E +  AL+   P DI V  I     +FH R++  SK Y + +    
Sbjct: 61  QVLHFDLPYQMDE-EKLRFALDTQSPEDIDVISIELVADDFHCRYAKHSKTYEFIVDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFV--NIQRNDRALNPVKSIFRFD 203
             +P + HYA H  Y L+   M+EA +   G HDF+ F        D+     ++  R D
Sbjct: 120 PKNPMRRHYATHFPYPLDVERMQEAVKKLEGTHDFTGFTASGTSVEDKVRTITEASLRVD 179

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
             E G  L     G+GFLY+Q+RNMV
Sbjct: 180 --ETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|167750462|ref|ZP_02422589.1| hypothetical protein EUBSIR_01438 [Eubacterium siraeum DSM 15702]
 gi|167656613|gb|EDS00743.1| tRNA pseudouridine synthase A [Eubacterium siraeum DSM 15702]
          Length = 250

 Score =  130 bits (327), Expect = 4e-28,   Method: Compositional matrix adjust.
 Identities = 79/205 (38%), Positives = 112/205 (54%), Gaps = 8/205 (3%)

Query: 27  WRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
            ++ + Y+GT Y G+Q Q +  +IQ  VE+ L   +KL  ED+ + G SRTDTGVHA   
Sbjct: 4   LKVTMAYNGTAYHGYQRQNNANSIQQTVEEVL---SKLLCEDITINGCSRTDTGVHARAF 60

Query: 87  VAHFIT--PFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           V +  T  P   +G   I    N LLP DI           FHARF +K K Y YKIY  
Sbjct: 61  VFNVKTNCPIPCEGF--IKGG-NALLPQDIAFLSCEDMPDSFHARFDSKGKEYIYKIYTG 117

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
            V D F    A H  YK +   MR+AA   VG+HDF++F   +  +  L  V++++  DV
Sbjct: 118 DVRDVFSADTALHYPYKPDIEKMRKAARLIVGEHDFASFCKAEAKEHLLTTVRTVYSIDV 177

Query: 205 IEMGALLQLEVEGSGFLYRQVRNMV 229
            + G  ++++V G+GFL+  VR +V
Sbjct: 178 EQTGDFVEIKVCGNGFLHNMVRIIV 202


>gi|417927738|ref|ZP_12571126.1| tRNA pseudouridine synthase A [Streptococcus dysgalactiae subsp.
           equisimilis SK1250]
 gi|340765612|gb|EGR88138.1| tRNA pseudouridine synthase A [Streptococcus dysgalactiae subsp.
           equisimilis SK1250]
          Length = 249

 Score =  130 bits (327), Expect = 4e-28,   Method: Compositional matrix adjust.
 Identities = 75/206 (36%), Positives = 111/206 (53%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDGT ++G+Q Q+   T+Q  +EK L ++     + + + GA RTD GVHA+G
Sbjct: 3   RYKATISYDGTLFSGFQRQSHARTVQEEIEKTLQKLA--SGQPVPIHGAGRTDAGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P   D LE +  AL+   P DI V +++    +FH R+   SK Y + + N  
Sbjct: 61  QVIHFDLPQKRD-LEKLRFALDTQTPADIDVVDLAIVADDFHCRYQKHSKTYEFLVDNGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +P   HYA H  Y L+   M+EA +  VG HDF+ F          N V++I    ++
Sbjct: 120 SKNPMMRHYATHYPYPLDINKMQEAIKDLVGTHDFTGFTAA--GTSVENKVRTITEATLV 177

Query: 206 E--MGALLQLEVEGSGFLYRQVRNMV 229
           +      L     G+GFLY+QVRNMV
Sbjct: 178 QDDKTGFLVFTFSGNGFLYKQVRNMV 203


>gi|226322792|ref|ZP_03798310.1| hypothetical protein COPCOM_00564 [Coprococcus comes ATCC 27758]
 gi|225208773|gb|EEG91127.1| tRNA pseudouridine synthase A [Coprococcus comes ATCC 27758]
          Length = 259

 Score =  130 bits (327), Expect = 5e-28,   Method: Compositional matrix adjust.
 Identities = 75/201 (37%), Positives = 112/201 (55%), Gaps = 8/201 (3%)

Query: 27  WRLVIGYDGTRYAGWQFQTSPP-TIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +R+ + YDGT Y GWQ Q +   T+Q I+E+   R++++  +   + G+ RTD+GVHA G
Sbjct: 4   YRITVAYDGTAYRGWQRQENTELTVQGILER---RISEIAGKKTVVSGSGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           Q          D ++S    LN LLP DIRV +IS    +FHAR SA  K Y Y+I    
Sbjct: 61  QECSLYLEQEID-MDSFKKQLNALLPEDIRVLDISREKRDFHARKSAVGKCYEYQIDLRD 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
            M+ F   Y +H  + ++   M +AAEY +G HDFSAF +++ +    + V++I+   ++
Sbjct: 120 KMEVFHRKYRFHFPHPVDIAAMEQAAEYLMGTHDFSAFTDLKEDK---DTVRTIYAVGIV 176

Query: 206 EMGALLQLEVEGSGFLYRQVR 226
                L L   G GFLY  VR
Sbjct: 177 YEKDTLTLSWIGDGFLYHMVR 197


>gi|222100131|ref|YP_002534699.1| tRNA pseudouridine synthase ACD [Thermotoga neapolitana DSM 4359]
 gi|254764873|sp|B9K8Q0.1|TRUA_THENN RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|221572521|gb|ACM23333.1| tRNA pseudouridine synthase A [Thermotoga neapolitana DSM 4359]
          Length = 245

 Score =  130 bits (327), Expect = 5e-28,   Method: Compositional matrix adjust.
 Identities = 73/201 (36%), Positives = 112/201 (55%), Gaps = 7/201 (3%)

Query: 30  VIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVAH 89
           ++ YDG+ + G+Q Q    T+Q ++E AL R+ K   + +    A RTD GVHA GQ+  
Sbjct: 7   IVEYDGSNFFGYQGQPDVRTVQGVIEDALERIFK---QRIYTQAAGRTDAGVHANGQLIA 63

Query: 90  FITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDP 149
           F  P      E I  A+N  LP D+ V+++      FH RF  K +IYHY I+     + 
Sbjct: 64  FNCPNDRMTTEDIKNAMNANLPDDVYVKKVFEVPKNFHPRFDVKKRIYHYFIHTSREKNV 123

Query: 150 FQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMGA 209
           F   YA+   Y+L+   MR+AA+Y  G HDF++F   +      +PV++I+R  ++ +G 
Sbjct: 124 FLRKYAWWFPYELDLEAMRKAAKYLEGTHDFTSF---KTGSDERDPVRTIYRIRILSLGK 180

Query: 210 -LLQLEVEGSGFLYRQVRNMV 229
            ++ + VEG  FL R VRN+V
Sbjct: 181 DMILIRVEGRSFLRRMVRNIV 201


>gi|294497016|ref|YP_003560716.1| tRNA pseudouridine synthase A [Bacillus megaterium QM B1551]
 gi|295702381|ref|YP_003595456.1| tRNA pseudouridine synthase A [Bacillus megaterium DSM 319]
 gi|384049237|ref|YP_005497254.1| tRNA pseudouridine synthase A [Bacillus megaterium WSH-002]
 gi|294346953|gb|ADE67282.1| tRNA pseudouridine synthase A [Bacillus megaterium QM B1551]
 gi|294800040|gb|ADF37106.1| tRNA pseudouridine synthase A [Bacillus megaterium DSM 319]
 gi|345446928|gb|AEN91945.1| tRNA pseudouridine synthase A [Bacillus megaterium WSH-002]
          Length = 246

 Score =  130 bits (327), Expect = 5e-28,   Method: Compositional matrix adjust.
 Identities = 70/204 (34%), Positives = 111/204 (54%), Gaps = 6/204 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + + ++ YDGT ++G+Q Q +  T+Q  +E  L    K+  + + +  + RTDT VHA G
Sbjct: 3   RLKCIVAYDGTHFSGYQVQPNKRTVQLEIEAVL---EKMHNKKVPIYASGRTDTNVHAQG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF T  +    +    ALN +LP DI ++ +      FHAR+   SK Y Y I    
Sbjct: 60  QVIHFDTNLNI-PCDKWKKALNSMLPDDIVMKNVCEVDAHFHARYDVTSKEYRYHILRGE 118

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF   YAYH  Y L+ + M++A  Y +G HDF++F + +      + +++I++ D+ 
Sbjct: 119 DRNPFTRSYAYHYPYPLDYSKMKKAITYLLGTHDFTSFCSAR--TEVEDKIRTIYKIDMY 176

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E  + L     GSGFLY  VR +V
Sbjct: 177 EENSQLVFRFVGSGFLYNMVRILV 200


>gi|255526613|ref|ZP_05393520.1| tRNA pseudouridine synthase A [Clostridium carboxidivorans P7]
 gi|296187301|ref|ZP_06855697.1| tRNA pseudouridine synthase A [Clostridium carboxidivorans P7]
 gi|255509721|gb|EET86054.1| tRNA pseudouridine synthase A [Clostridium carboxidivorans P7]
 gi|296048172|gb|EFG87610.1| tRNA pseudouridine synthase A [Clostridium carboxidivorans P7]
          Length = 247

 Score =  130 bits (327), Expect = 5e-28,   Method: Compositional matrix adjust.
 Identities = 78/202 (38%), Positives = 111/202 (54%), Gaps = 6/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +LVI YDGT Y GWQ Q +  +IQ  VE+A+ R TK+     ++ G+SRTD GVHA G V
Sbjct: 8   KLVIEYDGTNYCGWQRQDNAESIQQKVEEAIERATKVFS---KVTGSSRTDAGVHAEGFV 64

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            +F T  S    E+   ALN  LP DI + E      EFH+RF++  K Y Y +   +  
Sbjct: 65  CNFFTESSIPP-ENFKEALNVFLPEDIVIIESKEVDKEFHSRFNSIGKKYVYTVLTGSHR 123

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
              + +Y Y+    LN   M+EAA+YF+G HDFSAF   +        +++I   ++   
Sbjct: 124 PAIRRNYVYYFNKNLNIGQMKEAAKYFLGTHDFSAFK--KSGSSVKTSIRTIKELNIDID 181

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
           G  ++  + G GFLY  VR +V
Sbjct: 182 GNYIKFSIIGDGFLYNMVRIIV 203


>gi|383938394|ref|ZP_09991606.1| tRNA pseudouridine(38-40) synthase [Streptococcus pseudopneumoniae
           SK674]
 gi|383714696|gb|EID70690.1| tRNA pseudouridine(38-40) synthase [Streptococcus pseudopneumoniae
           SK674]
          Length = 249

 Score =  130 bits (327), Expect = 5e-28,   Method: Compositional matrix adjust.
 Identities = 75/206 (36%), Positives = 108/206 (52%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDG  +AG+Q Q    ++Q  +EK L R+ K   + + + GA RTD+GVHA G
Sbjct: 3   RYKATISYDGYAFAGFQRQPHARSVQEEIEKTLTRLNK--GQAITVHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D  E +  AL+   P DI V  I     +FH R++  SK Y + +    
Sbjct: 61  QVLHFDLPYQMDE-EKLRFALDTQSPEDIDVISIDLVADDFHCRYAKHSKTYEFIVDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFV--NIQRNDRALNPVKSIFRFD 203
             +P + HYA H  Y L+   M+EA +   G HDF+ F        D+     ++  R D
Sbjct: 120 PKNPMRRHYATHFPYPLDVERMQEAVKKLEGTHDFTGFTASGTSVEDKVRTITEASLRVD 179

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
             E G  L     G+GFLY+Q+RNMV
Sbjct: 180 --ETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|421276692|ref|ZP_15727513.1| tRNA pseudouridine synthase A [Streptococcus mitis SPAR10]
 gi|395876898|gb|EJG87970.1| tRNA pseudouridine synthase A [Streptococcus mitis SPAR10]
          Length = 249

 Score =  130 bits (327), Expect = 5e-28,   Method: Compositional matrix adjust.
 Identities = 75/206 (36%), Positives = 108/206 (52%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ VI YDG  +AG+Q Q    ++Q  +EK L ++ K   + + + GA RTD+GVHA G
Sbjct: 3   RYKAVISYDGYAFAGFQRQPHARSVQEEIEKTLTKLNK--GQAITIHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D  E +  AL+   P DI V  I      FH R++  SK Y + +    
Sbjct: 61  QVIHFDLPYQMDE-EKLRFALDTQSPEDIDVISIEIVADAFHCRYAKHSKTYEFIVDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFV--NIQRNDRALNPVKSIFRFD 203
             +P + HYA H  Y L+   M++A +   G HDF+ F        D+     K+  R D
Sbjct: 120 PKNPMRRHYATHYPYPLDVERMQKAVKKLEGTHDFTGFTAAGTSVEDKVRTITKASLRID 179

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
             E G  L     G+GFLY+Q+RNMV
Sbjct: 180 --ETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|290968602|ref|ZP_06560140.1| tRNA pseudouridine synthase A [Megasphaera genomosp. type_1 str.
           28L]
 gi|290781255|gb|EFD93845.1| tRNA pseudouridine synthase A [Megasphaera genomosp. type_1 str.
           28L]
          Length = 264

 Score =  130 bits (327), Expect = 5e-28,   Method: Compositional matrix adjust.
 Identities = 76/200 (38%), Positives = 111/200 (55%), Gaps = 6/200 (3%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L++ YDGT + G+Q QT+  +IQ  +E+AL R+ +   E + + GA+RTD GVHA GQV 
Sbjct: 9   LIVAYDGTDFHGFQRQTNASSIQQYIEEALTRIFQ---EPITVYGAARTDAGVHARGQVV 65

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +F    S   ++ I  A+   LPP I V +       F  R     K Y Y+I N AV D
Sbjct: 66  NFYASGSIP-VDKIPYAMKAYLPPTIAVLQAREMASHFSVRHDNCGKHYCYRIVNRAVPD 124

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
           PFQ  Y++     L+   MR+ A   +G HDFSAF    +N   +NP+K+++   + +  
Sbjct: 125 PFQLRYSWFIRKPLDVEAMRQGANILLGTHDFSAFEG--KNTTPMNPIKTMYAVQIQKNR 182

Query: 209 ALLQLEVEGSGFLYRQVRNM 228
             +++ V G GFLY  VRNM
Sbjct: 183 DNVEIHVIGDGFLYHMVRNM 202


>gi|226949212|ref|YP_002804303.1| tRNA pseudouridine synthase A [Clostridium botulinum A2 str. Kyoto]
 gi|226843950|gb|ACO86616.1| tRNA pseudouridine synthase A [Clostridium botulinum A2 str. Kyoto]
          Length = 246

 Score =  130 bits (327), Expect = 5e-28,   Method: Compositional matrix adjust.
 Identities = 76/200 (38%), Positives = 110/200 (55%), Gaps = 7/200 (3%)

Query: 28  RLVIGYDGTRYAGWQFQT-SPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           +L I YDG++Y GWQ Q  +  TIQ  +E  L  +T   RED+ L+ + RTDTGVHA  Q
Sbjct: 5   KLYIQYDGSKYNGWQKQKENDNTIQGKIENVLSLMT---REDINLIASGRTDTGVHANMQ 61

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           VA+F T F     E ++      LP DI V +       FH+R + K K Y YKI N   
Sbjct: 62  VANFHTTFQGSTDEILNYCYE-YLPKDIVVYDAFHVDERFHSRLNVKKKKYTYKICNKKF 120

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
            D F   Y+YH    L+   M+EA  Y VG+HDF++F   +   ++   V++++  D+I+
Sbjct: 121 HDVFSRKYSYHIPETLDINAMKEACTYLVGRHDFASFTAARSKKKS--TVRTLYSIDIIK 178

Query: 207 MGALLQLEVEGSGFLYRQVR 226
               + L   GSGFL++ +R
Sbjct: 179 KDGYVDLVYLGSGFLHKMIR 198


>gi|421539009|ref|ZP_15985180.1| tRNA pseudouridine synthase A [Neisseria meningitidis 93003]
 gi|402315121|gb|EJU50687.1| tRNA pseudouridine synthase A [Neisseria meningitidis 93003]
          Length = 265

 Score =  130 bits (327), Expect = 5e-28,   Method: Compositional matrix adjust.
 Identities = 76/212 (35%), Positives = 118/212 (55%), Gaps = 7/212 (3%)

Query: 20  DSFPGFKWRLVIGYDGTRYAGWQFQTSP-PTIQCIVEKALIRVTKLEREDLRLVGASRTD 78
           D+    +W + + YDG+R+ GWQ Q    PT+Q  +E AL ++     E +  + A RTD
Sbjct: 2   DTAQKQRWAITLSYDGSRFYGWQKQADGVPTVQAALENALAQIAG---EAVSTIVAGRTD 58

Query: 79  TGVHAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYH 138
           TGVHA  QV HF T  +   +++    +N  LP  I V       PEFHARF A  + Y 
Sbjct: 59  TGVHATAQVVHFDTA-AVRPVQAWVRGVNAHLPEGIAVLHARQVAPEFHARFDAYGRHYR 117

Query: 139 YKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKS 198
           Y + +  V  P   + A  +  KL+   MR+AA Y +G+ DFS+F   +   +A +PVK+
Sbjct: 118 YLLESAPVRSPLLKNRAGWTHLKLDIGQMRQAAAYLIGEQDFSSFRAAE--CQAKSPVKT 175

Query: 199 IFRFDVIEMGALLQLEVEGSGFLYRQVRNMVN 230
           I+R D+ +   L++L++ G+ FL+  VRN++ 
Sbjct: 176 IYRADLTQSAGLVRLDLHGNAFLHHMVRNIMG 207


>gi|342218489|ref|ZP_08711100.1| tRNA pseudouridine synthase A [Megasphaera sp. UPII 135-E]
 gi|341589550|gb|EGS32822.1| tRNA pseudouridine synthase A [Megasphaera sp. UPII 135-E]
          Length = 266

 Score =  130 bits (327), Expect = 5e-28,   Method: Compositional matrix adjust.
 Identities = 77/201 (38%), Positives = 107/201 (53%), Gaps = 6/201 (2%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L + YDGT + G+Q Q + P+IQ  +E++L   T+L    +R+ GA+RTD GVHA+GQV 
Sbjct: 10  LTVAYDGTDFHGFQRQANAPSIQQYLEESL---TQLLHTPIRIYGAARTDAGVHAYGQVV 66

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +F        +E +  AL   LPP I VR        F  R     K Y Y+I N    D
Sbjct: 67  NFYGTLPMP-VERLPFALRAYLPPTIVVRTAQIMPEMFSVRHDNCGKYYRYRIINAPYND 125

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
           P Q  Y +H    L+   M+E AE   G HDF++F    +N   +NPVK+++     +  
Sbjct: 126 PLQLRYGWHIRKPLDLQRMQEGAEILRGTHDFTSFEG--KNTTPMNPVKTMYAITFTQEK 183

Query: 209 ALLQLEVEGSGFLYRQVRNMV 229
             + + V GSGFLY  VRNMV
Sbjct: 184 ENVDIHVIGSGFLYHMVRNMV 204


>gi|335049646|ref|ZP_08542633.1| tRNA pseudouridine synthase A [Megasphaera sp. UPII 199-6]
 gi|333762381|gb|EGL39879.1| tRNA pseudouridine synthase A [Megasphaera sp. UPII 199-6]
          Length = 265

 Score =  130 bits (327), Expect = 5e-28,   Method: Compositional matrix adjust.
 Identities = 76/200 (38%), Positives = 111/200 (55%), Gaps = 6/200 (3%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L++ YDGT + G+Q QT+  +IQ  +E+AL R+ +   E + + GA+RTD GVHA GQV 
Sbjct: 10  LIVAYDGTDFHGFQRQTNASSIQQYIEEALTRIFQ---EPITVYGAARTDAGVHARGQVV 66

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +F    S   ++ I  A+   LPP I V +       F  R     K Y Y+I N AV D
Sbjct: 67  NFYASGSIP-VDKIPYAMKAYLPPTIAVLQAREMASHFSVRHDNCGKHYCYRIVNRAVPD 125

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
           PFQ  Y++     L+   MR+ A   +G HDFSAF    +N   +NP+K+++   + +  
Sbjct: 126 PFQLRYSWFIRKPLDVEAMRQGANILLGTHDFSAFEG--KNTTPMNPIKTMYAVQIQKNR 183

Query: 209 ALLQLEVEGSGFLYRQVRNM 228
             +++ V G GFLY  VRNM
Sbjct: 184 DNVEIHVIGDGFLYHMVRNM 203


>gi|110632752|ref|YP_672960.1| tRNA pseudouridine synthase A [Chelativorans sp. BNC1]
 gi|123162871|sp|Q11LD0.1|TRUA_MESSB RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|110283736|gb|ABG61795.1| tRNA pseudouridine synthase A [Chelativorans sp. BNC1]
          Length = 247

 Score =  130 bits (327), Expect = 5e-28,   Method: Compositional matrix adjust.
 Identities = 76/208 (36%), Positives = 114/208 (54%), Gaps = 9/208 (4%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++R+ I YDG  YAGWQ Q    ++Q  +EKA   +     E++ + GA RTD GVHA G
Sbjct: 3   RFRIDIEYDGGPYAGWQRQAGQHSVQEAIEKA---IAAFSGEEVTIRGAGRTDAGVHALG 59

Query: 86  QVAHFITPFSYDGLESIHAALNG---LLPPDIRVREISAAVPEFHARFSAKSKIYHYKIY 142
           QVAHF     +   + +  ALN    L    + +    A   +F ARFSAK++ Y Y+I 
Sbjct: 60  QVAHFDLSREWKS-DKVRDALNAHLTLAGEAVSILRAEAVAEDFDARFSAKARHYLYRIA 118

Query: 143 NDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRF 202
           N       +   A+H   +L+   M EAA+  VGKHDF+ F ++Q   +A +PVK++ R 
Sbjct: 119 NRRSPLALERGRAWHVARRLDAAAMHEAAQRLVGKHDFTTFRSVQ--CQAKSPVKTLDRL 176

Query: 203 DVIEMGALLQLEVEGSGFLYRQVRNMVN 230
           DV  +G  +++      FL+ QVR++V 
Sbjct: 177 DVTRVGDEIEIHASARSFLHNQVRSLVG 204


>gi|291522074|emb|CBK80367.1| pseudouridylate synthase I [Coprococcus catus GD/7]
          Length = 247

 Score =  130 bits (326), Expect = 5e-28,   Method: Compositional matrix adjust.
 Identities = 81/204 (39%), Positives = 116/204 (56%), Gaps = 8/204 (3%)

Query: 28  RLVIGYDGTRYAGWQF--QTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           RL+I YDG+RY GWQ   +    TIQ  +E  L   +K+  E + L+GA RTD GVHA+ 
Sbjct: 6   RLLIEYDGSRYDGWQRLGKGHGVTIQGKLEDVL---SKMTGEQVELIGAGRTDAGVHAYE 62

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F T  +    E +   LN  LP DI V  +      FH+R++AK+K Y Y+I    
Sbjct: 63  QVANFHTNSNMKCWE-MKYYLNRYLPGDIAVNRVDDVPERFHSRYNAKAKKYLYRIAIGD 121

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           V   F   Y ++   KL+ T M++AA   VG+HDF AF + +R +++   V+ I+  D+ 
Sbjct: 122 VPCVFDRKYTWYCFDKLDVTAMKKAAALLVGEHDFKAFCSNKRTNKS--TVREIYDIDIY 179

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
                LQ+ V G+GFLY  VR +V
Sbjct: 180 ADTRELQITVYGNGFLYNMVRIIV 203


>gi|429762013|ref|ZP_19294420.1| tRNA pseudouridine synthase A [Anaerostipes hadrus DSM 3319]
 gi|429182559|gb|EKY23657.1| tRNA pseudouridine synthase A [Anaerostipes hadrus DSM 3319]
          Length = 248

 Score =  130 bits (326), Expect = 5e-28,   Method: Compositional matrix adjust.
 Identities = 74/202 (36%), Positives = 112/202 (55%), Gaps = 9/202 (4%)

Query: 28  RLVIGYDGTRYAGWQF---QTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
           RL I YDG+RY GWQ     ++  TIQ  +E  L   +K+  ED+ + G+ RTD GVHA+
Sbjct: 6   RLTIEYDGSRYQGWQRLGGDSNANTIQGKLESVL---SKMTGEDVNINGSGRTDAGVHAY 62

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           GQVA+F T      +  I   L   LP DI + E+S A   FH+R +AK K Y Y+I   
Sbjct: 63  GQVANFHTNCMMS-VSEIKNYLTKYLPSDIGIVEVSEASERFHSRLNAKEKTYLYRIAIP 121

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
            V + F+  Y ++    L+   M EAA   +G HDF  F +I++  ++   V++I+  ++
Sbjct: 122 GVSNVFERKYLWYFPETLDIKKMEEAASLLIGTHDFKGFSSIKKTKKS--TVRTIYNIEI 179

Query: 205 IEMGALLQLEVEGSGFLYRQVR 226
            +    +Q+   G+GFL+  VR
Sbjct: 180 KKTKKEIQISYTGNGFLHNMVR 201


>gi|167767146|ref|ZP_02439199.1| hypothetical protein CLOSS21_01665 [Clostridium sp. SS2/1]
 gi|167711121|gb|EDS21700.1| tRNA pseudouridine synthase A [Clostridium sp. SS2/1]
 gi|291559527|emb|CBL38327.1| pseudouridylate synthase I [butyrate-producing bacterium SSC/2]
          Length = 248

 Score =  130 bits (326), Expect = 5e-28,   Method: Compositional matrix adjust.
 Identities = 74/202 (36%), Positives = 112/202 (55%), Gaps = 9/202 (4%)

Query: 28  RLVIGYDGTRYAGWQF---QTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
           RL I YDG+RY GWQ     ++  TIQ  +E  L   +K+  ED+ + G+ RTD GVHA+
Sbjct: 6   RLTIEYDGSRYQGWQRLGGDSNANTIQGKLESVL---SKMTGEDVNINGSGRTDAGVHAY 62

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           GQVA+F T      +  I   L   LP DI + E+S A   FH+R +AK K Y Y+I   
Sbjct: 63  GQVANFHTDCMMS-VSEIKNYLTKYLPSDIGIVEVSEASERFHSRLNAKEKTYLYRIAIP 121

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
            V + F+  Y ++    L+   M EAA   +G HDF  F +I++  ++   V++I+  ++
Sbjct: 122 GVSNVFERKYLWYFPETLDIKKMEEAASLLIGTHDFKGFSSIKKTKKS--TVRTIYNIEI 179

Query: 205 IEMGALLQLEVEGSGFLYRQVR 226
            +    +Q+   G+GFL+  VR
Sbjct: 180 KKTKKEIQISYTGNGFLHNMVR 201


>gi|410494048|ref|YP_006903894.1| tRNA pseudouridine synthase A [Streptococcus dysgalactiae subsp.
           equisimilis AC-2713]
 gi|410439208|emb|CCI61836.1| tRNA pseudouridine synthase A [Streptococcus dysgalactiae subsp.
           equisimilis AC-2713]
          Length = 249

 Score =  130 bits (326), Expect = 5e-28,   Method: Compositional matrix adjust.
 Identities = 75/206 (36%), Positives = 111/206 (53%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDGT ++G+Q Q+   T+Q  +EK L ++     + + + GA RTD GVHA+G
Sbjct: 3   RYKATISYDGTLFSGFQRQSHARTVQEEIEKTLQKLA--SGQPVPIHGAGRTDAGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P   D LE +  AL+   P DI V +++    +FH R+   SK Y + + N  
Sbjct: 61  QVIHFDLPQKRD-LEKLRFALDTQTPADIDVVDLAIVADDFHCRYQKHSKTYEFLVDNGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +P   HYA H  Y L+   M+EA +  VG HDF+ F          N V++I    ++
Sbjct: 120 PKNPMMRHYATHYPYPLDINKMQEAIKDLVGTHDFTGFTAA--GTSVENKVRTITEATLV 177

Query: 206 E--MGALLQLEVEGSGFLYRQVRNMV 229
           +      L     G+GFLY+QVRNMV
Sbjct: 178 QDDKTGFLVFTFSGNGFLYKQVRNMV 203


>gi|260438183|ref|ZP_05791999.1| tRNA pseudouridine synthase A [Butyrivibrio crossotus DSM 2876]
 gi|292809373|gb|EFF68578.1| tRNA pseudouridine synthase A [Butyrivibrio crossotus DSM 2876]
          Length = 250

 Score =  130 bits (326), Expect = 5e-28,   Method: Compositional matrix adjust.
 Identities = 74/198 (37%), Positives = 107/198 (54%), Gaps = 6/198 (3%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L + YDGT Y+GWQ Q +  T++ ++ KA      L  +D+ ++GASRTD GVH++G VA
Sbjct: 5   LRVAYDGTGYSGWQKQPNAITVEEVLCKA---CKNLFAQDIDIIGASRTDAGVHSYGNVA 61

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
            F         E I  ALN  LP DIRV E       FH R     K Y YKI+ND   +
Sbjct: 62  VFDVDTRIPA-EKISYALNSRLPEDIRVVESRQVSENFHPRHVECRKTYEYKIWNDKFEN 120

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
           P   +Y++     L+   M EA  YF+G HDF++F ++    +  + ++ I+   V +  
Sbjct: 121 PLVRYYSHFFYGNLDIGKMNEACRYFIGLHDFTSFCSV--GSQVQSKIREIYSISVEKNN 178

Query: 209 ALLQLEVEGSGFLYRQVR 226
            L+ + V G+GFLY  VR
Sbjct: 179 RLITIRVTGNGFLYNMVR 196


>gi|417846650|ref|ZP_12492643.1| tRNA pseudouridine synthase A [Streptococcus mitis SK1073]
 gi|339458283|gb|EGP70826.1| tRNA pseudouridine synthase A [Streptococcus mitis SK1073]
          Length = 249

 Score =  130 bits (326), Expect = 6e-28,   Method: Compositional matrix adjust.
 Identities = 75/206 (36%), Positives = 107/206 (51%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDG  +AG+Q Q    ++Q  +EK L R+ K   + + + GA RTD+GVHA G
Sbjct: 3   RYKATISYDGYAFAGFQRQPHARSVQEEIEKTLTRLNK--GQAITVHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D  E +  AL+   P DI V  I     +FH R++   K Y + +    
Sbjct: 61  QVIHFDLPYQMDE-EKLRFALDTQSPEDIDVISIELVADDFHCRYAKHGKTYEFIVDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFV--NIQRNDRALNPVKSIFRFD 203
             +P + HYA H  Y L+   MREA +   G HDF+ F        D+     ++  R D
Sbjct: 120 PKNPMRRHYATHFPYPLDVERMREAIKKLEGTHDFTGFTASGTSVEDKVRTITEASLRVD 179

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
             E G  L     G+GFLY+Q+RNMV
Sbjct: 180 --ETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|197120829|ref|YP_002132780.1| tRNA pseudouridine synthase A [Anaeromyxobacter sp. K]
 gi|196170678|gb|ACG71651.1| tRNA pseudouridine synthase A [Anaeromyxobacter sp. K]
          Length = 245

 Score =  130 bits (326), Expect = 6e-28,   Method: Compositional matrix adjust.
 Identities = 81/205 (39%), Positives = 112/205 (54%), Gaps = 9/205 (4%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +LV+ YDGT Y GWQ Q + P+IQ  VE+AL  + K  R   R+  A RTD GVHA GQV
Sbjct: 5   KLVLEYDGTAYVGWQVQPNGPSIQAEVERALATLHKAPR---RVTAAGRTDAGVHARGQV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
             F        +++    +N LLPPD+ VR  S     F AR SA+ K Y Y I N    
Sbjct: 62  VSFPEDRPLP-VKAYVMGMNALLPPDVAVRAASLEPDGFDARRSARGKRYRYVIENLPTR 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRAL-NPVKSIFRFDVI- 205
            P     A+   + L    +REAA + VG+HDF+AF   Q +D A  + V+ + R DV+ 
Sbjct: 121 APLTRLQAWQHFHPLELASVREAAAHLVGRHDFAAF---QASDCACEHAVREVRRLDVLG 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMVN 230
           E G  +++ +E + F+   VRN+V 
Sbjct: 178 EAGGRIEVVIEATAFVKHMVRNIVG 202


>gi|433522733|ref|ZP_20479413.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis 61103]
 gi|432257381|gb|ELL12682.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis 61103]
          Length = 265

 Score =  130 bits (326), Expect = 6e-28,   Method: Compositional matrix adjust.
 Identities = 77/212 (36%), Positives = 116/212 (54%), Gaps = 7/212 (3%)

Query: 20  DSFPGFKWRLVIGYDGTRYAGWQFQTSP-PTIQCIVEKALIRVTKLEREDLRLVGASRTD 78
           D+    +W + + YDG+R+ GWQ Q    PT+Q  +E AL ++     E +    A RTD
Sbjct: 2   DTAQKQRWAITLSYDGSRFYGWQKQADGVPTVQAALETALAQIAG---EAVSTTVAGRTD 58

Query: 79  TGVHAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYH 138
           TGVHA  QV HF T  +      I   +N  LP  I V       PEFHARF A  + Y 
Sbjct: 59  TGVHATAQVVHFDTTAARPQQAWIRG-VNAHLPEGIAVLHARQVAPEFHARFDAYGRHYR 117

Query: 139 YKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKS 198
           Y + + +V  P   + A  +  KL+   MR+AA Y +G+ DFS+F   +   +A +PVK+
Sbjct: 118 YLLESASVRSPLLKNRAGWTHLKLDIEPMRQAAAYLIGEQDFSSFRAAE--CQAKSPVKT 175

Query: 199 IFRFDVIEMGALLQLEVEGSGFLYRQVRNMVN 230
           I+R D+ +   L++L++ G+ FL+  VRN++ 
Sbjct: 176 IYRADLTQSAGLVRLDLHGNAFLHHMVRNIMG 207


>gi|431792241|ref|YP_007219146.1| pseudouridylate synthase I [Desulfitobacterium dichloroeliminans
           LMG P-21439]
 gi|430782467|gb|AGA67750.1| pseudouridylate synthase I [Desulfitobacterium dichloroeliminans
           LMG P-21439]
          Length = 244

 Score =  130 bits (326), Expect = 7e-28,   Method: Compositional matrix adjust.
 Identities = 78/204 (38%), Positives = 117/204 (57%), Gaps = 8/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQFQTSPP-TIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ I YDG+RY GWQ Q     TIQ  +E  L   +K+  E++ +VG  RTD+GVHA  
Sbjct: 4   FKMTISYDGSRYKGWQKQKETDLTIQGKLEAVL---SKMTGEEILVVGCGRTDSGVHAEN 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
            +A+F T  ++   E+I   L   LP DI V+ I      FHAR++ KSK Y YKI  + 
Sbjct: 61  YIANFHTKSTWKN-EAILYYLYEFLPEDIVVKSIELVDERFHARYNVKSKTYVYKINTNR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             + F+  Y+YH    L+   MR+AA+  VG HDF +F N++   ++   V++I   ++ 
Sbjct: 120 FRNVFERKYSYHIPEPLDLIEMRKAAQVLVGTHDFQSF-NMKPGKKS--TVRTIHSINIA 176

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E G  L++EV G G L+  VR +V
Sbjct: 177 ENGDHLEIEVNGDGLLWNMVRIIV 200


>gi|152980861|ref|YP_001353856.1| tRNA pseudouridine synthase A [Janthinobacterium sp. Marseille]
 gi|189029996|sp|A6T009.1|TRUA_JANMA RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|151280938|gb|ABR89348.1| tRNA pseudouridine synthase A [Janthinobacterium sp. Marseille]
          Length = 271

 Score =  130 bits (326), Expect = 7e-28,   Method: Compositional matrix adjust.
 Identities = 82/210 (39%), Positives = 118/210 (56%), Gaps = 14/210 (6%)

Query: 28  RLVIG--YDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           R+V+G  YDGT + GWQ Q +  T+Q  +E AL   +K   + +  V A RTD GVH   
Sbjct: 7   RIVLGVQYDGTPWQGWQTQLNGLTVQDRLEFAL---SKFTLQTVSTVCAGRTDAGVHGLE 63

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVR---EISAAVPE---FHARFSAKSKIYHY 139
           QV HF T    D + S    +N  LPP I VR   E++    E   FHARFSA+S++Y Y
Sbjct: 64  QVVHFDTTLERD-MSSWVRGVNTFLPPSIAVRWATEVAHNPDEQDNFHARFSARSRMYQY 122

Query: 140 KIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSI 199
            +YN+ V  P     A     KL+   MR AA++ +G+HDFS F ++Q   +A +PVKS+
Sbjct: 123 VLYNNPVRSPLLEGKAGWVFRKLDVERMRTAAQHLLGEHDFSTFRSVQ--CQAKSPVKSM 180

Query: 200 FRFDVIEMGALLQLEVEGSGFLYRQVRNMV 229
           +   + + G L+   +  + FL+  VRN+V
Sbjct: 181 YSIKIEQRGDLIMFTLHANAFLHHMVRNIV 210


>gi|374292875|ref|YP_005039910.1| tRNA pseudouridine synthase A [Azospirillum lipoferum 4B]
 gi|357424814|emb|CBS87693.1| tRNA pseudouridine synthase A [Azospirillum lipoferum 4B]
          Length = 245

 Score =  130 bits (326), Expect = 7e-28,   Method: Compositional matrix adjust.
 Identities = 77/206 (37%), Positives = 113/206 (54%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +W+L + YDG  + GWQ Q + P++Q  +E+A   V +L  E +R+ G+ RTD GVHA G
Sbjct: 3   RWKLTVEYDGRPFVGWQRQDNGPSVQQSLEEA---VQRLSGEVVRVHGSGRTDAGVHALG 59

Query: 86  QVAHFITPFSYDGLESIHAALN-GLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           QV HF     + GL+ +  ALN  L P  I V E+ A   +FHAR ++  + Y Y+I N 
Sbjct: 60  QVCHFDLEKPFTGLK-LRDALNFHLKPAPIAVLEVEAVTGDFHARLTSTGRAYVYRIVNR 118

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
                     A+H    L+   M  AA+  VG+HDF++F       +A +PVK++ R DV
Sbjct: 119 RAPLALDAGRAWHVTRPLDAEAMHAAAQVLVGQHDFTSFRAAL--CQAKSPVKTLDRLDV 176

Query: 205 IEMGALLQLEVEGSGFLYRQVRNMVN 230
              G  +++      FL+ QVRNMV 
Sbjct: 177 ERQGDEIRVHAAARSFLHHQVRNMVG 202


>gi|419783006|ref|ZP_14308802.1| tRNA pseudouridine(38-40) synthase [Streptococcus oralis SK610]
 gi|383182740|gb|EIC75290.1| tRNA pseudouridine(38-40) synthase [Streptococcus oralis SK610]
          Length = 249

 Score =  130 bits (326), Expect = 7e-28,   Method: Compositional matrix adjust.
 Identities = 76/206 (36%), Positives = 109/206 (52%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDG  +AG+Q Q    ++Q  +EK L R+ K   + + + GA RTD+GVHA G
Sbjct: 3   RYKATISYDGFAFAGFQRQPHARSVQEEIEKTLTRLNK--GQAITVHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D  E +  AL+   P DI V  I     +FH R++  SKIY + +    
Sbjct: 61  QVIHFDLPYQMDE-EKLRFALDTQSPEDIDVISIEIVADDFHCRYAKHSKIYEFIVDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFR--FD 203
             +P + HYA H  Y L+   M+EA +   G HDF+ F          + V++I      
Sbjct: 120 PKNPMRRHYATHFPYPLDVERMQEAVKKLEGTHDFTGFT--ASGTSVEDKVRTITEASLT 177

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
           V E G  L     G+GFLY+Q+RNMV
Sbjct: 178 VDETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|160914527|ref|ZP_02076742.1| hypothetical protein EUBDOL_00533 [Eubacterium dolichum DSM 3991]
 gi|158433685|gb|EDP11974.1| tRNA pseudouridine synthase A [Eubacterium dolichum DSM 3991]
          Length = 252

 Score =  130 bits (326), Expect = 7e-28,   Method: Compositional matrix adjust.
 Identities = 73/201 (36%), Positives = 112/201 (55%), Gaps = 6/201 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++++ + YDGT YAGWQ Q +  +IQ  +E AL    K+  E + +V + RTD  VHA  
Sbjct: 3   RYKVTVCYDGTNYAGWQKQDNARSIQEEIECAL---AKINEEAVEIVASGRTDAHVHALA 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF    +    + + A  N LLP DIR+ ++      FHARF A  K Y Y I ND 
Sbjct: 60  QVFHFDAKKALSDEQWVRAC-NSLLPKDIRILKVEKVSDSFHARFDAVRKRYDYYITND- 117

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           V++PF  +Y       L+   M+E A  F+G HDF++F + + ++R  + +K+I+R +V 
Sbjct: 118 VLNPFLENYMGKDRKSLDVAYMQECANVFIGTHDFTSFTSSKIDERK-SRIKTIYRLEVQ 176

Query: 206 EMGALLQLEVEGSGFLYRQVR 226
           +    + +  EG+ FL   VR
Sbjct: 177 QEANAVHIIFEGNAFLRYMVR 197


>gi|381181844|ref|ZP_09890672.1| tRNA pseudouridine synthase A [Listeriaceae bacterium TTU M1-001]
 gi|380318219|gb|EIA21510.1| tRNA pseudouridine synthase A [Listeriaceae bacterium TTU M1-001]
          Length = 248

 Score =  130 bits (326), Expect = 7e-28,   Method: Compositional matrix adjust.
 Identities = 74/205 (36%), Positives = 115/205 (56%), Gaps = 12/205 (5%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDL-RLVGASRTDTGVHAW 84
           +++ V+ YDG+ + G+Q Q +  T+Q  +EKAL    K+ + D  R+  + RTDTGVHA 
Sbjct: 3   RYKAVLAYDGSGFVGYQVQPNGRTVQEEIEKAL---KKMHKGDFSRITASGRTDTGVHAV 59

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           GQV HF +P   +  E    AL    P DI    +     +FHARF    K Y Y I   
Sbjct: 60  GQVIHFDSPLHIEP-EKFRIALQMGTPRDISFHSVEKVADDFHARFDVTGKEYRYMIDRS 118

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRAL--NPVKSIFRF 202
            + +PF+ ++A H  Y+LN   M+ AA+  +G+HDF++F +     RA+  + V++I++ 
Sbjct: 119 KIFNPFKRNFALHFPYQLNVEKMKSAAKLLIGEHDFTSFCSA----RAVQESKVRTIYQI 174

Query: 203 DVIEMG-ALLQLEVEGSGFLYRQVR 226
           ++ E+    L +   GSGFLY  VR
Sbjct: 175 EITEVDETTLMIAYRGSGFLYNMVR 199


>gi|386316261|ref|YP_006012425.1| tRNA pseudouridine synthase A [Streptococcus dysgalactiae subsp.
           equisimilis ATCC 12394]
 gi|417751770|ref|ZP_12400035.1| tRNA pseudouridine synthase A [Streptococcus dysgalactiae subsp.
           equisimilis SK1249]
 gi|323126548|gb|ADX23845.1| tRNA pseudouridine synthase A [Streptococcus dysgalactiae subsp.
           equisimilis ATCC 12394]
 gi|333772436|gb|EGL49284.1| tRNA pseudouridine synthase A [Streptococcus dysgalactiae subsp.
           equisimilis SK1249]
          Length = 249

 Score =  130 bits (326), Expect = 7e-28,   Method: Compositional matrix adjust.
 Identities = 75/206 (36%), Positives = 112/206 (54%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDGT ++G+Q Q+   T+Q  +EK L ++     + + + GA RTD GVHA+G
Sbjct: 3   RYKATISYDGTLFSGFQRQSHARTVQEEIEKTLQKLA--SGQPVPIHGAGRTDAGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P   D LE +  AL+   P DI V +++    +FH R+   SK Y + + N  
Sbjct: 61  QVIHFDLPQKRD-LEKLRFALDTQTPDDIDVVDLAIVADDFHCRYQKHSKTYEFLVDNGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +P   HYA H  Y L+   M+EA +  VG HDF+ F     +    N V++I    ++
Sbjct: 120 PKNPMMRHYATHYPYPLDINKMQEAIKDLVGTHDFTGFTAAGTS--VENKVRTITEATLV 177

Query: 206 E--MGALLQLEVEGSGFLYRQVRNMV 229
           +      L     G+GFLY+QVRNMV
Sbjct: 178 QDDKTGFLVFTFSGNGFLYKQVRNMV 203


>gi|166033550|ref|ZP_02236379.1| hypothetical protein DORFOR_03276 [Dorea formicigenerans ATCC
           27755]
 gi|346309044|ref|ZP_08851147.1| tRNA pseudouridine synthase A [Dorea formicigenerans 4_6_53AFAA]
 gi|166026735|gb|EDR45492.1| tRNA pseudouridine synthase A [Dorea formicigenerans ATCC 27755]
 gi|345901288|gb|EGX71091.1| tRNA pseudouridine synthase A [Dorea formicigenerans 4_6_53AFAA]
          Length = 266

 Score =  130 bits (326), Expect = 7e-28,   Method: Compositional matrix adjust.
 Identities = 76/219 (34%), Positives = 119/219 (54%), Gaps = 26/219 (11%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           R+V+ YDGT Y GWQ Q +  TI+ I+ +   +++KL  ED+R++GASRTD+GVHA G V
Sbjct: 5   RIVVAYDGTNYCGWQIQPNGITIEEILNR---QISKLTGEDIRIIGASRTDSGVHALGNV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAK-SKIYHYKIYNDAV 146
           A F T     G +    ALN  +P DI +        ++H R+  + SK Y Y IYN  V
Sbjct: 62  AVFDTESRIPG-DRFAYALNQKMPEDIVIVRSDEVQIDWHPRYQNEISKTYEYHIYNAKV 120

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV-- 204
            +P ++ Y+    + L+   MR+ A+Y +G+HDF++F N++ N  A + V+++    +  
Sbjct: 121 RNPLKNRYSTFVSFDLDVEKMRQGAKYILGEHDFASFCNVRTN--AKDTVRTVHEITIKE 178

Query: 205 -----------------IEMGALLQLEVEGSGFLYRQVR 226
                            +E    + + V G+GFLY  VR
Sbjct: 179 IPMDKFQASNWGQENSNLENEKEIVIRVTGNGFLYNMVR 217


>gi|16801808|ref|NP_472076.1| tRNA pseudouridine synthase A [Listeria innocua Clip11262]
 gi|422414125|ref|ZP_16491084.1| tRNA pseudouridine synthase A [Listeria innocua FSL S4-378]
 gi|423101379|ref|ZP_17089083.1| tRNA pseudouridine synthase A [Listeria innocua ATCC 33091]
 gi|24212565|sp|Q927P1.1|TRUA_LISIN RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|16415283|emb|CAC97973.1| truA [Listeria innocua Clip11262]
 gi|313616961|gb|EFR89587.1| tRNA pseudouridine synthase A [Listeria innocua FSL S4-378]
 gi|370792165|gb|EHN60056.1| tRNA pseudouridine synthase A [Listeria innocua ATCC 33091]
          Length = 248

 Score =  129 bits (325), Expect = 7e-28,   Method: Compositional matrix adjust.
 Identities = 73/202 (36%), Positives = 115/202 (56%), Gaps = 6/202 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDG+ + G+Q Q +  T+Q  +EKAL ++ K   + +R+  + RTDTGVHA G
Sbjct: 3   RYKAIISYDGSGFFGYQVQPNTRTVQAEIEKALEKMHK--GKSVRITASGRTDTGVHAKG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF +       E    AL  + P DI    +  A  +FHARF    K Y Y I    
Sbjct: 61  QVIHFDSELDITA-EKFQKALQVMTPFDISFLTVEEAPADFHARFGTVGKEYRYVIKRTK 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           + DPF  ++A H  Y+L+   M++A+E  +G+HDF++F +  R +R  + V++++  D  
Sbjct: 120 IFDPFSRNFALHYPYELDIAKMKQASERLIGEHDFTSFCS-ARTERD-SKVRTLYSIDFY 177

Query: 206 EMGA-LLQLEVEGSGFLYRQVR 226
           E  A  L +  +G+GFLY  VR
Sbjct: 178 EEDAETLVIAFQGNGFLYNMVR 199


>gi|27262396|gb|AAN87479.1| tRNA pseudouridine synthase A [Heliobacillus mobilis]
          Length = 249

 Score =  129 bits (325), Expect = 7e-28,   Method: Compositional matrix adjust.
 Identities = 80/202 (39%), Positives = 103/202 (50%), Gaps = 14/202 (6%)

Query: 31  IGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVAHF 90
           + YDGT Y G+Q Q  P  +  I ++ +  +  L  E++++  A RTD GVHA GQV  F
Sbjct: 1   MSYDGTSYHGFQTQEDPTNLPTIQDELMRAIQVLTGEEVKITCAGRTDAGVHARGQVVDF 60

Query: 91  ITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDPF 150
           +T  S    E    A+N LLP DI V +      +FH+RF A  K Y Y IYN  +  PF
Sbjct: 61  LTT-SRIPDEKFPLAMNSLLPKDIAVVKAETVAEDFHSRFGALGKHYRYSIYNHRIHSPF 119

Query: 151 QHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFR------FDV 204
            H Y+Y     L+   M+EAA YFVG HDF  F          +PVK   R        V
Sbjct: 120 HHRYSYQVYPPLHVAAMQEAAGYFVGTHDFRGFCATG------SPVKDFVRTIWHCTLTV 173

Query: 205 IEMGALLQLEVEGSGFLYRQVR 226
            E   LL ++V G GFLY  VR
Sbjct: 174 TEENLLL-MDVMGDGFLYNMVR 194


>gi|320107224|ref|YP_004182814.1| pseudouridine synthase I TruA [Terriglobus saanensis SP1PR4]
 gi|319925745|gb|ADV82820.1| Pseudouridine synthase I, TruA, alpha/beta domain protein
           [Terriglobus saanensis SP1PR4]
          Length = 287

 Score =  129 bits (325), Expect = 7e-28,   Method: Compositional matrix adjust.
 Identities = 83/233 (35%), Positives = 114/233 (48%), Gaps = 24/233 (10%)

Query: 16  PPTDDSFPGFKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGAS 75
           P +D S     WRL + YDGT +AGWQ Q   PTIQ  +  A+  VT    E++   G+ 
Sbjct: 6   PISDASTSLQAWRLKLAYDGTDFAGWQVQPGLPTIQGSLASAIRSVTS---EEVLPQGSG 62

Query: 76  RTDTGVHAWGQVA--HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAK 133
           RTD GVHA GQV       P   D L+    ALN +LP  IRV E     PEFHAR    
Sbjct: 63  RTDAGVHALGQVVSLKLAVPIPPDNLKR---ALNRILPTSIRVLEAGIVAPEFHARRGVL 119

Query: 134 SKIYHYKIY--------NDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAF-- 183
           SK Y Y ++         + V  P +  + +     L+   M +AAE FVG HDF++F  
Sbjct: 120 SKTYRYTLFLCRPTKDVEEIVCSPERARWVWQYPAPLDVAAMMQAAERFVGTHDFTSFAA 179

Query: 184 ------VNIQRNDRALNPVKSIFRFDVIEMGALLQLEVEGSGFLYRQVRNMVN 230
                   ++    A + +++++       G  L  +V GSGFL+  VRN+V 
Sbjct: 180 NDPERKTRLEAESNAPDNIRTLYSSAWTLCGDELSYQVRGSGFLHHMVRNLVG 232


>gi|422417078|ref|ZP_16494035.1| tRNA pseudouridine synthase A [Listeria innocua FSL J1-023]
 gi|313622273|gb|EFR92777.1| tRNA pseudouridine synthase A [Listeria innocua FSL J1-023]
          Length = 248

 Score =  129 bits (325), Expect = 7e-28,   Method: Compositional matrix adjust.
 Identities = 73/202 (36%), Positives = 115/202 (56%), Gaps = 6/202 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDG+ + G+Q Q +  T+Q  +EKAL ++ K   + +R+  + RTDTGVHA G
Sbjct: 3   RYKAIISYDGSGFFGYQVQPNTRTVQAEIEKALEKMHK--GKSVRITASGRTDTGVHAKG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF +       E    AL  + P DI    +  A  +FHARF    K Y Y I    
Sbjct: 61  QVIHFDSELDITA-EKFQKALQVMTPFDISFLTVEEAQADFHARFGTIGKEYRYVIKRTK 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           + DPF  ++A H  Y+L+   M++A+E  +G+HDF++F +  R +R  + V++++  D  
Sbjct: 120 IFDPFSRNFALHYPYELDIEKMKQASERLIGEHDFTSFCS-ARTERD-SKVRTLYSIDFY 177

Query: 206 EMGA-LLQLEVEGSGFLYRQVR 226
           E  A  L +  +G+GFLY  VR
Sbjct: 178 EEDAETLVIAFQGNGFLYNMVR 199


>gi|302338166|ref|YP_003803372.1| tRNA pseudouridine synthase A [Spirochaeta smaragdinae DSM 11293]
 gi|301635351|gb|ADK80778.1| tRNA pseudouridine synthase A [Spirochaeta smaragdinae DSM 11293]
          Length = 247

 Score =  129 bits (325), Expect = 7e-28,   Method: Compositional matrix adjust.
 Identities = 67/202 (33%), Positives = 111/202 (54%), Gaps = 5/202 (2%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           +++ YDG +++GWQ Q    T+Q ++E AL     +E++ +R+  A RTD+GVHA GQV 
Sbjct: 1   MIVAYDGRKFSGWQVQREDRTVQGVIEAAL---ESMEKQKVRVFAAGRTDSGVHARGQVV 57

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           HF T  S    +    ALN +LP D+R+    A   +FHAR+SAK++ Y Y +Y    + 
Sbjct: 58  HFDTSLSSIEADKFAPALNAILPADVRIVGSYAVPDDFHARYSAKARSYRYFLYPGVCVS 117

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
           P    Y Y      +   +  A    +G HDFS+F      D + + V+ I++   ++  
Sbjct: 118 PLLRPYCYARRSLPSIGALNRAVSPLLGSHDFSSFS--ASGDPSPSKVRVIYQAVFLQHR 175

Query: 209 ALLQLEVEGSGFLYRQVRNMVN 230
            +++  + G+ FL+R VR++V 
Sbjct: 176 GMIEFRITGNAFLWRMVRSIVG 197


>gi|254804153|ref|YP_003082374.1| tRNA pseudouridine synthase A [Neisseria meningitidis alpha14]
 gi|254667695|emb|CBA03553.1| tRNA pseudouridine synthase A [Neisseria meningitidis alpha14]
          Length = 265

 Score =  129 bits (325), Expect = 7e-28,   Method: Compositional matrix adjust.
 Identities = 76/206 (36%), Positives = 113/206 (54%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSP-PTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
           +W + + YDG+R+ GWQ Q    PT+Q  +E AL ++     E +    A RTDTGVHA 
Sbjct: 8   RWAITLSYDGSRFYGWQKQADGVPTVQAALETALAQIAG---ESVATTVAGRTDTGVHAT 64

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
            QV HF T  +      I   +N  LP  I V       PEFHARF A  + Y Y + + 
Sbjct: 65  AQVVHFDTAAARPQQAWIRG-VNAHLPEGIAVLHARQVAPEFHARFDAYGRHYRYLLESA 123

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
            V  P   + A  +  KL+   MR+AA Y +G+ DFS+F   +   +A +PVK+I+R D+
Sbjct: 124 PVRSPLLKNRAGWTHLKLDIEPMRQAAAYLIGEQDFSSFRAAE--CQAKSPVKTIYRADL 181

Query: 205 IEMGALLQLEVEGSGFLYRQVRNMVN 230
            +   L++L++ G+ FL+  VRN++ 
Sbjct: 182 TQSAGLVRLDLHGNAFLHHMVRNIMG 207


>gi|418975123|ref|ZP_13523032.1| tRNA pseudouridine synthase A [Streptococcus oralis SK1074]
 gi|383348494|gb|EID26453.1| tRNA pseudouridine synthase A [Streptococcus oralis SK1074]
          Length = 249

 Score =  129 bits (325), Expect = 7e-28,   Method: Compositional matrix adjust.
 Identities = 76/206 (36%), Positives = 108/206 (52%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDG  +AG+Q Q    ++Q  +EK L R+ K   E + + GA RTD+GVHA G
Sbjct: 3   RYKATISYDGYAFAGFQRQPHARSVQEEIEKTLTRLNK--GEAITVHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D  E +  AL+   P DI V  I     +FH R++  SK Y + +    
Sbjct: 61  QVIHFDLPYQMDE-EKLRFALDTQSPEDIDVISIELVADDFHCRYAKHSKTYEFIVDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFR--FD 203
             +P + HYA H  Y L+   M+EA +   G HDF+ F          + V++I      
Sbjct: 120 PKNPMRRHYATHFPYPLDVERMQEAVKKLEGTHDFTGFT--ASGTSVEDKVRTITEASLS 177

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
           V E G  L     G+GFLY+Q+RNMV
Sbjct: 178 VDETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|357059395|ref|ZP_09120237.1| tRNA pseudouridine synthase A [Selenomonas infelix ATCC 43532]
 gi|355371472|gb|EHG18816.1| tRNA pseudouridine synthase A [Selenomonas infelix ATCC 43532]
          Length = 260

 Score =  129 bits (325), Expect = 8e-28,   Method: Compositional matrix adjust.
 Identities = 84/207 (40%), Positives = 116/207 (56%), Gaps = 14/207 (6%)

Query: 29  LVIGYDGTRYAGWQFQTSPP-TIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           LV+ YDGT Y G+Q QT P   +Q ++E AL +V     ED+ L  A RTD GVHA+GQV
Sbjct: 10  LVVAYDGTNYHGFQRQTPPVVAVQNVLECALGKVCG---EDVELAAAGRTDAGVHAYGQV 66

Query: 88  AHFITPFSYDG---LESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
            +F T    DG   +E +  A+NGLLPPDI V +   A  +F AR SA  K Y Y++   
Sbjct: 67  VNFFT----DGRISVERLPRAVNGLLPPDIVVTQAWEAERDFSARHSATGKAYVYRLEEC 122

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
            V +PF   YA+     L+   MR A    VG HD+S+F         ++PV+++    +
Sbjct: 123 TVPNPFTRSYAWQIFQPLDHDAMRGALAMLVGTHDYSSFRAA--GGAPMSPVRTLDEIRL 180

Query: 205 IEMGA-LLQLEVEGSGFLYRQVRNMVN 230
            E GA  L   + G+GFLY  VRN+++
Sbjct: 181 EEEGAGRLSCYLHGNGFLYHMVRNIMS 207


>gi|336066371|ref|YP_004561229.1| tRNA pseudouridine synthase A [Erysipelothrix rhusiopathiae str.
           Fujisawa]
 gi|334296317|dbj|BAK32188.1| tRNA pseudouridine synthase A [Erysipelothrix rhusiopathiae str.
           Fujisawa]
          Length = 245

 Score =  129 bits (325), Expect = 8e-28,   Method: Compositional matrix adjust.
 Identities = 77/205 (37%), Positives = 108/205 (52%), Gaps = 6/205 (2%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
            +++  + YDG+ + GWQ Q     +Q  +E  L R+ K   E + + G+ RTD GVHA 
Sbjct: 2   MRFKATVQYDGSMFKGWQKQPLGRCVQTEIESVLTRINK---EPIHISGSGRTDAGVHAL 58

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           GQV HF      D  + +  ALN LLP DI + +I    P FHARF   SK Y Y++ N 
Sbjct: 59  GQVFHFDNVVDMDE-KQLFRALNTLLPNDIVITDIHPVEPNFHARFDVVSKTYEYRL-NM 116

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
              + F+ +Y Y     L+   +R+A E FVG HDF++F N    D   N V++I  FD+
Sbjct: 117 GAYNLFERNYVYQYNKALDLQAIRDAMESFVGTHDFTSF-NATGLDEIENQVRTITNFDL 175

Query: 205 IEMGALLQLEVEGSGFLYRQVRNMV 229
           I     L   + G GFL   VR +V
Sbjct: 176 IVSDDHLNFVIIGDGFLRYMVRMIV 200


>gi|225164227|ref|ZP_03726501.1| tRNA-pseudouridine synthase I [Diplosphaera colitermitum TAV2]
 gi|224801166|gb|EEG19488.1| tRNA-pseudouridine synthase I [Diplosphaera colitermitum TAV2]
          Length = 354

 Score =  129 bits (325), Expect = 8e-28,   Method: Compositional matrix adjust.
 Identities = 74/212 (34%), Positives = 107/212 (50%), Gaps = 12/212 (5%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +W+  + YDGT ++GWQ Q     IQ  +E+ L R+     E +R+ G+ RTD GVHA  
Sbjct: 100 RWKCTVAYDGTHFSGWQSQPDGNAIQDHLERRLARMLG---ESVRIHGSGRTDAGVHARA 156

Query: 86  QVAHFITPFSYDGLESIHAALNGL-------LPPDIRVREISAAVPEFHARFSAKSKIYH 138
           QV HF   + + G E + AA           +P  I+V +       FHARF A  K Y 
Sbjct: 157 QVFHFDAAWRH-GPERLLAAFRSGGGEGGGGVPSGIQVTDARIVSAAFHARFDATGKRYT 215

Query: 139 YKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKS 198
           Y +++    DPF   Y +    KL+   MR AA   VG+HDF AF  +   +R    V+ 
Sbjct: 216 YDLHHGGFADPFTQDYCWSIPQKLDVVAMRAAAALLVGRHDFCAFSALSGEERETT-VRH 274

Query: 199 IFRFDVIEMGALLQLEVEGSGFLYRQVRNMVN 230
           + + D+   GA +++     GFLYR VR +V 
Sbjct: 275 LTQLDISARGARIRITARADGFLYRMVRRLVG 306


>gi|392330643|ref|ZP_10275258.1| tRNA pseudouridine synthase A [Streptococcus canis FSL Z3-227]
 gi|391418322|gb|EIQ81134.1| tRNA pseudouridine synthase A [Streptococcus canis FSL Z3-227]
          Length = 249

 Score =  129 bits (325), Expect = 8e-28,   Method: Compositional matrix adjust.
 Identities = 76/206 (36%), Positives = 112/206 (54%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDGT ++G+Q Q+   T+Q  +EK L ++   ++  + + GA RTDTGVHA+G
Sbjct: 3   RYKATISYDGTLFSGFQRQSHVRTVQEEIEKTLQKLASGQQ--ILIHGAGRTDTGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P   D LE +  AL+   P DI V ++     +FH R+   SK Y + +    
Sbjct: 61  QVIHFDLPQKRD-LEKLRFALDTQTPDDIDVIKLEIVADDFHCRYQKHSKTYEFLVDCGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +P   HYA H  Y L+ + M+EA +  VG HDF+ F          N V++I    +I
Sbjct: 120 PKNPMMRHYATHYPYPLDMSKMQEAIKDLVGTHDFTGFTAA--GTSVENKVRTITEATLI 177

Query: 206 E--MGALLQLEVEGSGFLYRQVRNMV 229
           +      L     G+GFLY+QVRNMV
Sbjct: 178 QDDKTGFLVFTFSGNGFLYKQVRNMV 203


>gi|322388332|ref|ZP_08061936.1| tRNA pseudouridine synthase A [Streptococcus infantis ATCC 700779]
 gi|417936673|ref|ZP_12579980.1| tRNA pseudouridine synthase A [Streptococcus infantis X]
 gi|419842427|ref|ZP_14365775.1| tRNA pseudouridine(38-40) synthase [Streptococcus infantis ATCC
           700779]
 gi|321141004|gb|EFX36505.1| tRNA pseudouridine synthase A [Streptococcus infantis ATCC 700779]
 gi|343400189|gb|EGV12709.1| tRNA pseudouridine synthase A [Streptococcus infantis X]
 gi|385703904|gb|EIG41006.1| tRNA pseudouridine(38-40) synthase [Streptococcus infantis ATCC
           700779]
          Length = 249

 Score =  129 bits (325), Expect = 8e-28,   Method: Compositional matrix adjust.
 Identities = 73/206 (35%), Positives = 109/206 (52%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDG  +AG+Q Q    ++Q  +EK L ++ K   + + + GA RTD+GVHA G
Sbjct: 3   RYKAIISYDGYAFAGFQRQPHARSVQEEIEKTLTKLNK--GQAITIHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D  E +  AL+   P DI V  I     +FH R++  SK Y + +    
Sbjct: 61  QVIHFDLPYQMDE-EKLRFALDTQSPEDIDVISIEVVADDFHCRYAKHSKTYEFIVDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFV--NIQRNDRALNPVKSIFRFD 203
             +P + HYA H  Y L+   M++A +   G HDF+ F        D+     ++  R D
Sbjct: 120 PKNPMRRHYATHYPYPLDVERMQKAVKKLEGTHDFTGFTAAGTSVEDKVRTITEASLRVD 179

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
             E G  L     G+GFLY+Q+RNMV
Sbjct: 180 --ETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|170289026|ref|YP_001739264.1| tRNA pseudouridine synthase ACD [Thermotoga sp. RQ2]
 gi|403253470|ref|ZP_10919771.1| tRNA pseudouridine synthase ACD [Thermotoga sp. EMP]
 gi|238688847|sp|B1LB83.1|TRUA_THESQ RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|170176529|gb|ACB09581.1| tRNA pseudouridine synthase A [Thermotoga sp. RQ2]
 gi|402811004|gb|EJX25492.1| tRNA pseudouridine synthase ACD [Thermotoga sp. EMP]
          Length = 245

 Score =  129 bits (325), Expect = 8e-28,   Method: Compositional matrix adjust.
 Identities = 75/201 (37%), Positives = 109/201 (54%), Gaps = 7/201 (3%)

Query: 30  VIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVAH 89
           VI YDG+ + G+Q Q    T+Q ++E AL R+ K   + +    A RTD GVHA GQ+  
Sbjct: 7   VIEYDGSNFFGYQGQPDVRTVQGVIEDALERIFK---QRIYTQAAGRTDAGVHANGQLIA 63

Query: 90  FITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDP 149
           F  P      E I  A+N  LP D+ V+E+      FH RF  K +IYHY I      + 
Sbjct: 64  FNCPNDRMTTEDIKNAMNANLPDDVYVKEVFEVSKNFHPRFDVKKRIYHYFILTSKQKNV 123

Query: 150 FQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM-G 208
           F   Y +   Y+L+   MR+AA+Y  G HDF++F   +      +PV++I+R  ++ +  
Sbjct: 124 FLRKYVWWFPYELDLDAMRKAAKYLEGTHDFTSF---KTGSDERDPVRTIYRIRILRLKN 180

Query: 209 ALLQLEVEGSGFLYRQVRNMV 229
            L+ + VEG  FL R VRN+V
Sbjct: 181 DLVLIRVEGRSFLRRMVRNIV 201


>gi|323342828|ref|ZP_08083060.1| tRNA pseudouridine synthase A [Erysipelothrix rhusiopathiae ATCC
           19414]
 gi|322463940|gb|EFY09134.1| tRNA pseudouridine synthase A [Erysipelothrix rhusiopathiae ATCC
           19414]
          Length = 245

 Score =  129 bits (325), Expect = 9e-28,   Method: Compositional matrix adjust.
 Identities = 77/205 (37%), Positives = 108/205 (52%), Gaps = 6/205 (2%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
            +++  + YDG+ + GWQ Q     +Q  +E  L R+ K   E + + G+ RTD GVHA 
Sbjct: 2   MRFKATVQYDGSMFKGWQKQPFGRCVQTEIESVLTRINK---EPIHISGSGRTDAGVHAL 58

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           GQV HF      D  + +  ALN LLP DI + +I    P FHARF   SK Y Y++ N 
Sbjct: 59  GQVFHFDNVVDMDE-KQLFRALNTLLPNDIVITDIHPVEPNFHARFDVVSKTYEYRL-NM 116

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
              + F+ +Y Y     L+   +R+A E FVG HDF++F N    D   N V++I  FD+
Sbjct: 117 GAYNLFERNYVYQYNKALDLQAIRDAMESFVGTHDFTSF-NATGLDEIENQVRTITNFDL 175

Query: 205 IEMGALLQLEVEGSGFLYRQVRNMV 229
           I     L   + G GFL   VR +V
Sbjct: 176 IVSDDHLNFVIIGDGFLRYMVRMIV 200


>gi|39938715|ref|NP_950481.1| pseudouridylate synthase [Onion yellows phytoplasma OY-M]
 gi|42559719|sp|P60351.1|TRUA_ONYPE RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|39721824|dbj|BAD04314.1| pseudouridylate synthase [Onion yellows phytoplasma OY-M]
          Length = 243

 Score =  129 bits (325), Expect = 9e-28,   Method: Compositional matrix adjust.
 Identities = 81/207 (39%), Positives = 118/207 (57%), Gaps = 13/207 (6%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
           F ++L++ YDGT Y G+Q Q    T+Q   EKAL ++T    +++    ASRTD GVH+ 
Sbjct: 4   FFYKLILSYDGTCYYGYQKQPQKITVQQTFEKALKKMT---HQNIPTFAASRTDKGVHSQ 60

Query: 85  GQVAHFITPFSYDGLESIH--AALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIY 142
           GQ  HF T F    L+  H    LN LLPPDIRVR+++ A P FHAR+SAKSKIY Y ++
Sbjct: 61  GQTLHFQTTFF---LKPTHFQKTLNYLLPPDIRVRQMNFATPNFHARYSAKSKIYQY-VF 116

Query: 143 NDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRF 202
           +   ++ F HH+   +  KL    + +A ++  G H+F AF +     +  N  K+IF+ 
Sbjct: 117 SKKPLNAFNHHFQIFAD-KLYFDKITKALKFIEGTHNFFAFTS---ETQPKNFSKTIFQA 172

Query: 203 DVIEMGALLQLEVEGSGFLYRQVRNMV 229
            + E      L   G+GFL   +R +V
Sbjct: 173 FLKETSHKYILVFHGNGFLKYMIRFLV 199


>gi|320548017|ref|ZP_08042298.1| tRNA pseudouridine synthase A [Streptococcus equinus ATCC 9812]
 gi|320447363|gb|EFW88125.1| tRNA pseudouridine synthase A [Streptococcus equinus ATCC 9812]
          Length = 249

 Score =  129 bits (324), Expect = 9e-28,   Method: Compositional matrix adjust.
 Identities = 75/206 (36%), Positives = 112/206 (54%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDG  +AG+Q Q S  ++Q  +EK L ++       +++ GA RTD+GVHA+G
Sbjct: 3   RYKATISYDGGLFAGFQRQPSERSVQEELEKTLQKLN--SGTPVKVHGAGRTDSGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P + D +E +   L+   P DI V ++     +FH+R++  SK Y + +    
Sbjct: 61  QVVHFDLPQARD-VEKLRFGLDTQSPEDIDVVKVELVSDDFHSRYNKHSKTYEFLVDAGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFR--FD 203
             +P   HYA H  Y L+  LM+EA +  VG HDF+ F          N V++I R   D
Sbjct: 120 PKNPMMRHYATHYPYPLDLALMQEAIKDLVGTHDFTGFT--ASGTSVENKVRTITRATVD 177

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
           + E          G+GFLY+QVRNMV
Sbjct: 178 IDEKTGFFVFTFSGNGFLYKQVRNMV 203


>gi|309777173|ref|ZP_07672136.1| tRNA pseudouridine synthase A [Erysipelotrichaceae bacterium
           3_1_53]
 gi|308915043|gb|EFP60820.1| tRNA pseudouridine synthase A [Erysipelotrichaceae bacterium
           3_1_53]
          Length = 253

 Score =  129 bits (324), Expect = 9e-28,   Method: Compositional matrix adjust.
 Identities = 77/201 (38%), Positives = 117/201 (58%), Gaps = 6/201 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++++++ YDG+ Y GWQ QT+  +IQ  VE A   + K+E   + +  + RTD  VHA G
Sbjct: 3   RYKVILSYDGSAYGGWQRQTNTHSIQQEVEAA---IEKVEGRFVSITASGRTDAHVHALG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF     +   E+   ALN LLP DIR++E+      FHARF A SK Y Y I  + 
Sbjct: 60  QVFHF-DSVKHLEPENWKRALNSLLPHDIRIQEVCLVDDAFHARFHAISKRYDYLITTE- 117

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           V +PF ++Y      +L+   MRE A  F+G HDF++F + + + R  + +K+I R DV+
Sbjct: 118 VQNPFYYNYMGKDRTRLDVERMRECACIFLGTHDFTSFTSSKVDPRK-SKIKTITRLDVV 176

Query: 206 EMGALLQLEVEGSGFLYRQVR 226
           +    +++  EG+GFL   VR
Sbjct: 177 QEEHAVRMIFEGNGFLRYMVR 197


>gi|226322882|ref|ZP_03798400.1| hypothetical protein COPCOM_00654 [Coprococcus comes ATCC 27758]
 gi|225208668|gb|EEG91022.1| tRNA pseudouridine synthase A [Coprococcus comes ATCC 27758]
          Length = 256

 Score =  129 bits (324), Expect = 9e-28,   Method: Compositional matrix adjust.
 Identities = 76/201 (37%), Positives = 108/201 (53%), Gaps = 6/201 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + RL + YDGT Y GWQ Q +  TI+ ++ KA   + KL  E+++++GASRTD+GVHA G
Sbjct: 11  RIRLTVAYDGTNYCGWQIQPNGITIEEVLNKA---ICKLTGEEIQVIGASRTDSGVHARG 67

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
            +A F T  S    E    ALN  LP DI V +       +H R+    K Y Y I N  
Sbjct: 68  NIAVFDTE-SRIPAERFSYALNQRLPKDIVVVKSDEVDLNWHPRYQDTLKTYEYHIINTK 126

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           V  P +  Y Y   + L+   MR  A Y  G+HDF+ F  I+ N  A   V++I    ++
Sbjct: 127 VPIPTERLYNYFVSFDLDVGQMRRGAAYLEGEHDFAPFCCIRTN--AKTTVRTITDLQIL 184

Query: 206 EMGALLQLEVEGSGFLYRQVR 226
           + G  + + + G+GFLY  VR
Sbjct: 185 QSGEHITIRITGNGFLYNMVR 205


>gi|421558010|ref|ZP_16003904.1| tRNA pseudouridine synthase A [Neisseria meningitidis 80179]
 gi|402333181|gb|EJU68492.1| tRNA pseudouridine synthase A [Neisseria meningitidis 80179]
          Length = 265

 Score =  129 bits (324), Expect = 9e-28,   Method: Compositional matrix adjust.
 Identities = 77/212 (36%), Positives = 114/212 (53%), Gaps = 7/212 (3%)

Query: 20  DSFPGFKWRLVIGYDGTRYAGWQFQTSP-PTIQCIVEKALIRVTKLEREDLRLVGASRTD 78
           D+    +W + + YDG+R+ GWQ Q    PT+Q  +E AL ++     E +    A RTD
Sbjct: 2   DTAQKQRWAITLSYDGSRFYGWQKQADGIPTVQAALETALAQIAG---ESVATTVAGRTD 58

Query: 79  TGVHAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYH 138
           TGVHA  QV HF T  +      I   +N  LP  I V       PEFHARF A  + Y 
Sbjct: 59  TGVHATAQVVHFDTTAARPQQAWIRG-VNAHLPEGIAVLHARQVAPEFHARFDAYGRHYR 117

Query: 139 YKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKS 198
           Y + +  V  P   H A  +  KL+   MR+AA   +G+ DFS+F   +   +A +PVK+
Sbjct: 118 YLLESAPVRSPLLKHRAGWTHLKLDIGQMRQAAALLIGEQDFSSFRAAE--CQAKSPVKT 175

Query: 199 IFRFDVIEMGALLQLEVEGSGFLYRQVRNMVN 230
           I+R D+ +   L++L++ G+ FL+  VRN++ 
Sbjct: 176 IYRADLTQSSGLVRLDLHGNAFLHHMVRNIMG 207


>gi|291562779|emb|CBL41595.1| pseudouridylate synthase I [butyrate-producing bacterium SS3/4]
          Length = 255

 Score =  129 bits (324), Expect = 9e-28,   Method: Compositional matrix adjust.
 Identities = 85/207 (41%), Positives = 116/207 (56%), Gaps = 19/207 (9%)

Query: 28  RLVIGYDGTRYAGWQFQ-TSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           R+ + YDG+RY GWQ Q  +  TIQ  +E  L R+     E++ + G+ RTD GVHA GQ
Sbjct: 6   RITLEYDGSRYDGWQKQGNTDNTIQGKLENVLFRMAG---EEIEVHGSGRTDAGVHARGQ 62

Query: 87  VAHF-----ITPFSYDGLESIHAALNGLLPPDIRVREISAA-VPE-FHARFSAKSKIYHY 139
           VA+F     I P   DG E+    LN  LP DIRV  +SA  VPE FH+R SA SK Y Y
Sbjct: 63  VANFHINAEICP---DG-EAAREYLNRYLPDDIRV--LSAKIVPERFHSRLSATSKTYGY 116

Query: 140 KIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSI 199
            +      + F+  Y Y    KL+   MR+AAE+ +G+HDF +F   +R  ++   V+ I
Sbjct: 117 YVETGDKKNVFERKYVYGCGKKLDVKAMRQAAEFLIGEHDFKSFCANRRMKKS--TVRRI 174

Query: 200 FRFDVIEMGALLQLEVEGSGFLYRQVR 226
               ++E G  L+    G+GFLY  VR
Sbjct: 175 DEIRIVEHGTKLEFLYTGNGFLYNMVR 201


>gi|348025368|ref|YP_004765172.1| tRNA pseudouridine synthase A [Megasphaera elsdenii DSM 20460]
 gi|341821421|emb|CCC72345.1| tRNA pseudouridine synthase A [Megasphaera elsdenii DSM 20460]
          Length = 261

 Score =  129 bits (324), Expect = 9e-28,   Method: Compositional matrix adjust.
 Identities = 79/201 (39%), Positives = 109/201 (54%), Gaps = 6/201 (2%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           LV+ YDGT + G+Q QT+  +IQ  +E+ L   + + R  + + GA+RTD GVHA GQV 
Sbjct: 8   LVVAYDGTDFHGFQRQTNAESIQRCLEQGL---SAIFRTPITIYGAARTDAGVHARGQVV 64

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +F    S    E I  A+ G LPP+I V         F  R     K Y Y I N+ + D
Sbjct: 65  NFYGQGSIP-TEKIPYAMKGYLPPEIAVLSAKEMPDRFSVRHDNVGKHYRYSIDNNRMHD 123

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
           PF   YA+     L+   MRE A   +G HDFSAF    +N   +NPVK+++   + E G
Sbjct: 124 PFLLRYAWFIRKPLDRQAMREGAAILLGTHDFSAFEG--QNTTPMNPVKTMYSITLHERG 181

Query: 209 ALLQLEVEGSGFLYRQVRNMV 229
            +L ++V G GFLY  VRN+ 
Sbjct: 182 HVLDIDVVGDGFLYHMVRNIA 202


>gi|416185069|ref|ZP_11613301.1| tRNA pseudouridine synthase A [Neisseria meningitidis M13399]
 gi|421543291|ref|ZP_15989386.1| tRNA pseudouridine synthase A [Neisseria meningitidis NM255]
 gi|421545362|ref|ZP_15991425.1| tRNA pseudouridine synthase A [Neisseria meningitidis NM140]
 gi|421547412|ref|ZP_15993447.1| tRNA pseudouridine synthase A [Neisseria meningitidis NM183]
 gi|421549444|ref|ZP_15995457.1| tRNA pseudouridine synthase A [Neisseria meningitidis NM2781]
 gi|421553596|ref|ZP_15999555.1| tRNA pseudouridine synthase A [Neisseria meningitidis NM576]
 gi|325133363|gb|EGC56028.1| tRNA pseudouridine synthase A [Neisseria meningitidis M13399]
 gi|402314937|gb|EJU50504.1| tRNA pseudouridine synthase A [Neisseria meningitidis NM255]
 gi|402320722|gb|EJU56203.1| tRNA pseudouridine synthase A [Neisseria meningitidis NM183]
 gi|402320909|gb|EJU56389.1| tRNA pseudouridine synthase A [Neisseria meningitidis NM140]
 gi|402323151|gb|EJU58597.1| tRNA pseudouridine synthase A [Neisseria meningitidis NM2781]
 gi|402327416|gb|EJU62804.1| tRNA pseudouridine synthase A [Neisseria meningitidis NM576]
          Length = 265

 Score =  129 bits (324), Expect = 9e-28,   Method: Compositional matrix adjust.
 Identities = 76/206 (36%), Positives = 113/206 (54%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSP-PTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
           +W + + YDG+R+ GWQ Q    PT+Q  +E AL ++     E +  + A RTDTGVHA 
Sbjct: 8   RWAITLSYDGSRFYGWQKQADGVPTVQAALENALAQIAG---EAVSTIVAGRTDTGVHAT 64

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
            QV HF T  +      I   +N  LP  I V       PEFHARF A  + Y Y + + 
Sbjct: 65  AQVVHFDTTAARPQQAWIRG-VNAHLPEGIAVLHARQVAPEFHARFDAYGRHYRYLLESA 123

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
            V  P   + A  +  KL+   MR AA Y +G+ DFS+F   +   +A +PVK+I+R D+
Sbjct: 124 PVRSPLLKNRAGWTHLKLDIEPMRRAAAYLIGEQDFSSFRAAE--CQAKSPVKTIYRADL 181

Query: 205 IEMGALLQLEVEGSGFLYRQVRNMVN 230
            +   L++L++ G+ FL+  VRN++ 
Sbjct: 182 TQSAGLVRLDLHGNAFLHHMVRNIMG 207


>gi|450035792|ref|ZP_21835197.1| tRNA pseudouridine synthase A [Streptococcus mutans M21]
 gi|450111953|ref|ZP_21862949.1| tRNA pseudouridine synthase A [Streptococcus mutans SM6]
 gi|449195007|gb|EMB96344.1| tRNA pseudouridine synthase A [Streptococcus mutans M21]
 gi|449223157|gb|EMC22861.1| tRNA pseudouridine synthase A [Streptococcus mutans SM6]
          Length = 249

 Score =  129 bits (324), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 75/206 (36%), Positives = 112/206 (54%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDGT ++G+Q Q    T+Q  +EK L+R+     + +++ GA RTD GVHA+G
Sbjct: 3   RYKAIISYDGTNFSGFQRQPQMRTVQEEIEKTLLRLN--SGQAVKVHGAGRTDAGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P   D LE +   L+   P DI V ++     +FHAR+    K Y + +    
Sbjct: 61  QVIHFDLPQQRD-LEKLRFGLDTQTPDDIDVIQVEQVADDFHARYQKHRKTYEFLVDLGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +P   HYA H  YK++ ++++ A +   G HDF+ F          N V++I R  V 
Sbjct: 120 PKNPLMRHYATHFPYKVDFSVVKAAIKKLRGTHDFTGFT--ASGTSVENKVRTISRATVE 177

Query: 206 EMG--ALLQLEVEGSGFLYRQVRNMV 229
           + G    L     GSGFLY+QVRNMV
Sbjct: 178 KDGKTGFLIFTFTGSGFLYKQVRNMV 203


>gi|259047524|ref|ZP_05737925.1| tRNA pseudouridine synthase A [Granulicatella adiacens ATCC 49175]
 gi|259035715|gb|EEW36970.1| tRNA pseudouridine synthase A [Granulicatella adiacens ATCC 49175]
          Length = 249

 Score =  129 bits (324), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 75/204 (36%), Positives = 112/204 (54%), Gaps = 5/204 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++L I YDGT Y G+Q Q +  +IQ  + KAL ++TK +   + + G+ RTD+GVHA G
Sbjct: 3   RYKLTIQYDGTPYVGFQVQENGNSIQAELNKALKKMTKGQY--IPVSGSGRTDSGVHANG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV H   P   +   S+  A+N LLP  IR+    A   EFHAR+S   K Y YK+    
Sbjct: 61  QVVHIDYPKRIEA-NSLVRAMNSLLPTSIRIVSAEAVSEEFHARYSVTGKRYIYKVTTAQ 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           V  PF   Y  H  +K +   + +A E  +G+HDF++F + + +  +   V+ + + +V 
Sbjct: 120 VQSPFLRQYELHHPFKTDVDRINKAFEAVIGEHDFTSFCSTKSDKDS--KVRVVTKAEVK 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
             G  L    EG GFLY  VR +V
Sbjct: 178 RNGDELIFTFEGKGFLYNMVRILV 201


>gi|254446439|ref|ZP_05059915.1| tRNA pseudouridine synthase A [Verrucomicrobiae bacterium DG1235]
 gi|198260747|gb|EDY85055.1| tRNA pseudouridine synthase A [Verrucomicrobiae bacterium DG1235]
          Length = 243

 Score =  129 bits (324), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 76/206 (36%), Positives = 113/206 (54%), Gaps = 6/206 (2%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
            +W+    YDGT YAGWQ Q+   ++Q ++E+ L    +L +E + + G+ RTD GVHA 
Sbjct: 1   MRWKCSCSYDGTNYAGWQKQSGQISVQQVIEEVL---EQLLKEKVAIHGSGRTDAGVHAL 57

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
            QV HF   + + G ES+  AL+  LP +IRV   +    EFHARFSA SK Y Y++   
Sbjct: 58  EQVFHFDYDWRHGG-ESLVKALHSKLPKEIRVESATEVGEEFHARFSAVSKRYQYRLALG 116

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
              +PFQ  Y +    KL+  L++EA + FVG HDF AF    R     +  + +    V
Sbjct: 117 EA-NPFQWAYCWPVSRKLDLNLVKEAMDRFVGTHDFGAFA-ANRGIEYESTERKMLATGV 174

Query: 205 IEMGALLQLEVEGSGFLYRQVRNMVN 230
            +    + L  +  GF+Y+ VR++V 
Sbjct: 175 SQDTEYVGLSFQADGFMYKMVRSLVG 200


>gi|291530837|emb|CBK96422.1| pseudouridylate synthase I [Eubacterium siraeum 70/3]
          Length = 250

 Score =  129 bits (324), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 78/205 (38%), Positives = 112/205 (54%), Gaps = 8/205 (3%)

Query: 27  WRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
            ++ + Y+GT Y G+Q Q +  +IQ  VE+ L   +KL  ED+ + G SRTDTGVHA   
Sbjct: 4   LKVTMAYNGTAYHGYQRQNNANSIQQTVEEVL---SKLLCEDITINGCSRTDTGVHARAF 60

Query: 87  VAHFIT--PFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           V +  T  P   +G   I    N LLP DI           FHARF +K K Y Y+IY  
Sbjct: 61  VFNVKTNCPIPCEGF--IKGG-NALLPQDIAFLSCEDMPDSFHARFDSKGKEYIYRIYTG 117

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
            V D F    A H  YK +   MR+AA   VG+HDF++F   +  +  L  V++++  DV
Sbjct: 118 DVRDVFSADTALHYPYKPDIEKMRKAARLIVGEHDFASFCKAEAKEHLLTTVRTVYSIDV 177

Query: 205 IEMGALLQLEVEGSGFLYRQVRNMV 229
            + G  ++++V G+GFL+  VR +V
Sbjct: 178 EQTGDFVEIKVCGNGFLHNMVRIIV 202


>gi|295425622|ref|ZP_06818309.1| tRNA pseudouridine synthase A [Lactobacillus amylolyticus DSM
           11664]
 gi|295064638|gb|EFG55559.1| tRNA pseudouridine synthase A [Lactobacillus amylolyticus DSM
           11664]
          Length = 262

 Score =  129 bits (324), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 75/206 (36%), Positives = 120/206 (58%), Gaps = 6/206 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++++++ YDG  + G+Q Q +  T+Q  VE+AL ++TK +R  + + G+ RTD GVHA G
Sbjct: 4   RYKMLMAYDGHLFHGFQVQPNQRTVQGTVEEALKKMTKGKR--VIVEGSGRTDAGVHAMG 61

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV  F  P +    E +  ALN ++P DI  +E   A P+FH R+S K K Y Y++  D 
Sbjct: 62  QVIQFDYPGNRIPAEKMILALNSMMPMDIIFKECEIASPDFHVRYSIKGKWYRYRMSLDH 121

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
            ++PF+  Y  H  Y ++ + M+EAA+  +GKHDF++F       +  N V++++  +V 
Sbjct: 122 FVNPFKRFYTGHYPYPIDVSKMKEAAKDLLGKHDFTSFA--ASGGQIKNKVRTMYYVNVE 179

Query: 206 --EMGALLQLEVEGSGFLYRQVRNMV 229
             E    L  +   SGFLY  VR +V
Sbjct: 180 KNESQNELVFDFICSGFLYNMVRILV 205


>gi|421551557|ref|ZP_15997545.1| tRNA pseudouridine synthase A [Neisseria meningitidis 69166]
 gi|433472286|ref|ZP_20429662.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis 68094]
 gi|433478593|ref|ZP_20435899.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis 70012]
 gi|433527037|ref|ZP_20483655.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis 69096]
 gi|433539800|ref|ZP_20496264.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis 70030]
 gi|402327062|gb|EJU62458.1| tRNA pseudouridine synthase A [Neisseria meningitidis 69166]
 gi|432206239|gb|ELK62248.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis 68094]
 gi|432212873|gb|ELK68804.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis 70012]
 gi|432258125|gb|ELL13414.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis 69096]
 gi|432270845|gb|ELL25978.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis 70030]
          Length = 265

 Score =  129 bits (324), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 76/206 (36%), Positives = 113/206 (54%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSP-PTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
           +W + + YDG+R+ GWQ Q    PT+Q  +E AL ++     E +    A RTDTGVHA 
Sbjct: 8   RWAITLSYDGSRFYGWQKQADGVPTVQAALETALAQIAG---EAVSTTVAGRTDTGVHAT 64

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
            QV HF T  +      I   +N  LP  I V       PEFHARF A  + Y Y + + 
Sbjct: 65  AQVVHFDTTAARPQQAWIRG-VNAHLPEGIAVLHARQVAPEFHARFDAYGRHYRYLLESA 123

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
            V  P   + A  +  KL+   MR+AA Y +G+ DFS+F   +   +A +PVK+I+R D+
Sbjct: 124 PVRSPLLKNRAGWTHLKLDIEPMRQAAAYLIGEQDFSSFRAAE--CQAKSPVKTIYRADL 181

Query: 205 IEMGALLQLEVEGSGFLYRQVRNMVN 230
            +   L++L++ G+ FL+  VRN++ 
Sbjct: 182 TQSAGLVRLDLHGNAFLHHMVRNIMG 207


>gi|336394592|ref|ZP_08575991.1| tRNA pseudouridine synthase A [Lactobacillus farciminis KCTC 3681]
          Length = 248

 Score =  129 bits (324), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 74/208 (35%), Positives = 116/208 (55%), Gaps = 11/208 (5%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++L I YDGT++ G+Q Q    T+Q ++EKAL ++TK +  D+  VG+ RTD GVHA+G
Sbjct: 3   RYKLTIAYDGTKFHGFQRQNDLRTVQGVLEKALTKMTKGQHVDV--VGSGRTDAGVHAFG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P      +++  A+N L+P D+ V++ +     FHARF  K K Y Y++    
Sbjct: 61  QVIHFDYPGQMPA-QNMLKAINSLMPLDVLVKDSAIVDENFHARFGVKRKTYQYRVDCGY 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVN----IQRNDRALNPVKSIFR 201
             DPF+  Y  H  YK++   ++ A +   G+HDF++F      I+   R +     ++ 
Sbjct: 120 YTDPFKRFYTGHYPYKISVDKIQTALKDLEGEHDFTSFAASGGVIENKVRTIYSATCVYN 179

Query: 202 FDVIEMGALLQLEVEGSGFLYRQVRNMV 229
            +  E    L  E  G+GFLY  VR +V
Sbjct: 180 KNNDE----LVFEFTGNGFLYNMVRILV 203


>gi|227871757|ref|ZP_03990163.1| tRNA-pseudouridine synthase I [Oribacterium sinus F0268]
 gi|227842397|gb|EEJ52621.1| tRNA-pseudouridine synthase I [Oribacterium sinus F0268]
          Length = 265

 Score =  129 bits (324), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 77/200 (38%), Positives = 104/200 (52%), Gaps = 5/200 (2%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L + Y+GT Y G+Q Q    TI   VE+ L  +   + E+   +GASRTD GVHA G + 
Sbjct: 14  LKLAYEGTSYHGFQKQEGLSTIAGTVEEQLRNLFPWKMENF--IGASRTDQGVHALGNLL 71

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
            F T     G E I  ALN  LP DIRV E  +   +FH RF+   K Y Y I    V +
Sbjct: 72  SFDTEGKVSG-EQILRALNSYLPEDIRVMEAYSVQQDFHPRFTPHRKAYRYSICRSKVEN 130

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRND--RALNPVKSIFRFDVIE 206
           P +   AYH  + L+   + E  E   G+HDF +F N +     +  + V+ I+RF + E
Sbjct: 131 PLRRRTAYHYTFPLDCGKISEGMELLKGEHDFRSFANPKAQSLLQGGSSVREIYRFSMEE 190

Query: 207 MGALLQLEVEGSGFLYRQVR 226
            G  L   VEG+GFLY  +R
Sbjct: 191 EGDYLHFSVEGNGFLYHMIR 210


>gi|339625095|ref|ZP_08660884.1| tRNA pseudouridine synthase A [Fructobacillus fructosus KCTC 3544]
          Length = 260

 Score =  129 bits (323), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 74/209 (35%), Positives = 112/209 (53%), Gaps = 6/209 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPP-----TIQCIVEKALIRVTKLEREDLRLVGASRTDTG 80
           ++R V+ YDG+ + G+Q Q+        T+Q  + KA+ ++ K   E +++VGASRTDTG
Sbjct: 3   RYRAVVAYDGSDFLGFQVQSKNGVERHRTVQGELIKAVNQMGKNPAERIKVVGASRTDTG 62

Query: 81  VHAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYK 140
           VHA GQV HF  PF   G E +   LN +LP DI ++E+     +FHARFS+ +K Y+Y+
Sbjct: 63  VHANGQVIHFNLPFDIPG-EGVRKGLNTILPRDILIKEVRQVQDDFHARFSSHNKRYYYR 121

Query: 141 IYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIF 200
           +     +DPF+  Y  H  + L+   + +A    +G+ DF+ F              +  
Sbjct: 122 VSTQDYVDPFKRRYTGHFHWNLDPKRIEKALPDLIGEQDFATFAASGNQTATTIRTITRA 181

Query: 201 RFDVIEMGALLQLEVEGSGFLYRQVRNMV 229
              V E    L    EG+ FLY Q+R MV
Sbjct: 182 EVQVKEDEQELVFTFEGNAFLYNQIRIMV 210


>gi|410582551|ref|ZP_11319657.1| pseudouridylate synthase I [Thermaerobacter subterraneus DSM 13965]
 gi|410505371|gb|EKP94880.1| pseudouridylate synthase I [Thermaerobacter subterraneus DSM 13965]
          Length = 345

 Score =  129 bits (323), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 76/203 (37%), Positives = 108/203 (53%), Gaps = 6/203 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           R V+ YDGT +AGWQ Q    T+Q +VE+AL   ++L    +R+  A RTD GVHA  QV
Sbjct: 86  RAVLAYDGTDFAGWQRQAGRRTVQQVVEEAL---SRLLGHPVRVTAAGRTDAGVHARAQV 142

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            H+ T   +   E +  AL GLLP D+       A   FHAR++A+ K Y Y ++   V 
Sbjct: 143 IHWQTARPFPA-ERLVPALRGLLPLDVAAVAAGEAPAGFHARYAARRKTYVYHLWRAPVA 201

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           DP    + +H    L+   M EAA    G+HDF+AF       R  N  ++++R  + E 
Sbjct: 202 DPLHRRWQWHLPLALDVAAMAEAARRLEGRHDFAAFKAAGSPVR--NTRRTLYRCRLEEH 259

Query: 208 GALLQLEVEGSGFLYRQVRNMVN 230
           G LL++ +E  GFL    R +V 
Sbjct: 260 GPLLRIVLEADGFLMHMARGIVG 282


>gi|167748465|ref|ZP_02420592.1| hypothetical protein ANACAC_03209 [Anaerostipes caccae DSM 14662]
 gi|167652457|gb|EDR96586.1| tRNA pseudouridine synthase A [Anaerostipes caccae DSM 14662]
          Length = 252

 Score =  129 bits (323), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 79/207 (38%), Positives = 109/207 (52%), Gaps = 12/207 (5%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + +L + YDGT Y GWQ Q    TI+ I+ + L     L  E++ ++GASRTD+GVHA G
Sbjct: 3   RIKLEVAYDGTNYCGWQIQPKDTTIEGILNEKL---GSLLGEEITVIGASRTDSGVHALG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
            VA F T     G E I  ALN  LP DI ++  S    +FH R+    K Y Y IYN  
Sbjct: 60  NVAVFDTETEIPG-ERIARALNQRLPDDIVIQSSSEVKDDFHPRYQDTRKTYEYTIYNAE 118

Query: 146 VMDPF---QHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRF 202
             +P     HH+ Y     L+   MR AA  F+G+HDF +F       +    V++I+  
Sbjct: 119 FDNPVTARHHHFVY---VPLDAERMRTAARCFLGEHDFLSFSTTGSPTKTT--VRTIYEC 173

Query: 203 DVIEMGALLQLEVEGSGFLYRQVRNMV 229
           +V + G  + + V G+GFLY  VR M 
Sbjct: 174 EVRQNGRYITMRVTGNGFLYNMVRMMA 200


>gi|416189335|ref|ZP_11615257.1| tRNA pseudouridine synthase A [Neisseria meningitidis M0579]
 gi|433470184|ref|ZP_20427589.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis 98080]
 gi|325135431|gb|EGC58051.1| tRNA pseudouridine synthase A [Neisseria meningitidis M0579]
 gi|432200718|gb|ELK56807.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis 98080]
          Length = 265

 Score =  129 bits (323), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 76/212 (35%), Positives = 114/212 (53%), Gaps = 7/212 (3%)

Query: 20  DSFPGFKWRLVIGYDGTRYAGWQFQTSP-PTIQCIVEKALIRVTKLEREDLRLVGASRTD 78
           D+    +W + + YDG+R+ GWQ Q    PT+Q  +E AL ++     E +    A RTD
Sbjct: 2   DTAQKQRWAITLSYDGSRFYGWQKQADGVPTVQAALETALAQIAG---ESVATTVAGRTD 58

Query: 79  TGVHAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYH 138
           TGVHA  QV HF T  +      +   +N  LP  I V       PEFHARF A  + Y 
Sbjct: 59  TGVHATAQVVHFDTTAARPQQAWVRG-VNAHLPEGIAVLHARQVAPEFHARFDAYGRHYR 117

Query: 139 YKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKS 198
           Y + +  V  P   H A  +  KL+   MR+AA   +G+ DFS+F   +   +A +PVK+
Sbjct: 118 YLLESAPVRSPLLKHRAGWTHLKLDIGQMRQAAALLIGEQDFSSFRAAE--CQAKSPVKT 175

Query: 199 IFRFDVIEMGALLQLEVEGSGFLYRQVRNMVN 230
           I+R D+ +   L++L++ G+ FL+  VRN++ 
Sbjct: 176 IYRADLTQSAGLVRLDLHGNAFLHHMVRNIMG 207


>gi|450050560|ref|ZP_21840344.1| tRNA pseudouridine synthase A [Streptococcus mutans NFSM1]
 gi|449202513|gb|EMC03424.1| tRNA pseudouridine synthase A [Streptococcus mutans NFSM1]
          Length = 249

 Score =  129 bits (323), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 75/206 (36%), Positives = 112/206 (54%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDGT ++G+Q Q    T+Q  +EK L+R+     + +++ GA RTD GVHA+G
Sbjct: 3   RYKAIISYDGTNFSGFQRQPQMRTVQEEIEKTLLRLN--SGQAVKIHGAGRTDAGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P   D LE +   L+   P DI V ++     +FHAR+    K Y + +    
Sbjct: 61  QVIHFDLPQQRD-LEKLRFGLDTQTPDDIDVIQVEQVADDFHARYQKHRKTYEFLVDLGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +P   HYA H  YK++ ++++ A +   G HDF+ F          N V++I R  V 
Sbjct: 120 PKNPLMRHYATHFPYKVDFSVVKVAIKKLRGTHDFTGFTAA--GTSVENKVRTISRATVE 177

Query: 206 EMG--ALLQLEVEGSGFLYRQVRNMV 229
           + G    L     GSGFLY+QVRNMV
Sbjct: 178 KDGKTGFLIFTFTGSGFLYKQVRNMV 203


>gi|449919836|ref|ZP_21798176.1| tRNA pseudouridine synthase A [Streptococcus mutans 1SM1]
 gi|449159126|gb|EMB62500.1| tRNA pseudouridine synthase A [Streptococcus mutans 1SM1]
          Length = 249

 Score =  129 bits (323), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 75/206 (36%), Positives = 111/206 (53%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDGT ++G+Q Q    T+Q  +EK L+R+     + +++ GA RTD GVHA+G
Sbjct: 3   RYKAIISYDGTNFSGFQRQPQMRTVQEEIEKTLLRLN--SGQAVKIHGAGRTDAGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P   D LE +   L+   P DI V ++     +FHAR+    K Y + +    
Sbjct: 61  QVIHFDLPQQRD-LEKLRFGLDTQTPDDIDVIQVEQVADDFHARYQKHRKTYEFLVDLGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV- 204
             +P   HYA H  YK++ ++++ A +   G HDF+ F          N V++I R  V 
Sbjct: 120 PKNPLMRHYATHFPYKVDFSVVKAAIKKLRGTHDFTGFTAA--GTSVENKVRTISRATVE 177

Query: 205 -IEMGALLQLEVEGSGFLYRQVRNMV 229
             E    L     GSGFLY+QVRNMV
Sbjct: 178 KDEKTGFLIFTFTGSGFLYKQVRNMV 203


>gi|210623220|ref|ZP_03293659.1| hypothetical protein CLOHIR_01609 [Clostridium hiranonis DSM 13275]
 gi|210153757|gb|EEA84763.1| hypothetical protein CLOHIR_01609 [Clostridium hiranonis DSM 13275]
          Length = 243

 Score =  129 bits (323), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 73/199 (36%), Positives = 107/199 (53%), Gaps = 6/199 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           ++ + Y+G  Y GWQ Q + P IQ  +E A+  +T    E +++ G+ RTD GVHA GQV
Sbjct: 5   KITVQYNGANYCGWQEQPNSPGIQGNIEYAIKEITG---EKVKINGSGRTDAGVHALGQV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A+F    S   +  I  ALN  LP DI + +      EFHAR+SAK KIY Y +YN    
Sbjct: 62  ANFKIE-SQIPVNRIPDALNSKLPKDISIIDAEEVEDEFHARYSAKGKIYKYLVYNSRYR 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           +P     +Y   Y L+   M++ AE  +G +DF  F++        + V++I    + + 
Sbjct: 121 NPILKDISYQVKYDLDFEKMKKEAESLIGTYDFCGFMS--SGSSVKDTVRTIKSVKIEKE 178

Query: 208 GALLQLEVEGSGFLYRQVR 226
             L+  E EG+GFLY  VR
Sbjct: 179 DDLIVFEFEGNGFLYNMVR 197


>gi|399156206|ref|ZP_10756273.1| tRNA pseudouridine synthase A [SAR324 cluster bacterium SCGC
           AAA001-C10]
          Length = 266

 Score =  129 bits (323), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 78/202 (38%), Positives = 113/202 (55%), Gaps = 5/202 (2%)

Query: 27  WRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           W L++ Y+GT Y GWQ Q + PTI+  +E+A+ R+T    E +++ GA RTD+GVHA   
Sbjct: 7   WLLLLTYEGTCYHGWQVQPNSPTIEETLEQAVKRLTG---ETVKVHGAGRTDSGVHALNF 63

Query: 87  VAHFIT-PFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
            A+F     ++   E    ALN +LPPDI V+       +FHAR SA  K Y Y I N  
Sbjct: 64  TANFTAIAENFKTAEKWRVALNAVLPPDIVVKYAQTVAADFHARHSAVGKRYRYLISNLP 123

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQ-RNDRALNPVKSIFRFDV 204
              PF  + ++     L+  LMR+AA+  VGKHDFSAF      +  ++  ++ I  F+V
Sbjct: 124 YKPPFSLNQSWWVSQDLDIDLMRKAADLLVGKHDFSAFRAASCSSPSSVKDLRVIEIFEV 183

Query: 205 IEMGALLQLEVEGSGFLYRQVR 226
               + LQ+E+E + FL   VR
Sbjct: 184 RSRHSTLQIEMEANSFLQHMVR 205


>gi|302873576|ref|YP_003842209.1| tRNA pseudouridine synthase A [Clostridium cellulovorans 743B]
 gi|307688243|ref|ZP_07630689.1| tRNA pseudouridine synthase A [Clostridium cellulovorans 743B]
 gi|302576433|gb|ADL50445.1| tRNA pseudouridine synthase A [Clostridium cellulovorans 743B]
          Length = 245

 Score =  129 bits (323), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 72/201 (35%), Positives = 111/201 (55%), Gaps = 7/201 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG  Y GWQ    S  TIQ  +EK L   + L  E++ ++G+ RTD GVHA  
Sbjct: 4   YKLTIQYDGKNYRGWQKLSDSDKTIQSKLEKVL---STLVDEEVNVIGSGRTDAGVHARK 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           Q+A+F T       + +       LP DI V+       +FHAR++AK KIY Y+I N A
Sbjct: 61  QIANFHTEKDLKWKDVLKHCYT-YLPEDIVVKSCDKVDEKFHARYNAKKKIYTYRICNSA 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             D F+  Y+Y    KLN   M  A++YF+G HDF +F +++   ++   V+ I+   + 
Sbjct: 120 FGDAFERKYSYLVDKKLNIDKMLAASKYFIGIHDFKSFTSMKSKKKS--TVREIYDISIN 177

Query: 206 EMGALLQLEVEGSGFLYRQVR 226
            +G ++++   G GFL+  +R
Sbjct: 178 CIGDMVEITYIGEGFLHNMIR 198


>gi|241895121|ref|ZP_04782417.1| pseudouridylate synthase [Weissella paramesenteroides ATCC 33313]
 gi|241871617|gb|EER75368.1| pseudouridylate synthase [Weissella paramesenteroides ATCC 33313]
          Length = 249

 Score =  129 bits (323), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 71/206 (34%), Positives = 117/206 (56%), Gaps = 5/206 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDGT + GWQ Q +  T+Q  +E  + ++ K   E +R+ G+ RTD  VHA G
Sbjct: 3   RYKATIAYDGTDFFGWQVQPNKRTVQAEMELVVNKMAKNPAEHIRVQGSGRTDARVHAKG 62

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVAHF  PF     +++   L+ +LP DI ++++     +FHA+F+A +K Y Y+     
Sbjct: 63  QVAHFDLPFDIPA-DAVRKGLSTMLPYDIGIKKVEKVSDDFHAQFNAHNKTYFYRFSTSE 121

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIF--RFD 203
            +DPF+ +Y  H   +LN  LM++A   +VG+HD+ +FV      +    V++++  +  
Sbjct: 122 YIDPFKRNYTGHWHRRLNPELMQQAIGDYVGEHDWLSFVASGYQQKTT--VRTVYSAKMW 179

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
           V      +  E  G+GFLY Q+R MV
Sbjct: 180 VKPEEEEIWFEFSGNGFLYNQIRIMV 205


>gi|260881651|ref|ZP_05404943.2| tRNA pseudouridine synthase A [Mitsuokella multacida DSM 20544]
 gi|260848088|gb|EEX68095.1| tRNA pseudouridine synthase A [Mitsuokella multacida DSM 20544]
          Length = 264

 Score =  129 bits (323), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 84/207 (40%), Positives = 112/207 (54%), Gaps = 14/207 (6%)

Query: 29  LVIGYDGTRYAGWQFQTSP-PTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           L + YDGT Y G+Q QT P   +Q I+E+ L  +     + + L  A RTD GVHA+GQV
Sbjct: 18  LKVAYDGTAYHGFQRQTPPIVAVQNILEEKLQTIFG---DTIELAAAGRTDAGVHAYGQV 74

Query: 88  AHFITPFSYDG---LESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
            +F T    DG   ++ I  A N LLP DI VR    A  +F AR SAKSK Y Y+I   
Sbjct: 75  VNFFT----DGRIPVDRIARAANSLLPDDIVVRAAGEADTDFSARHSAKSKTYVYRIQQG 130

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
            V DP    YA++    L+   MREA    +G HDFSAF         ++PV++++   +
Sbjct: 131 EVPDPMTARYAWYIRRPLDVAAMREALGAILGTHDFSAFR--ASGGAPMSPVRTMYEATI 188

Query: 205 IE-MGALLQLEVEGSGFLYRQVRNMVN 230
            E  G  L   + GSGFLY  VRN++ 
Sbjct: 189 EEAAGQQLICRIHGSGFLYHMVRNIIG 215


>gi|419535067|ref|ZP_14074566.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA17457]
 gi|379563228|gb|EHZ28232.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA17457]
          Length = 249

 Score =  129 bits (323), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 75/208 (36%), Positives = 108/208 (51%), Gaps = 11/208 (5%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDG  +AG+Q Q    ++Q  +EK L R+ K   + + + GA RTD+GVHA G
Sbjct: 3   RYKATISYDGYVFAGFQRQPHARSVQEEIEKTLTRLNK--GQAITVHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D  E +  AL+   P DI V  I     +FH R++  SK Y + +    
Sbjct: 61  QVIHFDLPYQMDE-EKLRFALDTQSPEDIDVISIELVADDFHCRYAKHSKTYEFIVDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAF----VNIQRNDRALNPVKSIFR 201
             +P + HYA H  Y L+   MREA +   G HDF+ F     +++   R +        
Sbjct: 120 PKNPMRRHYATHFPYPLDVERMREAIKKLEGTHDFTGFTASGTSVEDKIRTITEAS---- 175

Query: 202 FDVIEMGALLQLEVEGSGFLYRQVRNMV 229
             V E G  L     G+GFLY+Q+RNMV
Sbjct: 176 LTVDETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|168483521|ref|ZP_02708473.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae CDC1873-00]
 gi|418162634|ref|ZP_12799316.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA17328]
 gi|418176400|ref|ZP_12812991.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA41437]
 gi|418219323|ref|ZP_12845988.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae NP127]
 gi|418239139|ref|ZP_12865690.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae
           NorthCarolina6A-23]
 gi|419462760|ref|ZP_14002663.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA02714]
 gi|419526312|ref|ZP_14065871.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA14373]
 gi|172043050|gb|EDT51096.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae CDC1873-00]
 gi|353827146|gb|EHE07300.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA17328]
 gi|353840471|gb|EHE20535.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA41437]
 gi|353873683|gb|EHE53542.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae NP127]
 gi|353892130|gb|EHE71879.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae
           NorthCarolina6A-23]
 gi|379530192|gb|EHY95432.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA02714]
 gi|379557557|gb|EHZ22601.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA14373]
          Length = 249

 Score =  129 bits (323), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 75/208 (36%), Positives = 108/208 (51%), Gaps = 11/208 (5%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDG  +AG+Q Q    ++Q  +EK L R+ K   + + + GA RTD+GVHA G
Sbjct: 3   RYKATISYDGYVFAGFQRQPHARSVQEEIEKTLTRLNK--GQAITVHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D  E +  AL+   P DI V  I     +FH R++  SK Y + +    
Sbjct: 61  QVLHFDLPYQMDE-EKLRFALDTQSPEDIDVISIELVADDFHCRYAKHSKTYEFIVDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAF----VNIQRNDRALNPVKSIFR 201
             +P + HYA H  Y L+   MREA +   G HDF+ F     +++   R +        
Sbjct: 120 PKNPMRRHYATHFPYPLDVERMREAIKKLEGTHDFTGFTASGTSVEDKIRTITEAS---- 175

Query: 202 FDVIEMGALLQLEVEGSGFLYRQVRNMV 229
             V E G  L     G+GFLY+Q+RNMV
Sbjct: 176 LTVDETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|359453490|ref|ZP_09242804.1| tRNA pseudouridine38-40 synthase [Pseudoalteromonas sp. BSi20495]
 gi|414070597|ref|ZP_11406580.1| tRNA pseudouridine38-40 synthase [Pseudoalteromonas sp. Bsw20308]
 gi|358049461|dbj|GAA79053.1| tRNA pseudouridine38-40 synthase [Pseudoalteromonas sp. BSi20495]
 gi|410807051|gb|EKS13034.1| tRNA pseudouridine38-40 synthase [Pseudoalteromonas sp. Bsw20308]
          Length = 264

 Score =  129 bits (323), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 72/200 (36%), Positives = 112/200 (56%), Gaps = 6/200 (3%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L + Y+G RY+GWQ Q+   ++Q  VEKAL R+       + ++ A RTD GVH  GQV 
Sbjct: 5   LGVEYNGARYSGWQRQSHVNSVQQEVEKALSRICN---HPVEVICAGRTDAGVHGTGQVI 61

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           HF T    D + +    +N L+P DI +R       +FHARFSA ++ Y Y IYN  +  
Sbjct: 62  HFDTEADRD-MVAFTLGMNTLMPKDIAIRFAQPVADDFHARFSATARRYRYIIYNSPLRG 120

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
              +    H  ++L+ T M+EA +Y +GKHDF++F  I  + +A  P ++I    V   G
Sbjct: 121 AVLNEGVTHFHHQLDETKMQEACQYLIGKHDFTSFRAI--HCQANTPTRTIHHLSVRRQG 178

Query: 209 ALLQLEVEGSGFLYRQVRNM 228
             + ++++ + FL+  VRN+
Sbjct: 179 TYVIIDIKANAFLHHMVRNI 198


>gi|205372037|ref|ZP_03224854.1| tRNA pseudouridine synthase A [Bacillus coahuilensis m4-4]
          Length = 251

 Score =  129 bits (323), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 74/204 (36%), Positives = 109/204 (53%), Gaps = 6/204 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + +  + YDGT YAG+Q Q +  TIQ  +EK L    K+  + +R+  + RTD GVHA G
Sbjct: 6   RIKCTVQYDGTWYAGYQVQPNSKTIQGEIEKVL---EKIHGKPIRISASGRTDAGVHAIG 62

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF T   +  +E      N  LP DI V  +      FH+RF +  K Y YK+Y   
Sbjct: 63  QVFHFDTDTKFP-VEKWLPIFNSQLPNDIVVIHVEEVAGSFHSRFGSIEKEYRYKVYRAP 121

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
              PF  H+AYH  + L+   M EA+ Y +G HDF++F + +      + V++IF   + 
Sbjct: 122 HKSPFLIHHAYHVPHSLSVQKMEEASRYLLGTHDFTSFCSAK--TEVEDKVRTIFTISIE 179

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E   +L   + G+GFLY  VR ++
Sbjct: 180 EEENMLTFSLVGNGFLYNMVRIII 203


>gi|170761533|ref|YP_001788787.1| tRNA pseudouridine synthase A [Clostridium botulinum A3 str. Loch
           Maree]
 gi|169408522|gb|ACA56933.1| tRNA pseudouridine synthase A [Clostridium botulinum A3 str. Loch
           Maree]
          Length = 246

 Score =  129 bits (323), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 74/204 (36%), Positives = 107/204 (52%), Gaps = 8/204 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPP--TIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +L + YDGT Y GWQ Q +    T+Q  +EK +  +TK   E + ++G SRTD+GVHA G
Sbjct: 5   KLKLEYDGTNYCGWQKQKNEKFITLQGTLEKVISNITK---EKVEIIGVSRTDSGVHAKG 61

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
            V +F T       E++   +N  LP DI V        EFH+RF +K K Y Y + N  
Sbjct: 62  YVCNFFTNTRIPP-ENLQKVINNNLPQDIVVLSSEEVSNEFHSRFCSKGKTYEYTVLNSP 120

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
                  +Y +    KLN   M+ A+ YF+G HDFSAF    +       V++I  F++ 
Sbjct: 121 QPIAIGRNYIFQFKDKLNIDNMKIASRYFIGTHDFSAFKT--KGSSVKTSVRTINEFEID 178

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           + G  ++  + G GFLY  VR +V
Sbjct: 179 KKGDFIKFTITGDGFLYNMVRIIV 202


>gi|365926312|ref|ZP_09449075.1| tRNA pseudouridine synthase [Lactobacillus mali KCTC 3596 = DSM
           20444]
          Length = 255

 Score =  129 bits (323), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 75/207 (36%), Positives = 119/207 (57%), Gaps = 8/207 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++ + + YDGT +AG+Q Q +  T+Q ++EKA+ +++   +E + + G+ RTD GVHA+G
Sbjct: 4   RYMITLAYDGTNFAGFQSQPNQRTVQDVLEKAVNKMST-AKEFVHIFGSGRTDAGVHAFG 62

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           Q+ HF         + I   LN +LP D++V +      EFHARF+A  K Y Y++    
Sbjct: 63  QIVHFDLENDIPA-QGIVNGLNSMLPLDMQVVDAKIVSKEFHARFTAHGKRYMYRVSRGR 121

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV- 204
            +DPF+  Y  H  Y LN  L++EA    +G HD+S+FV      +  + V++I+   V 
Sbjct: 122 FVDPFKRFYTGHYKYPLNIELIKEAIPDVIGTHDYSSFV--ASGSQTKSHVRTIYDATVR 179

Query: 205 --IEMGALLQLEVEGSGFLYRQVRNMV 229
             +E   ++  E  G+GFLY QVR MV
Sbjct: 180 ENLENNEII-FEFYGNGFLYNQVRIMV 205


>gi|302871559|ref|YP_003840195.1| tRNA pseudouridine synthase A [Caldicellulosiruptor obsidiansis
           OB47]
 gi|302574418|gb|ADL42209.1| tRNA pseudouridine synthase A [Caldicellulosiruptor obsidiansis
           OB47]
          Length = 244

 Score =  129 bits (323), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 74/198 (37%), Positives = 108/198 (54%), Gaps = 6/198 (3%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L I YDGT Y GWQ Q +  TIQ  +E+A   + KL  E++ L+G+ RTD GVHA  Q A
Sbjct: 6   LTIEYDGTGYFGWQKQPNKKTIQGTIEEA---IKKLTGEEVNLIGSGRTDRGVHALNQKA 62

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +F T  S    +    ALN +LP DI V++      +F AR+SAK K Y Y IYN     
Sbjct: 63  NFKTS-SKIPTDKFPLALNSVLPGDISVKDAIEVSLDFSARYSAKQKTYKYLIYNKKSRP 121

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
               +YAY+  Y+L+   M+ A EYF+G++DF +F ++    +    V+ I+   +    
Sbjct: 122 ALLRNYAYYYPYELDVDAMQRACEYFIGEYDFKSFCSVDSESKT--TVRRIYNAYLTFEN 179

Query: 209 ALLQLEVEGSGFLYRQVR 226
             + + +  +GFLY   R
Sbjct: 180 ECIAIYLTANGFLYNMAR 197


>gi|290579596|ref|YP_003483988.1| tRNA pseudouridine synthase A [Streptococcus mutans NN2025]
 gi|254996495|dbj|BAH87096.1| putative tRNA pseudouridine synthase A [Streptococcus mutans
           NN2025]
          Length = 249

 Score =  129 bits (323), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 75/206 (36%), Positives = 111/206 (53%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDGT ++G+Q Q    T+Q  +EK L+R+     + +++ GA RTD GVHA+G
Sbjct: 3   RYKAIISYDGTNFSGFQRQPQMRTVQEEIEKTLLRLN--SGQAVKVHGAGRTDAGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P   D LE +   L+   P DI V ++     +FHAR+    K Y + +    
Sbjct: 61  QVIHFDLPQQRD-LEKLRFGLDTQTPDDIDVIQVEQVADDFHARYQKHRKTYEFLVDLGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV- 204
             +P   HYA H  YK++ ++++ A +   G HDF+ F          N V++I R  V 
Sbjct: 120 PKNPLMRHYATHFPYKVDFSVVKAAIKKLRGTHDFTGFT--ASGTSVENKVRTISRATVE 177

Query: 205 -IEMGALLQLEVEGSGFLYRQVRNMV 229
             E    L     GSGFLY+QVRNMV
Sbjct: 178 KDEKTGFLIFTFTGSGFLYKQVRNMV 203


>gi|239623391|ref|ZP_04666422.1| conserved hypothetical protein [Clostridiales bacterium 1_7_47_FAA]
 gi|239522357|gb|EEQ62223.1| conserved hypothetical protein [Clostridiales bacterium 1_7_47FAA]
          Length = 247

 Score =  129 bits (323), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 76/202 (37%), Positives = 114/202 (56%), Gaps = 7/202 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + RLV+ YDGT Y GWQ Q    TI+  + +AL   T L  E ++++GASRTD+GVHA G
Sbjct: 3   RVRLVVAYDGTHYHGWQIQPGKVTIESRLNEAL---TSLLGEPVQVIGASRTDSGVHARG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
            VA F T       + I  ALN  LP DIRV+      P++H R     K Y Y+I N  
Sbjct: 60  NVAVFDTSHRMPA-DRICMALNQRLPEDIRVQSSEEVDPDWHPRKCRCVKTYEYRILNRR 118

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           +  P Q  Y++   + L+   M++AA   VG+HDF +F +++   +  + V++I+  +V 
Sbjct: 119 IEMPMQRFYSHFCYFNLDLEKMQKAAGLLVGEHDFKSFCSVR--TQVTDTVRTIYSIEVK 176

Query: 206 -EMGALLQLEVEGSGFLYRQVR 226
            +   ++ + V G+GFLY  VR
Sbjct: 177 RDEEDMIGIRVTGNGFLYNMVR 198


>gi|182418813|ref|ZP_02950078.1| tRNA pseudouridine synthase A [Clostridium butyricum 5521]
 gi|237666467|ref|ZP_04526452.1| tRNA pseudouridine synthase A [Clostridium butyricum E4 str. BoNT E
           BL5262]
 gi|182377310|gb|EDT74871.1| tRNA pseudouridine synthase A [Clostridium butyricum 5521]
 gi|237657666|gb|EEP55221.1| tRNA pseudouridine synthase A [Clostridium butyricum E4 str. BoNT E
           BL5262]
          Length = 244

 Score =  128 bits (322), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 72/202 (35%), Positives = 113/202 (55%), Gaps = 6/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L I +DG+ + GWQ Q    T+Q ++E+A+ + T    E++ + G+SRTD+GVHA   +
Sbjct: 5   KLTIEFDGSEFCGWQKQPKGRTVQKVIEEAIFKATG---EEIIINGSSRTDSGVHAKDMI 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A+F T  +  G +    ALN  LP D+ +        +FHAR+S+K K Y Y I +    
Sbjct: 62  ANFFTNSTIPG-DKFREALNVRLPKDVSIIRSEEVSEDFHARYSSKGKTYSYTIIHRYER 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
             F H Y YH  + L+   MREA +YF+G HDF AF++   + +    V++I    + + 
Sbjct: 121 VSFGHQYVYHWRHDLDIDNMREACKYFIGTHDFRAFMSPGSSIKT--TVRTITDLHIEQN 178

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
           G  +++ V   GFLY  VR +V
Sbjct: 179 GEKIKIFVSADGFLYNMVRIIV 200


>gi|323485798|ref|ZP_08091133.1| tRNA pseudouridine synthase A [Clostridium symbiosum WAL-14163]
 gi|323693150|ref|ZP_08107368.1| pseudouridylate synthase [Clostridium symbiosum WAL-14673]
 gi|323400786|gb|EGA93149.1| tRNA pseudouridine synthase A [Clostridium symbiosum WAL-14163]
 gi|323502633|gb|EGB18477.1| pseudouridylate synthase [Clostridium symbiosum WAL-14673]
          Length = 265

 Score =  128 bits (322), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 81/211 (38%), Positives = 114/211 (54%), Gaps = 14/211 (6%)

Query: 28  RLVIGYDGTRYAGWQFQ-TSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           R+++ YDGTRY GWQ Q  +  T+Q  +E  L   + L    + + G+ RTD GVHA GQ
Sbjct: 7   RILLQYDGTRYDGWQKQGNTQQTVQGKLEAVL---SCLAGGPVEVHGSGRTDAGVHALGQ 63

Query: 87  VAHFITPFSYDGLESIHAA--------LNGLLPPDIRVREISAAVPEFHARFSAKSKIYH 138
           VA+F  P S        AA        LN  LP DIRV     A P FH+R +A SK Y 
Sbjct: 64  VANFHLPLSVFCGSQTEAADMIRIKNYLNEYLPEDIRVLVAEEARPRFHSRLNALSKTYI 123

Query: 139 YKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKS 198
           Y+I      D F+  Y Y    + +  +M+ AA   VG HDF AF ++++  ++   V++
Sbjct: 124 YRIETADKNDVFERKYRYGLGKEPDLEIMKRAASILVGTHDFRAFSSLKKTKKS--TVRT 181

Query: 199 IFRFDVIEMGALLQLEVEGSGFLYRQVRNMV 229
           I R D+   G  L++ +EG+GFLY  VR +V
Sbjct: 182 INRIDIRRDGTQLEILLEGNGFLYNMVRIIV 212


>gi|421564135|ref|ZP_16009944.1| tRNA pseudouridine synthase A [Neisseria meningitidis NM2795]
 gi|421907867|ref|ZP_16337733.1| tRNA pseudouridine synthase A [Neisseria meningitidis alpha704]
 gi|393291003|emb|CCI73741.1| tRNA pseudouridine synthase A [Neisseria meningitidis alpha704]
 gi|402339066|gb|EJU74287.1| tRNA pseudouridine synthase A [Neisseria meningitidis NM2795]
          Length = 265

 Score =  128 bits (322), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 76/212 (35%), Positives = 115/212 (54%), Gaps = 7/212 (3%)

Query: 20  DSFPGFKWRLVIGYDGTRYAGWQFQTSP-PTIQCIVEKALIRVTKLEREDLRLVGASRTD 78
           D+    +W + + YDG+R+ GWQ Q    PT+Q  +E AL ++     E +    A RTD
Sbjct: 2   DTAQKQRWAITLSYDGSRFYGWQKQADGVPTVQAALETALAQIAG---EAVSTTVAGRTD 58

Query: 79  TGVHAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYH 138
           TGVHA  QV HF T  +      +   +N  LP  I V       PEFHARF A  + Y 
Sbjct: 59  TGVHATAQVVHFDTTAARPQQAWVRG-VNAHLPEGIAVLHARQVAPEFHARFDAYGRHYR 117

Query: 139 YKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKS 198
           Y + +  V  P   + A  +  KL+   MR+AA Y +G+ DFS+F   +   +A +PVK+
Sbjct: 118 YLLESAPVRSPLLKNRAGWTHLKLDIGQMRQAAAYLIGEQDFSSFRAAE--CQAKSPVKT 175

Query: 199 IFRFDVIEMGALLQLEVEGSGFLYRQVRNMVN 230
           I+R D+ +   L++L++ G+ FL+  VRN++ 
Sbjct: 176 IYRADLTQSAGLVRLDLHGNAFLHHMVRNIMG 207


>gi|450066105|ref|ZP_21845802.1| tRNA pseudouridine synthase A [Streptococcus mutans NLML9]
 gi|449209263|gb|EMC09795.1| tRNA pseudouridine synthase A [Streptococcus mutans NLML9]
          Length = 249

 Score =  128 bits (322), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 75/206 (36%), Positives = 111/206 (53%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDGT ++G+Q Q    T+Q  +EK L+R+     + +++ GA RTD GVHA+G
Sbjct: 3   RYKAIISYDGTNFSGFQRQPQVRTVQEEIEKTLLRLN--SGQAVKVHGAGRTDAGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P   D LE +   L+   P DI V ++     +FHAR+    K Y + +    
Sbjct: 61  QVIHFDLPQQRD-LEKLRFGLDTQTPDDIDVIQVEQVADDFHARYQKHRKTYEFLVDLGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV- 204
             +P   HYA H  YK++ ++++ A +   G HDF+ F          N V++I R  V 
Sbjct: 120 PKNPLMRHYATHFPYKVDFSVVKAAIKKLRGTHDFTGFT--ASGTSVENKVRTISRATVE 177

Query: 205 -IEMGALLQLEVEGSGFLYRQVRNMV 229
             E    L     GSGFLY+QVRNMV
Sbjct: 178 KDEKTGFLIFTFTGSGFLYKQVRNMV 203


>gi|160872663|ref|ZP_02062795.1| tRNA pseudouridine synthase A [Rickettsiella grylli]
 gi|159121462|gb|EDP46800.1| tRNA pseudouridine synthase A [Rickettsiella grylli]
          Length = 264

 Score =  128 bits (322), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 78/200 (39%), Positives = 104/200 (52%), Gaps = 10/200 (5%)

Query: 31  IGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVAHF 90
           I Y G  Y GWQ QT  P IQ  +E+A+ RV       +RL  A RTD GVHA  QV HF
Sbjct: 7   ISYQGGAYHGWQSQTKLPCIQTYLERAISRVAD---HSVRLQCAGRTDKGVHALSQVVHF 63

Query: 91  ITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDPF 150
            T   +   +S     N  LPPDIRV  +      FHARFSA ++ Y Y IYN  +    
Sbjct: 64  DTDV-WRSKKSWLFGSNSYLPPDIRVNWVQVVEDTFHARFSALARRYRYIIYNRHLKSAL 122

Query: 151 QHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAF--VNIQRNDRALNPVKSIFRFDVIEMG 208
            + Y  H  Y LN   M  AA+Y VG+HDFS+F   + Q N    + ++ I    V   G
Sbjct: 123 WNAYTSHCCYPLNEKDMHRAAQYLVGEHDFSSFRAASCQAN----HALREIQHIQVKRHG 178

Query: 209 ALLQLEVEGSGFLYRQVRNM 228
             + ++++ + FL+  VRN+
Sbjct: 179 DYVIMDIQANAFLHHMVRNI 198


>gi|317472004|ref|ZP_07931336.1| tRNA pseudouridine synthase A [Anaerostipes sp. 3_2_56FAA]
 gi|316900408|gb|EFV22390.1| tRNA pseudouridine synthase A [Anaerostipes sp. 3_2_56FAA]
          Length = 252

 Score =  128 bits (322), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 78/206 (37%), Positives = 109/206 (52%), Gaps = 12/206 (5%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + +L + YDGT Y GWQ Q    TI+ ++ + L     L  E++ ++GASRTD+GVHA G
Sbjct: 3   RIKLEVAYDGTNYCGWQIQPKDTTIEGVLNEKL---GSLLGEEITVIGASRTDSGVHALG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
            VA F T     G E I  ALN  LP DI ++  S    +FH R+    K Y Y IYN  
Sbjct: 60  NVAVFDTETEIPG-ERIARALNQRLPDDIVIQSSSEVKDDFHPRYQDTRKTYEYTIYNAE 118

Query: 146 VMDPF---QHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRF 202
             +P     HH+ Y     L+   MR AA  F+G+HDF +F       +    V++I+  
Sbjct: 119 FDNPVTARHHHFVY---VPLDVERMRTAARCFLGEHDFLSFSTTGSPTKTT--VRTIYEC 173

Query: 203 DVIEMGALLQLEVEGSGFLYRQVRNM 228
           +V + G  + + V G+GFLY  VR M
Sbjct: 174 EVRQNGRYITMRVTGNGFLYNMVRMM 199


>gi|172056172|ref|YP_001812632.1| tRNA pseudouridine synthase A [Exiguobacterium sibiricum 255-15]
 gi|229470753|sp|B1YH83.1|TRUA_EXIS2 RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|171988693|gb|ACB59615.1| tRNA pseudouridine synthase A [Exiguobacterium sibiricum 255-15]
          Length = 249

 Score =  128 bits (322), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 77/204 (37%), Positives = 112/204 (54%), Gaps = 8/204 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDGT Y+G+Q Q +  TIQ ++EK L R   + +  ++++G+ RTD  VHA G
Sbjct: 3   RFKCTIQYDGTDYSGYQVQPNGLTIQEVLEKTLGR---MHKHPVKVIGSGRTDARVHAQG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF T  S     S+  ALN LLP DIRVR+      +F AR+    K Y Y +    
Sbjct: 60  QVIHFDTELSI-APASMVKALNTLLPDDIRVRDCKEVASDFEARYDVVGKEYRYFVRR-- 116

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             + F+ H +    Y L+   +R    + VG HDFS+F   +      N V++I+  ++I
Sbjct: 117 TENAFRRHQSVLIPYSLDVAQIRLGLAHLVGTHDFSSFCVAKTE--TDNRVRTIYEAELI 174

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E G  L    +GSGFLY Q+R MV
Sbjct: 175 EQGEELIFRFQGSGFLYNQIRIMV 198


>gi|347534752|ref|YP_004841422.1| tRNA pseudouridine synthase A [Lactobacillus sanfranciscensis TMW
           1.1304]
 gi|345504808|gb|AEN99490.1| tRNA pseudouridine synthase A [Lactobacillus sanfranciscensis TMW
           1.1304]
          Length = 263

 Score =  128 bits (322), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 72/206 (34%), Positives = 111/206 (53%), Gaps = 5/206 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++++   YDGT++AG+Q Q    T++ ++ K + R+ K   +++ + G+ RTD GVHA  
Sbjct: 3   RYKITFAYDGTKFAGFQKQPKQRTVEGVLTKLVNRMAKNPTQEIGVYGSGRTDAGVHALA 62

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVAHF  PF     E++   LN + P DI + ++  A P FHAR+    K Y YKI    
Sbjct: 63  QVAHFDFPFDIPA-ENMLKGLNSMCPLDIEILKVKIAEPNFHARYDVTGKKYLYKISLGQ 121

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             DPF+  Y  H  + ++      A + FVGKHDFS+FV      +  + V+++F    I
Sbjct: 122 FTDPFKRFYTAHWRFPMDFEKTEIAIQDFVGKHDFSSFV--ASGAKPGSRVRTVFSVKAI 179

Query: 206 EMGA--LLQLEVEGSGFLYRQVRNMV 229
              A   +  E  G GF+Y Q+R M 
Sbjct: 180 NDQANHEIHFEFYGDGFMYNQIRIMT 205


>gi|406707252|ref|YP_006757604.1| pseudouridylate synthase I [alpha proteobacterium HIMB59]
 gi|406653028|gb|AFS48427.1| pseudouridylate synthase I [alpha proteobacterium HIMB59]
          Length = 245

 Score =  128 bits (322), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 73/202 (36%), Positives = 107/202 (52%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L I Y G  Y+GWQ Q +  T+Q  V+KA+    K   E   + GA RTD GVHA  Q 
Sbjct: 5   KLTIEYHGLPYSGWQSQKNEKTVQDEVQKAIF---KFSGEKKIIQGAGRTDAGVHALAQC 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A+FI    +   + +      L    I++ ++     +F+ARF+AK K YHY+IYN    
Sbjct: 62  ANFILEKDFSEYQILSGINFHLGNEKIKITQVEKVDDDFNARFTAKLKTYHYQIYNSTSP 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
              Q   + H    LN   MREA + F+GKHDFS+F    R  +A  P++SI + D+++ 
Sbjct: 122 SVLQDEISVHIRQPLNVVAMREAIQNFIGKHDFSSFR--ARGCQAKTPIRSINKTDIVQE 179

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              +    +   FLY+Q+R MV
Sbjct: 180 DKKITFIFQAQSFLYQQIRIMV 201


>gi|158320711|ref|YP_001513218.1| tRNA pseudouridine synthase A [Alkaliphilus oremlandii OhILAs]
 gi|158140910|gb|ABW19222.1| tRNA pseudouridine synthase A [Alkaliphilus oremlandii OhILAs]
          Length = 245

 Score =  128 bits (322), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 70/200 (35%), Positives = 111/200 (55%), Gaps = 7/200 (3%)

Query: 28  RLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           +LVI YDG+RY GWQ  + S  TIQ  +EK L  +T      + ++G+ RTD GVHA  Q
Sbjct: 5   KLVIEYDGSRYDGWQRLKDSEQTIQGKIEKVLNEMTG---SSVEIIGSGRTDAGVHAKNQ 61

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           +A+F T  S   +  IH  +N  LP DI V+E+      FH+R++A+ K Y Y ++N  +
Sbjct: 62  IANFKTKSSM-SIRDIHNYMNHYLPQDIVVKEVKEVSDRFHSRYNAQKKKYTYYVWNHRI 120

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
              FQ  Y+Y+    L+   M  AA   +G HDF  F ++++  ++   V++I    +++
Sbjct: 121 PSAFQRKYSYYFPETLDLQRMEAAANQLLGTHDFIGFSSVKKAKKS--TVRTIEEITIVQ 178

Query: 207 MGALLQLEVEGSGFLYRQVR 226
              +L+    G GFL+  +R
Sbjct: 179 NNHMLEFSFIGDGFLHNMIR 198


>gi|365839710|ref|ZP_09380938.1| tRNA pseudouridine synthase A [Anaeroglobus geminatus F0357]
 gi|364563847|gb|EHM41637.1| tRNA pseudouridine synthase A [Anaeroglobus geminatus F0357]
          Length = 279

 Score =  128 bits (322), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 80/204 (39%), Positives = 114/204 (55%), Gaps = 10/204 (4%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L I YDGT + G+Q Q+  P++Q  +E+AL     L    +R+ GA+RTDTGVHA GQV 
Sbjct: 10  LRIAYDGTDFFGFQRQSDFPSVQQTMEEAL---EGLYGCRIRVYGAARTDTGVHARGQVV 66

Query: 89  HFITPFSYDGL--ESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           +F   +++D +  + +  AL G LPP I V +      +F  R   K K Y Y + N  V
Sbjct: 67  NF---YAHDRIPVDKLPYALKGSLPPTIVVLDAVEKAYDFSVRHDNKGKHYRYIVVNGPV 123

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
            DPF   YA++    L+   M+ AA   +G HDFSA+     N    NPVK+++   V  
Sbjct: 124 HDPFMLRYAWYIRKPLDIEAMQRAANTLIGTHDFSAYKGA--NTTPHNPVKTMYEIAVSR 181

Query: 207 MGALLQLEVEGSGFLYRQVRNMVN 230
            G  ++++V GSGFLY  VRN+V 
Sbjct: 182 AGGRVRIDVLGSGFLYHMVRNIVG 205


>gi|83591242|ref|YP_431251.1| tRNA pseudouridine synthase A [Moorella thermoacetica ATCC 39073]
 gi|123766692|sp|Q2RFT1.1|TRUA_MOOTA RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|83574156|gb|ABC20708.1| tRNA pseudouridine synthase A [Moorella thermoacetica ATCC 39073]
          Length = 246

 Score =  128 bits (322), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 81/205 (39%), Positives = 105/205 (51%), Gaps = 8/205 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSP--PTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++ + YDG+ YAGWQ Q     PT+Q  V  AL R+T    E++  V A RTD GVHA G
Sbjct: 5   KITLAYDGSNYAGWQVQPEAHGPTVQGEVAAALKRLTG---EEITPVAAGRTDAGVHARG 61

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV  F T  +   +E    ALN +LP DI   E     P+FHAR+ AK K Y Y IYN+ 
Sbjct: 62  QVISFST-RARIPVERWPLALNSVLPADIAALEAVEVAPDFHARYCAKRKWYRYTIYNNR 120

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           V D F   Y++H    L+   M  AA Y  G HDF +F       R     + + +  V 
Sbjct: 121 VPDVFCRRYSWHLRQPLDVIAMARAAAYLQGCHDFRSFCAAGSPVRHFE--RQVQQASVS 178

Query: 206 EMGALLQLEVEGSGFLYRQVRNMVN 230
           + G  +  +V   GFLY  VR MV 
Sbjct: 179 QNGPFIYFDVIADGFLYHMVRIMVG 203


>gi|419777885|ref|ZP_14303787.1| tRNA pseudouridine(38-40) synthase [Streptococcus oralis SK10]
 gi|383187638|gb|EIC80082.1| tRNA pseudouridine(38-40) synthase [Streptococcus oralis SK10]
          Length = 249

 Score =  128 bits (322), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 111/206 (53%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDG  ++G+Q Q    ++Q  +EK L+R+ K   + + + GA RTD+GVHA G
Sbjct: 3   RYKAIISYDGYAFSGFQRQPHARSVQEEIEKTLMRLNK--GQAITVHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D +E +  AL+   P DI V  I     +FH R++  SK Y + +    
Sbjct: 61  QVIHFDLPYQMD-VEKLRFALDTQSPEDIDVISIELVADDFHCRYAKHSKTYEFIVDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFR--FD 203
             +P + HYA H  Y L+   M+ AA+   G HDF+ F          + V++I      
Sbjct: 120 PKNPMRRHYATHFPYPLDVERMQIAAKKLEGTHDFTGFT--ASGTSVEDKVRTITEASLS 177

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
           V E G  L     G+GFLY+Q+RNMV
Sbjct: 178 VDETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|288904465|ref|YP_003429686.1| tRNA pseudouridylate synthase I [Streptococcus gallolyticus UCN34]
 gi|306830500|ref|ZP_07463669.1| tRNA pseudouridine synthase A [Streptococcus gallolyticus subsp.
           gallolyticus TX20005]
 gi|306832735|ref|ZP_07465871.1| tRNA pseudouridine synthase A [Streptococcus bovis ATCC 700338]
 gi|325977479|ref|YP_004287195.1| tRNA pseudouridine synthase A [Streptococcus gallolyticus subsp.
           gallolyticus ATCC BAA-2069]
 gi|336063600|ref|YP_004558459.1| tRNA pseudouridine synthase A [Streptococcus pasteurianus ATCC
           43144]
 gi|386337006|ref|YP_006033175.1| tRNA pseudouridine synthase A [Streptococcus gallolyticus subsp.
           gallolyticus ATCC 43143]
 gi|288731190|emb|CBI12738.1| tRNA pseudouridylate synthase I [Streptococcus gallolyticus UCN34]
 gi|304425084|gb|EFM28214.1| tRNA pseudouridine synthase A [Streptococcus bovis ATCC 700338]
 gi|304427346|gb|EFM30449.1| tRNA pseudouridine synthase A [Streptococcus gallolyticus subsp.
           gallolyticus TX20005]
 gi|325177407|emb|CBZ47451.1| tRNA pseudouridine synthase A [Streptococcus gallolyticus subsp.
           gallolyticus ATCC BAA-2069]
 gi|334279642|dbj|BAK27216.1| tRNA pseudouridine synthase A [Streptococcus gallolyticus subsp.
           gallolyticus ATCC 43143]
 gi|334281800|dbj|BAK29373.1| tRNA pseudouridine synthase A [Streptococcus pasteurianus ATCC
           43144]
          Length = 249

 Score =  128 bits (322), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 76/206 (36%), Positives = 111/206 (53%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDG  +AG+Q Q S  ++Q  +EK L ++       +++ GA RTD+GVHA+G
Sbjct: 3   RYKATISYDGRLFAGFQRQPSERSVQEELEKTLQKLN--SGNPVKVHGAGRTDSGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P + D +E +   L+   P DI V ++     EFHAR++  SK Y + +    
Sbjct: 61  QVVHFDLPQARD-VEKLRFGLDTQSPEDIDVVKVEQVSDEFHARYNKHSKTYEFLVDAGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +P   HYA H  Y L+ T M+EA +  VG HDF+ F          N V++I R  V 
Sbjct: 120 PKNPMMRHYATHYPYPLDLTSMQEAIKDLVGTHDFTGFT--ASGTSVENKVRTITRATVA 177

Query: 206 --EMGALLQLEVEGSGFLYRQVRNMV 229
             +          G+GFLY+QVRNMV
Sbjct: 178 IDDKTGFFVFTFSGNGFLYKQVRNMV 203


>gi|385262986|ref|ZP_10041083.1| tRNA pseudouridine(38-40) synthase [Streptococcus sp. SK643]
 gi|385188961|gb|EIF36431.1| tRNA pseudouridine(38-40) synthase [Streptococcus sp. SK643]
          Length = 249

 Score =  128 bits (322), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 75/206 (36%), Positives = 108/206 (52%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDG  +AG+Q Q    ++Q  +EK L R+ K   + + + GA RTD+GVHA G
Sbjct: 3   RYKATISYDGYAFAGFQRQPHARSVQEEIEKTLTRLNK--GKAITVHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D  E +  AL+   P DI V  I     +FH R++  SK Y + +    
Sbjct: 61  QVIHFDLPYQMDE-EKLRFALDTQSPEDIDVISIEIVADDFHCRYAKHSKTYEFIVDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRN--DRALNPVKSIFRFD 203
             +P + HYA H  Y L+   M+ A +   G HDF+ F     N  D+     ++  R D
Sbjct: 120 PKNPMRRHYATHFPYPLDVERMQMAIKMLEGTHDFTGFTASGTNVEDKVRTITEASLRVD 179

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
             E G  L     G+GFLY+Q+RNMV
Sbjct: 180 --ETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|417850250|ref|ZP_12496161.1| tRNA pseudouridine synthase A [Streptococcus mitis SK1080]
 gi|339452932|gb|EGP65550.1| tRNA pseudouridine synthase A [Streptococcus mitis SK1080]
          Length = 249

 Score =  128 bits (322), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 107/206 (51%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDG  +AG+Q Q    ++Q  +EK L R+ K   + + + GA RTD+GVHA G
Sbjct: 3   RYKATISYDGYAFAGFQRQPHARSVQEEIEKTLTRLNK--GKAITVHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D  E +   L+   P DI V  I     +FH R++  SK Y + +    
Sbjct: 61  QVIHFDLPYQMDE-EKLRFVLDTQSPEDIDVISIELVADDFHCRYAKHSKTYEFIVDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFV--NIQRNDRALNPVKSIFRFD 203
             +P + HYA H  Y L+   M+EA +   G HDF+ F        D+     ++  R D
Sbjct: 120 PKNPMRRHYATHFPYPLDVERMQEAVKKLEGTHDFTGFTASGTSVEDKVRTITEASLRVD 179

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
             E G  L     G+GFLY+Q+RNMV
Sbjct: 180 --ETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|312793879|ref|YP_004026802.1| tRNA pseudouridine synthase a [Caldicellulosiruptor kristjanssonii
           177R1B]
 gi|312181019|gb|ADQ41189.1| tRNA pseudouridine synthase A [Caldicellulosiruptor kristjanssonii
           177R1B]
          Length = 244

 Score =  128 bits (322), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 73/198 (36%), Positives = 108/198 (54%), Gaps = 6/198 (3%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L I YDGT Y GWQ Q +  TIQ  +E+A   + KL  E++ L+G+ RTD GVHA  Q A
Sbjct: 6   LTIEYDGTGYFGWQKQPNKKTIQGTIEEA---IKKLTGEEVNLIGSGRTDRGVHALNQKA 62

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +F T  S    +    ALN +LP DI +++      +F AR+SAK K Y Y IYN     
Sbjct: 63  NFKTN-SKIPTDKFPLALNSVLPGDISIKDAVEVPLDFSARYSAKQKTYKYLIYNKKSRP 121

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
               +YAYH  Y+L+   M+ A EYF+G++DF +F +   +  A   ++ ++   +    
Sbjct: 122 ALLRNYAYHYPYELDVDAMQRACEYFIGEYDFKSFCSA--DSEAKTTIRRVYNAYLTFEN 179

Query: 209 ALLQLEVEGSGFLYRQVR 226
             + + +  +GFLY   R
Sbjct: 180 ECIAIYITANGFLYNMAR 197


>gi|118581782|ref|YP_903032.1| tRNA pseudouridine synthase A [Pelobacter propionicus DSM 2379]
 gi|166228745|sp|A1AUF4.1|TRUA_PELPD RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|118504492|gb|ABL00975.1| tRNA pseudouridine synthase A [Pelobacter propionicus DSM 2379]
          Length = 244

 Score =  128 bits (322), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 78/201 (38%), Positives = 108/201 (53%), Gaps = 6/201 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L I YDGT YAGWQ Q +   +Q ++E+AL+R+     E +RL  + RTD GVHA   V
Sbjct: 5   KLTIEYDGTNYAGWQVQPNGLAVQQVLEEALLRLLG---ERVRLRSSGRTDAGVHARAMV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A F T  S   L++     N  LP DI +   + A PEF     A+SK Y Y IYN  V 
Sbjct: 62  ASFTTSRSLP-LQAFVGGANRFLPDDIAILSAAEAAPEFRPIQDARSKWYRYTIYNAPVR 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
            P +  +++H    L+T  M+ AA +F G+HDF+AF     N  A   ++ I    +   
Sbjct: 121 SPLRRLFSWHVREPLDTDAMQLAAHHFPGRHDFAAFR--ASNCAAKTTLRRIDSVTIASE 178

Query: 208 GALLQLEVEGSGFLYRQVRNM 228
           G L+ ++V G GFL   VR M
Sbjct: 179 GELIVIDVIGEGFLKNMVRVM 199


>gi|359442138|ref|ZP_09232015.1| tRNA pseudouridine38-40 synthase [Pseudoalteromonas sp. BSi20429]
 gi|392534107|ref|ZP_10281244.1| tRNA pseudouridine synthase A [Pseudoalteromonas arctica A 37-1-2]
 gi|358036016|dbj|GAA68264.1| tRNA pseudouridine38-40 synthase [Pseudoalteromonas sp. BSi20429]
          Length = 265

 Score =  128 bits (321), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 72/200 (36%), Positives = 111/200 (55%), Gaps = 6/200 (3%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L + Y+G RY+GWQ Q+   ++Q  VEKAL R+       + ++ A RTD GVH  GQV 
Sbjct: 5   LGVEYNGARYSGWQRQSHVNSVQQEVEKALSRICN---HPVEVICAGRTDAGVHGTGQVI 61

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           HF T    D + +    +N L+P DI +R       +FHARFSA ++ Y Y IYN  +  
Sbjct: 62  HFETQADRD-MVAFTLGMNTLMPKDIAIRFAQPVADDFHARFSATARRYRYVIYNSPLRG 120

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
              +    H  + L+ T M+EA +Y +GKHDF++F  I  + +A  P ++I    V   G
Sbjct: 121 AVLNEGVTHFHHHLDETKMQEACQYLIGKHDFTSFRAI--HCQANTPTRTIHHLSVQRQG 178

Query: 209 ALLQLEVEGSGFLYRQVRNM 228
             + ++++ + FL+  VRN+
Sbjct: 179 TYVIIDIKANAFLHHMVRNI 198


>gi|422420178|ref|ZP_16497133.1| tRNA pseudouridine synthase A [Listeria seeligeri FSL N1-067]
 gi|313631806|gb|EFR98984.1| tRNA pseudouridine synthase A [Listeria seeligeri FSL N1-067]
          Length = 248

 Score =  128 bits (321), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 74/202 (36%), Positives = 114/202 (56%), Gaps = 6/202 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDG+ + G+Q Q +  T+Q  +EKAL ++ K   + +R+  + RTDTGVHA G
Sbjct: 3   RYKAIISYDGSGFYGYQVQPNTRTVQAEIEKALKKMHK--GKSVRVTASGRTDTGVHAKG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF +       E    AL  + P DI    +  A+ +FHARF    K Y Y +    
Sbjct: 61  QVIHFDSELDISA-EKFQKALQVMTPFDISFLIVEEALADFHARFGTVGKEYRYVVKRTK 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           V DPF  ++A H  Y+LN   M+ A+E  VG+HDF++F +  R +R  + V++++  D  
Sbjct: 120 VFDPFSRNFALHYPYELNLEKMKLASERLVGEHDFTSFCS-ARTERD-SKVRTLYSIDFY 177

Query: 206 EM-GALLQLEVEGSGFLYRQVR 226
           E     L +  +G+GFLY  VR
Sbjct: 178 EEDDDTLVIAFQGNGFLYNMVR 199


>gi|384462255|ref|YP_005674850.1| tRNA pseudouridine synthase A [Clostridium botulinum F str. 230613]
 gi|295319272|gb|ADF99649.1| tRNA pseudouridine synthase A [Clostridium botulinum F str. 230613]
          Length = 246

 Score =  128 bits (321), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 75/200 (37%), Positives = 109/200 (54%), Gaps = 7/200 (3%)

Query: 28  RLVIGYDGTRYAGWQFQT-SPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           +L I YDG++Y GWQ Q  +  TIQ  +E  L  +T    ED+ L+ + RTDTGVHA  Q
Sbjct: 5   KLYIQYDGSKYNGWQKQKENDNTIQGKIENVLSLMTG---EDINLIASGRTDTGVHANMQ 61

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           VA+F T F     + I +     LP DI V +       FH+R + K K Y YKI N   
Sbjct: 62  VANFHTTFQ-GSTDEILSYCYEYLPKDIVVYDAFHVDERFHSRLNVKKKKYTYKICNKKF 120

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
            D F   Y+YH    L+   M+EA  Y VG+HDF++F   +   ++   V++++  D+I+
Sbjct: 121 HDVFSRKYSYHVPETLDIEAMKEACTYLVGRHDFASFTAARSKKKS--TVRTLYSIDIIK 178

Query: 207 MGALLQLEVEGSGFLYRQVR 226
               + L   GSGFL++ +R
Sbjct: 179 KDGYVNLVYLGSGFLHKMIR 198


>gi|341820653|emb|CCC56946.1| tRNA pseudouridine synthase A [Weissella thailandensis fsh4-2]
          Length = 249

 Score =  128 bits (321), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 72/208 (34%), Positives = 116/208 (55%), Gaps = 9/208 (4%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDGT + GWQ Q +  T+Q  +E  + ++ K   E +R+ G+ RTD  VHA G
Sbjct: 3   RYKATIAYDGTDFFGWQVQPNKRTVQAEMELVVNKMAKNPAEHIRVQGSGRTDARVHAKG 62

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVAHF  PF     +++   L+ +LP DI ++++     +FHA+F+A  K Y Y+     
Sbjct: 63  QVAHFDLPFDIPA-DAVRKGLSTMLPYDIGIKKVEKVSDDFHAQFNAHDKTYFYRFSTSE 121

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFV----NIQRNDRALNPVKSIFR 201
            +DPF+ +Y  H   +LN  LM++A   +VG+HD+ +FV      +   R +   K  ++
Sbjct: 122 YIDPFKRNYTGHWHRRLNPELMQQAIGDYVGEHDWLSFVASGYQQKTTVRTVYSAKMWYK 181

Query: 202 FDVIEMGALLQLEVEGSGFLYRQVRNMV 229
            +  E    +  E  G+GFLY Q+R MV
Sbjct: 182 PEEEE----IWFEFSGNGFLYNQIRIMV 205


>gi|153939803|ref|YP_001391236.1| tRNA pseudouridine synthase A [Clostridium botulinum F str.
           Langeland]
 gi|152935699|gb|ABS41197.1| tRNA pseudouridine synthase A [Clostridium botulinum F str.
           Langeland]
          Length = 246

 Score =  128 bits (321), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 75/200 (37%), Positives = 109/200 (54%), Gaps = 7/200 (3%)

Query: 28  RLVIGYDGTRYAGWQFQT-SPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           +L I YDG++Y GWQ Q  +  TIQ  +E  L  +T    ED+ L+ + RTDTGVHA  Q
Sbjct: 5   KLYIQYDGSKYNGWQKQKENDNTIQGKIENVLSLMTG---EDINLIASGRTDTGVHANMQ 61

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           VA+F T F     + I +     LP DI V +       FH+R + K K Y YKI N   
Sbjct: 62  VANFHTTFQ-GSTDEILSYCYEYLPKDIVVYDAFHVDERFHSRLNVKKKKYTYKICNKKF 120

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
            D F   Y+YH    L+   M+EA  Y VG+HDF++F   +   ++   V++++  D+I+
Sbjct: 121 HDVFSRKYSYHVPETLDIEAMKEACTYLVGRHDFASFTAARSKKKS--TVRTLYSIDIIK 178

Query: 207 MGALLQLEVEGSGFLYRQVR 226
               + L   GSGFL++ +R
Sbjct: 179 KDGYVNLVYLGSGFLHKMIR 198


>gi|429766946|ref|ZP_19299177.1| tRNA pseudouridine synthase A, partial [Clostridium celatum DSM
           1785]
 gi|429182374|gb|EKY23480.1| tRNA pseudouridine synthase A, partial [Clostridium celatum DSM
           1785]
          Length = 262

 Score =  128 bits (321), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 74/203 (36%), Positives = 110/203 (54%), Gaps = 9/203 (4%)

Query: 28  RLVIGYDGTRYAGWQFQT----SPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHA 83
           R+ I YDG+RY GWQ Q     S  TIQ  +E  L   +K+  E+++++G  RTDTGVHA
Sbjct: 18  RMTIQYDGSRYKGWQKQNIKGQSVSTIQGKIENVL---SKMTGEEIQVIGCGRTDTGVHA 74

Query: 84  WGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYN 143
               A+F T  S   L  +   LN  LP DI V  +  A   FH+R +  SK Y Y I N
Sbjct: 75  DKYTANFKTN-SNKTLSDMSKYLNEFLPDDIVVTSLREASDRFHSRLNVISKTYVYTIDN 133

Query: 144 DAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFD 203
           +   + F   YAYH   KL+   M+EA++  +G HDF +F  ++      + +++I   +
Sbjct: 134 NKFANVFLKKYAYHVEGKLDIEKMKEASKLLIGTHDFRSFSGVKAKHNK-STIRTINYIN 192

Query: 204 VIEMGALLQLEVEGSGFLYRQVR 226
           + E   ++++E  G+GFL   VR
Sbjct: 193 IYEDNNIIKIEYNGNGFLLNMVR 215


>gi|416174850|ref|ZP_11609329.1| tRNA pseudouridine synthase A [Neisseria meningitidis OX99.30304]
 gi|325129355|gb|EGC52190.1| tRNA pseudouridine synthase A [Neisseria meningitidis OX99.30304]
          Length = 265

 Score =  128 bits (321), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 75/206 (36%), Positives = 113/206 (54%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSP-PTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
           +W + + YDG+R+ GWQ Q    PT+Q  +E AL ++     E +  + A RTDTGVHA 
Sbjct: 8   RWAITLSYDGSRFYGWQKQADGVPTVQAALENALAQIAG---EAVSTIVAGRTDTGVHAT 64

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
            QV HF T  +      +   +N  LP  I V       PEFHARF A  + Y Y + + 
Sbjct: 65  AQVVHFDTTAARPQQAWVRG-VNAHLPEGIAVLHARQVAPEFHARFDAYGRHYRYLLESV 123

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
            V  P   + A  +  KL+   MR AA Y +G+ DFS+F   +   +A +PVK+I+R D+
Sbjct: 124 PVRSPLLKNRAGWTHLKLDIEPMRRAAAYLIGEQDFSSFRAAE--CQAKSPVKTIYRADL 181

Query: 205 IEMGALLQLEVEGSGFLYRQVRNMVN 230
            +   L++L++ G+ FL+  VRN++ 
Sbjct: 182 TQSSGLVRLDLHGNAFLHHMVRNIMG 207


>gi|336323996|ref|YP_004603963.1| tRNA pseudouridine synthase A [Flexistipes sinusarabici DSM 4947]
 gi|336107577|gb|AEI15395.1| tRNA pseudouridine synthase A [Flexistipes sinusarabici DSM 4947]
          Length = 244

 Score =  128 bits (321), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 73/210 (34%), Positives = 115/210 (54%), Gaps = 16/210 (7%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
           +  +  + YDGT +AGWQ Q +  T+Q  +EKA   ++K+ +  +++ G+ RTD+GVHA 
Sbjct: 2   YNIKCTVEYDGTCFAGWQIQKNARTVQREIEKA---ISKMYKTHIKITGSGRTDSGVHAL 58

Query: 85  GQVAHFITPFSYDGLE-----SIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHY 139
            QV      F+Y  +      SI A LN L+  DI ++    A  +FHAR SA SK Y Y
Sbjct: 59  NQV------FNYHAMAFIPEASITAGLNSLISDDIVIKNTEYASADFHARKSAISKTYEY 112

Query: 140 KIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSI 199
            I N A    F  ++ +H    +    + +  E F G HDFS+F   ++     NPV++I
Sbjct: 113 IILNTAKPSAFYRNHCWHINDYIYPDALTKILELFEGTHDFSSFC--KKRSMVDNPVRTI 170

Query: 200 FRFDVIEMGALLQLEVEGSGFLYRQVRNMV 229
              ++ ++G  L++E+   GFL+  VRN+V
Sbjct: 171 NSTNIRQIGDFLKIEINADGFLHNMVRNIV 200


>gi|385852118|ref|YP_005898633.1| tRNA pseudouridine synthase A [Neisseria meningitidis M04-240196]
 gi|421567873|ref|ZP_16013604.1| tRNA pseudouridine synthase A [Neisseria meningitidis NM3001]
 gi|325206941|gb|ADZ02394.1| tRNA pseudouridine synthase A [Neisseria meningitidis M04-240196]
 gi|402342818|gb|EJU77974.1| tRNA pseudouridine synthase A [Neisseria meningitidis NM3001]
          Length = 265

 Score =  128 bits (321), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 76/212 (35%), Positives = 115/212 (54%), Gaps = 7/212 (3%)

Query: 20  DSFPGFKWRLVIGYDGTRYAGWQFQTSP-PTIQCIVEKALIRVTKLEREDLRLVGASRTD 78
           D+    +W + + YDG+R+ GWQ Q    PT+Q  +E AL ++     E +  + A RTD
Sbjct: 2   DTAQKQRWAITLSYDGSRFYGWQKQADGVPTVQAALETALAQIAG---EAVSTIVAGRTD 58

Query: 79  TGVHAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYH 138
           TGVHA  QV HF T  +      +   +N  LP  I V       PEFHARF A  + Y 
Sbjct: 59  TGVHATAQVVHFDTAAARPQQAWVRG-VNAHLPEGIAVLHARQVAPEFHARFDAYGRHYR 117

Query: 139 YKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKS 198
           Y + +  V  P   + A  +  KL+   MR AA Y +G+ DFS+F   +   +A +PVK+
Sbjct: 118 YLLESVPVRSPLLKNRAGWTHLKLDIEPMRRAAAYLIGEQDFSSFRAAE--CQAKSPVKT 175

Query: 199 IFRFDVIEMGALLQLEVEGSGFLYRQVRNMVN 230
           I+R D+ +   L++L++ G+ FL+  VRN++ 
Sbjct: 176 IYRADLTQSSGLVRLDLHGNAFLHHMVRNIMG 207


>gi|339319759|ref|YP_004679454.1| tRNA pseudouridine synthase A [Candidatus Midichloria mitochondrii
           IricVA]
 gi|338225884|gb|AEI88768.1| tRNA pseudouridine synthase A [Candidatus Midichloria mitochondrii
           IricVA]
          Length = 246

 Score =  128 bits (321), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 74/205 (36%), Positives = 116/205 (56%), Gaps = 7/205 (3%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
           F++++ + YDG+++ GWQ Q +  +IQ  +E +   + K   +++ + GA RTD GVHA+
Sbjct: 2   FRYKITVEYDGSKFCGWQRQKNCISIQESIENS---IAKFAHKEVTVFGAGRTDAGVHAF 58

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
            QVAHF     Y  L  I +A+N  + PDI V  I A   +FHARFSAK K Y Y++ N 
Sbjct: 59  EQVAHFDLEQDYQ-LHKIKSAINHFVKPDIAVLNIEAVSTDFHARFSAKKKRYIYRLVNR 117

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
                  H  A+    K++   +R+ A    G+HDF++F     + +A N VK+I + ++
Sbjct: 118 DSHLAIMHTKAWLVKEKMDVDSIRKGALILTGEHDFASFR--ASSCQAKNSVKTIDKIEI 175

Query: 205 IEM-GALLQLEVEGSGFLYRQVRNM 228
           I+  G ++    EG  FL+ QVR M
Sbjct: 176 IKREGEVIDFIFEGKSFLHNQVRIM 200


>gi|125623329|ref|YP_001031812.1| tRNA pseudouridine synthase A [Lactococcus lactis subsp. cremoris
           MG1363]
 gi|389853654|ref|YP_006355898.1| tRNA pseudouridine synthase A [Lactococcus lactis subsp. cremoris
           NZ9000]
 gi|166228735|sp|A2RIH1.1|TRUA_LACLM RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|124492137|emb|CAL97066.1| tRNA pseudouridine synthase A [Lactococcus lactis subsp. cremoris
           MG1363]
 gi|300070076|gb|ADJ59476.1| tRNA pseudouridine synthase A [Lactococcus lactis subsp. cremoris
           NZ9000]
          Length = 253

 Score =  128 bits (321), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 72/205 (35%), Positives = 111/205 (54%), Gaps = 5/205 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDGT +AG+Q QT+  T+Q  +EK L ++   E   + L G+ RTD+GVHA+G
Sbjct: 3   RYKATIAYDGTDFAGFQSQTNQRTVQEEIEKVLSKLNSFE--PVILQGSGRTDSGVHAFG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF        LE +   L+   P DI V+++     ++HAR+    K Y Y + N  
Sbjct: 61  QVIHFDLNGKARDLERLRFGLDTQTPADIAVKKVELVPDDWHARYQKHEKTYEYYLENSV 120

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
              PF  H   +  Y LN   M+ A    VG+HDF+ F          + V++I++ ++I
Sbjct: 121 TRSPFHRHSKAYFRYPLNFERMQGAMVKLVGQHDFTGFT--ASGSSVDDKVRTIYQAEII 178

Query: 206 EMGAL-LQLEVEGSGFLYRQVRNMV 229
           ++     +    G+GFLY+QVRNMV
Sbjct: 179 QLDKENFKFIFRGNGFLYKQVRNMV 203


>gi|347549899|ref|YP_004856227.1| putative pseudouridylate synthase I [Listeria ivanovii subsp.
           ivanovii PAM 55]
 gi|346982970|emb|CBW87007.1| Putative pseudouridylate synthase I [Listeria ivanovii subsp.
           ivanovii PAM 55]
          Length = 248

 Score =  128 bits (321), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 74/202 (36%), Positives = 114/202 (56%), Gaps = 6/202 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ VI YDG+ + G+Q Q +  T+Q  +EKAL ++ K   + +R+  + RTDTGVHA G
Sbjct: 3   RYKAVISYDGSGFYGYQVQPNTRTVQAEIEKALKKMHK--GKSVRVTASGRTDTGVHAKG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF +  +    E    AL  + P DI    +  A  +FHARF    K Y Y +    
Sbjct: 61  QVIHFDSELAVSA-EKFQKALQVMTPFDISFITVEEAPADFHARFGTVGKEYRYVVKRTK 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           V DPF  ++A H  Y+LN   M+ A+E  +G+HDF++F +  R +R  + V++++  D  
Sbjct: 120 VFDPFSRNFALHYPYELNVEQMKIASERLIGEHDFTSFCS-ARTERD-SKVRTLYSIDFY 177

Query: 206 EM-GALLQLEVEGSGFLYRQVR 226
           E     L +  +G+GFLY  VR
Sbjct: 178 EEDNETLVICFQGNGFLYNMVR 199


>gi|339491268|ref|YP_004705773.1| tRNA pseudouridine synthase A [Leuconostoc sp. C2]
 gi|338852940|gb|AEJ31150.1| tRNA pseudouridine synthase A [Leuconostoc sp. C2]
          Length = 256

 Score =  128 bits (321), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 69/209 (33%), Positives = 111/209 (53%), Gaps = 6/209 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTS-----PPTIQCIVEKALIRVTKLEREDLRLVGASRTDTG 80
           +++ ++ YDG+ + G+Q QT        T+Q  + KA+ ++ K   E +++VGASRTDTG
Sbjct: 3   RYKAIVSYDGSGFFGFQVQTKNGIERQRTVQGELTKAVNQMAKKPTEPIKVVGASRTDTG 62

Query: 81  VHAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYK 140
           VHA+GQV HF  PF  +    +   LN LLP D+ ++++    P+FHARF+  +K Y Y+
Sbjct: 63  VHAFGQVVHFDLPFDINE-NGVRKGLNTLLPRDMLIKQVDKVTPDFHARFNTHAKRYIYR 121

Query: 141 IYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIF 200
           +      DPF+  Y  H  + L+   ++ A    +G+HDF++F              +  
Sbjct: 122 VSTQDFTDPFKRQYTGHFQWHLDIERIKSALPDLLGEHDFASFAASGNQTATTIRTITRA 181

Query: 201 RFDVIEMGALLQLEVEGSGFLYRQVRNMV 229
              +      L    EG+ FLY Q+R MV
Sbjct: 182 DVTIKPDDQELVFTFEGNAFLYNQIRIMV 210


>gi|299820989|ref|ZP_07052878.1| tRNA-pseudouridine synthase I [Listeria grayi DSM 20601]
 gi|299818010|gb|EFI85245.1| tRNA-pseudouridine synthase I [Listeria grayi DSM 20601]
          Length = 247

 Score =  128 bits (321), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 67/201 (33%), Positives = 113/201 (56%), Gaps = 5/201 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++++++ YDG+ ++G+Q Q    T+Q  +E+AL+++ K   E +R+  + RTDTGVHA G
Sbjct: 3   RYKVILAYDGSGFSGYQVQPHKRTVQSELEEALLKMHK--GEFVRVTASGRTDTGVHAAG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF +P      E    AL  + P DI +  +     +FHAR+    K Y Y I N  
Sbjct: 61  QVIHFDSPLQIPN-EKFQRALQRMTPFDIGIHSVEQVPDDFHARYGTVGKEYRYVIKNST 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             DPF  ++A H  Y L+   M+EA++  +G+HDF++F + +    +   V++I+  + +
Sbjct: 120 DYDPFSRNFALHYPYPLSIEKMQEASQILIGEHDFTSFCSARTEQDS--KVRTIYSIEFL 177

Query: 206 EMGALLQLEVEGSGFLYRQVR 226
           +    + +   G GFLY  VR
Sbjct: 178 KEKETITICYRGDGFLYNMVR 198


>gi|404330482|ref|ZP_10970930.1| tRNA pseudouridine synthase A [Sporolactobacillus vineae DSM 21990
           = SL153]
          Length = 246

 Score =  128 bits (321), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 73/202 (36%), Positives = 110/202 (54%), Gaps = 6/202 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           K +  + YDG+ + G+Q Q    T+Q  +E AL R+   E+  +R+  + RTD+GVHA+G
Sbjct: 3   KLKCTVAYDGSHFFGYQVQPGRRTVQREIESALERIHHGEK--VRITASGRTDSGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF +P +    ++   ALN +LP DI +R+       FHAR+  K K YHY++   +
Sbjct: 61  QVFHFESPLAIPE-KNWPKALNSILPDDIYIRDAEIVPAHFHARYDVKRKEYHYRLLTRS 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             D F+  Y  H    L+   M EAA    G HDFS F     N    + ++++++ DV+
Sbjct: 120 EPDLFRRLYTLHVTVPLDLQKMNEAAARITGTHDFSCFCAA--NTEVKSKIRTVYQLDVV 177

Query: 206 EMGALLQL-EVEGSGFLYRQVR 226
              A   L  + GSGFLY+ VR
Sbjct: 178 PRPADETLIRISGSGFLYQMVR 199


>gi|307705317|ref|ZP_07642179.1| tRNA pseudouridine synthase A [Streptococcus mitis SK597]
 gi|307621104|gb|EFO00179.1| tRNA pseudouridine synthase A [Streptococcus mitis SK597]
          Length = 249

 Score =  128 bits (321), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 75/206 (36%), Positives = 108/206 (52%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDG  +AG+Q Q    ++Q  +EK L R+ K   + + + GA RTD+GVHA G
Sbjct: 3   RYKATISYDGYAFAGFQRQPHARSVQEEIEKTLTRLNK--GQAITVHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D  E +  AL+   P DI V  I     +FH R++  SK Y + +    
Sbjct: 61  QVIHFDLPYQMDE-EKLRFALDTQSPEDIDVISIELVADDFHCRYAKHSKTYEFIVDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRN--DRALNPVKSIFRFD 203
             +P + HYA H  Y L+   M+ A +   G HDF+ F     N  D+     ++  R D
Sbjct: 120 PKNPMRRHYATHFPYPLDVERMQMAIKKLEGTHDFTGFTASGTNVEDKIRTITEASLRVD 179

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
             E G  L     G+GFLY+Q+RNMV
Sbjct: 180 --ETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|450143500|ref|ZP_21873480.1| tRNA pseudouridine synthase A [Streptococcus mutans 1ID3]
 gi|449152121|gb|EMB55836.1| tRNA pseudouridine synthase A [Streptococcus mutans 1ID3]
          Length = 249

 Score =  127 bits (320), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 111/206 (53%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDGT ++G+Q Q    T+Q  +EK L+R+     + +++ GA RTD GVHA+G
Sbjct: 3   RYKAIISYDGTNFSGFQRQPQMRTVQEEIEKTLLRLN--SGQAVKIYGAGRTDAGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P   D LE +   L+   P DI V ++     +FHAR+    K Y + +    
Sbjct: 61  QVIHFDLPQQRD-LEKLRFGLDTQTPDDIDVIQVEQVADDFHARYHKHRKTYEFLVDLGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV- 204
             +P   HYA H  YK++ ++++ A +   G HDF+ F          N V++I R  V 
Sbjct: 120 PKNPLMRHYATHFPYKVDFSVVKAAIKKLRGTHDFTGFT--ASGTSVENKVRTISRATVE 177

Query: 205 -IEMGALLQLEVEGSGFLYRQVRNMV 229
             +    L     GSGFLY+QVRNMV
Sbjct: 178 KDDKTGFLIFTFTGSGFLYKQVRNMV 203


>gi|153853827|ref|ZP_01995183.1| hypothetical protein DORLON_01174 [Dorea longicatena DSM 13814]
 gi|149753577|gb|EDM63508.1| tRNA pseudouridine synthase A [Dorea longicatena DSM 13814]
          Length = 244

 Score =  127 bits (320), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 77/201 (38%), Positives = 110/201 (54%), Gaps = 8/201 (3%)

Query: 27  WRLVIGYDGTRYAGWQFQ-TSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG+RY GWQ Q T+  TIQ I+E +   + KL    + + G+ RTD GVHA G
Sbjct: 4   YKLTISYDGSRYQGWQRQATTDNTIQYILEWS---IGKLVGYRVHIDGSGRTDAGVHARG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA       YD  E +  +LN  LP DIR+ ++  A   FHAR SAK K Y Y I    
Sbjct: 61  QVASVKLSKLYDTKE-LKDSLNRYLPEDIRIVKVELAKNGFHARKSAKGKKYEYYIDCRE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             D F   Y YH   KL+   MR+A +Y +G  +F++F +   +    +P++ I    ++
Sbjct: 120 KPDVFSRRYCYHYPEKLDIEAMRDATKYLIGPKNFTSFTD---DKECKDPIRKITNIKIV 176

Query: 206 EMGALLQLEVEGSGFLYRQVR 226
             G  +++   G+GFLY  VR
Sbjct: 177 SSGEKVRITYYGTGFLYHMVR 197


>gi|417937508|ref|ZP_12580808.1| tRNA pseudouridine synthase A [Streptococcus infantis SK970]
 gi|343391772|gb|EGV04345.1| tRNA pseudouridine synthase A [Streptococcus infantis SK970]
          Length = 249

 Score =  127 bits (320), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 73/206 (35%), Positives = 109/206 (52%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDG  +AG+Q Q    ++Q  +EK L ++ K   + + + GA RTD+GVHA G
Sbjct: 3   RYKAIISYDGYAFAGFQRQPHARSVQEEIEKTLTKLNK--GQAITIHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D  E +  AL+   P DI V  I     +FH R++  SK Y + +    
Sbjct: 61  QVVHFDLPYQMDE-EKLRFALDTQSPEDIDVISIEIVADDFHCRYAKHSKTYEFIVDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFV--NIQRNDRALNPVKSIFRFD 203
             +P + HYA H  Y L+   M+ A +   G HDF+ F        D+    +++  R D
Sbjct: 120 PKNPMRRHYATHYPYPLDVKRMQLALKKLEGTHDFTGFTASGTSVEDKVRTIMEASLRVD 179

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
             E G  L     G+GFLY+Q+RNMV
Sbjct: 180 --ETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|385329283|ref|YP_005883586.1| tRNA pseudouridine synthase [Neisseria meningitidis alpha710]
 gi|385856045|ref|YP_005902558.1| tRNA pseudouridine synthase A [Neisseria meningitidis M01-240355]
 gi|308390134|gb|ADO32454.1| tRNA pseudouridine synthase [Neisseria meningitidis alpha710]
 gi|325204986|gb|ADZ00440.1| tRNA pseudouridine synthase A [Neisseria meningitidis M01-240355]
          Length = 265

 Score =  127 bits (320), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 75/206 (36%), Positives = 113/206 (54%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSP-PTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
           +W + + YDG+R+ GWQ Q    PT+Q  +E AL ++     E +    A RTDTGVHA 
Sbjct: 8   RWAITLSYDGSRFYGWQKQADGVPTVQAALENALAQIAG---ESVATTVAGRTDTGVHAT 64

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
            QV HF T  +    ++    +N  LP  I V       PEFHARF A  + Y Y + + 
Sbjct: 65  AQVVHFDT-VAVRPQQAWVRGVNAHLPEGIAVLHAQQVAPEFHARFDAYGRHYRYLLESA 123

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
            V  P   + A  +  KL+   MR AA Y +G+ DFS+F   +   +A +PVK+I+R D+
Sbjct: 124 PVRSPLLKNRAGWTHLKLDIGPMRRAAAYLIGEQDFSSFRAAE--CQAKSPVKTIYRADL 181

Query: 205 IEMGALLQLEVEGSGFLYRQVRNMVN 230
            +   L++L++ G+ FL+  VRN++ 
Sbjct: 182 TQSAGLVRLDLHGNAFLHHMVRNIMG 207


>gi|254369374|ref|ZP_04985386.1| hypothetical protein FTAG_00346 [Francisella tularensis subsp.
           holarctica FSC022]
 gi|157122324|gb|EDO66464.1| hypothetical protein FTAG_00346 [Francisella tularensis subsp.
           holarctica FSC022]
          Length = 258

 Score =  127 bits (320), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 71/204 (34%), Positives = 117/204 (57%), Gaps = 12/204 (5%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L I Y G  Y GWQ Q+  P++Q  +EKAL   +K+  +++ +  A RTDTGVHA  Q+ 
Sbjct: 6   LQIEYFGKNYCGWQRQSHSPSVQEELEKAL---SKIANQNIEVTCAGRTDTGVHATSQIV 62

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +F +  +Y  L +    +N LLP DI++  +      F++RF+A ++ Y+Y IYN A   
Sbjct: 63  NFYSN-AYRPLSAWQRGVNALLPQDIKILAVQQVDNNFNSRFTAINRTYNYIIYNSATSS 121

Query: 149 PFQHHYAYHSVYK---LNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           P    +A H +++   L+   M +A EY +G+ DFS+F + Q       P ++I + + I
Sbjct: 122 PI---FAEHCLWENRELDIDKMNQACEYLLGEQDFSSFRSSQCQSNT--PFRNIQKAEFI 176

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           + G+ +  EV G+ FL+  +RN+V
Sbjct: 177 KQGSFIVFEVVGNAFLHHMIRNLV 200


>gi|118443953|ref|YP_878363.1| tRNA pseudouridine synthase A [Clostridium novyi NT]
 gi|118134409|gb|ABK61453.1| tRNA pseudouridine synthase A [Clostridium novyi NT]
          Length = 245

 Score =  127 bits (320), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 75/203 (36%), Positives = 115/203 (56%), Gaps = 7/203 (3%)

Query: 28  RLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           +L I YDGTRY GWQ    +  TIQ  +E  L    +L +E++ L+ + RTD GVHA  Q
Sbjct: 5   KLTIQYDGTRYKGWQKLGNNDNTIQHKIESVL---GELLKEEVALIASGRTDAGVHANMQ 61

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           VA+F T  S    + I   L   LP DI V+ ++ A   FH+R++ K K+Y Y+I+N  V
Sbjct: 62  VANFKTD-SRISNDEISKYLYKYLPQDIVVKSVNEASENFHSRYNVKEKVYTYRIHNSEV 120

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
            D F   Y+YH   KL+   M+EA++ F+G+HDF +F  ++   ++     +   F   E
Sbjct: 121 HDVFTRKYSYHVREKLDLKKMKEASKLFIGEHDFKSFTALKSKKKSTVKTINSITFRKKE 180

Query: 207 MGALLQLEVEGSGFLYRQVRNMV 229
               +++   G+GFLY+ +R +V
Sbjct: 181 DD--IEIVFSGNGFLYKMIRILV 201


>gi|291557656|emb|CBL34773.1| pseudouridylate synthase I [Eubacterium siraeum V10Sc8a]
          Length = 243

 Score =  127 bits (320), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 78/201 (38%), Positives = 111/201 (55%), Gaps = 8/201 (3%)

Query: 31  IGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVAHF 90
           + Y+GT Y G+Q Q +  +IQ  VE+ L   +KL  ED+ + G SRTDTGVHA   V + 
Sbjct: 1   MAYNGTAYHGYQRQNNANSIQQTVEEVL---SKLLCEDITINGCSRTDTGVHARAFVFNV 57

Query: 91  IT--PFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
            T  P   +G   I    N LLP DI           FHARF +K K Y Y+IY   V D
Sbjct: 58  KTTCPIPCEGF--IKGG-NALLPQDIAFLSCEDMPDSFHARFDSKGKEYIYRIYTGDVRD 114

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
            F    A H  YK +   MR+AA   VG+HDF++F   +  +  L+ V++++  DV + G
Sbjct: 115 VFSADTALHYPYKPDIEKMRKAARLIVGEHDFASFCKAEAKEHLLSTVRTVYSIDVEQTG 174

Query: 209 ALLQLEVEGSGFLYRQVRNMV 229
             ++++V G+GFL+  VR +V
Sbjct: 175 DFVEIKVCGNGFLHNMVRIIV 195


>gi|345304322|ref|YP_004826224.1| tRNA pseudouridine synthase A [Rhodothermus marinus SG0.5JP17-172]
 gi|345113555|gb|AEN74387.1| tRNA pseudouridine synthase A [Rhodothermus marinus SG0.5JP17-172]
          Length = 252

 Score =  127 bits (320), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 78/204 (38%), Positives = 108/204 (52%), Gaps = 6/204 (2%)

Query: 27  WRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           +RL+I YDGT ++GWQ Q + P+IQ  +E+AL  V    RE +R+VG+ RTD GVHA GQ
Sbjct: 4   YRLLIEYDGTDFSGWQIQRNGPSIQAALEEALAVVL---RERVRIVGSGRTDAGVHARGQ 60

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           VAHF T    D  E +  +LNGLLPP I +RE++ A   FHAR+ A+ + YHY  Y   V
Sbjct: 61  VAHFCTNRPVDP-ERLQGSLNGLLPPSIAIREVAPAPDNFHARYDARWRRYHY--YVATV 117

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
               + H  ++     +   M  AA   +G HDF+ F   Q   R       + R+    
Sbjct: 118 PCALERHLRWYLRPAPDFARMNRAACDLLGTHDFTTFCRTQAATRNRTCTVYLARWVPDP 177

Query: 207 MGALLQLEVEGSGFLYRQVRNMVN 230
                  E+    FL+  VR +V 
Sbjct: 178 RPGDWHFEIVADRFLHGMVRAIVG 201


>gi|282890956|ref|ZP_06299470.1| hypothetical protein pah_c032o038 [Parachlamydia acanthamoebae str.
           Hall's coccus]
 gi|338175814|ref|YP_004652624.1| tRNA pseudouridine synthase A 2 [Parachlamydia acanthamoebae UV-7]
 gi|281499171|gb|EFB41476.1| hypothetical protein pah_c032o038 [Parachlamydia acanthamoebae str.
           Hall's coccus]
 gi|336480172|emb|CCB86770.1| tRNA pseudouridine synthase A 2 [Parachlamydia acanthamoebae UV-7]
          Length = 254

 Score =  127 bits (320), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 78/203 (38%), Positives = 108/203 (53%), Gaps = 5/203 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           RL+I YDG R+ GWQ  +  P+I+  +E  L ++ +   E + L  ASRTD GVHA  QV
Sbjct: 5   RLIISYDGGRFLGWQKTSMGPSIEENLENVLHQILQ---EPIILQAASRTDAGVHAHEQV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            +F T    D L  I  +LN LLP DI V +   A   FH      SK Y Y I    + 
Sbjct: 62  VNFFTEKPID-LNKITNSLNRLLPKDIVVLDAQIAPDHFHPTLDCLSKEYRYYISTGPIQ 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
            P    YA+H    L+  L+++AAE  VG HDFSAF N++ ++   + V+ +    + E 
Sbjct: 121 PPNHRFYAWHCPGHLDKELIKKAAEQLVGTHDFSAFCNLKPSESYTHHVREVLNIQIHET 180

Query: 208 GA-LLQLEVEGSGFLYRQVRNMV 229
            A     +V G  FLY+ VRN+V
Sbjct: 181 DAHHFYFQVMGKSFLYKMVRNIV 203


>gi|450180363|ref|ZP_21887187.1| tRNA pseudouridine synthase A [Streptococcus mutans 24]
 gi|449248339|gb|EMC46589.1| tRNA pseudouridine synthase A [Streptococcus mutans 24]
          Length = 249

 Score =  127 bits (320), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 111/206 (53%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDGT ++G+Q Q    T+Q  +EK L+R+     + +++ GA RTD GVHA+G
Sbjct: 3   RYKAIISYDGTNFSGFQRQPQMRTVQEEIEKTLLRLN--SGQAVKIHGAGRTDAGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P   D LE +   L+   P DI V ++     +FHAR+    K Y + +    
Sbjct: 61  QVIHFDLPQQRD-LEKLRFGLDTQTPDDIDVIQVEQVADDFHARYQKHRKTYEFLVDLGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV- 204
             +P   HYA H  YK++ ++++ A +   G HDF+ F          N V++I R  V 
Sbjct: 120 PKNPLMRHYATHFPYKVDFSVVKAAIKKLRGTHDFTGFT--ASGTSVENKVRTISRATVE 177

Query: 205 -IEMGALLQLEVEGSGFLYRQVRNMV 229
             +    L     GSGFLY+QVRNMV
Sbjct: 178 KDDKTGFLIFTFTGSGFLYKQVRNMV 203


>gi|440510066|ref|YP_007347502.1| tRNA pseudouridine synthase A [Candidatus Blochmannia chromaiodes
           str. 640]
 gi|440454279|gb|AGC03771.1| tRNA pseudouridine synthase A [Candidatus Blochmannia chromaiodes
           str. 640]
          Length = 261

 Score =  127 bits (320), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 71/201 (35%), Positives = 111/201 (55%), Gaps = 6/201 (2%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L I YDG+ Y GWQ Q   P+IQ  +E A+ ++T    E + +  A RTD+GVHA GQV 
Sbjct: 6   LGIEYDGSWYCGWQRQRDVPSIQSYIENAIKKITS---ESVTVFCAGRTDSGVHALGQVV 62

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           HF T +S+    +    +N  LP  I VR       +FHARFSA S+ Y Y I N+ +  
Sbjct: 63  HFET-YSWRSKSAWTLGMNRYLPSSICVRWARLVNKDFHARFSAISRRYCYIINNNCIRS 121

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
                  +H    L+   MR+AA+Y +G++DFS+F       ++ +  + ++   +I  G
Sbjct: 122 ALLFRKTWHYKKYLDINKMRDAAQYLLGENDFSSFR--AAGCQSYSTRRKLYHIRIIRKG 179

Query: 209 ALLQLEVEGSGFLYRQVRNMV 229
             + ++++ + F+YR VRN+V
Sbjct: 180 QCIVIDIKANSFMYRMVRNIV 200


>gi|306829107|ref|ZP_07462297.1| tRNA pseudouridine synthase A [Streptococcus mitis ATCC 6249]
 gi|304428193|gb|EFM31283.1| tRNA pseudouridine synthase A [Streptococcus mitis ATCC 6249]
          Length = 249

 Score =  127 bits (320), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 76/206 (36%), Positives = 109/206 (52%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDG  +AG+Q Q    ++Q  +EK L R+ K   + + + GA RTD+GVHA G
Sbjct: 3   RYKAIISYDGYAFAGFQRQPHARSVQEEIEKTLTRLNK--GQAITVHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D  E +  AL+   P DI V  I     +FH R++  SKIY + +    
Sbjct: 61  QVIHFDLPYQMDE-EKLRFALDTQSPEDIDVILIEIVADDFHCRYAKHSKIYEFIVDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFR--FD 203
             +P + HYA H  Y L+   M+ A +   G HDF+ F          N V++I      
Sbjct: 120 PKNPMRRHYATHFPYPLDVERMQIAIKKLEGTHDFTGFT--ASGTSVENKVRTITEASLT 177

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
           V E G  L     G+GFLY+Q+RNMV
Sbjct: 178 VDETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|254877028|ref|ZP_05249738.1| tRNA pseudouridine synthetase A [Francisella philomiragia subsp.
           philomiragia ATCC 25015]
 gi|254843049|gb|EET21463.1| tRNA pseudouridine synthetase A [Francisella philomiragia subsp.
           philomiragia ATCC 25015]
          Length = 258

 Score =  127 bits (320), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 72/204 (35%), Positives = 117/204 (57%), Gaps = 12/204 (5%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L I Y G  Y GWQ Q+  P+IQ  +EKAL   +K+  +++ +  A RTDTGVHA  QV 
Sbjct: 6   LQIEYFGKNYCGWQRQSHSPSIQEELEKAL---SKIANQNIEVTCAGRTDTGVHATSQVV 62

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +F +    + L S     N LLP DI++ +I     +F++RF+AK++ Y+Y IYN  +  
Sbjct: 63  NFHSDADRN-LSSWMRGTNALLPQDIKILDIKVVDNDFNSRFTAKNRTYNYIIYNSLISS 121

Query: 149 PFQHHYAYHSVY---KLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           P    +A H ++   +LN   M +A +Y +G+ DF++F + Q       P ++I + + I
Sbjct: 122 PI---FAEHCLWENRQLNIDKMNQACKYLLGEQDFTSFRSSQCQSNT--PFRNIQKAEFI 176

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           + G+ +  EV G+ FL+  +RN +
Sbjct: 177 KQGSFIVFEVVGNAFLHHMIRNFI 200


>gi|424836140|ref|ZP_18260797.1| tRNA pseudouridine synthase A [Clostridium sporogenes PA 3679]
 gi|365977542|gb|EHN13641.1| tRNA pseudouridine synthase A [Clostridium sporogenes PA 3679]
          Length = 246

 Score =  127 bits (320), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 75/200 (37%), Positives = 108/200 (54%), Gaps = 7/200 (3%)

Query: 28  RLVIGYDGTRYAGWQFQT-SPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           +L I YDG++Y GWQ Q  +  TIQ  +E  L  +T    ED+ L+G+ RTD GVHA  Q
Sbjct: 5   KLYIQYDGSKYNGWQKQKENDNTIQWKIENVLSLMTG---EDINLIGSGRTDAGVHANMQ 61

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           VA+F T F     E I       LP DI V +       FH+R + K K Y YKI N   
Sbjct: 62  VANFHTNFQ-GSTEQILNYCYEYLPKDIVVYDAFHVDERFHSRLNVKKKKYTYKICNRKF 120

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
            D F   Y+YH    L+   M+EA  Y VG+HDF++F   +   ++   +++++  D+IE
Sbjct: 121 HDVFSRKYSYHIPEALDIDAMKEACTYLVGRHDFASFTAARSKKKS--TIRTLYSIDIIE 178

Query: 207 MGALLQLEVEGSGFLYRQVR 226
               + +   GSGFL++ +R
Sbjct: 179 KNGYVNIVYLGSGFLHKMIR 198


>gi|304388653|ref|ZP_07370715.1| tRNA pseudouridine synthase A [Neisseria meningitidis ATCC 13091]
 gi|304337399|gb|EFM03571.1| tRNA pseudouridine synthase A [Neisseria meningitidis ATCC 13091]
          Length = 265

 Score =  127 bits (320), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 75/206 (36%), Positives = 112/206 (54%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSP-PTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
           +W + + YDG+R+ GWQ Q    PT+Q  +E AL ++     E +    A RTDTGVHA 
Sbjct: 8   RWAITLSYDGSRFYGWQKQADGVPTVQAALETALAQIAG---EAVSTTVAGRTDTGVHAT 64

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
            QV HF T  +      +   +N  LP  I V       PEFHARF A  + Y Y + + 
Sbjct: 65  AQVVHFDTTAARPQQAWVRG-VNAHLPEGIAVLHARQVAPEFHARFDAYGRHYRYLLESA 123

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
            V  P   + A  +  KL+   MR AA Y +G+ DFS+F   +   +A +PVK+I+R D+
Sbjct: 124 PVRSPLLKNRAGWTHLKLDIEPMRRAAAYLIGEQDFSSFRAAE--CQAKSPVKTIYRADL 181

Query: 205 IEMGALLQLEVEGSGFLYRQVRNMVN 230
            +   L++L++ G+ FL+  VRN++ 
Sbjct: 182 TQSAGLVRLDLHGNAFLHHMVRNIMG 207


>gi|385324974|ref|YP_005879413.1| tRNA pseudouridine synthase A (tRNA-uridine isomerase I; tRNA
           pseudouridylate synthase I) [Neisseria meningitidis
           8013]
 gi|261393361|emb|CAX50997.1| tRNA pseudouridine synthase A (tRNA-uridine isomerase I; tRNA
           pseudouridylate synthase I) [Neisseria meningitidis
           8013]
          Length = 265

 Score =  127 bits (320), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 76/212 (35%), Positives = 114/212 (53%), Gaps = 7/212 (3%)

Query: 20  DSFPGFKWRLVIGYDGTRYAGWQFQTSP-PTIQCIVEKALIRVTKLEREDLRLVGASRTD 78
           D+    +W + + YDG+R+ GWQ Q    PT+Q  +E AL ++     E +    A RTD
Sbjct: 2   DTAQKQRWAITLSYDGSRFYGWQKQADGVPTVQAALETALAQIAG---EAVSTTVAGRTD 58

Query: 79  TGVHAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYH 138
           TGVHA  QV HF T  +      +   +N  LP  I V       PEFHARF A  + Y 
Sbjct: 59  TGVHATAQVVHFDTTAARPQQAWVRG-VNAHLPEGIAVLHARQVAPEFHARFDAYGRHYR 117

Query: 139 YKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKS 198
           Y + +  V  P   + A  +  KL+   MR AA Y +G+ DFS+F   +   +A +PVK+
Sbjct: 118 YLLESAPVRSPLLKNRAGWTHLKLDIEPMRRAAAYLIGEQDFSSFRAAE--CQAKSPVKT 175

Query: 199 IFRFDVIEMGALLQLEVEGSGFLYRQVRNMVN 230
           I+R D+ +   L++L++ G+ FL+  VRN++ 
Sbjct: 176 IYRADLTQSSGLVRLDLHGNAFLHHMVRNIMG 207


>gi|168180502|ref|ZP_02615166.1| tRNA pseudouridine synthase A [Clostridium botulinum NCTC 2916]
 gi|182668817|gb|EDT80795.1| tRNA pseudouridine synthase A [Clostridium botulinum NCTC 2916]
          Length = 246

 Score =  127 bits (320), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 75/200 (37%), Positives = 109/200 (54%), Gaps = 7/200 (3%)

Query: 28  RLVIGYDGTRYAGWQFQT-SPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           +L I YDG++Y GWQ Q  +  TIQ  +E  L  +T    ED+ L+ + RTDTGVHA  Q
Sbjct: 5   KLYIQYDGSKYNGWQKQKENDNTIQGKIENVLSLMTG---EDINLIASGRTDTGVHANMQ 61

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           VA+F T F     E ++      LP DI V +       FH+R + K K Y YKI N   
Sbjct: 62  VANFHTTFQGSTDEILNYCYE-YLPKDIVVYDAFHVNERFHSRLNVKKKKYTYKICNKKF 120

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
            D F   Y+YH    L+   M+EA  Y VG+HDF++F   +   ++   V++++  D+I+
Sbjct: 121 HDVFSRKYSYHIPETLDINAMKEACTYLVGRHDFASFTAARSKKKS--TVRTLYSIDIIK 178

Query: 207 MGALLQLEVEGSGFLYRQVR 226
               + L   GSGFL++ +R
Sbjct: 179 KDGYVDLVYLGSGFLHKMIR 198


>gi|24378608|ref|NP_720563.1| tRNA pseudouridine synthase A [Streptococcus mutans UA159]
 gi|397648877|ref|YP_006489404.1| tRNA pseudouridine synthase A [Streptococcus mutans GS-5]
 gi|449866541|ref|ZP_21779563.1| tRNA pseudouridine synthase A [Streptococcus mutans U2B]
 gi|449869723|ref|ZP_21780249.1| tRNA pseudouridine synthase A [Streptococcus mutans 8ID3]
 gi|449876482|ref|ZP_21782813.1| tRNA pseudouridine synthase A [Streptococcus mutans S1B]
 gi|449885732|ref|ZP_21785773.1| tRNA pseudouridine synthase A [Streptococcus mutans SA41]
 gi|449911210|ref|ZP_21795031.1| tRNA pseudouridine synthase A [Streptococcus mutans OMZ175]
 gi|449916643|ref|ZP_21796978.1| tRNA pseudouridine synthase A [Streptococcus mutans 15JP3]
 gi|449943071|ref|ZP_21806268.1| tRNA pseudouridine synthase A [Streptococcus mutans 11A1]
 gi|449985967|ref|ZP_21819969.1| tRNA pseudouridine synthase A [Streptococcus mutans NFSM2]
 gi|449995390|ref|ZP_21822981.1| tRNA pseudouridine synthase A [Streptococcus mutans A9]
 gi|450041028|ref|ZP_21837161.1| tRNA pseudouridine synthase A [Streptococcus mutans T4]
 gi|450077661|ref|ZP_21850578.1| tRNA pseudouridine synthase A [Streptococcus mutans N3209]
 gi|450115557|ref|ZP_21863985.1| tRNA pseudouridine synthase A [Streptococcus mutans ST1]
 gi|38258780|sp|Q8DWH1.1|TRUA_STRMU RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|24376463|gb|AAN57869.1|AE014860_6 putative tRNA pseudouridine synthase A [Streptococcus mutans UA159]
 gi|392602446|gb|AFM80610.1| tRNA pseudouridine synthase A [Streptococcus mutans GS-5]
 gi|449149680|gb|EMB53471.1| tRNA pseudouridine synthase A [Streptococcus mutans 11A1]
 gi|449155015|gb|EMB58551.1| tRNA pseudouridine synthase A [Streptococcus mutans 15JP3]
 gi|449157859|gb|EMB61293.1| tRNA pseudouridine synthase A [Streptococcus mutans 8ID3]
 gi|449178575|gb|EMB80831.1| tRNA pseudouridine synthase A [Streptococcus mutans NFSM2]
 gi|449184577|gb|EMB86513.1| tRNA pseudouridine synthase A [Streptococcus mutans A9]
 gi|449198203|gb|EMB99328.1| tRNA pseudouridine synthase A [Streptococcus mutans T4]
 gi|449210881|gb|EMC11308.1| tRNA pseudouridine synthase A [Streptococcus mutans N3209]
 gi|449227841|gb|EMC27239.1| tRNA pseudouridine synthase A [Streptococcus mutans ST1]
 gi|449252317|gb|EMC50300.1| tRNA pseudouridine synthase A [Streptococcus mutans S1B]
 gi|449255008|gb|EMC52890.1| tRNA pseudouridine synthase A [Streptococcus mutans SA41]
 gi|449258568|gb|EMC56141.1| tRNA pseudouridine synthase A [Streptococcus mutans OMZ175]
 gi|449263711|gb|EMC61076.1| tRNA pseudouridine synthase A [Streptococcus mutans U2B]
          Length = 249

 Score =  127 bits (320), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 111/206 (53%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDGT ++G+Q Q    T+Q  +EK L+R+     + +++ GA RTD GVHA+G
Sbjct: 3   RYKAIISYDGTNFSGFQRQPQVRTVQEEIEKTLLRLN--SGQAVKIHGAGRTDAGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P   D LE +   L+   P DI V ++     +FHAR+    K Y + +    
Sbjct: 61  QVIHFDLPQQRD-LEKLRFGLDTQTPDDIDVIQVEQVADDFHARYQKHRKTYEFLVDLGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV- 204
             +P   HYA H  YK++ ++++ A +   G HDF+ F          N V++I R  V 
Sbjct: 120 PKNPLMRHYATHFPYKVDFSVVKAAIKKLRGTHDFTGFT--ASGTSVENKVRTISRATVE 177

Query: 205 -IEMGALLQLEVEGSGFLYRQVRNMV 229
             +    L     GSGFLY+QVRNMV
Sbjct: 178 KDDKTGFLIFTFTGSGFLYKQVRNMV 203


>gi|304438671|ref|ZP_07398609.1| tRNA pseudouridine synthase A [Selenomonas sp. oral taxon 149 str.
           67H29BP]
 gi|304368320|gb|EFM22007.1| tRNA pseudouridine synthase A [Selenomonas sp. oral taxon 149 str.
           67H29BP]
          Length = 275

 Score =  127 bits (320), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 85/210 (40%), Positives = 113/210 (53%), Gaps = 20/210 (9%)

Query: 29  LVIGYDGTRYAGWQFQTSP-PTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           L + YDGT Y G+Q QT P   +Q ++E AL +V     E + L  A RTD GVHA+GQV
Sbjct: 11  LKVAYDGTNYHGFQRQTPPIRAVQNVLEAALAQVCG---ETVELASAGRTDAGVHAYGQV 67

Query: 88  AHFITPFSYDG---LESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
            +F T    DG    E +  A+NGLLPPDI V E   A  +F AR SA  K Y Y++   
Sbjct: 68  VNFFT----DGRIPTERLPRAVNGLLPPDIVVSEAWEAARDFSARHSATGKAYVYRMKEC 123

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
            V DPF   YA+     L+   MR A     G HD+S+F         ++PV+++   D 
Sbjct: 124 RVPDPFTRSYAWQIFQPLDYDAMRAALHLLEGTHDYSSFRAA--GGAPMSPVRTL---DT 178

Query: 205 IEMGA----LLQLEVEGSGFLYRQVRNMVN 230
           I + A     L L + G+GFLY  VRN+V+
Sbjct: 179 IRLTAEGEGRLSLYIHGTGFLYHMVRNIVS 208


>gi|317126894|ref|YP_004093176.1| tRNA pseudouridine synthase A [Bacillus cellulosilyticus DSM 2522]
 gi|315471842|gb|ADU28445.1| tRNA pseudouridine synthase A [Bacillus cellulosilyticus DSM 2522]
          Length = 260

 Score =  127 bits (320), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 76/197 (38%), Positives = 112/197 (56%), Gaps = 5/197 (2%)

Query: 30  VIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVAH 89
           ++ YDGT+Y+G+Q Q    TIQ  +EKAL ++ K +     +V + RTDTGVH+ GQ  H
Sbjct: 7   IVTYDGTKYSGYQVQVDKKTIQAELEKALAKIHKAD--SWNVVSSGRTDTGVHSLGQTIH 64

Query: 90  FITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDP 149
           F T  S    E    A N LLP DI+VR++     +FHARF +  K Y YK+      D 
Sbjct: 65  FDTSLSIPE-ERWPQAFNRLLPDDIQVRDLQYVHHDFHARFDSVGKKYVYKVNTAREKDI 123

Query: 150 FQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMGA 209
           F+ ++ YH  Y L+   M EAA +  G HDF++F +  R D  ++ V++I+  ++ + G 
Sbjct: 124 FKRNFVYHHPYVLSYEKMLEAAMHLEGTHDFTSFSS-PRTD-VIDKVRTIYAIELEKNGD 181

Query: 210 LLQLEVEGSGFLYRQVR 226
                  G+GFLY+ VR
Sbjct: 182 EWTFTYIGNGFLYQMVR 198


>gi|218767391|ref|YP_002341903.1| tRNA pseudouridine synthase A [Neisseria meningitidis Z2491]
 gi|433480795|ref|ZP_20438072.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis 63041]
 gi|433514358|ref|ZP_20471140.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis 63049]
 gi|433520722|ref|ZP_20477430.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis 65014]
 gi|433541913|ref|ZP_20498351.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis 63006]
 gi|25009506|sp|Q9JWF1.1|TRUA_NEIMA RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|121051399|emb|CAM07691.1| tRNA pseudouridine synthase [Neisseria meningitidis Z2491]
 gi|432213213|gb|ELK69138.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis 63041]
 gi|432245320|gb|ELL00790.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis 63049]
 gi|432251338|gb|ELL06707.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis 65014]
 gi|432274984|gb|ELL30062.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis 63006]
          Length = 265

 Score =  127 bits (320), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 75/206 (36%), Positives = 112/206 (54%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSP-PTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
           +W + + YDG+R+ GWQ Q    PT+Q  +E AL ++     E +    A RTDTGVHA 
Sbjct: 8   RWAITLSYDGSRFYGWQKQADGVPTVQAALETALAQIAG---EAVSTTVAGRTDTGVHAT 64

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
            QV HF T  +      +   +N  LP  I V       PEFHARF A  + Y Y + + 
Sbjct: 65  AQVVHFDTTAARPQQAWVRG-VNAHLPEGIAVLHARQVAPEFHARFDAYGRHYRYLLESA 123

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
            V  P   + A  +  KL+   MR AA Y +G+ DFS+F   +   +A +PVK+I+R D+
Sbjct: 124 PVRSPLLKNRAGWTHLKLDIEPMRRAAAYLIGEQDFSSFRAAE--CQAKSPVKTIYRADL 181

Query: 205 IEMGALLQLEVEGSGFLYRQVRNMVN 230
            +   L++L++ G+ FL+  VRN++ 
Sbjct: 182 TQSAGLVRLDLHGNAFLHHMVRNIMG 207


>gi|385260248|ref|ZP_10038397.1| tRNA pseudouridine(38-40) synthase [Streptococcus sp. SK140]
 gi|385192168|gb|EIF39578.1| tRNA pseudouridine(38-40) synthase [Streptococcus sp. SK140]
          Length = 249

 Score =  127 bits (320), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 73/206 (35%), Positives = 108/206 (52%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDG  +AG+Q Q    ++Q  +EK L ++ K   + + + GA RTD+GVHA G
Sbjct: 3   RYKAIISYDGYAFAGFQRQPHARSVQEEIEKTLTKLNK--GQAITIHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D  E +  AL+   P DI V  I     +FH R++  SK Y + +    
Sbjct: 61  QVIHFDLPYQMDE-EKLRFALDTQSPEDIDVISIEIVADDFHCRYAKHSKTYEFIVDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFV--NIQRNDRALNPVKSIFRFD 203
             +P + HYA H  Y L+   M+ A +   G HDF+ F        D+     ++  R D
Sbjct: 120 PKNPMRRHYATHYPYPLDVERMQLAVKKLEGTHDFTGFTASGTSVEDKVRTITEASLRVD 179

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
             E G  L     G+GFLY+Q+RNMV
Sbjct: 180 --ETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|335356520|ref|ZP_08548390.1| tRNA pseudouridine synthase A [Lactobacillus animalis KCTC 3501]
          Length = 250

 Score =  127 bits (320), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 76/206 (36%), Positives = 112/206 (54%), Gaps = 6/206 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++ + + YDGT +AG+Q Q    T+Q ++EKAL +++K + + + + G+ RTD+GVHA G
Sbjct: 4   RYMITLAYDGTNFAGFQAQPKQRTVQSVLEKALNKMSKFD-DYITIYGSGRTDSGVHALG 62

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P      E +   LN +LP D  V +      +FHARF+   K Y Y++    
Sbjct: 63  QVIHFDFPHDISP-EGMLKGLNSMLPLDCEVIDCKIVSDDFHARFTTHGKRYMYRVSRSW 121

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             DPF+  Y  H  Y L+   + EA    VG HDFS+FV      +  + V++I+   V 
Sbjct: 122 FTDPFKRFYTGHYKYPLDIKRIEEAMPDVVGTHDFSSFV--ASGSQTKDHVRTIYEATVR 179

Query: 206 E--MGALLQLEVEGSGFLYRQVRNMV 229
           E      +  E  G+GFLY QVR MV
Sbjct: 180 EDKENNEVIFEFYGNGFLYNQVRIMV 205


>gi|427439365|ref|ZP_18924020.1| tRNA pseudouridine synthase A [Pediococcus lolii NGRI 0510Q]
 gi|425788201|dbj|GAC44808.1| tRNA pseudouridine synthase A [Pediococcus lolii NGRI 0510Q]
          Length = 242

 Score =  127 bits (320), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 70/201 (34%), Positives = 117/201 (58%), Gaps = 5/201 (2%)

Query: 31  IGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVAHF 90
           + YDGT +AG+Q Q +  T++ ++++A+ ++ K  + ++ + G+ RTD GVHA+GQV HF
Sbjct: 1   MAYDGTNFAGFQAQPNQRTVEGVLKRAVNKIAKNPQPEIPIFGSGRTDAGVHAFGQVVHF 60

Query: 91  ITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDPF 150
             P        +HA LN +LP D +V+++     +FHARF+   K Y Y++     +DPF
Sbjct: 61  DLPIEMTANNMLHA-LNSILPLDTQVKKVEIVDEDFHARFTTHGKRYQYRMALGEFVDPF 119

Query: 151 QHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMGAL 210
           + +Y  H  + ++  L+++A +   G HDFS+FV       A N V++I+     +  A 
Sbjct: 120 KRNYTGHWKFPISIELIQQAIKDLEGTHDFSSFV--ASGSTAKNHVRTIYEAKAWKDEAQ 177

Query: 211 LQL--EVEGSGFLYRQVRNMV 229
            ++  E  G+GFLY  VR MV
Sbjct: 178 NEIIFEFYGNGFLYNMVRIMV 198


>gi|383786162|ref|YP_005470731.1| pseudouridylate synthase I [Fervidobacterium pennivorans DSM 9078]
 gi|383109009|gb|AFG34612.1| pseudouridylate synthase I [Fervidobacterium pennivorans DSM 9078]
          Length = 246

 Score =  127 bits (320), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 77/199 (38%), Positives = 112/199 (56%), Gaps = 6/199 (3%)

Query: 32  GYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVAHFI 91
            YDGT + G+Q QT   T+Q  +EKAL R+ K+    ++   A RTDTGVHA GQVA F 
Sbjct: 9   AYDGTDFFGYQRQTDVRTVQEDLEKALERIFKVP---IQTYAAGRTDTGVHANGQVAAFD 65

Query: 92  TPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDPFQ 151
            P        I  ALN  LP DI V+++  A   F+ R+ AK +IYHY I N  + D F 
Sbjct: 66  CPNDKLTENDIRNALNANLPKDIYVKKVWFASENFNPRYEAKRRIYHYYILNSKMNDIFL 125

Query: 152 HHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMGA-L 210
             YA+   Y+L+   MR  AEY +G HDF+AF   ++ +  +   ++I    ++++   L
Sbjct: 126 RRYAWWFPYELDIARMRAGAEYLIGTHDFTAFS--KKGEEDIRTERTITAIRIVKLKKNL 183

Query: 211 LQLEVEGSGFLYRQVRNMV 229
           + + VEG  +L   VR++V
Sbjct: 184 ILVRVEGISYLRGMVRSIV 202


>gi|158319577|ref|YP_001512084.1| tRNA pseudouridine synthase A [Alkaliphilus oremlandii OhILAs]
 gi|158139776|gb|ABW18088.1| tRNA pseudouridine synthase A [Alkaliphilus oremlandii OhILAs]
          Length = 248

 Score =  127 bits (320), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 75/196 (38%), Positives = 109/196 (55%), Gaps = 6/196 (3%)

Query: 31  IGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVAHF 90
           I YDG+ Y+GWQ Q +  TIQ  + KAL    KLE +D+ + G+ RTD GVHA+GQVA F
Sbjct: 8   IEYDGSNYSGWQVQPNAITIQEEIMKAL---KKLEGKDVVIHGSGRTDAGVHAYGQVATF 64

Query: 91  ITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDPF 150
           +   +   +E +  A+N  LP DI + +      +FHAR+SA  K Y Y IY        
Sbjct: 65  LMERNIP-VERLPLAMNSNLPKDITIIDAKEVPMDFHARYSAIGKRYIYHIYESRYRSAI 123

Query: 151 QHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMGAL 210
             +Y+YH  YKL+ + M EA++  +G HDF  F++        + V++I   +    G  
Sbjct: 124 LRNYSYHINYKLDRSKMMEASKLLIGTHDFRGFMS--NGSSVEDTVRTIKSLEFKSDGEN 181

Query: 211 LQLEVEGSGFLYRQVR 226
           + + +EG GFLY  VR
Sbjct: 182 IYMIIEGDGFLYNMVR 197


>gi|449892202|ref|ZP_21788320.1| tRNA pseudouridine synthase A [Streptococcus mutans SF12]
 gi|449896854|ref|ZP_21789971.1| tRNA pseudouridine synthase A [Streptococcus mutans R221]
 gi|449903248|ref|ZP_21792043.1| tRNA pseudouridine synthase A [Streptococcus mutans M230]
 gi|449931466|ref|ZP_21802379.1| tRNA pseudouridine synthase A [Streptococcus mutans 3SN1]
 gi|449970439|ref|ZP_21813823.1| tRNA pseudouridine synthase A [Streptococcus mutans 2VS1]
 gi|450057822|ref|ZP_21842779.1| tRNA pseudouridine synthase A [Streptococcus mutans NLML4]
 gi|450072303|ref|ZP_21848524.1| tRNA pseudouridine synthase A [Streptococcus mutans M2A]
 gi|450092816|ref|ZP_21856257.1| tRNA pseudouridine synthase A [Streptococcus mutans W6]
 gi|450106299|ref|ZP_21860423.1| tRNA pseudouridine synthase A [Streptococcus mutans SF14]
 gi|450148064|ref|ZP_21875421.1| tRNA pseudouridine synthase A [Streptococcus mutans 14D]
 gi|450164091|ref|ZP_21881128.1| tRNA pseudouridine synthase A [Streptococcus mutans B]
 gi|450176989|ref|ZP_21886146.1| tRNA pseudouridine synthase A [Streptococcus mutans SM1]
 gi|449162563|gb|EMB65693.1| tRNA pseudouridine synthase A [Streptococcus mutans 3SN1]
 gi|449173404|gb|EMB75980.1| tRNA pseudouridine synthase A [Streptococcus mutans 2VS1]
 gi|449204668|gb|EMC05455.1| tRNA pseudouridine synthase A [Streptococcus mutans NLML4]
 gi|449211333|gb|EMC11738.1| tRNA pseudouridine synthase A [Streptococcus mutans M2A]
 gi|449217818|gb|EMC17849.1| tRNA pseudouridine synthase A [Streptococcus mutans W6]
 gi|449223405|gb|EMC23094.1| tRNA pseudouridine synthase A [Streptococcus mutans SF14]
 gi|449236306|gb|EMC35229.1| tRNA pseudouridine synthase A [Streptococcus mutans 14D]
 gi|449242335|gb|EMC40928.1| tRNA pseudouridine synthase A [Streptococcus mutans B]
 gi|449244279|gb|EMC42660.1| tRNA pseudouridine synthase A [Streptococcus mutans SM1]
 gi|449256256|gb|EMC54086.1| tRNA pseudouridine synthase A [Streptococcus mutans SF12]
 gi|449261426|gb|EMC58902.1| tRNA pseudouridine synthase A [Streptococcus mutans M230]
 gi|449261550|gb|EMC59022.1| tRNA pseudouridine synthase A [Streptococcus mutans R221]
          Length = 249

 Score =  127 bits (320), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 111/206 (53%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDGT ++G+Q Q    T+Q  +EK L+R+     + +++ GA RTD GVHA+G
Sbjct: 3   RYKAIISYDGTNFSGFQRQPQMRTVQEEIEKTLLRLN--SGQAVKIHGAGRTDAGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P   D LE +   L+   P DI V ++     +FHAR+    K Y + +    
Sbjct: 61  QVIHFDLPQQRD-LEKLRFGLDTQTPDDIDVIQVEQVADDFHARYQKHRKTYEFLVDLGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV- 204
             +P   HYA H  YK++ ++++ A +   G HDF+ F          N V++I R  V 
Sbjct: 120 PKNPLMRHYATHFPYKVDFSVVKAAIKKLRGTHDFTGFT--ASGTSVENKVRTISRATVE 177

Query: 205 -IEMGALLQLEVEGSGFLYRQVRNMV 229
             +    L     GSGFLY+QVRNMV
Sbjct: 178 KDDKTGFLIFTFTGSGFLYKQVRNMV 203


>gi|381205650|ref|ZP_09912721.1| tRNA pseudouridine synthase A [SAR324 cluster bacterium JCVI-SC
           AAA005]
          Length = 274

 Score =  127 bits (320), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 80/208 (38%), Positives = 112/208 (53%), Gaps = 19/208 (9%)

Query: 27  WRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           W L++ Y GTRYAGWQ Q + PT++  +EKAL ++T       +++G+ RTD GVHA   
Sbjct: 4   WLLLLTYCGTRYAGWQVQPALPTVEGEIEKALQQLTGTFH---KVLGSGRTDAGVHALNY 60

Query: 87  VAHF-----ITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKI 141
            AHF     +TP  +      H ALNGLLPPDI VR +     +FHAR  +  K Y Y I
Sbjct: 61  PAHFQSSQNLTPREW------HKALNGLLPPDIVVRNVVEKSTDFHARHDSIGKRYAYLI 114

Query: 142 YNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFR 201
           +N    +PF  + ++     L+   MR AAE  VG+HDFS+F    R+    +PVK +  
Sbjct: 115 HNAKERNPFAENRSWWIRQSLDVKAMRMAAECLVGRHDFSSFR--ARHCNGPDPVKELRE 172

Query: 202 FDV---IEMGALLQLEVEGSGFLYRQVR 226
             +   +     L +E E + FL   VR
Sbjct: 173 ITIGKTVSPWGNLIIEFEANSFLQHMVR 200


>gi|340787061|ref|YP_004752526.1| tRNA pseudouridine synthase A [Collimonas fungivorans Ter331]
 gi|340552328|gb|AEK61703.1| tRNA pseudouridine synthase A [Collimonas fungivorans Ter331]
          Length = 280

 Score =  127 bits (320), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 80/210 (38%), Positives = 112/210 (53%), Gaps = 14/210 (6%)

Query: 28  RLVIG--YDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           R+V+G  YDGT + GWQ Q S  T+Q  +E AL    K  +  +    A RTD+GVHA  
Sbjct: 16  RIVLGVQYDGTPWQGWQTQPSGKTVQDRLEAAL---QKFAQGAIDTTCAGRTDSGVHALE 72

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVRE------ISAAVPEFHARFSAKSKIYHY 139
           QV HF T  S +    +   LN  LPP I VR       ++    +FHARFSA ++ YHY
Sbjct: 73  QVVHFDTALSRETFSWVRG-LNAFLPPSIAVRWAHQLPLLAEGEDQFHARFSATARTYHY 131

Query: 140 KIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSI 199
            +YN+ V  P     A      L   LMR+AA + VG HDFSAF  ++   +A +PV+++
Sbjct: 132 LLYNNPVRSPLLEGKAGWVFRPLELELMRQAAAHLVGTHDFSAFRAVE--CQAKSPVRTM 189

Query: 200 FRFDVIEMGALLQLEVEGSGFLYRQVRNMV 229
               +   G L+   +  + FL+  VRN+V
Sbjct: 190 EEIRIERRGDLIVFSLRANAFLHHMVRNIV 219


>gi|148270348|ref|YP_001244808.1| tRNA pseudouridine synthase ACD [Thermotoga petrophila RKU-1]
 gi|166229847|sp|A5IM09.1|TRUA_THEP1 RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|147735892|gb|ABQ47232.1| tRNA pseudouridine synthase A [Thermotoga petrophila RKU-1]
          Length = 245

 Score =  127 bits (320), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 74/201 (36%), Positives = 109/201 (54%), Gaps = 7/201 (3%)

Query: 30  VIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVAH 89
           VI YDG+ + G+Q Q    T+Q ++E AL R+ K   + + +  A RTDTGVHA GQ+  
Sbjct: 7   VIEYDGSNFFGYQGQPDVRTVQGVIEDALERIFK---QRIYIQAAGRTDTGVHANGQLIA 63

Query: 90  FITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDP 149
           F  P      E I  A+N  LP D+ V+E+      FH RF    +IYHY I      + 
Sbjct: 64  FNCPNDRMTTEDIRNAMNANLPDDVYVKEVFEVPVNFHPRFDVTKRIYHYFILTSRQKNV 123

Query: 150 FQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM-G 208
           F   Y +   Y+L+   MR+A +Y  G HDF++F   +      +PV++I+R  ++ +  
Sbjct: 124 FLRKYVWWFPYELDLDAMRKAVKYLEGTHDFTSF---KTGSDERDPVRTIYRIRILRLKN 180

Query: 209 ALLQLEVEGSGFLYRQVRNMV 229
            L+ + VEG  FL R VRN+V
Sbjct: 181 DLVLIRVEGRSFLRRMVRNIV 201


>gi|339499131|ref|YP_004697166.1| tRNA pseudouridine synthase A [Spirochaeta caldaria DSM 7334]
 gi|338833480|gb|AEJ18658.1| tRNA pseudouridine synthase A [Spirochaeta caldaria DSM 7334]
          Length = 266

 Score =  127 bits (319), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 81/219 (36%), Positives = 116/219 (52%), Gaps = 23/219 (10%)

Query: 26  KW-RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLERE-------------DLRL 71
           +W +L++ YDGTR+ GWQ + +  T+Q ++E+ LI  T L R              DL+L
Sbjct: 10  RWVKLIVAYDGTRFKGWQ-KGNGRTVQGVLEQTLI--TALPRASGGAIHPGTYTEADLQL 66

Query: 72  VGASRTDTGVHAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFS 131
            GA RTD GVHA GQ A  I P S   LE++ +A+N  LP DI ++ I+ A   FHAR+ 
Sbjct: 67  AGAGRTDAGVHAEGQAASAILPASVS-LEALLSAVNTELPSDIAIKSITPAPDRFHARYH 125

Query: 132 AKSKIYHYKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDR 191
           A S+ Y Y I    V +PF+  Y ++   KLN   M++AA    G HDF++F   +    
Sbjct: 126 ATSRTYRYSIICGPVGNPFRAAYTWNIPEKLNLETMKQAAALLQGTHDFTSFTADKSKSN 185

Query: 192 ALNPVKSI-FRFDVIEMGALLQLEVEGSGFLYRQVRNMV 229
            +  +  I F + V E    L +      FL+ QVR M 
Sbjct: 186 RVRTITDIHFEWAVPE----LHIYYTADSFLWNQVRIMT 220


>gi|416180120|ref|ZP_11611305.1| tRNA pseudouridine synthase A [Neisseria meningitidis M6190]
 gi|416193671|ref|ZP_11617227.1| tRNA pseudouridine synthase A [Neisseria meningitidis ES14902]
 gi|416198636|ref|ZP_11619003.1| tRNA pseudouridine synthase A [Neisseria meningitidis CU385]
 gi|418291452|ref|ZP_12903455.1| tRNA pseudouridine synthase A [Neisseria meningitidis NM220]
 gi|421555726|ref|ZP_16001651.1| tRNA pseudouridine synthase A [Neisseria meningitidis 98008]
 gi|433493479|ref|ZP_20450560.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis NM586]
 gi|433503802|ref|ZP_20460754.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis NM126]
 gi|325131279|gb|EGC53990.1| tRNA pseudouridine synthase A [Neisseria meningitidis M6190]
 gi|325137309|gb|EGC59897.1| tRNA pseudouridine synthase A [Neisseria meningitidis ES14902]
 gi|325139358|gb|EGC61898.1| tRNA pseudouridine synthase A [Neisseria meningitidis CU385]
 gi|372199812|gb|EHP13992.1| tRNA pseudouridine synthase A [Neisseria meningitidis NM220]
 gi|389606781|emb|CCA45692.1| tRNA pseudouridine synthase A [Neisseria meningitidis alpha522]
 gi|402328702|gb|EJU64068.1| tRNA pseudouridine synthase A [Neisseria meningitidis 98008]
 gi|432225539|gb|ELK81280.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis NM586]
 gi|432238255|gb|ELK93828.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis NM126]
          Length = 265

 Score =  127 bits (319), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 75/206 (36%), Positives = 112/206 (54%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSP-PTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
           +W + + YDG+R+ GWQ Q    PT+Q  +E AL ++     E +    A RTDTGVHA 
Sbjct: 8   RWAITLSYDGSRFYGWQKQADGVPTVQAALETALAQIAG---EAVSTTVAGRTDTGVHAT 64

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
            QV HF T  +      +   +N  LP  I V       PEFHARF A  + Y Y + + 
Sbjct: 65  AQVVHFDTTAARPQQAWVRG-VNAHLPEGIAVLHARQVAPEFHARFDAYGRHYRYLLESA 123

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
            V  P   + A  +  KL+   MR AA Y +G+ DFS+F   +   +A +PVK+I+R D+
Sbjct: 124 PVRSPLLKNRAGWTHLKLDIEPMRRAAAYLIGEQDFSSFRAAE--CQAKSPVKTIYRADL 181

Query: 205 IEMGALLQLEVEGSGFLYRQVRNMVN 230
            +   L++L++ G+ FL+  VRN++ 
Sbjct: 182 TQSSGLVRLDLHGNAFLHHMVRNIMG 207


>gi|312796827|ref|YP_004029749.1| tRNA pseudouridine synthase A [Burkholderia rhizoxinica HKI 454]
 gi|312168602|emb|CBW75605.1| tRNA pseudouridine synthase A (EC 4.2.1.70) [Burkholderia
           rhizoxinica HKI 454]
          Length = 271

 Score =  127 bits (319), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 75/205 (36%), Positives = 108/205 (52%), Gaps = 8/205 (3%)

Query: 28  RLVIG--YDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           R+ +G  YDG  + GWQ Q    T+Q ++E+AL +  ++    L  V A RTDTGVHA G
Sbjct: 7   RIALGLQYDGAAFCGWQAQPHGNTVQNVLERALEQFAQVP---LPTVVAGRTDTGVHALG 63

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF T         +   +N  LPP + V+      P FHARF+A  + Y Y +Y   
Sbjct: 64  QVVHFDTLLDRAAFSWVRG-VNAFLPPSVSVQWAKPVPPTFHARFAAFERTYFYVLYVHP 122

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           V  P     A      L+   MREAA Y +G+HDFS+F +   + +A  PVK ++  D++
Sbjct: 123 VRSPMLARRAGWVHTPLDVEAMREAAGYLIGEHDFSSFRS--SDCQAKTPVKHLYAIDIV 180

Query: 206 EMGALLQLEVEGSGFLYRQVRNMVN 230
           E G  + L    + FL+  VRN++ 
Sbjct: 181 EHGPFVHLRFRANAFLHHMVRNIMG 205


>gi|315122856|ref|YP_004063345.1| tRNA pseudouridine synthase A [Candidatus Liberibacter solanacearum
           CLso-ZC1]
 gi|313496258|gb|ADR52857.1| tRNA pseudouridine synthase A [Candidatus Liberibacter solanacearum
           CLso-ZC1]
          Length = 247

 Score =  127 bits (319), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 76/207 (36%), Positives = 118/207 (57%), Gaps = 8/207 (3%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
            ++ L+I YDG+ Y GWQ Q +  +IQ  +EKA+  VT    E + + GA RTD+GVHA 
Sbjct: 2   IRYCLIIEYDGSGYVGWQRQKNGVSIQGEIEKAIFLVTG---ESMTVYGAGRTDSGVHAL 58

Query: 85  GQVAHFITPFSYDGLESIHAALNGLL--PPDIRVREISAAVPEFHARFSAKSKIYHYKIY 142
            QVAHF     +   E +  ALN  L    DI + E+     +FHARFSA  + Y Y+I 
Sbjct: 59  RQVAHFDLVREWVP-EKLCKALNAHLNISNDISILELCVVDEKFHARFSAIRRSYLYRII 117

Query: 143 NDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRF 202
                   +   A+     L+  +MR AA++ +GKHDF+ F ++Q   +AL+P+++I R 
Sbjct: 118 TRQAPLALEKGRAWWFPKDLDCEMMRVAAQHLIGKHDFTTFRSVQ--CQALSPIRTIDRL 175

Query: 203 DVIEMGALLQLEVEGSGFLYRQVRNMV 229
           D+  +G ++++ V    FL+ Q+R+ V
Sbjct: 176 DINRLGDMIEIRVVARSFLHTQIRSFV 202


>gi|116624080|ref|YP_826236.1| tRNA pseudouridine synthase A [Candidatus Solibacter usitatus
           Ellin6076]
 gi|122253167|sp|Q01WL4.1|TRUA_SOLUE RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|116227242|gb|ABJ85951.1| tRNA pseudouridine synthase A [Candidatus Solibacter usitatus
           Ellin6076]
          Length = 240

 Score =  127 bits (319), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 76/206 (36%), Positives = 108/206 (52%), Gaps = 5/206 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + R+ + YDG  + GWQ Q    TIQ I+E+    V  +E + + + G+ RTD GVHA  
Sbjct: 3   RIRIYLAYDGGPFHGWQVQPGLATIQGILEEI---VGGMEGKPVHVAGSGRTDAGVHALA 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA F        +E++  A+N LLPP IR+        +FH RF A +K Y Y+++ D 
Sbjct: 60  QVAAFSIENPIP-VENLRRAVNRLLPPAIRILCAEEVQADFHPRFDAVAKTYEYRMFRDE 118

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAF-VNIQRNDRALNPVKSIFRFDV 204
           V  PF+  Y YH  Y L+   M   A  F G+HDF+ F  +  R+    + V++IF   +
Sbjct: 119 VCSPFEWPYVYHHPYPLDEARMATLARAFEGEHDFTPFAASDARDAEGKSKVRTIFSSTL 178

Query: 205 IEMGALLQLEVEGSGFLYRQVRNMVN 230
                 L   V GSGFL   VRN+V 
Sbjct: 179 DRTPQRLVYRVRGSGFLKHMVRNIVG 204


>gi|450011399|ref|ZP_21829163.1| tRNA pseudouridine synthase A [Streptococcus mutans A19]
 gi|450023443|ref|ZP_21830615.1| tRNA pseudouridine synthase A [Streptococcus mutans U138]
 gi|449189576|gb|EMB91228.1| tRNA pseudouridine synthase A [Streptococcus mutans A19]
 gi|449193349|gb|EMB94734.1| tRNA pseudouridine synthase A [Streptococcus mutans U138]
          Length = 249

 Score =  127 bits (319), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 111/206 (53%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDGT ++G+Q Q    T+Q  +EK L+R+     + +++ GA RTD GVHA+G
Sbjct: 3   RYKAIISYDGTNFSGFQRQPQVRTVQEEIEKTLLRLN--SGQAVKIHGAGRTDAGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P   D LE +   L+   P DI V ++     +FHAR+    K Y + +    
Sbjct: 61  QVIHFDLPPQRD-LEKLRFGLDTQTPDDIDVIQVEQVADDFHARYQKHRKTYEFLVDLGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV- 204
             +P   HYA H  YK++ ++++ A +   G HDF+ F          N V++I R  V 
Sbjct: 120 PKNPLMRHYATHFPYKVDFSVVKAAIKKLRGTHDFTGFT--ASGTSVENKVRTISRATVE 177

Query: 205 -IEMGALLQLEVEGSGFLYRQVRNMV 229
             +    L     GSGFLY+QVRNMV
Sbjct: 178 KDDKTGFLIFTFTGSGFLYKQVRNMV 203


>gi|292670303|ref|ZP_06603729.1| tRNA pseudouridine synthase A [Selenomonas noxia ATCC 43541]
 gi|292648034|gb|EFF66006.1| tRNA pseudouridine synthase A [Selenomonas noxia ATCC 43541]
          Length = 260

 Score =  127 bits (319), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 85/208 (40%), Positives = 113/208 (54%), Gaps = 16/208 (7%)

Query: 29  LVIGYDGTRYAGWQFQTSPP--TIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           L I YDGTRY G+Q Q SPP   +Q  +E AL  V     E + L  A RTD GVHA GQ
Sbjct: 11  LKIAYDGTRYHGFQRQ-SPPVVAVQNALEAALAEVCG---ETVELAAAGRTDAGVHACGQ 66

Query: 87  VAHFITPFSYDG---LESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYN 143
           V +F T    DG    E +  A+NGLLPPDI V +   A  +F AR SAK K Y Y++  
Sbjct: 67  VVNFFT----DGRIPTERLPRAVNGLLPPDIAVTDAWEAARDFSARHSAKGKAYVYRMEQ 122

Query: 144 DAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFD 203
             V +PF  +YA+     L+   MR A    VG HD+S+F         ++PV++I    
Sbjct: 123 CTVPNPFTRNYAWQIFRPLDVEAMRAALAMLVGTHDYSSFRAA--GGAPMSPVRTIDEIR 180

Query: 204 VIEMG-ALLQLEVEGSGFLYRQVRNMVN 230
           + + G   L   + G+GFLY  VRN+++
Sbjct: 181 LEDEGEGRLSCYLHGNGFLYHMVRNIMS 208


>gi|134094449|ref|YP_001099524.1| tRNA pseudouridine synthase A [Herminiimonas arsenicoxydans]
 gi|189030136|sp|A4G4G0.1|TRUA_HERAR RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|133738352|emb|CAL61397.1| tRNA pseudouridine synthase A (tRNA-uridine isomerase I) (tRNA
           pseudouridylate synthase I) [Herminiimonas
           arsenicoxydans]
          Length = 275

 Score =  127 bits (319), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 80/208 (38%), Positives = 114/208 (54%), Gaps = 12/208 (5%)

Query: 28  RLVIG--YDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           R+V+G  YDG  + GWQ Q +  T+Q  +E AL + T+   + +    A RTD GVHA  
Sbjct: 13  RIVLGVQYDGAPWQGWQTQLNGLTVQDKLEFALYKFTQ---QTITTACAGRTDAGVHALE 69

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPE----FHARFSAKSKIYHYKI 141
           QV HF T    D ++S    +N  LP  I VR  S    +    FHARFSA+S+ YHY +
Sbjct: 70  QVVHFDTTLERD-MQSWVRGVNTFLPSSIAVRWASEVAHDPAENFHARFSARSRTYHYML 128

Query: 142 YNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFR 201
           YN+ V  P     A      L+   M+EAA + +G+HDFSAF ++Q   +A +PVK++  
Sbjct: 129 YNNPVRSPLLEGKAGWVFRALDIAKMQEAAAHLLGQHDFSAFRSVQ--CQAKSPVKTMHA 186

Query: 202 FDVIEMGALLQLEVEGSGFLYRQVRNMV 229
             +   G L+   V  + FL+  VRN+V
Sbjct: 187 IKIERRGDLIMFTVHANAFLHHMVRNIV 214


>gi|449881743|ref|ZP_21784619.1| tRNA pseudouridine synthase A [Streptococcus mutans SA38]
 gi|449926715|ref|ZP_21800914.1| tRNA pseudouridine synthase A [Streptococcus mutans 4SM1]
 gi|449960287|ref|ZP_21810574.1| tRNA pseudouridine synthase A [Streptococcus mutans 4VF1]
 gi|449963897|ref|ZP_21811048.1| tRNA pseudouridine synthase A [Streptococcus mutans 15VF2]
 gi|449975279|ref|ZP_21815725.1| tRNA pseudouridine synthase A [Streptococcus mutans 11VS1]
 gi|450138245|ref|ZP_21872075.1| tRNA pseudouridine synthase A [Streptococcus mutans NLML1]
 gi|449160441|gb|EMB63709.1| tRNA pseudouridine synthase A [Streptococcus mutans 4SM1]
 gi|449167745|gb|EMB70609.1| tRNA pseudouridine synthase A [Streptococcus mutans 4VF1]
 gi|449173007|gb|EMB75603.1| tRNA pseudouridine synthase A [Streptococcus mutans 15VF2]
 gi|449177142|gb|EMB79456.1| tRNA pseudouridine synthase A [Streptococcus mutans 11VS1]
 gi|449234218|gb|EMC33238.1| tRNA pseudouridine synthase A [Streptococcus mutans NLML1]
 gi|449250917|gb|EMC48955.1| tRNA pseudouridine synthase A [Streptococcus mutans SA38]
          Length = 249

 Score =  127 bits (319), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 112/206 (54%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDGT ++G+Q Q    T+Q  +EK L+R+     + +++ GA RTD GVHA+G
Sbjct: 3   RYKAIISYDGTNFSGFQRQPQMRTVQEEIEKTLLRLN--SGQAVKIHGAGRTDAGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P   D LE +   L+   P DI V ++     +FHAR+    K Y + +    
Sbjct: 61  QVIHFDLPQQRD-LEKLRFGLDTQTPDDIDVIQVEQVADDFHARYQKHRKTYEFLVDLGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV- 204
             +P   HYA H  YK++ ++++ A +   G HDF+ F     +    N V++I R  V 
Sbjct: 120 PKNPLMRHYATHFPYKVDFSVVKAAIKKLRGTHDFTGFTAAGTS--VENKVRTISRATVE 177

Query: 205 -IEMGALLQLEVEGSGFLYRQVRNMV 229
             +    L     GSGFLY+QVRNMV
Sbjct: 178 KDDKTGFLIFTFTGSGFLYKQVRNMV 203


>gi|296111462|ref|YP_003621844.1| tRNA pseudouridine synthase A [Leuconostoc kimchii IMSNU 11154]
 gi|295832994|gb|ADG40875.1| tRNA pseudouridine synthase A [Leuconostoc kimchii IMSNU 11154]
          Length = 256

 Score =  127 bits (319), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 69/209 (33%), Positives = 111/209 (53%), Gaps = 6/209 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTS-----PPTIQCIVEKALIRVTKLEREDLRLVGASRTDTG 80
           +++ ++ YDG+ + G+Q QT        T+Q  + KA+ ++ K   E +++VGASRTDTG
Sbjct: 3   RYKAIVSYDGSGFFGFQVQTKNGIERQRTVQGELTKAVNQMAKNPTEPIKVVGASRTDTG 62

Query: 81  VHAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYK 140
           VHA+GQV HF  PF  +    +   LN LLP D+ ++++    P+FHARF+  +K Y Y+
Sbjct: 63  VHAFGQVVHFDLPFDINE-NGVRKGLNTLLPRDMLIKQVDKVTPDFHARFNTHAKRYIYR 121

Query: 141 IYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIF 200
           +      DPF+  Y  H  + L+   ++ A    +G+HDF++F              +  
Sbjct: 122 VSTQDFTDPFKRQYTGHFQWHLDIERIKSALPDLLGEHDFASFAASGNQTATTIRTITRA 181

Query: 201 RFDVIEMGALLQLEVEGSGFLYRQVRNMV 229
              +      L    EG+ FLY Q+R MV
Sbjct: 182 DVTIKPDDQELVFTFEGNAFLYNQIRIMV 210


>gi|170760365|ref|YP_001787307.1| tRNA pseudouridine synthase A [Clostridium botulinum A3 str. Loch
           Maree]
 gi|169407354|gb|ACA55765.1| tRNA pseudouridine synthase A [Clostridium botulinum A3 str. Loch
           Maree]
          Length = 246

 Score =  127 bits (319), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 75/200 (37%), Positives = 109/200 (54%), Gaps = 7/200 (3%)

Query: 28  RLVIGYDGTRYAGWQFQT-SPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           +L I YDG++Y GWQ Q  +  TIQ  +E  L  +T    ED+ L+ + RTDTGVHA  Q
Sbjct: 5   KLYIQYDGSKYNGWQKQKENDNTIQGKIENVLSLMTG---EDINLIASGRTDTGVHANMQ 61

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           VA+F T F     E ++      LP DI V +       FH+R + K K Y YKI N   
Sbjct: 62  VANFHTTFQGSTDEILNYCYE-YLPKDIVVYDAFHVDERFHSRLNVKKKKYTYKICNKKF 120

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
            D F   Y+YH    L+   M+EA  Y VG+HDF++F   +   ++   V++++  D+I+
Sbjct: 121 HDVFSRKYSYHIPETLDINAMKEACTYLVGRHDFASFTAARSKKKS--TVRTLYSIDIIK 178

Query: 207 MGALLQLEVEGSGFLYRQVR 226
               + L   GSGFL++ +R
Sbjct: 179 KDGYVDLVYLGSGFLHKMIR 198


>gi|311029085|ref|ZP_07707175.1| Pseudouridylate synthase I [Bacillus sp. m3-13]
          Length = 248

 Score =  127 bits (319), Expect = 4e-27,   Method: Compositional matrix adjust.
 Identities = 69/204 (33%), Positives = 114/204 (55%), Gaps = 5/204 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + + ++ YDG  + G+Q Q    T+Q  V++AL R+ K    ++++  + RTD GVHA G
Sbjct: 3   RLKCILTYDGAGFEGYQIQKEKRTVQLEVQRALSRIHK--GTEVKVSASGRTDAGVHAVG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF +P S   + +   ALN  LP DI V+++ +   +FHARF    K Y YK+    
Sbjct: 61  QVLHFDSPLSIP-VAAWQNALNAHLPKDIWVKKVESVSGDFHARFDVVKKEYRYKVSLAK 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             + F     YH  Y L+   ++EA  + +G+HDF++F + +      + V++I+  +V+
Sbjct: 120 DFNVFDRDQVYHYPYPLDLEAVKEACGHLIGEHDFTSFCSAKTE--VEDKVRTIYSLEVV 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
             G  L+  + G+GFLY  VR +V
Sbjct: 178 RNGEELEFRIIGNGFLYNMVRIIV 201


>gi|222529670|ref|YP_002573552.1| tRNA pseudouridine synthase A [Caldicellulosiruptor bescii DSM
           6725]
 gi|254789602|sp|B9MKC1.1|TRUA_ANATD RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|222456517|gb|ACM60779.1| tRNA pseudouridine synthase A [Caldicellulosiruptor bescii DSM
           6725]
          Length = 244

 Score =  127 bits (319), Expect = 4e-27,   Method: Compositional matrix adjust.
 Identities = 72/198 (36%), Positives = 109/198 (55%), Gaps = 6/198 (3%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L I YDGT Y GWQ Q +  TIQ  +E+A   + KL  E++ L+G+ RTD GVHA  Q A
Sbjct: 6   LTIEYDGTGYFGWQKQPNKKTIQGTIEEA---IKKLTGEEVNLIGSGRTDRGVHALNQKA 62

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +F T  S    +    ALN +LP DI +++   A  +F AR+SA+ K Y Y IYN     
Sbjct: 63  NFKTS-SKIPTDKFPLALNSVLPGDISIKDAVEAPLDFSARYSARQKTYKYLIYNKKSRP 121

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
               +YAY+  Y+L+   M+ A EYF+G++DF +F +   +  A   ++ ++   +    
Sbjct: 122 ALLRNYAYYYPYQLDVDAMQRACEYFIGEYDFKSFCSA--DSEAKTTIRRVYNAYLTFEN 179

Query: 209 ALLQLEVEGSGFLYRQVR 226
             + + +  +GFLY   R
Sbjct: 180 ECIAIYITANGFLYNMAR 197


>gi|86156809|ref|YP_463594.1| tRNA pseudouridine synthase A [Anaeromyxobacter dehalogenans 2CP-C]
 gi|85773320|gb|ABC80157.1| tRNA pseudouridine synthase A [Anaeromyxobacter dehalogenans 2CP-C]
          Length = 264

 Score =  127 bits (319), Expect = 4e-27,   Method: Compositional matrix adjust.
 Identities = 80/205 (39%), Positives = 112/205 (54%), Gaps = 9/205 (4%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +LV+ YDGT Y GWQ Q + P+IQ  VE+AL  + K  R   R+  A RTD GVHA GQV
Sbjct: 24  KLVLEYDGTAYVGWQVQPNGPSIQAEVERALATLHKAPR---RVTAAGRTDAGVHARGQV 80

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A F        +++    +N +LPPD+ VR  S     F AR SA+ K Y Y I N    
Sbjct: 81  ASFREDRPLP-VKAYVMGMNAVLPPDVAVRAASLEPDGFDARRSARGKRYRYVIENLPTR 139

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRAL-NPVKSIFRFDVI- 205
            P     A+   + L    +REAA + VG+HDF+AF   Q  D A  + V+ + R +V+ 
Sbjct: 140 APLTRLQAWQHFHPLELANVREAAAHLVGRHDFAAF---QAADCACEHAVREVRRLEVLG 196

Query: 206 EMGALLQLEVEGSGFLYRQVRNMVN 230
           E G  +++ +E + F+   VRN+V 
Sbjct: 197 EAGGRIEVVIEATAFVKHMVRNIVG 221


>gi|168184901|ref|ZP_02619565.1| tRNA pseudouridine synthase A [Clostridium botulinum Bf]
 gi|237795344|ref|YP_002862896.1| tRNA pseudouridine synthase A [Clostridium botulinum Ba4 str. 657]
 gi|182672019|gb|EDT83980.1| tRNA pseudouridine synthase A [Clostridium botulinum Bf]
 gi|229263868|gb|ACQ54901.1| tRNA pseudouridine synthase A [Clostridium botulinum Ba4 str. 657]
          Length = 246

 Score =  127 bits (319), Expect = 4e-27,   Method: Compositional matrix adjust.
 Identities = 75/200 (37%), Positives = 109/200 (54%), Gaps = 7/200 (3%)

Query: 28  RLVIGYDGTRYAGWQFQT-SPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           +L I YDG++Y GWQ Q  +  TIQ  +E  L  +T    ED+ L+ + RTDTGVHA  Q
Sbjct: 5   KLYIQYDGSKYNGWQKQKENDNTIQGKIENVLSLMTG---EDINLIASGRTDTGVHANMQ 61

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           VA+F T F     E ++      LP DI V +       FH+R + K K Y YKI N   
Sbjct: 62  VANFHTTFQGSTDEILNYCYE-YLPKDIVVYDAFHVDERFHSRLNVKKKKYTYKICNKKF 120

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
            D F   Y+YH    L+   M+EA  Y VG+HDF++F   +   ++   V++++  D+I+
Sbjct: 121 HDVFSRKYSYHIPETLDINAMKEACTYLVGRHDFASFTAARSKKKS--TVRTLYSIDIIK 178

Query: 207 MGALLQLEVEGSGFLYRQVR 226
               + L   GSGFL++ +R
Sbjct: 179 KDGYVDLVYLGSGFLHKMIR 198


>gi|449947841|ref|ZP_21807663.1| tRNA pseudouridine synthase A [Streptococcus mutans 11SSST2]
 gi|449999194|ref|ZP_21824364.1| tRNA pseudouridine synthase A [Streptococcus mutans N29]
 gi|450028728|ref|ZP_21832351.1| tRNA pseudouridine synthase A [Streptococcus mutans G123]
 gi|450098081|ref|ZP_21857802.1| tRNA pseudouridine synthase A [Streptococcus mutans SF1]
 gi|450171486|ref|ZP_21884033.1| tRNA pseudouridine synthase A [Streptococcus mutans SM4]
 gi|449168197|gb|EMB71030.1| tRNA pseudouridine synthase A [Streptococcus mutans 11SSST2]
 gi|449187115|gb|EMB88912.1| tRNA pseudouridine synthase A [Streptococcus mutans N29]
 gi|449195287|gb|EMB96617.1| tRNA pseudouridine synthase A [Streptococcus mutans G123]
 gi|449221829|gb|EMC21581.1| tRNA pseudouridine synthase A [Streptococcus mutans SF1]
 gi|449244031|gb|EMC42425.1| tRNA pseudouridine synthase A [Streptococcus mutans SM4]
          Length = 249

 Score =  127 bits (319), Expect = 4e-27,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 111/206 (53%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDGT ++G+Q Q    T+Q  +EK L+R+     + +++ GA RTD GVHA+G
Sbjct: 3   RYKAIISYDGTNFSGFQRQPQVRTVQEEIEKTLLRLN--SGQAVKVHGAGRTDAGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P   D LE +   L+   P DI V ++     +FHAR+    K Y + +    
Sbjct: 61  QVIHFDLPQQRD-LEKLRFGLDTQTPDDIDVIQVEQVADDFHARYQKHRKTYEFLVDLGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV- 204
             +P   HYA H  YK++ ++++ A +   G HDF+ F          N V++I R  V 
Sbjct: 120 PKNPLMRHYATHFPYKVDFSVVKAAIKKLRGTHDFTGFT--ASGTSVENKVRTISRATVE 177

Query: 205 -IEMGALLQLEVEGSGFLYRQVRNMV 229
             +    L     GSGFLY+QVRNMV
Sbjct: 178 KDDKTGFLIFTFTGSGFLYKQVRNMV 203


>gi|212704912|ref|ZP_03313040.1| hypothetical protein DESPIG_02979 [Desulfovibrio piger ATCC 29098]
 gi|212671683|gb|EEB32166.1| tRNA pseudouridine synthase A [Desulfovibrio piger ATCC 29098]
          Length = 264

 Score =  127 bits (319), Expect = 4e-27,   Method: Compositional matrix adjust.
 Identities = 84/223 (37%), Positives = 117/223 (52%), Gaps = 19/223 (8%)

Query: 20  DSFPGFKWRLVIGYDGTRYAGWQFQ---TSPPTIQCIVEKALIRVTKLEREDLRLVGASR 76
           D+    + RL++ YDG+RY GWQ Q   T PPT+Q  VE A+ R+       +R+ G+ R
Sbjct: 3   DTSSTMRLRLLLAYDGSRYCGWQIQDIPTPPPTVQAAVEAAVGRIAG---RPVRVFGSGR 59

Query: 77  TDTGVHAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKI 136
           TD GVHA GQVAH   P    GL+  H ALN LLP D+RV     A P+FHAR SA  K 
Sbjct: 60  TDAGVHAHGQVAHCDVP-RRPGLDWRH-ALNALLPADVRVLYWQEAAPDFHARISALRKT 117

Query: 137 YHYKIYND-AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVN----IQRNDR 191
           Y Y  + +   + P    + + S   L+   MR A  + +G+HDF++F N    ++   R
Sbjct: 118 YVYDFWQEKGFVPPRLAPFVWRS-GPLDAEAMRAALPFLLGRHDFASFQNAGTEMESTVR 176

Query: 192 ALNPVKSIFRFDVIEMG----ALLQLEVEGSGFLYRQVRNMVN 230
            L    ++     +E        L+L V  +GFL + VRNM  
Sbjct: 177 ELQ-AATLTELPPVEFMPPCLPCLRLTVTANGFLKQMVRNMAG 218


>gi|197303593|ref|ZP_03168631.1| hypothetical protein RUMLAC_02321 [Ruminococcus lactaris ATCC
           29176]
 gi|197297327|gb|EDY31889.1| tRNA pseudouridine synthase A [Ruminococcus lactaris ATCC 29176]
          Length = 264

 Score =  127 bits (319), Expect = 4e-27,   Method: Compositional matrix adjust.
 Identities = 80/202 (39%), Positives = 109/202 (53%), Gaps = 10/202 (4%)

Query: 27  WRLVIGYDGTRYAGWQFQTSPP-TIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +RLVI YDGT Y GWQ Q +   TIQ I+E     ++K     + + G+ RTD GVHA G
Sbjct: 16  YRLVIAYDGTAYQGWQRQANTEMTIQGILESC---ISKAAGYAVEVNGSGRTDAGVHARG 72

Query: 86  QVAHFIT-PFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           Q A  +    + DG       +N LLPPDIR+RE       FHAR SA  K Y Y+I  D
Sbjct: 73  QTASVVLHGKAEDGF--FTEKVNKLLPPDIRIREAGLEKNGFHARKSAVGKRYVYQIDTD 130

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
              D F   Y YH   KL+   M++AAE   G H+F+A+ +  + D   +  ++I+   V
Sbjct: 131 EKPDVFDRRYTYHFPKKLDIAAMQQAAELLTGTHEFAAYTD--KKDET-STKRTIYAIMV 187

Query: 205 IEMGALLQLEVEGSGFLYRQVR 226
              G  + ++ EG+GFLY  VR
Sbjct: 188 GGQGGRINIQYEGTGFLYHMVR 209


>gi|260589149|ref|ZP_05855062.1| tRNA pseudouridine synthase A [Blautia hansenii DSM 20583]
 gi|331082565|ref|ZP_08331690.1| tRNA pseudouridine synthase A [Lachnospiraceae bacterium 6_1_63FAA]
 gi|260540569|gb|EEX21138.1| tRNA pseudouridine synthase A [Blautia hansenii DSM 20583]
 gi|330400543|gb|EGG80173.1| tRNA pseudouridine synthase A [Lachnospiraceae bacterium 6_1_63FAA]
          Length = 245

 Score =  127 bits (319), Expect = 4e-27,   Method: Compositional matrix adjust.
 Identities = 69/201 (34%), Positives = 105/201 (52%), Gaps = 6/201 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + +L + YDGT Y GWQ Q +  T+Q ++ + L   T    E++  +GASRTD GVHA G
Sbjct: 3   RVKLTVAYDGTNYCGWQVQPNGITVQEVLNQCLSEFTG---ENIETIGASRTDAGVHALG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
            VA F T     G +    ALN  LP DIR+++      +FH R+    K Y Y+I N  
Sbjct: 60  NVAVFDTEMRMPG-DKFSFALNQRLPEDIRIQKSEEVDADFHPRYVKSQKTYEYRILNCR 118

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
              P +  Y++ +   L+   M+EAA Y +G+HDF +F       +    V+++    + 
Sbjct: 119 FPIPTERFYSHFTYIPLDVDKMKEAASYLIGEHDFKSFCGT--GAQVKTTVRTVKEIQIE 176

Query: 206 EMGALLQLEVEGSGFLYRQVR 226
           + G  + + + G GFLY  VR
Sbjct: 177 KSGDRITIRITGEGFLYNMVR 197


>gi|315283801|ref|ZP_07871873.1| tRNA pseudouridine synthase A [Listeria marthii FSL S4-120]
 gi|313612551|gb|EFR86621.1| tRNA pseudouridine synthase A [Listeria marthii FSL S4-120]
          Length = 248

 Score =  127 bits (319), Expect = 4e-27,   Method: Compositional matrix adjust.
 Identities = 72/202 (35%), Positives = 112/202 (55%), Gaps = 6/202 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDG+ + G+Q Q +  T+Q  +EKAL ++ K   + +R+  + RTDTGVHA G
Sbjct: 3   RYKAIISYDGSGFYGYQVQPNTRTVQAEIEKALKKMHK--GKSVRITASGRTDTGVHAKG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF +       E    AL  + P DI    +     +FHARF    K Y Y +    
Sbjct: 61  QVIHFDSELDITA-EKFQKALQVMTPFDISFLRVEEVADDFHARFGTVGKEYRYVVKRTK 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           V DPF  ++A H  Y+LN   M+ A+E  +G+HDF++F +  R +R  + V++++  D  
Sbjct: 120 VFDPFSRNFALHYPYELNLAKMKLASERLIGEHDFTSFCS-ARTERD-SKVRTLYSIDFY 177

Query: 206 EM-GALLQLEVEGSGFLYRQVR 226
           E     L +  +G+GFLY  VR
Sbjct: 178 EEDDETLVIAFQGNGFLYNMVR 199


>gi|420265949|ref|ZP_14768461.1| tRNA pseudouridine synthase [Lactobacillus mali KCTC 3596 = DSM
           20444]
 gi|394426812|gb|EJE99604.1| tRNA pseudouridine synthase [Lactobacillus mali KCTC 3596 = DSM
           20444]
          Length = 250

 Score =  127 bits (319), Expect = 4e-27,   Method: Compositional matrix adjust.
 Identities = 75/204 (36%), Positives = 117/204 (57%), Gaps = 8/204 (3%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           + + YDGT +AG+Q Q +  T+Q ++EKA+ +++   +E + + G+ RTD GVHA+GQ+ 
Sbjct: 2   ITLAYDGTNFAGFQSQPNQRTVQDVLEKAVNKMST-AKEFVHIFGSGRTDAGVHAFGQIV 60

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           HF         + I   LN +LP D++V +      EFHARF+A  K Y Y++     +D
Sbjct: 61  HFDLENDIPA-QGIVNGLNSMLPLDMQVVDAKIVSKEFHARFTAHGKRYMYRVSRGRFVD 119

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV---I 205
           PF+  Y  H  Y LN  L++EA    +G HD+S+FV      +  + V++I+   V   +
Sbjct: 120 PFKRFYTGHYKYPLNIELIKEAIPDVIGTHDYSSFV--ASGSQTKSHVRTIYDATVRENL 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E   ++  E  G+GFLY QVR MV
Sbjct: 178 ENNEII-FEFYGNGFLYNQVRIMV 200


>gi|253682551|ref|ZP_04863348.1| tRNA pseudouridine synthase A [Clostridium botulinum D str. 1873]
 gi|253562263|gb|EES91715.1| tRNA pseudouridine synthase A [Clostridium botulinum D str. 1873]
          Length = 246

 Score =  127 bits (319), Expect = 4e-27,   Method: Compositional matrix adjust.
 Identities = 74/201 (36%), Positives = 110/201 (54%), Gaps = 5/201 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L+I YDG+ Y+GWQ Q    T+Q  VE+A+  +TK + E   ++G SRTD GVHA   V
Sbjct: 6   KLIIEYDGSNYSGWQKQKHSITVQQKVEEAISEITKTDTE---IIGCSRTDAGVHARNFV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A+FIT  S         A+N  LP DI +++ S    +FHARF +K K Y Y I N    
Sbjct: 63  ANFITESSVPP-SKFKYAINSKLPKDIVIKKSSEVPLDFHARFHSKGKKYVYTILNREEP 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
                +  YH    L+   M+ A++YF+G H+F +F   +      + +++I+  DV + 
Sbjct: 122 PTIDRNVMYHFNKDLDVNAMKMASKYFIGSHEFDSFYK-KSGSSVKSTLRTIYYCDVTKC 180

Query: 208 GALLQLEVEGSGFLYRQVRNM 228
             +++  V G GFLY  VR M
Sbjct: 181 EDVIKFTVIGEGFLYNMVRIM 201


>gi|450047043|ref|ZP_21839291.1| tRNA pseudouridine synthase A [Streptococcus mutans N34]
 gi|450158933|ref|ZP_21879126.1| tRNA pseudouridine synthase A [Streptococcus mutans 66-2A]
 gi|449198042|gb|EMB99174.1| tRNA pseudouridine synthase A [Streptococcus mutans N34]
 gi|449241792|gb|EMC40410.1| tRNA pseudouridine synthase A [Streptococcus mutans 66-2A]
          Length = 249

 Score =  127 bits (319), Expect = 4e-27,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 111/206 (53%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDGT ++G+Q Q    T+Q  +EK L+R+     + +++ GA RTD GVHA+G
Sbjct: 3   RYKAIISYDGTNFSGFQRQPQMRTVQEEIEKTLLRLN--SGQAVKIHGAGRTDAGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P   D LE +   L+   P DI V ++     +FHAR+    K Y + +    
Sbjct: 61  QVIHFDLPQQRD-LEKLRFGLDTQTPDDIDVIQVEQVADDFHARYHKHRKTYEFLVDLGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV- 204
             +P   HYA H  YK++ ++++ A +   G HDF+ F          N V++I R  V 
Sbjct: 120 PKNPLMRHYATHFPYKVDFSVVKAAIKKLRGTHDFTGFT--ASGTSVENKVRTISRATVE 177

Query: 205 -IEMGALLQLEVEGSGFLYRQVRNMV 229
             +    L     GSGFLY+QVRNMV
Sbjct: 178 KDDKTGFLIFTFTGSGFLYKQVRNMV 203


>gi|410459899|ref|ZP_11313588.1| tRNA pseudouridine synthase A [Bacillus azotoformans LMG 9581]
 gi|409928010|gb|EKN65134.1| tRNA pseudouridine synthase A [Bacillus azotoformans LMG 9581]
          Length = 245

 Score =  127 bits (319), Expect = 4e-27,   Method: Compositional matrix adjust.
 Identities = 72/204 (35%), Positives = 116/204 (56%), Gaps = 5/204 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + +  I YDGT ++G+Q Q++  T+Q  +EKAL ++ K   E++R+  + RTD GVHA G
Sbjct: 3   RLKCTIAYDGTNFSGFQVQSNGRTVQGDIEKALFKLHK--GEEIRIHPSGRTDAGVHAHG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF +P S   ++    ALN LLP DI    I     +FHAR++   K Y Y + N  
Sbjct: 61  QVIHFDSPLSIP-VDRYQMALNTLLPDDIVALTIENVNTDFHARYNVVKKEYRYFLLNQK 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             D F+ +++Y+  Y +N   + EA +Y +G HDF++F + + +    N V++I   ++ 
Sbjct: 120 ERDVFRKNHSYYYPYAINLDRIIEATKYLLGAHDFTSFCSTKSDKE--NKVRTIEEIEIW 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           +    +     G+GFLY  VR +V
Sbjct: 178 KENNEIVFRFVGNGFLYNMVRIIV 201


>gi|170754451|ref|YP_001781475.1| tRNA pseudouridine synthase A [Clostridium botulinum B1 str. Okra]
 gi|429246235|ref|ZP_19209574.1| tRNA pseudouridine synthase A [Clostridium botulinum CFSAN001628]
 gi|169119663|gb|ACA43499.1| tRNA pseudouridine synthase A [Clostridium botulinum B1 str. Okra]
 gi|428756753|gb|EKX79286.1| tRNA pseudouridine synthase A [Clostridium botulinum CFSAN001628]
          Length = 246

 Score =  127 bits (319), Expect = 4e-27,   Method: Compositional matrix adjust.
 Identities = 74/200 (37%), Positives = 110/200 (55%), Gaps = 7/200 (3%)

Query: 28  RLVIGYDGTRYAGWQFQT-SPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           +L I YDG++Y GWQ Q  +  TIQ  +E  L  +T    ED+ L+ + RTDTGVHA  Q
Sbjct: 5   KLYIQYDGSKYNGWQKQKENDNTIQGKIENVLSLMTG---EDINLIASGRTDTGVHANMQ 61

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           VA+F T F     E ++      LP DI V +       FH+R + K K Y YKI N   
Sbjct: 62  VANFHTTFQCSTDEILNYCYE-YLPKDIVVYDAFHVDERFHSRLNVKKKKYTYKICNKKF 120

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
            D F   Y+YH    L+   M+EA  Y VG+HDF++F   +   ++   V++++  D+I+
Sbjct: 121 HDVFSRKYSYHVPETLDIEAMKEACTYLVGRHDFASFTAARSKKKS--TVRTLYSIDIIK 178

Query: 207 MGALLQLEVEGSGFLYRQVR 226
             + + +   GSGFL++ +R
Sbjct: 179 KDSYVDIVYLGSGFLHKMIR 198


>gi|148379875|ref|YP_001254416.1| tRNA pseudouridine synthase A [Clostridium botulinum A str. ATCC
           3502]
 gi|153930931|ref|YP_001384172.1| tRNA pseudouridine synthase A [Clostridium botulinum A str. ATCC
           19397]
 gi|153935153|ref|YP_001387713.1| tRNA pseudouridine synthase A [Clostridium botulinum A str. Hall]
 gi|148289359|emb|CAL83455.1| tRNA pseudouridine synthase [Clostridium botulinum A str. ATCC
           3502]
 gi|152926975|gb|ABS32475.1| tRNA pseudouridine synthase A [Clostridium botulinum A str. ATCC
           19397]
 gi|152931067|gb|ABS36566.1| tRNA pseudouridine synthase A [Clostridium botulinum A str. Hall]
          Length = 246

 Score =  127 bits (319), Expect = 4e-27,   Method: Compositional matrix adjust.
 Identities = 74/200 (37%), Positives = 110/200 (55%), Gaps = 7/200 (3%)

Query: 28  RLVIGYDGTRYAGWQFQT-SPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           +L I YDG++Y GWQ Q  +  TIQ  +E  L  +T    ED+ L+ + RTDTGVHA  Q
Sbjct: 5   KLYIQYDGSKYNGWQKQKENDNTIQGKIENVLSLMTG---EDINLIASGRTDTGVHANMQ 61

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           VA+F T F     + I +     LP DI V +       FH+R + K K Y YKI N   
Sbjct: 62  VANFHTTFQ-GSTDEILSYCYEYLPKDIVVYDAFHVDERFHSRLNVKKKKYTYKICNKKF 120

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
            D F   Y+YH    L+   M+EA  Y VG+HDF++F   +   ++   V++++  D+I+
Sbjct: 121 HDVFSRKYSYHVPETLDIEAMKEACTYLVGRHDFASFTAARSKKKS--TVRTLYSIDIIK 178

Query: 207 MGALLQLEVEGSGFLYRQVR 226
             + + +   GSGFL++ +R
Sbjct: 179 KDSYVDIVYLGSGFLHKMIR 198


>gi|406980140|gb|EKE01792.1| hypothetical protein ACD_21C00052G0010 [uncultured bacterium]
          Length = 252

 Score =  127 bits (319), Expect = 4e-27,   Method: Compositional matrix adjust.
 Identities = 78/204 (38%), Positives = 110/204 (53%), Gaps = 12/204 (5%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L I YDGT Y GWQ Q +  TIQ  VE AL   +++  + ++++ A RTD GVHA GQV 
Sbjct: 5   LGIEYDGTNYCGWQRQDNVCTIQEKVEDAL---SQIAVQPIKVICAGRTDAGVHALGQVV 61

Query: 89  HFITPFSYDGLESIHAALNGL---LPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           HF T    D   S  A + G    LP DIRV        +FHAR+SA ++ Y Y IYN+ 
Sbjct: 62  HFDT----DAKRSDQAWIMGTNCNLPADIRVLWARHVADDFHARYSATARQYRYIIYNNK 117

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           V      H A  S + LN   M EA +Y +GKHDFS+F       +A    +++    V 
Sbjct: 118 VASAILRHRAMWSPFVLNEKSMHEAGQYLIGKHDFSSFRG--SGCQAKTAERTVISLVVA 175

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
             G ++ ++++ + FL   VR++V
Sbjct: 176 RNGHMITIDIKANAFLLHMVRSIV 199


>gi|417934521|ref|ZP_12577841.1| tRNA pseudouridine synthase A [Streptococcus mitis bv. 2 str.
           F0392]
 gi|340771091|gb|EGR93606.1| tRNA pseudouridine synthase A [Streptococcus mitis bv. 2 str.
           F0392]
          Length = 249

 Score =  127 bits (319), Expect = 4e-27,   Method: Compositional matrix adjust.
 Identities = 75/206 (36%), Positives = 107/206 (51%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDG  +AG+Q Q    ++Q  +EK L R+ K     + + GA RTD+GVHA G
Sbjct: 3   RYKAIISYDGYAFAGFQRQPHARSVQEEIEKTLTRLNK--GRAITVHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D  E +  AL+   P DI V  I     +FH R++  SK Y + +    
Sbjct: 61  QVIHFDLPYQMDE-EKLRFALDTQSPEDIDVISIEIVADDFHCRYAKHSKTYEFIVDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFR--FD 203
             +P + HYA H  Y L+   M+ A +   G HDF+ F          N V++I      
Sbjct: 120 PKNPMRRHYATHFPYPLDVERMQAAIKKLEGTHDFTGFT--ASGTSVENKVRTITEASLS 177

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
           V E G  L     G+GFLY+Q+RNMV
Sbjct: 178 VDETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|312135434|ref|YP_004002772.1| tRNA pseudouridine synthase a [Caldicellulosiruptor owensensis OL]
 gi|311775485|gb|ADQ04972.1| tRNA pseudouridine synthase A [Caldicellulosiruptor owensensis OL]
          Length = 244

 Score =  127 bits (319), Expect = 4e-27,   Method: Compositional matrix adjust.
 Identities = 74/198 (37%), Positives = 108/198 (54%), Gaps = 6/198 (3%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L I YDGT Y GWQ Q +  TIQ  +E+A   + KL  E++ L+G+ RTD GVHA  Q A
Sbjct: 6   LTIEYDGTGYFGWQKQPNKKTIQGTIEEA---IKKLTGEEVNLIGSGRTDRGVHALNQKA 62

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +F T  S    +    ALN +LP DI V++      +F AR+SAK K Y Y IYN     
Sbjct: 63  NFKTS-SKIPTDKFPLALNSVLPGDISVKDAVEVPLDFSARYSAKQKTYKYLIYNKKSRP 121

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
               +YAY+  Y+L+   M+ A EYF+G++DF +F +   +  A   ++ I+   +    
Sbjct: 122 ALLRNYAYYYPYELDVDAMQRACEYFIGEYDFKSFCS--ADSEAKTTIRHIYNAYLTFEN 179

Query: 209 ALLQLEVEGSGFLYRQVR 226
             + + +  +GFLY   R
Sbjct: 180 ECIAIYITANGFLYNMAR 197


>gi|54114177|gb|AAV29722.1| NT02FT0202 [synthetic construct]
          Length = 258

 Score =  127 bits (319), Expect = 4e-27,   Method: Compositional matrix adjust.
 Identities = 71/204 (34%), Positives = 117/204 (57%), Gaps = 12/204 (5%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L IGY G  Y GWQ Q+  P++Q  +EKAL   +K+  +++ +  A RTDTGVHA  Q+ 
Sbjct: 6   LQIGYFGKNYCGWQRQSHSPSVQEELEKAL---SKIANQNIEVTCAGRTDTGVHATSQIV 62

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +F +  +   L +    +N LLP DI++  +      F++RF+A ++ Y+Y IYN A   
Sbjct: 63  NFYSN-ADRPLSAWQRGVNALLPQDIKILAVQQVDNNFNSRFTAINRTYNYIIYNSATSS 121

Query: 149 PFQHHYAYHSVYK---LNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           P    +A H +++   L+   M +A EY +G+ DFS+F + Q       P ++I + + I
Sbjct: 122 PI---FAEHCLWENRELDIDKMNQACEYLLGEQDFSSFRSSQCQSNT--PFRNIQKAEFI 176

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           + G+ +  EV G+ FL+  +RN+V
Sbjct: 177 KQGSFIVFEVVGNAFLHHMIRNLV 200


>gi|334128709|ref|ZP_08502590.1| tRNA pseudouridine synthase A [Centipeda periodontii DSM 2778]
 gi|333386446|gb|EGK57660.1| tRNA pseudouridine synthase A [Centipeda periodontii DSM 2778]
          Length = 258

 Score =  127 bits (319), Expect = 4e-27,   Method: Compositional matrix adjust.
 Identities = 79/207 (38%), Positives = 115/207 (55%), Gaps = 14/207 (6%)

Query: 29  LVIGYDGTRYAGWQFQTSPP-TIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           L + YDGT Y G+Q QT P   +Q ++E+AL +V     E + L  A RTD GVHA+GQV
Sbjct: 10  LTVAYDGTNYHGFQRQTPPVVAVQNVLERALAKVCG---EQVELAAAGRTDAGVHAYGQV 66

Query: 88  AHFITPFSYDG---LESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
            +F T    DG   +E +  A+NGLLPPDI V +   A  +F AR +A  K Y Y++   
Sbjct: 67  VNFFT----DGRIPVERLPRAVNGLLPPDIVVTKAWEAQRDFSARHAATGKAYAYRLEEC 122

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
            + +PF  +YA+     L+   MR A    VG HD+S+F         ++PV+++    +
Sbjct: 123 TIPNPFTRNYAWQIFRPLDHAAMRAALSMLVGTHDYSSFRAA--GGAPMSPVRTLDEIRL 180

Query: 205 IEMGA-LLQLEVEGSGFLYRQVRNMVN 230
            E GA      + G+GFLY  VRN+++
Sbjct: 181 DEEGAGRFSCYLHGNGFLYHMVRNIMS 207


>gi|450120607|ref|ZP_21865803.1| tRNA pseudouridine synthase A [Streptococcus mutans ST6]
 gi|449230100|gb|EMC29379.1| tRNA pseudouridine synthase A [Streptococcus mutans ST6]
          Length = 249

 Score =  127 bits (319), Expect = 4e-27,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 112/206 (54%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDGT ++G+Q Q    T+Q  +EK L+R+     + +++ GA RTD GVHA+G
Sbjct: 3   RYKAIISYDGTNFSGFQRQPQMRTVQEEIEKTLLRLN--SGQAVKVHGAGRTDAGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P   D LE +   L+   P DI V ++     +FHAR+    K Y + +    
Sbjct: 61  QVIHFDLPQQRD-LEKLRFGLDTQTPDDIDVIQVEQVADDFHARYQKHRKTYEFLVDLGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV- 204
             +P   HYA H  YK++ ++++ A +   G HDF+ F     +    N V++I R  V 
Sbjct: 120 PKNPLMRHYATHFPYKVDFSVVKAAIKKLRGTHDFTGFTAAGTS--VENKVRTISRATVE 177

Query: 205 -IEMGALLQLEVEGSGFLYRQVRNMV 229
             +    L     GSGFLY+QVRNMV
Sbjct: 178 KDDKTGFLIFTFTGSGFLYKQVRNMV 203


>gi|450061243|ref|ZP_21843700.1| tRNA pseudouridine synthase A [Streptococcus mutans NLML5]
 gi|450083279|ref|ZP_21852829.1| tRNA pseudouridine synthase A [Streptococcus mutans N66]
 gi|449207584|gb|EMC08255.1| tRNA pseudouridine synthase A [Streptococcus mutans NLML5]
 gi|449213535|gb|EMC13867.1| tRNA pseudouridine synthase A [Streptococcus mutans N66]
          Length = 249

 Score =  127 bits (318), Expect = 4e-27,   Method: Compositional matrix adjust.
 Identities = 73/206 (35%), Positives = 112/206 (54%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDGT ++G+Q Q    T+Q  +EK L+R+     + +++ GA RTD GVHA+G
Sbjct: 3   RYKAIISYDGTNFSGFQRQPQMRTVQEEIEKTLLRLN--SGQAVKIHGAGRTDAGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P   D LE +   L+   P DI V ++     +FHAR+    K Y + +    
Sbjct: 61  QVIHFDLPQQRD-LEKLRFGLDTQTPDDIDVIQVEQVADDFHARYQKHRKTYEFLVDLGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV- 204
             +P   HYA H  YK++ ++++ A +   G HDF+ F     +    N +++I R  V 
Sbjct: 120 PKNPLMRHYATHFPYKVDFSVVKAAIKKLRGTHDFTGFTAAGTS--VENKIRTISRATVE 177

Query: 205 -IEMGALLQLEVEGSGFLYRQVRNMV 229
             +    L     GSGFLY+QVRNMV
Sbjct: 178 KDDKTGFLIFTFTGSGFLYKQVRNMV 203


>gi|440785495|ref|ZP_20962252.1| tRNA pseudouridine synthase A [Clostridium pasteurianum DSM 525]
 gi|440218391|gb|ELP57613.1| tRNA pseudouridine synthase A [Clostridium pasteurianum DSM 525]
          Length = 244

 Score =  127 bits (318), Expect = 4e-27,   Method: Compositional matrix adjust.
 Identities = 70/202 (34%), Positives = 112/202 (55%), Gaps = 6/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L+I YDGT Y+GWQ Q +  T++ ++EK+L  +T    E+++++G+SRTD GVHA G V
Sbjct: 5   KLIIEYDGTNYSGWQIQKNVITVEQVIEKSLNDITG---ENIKIIGSSRTDAGVHAKGFV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            +F T  S    +     LNG LP DI +         F++RF ++ K Y Y I +    
Sbjct: 62  GNFFTE-SKIPCDRFRNILNGKLPKDIVILNSEEVQLSFNSRFDSRGKTYSYTILSTPQR 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
                +Y YH    L+  L+ EA++ F+G HDF+AF +   N +    V++I   ++I+ 
Sbjct: 121 PAIGRNYVYHFRKNLDLGLILEASKEFIGTHDFAAFKSSGGNTKT--TVRTISNLEIIKR 178

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
              +   + G GFLY  VR ++
Sbjct: 179 DDYIIFTITGDGFLYNMVRIII 200


>gi|257454808|ref|ZP_05620059.1| tRNA pseudouridine synthase A [Enhydrobacter aerosaccus SK60]
 gi|257447741|gb|EEV22733.1| tRNA pseudouridine synthase A [Enhydrobacter aerosaccus SK60]
          Length = 268

 Score =  127 bits (318), Expect = 4e-27,   Method: Compositional matrix adjust.
 Identities = 79/201 (39%), Positives = 107/201 (53%), Gaps = 10/201 (4%)

Query: 31  IGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVAHF 90
           I + GTRY GWQ Q    +IQ  VE AL   +K+  E + ++ A RTD GVHA   +AHF
Sbjct: 10  IEFIGTRYRGWQRQQEVDSIQQHVEAAL---SKIANEPIEVIAAGRTDAGVHASNMIAHF 66

Query: 91  ITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDPF 150
            T  +      + AA N LLP DI VR I     EFHARFSA ++ Y Y   N       
Sbjct: 67  QTSATRQPYNWLRAA-NSLLPDDIAVRWIQVMPAEFHARFSAIARRYRYITLNHPFRPAI 125

Query: 151 QHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAF--VNIQRNDRALNPVKSIFRFDVIEMG 208
            +    H    LN  LM++AA Y  G HDF++F   + Q N     PV+ +    +I+ G
Sbjct: 126 LNQQITHEYAPLNVQLMQQAATYLEGTHDFTSFRAASCQSNQ----PVRHVHFAKLIQHG 181

Query: 209 ALLQLEVEGSGFLYRQVRNMV 229
            LL L+++  GFL+  VRN++
Sbjct: 182 ELLVLDIQADGFLHHMVRNIM 202


>gi|168705501|ref|ZP_02737778.1| tRNA pseudouridine synthase A [Gemmata obscuriglobus UQM 2246]
          Length = 263

 Score =  127 bits (318), Expect = 5e-27,   Method: Compositional matrix adjust.
 Identities = 77/199 (38%), Positives = 106/199 (53%), Gaps = 5/199 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L+I YDGT + GWQ Q    T+Q  VEKA+  +T+  R  +RL  + RTD+GVHA GQV
Sbjct: 5   KLIIRYDGTDFFGWQTQPGRRTVQETVEKAIAEITREPR--VRLNCSGRTDSGVHAVGQV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A+  T  S      +  A+N  LP D+ VRE++ A   F A   A  K+Y Y + +  + 
Sbjct: 63  ANVYTA-SKLSCAVLLKAINAKLPEDVGVREVTEAPQSFCANKDAVRKMYRYVVQDGRLQ 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           DPF   YA+     LN   M  A+   VG+HDF  F     N   L  V++I    V   
Sbjct: 122 DPFLRKYAWFVRQHLNAEAMARASRCLVGRHDFRCFETEWPNR--LTSVRTITHLSVNRF 179

Query: 208 GALLQLEVEGSGFLYRQVR 226
           G  + ++VE +GFLY  VR
Sbjct: 180 GECIWIDVEANGFLYNMVR 198


>gi|335419695|ref|ZP_08550744.1| tRNA pseudouridine synthase A [Salinisphaera shabanensis E1L3A]
 gi|334896227|gb|EGM34381.1| tRNA pseudouridine synthase A [Salinisphaera shabanensis E1L3A]
          Length = 259

 Score =  127 bits (318), Expect = 5e-27,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 108/206 (52%), Gaps = 6/206 (2%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
            +W   + YDG+ Y GWQ Q    ++Q  +E AL   T+L    +R + + RTDTGVHA 
Sbjct: 1   MRWAACVEYDGSAYHGWQSQPHASSVQDTLEAAL---TRLAAAPIRTICSGRTDTGVHAQ 57

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           GQ+ HF T         +    N  LP DI ++ +      FHARF A ++ Y Y I + 
Sbjct: 58  GQIVHFDTEVERSERAWL-LGTNRYLPEDIALQWVVPVPQAFHARFGAVAREYRYWILDR 116

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
                   + AYHS ++L+   M+ AA++ VG HDFSAF       +A  P + + R DV
Sbjct: 117 TAPSALWRNRAYHSHHRLDVDAMQTAAQHLVGYHDFSAFRAAA--CQAKTPWRDLTRCDV 174

Query: 205 IEMGALLQLEVEGSGFLYRQVRNMVN 230
           +  G  ++LEV  + FL+  VRN+V 
Sbjct: 175 VRRGDWIRLEVRANAFLHHMVRNIVG 200


>gi|430748644|ref|YP_007211552.1| pseudouridylate synthase I [Thermobacillus composti KWC4]
 gi|430732609|gb|AGA56554.1| pseudouridylate synthase I [Thermobacillus composti KWC4]
          Length = 258

 Score =  127 bits (318), Expect = 5e-27,   Method: Compositional matrix adjust.
 Identities = 79/198 (39%), Positives = 109/198 (55%), Gaps = 6/198 (3%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L++ YDGT Y G+Q Q    TIQ  +E+A+  +T     D+R+ G+ RTD GVHA GQV 
Sbjct: 6   LIVSYDGTAYRGFQTQPGGGTIQDELERAIRSLTGT---DIRVEGSGRTDAGVHALGQVV 62

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +F T      +E    ALNG LP DI VR       +FHAR+SA  K Y Y I      +
Sbjct: 63  NFRTETPIP-IEKWALALNGRLPDDIIVRSAHEMPEDFHARYSAIRKTYRYSISTGKFPE 121

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
            F   Y YH    L+   MR++ ++FVG+HDF+AF +     +  + V++I+   +   G
Sbjct: 122 IFTARYRYHHYRPLDEDAMRDSLKFFVGEHDFTAFSSAGAPRK--SNVRTIYEARLERDG 179

Query: 209 ALLQLEVEGSGFLYRQVR 226
             L L + GSGFLY  VR
Sbjct: 180 GDLHLYLTGSGFLYNMVR 197


>gi|225388793|ref|ZP_03758517.1| hypothetical protein CLOSTASPAR_02531 [Clostridium asparagiforme
           DSM 15981]
 gi|225045068|gb|EEG55314.1| hypothetical protein CLOSTASPAR_02531 [Clostridium asparagiforme
           DSM 15981]
          Length = 250

 Score =  127 bits (318), Expect = 5e-27,   Method: Compositional matrix adjust.
 Identities = 78/203 (38%), Positives = 110/203 (54%), Gaps = 5/203 (2%)

Query: 25  FKWRLVIGYDGTRYAGWQFQ-TSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHA 83
             +++++ YDGTRY GWQ Q  +  TIQ  +E  L R   L  E L + G+ RTD GVHA
Sbjct: 1   MNYKMILQYDGTRYDGWQRQGNTDRTIQGKLEAVLGR---LAEETLEVHGSGRTDGGVHA 57

Query: 84  WGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYN 143
            GQVA+F    + +  E I A LN  LP DI V E++AA   FH+R +A  K Y Y+I+ 
Sbjct: 58  RGQVANFHLKQAREP-EEIRAYLNRYLPEDICVLELTAAPERFHSRLNACRKTYRYQIWM 116

Query: 144 DAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFD 203
           D   D FQ  Y Y    +L+   M  AA   +G HDF +F   ++  ++     +  R  
Sbjct: 117 DGKTDVFQRDYFYGLGKQLDIGQMERAAGTLLGTHDFKSFCGNKKMKKSTVRTITAIRLI 176

Query: 204 VIEMGALLQLEVEGSGFLYRQVR 226
            +  G  L ++V G+GFL + VR
Sbjct: 177 RLCDGKALAVDVTGNGFLQQMVR 199


>gi|149797294|ref|YP_001294664.1| tRNA-pseudouridine synthase A [Symbiobacterium thermophilum IAM
           14863]
          Length = 267

 Score =  127 bits (318), Expect = 5e-27,   Method: Compositional matrix adjust.
 Identities = 83/200 (41%), Positives = 108/200 (54%), Gaps = 6/200 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRL-VGASRTDTGVHAWGQ 86
           +L++ YDGT YAG+Q Q +  TIQ  +E+AL  VT     DLR+   A RTD GVHA GQ
Sbjct: 5   KLILAYDGTAYAGFQRQPNGITIQQRLEEALRAVTG--EPDLRIGAAAGRTDAGVHARGQ 62

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           V H  T ++   ++   AALNG LP DI V     A P+FHAR+ A+ K Y Y       
Sbjct: 63  VVHLRT-YATIPIDRWPAALNGHLPDDIAVIGAEEAPPDFHARYWAREKRYRYTFCLSPY 121

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
             P    Y+YH    ++   MR AA   VG+HDF+AF     + R    V++I R  + E
Sbjct: 122 RLPMARLYSYHWHRPVDVDAMRRAAALLVGRHDFAAFRATGGSAR--TTVRTITRLTLTE 179

Query: 207 MGALLQLEVEGSGFLYRQVR 226
               L L+V   GFLY  VR
Sbjct: 180 EPPFLHLDVTADGFLYNMVR 199


>gi|15675714|ref|NP_269888.1| tRNA pseudouridine synthase A [Streptococcus pyogenes SF370]
 gi|19746822|ref|NP_607958.1| tRNA pseudouridine synthase A [Streptococcus pyogenes MGAS8232]
 gi|50914971|ref|YP_060943.1| tRNA pseudouridine synthase A [Streptococcus pyogenes MGAS10394]
 gi|71904268|ref|YP_281071.1| tRNA pseudouridine synthase A [Streptococcus pyogenes MGAS6180]
 gi|71911430|ref|YP_282980.1| tRNA pseudouridine synthase A [Streptococcus pyogenes MGAS5005]
 gi|94989250|ref|YP_597351.1| tRNA pseudouridine synthase A [Streptococcus pyogenes MGAS9429]
 gi|94993138|ref|YP_601237.1| tRNA pseudouridine synthase A [Streptococcus pyogenes MGAS2096]
 gi|94995068|ref|YP_603166.1| tRNA pseudouridine synthase A [Streptococcus pyogenes MGAS10750]
 gi|139473113|ref|YP_001127828.1| tRNA pseudouridine synthase A [Streptococcus pyogenes str.
           Manfredo]
 gi|209560051|ref|YP_002286523.1| tRNA pseudouridine synthase A [Streptococcus pyogenes NZ131]
 gi|383480586|ref|YP_005389480.1| tRNA pseudouridine synthase A protein TruA [Streptococcus pyogenes
           MGAS15252]
 gi|383494567|ref|YP_005412243.1| tRNA pseudouridine synthase A protein TruA [Streptococcus pyogenes
           MGAS1882]
 gi|410681281|ref|YP_006933683.1| tRNA pseudouridine synthase A [Streptococcus pyogenes A20]
 gi|417856135|ref|ZP_12501194.1| tRNA pseudouridine synthase A [Streptococcus pyogenes HKU
           QMH11M0907901]
 gi|54039783|sp|P65851.1|TRUA_STRP8 RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|54042088|sp|P65850.1|TRUA_STRP1 RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|62901238|sp|Q5XA03.1|TRUA_STRP6 RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|122986813|sp|Q1J4W4.1|TRUA_STRPF RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|122986985|sp|Q1JF09.1|TRUA_STRPD RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|123257716|sp|Q1J9W8.1|TRUA_STRPB RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|123258127|sp|Q1JK16.1|TRUA_STRPC RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|123775214|sp|Q48RE4.1|TRUA_STRPM RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|166229842|sp|A2RCK6.1|TRUA_STRPG RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|238057736|sp|B5XIG6.1|TRUA_STRPZ RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|13622931|gb|AAK34609.1| putative tRNA pseudouridine synthase A [Streptococcus pyogenes M1
           GAS]
 gi|19749059|gb|AAL98457.1| putative tRNA pseudouridine synthase A [Streptococcus pyogenes
           MGAS8232]
 gi|50904045|gb|AAT87760.1| tRNA pseudouridine synthase A [Streptococcus pyogenes MGAS10394]
 gi|71803363|gb|AAX72716.1| tRNA pseudouridine synthase A [Streptococcus pyogenes MGAS6180]
 gi|71854212|gb|AAZ52235.1| tRNA pseudouridine synthase A [Streptococcus pyogenes MGAS5005]
 gi|94542758|gb|ABF32807.1| tRNA pseudouridine synthase A [Streptococcus pyogenes MGAS9429]
 gi|94544702|gb|ABF34750.1| tRNA pseudouridine synthase A [Streptococcus pyogenes MGAS10270]
 gi|94546646|gb|ABF36693.1| tRNA pseudouridine synthase A [Streptococcus pyogenes MGAS2096]
 gi|94548576|gb|ABF38622.1| tRNA pseudouridine synthase A [Streptococcus pyogenes MGAS10750]
 gi|134271359|emb|CAM29579.1| tRNA pseudouridine synthase A [Streptococcus pyogenes str.
           Manfredo]
 gi|209541252|gb|ACI61828.1| tRNA pseudouridine synthase A [Streptococcus pyogenes NZ131]
 gi|378928576|gb|AFC66782.1| tRNA pseudouridine synthase A protein TruA [Streptococcus pyogenes
           MGAS15252]
 gi|378930294|gb|AFC68711.1| tRNA pseudouridine synthase A protein TruA [Streptococcus pyogenes
           MGAS1882]
 gi|387933090|gb|EIK41203.1| tRNA pseudouridine synthase A [Streptococcus pyogenes HKU
           QMH11M0907901]
 gi|395454673|dbj|BAM31012.1| tRNA pseudouridine synthase A [Streptococcus pyogenes M1 476]
 gi|409693870|gb|AFV38730.1| tRNA pseudouridine synthase A [Streptococcus pyogenes A20]
          Length = 249

 Score =  127 bits (318), Expect = 5e-27,   Method: Compositional matrix adjust.
 Identities = 76/206 (36%), Positives = 106/206 (51%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDGT ++G+Q Q    T+Q  +EK L ++    +  + + GA RTD GVHA+G
Sbjct: 3   RYKATISYDGTLFSGFQRQRHLRTVQEEIEKTLYKLNNGTK--IIIHGAGRTDAGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P   + +E +  AL+   P DI V  I     +FH R+    K Y + + N  
Sbjct: 61  QVIHFDLPQEQE-VEKLRFALDTQTPEDIDVVNIEKVADDFHCRYQKHLKTYEFLVDNGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +P   HY  H  Y LN  LM+EA    VG HDF+ F          N V++I +  V 
Sbjct: 120 PKNPMMRHYTTHYPYTLNIKLMQEAINGLVGTHDFTGFT--AAGTSVQNKVRTITKATVS 177

Query: 206 --EMGALLQLEVEGSGFLYRQVRNMV 229
             E    L     G+GFLY+QVRNMV
Sbjct: 178 RDEKTDFLVFTFSGNGFLYKQVRNMV 203


>gi|450087981|ref|ZP_21854575.1| tRNA pseudouridine synthase A [Streptococcus mutans NV1996]
 gi|450125679|ref|ZP_21867762.1| tRNA pseudouridine synthase A [Streptococcus mutans U2A]
 gi|449217093|gb|EMC17168.1| tRNA pseudouridine synthase A [Streptococcus mutans NV1996]
 gi|449232201|gb|EMC31327.1| tRNA pseudouridine synthase A [Streptococcus mutans U2A]
          Length = 249

 Score =  127 bits (318), Expect = 5e-27,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 110/206 (53%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDGT ++G+Q Q    T+Q  +EK L+R+     + +++ GA RTD GVHA+G
Sbjct: 3   RYKAIISYDGTNFSGFQRQPQMRTVQEEIEKTLLRLN--SGQAVKIHGAGRTDAGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P   D LE +   L+   P DI V ++      FHAR+    K Y + +    
Sbjct: 61  QVIHFDLPQQRD-LEKLRFGLDTQTPDDIDVIQVEQVADNFHARYQKHRKTYEFLVDLGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV- 204
             +P   HYA H  YK++ ++++ A +   G HDF+ F          N V++I R  V 
Sbjct: 120 PKNPLMRHYATHFPYKVDFSVVKAAIKKLRGTHDFTGFT--ASGTSVENKVRTISRATVE 177

Query: 205 -IEMGALLQLEVEGSGFLYRQVRNMV 229
             +    L     GSGFLY+QVRNMV
Sbjct: 178 KDDKTGFLIFTFTGSGFLYKQVRNMV 203


>gi|358464303|ref|ZP_09174268.1| tRNA pseudouridine synthase A [Streptococcus sp. oral taxon 058
           str. F0407]
 gi|357067069|gb|EHI77199.1| tRNA pseudouridine synthase A [Streptococcus sp. oral taxon 058
           str. F0407]
          Length = 261

 Score =  127 bits (318), Expect = 5e-27,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 109/206 (52%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDG  +AG+Q Q    ++Q  +EK L R+ K   + + + GA RTD+GVHA G
Sbjct: 15  RYKAIISYDGYAFAGFQRQPHARSVQEEIEKTLTRLNK--GQAVTIHGAGRTDSGVHALG 72

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D  E +  AL+   P DI V  I     +FH R++  SK Y + +  + 
Sbjct: 73  QVIHFDLPYQMDE-EKLRFALDTQSPEDIDVISIELVADDFHCRYAKHSKTYEFIVDRER 131

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFR--FD 203
             +P + HYA H  Y L+   M+ A +   G HDF+ F          + V++I      
Sbjct: 132 PKNPMRRHYATHFPYPLDVERMQMAIKKLEGTHDFTGFT--ASGTSVEDKVRTITEASLT 189

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
           V E G  L     G+GFLY+Q+RNMV
Sbjct: 190 VDETGQFLTFTFSGNGFLYKQIRNMV 215


>gi|306826655|ref|ZP_07459958.1| tRNA pseudouridine synthase A [Streptococcus pyogenes ATCC 10782]
 gi|304431103|gb|EFM34109.1| tRNA pseudouridine synthase A [Streptococcus pyogenes ATCC 10782]
          Length = 249

 Score =  127 bits (318), Expect = 5e-27,   Method: Compositional matrix adjust.
 Identities = 76/206 (36%), Positives = 106/206 (51%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDGT ++G+Q Q    T+Q  +EK L ++    +  + + GA RTD GVHA+G
Sbjct: 3   RYKATISYDGTLFSGFQRQRHLRTVQEEIEKTLYKLNNGTK--IIIHGAGRTDAGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P   + +E +  AL+   P DI V  I     +FH R+    K Y + + N  
Sbjct: 61  QVIHFDLPQEQE-VEKLRFALDTQTPEDIDVVNIKKVADDFHCRYQKHLKTYEFLVDNGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +P   HY  H  Y LN  LM+EA    VG HDF+ F          N V++I +  V 
Sbjct: 120 PKNPMMRHYTTHYPYTLNIKLMQEAINGLVGTHDFTGFT--AAGTSVQNKVRTITKATVS 177

Query: 206 --EMGALLQLEVEGSGFLYRQVRNMV 229
             E    L     G+GFLY+QVRNMV
Sbjct: 178 RDEKTDFLVFTFSGNGFLYKQVRNMV 203


>gi|392392120|ref|YP_006428722.1| pseudouridylate synthase I [Desulfitobacterium dehalogenans ATCC
           51507]
 gi|390523198|gb|AFL98928.1| pseudouridylate synthase I [Desulfitobacterium dehalogenans ATCC
           51507]
          Length = 262

 Score =  127 bits (318), Expect = 5e-27,   Method: Compositional matrix adjust.
 Identities = 81/200 (40%), Positives = 106/200 (53%), Gaps = 8/200 (4%)

Query: 29  LVIGYDGTRYAGWQFQTS--PPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           L + YDGT Y G+Q Q     PTIQ  +E       KL  E++ L  A RTDTGVHA GQ
Sbjct: 9   LKVAYDGTHYHGFQRQPEFHGPTIQGTLETVW---AKLVEEEVTLNTAGRTDTGVHAAGQ 65

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           V +F T      ++ I  A N LLP DIR+     A  +FHARFSAK K Y Y+I N  V
Sbjct: 66  VVNFRTGARIP-VDKIPKAFNSLLPRDIRILAAQEAAEDFHARFSAKWKRYDYQIDNRPV 124

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
            D F   Y+ H   KL+   MR+ A+Y VG+H+F AF       +     ++++   V E
Sbjct: 125 ADVFTRLYSLHEPVKLDWQRMRQGAQYLVGRHNFKAFSAAGGTSKTFE--RTLYLCQVAE 182

Query: 207 MGALLQLEVEGSGFLYRQVR 226
               +++   G GFLY  VR
Sbjct: 183 NQGDIRITCIGDGFLYNMVR 202


>gi|307706977|ref|ZP_07643775.1| tRNA pseudouridine synthase A [Streptococcus mitis SK321]
 gi|307617638|gb|EFN96807.1| tRNA pseudouridine synthase A [Streptococcus mitis SK321]
          Length = 249

 Score =  127 bits (318), Expect = 5e-27,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 107/206 (51%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDG  +AG+Q Q    ++Q  +EK L R+ K   + + + GA RTD+GVHA G
Sbjct: 3   RYKATISYDGYAFAGFQRQPHARSVQEEIEKTLTRLNK--GQAITVHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D  E +  AL+   P DI V  I     +FH R++  SK Y + +    
Sbjct: 61  QVIHFDLPYQMDE-EKLRFALDTQSPEDIDVVSIELVADDFHCRYAKHSKTYEFIVDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFV--NIQRNDRALNPVKSIFRFD 203
             +P + HYA H  Y L+   M+ A +   G HDF+ F        D+     ++  R D
Sbjct: 120 PKNPMRRHYATHFPYPLDVERMQIAIKKLEGTHDFTGFTASGTSVEDKVRTITEASLRVD 179

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
             E G  L     G+GFLY+Q+RNMV
Sbjct: 180 --ETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|422344507|ref|ZP_16425432.1| tRNA pseudouridine synthase A [Selenomonas noxia F0398]
 gi|355376576|gb|EHG23818.1| tRNA pseudouridine synthase A [Selenomonas noxia F0398]
          Length = 267

 Score =  127 bits (318), Expect = 5e-27,   Method: Compositional matrix adjust.
 Identities = 85/208 (40%), Positives = 113/208 (54%), Gaps = 16/208 (7%)

Query: 29  LVIGYDGTRYAGWQFQTSPP--TIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           L I YDGTRY G+Q Q SPP   +Q  +E AL  V     E + L  A RTD GVHA GQ
Sbjct: 18  LKIAYDGTRYHGFQRQ-SPPVVAVQNALEAALAEVCG---ETVELAAAGRTDAGVHACGQ 73

Query: 87  VAHFITPFSYDG---LESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYN 143
           V +F T    DG    E +  A+NGLLPPDI V +   A  +F AR SAK K Y Y++  
Sbjct: 74  VVNFFT----DGRIPTERLPRAVNGLLPPDIAVTDAWEAARDFSARHSAKGKAYVYRMEQ 129

Query: 144 DAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFD 203
             V +PF  +YA+     L+   MR A    VG HD+S+F         ++PV++I    
Sbjct: 130 CIVPNPFTRNYAWQIFRPLDVEAMRAALAMLVGTHDYSSFRAA--GGAPMSPVRTIDEIR 187

Query: 204 VIEMG-ALLQLEVEGSGFLYRQVRNMVN 230
           + + G   L   + G+GFLY  VRN+++
Sbjct: 188 LEDEGEGRLSCYLHGNGFLYHMVRNIMS 215


>gi|449937089|ref|ZP_21804356.1| tRNA pseudouridine synthase A [Streptococcus mutans 2ST1]
 gi|450155340|ref|ZP_21878189.1| tRNA pseudouridine synthase A [Streptococcus mutans 21]
 gi|449164772|gb|EMB67813.1| tRNA pseudouridine synthase A [Streptococcus mutans 2ST1]
 gi|449237217|gb|EMC36088.1| tRNA pseudouridine synthase A [Streptococcus mutans 21]
          Length = 249

 Score =  127 bits (318), Expect = 5e-27,   Method: Compositional matrix adjust.
 Identities = 73/206 (35%), Positives = 111/206 (53%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDGT ++G+Q Q    T+Q  +EK L+R+     + +++ GA RTD GVHA+G
Sbjct: 3   RYKAIISYDGTNFSGFQRQPQVRTVQEEIEKTLLRLN--SGQAVKVHGAGRTDAGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P   D LE +   L+   P DI V ++     +FHAR+    K Y + +    
Sbjct: 61  QVIHFDLPQQRD-LEKLRFGLDTQTPDDIDVIQVEQVADDFHARYQKHRKTYEFLVDLGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV- 204
             +P   HYA H  YK++ ++++ A +   G HDF+ F          N V++I R  V 
Sbjct: 120 PKNPLMRHYATHFPYKVDFSVVKAAIKKLRGTHDFTGFT--ASGTSVENKVRTISRATVE 177

Query: 205 -IEMGALLQLEVEGSGFLYRQVRNMV 229
             +    L     GSGFLY+QVRNM+
Sbjct: 178 KDDKTGFLIFTFTGSGFLYKQVRNMI 203


>gi|416353175|ref|ZP_11681473.1| tRNA pseudouridine synthase A [Clostridium botulinum C str.
           Stockholm]
 gi|338195618|gb|EGO87876.1| tRNA pseudouridine synthase A [Clostridium botulinum C str.
           Stockholm]
          Length = 246

 Score =  127 bits (318), Expect = 5e-27,   Method: Compositional matrix adjust.
 Identities = 73/201 (36%), Positives = 110/201 (54%), Gaps = 5/201 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L+I YDG+ Y+GWQ Q    T+Q  +E+A+  +TK + E   ++G SRTD GVHA   V
Sbjct: 6   KLIIEYDGSNYSGWQKQKHSITVQQKIEEAISEITKTDTE---IIGCSRTDAGVHARNFV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A+FIT  S         A+N  LP DI +++ S    +FHARF +K K Y Y I N    
Sbjct: 63  ANFITESSVPP-SKFKYAINSKLPKDIVIKKSSEVPLDFHARFHSKGKKYVYTILNREEP 121

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
                +  YH    L+   M+ A++YF+G H+F +F   +      + +++I+  DV + 
Sbjct: 122 PTIDRNVVYHFNKDLDVNAMKMASKYFIGSHEFDSFYK-KSGSSVKSTLRTIYYCDVTKC 180

Query: 208 GALLQLEVEGSGFLYRQVRNM 228
             +++  V G GFLY  VR M
Sbjct: 181 EDVIKFTVIGEGFLYNMVRIM 201


>gi|256847793|ref|ZP_05553238.1| tRNA pseudouridine synthase A [Lactobacillus coleohominis
           101-4-CHN]
 gi|256715482|gb|EEU30458.1| tRNA pseudouridine synthase A [Lactobacillus coleohominis
           101-4-CHN]
          Length = 253

 Score =  127 bits (318), Expect = 5e-27,   Method: Compositional matrix adjust.
 Identities = 73/206 (35%), Positives = 115/206 (55%), Gaps = 5/206 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++++   YDGT ++G+Q Q    TI+  ++  + R+ K     + ++G+ RTD GVHA  
Sbjct: 3   RYKITFAYDGTNFSGFQIQPHKRTIEQTLKTIVNRMAKNPDPAISIIGSGRTDAGVHALN 62

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVAHF  P+     +S+  ALN  LP DI V++      EFHAR++A  K Y Y++    
Sbjct: 63  QVAHFDFPYHIPE-QSMVRALNSQLPLDIIVKKAEIVSNEFHARYNAHRKRYRYRVTQGE 121

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
            +DPF+ +Y  H  Y ++   M  AA+  VG HDF++FV      +A + +++I+   V 
Sbjct: 122 FVDPFKRNYTAHFKYPVDIAHMNRAAQDLVGTHDFTSFV--ASGSQAKSNIRTIYEAKVY 179

Query: 206 --EMGALLQLEVEGSGFLYRQVRNMV 229
             +    +  E  G+GFLY QVR MV
Sbjct: 180 YEDHDHEVIFEFVGNGFLYNQVRIMV 205


>gi|315925222|ref|ZP_07921436.1| tRNA pseudouridine synthase A [Pseudoramibacter alactolyticus ATCC
           23263]
 gi|315621456|gb|EFV01423.1| tRNA pseudouridine synthase A [Pseudoramibacter alactolyticus ATCC
           23263]
          Length = 249

 Score =  127 bits (318), Expect = 5e-27,   Method: Compositional matrix adjust.
 Identities = 75/198 (37%), Positives = 101/198 (51%), Gaps = 6/198 (3%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           LVI Y GTRYAGWQ Q +  +I   +  A+  VT    E + L GA RTD GVHA GQ A
Sbjct: 6   LVIAYKGTRYAGWQRQQNAVSIDETIGDAIAAVTG---ERVTLYGAGRTDAGVHARGQRA 62

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +F T       +    ALN  LP DIR+++      +FH+R+ AK K Y Y+++   V D
Sbjct: 63  NFKTRVRMPA-DRFAPALNAHLPRDIRIQKSFEVPADFHSRYGAKEKTYCYRVWAAPVAD 121

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
           P    + +H  + LN   MR  A   VG HDF  F  +     A   V+ I    + + G
Sbjct: 122 PLTDDFCWHVRFPLNVDAMRRGAAVLVGTHDFKTF--MASGSGAKTTVRRIDAIGIEQKG 179

Query: 209 ALLQLEVEGSGFLYRQVR 226
            ++     G+GFLY  VR
Sbjct: 180 RMITFTFCGTGFLYNMVR 197


>gi|451949128|ref|YP_007469723.1| pseudouridylate synthase [Desulfocapsa sulfexigens DSM 10523]
 gi|451908476|gb|AGF80070.1| pseudouridylate synthase [Desulfocapsa sulfexigens DSM 10523]
          Length = 252

 Score =  127 bits (318), Expect = 6e-27,   Method: Compositional matrix adjust.
 Identities = 77/208 (37%), Positives = 109/208 (52%), Gaps = 9/208 (4%)

Query: 27  WRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
            ++ I +DGT ++GWQ Q + PTIQ  +E+ L R+T      + L GA RTD GVHA G 
Sbjct: 4   LKVTIAFDGTDFSGWQKQLNAPTIQGELERVLGRITN---APVILHGAGRTDAGVHALGM 60

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           VA F T  S   L ++    N +LP  IR+ +  +AVP+FHARFSA SK Y Y I    +
Sbjct: 61  VASFET-HSQISLAALLRGANAILPLSIRIIKAESAVPDFHARFSALSKTYLYSIETGPI 119

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALN----PVKSIFRF 202
             P    YA H    L    M++  +   G HDF++F      D+ L      V+++   
Sbjct: 120 QSPITRLYAVHIQQDLAINAMQQCLQILTGTHDFASFEASGSRDKTLTTGRGSVRTLKEA 179

Query: 203 DVIEMGAL-LQLEVEGSGFLYRQVRNMV 229
            + E+ +  +Q    G GFL   VRN+V
Sbjct: 180 TLKEINSTEIQFVFTGDGFLRHMVRNIV 207


>gi|239618279|ref|YP_002941601.1| tRNA pseudouridine synthase ACD [Kosmotoga olearia TBF 19.5.1]
 gi|259550401|sp|C5CGS8.1|TRUA_KOSOT RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|239507110|gb|ACR80597.1| tRNA pseudouridine synthase A [Kosmotoga olearia TBF 19.5.1]
          Length = 250

 Score =  127 bits (318), Expect = 6e-27,   Method: Compositional matrix adjust.
 Identities = 75/201 (37%), Positives = 115/201 (57%), Gaps = 7/201 (3%)

Query: 30  VIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVAH 89
           V+ YDG+ + G+Q Q +  T+Q + E+AL R+ K +   +   GA RTDTGVHA+GQV  
Sbjct: 7   VVVYDGSNFFGYQIQPNKRTVQGVFEEALERIHKAK---IPTDGAGRTDTGVHAYGQVIA 63

Query: 90  FITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDP 149
           F +       + +  ALN  LP DI VR I      F  RF+AK +IYHY I N    D 
Sbjct: 64  FTSNLDRLTPKHMKDALNANLPDDIYVRRIHEVPSNFSPRFAAKKRIYHYYILNTKEPDL 123

Query: 150 FQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMGA 209
           F+  Y +   Y+++   MR+A+ Y +G+HDF++F     +DR+   +++I    ++ +  
Sbjct: 124 FRRKYFWWFPYEVDLNRMRQASRYLIGEHDFTSF-RTGHDDRST--IRTITGIRILRLQK 180

Query: 210 -LLQLEVEGSGFLYRQVRNMV 229
            ++ + VEG  FL R VRN+V
Sbjct: 181 NIILIRVEGISFLRRMVRNIV 201


>gi|354558482|ref|ZP_08977737.1| tRNA pseudouridine synthase A [Desulfitobacterium metallireducens
           DSM 15288]
 gi|353546960|gb|EHC16407.1| tRNA pseudouridine synthase A [Desulfitobacterium metallireducens
           DSM 15288]
          Length = 265

 Score =  127 bits (318), Expect = 6e-27,   Method: Compositional matrix adjust.
 Identities = 82/204 (40%), Positives = 106/204 (51%), Gaps = 8/204 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTS--PPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           RL + YDGT Y G+Q Q     PTIQ  +E       KL  E++ L  A RTDTGVHA G
Sbjct: 5   RLTVSYDGTAYHGFQRQPEFHGPTIQGNLESVW---KKLVGEEITLNTAGRTDTGVHATG 61

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV +F+T       E +  A N LLP DIR+ E      EFHAR+SA  K Y YKI N  
Sbjct: 62  QVVNFLTTAPIPD-EKLPKAFNSLLPRDIRILEAHTVAEEFHARYSACWKRYDYKIDNRP 120

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           + D F   Y+ H    L    M+ AA    GKH+F AF +     +     ++++   + 
Sbjct: 121 IADVFTRLYSLHEPIPLRVEKMKRAARLLEGKHNFKAFSSAGGVSKTFE--RNLYVCRIQ 178

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E G +LQ+   G GFLY  VR +V
Sbjct: 179 EEGGILQITCIGDGFLYNMVRIIV 202


>gi|312127288|ref|YP_003992162.1| tRNA pseudouridine synthase a [Caldicellulosiruptor hydrothermalis
           108]
 gi|311777307|gb|ADQ06793.1| tRNA pseudouridine synthase A [Caldicellulosiruptor hydrothermalis
           108]
          Length = 244

 Score =  127 bits (318), Expect = 6e-27,   Method: Compositional matrix adjust.
 Identities = 72/198 (36%), Positives = 107/198 (54%), Gaps = 6/198 (3%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L I YDGT Y GWQ Q +  TIQ  +E+A   + KL  E++ L+G+ RTD GVHA  Q A
Sbjct: 6   LTIEYDGTEYFGWQKQPNKKTIQGTIEEA---IKKLTGEEVNLIGSGRTDRGVHALNQKA 62

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +F T  S    +    ALN +LP DI +++       F AR+SAK K Y Y IYN     
Sbjct: 63  NFKTS-SKIPTDKFPLALNSVLPGDISIKDAVEVPLNFSARYSAKQKTYKYLIYNKNSRP 121

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
               +YAY+  Y+L+   M+ A EYF+G++DF +F +   +  A   ++ ++   +    
Sbjct: 122 ALLRNYAYYYPYQLDVDAMQRACEYFIGEYDFKSFCSA--DSEAKTTIRRVYNSYLTFEN 179

Query: 209 ALLQLEVEGSGFLYRQVR 226
             + + +  +GFLY   R
Sbjct: 180 ECIAIYITANGFLYNMAR 197


>gi|187779482|ref|ZP_02995955.1| hypothetical protein CLOSPO_03078 [Clostridium sporogenes ATCC
           15579]
 gi|187773107|gb|EDU36909.1| tRNA pseudouridine synthase A [Clostridium sporogenes ATCC 15579]
          Length = 246

 Score =  127 bits (318), Expect = 6e-27,   Method: Compositional matrix adjust.
 Identities = 74/200 (37%), Positives = 109/200 (54%), Gaps = 7/200 (3%)

Query: 28  RLVIGYDGTRYAGWQFQT-SPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           +L I YDG++Y GWQ Q  +  TIQ  +E  L  +T    ED+ L+G+ RTD GVHA  Q
Sbjct: 5   KLYIQYDGSKYNGWQKQKENDNTIQGKIENVLSLMTG---EDINLIGSGRTDAGVHANMQ 61

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           VA+F T F     E ++      LP DI V +       FH+R + K K Y YKI N   
Sbjct: 62  VANFHTNFQGSTNEILNYCYE-YLPKDIVVYDAFHVDERFHSRLNVKKKKYTYKICNKKF 120

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
            D F   Y+YH    L+   M+EA  Y VG+HDF++F   +   ++   V++++  D+I+
Sbjct: 121 HDVFSRKYSYHVPQTLDIEAMKEACTYLVGRHDFASFTAARSKKKS--TVRTLYSIDIIK 178

Query: 207 MGALLQLEVEGSGFLYRQVR 226
               + +   GSGFL++ +R
Sbjct: 179 KDGYVDIVYLGSGFLHKMIR 198


>gi|419817507|ref|ZP_14341665.1| tRNA pseudouridine synthase A [Streptococcus sp. GMD4S]
 gi|404465842|gb|EKA11228.1| tRNA pseudouridine synthase A [Streptococcus sp. GMD4S]
          Length = 249

 Score =  127 bits (318), Expect = 6e-27,   Method: Compositional matrix adjust.
 Identities = 73/206 (35%), Positives = 110/206 (53%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDG  ++G+Q Q    ++Q  +EK L+R+ K   + + + GA RTD+GVHA G
Sbjct: 3   RYKAIISYDGYAFSGFQRQPHARSVQEEIEKTLMRLNK--GQAITVHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D +E +  AL+   P DI V  I     +FH R++  SK Y + +    
Sbjct: 61  QVIHFDLPYQMD-VEKLRFALDTQSPEDIDVISIKLVADDFHCRYAKHSKTYEFIVDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFR--FD 203
             +P + HYA H  Y L+   M+ A +   G HDF+ F          + V++I      
Sbjct: 120 PKNPMRRHYATHFPYPLDVERMQIAVKKLEGTHDFTGFT--ASGTSVEDKVRTITEASLS 177

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
           V E G  L     G+GFLY+Q+RNMV
Sbjct: 178 VDETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|422423328|ref|ZP_16500281.1| tRNA pseudouridine synthase A [Listeria seeligeri FSL S4-171]
 gi|313636153|gb|EFS02014.1| tRNA pseudouridine synthase A [Listeria seeligeri FSL S4-171]
          Length = 248

 Score =  127 bits (318), Expect = 6e-27,   Method: Compositional matrix adjust.
 Identities = 74/202 (36%), Positives = 113/202 (55%), Gaps = 6/202 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDG+ + G+Q Q +  T+Q  +EKAL ++ K   + +R+  + RTDTGVHA G
Sbjct: 3   RFKAIISYDGSGFYGYQVQPNTRTVQAEIEKALKKMHK--GKSVRVTASGRTDTGVHAKG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF +       E    AL  + P DI    +  A  +FHARF    K Y Y +    
Sbjct: 61  QVIHFDSELDISA-EKFQKALQVMTPFDISFLIVEEAPADFHARFGTVGKEYRYVVKRTK 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           V DPF  ++A H  Y+LN   M+ A+E  VG+HDF++F +  R +R  + V++++  D  
Sbjct: 120 VFDPFSRNFALHYPYELNLEKMKLASERLVGEHDFTSFCS-ARTERD-SKVRTLYSIDFY 177

Query: 206 EM-GALLQLEVEGSGFLYRQVR 226
           E     L +  +G+GFLY  VR
Sbjct: 178 EEDDETLVIAFQGNGFLYNMVR 199


>gi|406837773|ref|ZP_11097367.1| tRNA pseudouridine synthase [Lactobacillus vini DSM 20605]
          Length = 249

 Score =  126 bits (317), Expect = 6e-27,   Method: Compositional matrix adjust.
 Identities = 81/207 (39%), Positives = 117/207 (56%), Gaps = 8/207 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++++ + YDGT +AG+Q Q    T+Q ++EKA+ R+ K     + + G+ RTD GVHA G
Sbjct: 4   RYKVTLAYDGTNFAGFQVQPHQRTVQGVLEKAVNRMNKANNY-VHIFGSGRTDAGVHALG 62

Query: 86  QVAHFITPFSYDGLES-IHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           QV HF      D  +S I   LN +LP D++V +       FHAR++   K Y Y++   
Sbjct: 63  QVVHF--DLVNDVPDSGIVNGLNSMLPLDMQVLQAEHVSANFHARYTTHGKRYLYRVSLC 120

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
             +DPF+  Y  H  Y L+ TL+REA +  VG HDFS+FV      +A   V++I+   V
Sbjct: 121 WYVDPFKRFYTGHWKYPLDVTLIREALKDVVGTHDFSSFV--AAGSQAKTHVRTIYSATV 178

Query: 205 IEMGALLQL--EVEGSGFLYRQVRNMV 229
               A  +L  E  G+GFLY QVR MV
Sbjct: 179 QMQTAEHELIFEFYGNGFLYNQVRIMV 205


>gi|297568336|ref|YP_003689680.1| tRNA pseudouridine synthase A [Desulfurivibrio alkaliphilus AHT2]
 gi|296924251|gb|ADH85061.1| tRNA pseudouridine synthase A [Desulfurivibrio alkaliphilus AHT2]
          Length = 252

 Score =  126 bits (317), Expect = 6e-27,   Method: Compositional matrix adjust.
 Identities = 82/212 (38%), Positives = 108/212 (50%), Gaps = 11/212 (5%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           K +L I YDGT +AGWQ Q + PTIQ +VE+AL R+     E + L GA RTD GVHA G
Sbjct: 3   KVKLTIAYDGTDFAGWQRQLNRPTIQAVVEEALARMLG---EQVVLHGAGRTDAGVHALG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
            VA F  P     L +    LN +LPP IR+     A  +FHARFSAK K+Y Y     A
Sbjct: 60  MVASFNAPRRLP-LAAYRLGLNSMLPPAIRIMAADEAADDFHARFSAKGKLYRYCFSTAA 118

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAF-VNIQRNDRALNPVKSIFRFDV 204
           VM P +  Y  H         +R+     +G+HDFS F     R+         + R ++
Sbjct: 119 VMPPCRRLYRAHLPGPFAAERVRQLLPQMLGEHDFSTFEAAGSRDRDRAGGRGGVRRLNL 178

Query: 205 IEM------GALLQLEVEGSGFLYRQVRNMVN 230
           +++      G     E+ G GFL   VRN+V 
Sbjct: 179 LQLEQEDPAGQEFCFELGGDGFLRHMVRNIVG 210


>gi|344924274|ref|ZP_08777735.1| tRNA pseudouridine synthase A [Candidatus Odyssella
           thessalonicensis L13]
          Length = 245

 Score =  126 bits (317), Expect = 6e-27,   Method: Compositional matrix adjust.
 Identities = 78/206 (37%), Positives = 110/206 (53%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++L+I YDG  + GWQ Q   PT+Q ++++A   V K    DL + G+ RTDTGVHA G
Sbjct: 3   RYKLIIEYDGRPFCGWQLQPQVPTVQGMLQQA---VKKFSGYDLLVEGSGRTDTGVHAKG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPD-IRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           QVAH   P   D    +   LN  L    I +  +      FHARFSAK + Y Y+I N 
Sbjct: 60  QVAHVDLP-RPDAPYRVLKGLNFFLQESGIAIVAVEEVDESFHARFSAKRRQYIYRIINR 118

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
                F+   A+H    L+   M   A   VG HDF+ F +I  N +A NPV+ + RF++
Sbjct: 119 RAPLTFEQGLAWHVNKPLDVEKMMAGAALLVGVHDFTTFRSI--NCQAPNPVRRLDRFEL 176

Query: 205 IEMGALLQLEVEGSGFLYRQVRNMVN 230
           I+ G  +   +E   FL+ QVR M+ 
Sbjct: 177 IQQGEEILATIESRAFLHNQVRIMMG 202


>gi|344996365|ref|YP_004798708.1| tRNA pseudouridine synthase A [Caldicellulosiruptor lactoaceticus
           6A]
 gi|343964584|gb|AEM73731.1| tRNA pseudouridine synthase A [Caldicellulosiruptor lactoaceticus
           6A]
          Length = 244

 Score =  126 bits (317), Expect = 6e-27,   Method: Compositional matrix adjust.
 Identities = 73/198 (36%), Positives = 108/198 (54%), Gaps = 6/198 (3%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L I YDGT Y GWQ Q +  TIQ  +E+A   + KL  E++ L+G+ RTD GVHA  Q A
Sbjct: 6   LTIEYDGTGYFGWQKQPNKKTIQGTIEEA---IKKLTGEEVNLIGSGRTDRGVHALNQKA 62

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +F T  S    +    ALN +LP DI V++      +F AR+SAK K Y Y IYN     
Sbjct: 63  NFKTN-SKIPTDKFPLALNSVLPGDISVKDAVEVPLDFSARYSAKQKTYKYLIYNKKSRP 121

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
               +YAY+  Y+L+   M+ A EYF+G++DF +F +   +  A   ++ ++   +    
Sbjct: 122 ALLRNYAYYYPYELDVDAMQRACEYFIGEYDFKSFCSA--DSEAKTTIRRVYNAYLTFEN 179

Query: 209 ALLQLEVEGSGFLYRQVR 226
             + + +  +GFLY   R
Sbjct: 180 ECIAIYITANGFLYNMAR 197


>gi|315612755|ref|ZP_07887666.1| tRNA pseudouridine synthase A [Streptococcus sanguinis ATCC 49296]
 gi|315314865|gb|EFU62906.1| tRNA pseudouridine synthase A [Streptococcus sanguinis ATCC 49296]
          Length = 274

 Score =  126 bits (317), Expect = 6e-27,   Method: Compositional matrix adjust.
 Identities = 75/206 (36%), Positives = 108/206 (52%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDG  +AG+Q Q    ++Q  +EK L R+ K   + + + GA RTD+GVHA G
Sbjct: 28  RYKATISYDGFAFAGFQRQPHARSVQEEIEKTLTRLNK--GQAITVHGAGRTDSGVHALG 85

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D  E +  AL+   P DI V  I     +FH R++  SK Y + +    
Sbjct: 86  QVIHFDLPYQMDE-EKLRFALDTQSPEDIDVISIEIVADDFHCRYAKHSKTYEFIVDRGR 144

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIF--RFD 203
             +P + HYA H  Y L+   M+ A +   G HDF+ F          + V++I   R  
Sbjct: 145 PKNPMRRHYATHFPYPLDVERMQMAIKKLEGTHDFTGFT--ASGTSVEDKVRTITEARLS 202

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
           V E G  L     G+GFLY+Q+RNMV
Sbjct: 203 VDETGQFLTFSFSGNGFLYKQIRNMV 228


>gi|335029188|ref|ZP_08522700.1| tRNA pseudouridine synthase A [Streptococcus infantis SK1076]
 gi|334269589|gb|EGL88006.1| tRNA pseudouridine synthase A [Streptococcus infantis SK1076]
          Length = 249

 Score =  126 bits (317), Expect = 6e-27,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 108/206 (52%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDG  +AG+Q Q    ++Q  +EK L ++ K   + + + GA RTD+GVHA G
Sbjct: 3   RYKAIISYDGYAFAGFQRQPHARSVQEEIEKTLAKLNK--GQAITIHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D  E +  AL+   P DI V  I     +FH R++  SK Y + +    
Sbjct: 61  QVIHFDLPYQMDE-EKLRFALDTQSPEDIDVISIEIVADDFHCRYAKHSKTYEFIVDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFR--FD 203
             +P + HYA H  Y L+   M+ A +   G HDF+ F          N V++I      
Sbjct: 120 PKNPMRRHYATHYPYSLDVERMQLAVKKLEGTHDFTGFT--ASGTSVENKVRTITEASLR 177

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
           V E G  L     G+GFLY+Q+RNMV
Sbjct: 178 VDETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|407717698|ref|YP_006795103.1| tRNA pseudouridine synthase A [Leuconostoc carnosum JB16]
 gi|407241454|gb|AFT81104.1| tRNA pseudouridine synthase A [Leuconostoc carnosum JB16]
          Length = 255

 Score =  126 bits (317), Expect = 6e-27,   Method: Compositional matrix adjust.
 Identities = 71/209 (33%), Positives = 112/209 (53%), Gaps = 6/209 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTS-----PPTIQCIVEKALIRVTKLEREDLRLVGASRTDTG 80
           +++  + YDG+ + G+Q QT        T+Q  + KA+ ++ K   E +++VGASRTDTG
Sbjct: 3   RYKATVSYDGSDFFGFQVQTKHGVECQRTVQGELNKAVNQMAKNPIEPIKVVGASRTDTG 62

Query: 81  VHAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYK 140
           VHA+GQV HF  PF+   +  +   LN LLP DI ++ +      FHARF+  +K Y Y+
Sbjct: 63  VHAFGQVVHFDLPFNIHEI-GVRKGLNTLLPRDILIQHVEKVSDNFHARFNTHAKRYIYR 121

Query: 141 IYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIF 200
           +      DPF+  Y  H  ++L+T  ++ A    +G+HDF++F              +  
Sbjct: 122 VSTQDYTDPFKRKYTGHFQWQLDTKRIQLALPDLIGEHDFASFAASGNQTATTIRTITRA 181

Query: 201 RFDVIEMGALLQLEVEGSGFLYRQVRNMV 229
             ++ E    L    EG+ FLY Q+R MV
Sbjct: 182 DVEIKESDQELVFTFEGNAFLYNQIRIMV 210


>gi|326202743|ref|ZP_08192611.1| tRNA pseudouridine synthase A [Clostridium papyrosolvens DSM 2782]
 gi|325987327|gb|EGD48155.1| tRNA pseudouridine synthase A [Clostridium papyrosolvens DSM 2782]
          Length = 247

 Score =  126 bits (317), Expect = 6e-27,   Method: Compositional matrix adjust.
 Identities = 69/204 (33%), Positives = 115/204 (56%), Gaps = 7/204 (3%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++++ YDG++Y GWQ  + S  +IQ  +E  L   +K+  E+++++G  RTD G HA  
Sbjct: 4   YKIIVQYDGSKYKGWQKLKDSDLSIQGKIETVL---SKMSGEEIQVIGCGRTDAGTHAEN 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
            VA+F T  S    + I   L   LP DI VR +      FHA+ +AK+K Y Y I    
Sbjct: 61  YVANFHTN-SRMSPKLILNHLYEFLPQDIVVRSVEEVDERFHAQHNAKAKTYVYSITKGK 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             + F   Y++HS  KL+   M+ AAEY +G HDF +F +++   ++   +++I   D+I
Sbjct: 120 FRNVFNRKYSFHSEEKLDLVQMKNAAEYLIGTHDFQSFTSLKEGSKS--TIRTINSLDII 177

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E G ++++ + G+ FL    R +V
Sbjct: 178 ENGMVIEIIINGNDFLLHMARLVV 201


>gi|406587731|ref|ZP_11062569.1| tRNA pseudouridine synthase A, partial [Streptococcus sp. GMD1S]
 gi|404472787|gb|EKA17201.1| tRNA pseudouridine synthase A, partial [Streptococcus sp. GMD1S]
          Length = 248

 Score =  126 bits (317), Expect = 7e-27,   Method: Compositional matrix adjust.
 Identities = 73/206 (35%), Positives = 110/206 (53%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDG  ++G+Q Q    ++Q  +EK L+R+ K   + + + GA RTD+GVHA G
Sbjct: 3   RYKAIISYDGYAFSGFQRQPHARSVQEEIEKTLMRLNK--GQAITVHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D +E +  AL+   P DI V  I     +FH R++  SK Y + +    
Sbjct: 61  QVIHFDLPYQMD-VEKLRFALDTQSPEDIDVISIKLVADDFHCRYAKHSKTYEFIVDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFR--FD 203
             +P + HYA H  Y L+   M+ A +   G HDF+ F          + V++I      
Sbjct: 120 PKNPMRRHYATHFPYPLDVERMQIAVKKLEGTHDFTGFT--ASGTSVEDKVRTITEASLS 177

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
           V E G  L     G+GFLY+Q+RNMV
Sbjct: 178 VDETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|449981133|ref|ZP_21817638.1| tRNA pseudouridine synthase A [Streptococcus mutans 5SM3]
 gi|449176090|gb|EMB78456.1| tRNA pseudouridine synthase A [Streptococcus mutans 5SM3]
          Length = 249

 Score =  126 bits (317), Expect = 7e-27,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 111/206 (53%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDGT ++G+Q Q    T+Q  +EK L+R+     + +++ GA RTD GVHA+G
Sbjct: 3   RYKAIISYDGTNFSGFQRQPQVRTVQEEIEKTLLRLN--SGQAVKVHGAGRTDAGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P   D LE +   L+   P DI V ++     +FHAR+    K Y + +    
Sbjct: 61  QVIHFDLPQLRD-LEKLRFGLDTQTPDDIDVIQVEQVADDFHARYQKHRKTYEFLVDLGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV- 204
             +P   HYA H  YK++ ++++ A +   G HDF+ F          N V++I R  V 
Sbjct: 120 PKNPLMRHYATHFPYKVDFSVVKAAIKKLRGTHDFTGFT--ASGTSVENKVRTISRATVE 177

Query: 205 -IEMGALLQLEVEGSGFLYRQVRNMV 229
             +    L     GSGFLY+QVRNMV
Sbjct: 178 KDDKTGFLIFTFTGSGFLYKQVRNMV 203


>gi|451812081|ref|YP_007448535.1| tRNA pseudouridine synthase A [Candidatus Kinetoplastibacterium
           galatii TCC219]
 gi|451777983|gb|AGF48931.1| tRNA pseudouridine synthase A [Candidatus Kinetoplastibacterium
           galatii TCC219]
          Length = 263

 Score =  126 bits (317), Expect = 7e-27,   Method: Compositional matrix adjust.
 Identities = 72/205 (35%), Positives = 108/205 (52%), Gaps = 5/205 (2%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
           ++  + I Y+G  + GWQ Q +   +Q I+E AL   +  ++   R+V A RTD GVHA 
Sbjct: 2   YRIAMCISYNGASFCGWQTQLNLCAVQDIIENALYNFSGFKKT--RVVCAGRTDAGVHAV 59

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
            QV HF T  + + +ES    +N  LP  I V+        FHARFSA S+ Y Y IY  
Sbjct: 60  NQVIHFDTDLNRE-IESWVRGVNSFLPNSISVKWAQFVDNNFHARFSAISRTYFYIIYCS 118

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
            V     +     S Y L+  LMR A ++ VG+HDFS+F + Q   +   PV++I+  D+
Sbjct: 119 KVRSAIYNELVGWSFYVLDVDLMRNAIDFLVGEHDFSSFRSSQCQSKT--PVRTIYNADI 176

Query: 205 IEMGALLQLEVEGSGFLYRQVRNMV 229
              G  +   +  + FL+  +RN+V
Sbjct: 177 NRKGPFIVFSITANAFLHHMIRNIV 201


>gi|325661070|ref|ZP_08149697.1| hypothetical protein HMPREF0490_00430 [Lachnospiraceae bacterium
           4_1_37FAA]
 gi|325472577|gb|EGC75788.1| hypothetical protein HMPREF0490_00430 [Lachnospiraceae bacterium
           4_1_37FAA]
          Length = 248

 Score =  126 bits (317), Expect = 7e-27,   Method: Compositional matrix adjust.
 Identities = 72/202 (35%), Positives = 105/202 (51%), Gaps = 4/202 (1%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L + YDG+RY GWQ      +   +  K L  + K+  ED+ L   +RT+ GVHA+GQV 
Sbjct: 6   LTLEYDGSRYQGWQRLGKGESTNTVSNKILEVLKKMTNEDIELFCGARTEVGVHAYGQVV 65

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +F T      LE  H  +N  LP DI V  +      FHA  +AKS+IY Y++    V  
Sbjct: 66  NFKTTTDMTLLEIKHY-MNRYLPMDIAVLSVEEKPERFHASLNAKSRIYLYRVAIAEVPS 124

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
            F   Y YHS  K +T LM++AA    GKHDF  F  +++N    +  K I   D+ E  
Sbjct: 125 VFDRKYTYHSFKKPDTELMKQAALLLAGKHDFKKFSTVKKNK---STEKEILNIDIYEDL 181

Query: 209 ALLQLEVEGSGFLYRQVRNMVN 230
             +Q+ +E + FL+   R +++
Sbjct: 182 EEIQITLEATDFLHNMPRMILS 203


>gi|347755796|ref|YP_004863360.1| pseudouridylate synthase I [Candidatus Chloracidobacterium
           thermophilum B]
 gi|347588314|gb|AEP12844.1| pseudouridylate synthase I [Candidatus Chloracidobacterium
           thermophilum B]
          Length = 262

 Score =  126 bits (317), Expect = 7e-27,   Method: Compositional matrix adjust.
 Identities = 82/219 (37%), Positives = 107/219 (48%), Gaps = 20/219 (9%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L + YDGT YAGWQ Q +  +IQ ++  A    T L  +  +L  A RTD GVHA GQV
Sbjct: 5   KLTVEYDGTEYAGWQAQANARSIQAVLAAAF---TPLLGQPAQLHAAGRTDAGVHALGQV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            H          E+  AALN  LPPDIRVR++     +FHAR SA+ K+YHY  +   V 
Sbjct: 62  VH-TDVHQMRAPETWRAALNAHLPPDIRVRQVEVVGADFHARKSARGKLYHYAFWCGRVE 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRN-DRALNPVKSIFRFDVIE 206
                 Y+ H    L+   MREAA++FVG+HDF+ F    R     +  +  +    V  
Sbjct: 121 STRWRRYSLHVPQPLDWEAMREAAQHFVGRHDFAPFSVADRTVQTTVRTIHWVTWHGVSA 180

Query: 207 MGA---------------LLQLEVEGSGFLYRQVRNMVN 230
            G                LL +   G GFL  QVR MV 
Sbjct: 181 PGGSAQDGSGNASFSPPELLAVAFYGDGFLRYQVRRMVG 219


>gi|257865435|ref|ZP_05645088.1| tRNA pseudouridine synthase [Enterococcus casseliflavus EC30]
 gi|257871770|ref|ZP_05651423.1| tRNA pseudouridine synthase [Enterococcus casseliflavus EC10]
 gi|257875038|ref|ZP_05654691.1| tRNA pseudouridine synthase [Enterococcus casseliflavus EC20]
 gi|325569125|ref|ZP_08145372.1| tRNA pseudouridine synthase A [Enterococcus casseliflavus ATCC
           12755]
 gi|420262845|ref|ZP_14765486.1| tRNA pseudouridine synthase [Enterococcus sp. C1]
 gi|257799369|gb|EEV28421.1| tRNA pseudouridine synthase [Enterococcus casseliflavus EC30]
 gi|257805934|gb|EEV34756.1| tRNA pseudouridine synthase [Enterococcus casseliflavus EC10]
 gi|257809204|gb|EEV38024.1| tRNA pseudouridine synthase [Enterococcus casseliflavus EC20]
 gi|325157583|gb|EGC69741.1| tRNA pseudouridine synthase A [Enterococcus casseliflavus ATCC
           12755]
 gi|394770602|gb|EJF50406.1| tRNA pseudouridine synthase [Enterococcus sp. C1]
          Length = 245

 Score =  126 bits (317), Expect = 7e-27,   Method: Compositional matrix adjust.
 Identities = 74/200 (37%), Positives = 110/200 (55%), Gaps = 7/200 (3%)

Query: 28  RLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           +L I YDG RY GWQ    S  TIQ  VE  +  +T    E++ +VG+ RTD G HA GQ
Sbjct: 5   KLTIEYDGKRYLGWQRLGDSEKTIQEKVEGVIKLLTG---EEIEIVGSGRTDAGTHARGQ 61

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           VA+F T      L  +    N  LP DI V +I      FHAR+ AK K Y Y ++N+A+
Sbjct: 62  VANFKTTHQMS-LPEMQQFFNRYLPQDIVVNKIEEVPERFHARYHAKGKQYSYYVWNNAI 120

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
              F  + ++H    L+   M++AAE  +G HDF  F  ++++ ++   V++I    +  
Sbjct: 121 PSVFARNTSFHCPQPLDLEKMQQAAEKLIGTHDFIGFSALKKSKKS--TVRTIDEITITP 178

Query: 207 MGALLQLEVEGSGFLYRQVR 226
            G LL+   +G+GFL++ VR
Sbjct: 179 EGDLLRFTFKGNGFLHKMVR 198


>gi|15903494|ref|NP_359044.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae R6]
 gi|116516785|ref|YP_816881.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae D39]
 gi|148988650|ref|ZP_01820083.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae SP6-BS73]
 gi|149004327|ref|ZP_01829087.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae SP14-BS69]
 gi|169833383|ref|YP_001694996.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae
           Hungary19A-6]
 gi|182684548|ref|YP_001836295.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae CGSP14]
 gi|221232354|ref|YP_002511507.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae ATCC
           700669]
 gi|225855038|ref|YP_002736550.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae JJA]
 gi|237649225|ref|ZP_04523477.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae CCRI 1974]
 gi|237822076|ref|ZP_04597921.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae CCRI
           1974M2]
 gi|307127806|ref|YP_003879837.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 670-6B]
 gi|415700074|ref|ZP_11457788.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 459-5]
 gi|415750000|ref|ZP_11477944.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae SV35]
 gi|415752816|ref|ZP_11479798.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae SV36]
 gi|417677324|ref|ZP_12326731.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA17545]
 gi|417696757|ref|ZP_12345935.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA47368]
 gi|418074430|ref|ZP_12711683.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA11184]
 gi|418076826|ref|ZP_12714059.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA47502]
 gi|418079036|ref|ZP_12716258.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 4027-06]
 gi|418081228|ref|ZP_12718438.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 6735-05]
 gi|418087286|ref|ZP_12724455.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA47033]
 gi|418089962|ref|ZP_12727116.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA43265]
 gi|418092201|ref|ZP_12729341.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA44452]
 gi|418098928|ref|ZP_12736025.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 6901-05]
 gi|418105708|ref|ZP_12742764.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA44500]
 gi|418108023|ref|ZP_12745060.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA41410]
 gi|418110548|ref|ZP_12747569.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA49447]
 gi|418117281|ref|ZP_12754250.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 6963-05]
 gi|418121667|ref|ZP_12758610.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA44194]
 gi|418123934|ref|ZP_12760865.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA44378]
 gi|418128478|ref|ZP_12765371.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae NP170]
 gi|418133044|ref|ZP_12769915.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA11304]
 gi|418134748|ref|ZP_12771605.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA11426]
 gi|418137671|ref|ZP_12774509.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA11663]
 gi|418144559|ref|ZP_12781354.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA13494]
 gi|418155581|ref|ZP_12792308.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA16242]
 gi|418157885|ref|ZP_12794601.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA16833]
 gi|418169595|ref|ZP_12806237.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA19077]
 gi|418173995|ref|ZP_12810607.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA41277]
 gi|418178656|ref|ZP_12815239.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA41565]
 gi|418183137|ref|ZP_12819695.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA43380]
 gi|418189838|ref|ZP_12826350.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA47373]
 gi|418202820|ref|ZP_12839249.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA52306]
 gi|418217048|ref|ZP_12843728.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae
           Netherlands15B-37]
 gi|418221623|ref|ZP_12848276.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA47751]
 gi|418225978|ref|ZP_12852606.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae NP112]
 gi|419423509|ref|ZP_13963722.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA43264]
 gi|419431985|ref|ZP_13972118.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae EU-NP05]
 gi|419433884|ref|ZP_13974002.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA40183]
 gi|419440790|ref|ZP_13980835.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA40410]
 gi|419455961|ref|ZP_13995918.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae EU-NP04]
 gi|419458197|ref|ZP_13998139.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA02254]
 gi|419460404|ref|ZP_14000332.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA02270]
 gi|419464984|ref|ZP_14004875.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA04175]
 gi|419467208|ref|ZP_14007089.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA05248]
 gi|419469409|ref|ZP_14009277.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA06083]
 gi|419471498|ref|ZP_14011357.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA07914]
 gi|419473665|ref|ZP_14013514.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA13430]
 gi|419482649|ref|ZP_14022436.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA40563]
 gi|419489211|ref|ZP_14028960.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA44386]
 gi|419493723|ref|ZP_14033448.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA47210]
 gi|419497972|ref|ZP_14037679.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA47522]
 gi|419512990|ref|ZP_14052622.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA05578]
 gi|419517196|ref|ZP_14056812.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA02506]
 gi|421211483|ref|ZP_15668465.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 2070035]
 gi|421232315|ref|ZP_15688956.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 2080076]
 gi|421236701|ref|ZP_15693298.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 2071004]
 gi|421266601|ref|ZP_15717481.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae SPAR27]
 gi|421273149|ref|ZP_15723990.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae SPAR55]
 gi|421281595|ref|ZP_15732392.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA04672]
 gi|421283735|ref|ZP_15734521.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA04216]
 gi|421286010|ref|ZP_15736786.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA60190]
 gi|421299061|ref|ZP_15749748.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA60080]
 gi|421307806|ref|ZP_15758448.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA60132]
 gi|421310007|ref|ZP_15760632.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA62681]
 gi|38258775|sp|Q8CWQ1.1|TRUA_STRR6 RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|122278273|sp|Q04JF7.1|TRUA_STRP2 RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|238688376|sp|B1ID11.1|TRUA_STRPI RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|238691180|sp|B2IRB1.1|TRUA_STRPS RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|254764868|sp|B8ZM12.1|TRUA_STRPJ RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|254764870|sp|C1CFH9.1|TRUA_STRZJ RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|15459107|gb|AAL00255.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae R6]
 gi|116077361|gb|ABJ55081.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae D39]
 gi|147757704|gb|EDK64720.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae SP14-BS69]
 gi|147925851|gb|EDK76926.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae SP6-BS73]
 gi|168995885|gb|ACA36497.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae
           Hungary19A-6]
 gi|182629882|gb|ACB90830.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae CGSP14]
 gi|220674815|emb|CAR69389.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae ATCC
           700669]
 gi|225723432|gb|ACO19285.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae JJA]
 gi|306484868|gb|ADM91737.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 670-6B]
 gi|332072765|gb|EGI83246.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA17545]
 gi|332200155|gb|EGJ14228.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA47368]
 gi|353746563|gb|EHD27223.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 4027-06]
 gi|353746966|gb|EHD27624.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA47502]
 gi|353748499|gb|EHD29151.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA11184]
 gi|353751967|gb|EHD32598.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 6735-05]
 gi|353758302|gb|EHD38894.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA47033]
 gi|353761153|gb|EHD41725.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA43265]
 gi|353762901|gb|EHD43458.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA44452]
 gi|353768910|gb|EHD49432.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 6901-05]
 gi|353775884|gb|EHD56363.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA44500]
 gi|353778300|gb|EHD58768.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA41410]
 gi|353781945|gb|EHD62385.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA49447]
 gi|353787962|gb|EHD68360.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 6963-05]
 gi|353792503|gb|EHD72875.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA44194]
 gi|353795754|gb|EHD76100.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA44378]
 gi|353798977|gb|EHD79300.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae NP170]
 gi|353804927|gb|EHD85205.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA11304]
 gi|353807025|gb|EHD87297.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA13494]
 gi|353819830|gb|EHE00019.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA16242]
 gi|353824333|gb|EHE04507.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA16833]
 gi|353834186|gb|EHE14291.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA19077]
 gi|353837951|gb|EHE18032.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA41277]
 gi|353842715|gb|EHE22761.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA41565]
 gi|353848120|gb|EHE28137.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA43380]
 gi|353853565|gb|EHE33546.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA47373]
 gi|353867377|gb|EHE47272.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA52306]
 gi|353870321|gb|EHE50194.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae
           Netherlands15B-37]
 gi|353874933|gb|EHE54787.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA47751]
 gi|353881175|gb|EHE60989.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae NP112]
 gi|353900626|gb|EHE76177.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA11663]
 gi|353901985|gb|EHE77515.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA11426]
 gi|379529861|gb|EHY95102.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA02254]
 gi|379530540|gb|EHY95779.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA02270]
 gi|379536584|gb|EHZ01770.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA04175]
 gi|379542955|gb|EHZ08107.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA05248]
 gi|379544213|gb|EHZ09358.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA06083]
 gi|379546214|gb|EHZ11353.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA07914]
 gi|379550829|gb|EHZ15925.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA13430]
 gi|379576885|gb|EHZ41809.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA40183]
 gi|379577860|gb|EHZ42777.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA40410]
 gi|379579241|gb|EHZ44148.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA40563]
 gi|379586081|gb|EHZ50935.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA43264]
 gi|379586753|gb|EHZ51603.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA44386]
 gi|379592296|gb|EHZ57112.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA47210]
 gi|379598805|gb|EHZ63590.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA47522]
 gi|379627937|gb|EHZ92543.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae EU-NP04]
 gi|379629066|gb|EHZ93667.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae EU-NP05]
 gi|379634155|gb|EHZ98720.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA05578]
 gi|379639269|gb|EIA03813.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA02506]
 gi|381308463|gb|EIC49306.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae SV36]
 gi|381314770|gb|EIC55536.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 459-5]
 gi|381318294|gb|EIC59019.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae SV35]
 gi|395572591|gb|EJG33186.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 2070035]
 gi|395594818|gb|EJG55053.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 2080076]
 gi|395601464|gb|EJG61611.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 2071004]
 gi|395866669|gb|EJG77797.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae SPAR27]
 gi|395874352|gb|EJG85438.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae SPAR55]
 gi|395880421|gb|EJG91473.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA04216]
 gi|395880860|gb|EJG91911.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA04672]
 gi|395885997|gb|EJG97018.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA60190]
 gi|395900532|gb|EJH11470.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA60080]
 gi|395907191|gb|EJH18085.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA60132]
 gi|395909622|gb|EJH20497.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA62681]
          Length = 249

 Score =  126 bits (317), Expect = 7e-27,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 109/206 (52%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDG  +AG+Q Q+   ++Q  +EK L R+ K   + + + GA RTD+GVHA G
Sbjct: 3   RYKATISYDGYAFAGFQRQSHARSVQEEIEKTLTRLNK--GQTITVHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D  E +  AL+   P DI V  I     +FH R++  SK Y + +    
Sbjct: 61  QVIHFDLPYQMDE-EKLRFALDTQSPEDIDVISIELVADDFHCRYAKHSKTYEFIVDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +P + HYA H  Y L+   M+ A +   G HDF+ F          + V++I    +I
Sbjct: 120 PKNPMRRHYATHFPYPLDVERMQIAIKKLEGTHDFTGFT--ASGTSVEDKVRTITEASLI 177

Query: 206 --EMGALLQLEVEGSGFLYRQVRNMV 229
             E G  L     G+GFLY+Q+RNMV
Sbjct: 178 VDETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|289435864|ref|YP_003465736.1| tRNA pseudouridine synthase A [Listeria seeligeri serovar 1/2b str.
           SLCC3954]
 gi|289172108|emb|CBH28654.1| tRNA pseudouridine synthase A [Listeria seeligeri serovar 1/2b str.
           SLCC3954]
          Length = 248

 Score =  126 bits (317), Expect = 7e-27,   Method: Compositional matrix adjust.
 Identities = 74/202 (36%), Positives = 112/202 (55%), Gaps = 6/202 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDG+ + G+Q Q    T+Q  +EKAL ++ K   + +R+  + RTDTGVHA G
Sbjct: 3   RYKAIISYDGSGFYGYQVQPDTRTVQAEIEKALKKMHK--GKSVRVTASGRTDTGVHAKG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF +       E    AL  + P DI    +  A  +FHARF    K Y Y +    
Sbjct: 61  QVIHFDSELDISA-EKFQKALQVMTPFDISFLIVEEAPADFHARFGTVGKEYRYVVKRTK 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           V DPF  ++A H  Y+LN   M+ A+E  VG+HDF++F +  R +R  + V++++  D  
Sbjct: 120 VFDPFSRNFALHYPYELNLEKMKLASERLVGEHDFTSFCS-ARTERD-SKVRTLYSIDFY 177

Query: 206 -EMGALLQLEVEGSGFLYRQVR 226
            E    L +  +G+GFLY  VR
Sbjct: 178 EEEDDTLVIAFQGNGFLYNMVR 199


>gi|229027990|ref|ZP_04184143.1| tRNA pseudouridine synthase A [Bacillus cereus AH1271]
 gi|228733378|gb|EEL84207.1| tRNA pseudouridine synthase A [Bacillus cereus AH1271]
          Length = 235

 Score =  126 bits (317), Expect = 7e-27,   Method: Compositional matrix adjust.
 Identities = 70/192 (36%), Positives = 110/192 (57%), Gaps = 5/192 (2%)

Query: 38  YAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVAHFITPFSYD 97
           + G+Q Q    T+Q  +EKAL ++ K E   +R+  + RTD+ VHA GQV HF TP S +
Sbjct: 3   FCGYQIQPQHRTVQQEIEKALQKLHKGEL--VRVQASGRTDSTVHAKGQVIHFDTPLSLE 60

Query: 98  GLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDPFQHHYAYH 157
             +  +A LN +LP DI +R++     EFHAR+  + K Y Y++      D F+ +Y Y 
Sbjct: 61  EWQWSNA-LNTMLPDDIVIRQVEKKTEEFHARYGVERKEYRYRVLLSKTADVFRRNYVYQ 119

Query: 158 SVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMGALLQLEVEG 217
             Y L    +R+A  YF+G HDF++F + + + +  + V++I+  ++IE    L     G
Sbjct: 120 YPYPLEINSIRKAIPYFIGTHDFTSFCSAKTDKK--DKVRTIYEIELIEQDDELIFRFVG 177

Query: 218 SGFLYRQVRNMV 229
           +GFLY  VR +V
Sbjct: 178 NGFLYNMVRIIV 189


>gi|15644322|ref|NP_229374.1| tRNA pseudouridine synthase ACD [Thermotoga maritima MSB8]
 gi|418045633|ref|ZP_12683728.1| tRNA pseudouridine synthase A [Thermotoga maritima MSB8]
 gi|8134772|sp|Q9X1R0.1|TRUA_THEMA RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|4982143|gb|AAD36641.1|AE001802_10 pseudouridylate synthase I [Thermotoga maritima MSB8]
 gi|351676518|gb|EHA59671.1| tRNA pseudouridine synthase A [Thermotoga maritima MSB8]
          Length = 245

 Score =  126 bits (317), Expect = 7e-27,   Method: Compositional matrix adjust.
 Identities = 74/201 (36%), Positives = 108/201 (53%), Gaps = 7/201 (3%)

Query: 30  VIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVAH 89
           VI YDG+ + G+Q Q    T+Q ++E AL R+ K   + +    A RTDTGVHA GQ+  
Sbjct: 7   VIEYDGSNFFGYQGQPDVRTVQGVIEDALERIFK---QRIYTQAAGRTDTGVHANGQLIA 63

Query: 90  FITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDP 149
           F  P      E I  A+N  LP D+ V+E+      FH RF    +IYHY I      + 
Sbjct: 64  FNCPNDRMTTEDIRNAMNANLPDDVYVKEVFEVPVNFHPRFDVTKRIYHYFILTSRQKNV 123

Query: 150 FQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM-G 208
           F   Y +   Y+L+   MR+A +Y  G HDF++F   +      +PV++I+R  ++ +  
Sbjct: 124 FLRKYVWWFPYELDLDAMRKAVKYLEGTHDFTSF---KTGSDERDPVRTIYRIRILRLKN 180

Query: 209 ALLQLEVEGSGFLYRQVRNMV 229
            L+ + VEG  FL R VRN+V
Sbjct: 181 DLVLIRVEGRSFLRRMVRNIV 201


>gi|78045100|ref|YP_361085.1| tRNA pseudouridine synthase A [Carboxydothermus hydrogenoformans
           Z-2901]
 gi|77997215|gb|ABB16114.1| tRNA pseudouridine synthase A [Carboxydothermus hydrogenoformans
           Z-2901]
          Length = 246

 Score =  126 bits (316), Expect = 8e-27,   Method: Compositional matrix adjust.
 Identities = 81/206 (39%), Positives = 111/206 (53%), Gaps = 10/206 (4%)

Query: 22  FPGFKWRLVIGYDGTRYAGWQFQ-TSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTG 80
            P FK  L I YDGT +AG+Q Q  +P TIQ I+E+ L ++ K   E ++++GA RTD G
Sbjct: 4   LPNFK--LTIAYDGTNFAGFQKQKNTPQTIQGILEEKLHKILK---EPVKVIGAGRTDAG 58

Query: 81  VHAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYK 140
           VHA GQV +F  P+    ++ I   LN  LP  IRV E      +FHAR+SA+ K Y Y 
Sbjct: 59  VHALGQVVNFSAPWKAP-VDKIPEILNNTLPTAIRVLEAEIVPDDFHARYSARKKEYRYY 117

Query: 141 IYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIF 200
           +Y      PF   YA+    KL+   + +A EY +G HDFS F     + +  NP+K++F
Sbjct: 118 LYYGPP-SPFYERYAWALPQKLDREKVAKALEYLIGTHDFSGFGAAGSSGK--NPIKTMF 174

Query: 201 RFDVIEMGALLQLEVEGSGFLYRQVR 226
                E G L         FLY+  R
Sbjct: 175 EASYREDGFLGYFTFVADSFLYKMAR 200


>gi|270157075|ref|ZP_06185732.1| tRNA pseudouridine synthase A [Legionella longbeachae D-4968]
 gi|289164512|ref|YP_003454650.1| tRNA-pseudouridine synthase I [Legionella longbeachae NSW150]
 gi|269989100|gb|EEZ95354.1| tRNA pseudouridine synthase A [Legionella longbeachae D-4968]
 gi|288857685|emb|CBJ11528.1| tRNA-pseudouridine synthase I [Legionella longbeachae NSW150]
          Length = 262

 Score =  126 bits (316), Expect = 8e-27,   Method: Compositional matrix adjust.
 Identities = 73/200 (36%), Positives = 112/200 (56%), Gaps = 6/200 (3%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           LV+ YDG++Y GWQ QT   T+Q  VE AL +V  L    + +V A RTDTGVHA  QV 
Sbjct: 5   LVLEYDGSKYHGWQAQTGLHTVQQAVENALSKVADLP---ISVVCAGRTDTGVHATNQVI 61

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           HF +         IH  +N  LP DI V+       EFHAR+SA ++ Y Y IYN A+  
Sbjct: 62  HFDSEKQRSIRAWIHG-VNSFLPKDICVKWGKELSEEFHARYSATARRYRYVIYNSAIRP 120

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
                       +L+  LM +AA+  +G++DF++F +++       P++++++  V  MG
Sbjct: 121 ALLRSNVTWQYRQLDHRLMHQAAQVLLGENDFTSFRSVECQSN--TPMRNVYKLQVNRMG 178

Query: 209 ALLQLEVEGSGFLYRQVRNM 228
            L+ +++  + FL+  VRN+
Sbjct: 179 DLVIIDITANAFLHHMVRNI 198


>gi|73748346|ref|YP_307585.1| tRNA pseudouridine synthase A [Dehalococcoides sp. CBDB1]
 gi|289432394|ref|YP_003462267.1| tRNA pseudouridine synthase A [Dehalococcoides sp. GT]
 gi|452203351|ref|YP_007483484.1| pseudouridylate synthase [Dehalococcoides mccartyi DCMB5]
 gi|73660062|emb|CAI82669.1| tRNA pseudouridine synthase A [Dehalococcoides sp. CBDB1]
 gi|288946114|gb|ADC73811.1| tRNA pseudouridine synthase A [Dehalococcoides sp. GT]
 gi|452110410|gb|AGG06142.1| pseudouridylate synthase [Dehalococcoides mccartyi DCMB5]
          Length = 246

 Score =  126 bits (316), Expect = 8e-27,   Method: Compositional matrix adjust.
 Identities = 81/207 (39%), Positives = 108/207 (52%), Gaps = 15/207 (7%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           +VI Y+GTRY+G+Q Q    TIQ  +E A   + KL  E  R+ G+ RTD GVHA  QV 
Sbjct: 1   MVIEYEGTRYSGFQIQDKGATIQGELETA---IRKLTSEQTRVSGSGRTDAGVHAAYQVV 57

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
            ++T  S  GLE I   LN  LPPDI V+E+      F  R  A S+ Y Y I N     
Sbjct: 58  SYLTESSL-GLEKIKGGLNYYLPPDIAVKEVHFVAENFDVRRRAISREYSYHILNSKTRS 116

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVN-----IQRNDRALNPVKSIFRFD 203
           P     A+   YKL+  LM +A +   G+HDF AF +     I++  R +N      R D
Sbjct: 117 PLARLQAWQVPYKLDIKLMEQAFKMLEGEHDFIAFASSLGPEIKKTVRRVNWT----RLD 172

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMVN 230
           ++E    L L +E + FL  QVRN + 
Sbjct: 173 IVE--DRLILRIEANSFLTHQVRNTIG 197


>gi|197103844|ref|YP_002129221.1| tRNA pseudouridine synthase A [Phenylobacterium zucineum HLK1]
 gi|196477264|gb|ACG76792.1| tRNA pseudouridine synthase [Phenylobacterium zucineum HLK1]
          Length = 246

 Score =  126 bits (316), Expect = 8e-27,   Method: Compositional matrix adjust.
 Identities = 82/206 (39%), Positives = 110/206 (53%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++RL+I YDG  + G+Q Q   PTIQ  +E+A   V     EDLRL  A RTDTGVHA G
Sbjct: 4   RYRLLIEYDGRPFNGFQAQDGLPTIQGAIERA---VKAFCGEDLRLQAAGRTDTGVHARG 60

Query: 86  QVAHFITPFSYDGLESIHAALNG-LLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           QV H      +   E++  ALN  L+P  I V E S A   +HARFSAK + Y Y+I N 
Sbjct: 61  QVVHVDLAKDWPA-ETVRNALNAHLVPQPIAVLEASVAPEGWHARFSAKERRYLYRILNR 119

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
                      +H    L+   M EAA+  VG HDF+ F ++    +A +P+K++    V
Sbjct: 120 MAPPALDQGRVWHVKKPLDAEAMHEAAQALVGHHDFTTFRDL--GCQAKSPMKTLDLASV 177

Query: 205 IEMGALLQLEVEGSGFLYRQVRNMVN 230
              G  + LE     FL+RQVR+M  
Sbjct: 178 RREGDEVLLEFASRSFLHRQVRSMTG 203


>gi|374337298|ref|YP_005093999.1| tRNA pseudouridine synthase A [Streptococcus macedonicus ACA-DC
           198]
 gi|372283399|emb|CCF01576.1| tRNA pseudouridine synthase A [Streptococcus macedonicus ACA-DC
           198]
          Length = 249

 Score =  126 bits (316), Expect = 8e-27,   Method: Compositional matrix adjust.
 Identities = 75/206 (36%), Positives = 110/206 (53%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDG  +AG+Q Q S  ++Q  +EK L ++       +++ GA RTD+GVHA+G
Sbjct: 3   RYKATISYDGRLFAGFQRQPSERSVQEELEKTLQKLN--SGNPVKVHGAGRTDSGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P + D +E +   L+   P DI V ++     EFHAR++  SK Y + +    
Sbjct: 61  QVVHFDLPQARD-VEKLRFGLDTQSPEDIDVVKVEQVSDEFHARYNKHSKTYEFLVDAGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +P   HYA H  Y L+   M+EA +  VG HDF+ F          N V++I R  V 
Sbjct: 120 PKNPMMRHYAMHYPYPLDLISMQEAIKDLVGTHDFTGFT--ASGTSVENKVRTITRATVA 177

Query: 206 --EMGALLQLEVEGSGFLYRQVRNMV 229
             +          G+GFLY+QVRNMV
Sbjct: 178 IDDKTGFFVFTFSGNGFLYKQVRNMV 203


>gi|328951883|ref|YP_004369217.1| tRNA pseudouridine synthase A [Desulfobacca acetoxidans DSM 11109]
 gi|328452207|gb|AEB08036.1| tRNA pseudouridine synthase A [Desulfobacca acetoxidans DSM 11109]
          Length = 267

 Score =  126 bits (316), Expect = 8e-27,   Method: Compositional matrix adjust.
 Identities = 78/207 (37%), Positives = 110/207 (53%), Gaps = 15/207 (7%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L + YDGT Y GWQ Q +  TIQ +VE  L R+T    + +RL  + RTD GVHA GQVA
Sbjct: 27  LTLEYDGTAYHGWQRQANALTIQEVVETCLARLTG---QVIRLHSSGRTDAGVHALGQVA 83

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           HF+T  S   L +    LN LLP D+ + ++  A   FHAR+SA +K Y Y+I N  V  
Sbjct: 84  HFLTTSSLP-LSAFREGLNSLLPRDLAILKVCDAPAGFHARYSATAKTYEYRILNRPVRS 142

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI--- 205
           P   +Y +     L+  L+R+AA Y +G+ DF+AF        +   VK+  R  +    
Sbjct: 143 PVHCNYCWWLARPLDQGLLRQAAGYILGEQDFAAF------QASGGSVKTTTRKVMAASW 196

Query: 206 --EMGALLQLEVEGSGFLYRQVRNMVN 230
             + G     ++  +GFL   VR +V 
Sbjct: 197 EEKPGGWRIFQITANGFLRGMVRALVG 223


>gi|15677859|ref|NP_275027.1| tRNA pseudouridine synthase A [Neisseria meningitidis MC58]
 gi|385854079|ref|YP_005900593.1| tRNA pseudouridine synthase A [Neisseria meningitidis H44/76]
 gi|427828133|ref|ZP_18995151.1| tRNA pseudouridine synthase A [Neisseria meningitidis H44/76]
 gi|433466017|ref|ZP_20423486.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis NM422]
 gi|433489212|ref|ZP_20446358.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis M13255]
 gi|433491394|ref|ZP_20448503.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis NM418]
 gi|433505884|ref|ZP_20462812.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis 9506]
 gi|433508028|ref|ZP_20464922.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis 9757]
 gi|433510225|ref|ZP_20467079.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis 12888]
 gi|433512240|ref|ZP_20469050.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis 4119]
 gi|25009507|sp|Q9JXI2.1|TRUA_NEIMB RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|7227297|gb|AAF42357.1| tRNA pseudouridine synthase A [Neisseria meningitidis MC58]
 gi|316983916|gb|EFV62895.1| tRNA pseudouridine synthase A [Neisseria meningitidis H44/76]
 gi|325201083|gb|ADY96538.1| tRNA pseudouridine synthase A [Neisseria meningitidis H44/76]
 gi|432200405|gb|ELK56498.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis NM422]
 gi|432220142|gb|ELK75967.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis M13255]
 gi|432225146|gb|ELK80899.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis NM418]
 gi|432238408|gb|ELK93974.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis 9506]
 gi|432238610|gb|ELK94175.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis 9757]
 gi|432244469|gb|ELK99957.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis 12888]
 gi|432244863|gb|ELL00344.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis 4119]
          Length = 265

 Score =  126 bits (316), Expect = 8e-27,   Method: Compositional matrix adjust.
 Identities = 76/212 (35%), Positives = 114/212 (53%), Gaps = 7/212 (3%)

Query: 20  DSFPGFKWRLVIGYDGTRYAGWQFQTSP-PTIQCIVEKALIRVTKLEREDLRLVGASRTD 78
           D+    +W + + YDG+R+ GWQ Q    PT+Q  +E AL ++     E +    A RTD
Sbjct: 2   DTAQKQRWAITLSYDGSRFYGWQKQADGVPTVQAALETALAQIAG---EAVSTTVAGRTD 58

Query: 79  TGVHAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYH 138
           TGVHA  QV HF T  +      +   +N  LP  I V       PEFHARF A  + Y 
Sbjct: 59  TGVHATAQVVHFDTTAARPQQAWVRG-VNAHLPEGIAVLHARQVAPEFHARFDAYGRHYR 117

Query: 139 YKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKS 198
           Y + +  V  P   + A  +  KL+   MR+AA   VG+ DFS+F   +   +A +PVK+
Sbjct: 118 YLLESAPVRSPLLKNRAGWTHLKLDIGQMRQAAALLVGEQDFSSFRAAE--CQAKSPVKT 175

Query: 199 IFRFDVIEMGALLQLEVEGSGFLYRQVRNMVN 230
           I+R D+ +   L++L++ G+ FL+  VRN++ 
Sbjct: 176 IYRADLTQSSGLVRLDLHGNAFLHHMVRNIMG 207


>gi|410628439|ref|ZP_11339158.1| tRNA pseudouridine38-40 synthase [Glaciecola mesophila KMM 241]
 gi|410151915|dbj|GAC25927.1| tRNA pseudouridine38-40 synthase [Glaciecola mesophila KMM 241]
          Length = 263

 Score =  126 bits (316), Expect = 8e-27,   Method: Compositional matrix adjust.
 Identities = 78/203 (38%), Positives = 112/203 (55%), Gaps = 8/203 (3%)

Query: 28  RLVIG--YDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           R+ +G  YDG R+ GWQ Q    ++Q  +E+AL R+     E +R+V A RTD GVHA G
Sbjct: 2   RIALGVEYDGARFHGWQRQNEVISVQQHLEEALTRIAN---EPIRVVCAGRTDAGVHATG 58

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF T  S     +    +N  LP  I VR + A   +FHARFSA ++ Y Y IYN+ 
Sbjct: 59  QVVHFETT-SQRPDRAWTLGINTYLPDTISVRWVKAVPEDFHARFSATARRYRYIIYNNT 117

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           +      +   H    L+  LM EAA+  VGKHDFS+F  +  N +A    +++    V 
Sbjct: 118 LRSGILANGVTHIYGDLDHELMNEAAQKLVGKHDFSSFRAV--NCQAKTATRTMSHIRVK 175

Query: 206 EMGALLQLEVEGSGFLYRQVRNM 228
            MG  + ++V+ + FL+  VRN+
Sbjct: 176 RMGDYIVIDVQANAFLHHMVRNI 198


>gi|167759303|ref|ZP_02431430.1| hypothetical protein CLOSCI_01650 [Clostridium scindens ATCC 35704]
 gi|167663177|gb|EDS07307.1| tRNA pseudouridine synthase A [Clostridium scindens ATCC 35704]
          Length = 244

 Score =  126 bits (316), Expect = 8e-27,   Method: Compositional matrix adjust.
 Identities = 75/201 (37%), Positives = 109/201 (54%), Gaps = 8/201 (3%)

Query: 27  WRLVIGYDGTRYAGWQFQ-TSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG+RY GWQ Q T+  TIQ ++E +   + KL    + + G+ RTD GVHA G
Sbjct: 4   YKLTIAYDGSRYQGWQRQATTDNTIQFVLEWS---IGKLVGYRVHVDGSGRTDAGVHARG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA       YD  E +  +LN  LP DIR+ ++      FHAR SAK K Y Y I    
Sbjct: 61  QVASVKLSKLYDTKE-LKDSLNRYLPEDIRIVKVELVKNGFHARKSAKGKKYEYYIDCRE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             D F   Y YH   KL+   MR+A +Y +G  +F++F +   +    +P++ I    ++
Sbjct: 120 KPDVFSRRYCYHYPEKLDIEAMRDAVQYLIGPKNFTSFTD---DKECKDPIRRIINIKIV 176

Query: 206 EMGALLQLEVEGSGFLYRQVR 226
             G  +++   G+GFLY  VR
Sbjct: 177 STGEKVRITYYGTGFLYHMVR 197


>gi|288959244|ref|YP_003449585.1| tRNA pseudouridine synthase A [Azospirillum sp. B510]
 gi|288911552|dbj|BAI73041.1| tRNA pseudouridine synthase A [Azospirillum sp. B510]
          Length = 245

 Score =  126 bits (316), Expect = 9e-27,   Method: Compositional matrix adjust.
 Identities = 76/206 (36%), Positives = 111/206 (53%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +W+L + YDG  + GWQ Q + P++Q  +E+A   V +L  E  R+ G+ RTD GVHA G
Sbjct: 3   RWKLTVEYDGRPFVGWQRQDNGPSVQQSLEEA---VRRLSGEVARVHGSGRTDAGVHALG 59

Query: 86  QVAHFITPFSYDGLESIHAALN-GLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           QV HF     +  L+ +  ALN  L P  I V E+ A   +FHAR ++  + Y Y+I N 
Sbjct: 60  QVCHFDLEKPFTALK-LRDALNFHLKPAPIAVLEVEAVTEDFHARLTSTGRAYVYRIVNR 118

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
                 +   A+H    L+   M  AA+  VG+HDFS+F       +A +PVK++ R  V
Sbjct: 119 RAPLALESGRAWHVTRPLDADAMHAAAQVLVGQHDFSSFRAAL--CQAKSPVKTLDRLAV 176

Query: 205 IEMGALLQLEVEGSGFLYRQVRNMVN 230
              G  +++      FL+ QVRNMV 
Sbjct: 177 ERQGDEIRVHAAARSFLHHQVRNMVG 202


>gi|187917895|ref|YP_001883458.1| tRNA pseudouridine synthase A [Borrelia hermsii DAH]
 gi|238689303|sp|B2S1K1.1|TRUA_BORHD RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|119860743|gb|AAX16538.1| tRNA pseudouridine synthase A [Borrelia hermsii DAH]
          Length = 245

 Score =  126 bits (316), Expect = 9e-27,   Method: Compositional matrix adjust.
 Identities = 72/199 (36%), Positives = 115/199 (57%), Gaps = 6/199 (3%)

Query: 31  IGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVAHF 90
           I YDG+ Y G+Q Q + PTIQ  +EKAL +++K +   +++  A RTD GVHA GQ+  F
Sbjct: 8   IAYDGSLYYGFQIQPTKPTIQGEIEKALEKISKTK---VKVHSAGRTDKGVHARGQIISF 64

Query: 91  ITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDPF 150
               +   L+++  A+N LL  DIR+ ++     EF  RF+AK + Y Y I N+    P+
Sbjct: 65  YIRINIK-LKNLKTAINSLLRKDIRIIKLKYVADEFQPRFNAKRRKYSYYILNNENHYPW 123

Query: 151 QHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMGAL 210
           + + AY+   KLN   + E A+  +G HDF+ F  I+  D+  + +K I+     +   L
Sbjct: 124 EGYQAYYVKKKLNINRLNEMAKMLIGIHDFTTFSCIK--DQTNSKLKKIYFARFKKKNKL 181

Query: 211 LQLEVEGSGFLYRQVRNMV 229
           +  E+ GS FL++ VR++V
Sbjct: 182 IIFEIIGSSFLWKMVRSIV 200


>gi|161869166|ref|YP_001598332.1| tRNA pseudouridine synthase A [Neisseria meningitidis 053442]
 gi|421566352|ref|ZP_16012103.1| tRNA pseudouridine synthase A [Neisseria meningitidis NM3081]
 gi|433537644|ref|ZP_20494135.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis 77221]
 gi|189030137|sp|A9M0B8.1|TRUA_NEIM0 RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|161594719|gb|ABX72379.1| tRNA pseudouridine synthase [Neisseria meningitidis 053442]
 gi|402340365|gb|EJU75566.1| tRNA pseudouridine synthase A [Neisseria meningitidis NM3081]
 gi|432270393|gb|ELL25531.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis 77221]
          Length = 265

 Score =  126 bits (316), Expect = 9e-27,   Method: Compositional matrix adjust.
 Identities = 75/212 (35%), Positives = 116/212 (54%), Gaps = 7/212 (3%)

Query: 20  DSFPGFKWRLVIGYDGTRYAGWQFQTSP-PTIQCIVEKALIRVTKLEREDLRLVGASRTD 78
           D+    +W + + YDG+R+ GWQ Q    PT+Q  +E AL ++     E +    A RTD
Sbjct: 2   DTAQKQRWAITLSYDGSRFYGWQKQADGVPTVQAALETALAQIAG---EAVSTTVAGRTD 58

Query: 79  TGVHAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYH 138
           TGVHA  QV HF T  +   +++    +N  LP  I V       PEFHARF A  + Y 
Sbjct: 59  TGVHATAQVVHFDTA-AVRPVQAWVRGVNAHLPEGIAVLHARQVAPEFHARFDAYGRHYR 117

Query: 139 YKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKS 198
           Y + +  V  P   + A  +  KL+   MR+AA   +G+ DFS+F   +   +A +PVK+
Sbjct: 118 YLLESAPVRSPLLKNRAGWTHLKLDIGQMRQAAALLIGEQDFSSFRAAE--CQAKSPVKT 175

Query: 199 IFRFDVIEMGALLQLEVEGSGFLYRQVRNMVN 230
           I+R D+ +   L++L++ G+ FL+  VRN++ 
Sbjct: 176 IYRADLTQSSGLVRLDLHGNAFLHHMVRNIMG 207


>gi|148997657|ref|ZP_01825221.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae SP11-BS70]
 gi|168575203|ref|ZP_02721166.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae MLV-016]
 gi|194397044|ref|YP_002038227.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae G54]
 gi|307068239|ref|YP_003877205.1| pseudouridylate synthase [Streptococcus pneumoniae AP200]
 gi|417698994|ref|ZP_12348165.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA41317]
 gi|418148975|ref|ZP_12785737.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA13856]
 gi|419453753|ref|ZP_13993723.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae EU-NP03]
 gi|419491511|ref|ZP_14031249.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA47179]
 gi|419504350|ref|ZP_14044018.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA47760]
 gi|419506495|ref|ZP_14046156.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA49194]
 gi|419532811|ref|ZP_14072326.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA47794]
 gi|421275324|ref|ZP_15726153.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA52612]
 gi|421314488|ref|ZP_15765075.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA47562]
 gi|238690845|sp|B5E6N8.1|TRUA_STRP4 RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|147756156|gb|EDK63198.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae SP11-BS70]
 gi|183578806|gb|EDT99334.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae MLV-016]
 gi|194356711|gb|ACF55159.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae G54]
 gi|306409776|gb|ADM85203.1| Pseudouridylate synthase [Streptococcus pneumoniae AP200]
 gi|332199640|gb|EGJ13715.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA41317]
 gi|353811311|gb|EHD91553.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA13856]
 gi|379592873|gb|EHZ57688.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA47179]
 gi|379605331|gb|EHZ70082.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA47794]
 gi|379605738|gb|EHZ70488.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA47760]
 gi|379608409|gb|EHZ73155.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA49194]
 gi|379625823|gb|EHZ90449.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae EU-NP03]
 gi|395873288|gb|EJG84380.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA52612]
 gi|395913173|gb|EJH24026.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA47562]
          Length = 249

 Score =  126 bits (316), Expect = 9e-27,   Method: Compositional matrix adjust.
 Identities = 74/208 (35%), Positives = 109/208 (52%), Gaps = 11/208 (5%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDG  +AG+Q Q+   ++Q  +EK L R+ K   + + + GA RTD+GVHA G
Sbjct: 3   RYKATISYDGYAFAGFQRQSHARSVQEEIEKTLTRLNK--GQTITVHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D  E +  AL+   P DI V  I     +FH R++  SK Y + +    
Sbjct: 61  QVIHFDLPYQMDE-EKLRFALDTQSPEDIDVISIELVADDFHCRYAKHSKTYEFILDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAF----VNIQRNDRALNPVKSIFR 201
             +P + HYA H  Y L+   M+ A +   G HDF+ F     +++   R +     I  
Sbjct: 120 PKNPMRRHYATHFPYPLDVERMQIAIKKLEGTHDFTGFTASGTSVEDKVRTITEASLI-- 177

Query: 202 FDVIEMGALLQLEVEGSGFLYRQVRNMV 229
             V E G  L     G+GFLY+Q+RNMV
Sbjct: 178 --VDETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|342733026|ref|YP_004771865.1| tRNA pseudouridine synthase [Candidatus Arthromitus sp.
           SFB-mouse-Japan]
 gi|384456393|ref|YP_005668991.1| pseudouridylate synthase I [Candidatus Arthromitus sp.
           SFB-mouse-Yit]
 gi|417965138|ref|ZP_12606729.1| tRNA pseudouridine synthase A [Candidatus Arthromitus sp. SFB-4]
 gi|417968124|ref|ZP_12609167.1| tRNA pseudouridine synthase A [Candidatus Arthromitus sp. SFB-co]
 gi|418015565|ref|ZP_12655130.1| tRNA pseudouridine synthase A [Candidatus Arthromitus sp.
           SFB-mouse-NYU]
 gi|418373278|ref|ZP_12965369.1| tRNA pseudouridine synthase A [Candidatus Arthromitus sp.
           SFB-mouse-SU]
 gi|342330481|dbj|BAK57123.1| tRNA pseudouridine synthase [Candidatus Arthromitus sp.
           SFB-mouse-Japan]
 gi|345505900|gb|EGX28194.1| tRNA pseudouridine synthase A [Candidatus Arthromitus sp.
           SFB-mouse-NYU]
 gi|346984739|dbj|BAK80415.1| pseudouridylate synthase I [Candidatus Arthromitus sp.
           SFB-mouse-Yit]
 gi|380338764|gb|EIA27622.1| tRNA pseudouridine synthase A [Candidatus Arthromitus sp. SFB-4]
 gi|380340230|gb|EIA28851.1| tRNA pseudouridine synthase A [Candidatus Arthromitus sp. SFB-co]
 gi|380341667|gb|EIA30141.1| tRNA pseudouridine synthase A [Candidatus Arthromitus sp.
           SFB-mouse-SU]
          Length = 246

 Score =  126 bits (316), Expect = 9e-27,   Method: Compositional matrix adjust.
 Identities = 72/203 (35%), Positives = 111/203 (54%), Gaps = 13/203 (6%)

Query: 31  IGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVAHF 90
           I Y G+ Y G+Q Q    +IQ ++E    ++ K++   + ++G SRTD GVHA      F
Sbjct: 7   ICYLGSNYHGFQKQKEKISIQGVIEDVFYKIFKIK---VNIIGCSRTDAGVHA----KEF 59

Query: 91  ITPFSYDGLE----SIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
                 D       +I  ALN  LP DIR+ ++     +FH+R+ A  K Y YKI+N  V
Sbjct: 60  YFNIHLDNFRVSCVNIKNALNTYLPYDIRILDVFYVDEKFHSRYDALKKEYEYKIFNGDV 119

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
           MDPF++ Y  H  Y+L+   M +A +YF G+HDF AF++   N    N ++ IF+  + +
Sbjct: 120 MDPFKYQYYMHFRYELDFNSMYKACKYFEGEHDFRAFMS--SNSSIKNTIRIIFKSSIYK 177

Query: 207 MGALLQLEVEGSGFLYRQVRNMV 229
              ++   + G+GFLY  VR +V
Sbjct: 178 EDNIIIYNILGNGFLYNMVRIIV 200


>gi|421238940|ref|ZP_15695504.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 2071247]
 gi|421245450|ref|ZP_15701948.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 2081685]
 gi|395600583|gb|EJG60738.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 2071247]
 gi|395607977|gb|EJG68073.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 2081685]
          Length = 249

 Score =  126 bits (316), Expect = 9e-27,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 109/206 (52%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDG  +AG+Q Q+   ++Q  +EK L R+ K   + + + GA RTD+GVHA G
Sbjct: 3   RYKATISYDGYAFAGFQRQSHARSVQEEIEKTLTRLNK--GQTITVHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D  E +  AL+   P DI V  I     +FH R++  SK Y + +    
Sbjct: 61  QVIHFDLPYQMDE-EKLRFALDTQSPEDIDVISIELVADDFHCRYAKHSKTYEFILDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +P + HYA H  Y L+   M+ A +   G HDF+ F          + V++I    +I
Sbjct: 120 PKNPMRRHYATHFPYPLDVERMQIAIKKLEGTHDFTGFT--ASGTSVEDKVRTITEASLI 177

Query: 206 --EMGALLQLEVEGSGFLYRQVRNMV 229
             E G  L     G+GFLY+Q+RNMV
Sbjct: 178 VDETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|410727996|ref|ZP_11366189.1| pseudouridylate synthase I [Clostridium sp. Maddingley MBC34-26]
 gi|410597556|gb|EKQ52167.1| pseudouridylate synthase I [Clostridium sp. Maddingley MBC34-26]
          Length = 244

 Score =  126 bits (316), Expect = 9e-27,   Method: Compositional matrix adjust.
 Identities = 70/202 (34%), Positives = 111/202 (54%), Gaps = 6/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L+I +DG+ + GWQ Q    T+Q  +E A+ ++T    E++ + G+SRTD GVHA   V
Sbjct: 5   KLIIEFDGSNFCGWQRQPKGRTVQKTIEDAISKITG---EEILINGSSRTDAGVHAREMV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A+F T  +  G +    A+N  LP D+ + +      +FHAR+S+K K Y Y I N    
Sbjct: 62  ANFFTSSTIPG-DKFREAINTKLPKDVSIIKSEEVSEDFHARYSSKGKTYSYTIVNRYER 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
               H Y YH  Y LN   M +A +YF+G HDF AF++   + +    V+++    + + 
Sbjct: 121 LSLGHQYLYHYKYNLNIHEMGKACQYFIGIHDFRAFMSPGSSIKT--TVRNVTELYIEQK 178

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
           G  +++ +   GFLY  VR +V
Sbjct: 179 GDKIKIFITADGFLYNMVRIIV 200


>gi|331085203|ref|ZP_08334289.1| hypothetical protein HMPREF0987_00592 [Lachnospiraceae bacterium
           9_1_43BFAA]
 gi|330407986|gb|EGG87476.1| hypothetical protein HMPREF0987_00592 [Lachnospiraceae bacterium
           9_1_43BFAA]
          Length = 248

 Score =  126 bits (316), Expect = 9e-27,   Method: Compositional matrix adjust.
 Identities = 72/202 (35%), Positives = 105/202 (51%), Gaps = 4/202 (1%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L + YDG+RY GWQ      +   +  K L  + K+  ED+ L   +RT+ GVHA+GQV 
Sbjct: 6   LTLEYDGSRYQGWQRLGKGESTNTVSNKILEVLKKMTNEDVELFCGARTEVGVHAYGQVV 65

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +F T      LE  H  +N  LP DI V  +      FHA  +AKS+IY Y++    V  
Sbjct: 66  NFKTTTDMTLLEIKHY-MNRYLPMDIAVLSVEEKPERFHASLNAKSRIYLYRVAIAEVPS 124

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
            F   Y YHS  K +T LM++AA    GKHDF  F  +++N    +  K I   D+ E  
Sbjct: 125 VFDRKYTYHSFKKPDTELMKQAALLLAGKHDFKKFSTVKKNK---STEKEILNIDIYEDL 181

Query: 209 ALLQLEVEGSGFLYRQVRNMVN 230
             +Q+ +E + FL+   R +++
Sbjct: 182 EEIQITLEATDFLHNMPRMILS 203


>gi|148263121|ref|YP_001229827.1| tRNA pseudouridine synthase A [Geobacter uraniireducens Rf4]
 gi|189030134|sp|A5GB00.1|TRUA_GEOUR RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|146396621|gb|ABQ25254.1| tRNA pseudouridine synthase A [Geobacter uraniireducens Rf4]
          Length = 244

 Score =  126 bits (316), Expect = 9e-27,   Method: Compositional matrix adjust.
 Identities = 79/199 (39%), Positives = 107/199 (53%), Gaps = 6/199 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L+I YDGT Y+GWQ Q +  TIQ ++E +L     +  E ++L  + RTD GVHA G V
Sbjct: 5   KLIIEYDGTNYSGWQVQPNGITIQQLIEASL---ATMLGEPVKLHSSGRTDAGVHALGMV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A F T      L +    LN LLP DI +R+   A   F+ R  AKSK Y Y IYN    
Sbjct: 62  AAFKTG-KLLPLRAFSDGLNALLPNDIAIRDAVEAPLSFNPRADAKSKHYRYTIYNAVRR 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
            P     ++H    L+   M+ AA +FVG+HDF+AF     N  A   V+ +F   V + 
Sbjct: 121 SPLARLSSWHLRGALDIERMQAAASHFVGEHDFAAFR--ASNCAAKTTVRRLFSVSVAKD 178

Query: 208 GALLQLEVEGSGFLYRQVR 226
           G  + ++V GSGFL   VR
Sbjct: 179 GESVIIDVHGSGFLKNMVR 197


>gi|450131349|ref|ZP_21869440.1| tRNA pseudouridine synthase A [Streptococcus mutans NLML8]
 gi|449153944|gb|EMB57571.1| tRNA pseudouridine synthase A [Streptococcus mutans NLML8]
          Length = 249

 Score =  126 bits (316), Expect = 9e-27,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 110/206 (53%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDGT ++G+Q Q    T+Q  +EK L+R+     + +++ GA RTD GVHA+G
Sbjct: 3   RYKAIISYDGTNFSGFQRQPQMRTVQEEIEKTLLRLN--SGQAVKIHGAGRTDAGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P   D LE +   L+   P DI V ++      FHAR+    K Y + +    
Sbjct: 61  QVIHFDLPQQRD-LEKLRFGLDTQTPDDIDVIQVEQVADNFHARYQKHRKTYEFLVDLGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV- 204
             +P   HYA H  YK++ ++++ A +   G HDF+ F          N V++I R  V 
Sbjct: 120 PKNPLMRHYATHFPYKVDFSVVKAAIKKLRGTHDFTGFT--ASGISVENKVRTISRATVE 177

Query: 205 -IEMGALLQLEVEGSGFLYRQVRNMV 229
             +    L     GSGFLY+QVRNMV
Sbjct: 178 KDDKTGFLIFTFTGSGFLYKQVRNMV 203


>gi|374578976|ref|ZP_09652070.1| pseudouridylate synthase I [Desulfosporosinus youngiae DSM 17734]
 gi|374415058|gb|EHQ87493.1| pseudouridylate synthase I [Desulfosporosinus youngiae DSM 17734]
          Length = 259

 Score =  126 bits (316), Expect = 9e-27,   Method: Compositional matrix adjust.
 Identities = 79/205 (38%), Positives = 111/205 (54%), Gaps = 9/205 (4%)

Query: 28  RLVIGYDGTRYAGWQFQTSP--PTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           RL + YDGT Y G+Q Q     PTIQ  +E       KL  E++ L  A RTD GVHA G
Sbjct: 5   RLKLAYDGTNYHGFQRQVESVGPTIQGTLESVW---AKLVDEEVTLAMAGRTDAGVHALG 61

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           Q+ +F+T       + I  A N LLP DIR+ +      +F+AR+SAK K Y Y + N  
Sbjct: 62  QIVNFMTSARIPE-DKIPKAFNSLLPRDIRIHQAECVSDDFNARWSAKWKRYDYLLDNKP 120

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           + D F+  YA H    LN TLM++AA +  G+H+F  F     + +     ++I+R  V 
Sbjct: 121 IPDLFKRLYAAHEPIPLNITLMQQAARFLEGRHNFKTFAASGGDSKRFE--RTIYRCQVS 178

Query: 206 EM-GALLQLEVEGSGFLYRQVRNMV 229
           E+   L+++   G GFLY  VR +V
Sbjct: 179 ELENQLIRVSCVGDGFLYHMVRIIV 203


>gi|347543042|ref|YP_004857680.1| pseudouridylate synthase [Candidatus Arthromitus sp. SFB-rat-Yit]
 gi|346986079|dbj|BAK81754.1| pseudouridylate synthase I [Candidatus Arthromitus sp. SFB-rat-Yit]
          Length = 246

 Score =  126 bits (316), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 75/200 (37%), Positives = 110/200 (55%), Gaps = 7/200 (3%)

Query: 31  IGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVAHF 90
           I Y GT Y G+Q Q    +IQ  +E   ++V  ++   +R +G SRTD GVHA     +F
Sbjct: 7   ICYLGTNYYGFQRQKEKISIQGTIEDIFLKVFNIK---IRTIGCSRTDAGVHAEEFYLNF 63

Query: 91  -ITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDP 149
            +  F+   L ++  ALN  LP DIRV ++      FHAR+ A  K Y YKI+N  +M P
Sbjct: 64  HLDDFNVSCL-NMKNALNTYLPYDIRVIDVFYVNENFHARYGALKKEYEYKIFNGDIMSP 122

Query: 150 FQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMGA 209
           F++    H  Y+L+   M E+ +YF G+HDF AF  +  N    N  + IF+ ++ +   
Sbjct: 123 FKYQTYMHFRYELDFNSMNESCKYFEGEHDFRAF--MSSNSPRENTTRIIFKSNIYKNNN 180

Query: 210 LLQLEVEGSGFLYRQVRNMV 229
           ++   V G+GFLY  VR MV
Sbjct: 181 IITYRVLGNGFLYNMVRIMV 200


>gi|312144215|ref|YP_003995661.1| tRNA pseudouridine synthase A [Halanaerobium hydrogeniformans]
 gi|311904866|gb|ADQ15307.1| tRNA pseudouridine synthase A [Halanaerobium hydrogeniformans]
          Length = 248

 Score =  126 bits (316), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 70/205 (34%), Positives = 114/205 (55%), Gaps = 8/205 (3%)

Query: 27  WRLVIGYDGTRYAGWQFQ-TSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ + YDG+ Y+GWQ Q  +  TIQ  +E AL   +K+ +  + ++G+ RTD GVHA G
Sbjct: 5   YKITLEYDGSNYSGWQRQKNTKETIQEKLENAL---SKINKNKVEVIGSGRTDAGVHAAG 61

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           Q A+F         + I  A+N  LP DI   +      +FHAR+ A+ K Y Y+I N  
Sbjct: 62  QTANFFLDIQIPTYK-IPIAINTHLPDDIICYKAEKVAKDFHARYDARGKKYRYRILNSN 120

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV- 204
               F  +Y Y    +L+  +M++ A+ F+G HDF+AF +        + ++ I+ FD+ 
Sbjct: 121 FNSVFVRNYVYKVHQRLDLDIMQKGAKIFLGSHDFAAFCSA--GSSVDSTIREIYSFDIN 178

Query: 205 IEMGALLQLEVEGSGFLYRQVRNMV 229
            +    +Q+++ GSGFLY  VR +V
Sbjct: 179 SKTNGEIQIDISGSGFLYNMVRILV 203


>gi|406939853|gb|EKD72790.1| hypothetical protein ACD_45C00586G0004 [uncultured bacterium]
          Length = 259

 Score =  125 bits (315), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 79/210 (37%), Positives = 115/210 (54%), Gaps = 14/210 (6%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L I Y G  + GWQ Q +  T+Q  +EKAL +V     E ++L  A RTDTGVHA+GQVA
Sbjct: 5   LGIEYHGHHFFGWQVQQNLLTVQGCLEKALSQVAD---EPIKLFCAGRTDTGVHAYGQVA 61

Query: 89  HFITPFSYDGLESIHA---ALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           HF T    + + S+ A    +N  LP +I V+       +FHARFSA S+ Y Y IYNDA
Sbjct: 62  HFDT----NAVRSLRAWVLGVNTYLPNEIAVKWAKEVDGQFHARFSALSRCYRYVIYNDA 117

Query: 146 VMDP-FQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
                F  H  ++  Y LN   M +A EY +G+ DFS+F + +   ++   ++ +   +V
Sbjct: 118 TRSALFAKHTTWYR-YSLNIEWMHKAGEYLLGEQDFSSFRSAECESKS--SMRHVEFMNV 174

Query: 205 IEMGALLQLEVEGSGFLYRQVRNMVNHSYC 234
              G  + LE++ + FL+  VRN+     C
Sbjct: 175 TRQGDFVILEIQANAFLHHMVRNIAGVLLC 204


>gi|333398834|ref|ZP_08480647.1| tRNA pseudouridine synthase A [Leuconostoc gelidum KCTC 3527]
          Length = 266

 Score =  125 bits (315), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 72/209 (34%), Positives = 111/209 (53%), Gaps = 6/209 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPP-----TIQCIVEKALIRVTKLEREDLRLVGASRTDTG 80
           +++ ++ YDG+ + G+Q QT        T+Q  + KA+ ++ K     +++VGASRTDTG
Sbjct: 14  RYKAIVSYDGSGFFGFQVQTKDGVERQRTVQGELNKAVNQMAKNPTHAIKVVGASRTDTG 73

Query: 81  VHAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYK 140
           VHA+GQV HF  PF  + +  +   LN LLP DI +R +     +FHARF+  +K Y Y+
Sbjct: 74  VHAFGQVVHFDLPFDINVI-GVRKGLNTLLPKDIIIRSVDQVANDFHARFNTHAKRYVYR 132

Query: 141 IYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIF 200
           +      DPF+  Y  H  +KL+   ++ A    +G+HDF++F              +  
Sbjct: 133 VSTQDFTDPFKRFYTGHFHWKLDVERIKIALPDLLGEHDFASFAASGNQTITTIRTITRA 192

Query: 201 RFDVIEMGALLQLEVEGSGFLYRQVRNMV 229
              V      L L  EG+ FLY Q+R MV
Sbjct: 193 DIKVNNDDQELILTFEGNAFLYNQIRIMV 221


>gi|418115125|ref|ZP_12752111.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 5787-06]
 gi|419495783|ref|ZP_14035500.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA47461]
 gi|421207042|ref|ZP_15664094.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 2090008]
 gi|421230217|ref|ZP_15686881.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 2061376]
 gi|421292485|ref|ZP_15743219.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA56348]
 gi|421302931|ref|ZP_15753595.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA17484]
 gi|421312419|ref|ZP_15763021.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA58981]
 gi|353785209|gb|EHD65628.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 5787-06]
 gi|379593869|gb|EHZ58680.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA47461]
 gi|395574378|gb|EJG34956.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 2090008]
 gi|395593743|gb|EJG53985.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 2061376]
 gi|395891792|gb|EJH02786.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA56348]
 gi|395901553|gb|EJH12489.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA17484]
 gi|395909273|gb|EJH20149.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA58981]
          Length = 249

 Score =  125 bits (315), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 109/206 (52%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDG  +AG+Q Q+   ++Q  +EK L R+ K   + + + GA RTD+GVHA G
Sbjct: 3   RYKATISYDGYAFAGFQRQSHARSVQEEIEKTLTRLNK--GQAITVHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D  E +  AL+   P DI V  I     +FH R++  SK Y + +    
Sbjct: 61  QVIHFDLPYQIDE-EKLRFALDTQSPEDIDVISIELVADDFHCRYAKHSKTYEFIVDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +P + HYA H  Y L+   M+ A +   G HDF+ F          + V++I    +I
Sbjct: 120 PKNPMRRHYATHFPYPLDVERMQIAIKKLEGTHDFTGFT--ASGTSVEDKVRTITEASLI 177

Query: 206 --EMGALLQLEVEGSGFLYRQVRNMV 229
             E G  L     G+GFLY+Q+RNMV
Sbjct: 178 VDETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|421243519|ref|ZP_15700033.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 2081074]
 gi|395606739|gb|EJG66841.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 2081074]
          Length = 249

 Score =  125 bits (315), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 108/206 (52%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDG  +AG+Q Q    ++Q  +EK L R+ K   + + + GA RTD+GVHA G
Sbjct: 3   RYKATISYDGYAFAGFQRQPHSRSVQEEIEKTLTRLNK--GQAITVHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D  E +  AL+   P DI V  I     +FH R++  SK Y + +    
Sbjct: 61  QVIHFDLPYQMDE-EKLRFALDTQSPEDIDVISIELVADDFHCRYAKHSKTYEFTVDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +P + HYA H  Y L+   M+ A +   G HDF+ F          + V++I    +I
Sbjct: 120 PKNPMRRHYATHFPYPLDVERMQIAIKKLEGTHDFTGFT--ASGTSVEDKVRTITEASLI 177

Query: 206 --EMGALLQLEVEGSGFLYRQVRNMV 229
             E G  L     G+GFLY+Q+RNMV
Sbjct: 178 VDETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|331269740|ref|YP_004396232.1| tRNA pseudouridine synthase A [Clostridium botulinum BKT015925]
 gi|329126290|gb|AEB76235.1| tRNA pseudouridine synthase A [Clostridium botulinum BKT015925]
          Length = 245

 Score =  125 bits (315), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 73/203 (35%), Positives = 111/203 (54%), Gaps = 7/203 (3%)

Query: 28  RLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           +L I YDGTRY GWQ    +  TIQC VE  L    +L  E++ L+ + RTD GVHA  Q
Sbjct: 5   KLTIQYDGTRYKGWQKLGNTDNTIQCKVENVL---NELLGEEISLIASGRTDAGVHANMQ 61

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           +A+F T  +    ++I       LP DI V  ++ A   FH+R++ K KIY Y I N+ V
Sbjct: 62  IANFKTDSNVSN-DTILKHCYKYLPHDIVVTNVADASENFHSRYNVKKKIYTYNICNNPV 120

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
            D F   Y+YH    L+   M+EA++ F+G+HDF +F  ++   ++         F   +
Sbjct: 121 HDVFTRKYSYHVKETLDIKKMKEASKLFIGEHDFKSFTALKSKKKSTVKTIDSISFKKKD 180

Query: 207 MGALLQLEVEGSGFLYRQVRNMV 229
               +++   G+GFLY+ +R +V
Sbjct: 181 NN--IEVIFTGNGFLYKMIRILV 201


>gi|281412654|ref|YP_003346733.1| tRNA pseudouridine synthase A [Thermotoga naphthophila RKU-10]
 gi|281373757|gb|ADA67319.1| tRNA pseudouridine synthase A [Thermotoga naphthophila RKU-10]
          Length = 245

 Score =  125 bits (315), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 74/201 (36%), Positives = 108/201 (53%), Gaps = 7/201 (3%)

Query: 30  VIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVAH 89
           VI YDG+ + G+Q Q    T+Q ++E AL R+ K   + +    A RTD GVHA GQ+  
Sbjct: 7   VIEYDGSNFFGYQGQPDVRTVQGVIEDALERIFK---QRIYTQAAGRTDAGVHANGQLIA 63

Query: 90  FITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDP 149
           F  P      E I  A+N  LP D+ V+E+      FH RF    +IYHY I      + 
Sbjct: 64  FNCPNDRMTTEDIKNAMNANLPDDVYVKEVFEVPVNFHPRFDVTKRIYHYFILTSRQKNV 123

Query: 150 FQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM-G 208
           F   Y +   Y+L+   MR+AA+Y  G HDF++F   +      +PV++I+R  ++ +  
Sbjct: 124 FLRKYVWWFPYELDLDAMRKAAKYLEGTHDFTSF---KTGSDERDPVRTIYRIRILRLKN 180

Query: 209 ALLQLEVEGSGFLYRQVRNMV 229
            L+ + VEG  FL R VRN+V
Sbjct: 181 DLVLIRVEGRSFLRRMVRNIV 201


>gi|406600600|ref|YP_006745946.1| tRNA pseudouridine synthase A [Leuconostoc gelidum JB7]
 gi|406372135|gb|AFS41060.1| tRNA pseudouridine synthase A [Leuconostoc gelidum JB7]
          Length = 255

 Score =  125 bits (315), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 72/209 (34%), Positives = 111/209 (53%), Gaps = 6/209 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPP-----TIQCIVEKALIRVTKLEREDLRLVGASRTDTG 80
           +++ ++ YDG+ + G+Q QT        T+Q  + KA+ ++ K     +++VGASRTDTG
Sbjct: 3   RYKAIVSYDGSGFFGFQVQTKDGVERQRTVQGELNKAVNQMAKNPTHAIKVVGASRTDTG 62

Query: 81  VHAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYK 140
           VHA+GQV HF  PF  + +  +   LN LLP DI +R +     +FHARF+  +K Y Y+
Sbjct: 63  VHAFGQVVHFDLPFDINVI-GVRKGLNTLLPKDIIIRSVDQVANDFHARFNTHAKRYVYR 121

Query: 141 IYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIF 200
           +      DPF+  Y  H  +KL+   ++ A    +G+HDF++F              +  
Sbjct: 122 VSTQDFTDPFKRFYTGHFHWKLDVERIKIALPDLLGEHDFASFAASGNQTITTIRTITRA 181

Query: 201 RFDVIEMGALLQLEVEGSGFLYRQVRNMV 229
              V      L L  EG+ FLY Q+R MV
Sbjct: 182 DIKVNNDDQELILTFEGNAFLYNQIRIMV 210


>gi|197294307|ref|YP_001798848.1| tRNA pseudouridine synthase A [Candidatus Phytoplasma australiense]
 gi|171853634|emb|CAM11505.1| tRNA pseudouridine synthase A [Candidatus Phytoplasma australiense]
          Length = 245

 Score =  125 bits (315), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 76/203 (37%), Positives = 111/203 (54%), Gaps = 9/203 (4%)

Query: 27  WRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           ++L++ YDGT Y G+Q Q    TIQ  +E AL  +TK     +    ASRTD GVHA  Q
Sbjct: 8   YKLILSYDGTCYCGYQKQPQTKTIQQTLENALKSMTK---RQINTFAASRTDKGVHAQEQ 64

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
             HF T F+ + L+     LN +LPPDIR+++I  A  +FHAR+ AKSKIYHY I+    
Sbjct: 65  TIHFQTAFAIE-LKRFKNTLNRILPPDIRIKKIEKATADFHARYWAKSKIYHY-IFAKKP 122

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
           ++ F +H+    V  L+   ++ A    +GK++F++F N   + +  N  K++    V E
Sbjct: 123 LNAFNYHFQVF-VANLDFAKIKSAMNLIIGKYNFASFTN---DKKEKNFNKTVLNAFVKE 178

Query: 207 MGALLQLEVEGSGFLYRQVRNMV 229
                 L     GFL   VR +V
Sbjct: 179 TSQNYILIFHADGFLKYMVRFLV 201


>gi|373850884|ref|ZP_09593685.1| tRNA pseudouridine synthase A [Opitutaceae bacterium TAV5]
 gi|372477049|gb|EHP37058.1| tRNA pseudouridine synthase A [Opitutaceae bacterium TAV5]
          Length = 286

 Score =  125 bits (315), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 77/214 (35%), Positives = 112/214 (52%), Gaps = 11/214 (5%)

Query: 23  PGFKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVH 82
           P  +W+  + YDGT ++GWQ Q     IQ  +E+ L  +       +R+ G+ RTD GVH
Sbjct: 18  PLRRWKCTVSYDGTGFSGWQSQPDGNAIQDHLERRLALILGAP---VRIHGSGRTDAGVH 74

Query: 83  AWGQVAHFITPFSYDGLESIHAALNG-----LLPPDIRVREISAAVPEFHARFSAKSKIY 137
           A  QV HF   + + G E + AA         LP  I+V +   A P FHARFSA  K Y
Sbjct: 75  ARAQVFHFDAIW-WHGPEKLVAAFRAGSGADRLPEGIQVTDTQVAPPTFHARFSATGKRY 133

Query: 138 HYKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVK 197
            Y+I+N    DPF   Y +    +L+   M++AAE  VG+HDF AF      +R  + V+
Sbjct: 134 TYEIFNGGFADPFTQAYCWSVPRELDRAAMQDAAERLVGRHDFRAFSASGGEERE-STVR 192

Query: 198 SIFRFDVIEMG-ALLQLEVEGSGFLYRQVRNMVN 230
            +   +V E G   L++  +  GFLY+ VR++  
Sbjct: 193 ELRVLEVKERGHRRLRITAQADGFLYKMVRSLAG 226


>gi|387818125|ref|YP_005678470.1| tRNA pseudouridine synthase A [Clostridium botulinum H04402 065]
 gi|322806167|emb|CBZ03735.1| tRNA pseudouridine synthase A [Clostridium botulinum H04402 065]
          Length = 246

 Score =  125 bits (315), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 74/200 (37%), Positives = 109/200 (54%), Gaps = 7/200 (3%)

Query: 28  RLVIGYDGTRYAGWQFQT-SPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           +L I YDG++Y GWQ Q  +  TIQ  +E  L  +T    ED+ L+ + RTDTGVHA  Q
Sbjct: 5   KLYIQYDGSKYNGWQKQKENDNTIQGKIENVLSLMTG---EDINLIASGRTDTGVHANMQ 61

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           VA+F T F     + I +     LP DI V +       FH+R + K K Y YKI N   
Sbjct: 62  VANFHTTFQ-GSTDEILSYCYEYLPKDIVVYDAFHVDERFHSRLNVKKKKYTYKICNKKF 120

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
            D F   ++YH    L+   M+EA  Y VG+HDF++F   +   ++   V++++  D+I+
Sbjct: 121 HDVFSRKHSYHVPETLDIEAMKEACTYLVGRHDFASFTAARSKKKS--TVRTLYSIDIIK 178

Query: 207 MGALLQLEVEGSGFLYRQVR 226
               + L   GSGFL++ +R
Sbjct: 179 KDGYVDLVYLGSGFLHKMIR 198


>gi|419442952|ref|ZP_13982979.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA13224]
 gi|379551652|gb|EHZ16746.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA13224]
          Length = 249

 Score =  125 bits (315), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 108/206 (52%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDG  +AG+Q Q    ++Q  +EK L R+ K   + + + GA RTD+GVHA G
Sbjct: 3   RYKATISYDGYAFAGFQRQPHARSVQEEIEKTLTRLNK--GQAITVHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D  E +  AL+   P DI V  I     +FH R++  SK Y + +    
Sbjct: 61  QVIHFDLPYQMDE-EKLRFALDTQSPEDIDVISIELVADDFHCRYAKHSKTYEFTVDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +P + HYA H  Y L+   M+ A +   G HDF+ F          + V++I    +I
Sbjct: 120 PKNPMRRHYATHFPYPLDVERMQIAIKKLEGTHDFTGFT--ASGTSVEDKVRTITEASLI 177

Query: 206 --EMGALLQLEVEGSGFLYRQVRNMV 229
             E G  L     G+GFLY+Q+RNMV
Sbjct: 178 VDETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|317968841|ref|ZP_07970231.1| tRNA pseudouridine synthase A [Synechococcus sp. CB0205]
          Length = 289

 Score =  125 bits (315), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 79/210 (37%), Positives = 118/210 (56%), Gaps = 18/210 (8%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L + YDG+ Y GWQ Q   P++Q  +E+AL+++         +V A RTD+GVHA GQV 
Sbjct: 15  LCLQYDGSAYCGWQRQPRDPSVQEALERALVQLDP--DGPATVVAAGRTDSGVHAAGQVV 72

Query: 89  HF-----ITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYN 143
           HF     I P  +       AALNG LP  IRVR  ++   ++HA FSA  + Y Y IYN
Sbjct: 73  HFDCAGPIPPHRWP------AALNGRLPASIRVRSAASVPADWHACFSATYRRYRYTIYN 126

Query: 144 DAVMDPFQHHYAYHSV-YKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFR- 201
             + + F   +++H   ++L+   MREA E  +G+HDF+AF   +R   A +  ++  + 
Sbjct: 127 ARIPNLFLAPWSWHRYQFRLDEDRMREALEGMLGEHDFAAF---ERAGSARSHSRTTLQE 183

Query: 202 FDVIEMGALLQLEVEGSGFLYRQVRNMVNH 231
             V   G LL++E++ SGFLY  VR ++  
Sbjct: 184 VSVQRRGDLLEVELQASGFLYGMVRLVMGQ 213


>gi|296315347|ref|ZP_06865288.1| tRNA pseudouridine synthase A [Neisseria polysaccharea ATCC 43768]
 gi|296837693|gb|EFH21631.1| tRNA pseudouridine synthase A [Neisseria polysaccharea ATCC 43768]
          Length = 267

 Score =  125 bits (315), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 79/220 (35%), Positives = 114/220 (51%), Gaps = 13/220 (5%)

Query: 12  NTVKPPTDDSFPGFKWRLVIGYDGTRYAGWQFQTSP-PTIQCIVEKALIRVTKLEREDLR 70
           NT  P T       +W L + YDG+R+ GWQ Q    PT+Q  +E AL ++     E + 
Sbjct: 2   NTQPPDTQ------RWALTLSYDGSRFYGWQKQAGGVPTVQTALEDALAQIAG---EAVS 52

Query: 71  LVGASRTDTGVHAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARF 130
            + A RTDTGVHA  QV HF T         I    N +LP  I V       P FHARF
Sbjct: 53  TIVAGRTDTGVHATAQVVHFDTAARRPAQAWIRGT-NAVLPEGIAVLHARQTAPGFHARF 111

Query: 131 SAKSKIYHYKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRND 190
            A  + Y Y + +  V  P   + A  +  KL+   MR+AA   VG+ DFS+F   +   
Sbjct: 112 DAYGRHYRYLLESSPVRSPLLKNRAGWTHLKLDIGPMRQAAALLVGEQDFSSFRAAE--C 169

Query: 191 RALNPVKSIFRFDVIEMGALLQLEVEGSGFLYRQVRNMVN 230
           +A +PVK+I+   + + G L++L++ G+ FL+  VRN++ 
Sbjct: 170 QAKSPVKTIYSATLAQAGGLIRLDLHGNAFLHHMVRNIMG 209


>gi|15901439|ref|NP_346043.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae TIGR4]
 gi|111656856|ref|ZP_01407696.1| hypothetical protein SpneT_02001886 [Streptococcus pneumoniae
           TIGR4]
 gi|149013277|ref|ZP_01834035.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae SP19-BS75]
 gi|168486863|ref|ZP_02711371.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae CDC1087-00]
 gi|225859353|ref|YP_002740863.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 70585]
 gi|303253960|ref|ZP_07340080.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae BS455]
 gi|303258528|ref|ZP_07344508.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae SP-BS293]
 gi|303262617|ref|ZP_07348557.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae SP14-BS292]
 gi|303263556|ref|ZP_07349478.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae BS397]
 gi|303267576|ref|ZP_07353421.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae BS457]
 gi|303269928|ref|ZP_07355667.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae BS458]
 gi|387626815|ref|YP_006062991.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae INV104]
 gi|387759720|ref|YP_006066698.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae INV200]
 gi|418112939|ref|ZP_12749939.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA41538]
 gi|418130756|ref|ZP_12767639.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA07643]
 gi|418139930|ref|ZP_12776755.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA13338]
 gi|418167200|ref|ZP_12803855.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA17971]
 gi|418180961|ref|ZP_12817530.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA41688]
 gi|418185339|ref|ZP_12821880.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA47283]
 gi|418187590|ref|ZP_12824113.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA47360]
 gi|418200765|ref|ZP_12837208.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA47976]
 gi|418230383|ref|ZP_12856982.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae EU-NP01]
 gi|419478247|ref|ZP_14018071.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA18068]
 gi|419510861|ref|ZP_14050502.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae NP141]
 gi|419515115|ref|ZP_14054740.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae
           England14-9]
 gi|419524064|ref|ZP_14063639.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA13723]
 gi|419530531|ref|ZP_14070058.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA40028]
 gi|421213529|ref|ZP_15670484.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 2070108]
 gi|421215705|ref|ZP_15672626.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 2070109]
 gi|421247864|ref|ZP_15704344.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 2082170]
 gi|421268763|ref|ZP_15719632.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae SPAR95]
 gi|421271021|ref|ZP_15721875.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae SPAR48]
 gi|421296440|ref|ZP_15747149.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA58581]
 gi|444382854|ref|ZP_21181053.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae PCS8106]
 gi|444385720|ref|ZP_21183791.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae PCS8203]
 gi|444414193|ref|ZP_21210485.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae PNI0199]
 gi|25453312|sp|Q97PL0.1|TRUA_STRPN RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|254764867|sp|C1C8I7.1|TRUA_STRP7 RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|14973090|gb|AAK75683.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae TIGR4]
 gi|147762942|gb|EDK69888.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae SP19-BS75]
 gi|183570198|gb|EDT90726.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae CDC1087-00]
 gi|225721425|gb|ACO17279.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 70585]
 gi|301794601|emb|CBW37047.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae INV104]
 gi|301802309|emb|CBW35063.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae INV200]
 gi|302599048|gb|EFL66074.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae BS455]
 gi|302636173|gb|EFL66668.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae SP14-BS292]
 gi|302640029|gb|EFL70484.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae SP-BS293]
 gi|302640531|gb|EFL70939.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae BS458]
 gi|302642899|gb|EFL73201.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae BS457]
 gi|302646594|gb|EFL76819.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae BS397]
 gi|353783301|gb|EHD63730.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA41538]
 gi|353802080|gb|EHD82380.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA07643]
 gi|353829192|gb|EHE09326.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA17971]
 gi|353843033|gb|EHE23078.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA41688]
 gi|353848623|gb|EHE28635.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA47283]
 gi|353849575|gb|EHE29580.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA47360]
 gi|353864306|gb|EHE44224.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA47976]
 gi|353885264|gb|EHE65053.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae EU-NP01]
 gi|353904709|gb|EHE80159.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA13338]
 gi|379556472|gb|EHZ21527.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA13723]
 gi|379565683|gb|EHZ30675.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA18068]
 gi|379573439|gb|EHZ38394.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA40028]
 gi|379631464|gb|EHZ96041.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae NP141]
 gi|379635664|gb|EIA00223.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae
           England14-9]
 gi|395579283|gb|EJG39787.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 2070108]
 gi|395579912|gb|EJG40407.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 2070109]
 gi|395613143|gb|EJG73174.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 2082170]
 gi|395867235|gb|EJG78359.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae SPAR48]
 gi|395869017|gb|EJG80133.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae SPAR95]
 gi|395895313|gb|EJH06288.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA58581]
 gi|444249398|gb|ELU55889.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae PCS8203]
 gi|444251223|gb|ELU57695.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae PCS8106]
 gi|444282845|gb|ELU88077.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae PNI0199]
          Length = 249

 Score =  125 bits (315), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 108/206 (52%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDG  +AG+Q Q    ++Q  +EK L R+ K   + + + GA RTD+GVHA G
Sbjct: 3   RYKATISYDGYAFAGFQRQPHARSVQEEIEKTLTRLNK--GQAITVHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D  E +  AL+   P DI V  I     +FH R++  SK Y + +    
Sbjct: 61  QVIHFDLPYQMDE-EKLRFALDTQSPEDIDVISIELVADDFHCRYAKHSKTYEFTVDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +P + HYA H  Y L+   M+ A +   G HDF+ F          + V++I    +I
Sbjct: 120 PKNPMRRHYATHFPYPLDVERMQIAIKKLEGTHDFTGFT--ASGTSVEDKVRTITEASLI 177

Query: 206 --EMGALLQLEVEGSGFLYRQVRNMV 229
             E G  L     G+GFLY+Q+RNMV
Sbjct: 178 VDETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|326803064|ref|YP_004320882.1| tRNA pseudouridine synthase A [Aerococcus urinae ACS-120-V-Col10a]
 gi|326650503|gb|AEA00686.1| tRNA pseudouridine synthase A [Aerococcus urinae ACS-120-V-Col10a]
          Length = 264

 Score =  125 bits (315), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 72/206 (34%), Positives = 113/206 (54%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDGT Y G+Q Q + P+IQ  +EKAL  +TK   +++ + G+ RTD+GVHA G
Sbjct: 4   RYKATIAYDGTPYVGFQVQPNGPSIQAALEKALKLMTK--GQEIPVYGSGRTDSGVHALG 61

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P   +  E +  ALN +L   I V+ +      FHAR+ A+ K Y YK+    
Sbjct: 62  QVVHFDYPSEIE-TEGLLRALNSILDDAICVKTVEPVEKHFHARYHAQRKAYLYKVSLAP 120

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
            + PF+ HY  H  Y+ + + ++ A    +G H+F +F + + +    +  + I+R +  
Sbjct: 121 FVSPFERHYVLHHPYRTDVSRIQAALPALIGAHNFKSFCSTKTDKTVFD--REIYRAECQ 178

Query: 206 EM--GALLQLEVEGSGFLYRQVRNMV 229
               G  L    EG+GFLY  VR +V
Sbjct: 179 ASWDGQTLTFYFEGNGFLYNMVRIIV 204


>gi|225857220|ref|YP_002738731.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae P1031]
 gi|444411443|ref|ZP_21207857.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae PNI0076]
 gi|444412740|ref|ZP_21209059.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae PNI0153]
 gi|444423452|ref|ZP_21219057.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae PNI0446]
 gi|254764871|sp|C1CLU3.1|TRUA_STRZP RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|225725422|gb|ACO21274.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae P1031]
 gi|444272522|gb|ELU78222.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae PNI0076]
 gi|444273979|gb|ELU79634.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae PNI0153]
 gi|444286928|gb|ELU91879.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae PNI0446]
          Length = 249

 Score =  125 bits (315), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 109/206 (52%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDG  +AG+Q Q+   ++Q  +EK L R+ K   + + + GA RTD+GVHA G
Sbjct: 3   RYKATISYDGYAFAGFQRQSHARSVQEEIEKTLTRLNK--GQAITVHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D  E +  AL+   P DI V  I     +FH R++  SK Y + +    
Sbjct: 61  QVIHFDLPYQIDE-EKLRFALDTQSPEDIDVISIELVADDFHCRYAKHSKTYEFIVDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +P + HYA H  Y L+   M+ A +   G HDF+ F          + V++I    +I
Sbjct: 120 PKNPMRRHYATHFPYPLDVERMQIAIKKLEGTHDFTGFT--ASGTSVEDKVRTITEASLI 177

Query: 206 --EMGALLQLEVEGSGFLYRQVRNMV 229
             E G  L     G+GFLY+Q+RNMV
Sbjct: 178 VDETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|109897925|ref|YP_661180.1| tRNA pseudouridine synthase A [Pseudoalteromonas atlantica T6c]
 gi|123064742|sp|Q15VG2.1|TRUA_PSEA6 RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|109700206|gb|ABG40126.1| tRNA pseudouridine synthase A [Pseudoalteromonas atlantica T6c]
          Length = 263

 Score =  125 bits (315), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 78/203 (38%), Positives = 112/203 (55%), Gaps = 8/203 (3%)

Query: 28  RLVIG--YDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           R+ +G  YDG R+ GWQ Q    ++Q  +E+AL R+     E +R+V A RTD GVHA G
Sbjct: 2   RIALGVEYDGARFHGWQRQNEVISVQQHLEEALTRIAN---EPIRVVCAGRTDAGVHATG 58

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF T  S     +    +N  LP  I VR + A   +FHARFSA ++ Y Y IYN+ 
Sbjct: 59  QVVHFETT-SQRPDRAWTLGINTYLPDTISVRWVKAVPEDFHARFSATARRYRYIIYNNT 117

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           +      +   H    L+  LM EAA+  VGKHDFS+F  +  N +A    +++    V 
Sbjct: 118 LRSGILANGVTHIYGDLDHELMHEAAQKLVGKHDFSSFRAV--NCQAKTATRTMSHIRVK 175

Query: 206 EMGALLQLEVEGSGFLYRQVRNM 228
            MG  + ++V+ + FL+  VRN+
Sbjct: 176 RMGDYIVIDVQANAFLHHMVRNI 198


>gi|218132910|ref|ZP_03461714.1| hypothetical protein BACPEC_00771 [[Bacteroides] pectinophilus ATCC
           43243]
 gi|217991783|gb|EEC57787.1| tRNA pseudouridine synthase A [[Bacteroides] pectinophilus ATCC
           43243]
          Length = 256

 Score =  125 bits (315), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 80/215 (37%), Positives = 112/215 (52%), Gaps = 20/215 (9%)

Query: 27  WRLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +RL I YDG+RY GWQ    +  TI+ I+  A+I+ T    E  +L+G+ RTD GVHA  
Sbjct: 4   YRLTIQYDGSRYNGWQRLNDTDNTIEQILTDAIIKSTG---EKTKLIGSGRTDAGVHALA 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           Q A+F      D +      LN +LP DIRV       P+FH+R SA  K Y Y+I    
Sbjct: 61  QTANFRCRQRLDEMH-FTEELNSMLPEDIRVNLTKRVPPDFHSRHSATGKYYVYRIEISE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNP--VKSIFRFD 203
             +PF+  Y++      +  LM EAA+  +G+HDF AF      D  L P  VK+++  +
Sbjct: 120 PANPFRRRYSWKPDGIPDVKLMCEAAQRMIGEHDFKAFC----TDAKLMPYTVKTVYDIN 175

Query: 204 V---------IEMGALLQLEVEGSGFLYRQVRNMV 229
           +          E   +++LE  GSGFLY  VR M 
Sbjct: 176 IHKDYSCLWNREEPGIIELEFHGSGFLYNMVRIMA 210


>gi|291279383|ref|YP_003496218.1| tRNA pseudouridine synthase A [Deferribacter desulfuricans SSM1]
 gi|290754085|dbj|BAI80462.1| tRNA pseudouridine synthase A [Deferribacter desulfuricans SSM1]
          Length = 244

 Score =  125 bits (315), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 73/205 (35%), Positives = 113/205 (55%), Gaps = 6/205 (2%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
           +K + V+ YDGT + GWQ Q    T+Q ++E AL   +K+ +  + +VG+ RTDTGVHA 
Sbjct: 2   YKKKCVVEYDGTYFFGWQRQKDLRTVQGVIEAAL---SKIYKSSINIVGSGRTDTGVHAV 58

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           GQV HF++   Y    S+   LN +LP D+ ++ +      FHA+ SA SK Y YKIYN 
Sbjct: 59  GQVFHFVSE-RYLENRSVLLGLNSVLPEDVVIKHVEDVDLSFHAQKSAISKTYIYKIYNY 117

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
            +      + A+     ++  L+ E  ++F G+ DFSA     +     NPV++I     
Sbjct: 118 QIRSALFRNRAWWIRDNIDVDLLNEYLKFFKGEKDFSAMC--LKRSVPENPVRTINYIFA 175

Query: 205 IEMGALLQLEVEGSGFLYRQVRNMV 229
              G  + +E+  +GFL+  VRN+V
Sbjct: 176 KRDGDFINIEINANGFLHNMVRNIV 200


>gi|217077259|ref|YP_002334977.1| tRNA pseudouridine synthase ACD [Thermosipho africanus TCF52B]
 gi|226708660|sp|B7IHS2.1|TRUA_THEAB RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|217037114|gb|ACJ75636.1| tRNA pseudouridine synthase A [Thermosipho africanus TCF52B]
          Length = 244

 Score =  125 bits (315), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 77/199 (38%), Positives = 110/199 (55%), Gaps = 8/199 (4%)

Query: 32  GYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVAHFI 91
            YDGT++ G+Q Q +  T+Q  +E AL R+ K   E +    A RTD GVHA GQVA F 
Sbjct: 9   AYDGTKFFGYQGQPNVRTVQGDLEDALERIFK---ERIYTQAAGRTDAGVHANGQVAAFN 65

Query: 92  TPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDPFQ 151
            P        I  ALN  LP DI V++       F+ RF+A  +IYHY I  +   D F 
Sbjct: 66  CPIERLTETDIKNALNANLPDDIYVKKAWVVDKSFNPRFAATKRIYHYFISTNE-KDVFM 124

Query: 152 HHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM-GAL 210
            +Y ++  Y L+   MR+AA +  G+HDFS+F   ++     NPV++I+R  ++ +   L
Sbjct: 125 RNYVWNFRYDLDIEAMRKAASFLEGEHDFSSF---KKGKDEKNPVRTIYRIRILTLKKGL 181

Query: 211 LQLEVEGSGFLYRQVRNMV 229
           + + VEG  FL   VRN+V
Sbjct: 182 ILIRVEGRSFLRSMVRNIV 200


>gi|414085611|ref|YP_006994325.1| tRNA pseudouridine synthase A [Carnobacterium maltaromaticum LMA28]
 gi|412999201|emb|CCO13010.1| tRNA pseudouridine synthase A [Carnobacterium maltaromaticum LMA28]
          Length = 272

 Score =  125 bits (315), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 114/206 (55%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++++ I YDGT Y+G+Q Q    T+Q  +EKAL  +TK     ++L  + RTD GVHA G
Sbjct: 5   RYKVTIQYDGTNYSGFQIQPKDRTVQGDIEKALKTMTK--GIAIKLQASGRTDAGVHALG 62

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV H+  P +    E +  ALN L   +I + ++      FHAR+    K Y Y++  + 
Sbjct: 63  QVIHYDYP-AMIPPERMQQALNSLTTDEIAIVKVEIVDETFHARYFTAEKTYQYRVNTNQ 121

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           V+DPF+ +YA H  Y ++   ++ A    VG+HDFS+F  ++      N V++I+  DVI
Sbjct: 122 VVDPFRRNYALHHPYPVHLDDLKAALTDIVGEHDFSSFCAVKSGRE--NKVRTIYEADVI 179

Query: 206 --EMGALLQLEVEGSGFLYRQVRNMV 229
             E    L     G+GFLY  VR ++
Sbjct: 180 WNEATGDLIFTFRGNGFLYNMVRILI 205


>gi|385337238|ref|YP_005891111.1| tRNA pseudouridine synthase A (tRNA-uridine isomerase I; tRNA
           pseudouridylate synthase I) [Neisseria meningitidis WUE
           2594]
 gi|385341120|ref|YP_005894991.1| tRNA pseudouridine synthase A [Neisseria meningitidis M01-240149]
 gi|385857999|ref|YP_005904511.1| tRNA pseudouridine synthase A [Neisseria meningitidis NZ-05/33]
 gi|421562072|ref|ZP_16007908.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis NM2657]
 gi|433476468|ref|ZP_20433799.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis 88050]
 gi|433516559|ref|ZP_20473317.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis 2004090]
 gi|433518561|ref|ZP_20475296.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis 96023]
 gi|433524953|ref|ZP_20481605.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis 97020]
 gi|433529143|ref|ZP_20485748.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis NM3652]
 gi|433531318|ref|ZP_20487895.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis NM3642]
 gi|433533352|ref|ZP_20489908.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis 2007056]
 gi|433535533|ref|ZP_20492058.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis 2001212]
 gi|254670107|emb|CBA05050.1| tRNA pseudouridine synthase A [Neisseria meningitidis alpha153]
 gi|319409652|emb|CBY89952.1| tRNA pseudouridine synthase A (tRNA-uridine isomerase I; tRNA
           pseudouridylate synthase I) [Neisseria meningitidis WUE
           2594]
 gi|325201326|gb|ADY96780.1| tRNA pseudouridine synthase A [Neisseria meningitidis M01-240149]
 gi|325208888|gb|ADZ04340.1| tRNA pseudouridine synthase A [Neisseria meningitidis NZ-05/33]
 gi|402335461|gb|EJU70726.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis NM2657]
 gi|432207326|gb|ELK63316.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis 88050]
 gi|432250745|gb|ELL06125.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis 2004090]
 gi|432251081|gb|ELL06453.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis 96023]
 gi|432257455|gb|ELL12755.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis 97020]
 gi|432263497|gb|ELL18714.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis NM3652]
 gi|432263768|gb|ELL18979.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis NM3642]
 gi|432264666|gb|ELL19865.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis 2007056]
 gi|432269123|gb|ELL24286.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis 2001212]
          Length = 265

 Score =  125 bits (315), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 75/206 (36%), Positives = 113/206 (54%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSP-PTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
           +W + + YDG+R+ GWQ Q    PT+Q  +E AL ++     E +    A RTDTGVHA 
Sbjct: 8   RWAITLSYDGSRFYGWQKQAGGVPTVQTALETALAQIAG---EFVATTVAGRTDTGVHAT 64

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
            QV HF T  +    ++    +N  LP  I V       PEFHARF A  + Y Y + + 
Sbjct: 65  AQVVHFDTT-AVRPQQAWVRGVNAHLPEGIAVLHARQVAPEFHARFDAYGRHYRYLLESA 123

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
            V  P   + A  +  KL+   MR AA Y +G+ DFS+F   +   +A +PVK+I+R D+
Sbjct: 124 PVRSPLLKNRAGWTHLKLDIEPMRRAAAYLIGEQDFSSFRAAE--CQAKSPVKTIYRADL 181

Query: 205 IEMGALLQLEVEGSGFLYRQVRNMVN 230
            +   L++L++ G+ FL+  VRN++ 
Sbjct: 182 TQSAGLVRLDLHGNAFLHHMVRNIMG 207


>gi|419781142|ref|ZP_14306974.1| tRNA pseudouridine(38-40) synthase [Streptococcus oralis SK100]
 gi|383184534|gb|EIC77048.1| tRNA pseudouridine(38-40) synthase [Streptococcus oralis SK100]
          Length = 249

 Score =  125 bits (315), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 108/206 (52%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDG  +AG+Q Q    ++Q  +EK L R+ K   + + + GA RTD+GVHA G
Sbjct: 3   RYKAIISYDGYGFAGFQRQPHARSVQEEIEKTLTRLNK--GQAITVHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D  E +  AL+   P DI V  I     +FH R++  SK Y + +    
Sbjct: 61  QVIHFDLPYQMDE-EKLRFALDTQSPEDIDVISIEIVADDFHCRYAKHSKTYEFIVDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFR--FD 203
             +P + HYA H  Y L+   M+ A +   G HDF+ F          + V++I      
Sbjct: 120 PKNPMRRHYATHFPYPLDVERMQMAIKKLEGTHDFTGFT--ASGTSVEDKVRTITEASLS 177

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
           V E G  L     G+GFLY+Q+RNMV
Sbjct: 178 VDETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|238855099|ref|ZP_04645427.1| tRNA pseudouridine synthase A [Lactobacillus jensenii 269-3]
 gi|260664884|ref|ZP_05865735.1| tRNA pseudouridine synthase A [Lactobacillus jensenii SJ-7A-US]
 gi|238832343|gb|EEQ24652.1| tRNA pseudouridine synthase A [Lactobacillus jensenii 269-3]
 gi|260561367|gb|EEX27340.1| tRNA pseudouridine synthase A [Lactobacillus jensenii SJ-7A-US]
          Length = 262

 Score =  125 bits (315), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 72/206 (34%), Positives = 117/206 (56%), Gaps = 6/206 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++++ + YDG  + G+Q Q +  T+Q  +E+AL +++K +R  + + G+ RTD GVHA G
Sbjct: 3   RFKMTMAYDGHLFHGFQKQPNQRTVQGTIEEALKKMSKGKR--IVVHGSGRTDAGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P        +  ALN ++P DI  +E S     FH ++S K K Y Y +  D 
Sbjct: 61  QVIHFDFPNDNIPANKMVLALNSMMPTDIVFKEASIVDESFHVQYSTKGKWYRYIVNQDR 120

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
            +DPF+  Y  H  YKL+ + M+EAA   +G+HDF++F       + ++ V++IF   + 
Sbjct: 121 FVDPFKRFYTGHYPYKLDVSKMQEAASDLLGEHDFTSFA--ASGGQIIDKVRTIFYVKIW 178

Query: 206 EMGALLQLEVE--GSGFLYRQVRNMV 229
           +     ++  +  G+GFLY  VR MV
Sbjct: 179 QKPEENEIVFDFIGNGFLYNMVRIMV 204


>gi|456013300|gb|EMF46959.1| tRNA pseudouridine synthase A [Planococcus halocryophilus Or1]
          Length = 247

 Score =  125 bits (315), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 74/201 (36%), Positives = 104/201 (51%), Gaps = 5/201 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + +  I YDG+ +AG+Q Q    T+Q  + K L  + K   + +++V + RTD  VHA G
Sbjct: 3   RLKATIAYDGSGFAGYQVQPDSRTVQLELMKVLETIHK--GKVVQVVASGRTDAKVHATG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF T  S   +     ALN LLP DIRV  I      FHAR+    K Y YK     
Sbjct: 61  QVIHFDTELSIP-ISGWLKALNVLLPEDIRVNSIEEVDTSFHARYHTTGKTYRYKWDRSQ 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           ++ PF      H    LN   M+ A++  +G HDFS+F     N   ++ V+++ R D  
Sbjct: 120 IISPFTRSLMVHVKQPLNVEAMKNASQAIIGTHDFSSFC--AANTAVVDKVRTVRRLDFE 177

Query: 206 EMGALLQLEVEGSGFLYRQVR 226
           E G  L + +EG+GFLY  VR
Sbjct: 178 EHGNELHMIIEGTGFLYNMVR 198


>gi|359432642|ref|ZP_09223008.1| tRNA pseudouridine38-40 synthase [Pseudoalteromonas sp. BSi20652]
 gi|357920708|dbj|GAA59257.1| tRNA pseudouridine38-40 synthase [Pseudoalteromonas sp. BSi20652]
          Length = 265

 Score =  125 bits (315), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 71/200 (35%), Positives = 110/200 (55%), Gaps = 6/200 (3%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L + Y+G RY+GWQ Q+   ++Q  VEKAL R+       + ++ A RTD GVH  GQV 
Sbjct: 5   LGVEYNGARYSGWQRQSHVNSVQQEVEKALSRICN---HPVEVICAGRTDAGVHGTGQVI 61

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           HF T    D + +    +N L+P DI +R       +FHARFSA ++ Y Y IYN  +  
Sbjct: 62  HFETEADRD-MVAFTLGMNTLMPRDIAIRFAQPVADDFHARFSATARRYRYVIYNSPLRG 120

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
              +    H  + L+   M+EA +Y +GKHDF++F  I  + +A  P ++I    V   G
Sbjct: 121 AVLNEGVTHFHHHLDEEKMQEACQYLIGKHDFTSFRAI--HCQANTPTRTIHHLSVQRQG 178

Query: 209 ALLQLEVEGSGFLYRQVRNM 228
             + ++++ + FL+  VRN+
Sbjct: 179 TYVIIDIKANAFLHHMVRNI 198


>gi|332300500|ref|YP_004442421.1| tRNA pseudouridine synthase A [Porphyromonas asaccharolytica DSM
           20707]
 gi|332177563|gb|AEE13253.1| tRNA pseudouridine synthase A [Porphyromonas asaccharolytica DSM
           20707]
          Length = 262

 Score =  125 bits (315), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 72/205 (35%), Positives = 106/205 (51%), Gaps = 8/205 (3%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L + YDGT Y GWQ Q    ++Q  +E+AL   + L R+ + + GA RTD GVHA+  +A
Sbjct: 10  LEVAYDGTNYCGWQVQPRGVSVQSELERAL---SMLFRQSISVTGAGRTDAGVHAYSMMA 66

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           H   P  +  L  I   L G+L   I VR ++  +P  HARF A S+ YHY  Y  A  +
Sbjct: 67  HADLPIPHPPLAQIQRGLCGILRGGISVRSVTPVIPTAHARFDATSRRYHY--YISACSN 124

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
           PF   Y +      +  LM EA  +F+G+HDF++F  +    +          ++ +EM 
Sbjct: 125 PFWSDYCWERRTLPDMALMNEACRHFIGEHDFTSFSKLHTQTKHNRCTVYTAHWEQVEMP 184

Query: 209 AL---LQLEVEGSGFLYRQVRNMVN 230
            L   ++ EV  + FL+  VR MV 
Sbjct: 185 GLWDAMRYEVCANRFLHGMVRTMVG 209


>gi|225377724|ref|ZP_03754945.1| hypothetical protein ROSEINA2194_03375 [Roseburia inulinivorans DSM
           16841]
 gi|225210401|gb|EEG92755.1| hypothetical protein ROSEINA2194_03375 [Roseburia inulinivorans DSM
           16841]
          Length = 245

 Score =  125 bits (315), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 74/202 (36%), Positives = 110/202 (54%), Gaps = 9/202 (4%)

Query: 27  WRLVIGYDGTRYAGWQFQTSPP-TIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ I YDGTRY GWQ Q S   TIQ  +E  L    ++    + ++G+ RTD GVHA G
Sbjct: 4   YKITIQYDGTRYKGWQGQNSTGLTIQGKIEAVL---GQMAGHAVEVIGSGRTDAGVHAKG 60

Query: 86  QVAHF-ITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           QVA+F I     +G   I + LN  LP DI V  +      FH+R++AK K Y Y I+  
Sbjct: 61  QVANFHIEEHFTEG--KILSYLNHYLPDDIAVIAVEQVDERFHSRYAAKKKTYRYHIHMG 118

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
            + D F+  Y Y     L+   M+EAA Y +G HDF++F   ++  +    V++I+  + 
Sbjct: 119 EISDVFERKYEYQYEKTLDVERMKEAASYLIGTHDFTSFCGNKKMKKT--AVRTIYEINF 176

Query: 205 IEMGALLQLEVEGSGFLYRQVR 226
            + G  L ++  G+GFL   VR
Sbjct: 177 TKKGNDLWIDYRGNGFLQNMVR 198


>gi|421234500|ref|ZP_15691118.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 2061617]
 gi|421249828|ref|ZP_15706285.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 2082239]
 gi|395600354|gb|EJG60511.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 2061617]
 gi|395613522|gb|EJG73550.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 2082239]
          Length = 249

 Score =  125 bits (315), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 108/206 (52%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDG  +AG+Q Q    ++Q  +EK L R+ K   + + + GA RTD+GVHA G
Sbjct: 3   RYKATISYDGYAFAGFQRQPHARSVQEEIEKTLTRLNK--GQTITVHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D  E +  AL+   P DI V  I     +FH R++  SK Y + +    
Sbjct: 61  QVIHFDLPYQMDE-EKLRFALDTQSPEDIDVISIELVAADFHCRYAKHSKTYEFIVDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +P + HYA H  Y L+   M+ A +   G HDF+ F          + V++I    +I
Sbjct: 120 PKNPMRRHYATHFPYPLDVERMQIAIKKLEGTHDFTGFT--ASGTSVEDKVRTITEASLI 177

Query: 206 --EMGALLQLEVEGSGFLYRQVRNMV 229
             E G  L     G+GFLY+Q+RNMV
Sbjct: 178 VDETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|21911175|ref|NP_665443.1| tRNA pseudouridine synthase A [Streptococcus pyogenes MGAS315]
 gi|28895139|ref|NP_801489.1| tRNA pseudouridine synthase A [Streptococcus pyogenes SSI-1]
 gi|386363403|ref|YP_006072734.1| tRNA pseudouridine synthase A [Streptococcus pyogenes Alab49]
 gi|421893282|ref|ZP_16323827.1| tRNA pseudouridine synthase A [Streptococcus pyogenes NS88.2]
 gi|341958759|sp|P0DD46.1|TRUA_STRP3 RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|341958760|sp|P0DD47.1|TRUA_STRPQ RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|21905386|gb|AAM80246.1| putative tRNA pseudouridine synthase A [Streptococcus pyogenes
           MGAS315]
 gi|28810384|dbj|BAC63322.1| putative tRNA pseudouridine synthase A [Streptococcus pyogenes
           SSI-1]
 gi|350277812|gb|AEQ25180.1| tRNA pseudouridine synthase A [Streptococcus pyogenes Alab49]
 gi|379980972|emb|CCG27549.1| tRNA pseudouridine synthase A [Streptococcus pyogenes NS88.2]
          Length = 249

 Score =  125 bits (314), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 75/206 (36%), Positives = 106/206 (51%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDGT ++G+Q Q    T+Q  +EK L ++    +  + + GA RTD GVHA+G
Sbjct: 3   RYKATISYDGTLFSGFQRQRHLRTVQEEIEKTLYKLNNGTK--IIIHGAGRTDAGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P   + +E +  AL+   P DI V  I     +FH R+    K Y + + N  
Sbjct: 61  QVIHFDLPQEQE-VEKLRFALDTQTPEDIDVVNIEKVADDFHCRYQKHLKTYEFLVDNGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +P   HY  H  Y LN  LM++A    VG HDF+ F          N V++I +  V 
Sbjct: 120 PKNPMMRHYTTHYPYTLNIKLMQDAINGLVGTHDFTGFT--AAGTSVQNKVRTITKATVS 177

Query: 206 --EMGALLQLEVEGSGFLYRQVRNMV 229
             E    L     G+GFLY+QVRNMV
Sbjct: 178 RDEKTDFLVFTFSGNGFLYKQVRNMV 203


>gi|225175641|ref|ZP_03729635.1| tRNA pseudouridine synthase A [Dethiobacter alkaliphilus AHT 1]
 gi|225168970|gb|EEG77770.1| tRNA pseudouridine synthase A [Dethiobacter alkaliphilus AHT 1]
          Length = 246

 Score =  125 bits (314), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 75/201 (37%), Positives = 108/201 (53%), Gaps = 10/201 (4%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L +GYDGT Y G+Q Q +  T+Q  +E+A   + K+  + +R+  + RTDTGVHA GQV
Sbjct: 5   KLTLGYDGTGYHGFQLQKNAVTVQQKLEEA---IEKVMGQKVRITASGRTDTGVHATGQV 61

Query: 88  AHFITPFSYDGL--ESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
            +F   F+  G+  + I  ALN +LP DI +         FHARF A  K Y Y I N A
Sbjct: 62  INF---FAQTGIPPQRIPHALNAVLPRDIVIYAAEIVSDSFHARFDAVGKTYTYTIDNGA 118

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
                  H+AYH  + L+  LM++AA    GKHDF++F  +         V++++R DV 
Sbjct: 119 HPQVLSRHHAYHVRFPLDANLMKQAAATLQGKHDFTSF--MASGSSVKTTVRNLYRLDVE 176

Query: 206 EMGALLQLEVEGSGFLYRQVR 226
                + +     GFLY  VR
Sbjct: 177 INWPYITITAAADGFLYNMVR 197


>gi|296113461|ref|YP_003627399.1| tRNA pseudouridine synthase A [Moraxella catarrhalis RH4]
 gi|416218358|ref|ZP_11624833.1| tRNA pseudouridine synthase A [Moraxella catarrhalis 7169]
 gi|416238144|ref|ZP_11631399.1| tRNA pseudouridine synthase A [Moraxella catarrhalis BC1]
 gi|416244103|ref|ZP_11634297.1| tRNA pseudouridine synthase A [Moraxella catarrhalis BC7]
 gi|295921155|gb|ADG61506.1| tRNA pseudouridine synthase A [Moraxella catarrhalis BBH18]
 gi|326559732|gb|EGE10142.1| tRNA pseudouridine synthase A [Moraxella catarrhalis 7169]
 gi|326568129|gb|EGE18213.1| tRNA pseudouridine synthase A [Moraxella catarrhalis BC7]
 gi|326568548|gb|EGE18620.1| tRNA pseudouridine synthase A [Moraxella catarrhalis BC1]
          Length = 268

 Score =  125 bits (314), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 75/204 (36%), Positives = 109/204 (53%), Gaps = 16/204 (7%)

Query: 31  IGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVAHF 90
           I + GTRY GWQ Q     +Q ++EKAL   + +  E + L+ A RTD GVHA   +AHF
Sbjct: 10  IEFIGTRYRGWQRQEEVIGVQAVIEKAL---STIANESIELIAAGRTDAGVHAGNMIAHF 66

Query: 91  ITPFSYDGLESIHAAL---NGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           +T        S H+ L   N LLP DI +R +     +FHARFSA ++ Y Y   N    
Sbjct: 67  VT----HAERSAHSWLRGTNSLLPDDIALRWVQPMPDDFHARFSAIARRYRYITLNQPYR 122

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAF--VNIQRNDRALNPVKSIFRFDVI 205
               HH   H   KL+   M  A+++ VG HDFS+F     Q N     PV+++   ++ 
Sbjct: 123 PAILHHQVTHEYTKLDIDAMIIASQFIVGTHDFSSFRAAACQSN----QPVRTVTHANLF 178

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           + G+ L L+++  GFL+  VRN++
Sbjct: 179 QHGSYLILDIQADGFLHHMVRNIM 202


>gi|149021302|ref|ZP_01835548.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae SP23-BS72]
 gi|168491513|ref|ZP_02715656.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae CDC0288-04]
 gi|225861429|ref|YP_002742938.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae
           Taiwan19F-14]
 gi|298229625|ref|ZP_06963306.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae str. Canada
           MDR_19F]
 gi|298254115|ref|ZP_06977701.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae str. Canada
           MDR_19A]
 gi|298503335|ref|YP_003725275.1| tRNA-pseudouridine synthase I [Streptococcus pneumoniae
           TCH8431/19A]
 gi|387788652|ref|YP_006253720.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae ST556]
 gi|417313075|ref|ZP_12099787.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA04375]
 gi|417687042|ref|ZP_12336316.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA41301]
 gi|418083400|ref|ZP_12720597.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA44288]
 gi|418085589|ref|ZP_12722768.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA47281]
 gi|418094386|ref|ZP_12731513.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA49138]
 gi|418101056|ref|ZP_12738139.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 7286-06]
 gi|418103298|ref|ZP_12740370.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae NP070]
 gi|418119039|ref|ZP_12755996.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA18523]
 gi|418142110|ref|ZP_12778923.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA13455]
 gi|418146852|ref|ZP_12783630.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA13637]
 gi|418151101|ref|ZP_12787847.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA14798]
 gi|418153332|ref|ZP_12790070.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA16121]
 gi|418160299|ref|ZP_12796998.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA17227]
 gi|418164893|ref|ZP_12801561.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA17371]
 gi|418171732|ref|ZP_12808356.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA19451]
 gi|418194177|ref|ZP_12830666.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA47439]
 gi|418196261|ref|ZP_12832737.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA47688]
 gi|418198424|ref|ZP_12834882.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA47778]
 gi|418223797|ref|ZP_12850437.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 5185-06]
 gi|418228103|ref|ZP_12854720.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 3063-00]
 gi|419425543|ref|ZP_13965739.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 7533-05]
 gi|419427656|ref|ZP_13967837.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 5652-06]
 gi|419429796|ref|ZP_13969960.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA11856]
 gi|419436389|ref|ZP_13976477.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 8190-05]
 gi|419438635|ref|ZP_13978703.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA13499]
 gi|419445108|ref|ZP_13985123.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA19923]
 gi|419447254|ref|ZP_13987259.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 7879-04]
 gi|419449385|ref|ZP_13989381.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 4075-00]
 gi|419451016|ref|ZP_13991002.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae EU-NP02]
 gi|419475940|ref|ZP_14015776.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA14688]
 gi|419487083|ref|ZP_14026845.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA44128]
 gi|419502249|ref|ZP_14041933.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA47628]
 gi|419519311|ref|ZP_14058917.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA08825]
 gi|419521526|ref|ZP_14061121.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA05245]
 gi|419527934|ref|ZP_14067477.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA17719]
 gi|421209377|ref|ZP_15666390.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 2070005]
 gi|421218232|ref|ZP_15675126.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 2070335]
 gi|421225439|ref|ZP_15682177.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 2070768]
 gi|421241073|ref|ZP_15697618.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 2080913]
 gi|421287869|ref|ZP_15738632.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA58771]
 gi|421290164|ref|ZP_15740914.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA54354]
 gi|421305556|ref|ZP_15756210.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA62331]
 gi|254764872|sp|C1CSL6.1|TRUA_STRZT RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|147930403|gb|EDK81387.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae SP23-BS72]
 gi|183574268|gb|EDT94796.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae CDC0288-04]
 gi|225728219|gb|ACO24070.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae
           Taiwan19F-14]
 gi|298238930|gb|ADI70061.1| tRNA-pseudouridine synthase I [Streptococcus pneumoniae
           TCH8431/19A]
 gi|327389783|gb|EGE88128.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA04375]
 gi|332073932|gb|EGI84410.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA41301]
 gi|353754620|gb|EHD35232.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA44288]
 gi|353756298|gb|EHD36899.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA47281]
 gi|353764882|gb|EHD45430.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA49138]
 gi|353770556|gb|EHD51068.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 7286-06]
 gi|353774599|gb|EHD55086.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae NP070]
 gi|353790991|gb|EHD71372.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA18523]
 gi|353806361|gb|EHD86635.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA13455]
 gi|353812427|gb|EHD92662.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA13637]
 gi|353814311|gb|EHD94537.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA14798]
 gi|353816883|gb|EHD97091.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA16121]
 gi|353822032|gb|EHE02208.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA17227]
 gi|353828725|gb|EHE08861.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA17371]
 gi|353835469|gb|EHE15563.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA19451]
 gi|353857755|gb|EHE37717.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA47439]
 gi|353860272|gb|EHE40217.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA47688]
 gi|353861534|gb|EHE41469.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA47778]
 gi|353878595|gb|EHE58425.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 5185-06]
 gi|353880498|gb|EHE60313.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 3063-00]
 gi|379138394|gb|AFC95185.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae ST556]
 gi|379537042|gb|EHZ02227.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA13499]
 gi|379538826|gb|EHZ04006.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA05245]
 gi|379549974|gb|EHZ15076.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA11856]
 gi|379558722|gb|EHZ23754.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA14688]
 gi|379566087|gb|EHZ31078.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA17719]
 gi|379572801|gb|EHZ37758.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA19923]
 gi|379585452|gb|EHZ50308.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA44128]
 gi|379600462|gb|EHZ65243.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA47628]
 gi|379613210|gb|EHZ77923.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 8190-05]
 gi|379614794|gb|EHZ79504.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 7879-04]
 gi|379617849|gb|EHZ82529.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 5652-06]
 gi|379619004|gb|EHZ83678.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 7533-05]
 gi|379622003|gb|EHZ86639.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 4075-00]
 gi|379622721|gb|EHZ87355.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae EU-NP02]
 gi|379641148|gb|EIA05686.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA08825]
 gi|395573473|gb|EJG34063.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 2070005]
 gi|395583001|gb|EJG43450.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 2070335]
 gi|395588926|gb|EJG49248.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 2070768]
 gi|395607451|gb|EJG67548.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 2080913]
 gi|395886432|gb|EJG97448.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA58771]
 gi|395887849|gb|EJG98863.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA54354]
 gi|395904514|gb|EJH15428.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA62331]
          Length = 249

 Score =  125 bits (314), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 108/206 (52%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDG  +AG+Q Q    ++Q  +EK L R+ K   + + + GA RTD+GVHA G
Sbjct: 3   RYKATISYDGYAFAGFQRQPHARSVQEEIEKTLTRLNK--GQTITVHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D  E +  AL+   P DI V  I     +FH R++  SK Y + +    
Sbjct: 61  QVIHFDLPYQMDE-EKLRFALDTQSPEDIDVISIELVAADFHCRYAKHSKTYEFIVDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +P + HYA H  Y L+   M+ A +   G HDF+ F          + V++I    +I
Sbjct: 120 PKNPMRRHYATHFPYPLDVERMQIAIKKLEGTHDFTGFT--ASGTSVEDKVRTITEASLI 177

Query: 206 --EMGALLQLEVEGSGFLYRQVRNMV 229
             E G  L     G+GFLY+Q+RNMV
Sbjct: 178 VDETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|335998536|ref|ZP_08564447.1| tRNA pseudouridine synthase A [Lactobacillus ruminis SPM0211]
 gi|347524814|ref|YP_004831562.1| tRNA pseudouridine synthase [Lactobacillus ruminis ATCC 27782]
 gi|335348391|gb|EGM49897.1| tRNA pseudouridine synthase A [Lactobacillus ruminis SPM0211]
 gi|345283773|gb|AEN77626.1| tRNA pseudouridine synthase [Lactobacillus ruminis ATCC 27782]
          Length = 250

 Score =  125 bits (314), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 111/206 (53%), Gaps = 6/206 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++++ + YDGT +AG+Q Q +  T+Q ++E A+ +++K   + + + G+ RTD GVHA G
Sbjct: 4   RYKITLAYDGTNFAGFQVQPNQRTVQSVLEAAVNKMSK-NSDYITIYGSGRTDAGVHALG 62

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P      E +   LN +LP D  V        +FHARF+   K Y Y++    
Sbjct: 63  QVVHFDFPHDIPA-EGMLKGLNSMLPLDCEVVGCEIVPNDFHARFTTHGKRYMYRVSRGR 121

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +PF+  Y  H  Y L+   ++EA    VG HDFS+FV      +  N V++I+   V 
Sbjct: 122 FTNPFKRFYTGHYKYPLDIEKIKEAMPDLVGTHDFSSFV--ASGSQTKNHVRTIYEATVR 179

Query: 206 E--MGALLQLEVEGSGFLYRQVRNMV 229
           E      +  E  G+GFLY QVR MV
Sbjct: 180 EDKENDEIIFEFCGNGFLYNQVRIMV 205


>gi|449990072|ref|ZP_21821315.1| tRNA pseudouridine synthase A [Streptococcus mutans NVAB]
 gi|449182075|gb|EMB84121.1| tRNA pseudouridine synthase A [Streptococcus mutans NVAB]
          Length = 249

 Score =  125 bits (314), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 72/206 (34%), Positives = 111/206 (53%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDGT ++G+Q Q    T+Q  +EK L+R+     + +++ GA RTD GVHA+G
Sbjct: 3   RYKAIISYDGTNFSGFQRQPQMRTVQEEIEKTLLRLN--SGQAVKIHGAGRTDAGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P   D LE +    +   P DI V ++     +FHAR+    K Y + +    
Sbjct: 61  QVIHFDLPQQRD-LEKLRFGFDTQTPDDIDVIQVEQVADDFHARYQKHRKTYEFLVDLGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV- 204
             +P   HYA H  YK++ ++++ A +   G HDF+ F     +    N +++I R  V 
Sbjct: 120 PKNPLMRHYATHFPYKVDFSVVKAAIKKLRGTHDFTGFTAAGTS--VENKIRTISRATVE 177

Query: 205 -IEMGALLQLEVEGSGFLYRQVRNMV 229
             +    L     GSGFLY+QVRNMV
Sbjct: 178 KDDKTGFLIFTFTGSGFLYKQVRNMV 203


>gi|422810634|ref|ZP_16859045.1| tRNA pseudouridine synthase A [Listeria monocytogenes FSL J1-208]
 gi|378750839|gb|EHY61430.1| tRNA pseudouridine synthase A [Listeria monocytogenes FSL J1-208]
          Length = 248

 Score =  125 bits (314), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 70/202 (34%), Positives = 114/202 (56%), Gaps = 6/202 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDG+ + G+Q Q +  T+Q  +EKAL ++ K   + +R+  + RTDTGVHA G
Sbjct: 3   RYKAIISYDGSGFYGYQVQPNTRTVQAEIEKALTKMHK--GKSVRITASGRTDTGVHAKG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF +  +    E    AL  + P DI    +     +FHARF    K Y Y +    
Sbjct: 61  QVIHFDSELAITA-EKFQKALQVMTPFDISFLTVEEVPNDFHARFGTVGKEYRYVVKRTK 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           + DPF  ++A H  Y+L+ + M+ A+E  +G+HDF++F +  R +R  + V++++  D  
Sbjct: 120 IFDPFSRNFALHYPYELDISKMKLASERLIGEHDFTSFCS-ARTERD-SKVRTLYSIDFY 177

Query: 206 EM-GALLQLEVEGSGFLYRQVR 226
           E     L +  +G+GFLY  VR
Sbjct: 178 EEDDETLVIAFQGNGFLYNMVR 199


>gi|419759835|ref|ZP_14286120.1| tRNA pseudouridine synthase ACD [Thermosipho africanus H17ap60334]
 gi|407514874|gb|EKF49660.1| tRNA pseudouridine synthase ACD [Thermosipho africanus H17ap60334]
          Length = 244

 Score =  125 bits (314), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 77/199 (38%), Positives = 110/199 (55%), Gaps = 8/199 (4%)

Query: 32  GYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVAHFI 91
            YDGT++ G+Q Q +  T+Q  +E AL R+ K   E +    A RTD GVHA GQVA F 
Sbjct: 9   AYDGTKFFGYQGQPNVRTVQGDLEDALERIFK---ERIYTQAAGRTDAGVHANGQVAAFN 65

Query: 92  TPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDPFQ 151
            P        I  ALN  LP DI V++       F+ RF+A  +IYHY I  +   D F 
Sbjct: 66  CPIERLTETDIKNALNANLPDDIYVKKAWIVDKSFNPRFAATKRIYHYFISTNE-KDVFM 124

Query: 152 HHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM-GAL 210
            +Y ++  Y L+   MR+AA +  G+HDFS+F   ++     NPV++I+R  ++ +   L
Sbjct: 125 RNYVWNFRYDLDIEAMRKAASFLEGEHDFSSF---KKGKDEKNPVRTIYRIRILTLKKGL 181

Query: 211 LQLEVEGSGFLYRQVRNMV 229
           + + VEG  FL   VRN+V
Sbjct: 182 ILIRVEGRSFLRSMVRNIV 200


>gi|406577302|ref|ZP_11052916.1| tRNA pseudouridine synthase A [Streptococcus sp. GMD6S]
 gi|404460147|gb|EKA06428.1| tRNA pseudouridine synthase A [Streptococcus sp. GMD6S]
          Length = 249

 Score =  125 bits (314), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 108/206 (52%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDG  +AG+Q Q    ++Q  +EK L+R+ K   + + + GA RTD+GVHA G
Sbjct: 3   RYKATISYDGFAFAGFQRQPHARSVQEEIEKTLMRLNK--GQAIAVHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D  E +  AL+   P DI V  I     +FH R++  SK Y + +    
Sbjct: 61  QVIHFDLPYQMDE-EKLRFALDTQSPEDIDVISIEIVADDFHCRYAKHSKTYEFIVDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFR--FD 203
             +P + HYA H  Y L+   M+ A +   G HDF+ F          + V++I      
Sbjct: 120 PKNPMRRHYATHFPYPLDVERMQIAVKKLEGTHDFTGFT--ASGTSVEDKVRTITEASLT 177

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
           V E G  L     G+GFLY+Q+RNMV
Sbjct: 178 VDETGQFLTFSFSGNGFLYKQIRNMV 203


>gi|313895792|ref|ZP_07829346.1| tRNA pseudouridine synthase A [Selenomonas sp. oral taxon 137 str.
           F0430]
 gi|312975217|gb|EFR40678.1| tRNA pseudouridine synthase A [Selenomonas sp. oral taxon 137 str.
           F0430]
          Length = 266

 Score =  125 bits (314), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 82/208 (39%), Positives = 113/208 (54%), Gaps = 16/208 (7%)

Query: 29  LVIGYDGTRYAGWQFQTSPP-TIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           L + YDGTRY G+Q Q+ P   +Q ++EK L  V     E + L  A RTDTGVHA+GQV
Sbjct: 18  LRLSYDGTRYHGFQRQSLPVVAVQNVLEKVLAEVCG---ESVELAAAGRTDTGVHAYGQV 74

Query: 88  AHFITPFSYDG---LESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
            +F T    DG   +  +  A+NGLLPPDI V     A  +F AR S+  K Y Y+I   
Sbjct: 75  VNFFT----DGRIPVAQLPRAVNGLLPPDIAVMAAWEAERDFSARHSSTGKAYLYRIERC 130

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSI--FRF 202
            V +PF  +YA+     L+   MR      VG HD+S+F         ++PV+++   R 
Sbjct: 131 TVPNPFTRNYAWQIFRPLDVAAMRTVLRLLVGTHDYSSFRAA--GGAPMSPVRTLDEIRL 188

Query: 203 DVIEMGALLQLEVEGSGFLYRQVRNMVN 230
           D  E G  L   + G+GFLY  VRN+++
Sbjct: 189 DE-EEGGQLSCYMHGNGFLYHMVRNIMS 215


>gi|148993376|ref|ZP_01822893.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae SP9-BS68]
 gi|168488681|ref|ZP_02712880.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae SP195]
 gi|417679576|ref|ZP_12328972.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA17570]
 gi|418126260|ref|ZP_12763166.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA44511]
 gi|418192049|ref|ZP_12828551.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA47388]
 gi|418214805|ref|ZP_12841539.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA54644]
 gi|418234810|ref|ZP_12861386.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA08780]
 gi|419484841|ref|ZP_14024616.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA43257]
 gi|419508683|ref|ZP_14048335.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA49542]
 gi|421220700|ref|ZP_15677539.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 2070425]
 gi|421222952|ref|ZP_15679734.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 2070531]
 gi|421279387|ref|ZP_15730193.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA17301]
 gi|421294712|ref|ZP_15745433.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA56113]
 gi|421301468|ref|ZP_15752138.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA19998]
 gi|147927931|gb|EDK78951.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae SP9-BS68]
 gi|183572616|gb|EDT93144.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae SP195]
 gi|332072441|gb|EGI82924.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA17570]
 gi|353796200|gb|EHD76545.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA44511]
 gi|353855135|gb|EHE35105.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA47388]
 gi|353869535|gb|EHE49416.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA54644]
 gi|353886432|gb|EHE66214.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA08780]
 gi|379581594|gb|EHZ46478.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA43257]
 gi|379611128|gb|EHZ75856.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA49542]
 gi|395586610|gb|EJG46977.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 2070425]
 gi|395586932|gb|EJG47294.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 2070531]
 gi|395878880|gb|EJG89942.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA17301]
 gi|395893281|gb|EJH04268.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA56113]
 gi|395899028|gb|EJH09972.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA19998]
          Length = 249

 Score =  125 bits (314), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 108/206 (52%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDG  +AG+Q Q    ++Q  +EK L R+ K   + + + GA RTD+GVHA G
Sbjct: 3   RYKATISYDGYAFAGFQRQPHARSVQEEIEKTLTRLNK--GQTITVHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D  E +  AL+   P DI V  I     +FH R++  SK Y + +    
Sbjct: 61  QVIHFDLPYQMDE-EKLRFALDTQSPEDIDVISIELVADDFHCRYAKHSKTYEFIVDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +P + HYA H  Y L+   M+ A +   G HDF+ F          + V++I    +I
Sbjct: 120 PKNPMRRHYATHFPYPLDVERMQIAIKKLEGTHDFTGFT--ASGTSVEDKVRTITEASLI 177

Query: 206 --EMGALLQLEVEGSGFLYRQVRNMV 229
             E G  L     G+GFLY+Q+RNMV
Sbjct: 178 VDETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|116873964|ref|YP_850745.1| tRNA pseudouridine synthase A [Listeria welshimeri serovar 6b str.
           SLCC5334]
 gi|123466636|sp|A0ALT4.1|TRUA_LISW6 RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|116742842|emb|CAK21966.1| tRNA pseudouridine synthase A [Listeria welshimeri serovar 6b str.
           SLCC5334]
          Length = 248

 Score =  125 bits (314), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 70/202 (34%), Positives = 114/202 (56%), Gaps = 6/202 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDG+ + G+Q Q +  T+Q  +EKAL ++ K   +++R+  + RTDTGVHA G
Sbjct: 3   RYKAIISYDGSGFYGYQIQPNARTVQAEIEKALKKMHK--GKNVRITASGRTDTGVHAKG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF +       +    AL  + P DI    +  A  +FHARF    K Y Y +    
Sbjct: 61  QVIHFDSDLDITA-DKFQKALQVMTPFDISFLTVDEAPADFHARFGTVGKEYRYIVKRTK 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           + DPF  ++A H  Y+L+   M+ A+E  +G+HDF++F +  R +R  + V++++  D  
Sbjct: 120 IFDPFSRNFALHYPYELDIAKMKLASECLIGEHDFTSFCS-ARTERD-SKVRTLYSIDFY 177

Query: 206 EMG-ALLQLEVEGSGFLYRQVR 226
           E     L +  +G+GFLY  VR
Sbjct: 178 EEDEETLVIAFQGNGFLYNMVR 199


>gi|309798794|ref|ZP_07693058.1| tRNA pseudouridine synthase A [Streptococcus infantis SK1302]
 gi|308117611|gb|EFO55023.1| tRNA pseudouridine synthase A [Streptococcus infantis SK1302]
          Length = 249

 Score =  125 bits (314), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 74/207 (35%), Positives = 109/207 (52%), Gaps = 9/207 (4%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLER-EDLRLVGASRTDTGVHAW 84
           +++ +I YDG  +AG+Q Q   P  + + E+  I +TKL + + + + GA RTD+GVHA 
Sbjct: 3   RYKAIISYDGYAFAGFQRQ---PHARSVQEEIEITLTKLNKGQAITIHGAGRTDSGVHAL 59

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           GQV HF  P+  D  E +  AL+   P DI V  I     +FH R++  SK Y + +   
Sbjct: 60  GQVIHFDLPYQMDE-EKLRFALDTQSPEDIDVISIEIVADDFHCRYAKHSKTYEFIVDRG 118

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFV--NIQRNDRALNPVKSIFRF 202
              +P + HYA H  Y L+   M+ A +   G HDF+ F        D+     ++  R 
Sbjct: 119 RPKNPMRRHYATHYPYPLDVERMQLAVKKLEGTHDFTGFTASGTSVEDKVRTITEASLRV 178

Query: 203 DVIEMGALLQLEVEGSGFLYRQVRNMV 229
           D  E G  L     G+GFLY+Q+RNMV
Sbjct: 179 D--ETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|167627942|ref|YP_001678442.1| tRNA pseudouridine synthase A [Francisella philomiragia subsp.
           philomiragia ATCC 25017]
 gi|189029995|sp|B0U0B1.1|TRUA_FRAP2 RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|167597943|gb|ABZ87941.1| tRNA-pseudouridine synthase I [Francisella philomiragia subsp.
           philomiragia ATCC 25017]
          Length = 258

 Score =  125 bits (314), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 69/201 (34%), Positives = 112/201 (55%), Gaps = 6/201 (2%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L I Y G  Y GWQ Q+  P+IQ  +EKAL   +K+  +++ +  A RTDTGVHA  QV 
Sbjct: 6   LQIEYFGKNYCGWQRQSHSPSIQEELEKAL---SKIANQNIEVTCAGRTDTGVHATSQVV 62

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +F +    + L S     N LLP  I++ +I     +F++RF+A ++ Y+Y IYN A+  
Sbjct: 63  NFHSDADRN-LSSWMRGTNALLPQGIKILDIKEVDNDFNSRFTATNRTYNYIIYNSAISS 121

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
           P    +      +LN   M +A +Y +G+ DF++F + Q       P ++I + + I+ G
Sbjct: 122 PILAEHCLWENRQLNIDKMNQACKYLLGEQDFTSFRSSQCQSNT--PFRNIQKAEFIKQG 179

Query: 209 ALLQLEVEGSGFLYRQVRNMV 229
           + +  EV G+ FL+  +RN +
Sbjct: 180 SFIVFEVVGNAFLHHMIRNFI 200


>gi|383754976|ref|YP_005433879.1| putative tRNA pseudouridine synthase A [Selenomonas ruminantium
           subsp. lactilytica TAM6421]
 gi|381367028|dbj|BAL83856.1| putative tRNA pseudouridine synthase A [Selenomonas ruminantium
           subsp. lactilytica TAM6421]
          Length = 258

 Score =  125 bits (314), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 77/204 (37%), Positives = 117/204 (57%), Gaps = 10/204 (4%)

Query: 29  LVIGYDGTRYAGWQFQTSPP--TIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           L + YDGT Y G+Q Q SPP   +Q ++E+ L  +     + + +  + RTD GVHA+GQ
Sbjct: 18  LKVAYDGTAYHGFQRQ-SPPVVAVQNVLERKLAVIFG---DTIEMAASGRTDAGVHAYGQ 73

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           V +F T  S   ++ +  A+N LLP DI V+E   A  +F AR SAK+K Y Y+I     
Sbjct: 74  VVNFFTNGSIP-IDKVPMAVNSLLPDDIVVKEAWEADFDFSARHSAKAKTYIYRIQQGTT 132

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV-I 205
            +P    YA++    LN  LM++A +   G+HDFSAF         ++PV++I+   V  
Sbjct: 133 PNPLTARYAWYERRPLNVELMQQALDMLKGEHDFSAFR--AAGGAPMSPVRTIYEAKVEA 190

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           + G +L+  + G+GFLY  VRN++
Sbjct: 191 KPGDMLEFTIYGNGFLYHMVRNII 214


>gi|332162419|ref|YP_004298996.1| tRNA pseudouridine synthase A [Yersinia enterocolitica subsp.
           palearctica 105.5R(r)]
 gi|325666649|gb|ADZ43293.1| tRNA pseudouridine synthase A [Yersinia enterocolitica subsp.
           palearctica 105.5R(r)]
 gi|330861403|emb|CBX71633.1| tRNA pseudouridine synthase A [Yersinia enterocolitica W22703]
          Length = 280

 Score =  125 bits (314), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 109/206 (52%), Gaps = 6/206 (2%)

Query: 24  GFKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHA 83
           G K  L I Y+G+RY GWQ Q    ++Q  +E AL   +K+  E + ++ A RTD GVHA
Sbjct: 18  GIKIALGIEYNGSRYFGWQRQQEVASVQACLEAAL---SKVANEPIGVLCAGRTDAGVHA 74

Query: 84  WGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYN 143
            GQV HFIT        +    +N  LPPDI VR +      FHARFSA ++ Y Y I+N
Sbjct: 75  TGQVVHFITTAERKN-AAWTMGVNSHLPPDIAVRWVKTVDDGFHARFSATARRYRYIIFN 133

Query: 144 DAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFD 203
                        H    L+   M +AA+  +G+HDF++F  IQ   R   P +++    
Sbjct: 134 HRYRPAVLAQGVTHCYMPLDAEKMEQAAQCLLGEHDFTSFRAIQCQSR--TPWRNVKHVK 191

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
           V   GA + ++++ + F++  VRN+V
Sbjct: 192 VTRHGAYIVVDIKANAFVHHMVRNIV 217


>gi|313887179|ref|ZP_07820875.1| tRNA pseudouridine synthase A [Porphyromonas asaccharolytica
           PR426713P-I]
 gi|312923408|gb|EFR34221.1| tRNA pseudouridine synthase A [Porphyromonas asaccharolytica
           PR426713P-I]
          Length = 262

 Score =  125 bits (314), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 72/205 (35%), Positives = 107/205 (52%), Gaps = 8/205 (3%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L + YDGT Y GWQ Q+   ++Q  +E+AL   + L R+ + + GA RTD GVHA+  +A
Sbjct: 10  LEVAYDGTNYCGWQVQSRGVSVQSELERAL---SILFRQPISVTGAGRTDAGVHAYSMMA 66

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           H   P  +  L  I   L G+L   I VR ++  +P  HARF A S+ YHY  Y  A  +
Sbjct: 67  HADLPIPHPPLAQIQRGLCGILRGGISVRSVTPVIPTAHARFDATSRRYHY--YISACSN 124

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
           PF   Y +      +  LM EA  +F+G+HDF++F  +    +          ++ +EM 
Sbjct: 125 PFWGDYCWERRTLPDMALMNEACRHFIGEHDFTSFSKLHTQTKHNRCTVYTAHWEQVEMP 184

Query: 209 AL---LQLEVEGSGFLYRQVRNMVN 230
            L   ++ EV  + FL+  VR MV 
Sbjct: 185 GLWDAMRYEVCANRFLHGMVRTMVG 209


>gi|384086462|ref|ZP_09997637.1| tRNA pseudouridine synthase A [Acidithiobacillus thiooxidans ATCC
           19377]
          Length = 275

 Score =  125 bits (314), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 77/213 (36%), Positives = 107/213 (50%), Gaps = 6/213 (2%)

Query: 18  TDDSFPGFKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRT 77
            D   PG +W L + YDG  + GWQ Q    ++Q  +E+AL   ++L    + +  A RT
Sbjct: 7   ADTPRPGIRWALGVEYDGNGFCGWQRQLGQASVQQSLEEAL---SRLAGTAIPVTVAGRT 63

Query: 78  DTGVHAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIY 137
           DTGVHA  QV HF  P      ES   A N  LP  + VR        FHARFSA ++ Y
Sbjct: 64  DTGVHALCQVVHFDAPVQRSA-ESWLRATNTYLPDGVAVRWAQPVSAHFHARFSATARRY 122

Query: 138 HYKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVK 197
            Y I N         H+       L    M+ AA+  +G HDFSAF     + +A +PV+
Sbjct: 123 RYVILNRREKSALWRHHTAWVYSPLAIEPMQVAADLLLGTHDFSAFR--ASSCQANSPVR 180

Query: 198 SIFRFDVIEMGALLQLEVEGSGFLYRQVRNMVN 230
           S+ R  V + G L+ ++ E +GFL+  VRN+  
Sbjct: 181 SLHRLTVSQRGDLISIDAEANGFLHHMVRNLAG 213


>gi|238927931|ref|ZP_04659691.1| tRNA-pseudouridine synthase I [Selenomonas flueggei ATCC 43531]
 gi|238884264|gb|EEQ47902.1| tRNA-pseudouridine synthase I [Selenomonas flueggei ATCC 43531]
          Length = 256

 Score =  125 bits (314), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 81/206 (39%), Positives = 110/206 (53%), Gaps = 13/206 (6%)

Query: 29  LVIGYDGTRYAGWQFQTSPP-TIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           L I YDGT Y G+Q QT P   +Q ++E AL ++     E + L  A RTD GVHA+GQV
Sbjct: 11  LTIAYDGTNYHGFQRQTPPVLAVQNVLEGALAKICG---EMVELAAAGRTDAGVHAYGQV 67

Query: 88  AHFITPFSYDG---LESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
            +F T    DG    E +  A+NGLLPPDI V +   A  EF AR SA  K Y Y+I   
Sbjct: 68  VNFFT----DGRIPTEHLPRAVNGLLPPDIVVSQAWEAPREFSARHSATGKAYVYRIEEC 123

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
            V +PF  +YA+     L+   M        G HD+S+F         ++PV+++    +
Sbjct: 124 RVPNPFTRNYAWQVFQPLDHEAMHAVLLLLKGTHDYSSFRAA--GGAPMSPVRTLDEIRL 181

Query: 205 IEMGALLQLEVEGSGFLYRQVRNMVN 230
            E    L + V G+GFLY  VRN+V+
Sbjct: 182 TEEEGRLSIYVHGTGFLYHMVRNIVS 207


>gi|148986314|ref|ZP_01819186.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae SP3-BS71]
 gi|387757834|ref|YP_006064813.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae OXC141]
 gi|418232599|ref|ZP_12859185.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA07228]
 gi|418237055|ref|ZP_12863621.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA19690]
 gi|419480445|ref|ZP_14020250.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA19101]
 gi|419500146|ref|ZP_14039840.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA47597]
 gi|147921782|gb|EDK72913.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae SP3-BS71]
 gi|301800423|emb|CBW33056.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae OXC141]
 gi|353885912|gb|EHE65696.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA07228]
 gi|353891493|gb|EHE71247.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA19690]
 gi|379570399|gb|EHZ35363.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA19101]
 gi|379599454|gb|EHZ64237.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA47597]
 gi|429316458|emb|CCP36159.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae SPN034156]
 gi|429319801|emb|CCP33111.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae SPN034183]
 gi|429321617|emb|CCP35085.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae SPN994039]
 gi|429323438|emb|CCP31126.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae SPN994038]
          Length = 249

 Score =  125 bits (314), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 108/206 (52%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDG  +AG+Q Q    ++Q  +EK L R+ K   + + + GA RTD+GVHA G
Sbjct: 3   RYKATISYDGYAFAGFQRQPHARSVQEEIEKTLTRLNK--GQVITVHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D  E +  AL+   P DI V  I     +FH R++  SK Y + +    
Sbjct: 61  QVIHFDLPYQMDE-EKLRFALDTQSPEDIDVISIELVADDFHCRYAKHSKTYEFTVDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +P + HYA H  Y L+   M+ A +   G HDF+ F          + V++I    +I
Sbjct: 120 PKNPMRRHYATHFPYPLDVERMQIAIKKLEGTHDFTGFT--ASGTSVEDKVRTITEASLI 177

Query: 206 --EMGALLQLEVEGSGFLYRQVRNMV 229
             E G  L     G+GFLY+Q+RNMV
Sbjct: 178 VDETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|322392372|ref|ZP_08065833.1| tRNA pseudouridine synthase A [Streptococcus peroris ATCC 700780]
 gi|321144907|gb|EFX40307.1| tRNA pseudouridine synthase A [Streptococcus peroris ATCC 700780]
          Length = 249

 Score =  125 bits (314), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 72/206 (34%), Positives = 108/206 (52%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ VI YDG  +AG+Q Q    ++Q  +EK L R+ K     + + GA RTD+GVHA G
Sbjct: 3   RYKAVISYDGYAFAGFQRQPHARSVQEEIEKTLTRLNK--GLGVTIHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  +  E +  AL+   P DI V  +     +FH R++  SK Y + +    
Sbjct: 61  QVIHFDLPYQMEE-EKLRFALDTQSPEDIDVISVEIVADDFHCRYAKHSKTYEFIVDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFV--NIQRNDRALNPVKSIFRFD 203
             +P + HYA H  Y L+   M++A +   G HDF+ F        D+     ++  + D
Sbjct: 120 PKNPMRRHYATHYPYPLDVERMQKAVKKLEGTHDFTGFTASGTSVEDKVRTITEASLKVD 179

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
             E G  L     G+GFLY+Q+RNMV
Sbjct: 180 --ETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|313890306|ref|ZP_07823938.1| tRNA pseudouridine synthase A [Streptococcus pseudoporcinus SPIN
           20026]
 gi|416852114|ref|ZP_11909259.1| tRNA pseudouridine synthase A [Streptococcus pseudoporcinus LQ
           940-04]
 gi|313121292|gb|EFR44399.1| tRNA pseudouridine synthase A [Streptococcus pseudoporcinus SPIN
           20026]
 gi|356739603|gb|EHI64835.1| tRNA pseudouridine synthase A [Streptococcus pseudoporcinus LQ
           940-04]
          Length = 249

 Score =  125 bits (313), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 75/206 (36%), Positives = 113/206 (54%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDG++++G+Q QT+  TIQ  +EK L+R+ K   + + + GA RTD GVHA+G
Sbjct: 3   RYKAIISYDGSQFSGFQRQTNARTIQEEIEKTLMRLNK--GKTITIQGAGRTDAGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF      D LE +  AL+   P DI V  +     +FHAR+S   K Y + +    
Sbjct: 61  QVIHFDLAERRD-LEKLRFALDTQTPEDIDVISVEEVSNDFHARYSKHLKTYEFIVDIGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV- 204
             +P    YA H  Y L+ +L++ A +  VG HDF+ F          N V+++++ D  
Sbjct: 120 PKNPMMRQYATHYPYPLDFSLIKLAIKDLVGTHDFTGFT--AAGTSVENKVRTLYQADCN 177

Query: 205 -IEMGALLQLEVEGSGFLYRQVRNMV 229
                  L     G+GFLY+QVRNMV
Sbjct: 178 FDSHRQFLIFTFTGNGFLYKQVRNMV 203


>gi|422111118|ref|ZP_16380879.1| unnamed protein product [Neisseria lactamica Y92-1009]
 gi|309378319|emb|CBX23065.1| unnamed protein product [Neisseria lactamica Y92-1009]
          Length = 267

 Score =  125 bits (313), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 79/220 (35%), Positives = 113/220 (51%), Gaps = 13/220 (5%)

Query: 12  NTVKPPTDDSFPGFKWRLVIGYDGTRYAGWQFQTSP-PTIQCIVEKALIRVTKLEREDLR 70
           NT  P T       +W L + YDG+R+ GWQ Q    PT+Q  +E AL ++     E + 
Sbjct: 2   NTQPPDTQ------RWALTLSYDGSRFYGWQKQAGGVPTVQTALEDALAQIAG---EAVS 52

Query: 71  LVGASRTDTGVHAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARF 130
            + A RTDTGVHA  QV HF T         I    N  LP  I V       P FHARF
Sbjct: 53  TIVAGRTDTGVHATAQVVHFDTAARRPAQAWIRGT-NAALPEGIAVLHARQTAPGFHARF 111

Query: 131 SAKSKIYHYKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRND 190
            A  + Y Y + +  V  P   + A  +  KL+   MR+AA   VG+ DFS+F   +   
Sbjct: 112 DAYGRHYRYLLESSPVRSPLLKNRAGWTHLKLDIGPMRQAAALLVGEQDFSSFRAAE--C 169

Query: 191 RALNPVKSIFRFDVIEMGALLQLEVEGSGFLYRQVRNMVN 230
           +A +PVK+I+   + + G L++L++ G+ FL+  VRN++ 
Sbjct: 170 QAKSPVKTIYSATLAQTGGLIRLDLHGNAFLHHMVRNIMG 209


>gi|386307621|ref|YP_006003677.1| tRNA pseudouridine synthase A [Yersinia enterocolitica subsp.
           palearctica Y11]
 gi|418240677|ref|ZP_12867214.1| tRNA pseudouridine synthase A [Yersinia enterocolitica subsp.
           palearctica PhRBD_Ye1]
 gi|433548420|ref|ZP_20504470.1| tRNA pseudouridine synthase A [Yersinia enterocolitica IP 10393]
 gi|318606505|emb|CBY28003.1| tRNA pseudouridine synthase A [Yersinia enterocolitica subsp.
           palearctica Y11]
 gi|351779884|gb|EHB21977.1| tRNA pseudouridine synthase A [Yersinia enterocolitica subsp.
           palearctica PhRBD_Ye1]
 gi|431790980|emb|CCO67510.1| tRNA pseudouridine synthase A [Yersinia enterocolitica IP 10393]
          Length = 280

 Score =  125 bits (313), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 109/206 (52%), Gaps = 6/206 (2%)

Query: 24  GFKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHA 83
           G K  L I Y+G+RY GWQ Q    ++Q  +E AL   +K+  E + ++ A RTD GVHA
Sbjct: 18  GIKIALGIEYNGSRYFGWQRQQEVASVQACLEAAL---SKVANEPIGVLCAGRTDAGVHA 74

Query: 84  WGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYN 143
            GQV HFIT        +    +N  LPPDI VR +      FHARFSA ++ Y Y I+N
Sbjct: 75  TGQVVHFITTAERKN-AAWTMGVNSHLPPDIAVRWVKTVDDGFHARFSATARRYRYIIFN 133

Query: 144 DAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFD 203
                        H    L+   M +AA+  +G+HDF++F  IQ   R   P +++    
Sbjct: 134 HRYRPAVLAQGVTHCYMPLDAEKMEQAAQCLLGEHDFTSFRAIQCQSR--TPWRNVKHVK 191

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
           V   GA + ++++ + F++  VRN+V
Sbjct: 192 VTRHGAYIVVDIKANAFVHHMVRNIV 217


>gi|313669058|ref|YP_004049342.1| tRNA pseudouridine synthase [Neisseria lactamica 020-06]
 gi|313006520|emb|CBN87984.1| tRNA pseudouridine synthase [Neisseria lactamica 020-06]
          Length = 267

 Score =  125 bits (313), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 79/220 (35%), Positives = 113/220 (51%), Gaps = 13/220 (5%)

Query: 12  NTVKPPTDDSFPGFKWRLVIGYDGTRYAGWQFQTSP-PTIQCIVEKALIRVTKLEREDLR 70
           NT  P T       +W L + YDG+R+ GWQ Q    PT+Q  +E AL ++     E + 
Sbjct: 2   NTQPPDTQ------RWALTLSYDGSRFYGWQKQAGGVPTVQTALEDALAQIAG---EAVS 52

Query: 71  LVGASRTDTGVHAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARF 130
            + A RTDTGVHA  QV HF T         I    N  LP  I V       P FHARF
Sbjct: 53  TIVAGRTDTGVHATAQVVHFDTAARRPAQAWIRGT-NAALPEGIAVLHARQTAPGFHARF 111

Query: 131 SAKSKIYHYKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRND 190
            A  + Y Y + +  V  P   + A  +  KL+   MR+AA   VG+ DFS+F   +   
Sbjct: 112 DAYGRHYRYLLESSPVRSPLLKNRAGWTHLKLDIGPMRQAAALLVGEQDFSSFRAAE--C 169

Query: 191 RALNPVKSIFRFDVIEMGALLQLEVEGSGFLYRQVRNMVN 230
           +A +PVK+I+   + + G L++L++ G+ FL+  VRN++ 
Sbjct: 170 QAKSPVKTIYSATLAQTGGLIRLDLHGNAFLHHMVRNIMG 209


>gi|401684088|ref|ZP_10815971.1| tRNA pseudouridine(38-40) synthase [Streptococcus sp. BS35b]
 gi|400186393|gb|EJO20605.1| tRNA pseudouridine(38-40) synthase [Streptococcus sp. BS35b]
          Length = 249

 Score =  125 bits (313), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 107/206 (51%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDG  +AG+Q Q    ++Q  +EK L R+ K   + + + GA RTD+GVHA G
Sbjct: 3   RYKATISYDGFAFAGFQRQPHARSVQEEIEKTLTRLNK--GQAITVHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D  E +  AL+   P DI V  I     +FH R++  SK Y + +    
Sbjct: 61  QVIHFDLPYQMDE-EKLRFALDTQSPEDIDVISIEIVADDFHCRYAKHSKTYEFIVDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFR--FD 203
             +P + HYA H  Y L+   M+ A +   G HDF+ F          + V++I      
Sbjct: 120 PKNPMRRHYATHFPYPLDVERMQMAIKKLEGTHDFTGFT--ASGTSVEDKVRTITEASLS 177

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
           V E G  L     G+GFLY+Q+RNMV
Sbjct: 178 VDETGQFLTFSFSGNGFLYKQIRNMV 203


>gi|358065580|ref|ZP_09152117.1| tRNA pseudouridine synthase A [Clostridium hathewayi WAL-18680]
 gi|356696219|gb|EHI57841.1| tRNA pseudouridine synthase A [Clostridium hathewayi WAL-18680]
          Length = 242

 Score =  125 bits (313), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 76/204 (37%), Positives = 110/204 (53%), Gaps = 11/204 (5%)

Query: 29  LVIGYDGTRYAGWQFQ-TSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +V+ YDGTRY GWQ Q  +  TIQ  +E     + K+  ED+ ++G+ RTD GVHA GQV
Sbjct: 1   MVVQYDGTRYDGWQRQGNTENTIQSKLESV---IGKMTGEDVEIIGSGRTDAGVHATGQV 57

Query: 88  A--HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           A  H  T  +    + I   +N  LP DI V ++  A   FH+R +A  K+Y Y I    
Sbjct: 58  ANVHMDTEKT---PQEIKDYVNQYLPDDIAVTQLEEAPDRFHSRLNATGKVYTYWIETAP 114

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
               FQ  Y Y    KL+   MR+AA+   G HDF +F + +   ++   V+++    + 
Sbjct: 115 KCSVFQRKYIYTLGRKLDVEAMRQAAKLLCGTHDFKSFCSNKNMKKS--TVRTVKTISIQ 172

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E G+ L++ V G GFLY  VR +V
Sbjct: 173 ERGSGLEIHVIGDGFLYNMVRILV 196


>gi|417923706|ref|ZP_12567163.1| tRNA pseudouridine synthase A [Streptococcus mitis SK569]
 gi|342836588|gb|EGU70799.1| tRNA pseudouridine synthase A [Streptococcus mitis SK569]
          Length = 249

 Score =  125 bits (313), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 73/206 (35%), Positives = 107/206 (51%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDG  +AG+Q Q    ++Q  +EK L ++ K   + + + GA RTD+GVHA G
Sbjct: 3   RYKATISYDGYAFAGFQRQPHARSVQEEIEKTLTKLNK--GQAVTVHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D  E +  AL+   P DI V  I     +FH R++  SK Y + +    
Sbjct: 61  QVIHFDLPYQMDE-EKLRFALDTQSPEDIDVISIELVADDFHCRYAKHSKTYEFVVDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFV--NIQRNDRALNPVKSIFRFD 203
             +P + HYA H  Y L+   M+ A +   G HDF+ F        D+     ++  R D
Sbjct: 120 PKNPMRRHYATHFPYPLDVERMQIAIKKLEGTHDFTGFTASGTSVEDKVRTITEASLRVD 179

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
             E G  L     G+GFLY+Q+RNMV
Sbjct: 180 --ETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|168333393|ref|ZP_02691673.1| tRNA pseudouridine synthase A [Epulopiscium sp. 'N.t. morphotype
           B']
          Length = 259

 Score =  125 bits (313), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 78/209 (37%), Positives = 110/209 (52%), Gaps = 14/209 (6%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPT----IQCIVEKALIRVTKLEREDLRLVGASRTDTGVHA 83
           + ++ Y GTRY G+  Q         IQ I  +  + + K+ ++ +R+VGA RTD GVHA
Sbjct: 10  KFIVAYKGTRYNGFARQAGDKVVGSGIQTISAELELAIEKITQQQVRIVGAGRTDAGVHA 69

Query: 84  WGQV--AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKI 141
             QV  A+  T     GL     ALN  LP DI ++ I  A   FH  FS K K+Y Y+I
Sbjct: 70  LAQVCIANIDTQIGNSGL---LLALNNKLPVDIVIKSIEDAEEGFHPTFSGKRKMYRYQI 126

Query: 142 YNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRN--DRALNPVKSI 199
            N  V  PF   + YH  +KL+   M+ AA   VG HDF AF   + N   +  + V++I
Sbjct: 127 LNTTVSCPFVAEFVYHFPHKLDVEEMKVAAXELVGTHDFRAFCAAKSNVLKKGSSTVRTI 186

Query: 200 FRFDVIEMG--ALLQLEVEGSGFLYRQVR 226
           F   V+  G   +++++V G GFLY  VR
Sbjct: 187 FDI-VVARGDDEIIKIDVTGDGFLYNMVR 214


>gi|419706260|ref|ZP_14233789.1| tRNA pseudouridine synthase A [Streptococcus salivarius PS4]
 gi|383284007|gb|EIC81942.1| tRNA pseudouridine synthase A [Streptococcus salivarius PS4]
          Length = 248

 Score =  125 bits (313), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 75/206 (36%), Positives = 109/206 (52%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDGT ++G+Q Q    +IQ  +EK L+R+       + + GA RTD GVHA+G
Sbjct: 3   RYKAIISYDGTLFSGFQRQPDARSIQEEIEKTLLRLNS--GTPVVVHGAGRTDAGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P   +  E +   L+   P DI +  I     +FHAR++  SK Y + +    
Sbjct: 61  QVIHFDLPQEREP-EKLRFGLDTQCPDDIDIVSIELVSEDFHARYNKHSKTYEFLVDAGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIF--RFD 203
             +P   +YA H  Y L+  LM+EAA+  VG HDF+ F          N V++I   R  
Sbjct: 120 PKNPMMRNYATHYPYPLSLALMQEAAKDLVGTHDFTGFT--ASGTSVENKVRTITQARVS 177

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
           + E          G+GFLY+QVRNMV
Sbjct: 178 IDEKTGFYVFTFSGNGFLYKQVRNMV 203


>gi|291614576|ref|YP_003524733.1| tRNA pseudouridine synthase A [Sideroxydans lithotrophicus ES-1]
 gi|291584688|gb|ADE12346.1| tRNA pseudouridine synthase A [Sideroxydans lithotrophicus ES-1]
          Length = 254

 Score =  125 bits (313), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 76/201 (37%), Positives = 107/201 (53%), Gaps = 6/201 (2%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L I YDG+ Y GWQ Q   P IQ  ++ AL R+     E++ ++ A RTDTGVHA  QV 
Sbjct: 5   LGIEYDGSGYNGWQSQPDVPNIQDTLQAALSRIAG---ENISIIAAGRTDTGVHALEQVV 61

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           HF T      L S     N LLP D+ V        EFHARFSA+++ Y Y + N     
Sbjct: 62  HFDTGIVRP-LASWVRGTNALLPKDVAVLWAHPVADEFHARFSAQARSYQYVLINRPSRS 120

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
              H         L+   MR AA+  +G+HDFSAF + Q   +A  PVK++ + D+++ G
Sbjct: 121 AVHHGKVGWFHLPLDVEAMRMAAQNLLGEHDFSAFRSSQ--CQAKTPVKTLAQLDIVQQG 178

Query: 209 ALLQLEVEGSGFLYRQVRNMV 229
            ++   +  + FL+  VRN+V
Sbjct: 179 DIIIFNLTANAFLHHMVRNIV 199


>gi|332532285|ref|ZP_08408166.1| tRNA pseudouridine synthase A [Pseudoalteromonas haloplanktis
           ANT/505]
 gi|332038383|gb|EGI74828.1| tRNA pseudouridine synthase A [Pseudoalteromonas haloplanktis
           ANT/505]
          Length = 264

 Score =  125 bits (313), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 72/200 (36%), Positives = 108/200 (54%), Gaps = 6/200 (3%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L + Y+G RY+GWQ Q+   ++Q  VEKAL R+       + +V A RTD GVH  GQ+ 
Sbjct: 5   LGVEYNGVRYSGWQRQSHVNSVQQEVEKALSRICN---HPVEVVCAGRTDAGVHGTGQII 61

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           HF T  S D + +    +N LLP DI +R       +FHARFSA ++ Y Y IYN     
Sbjct: 62  HFETEASRD-MVAFTMGMNTLLPKDIAIRFAQPVAVDFHARFSATARRYRYIIYNSPFRG 120

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
                   H  + L+   M+EA +Y +G HDF++F  I  + +A  P ++I    V   G
Sbjct: 121 AVLSEGVTHFHHPLDEVKMQEACQYLIGTHDFTSFRAI--HCQANTPTRTIHHLSVQRQG 178

Query: 209 ALLQLEVEGSGFLYRQVRNM 228
             + ++++ + FL+  VRN+
Sbjct: 179 CYVIIDIKANAFLHHMVRNI 198


>gi|331266815|ref|YP_004326445.1| tRNA pseudouridine synthase A [Streptococcus oralis Uo5]
 gi|326683487|emb|CBZ01105.1| tRNA pseudouridine synthase A [Streptococcus oralis Uo5]
          Length = 249

 Score =  125 bits (313), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 108/206 (52%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDG  +AG+Q Q    ++Q  +EK L R+ K   + + + GA RTD+GVHA G
Sbjct: 3   RYKAIISYDGYAFAGFQRQPHARSVQEEIEKTLTRLNK--GQAITVHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D  E +  AL+   P DI V  I     +FH R++  SK Y + +    
Sbjct: 61  QVIHFDLPYQMDE-EKLRFALDTQSPEDIDVILIEIVADDFHCRYAKHSKTYEFIVDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFR--FD 203
             +P + HYA H  Y L+   M+ A +   G HDF+ F          + V++I      
Sbjct: 120 PKNPLRRHYATHFPYPLDVERMQMAIKKLEGTHDFTGFT--ASGTSVEDKVRTITEASLS 177

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
           V E G  L     G+GFLY+Q+RNMV
Sbjct: 178 VDETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|417793117|ref|ZP_12440402.1| tRNA pseudouridine synthase A [Streptococcus oralis SK255]
 gi|334274115|gb|EGL92443.1| tRNA pseudouridine synthase A [Streptococcus oralis SK255]
          Length = 249

 Score =  125 bits (313), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 108/206 (52%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDG  +AG+Q Q    ++Q  +EK L R+ K   + + + GA RTD+GVHA G
Sbjct: 3   RYKAIISYDGYAFAGFQRQPHARSVQEEIEKTLTRLNK--GQAITVHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D  E +  AL+   P DI V  I     +FH R++  SK Y + +    
Sbjct: 61  QVIHFDLPYQMDE-EKLRFALDTQSPEDIDVILIDIVADDFHCRYAKHSKTYEFIVDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFR--FD 203
             +P + HYA H  Y L+   M+ A +   G HDF+ F          + V++I      
Sbjct: 120 PKNPMRRHYATHFPYPLDVERMQMAVKKLEGTHDFTGFT--ASGTSVEDKVRTITEASLT 177

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
           V E G  L     G+GFLY+Q+RNMV
Sbjct: 178 VDETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|416208849|ref|ZP_11621180.1| tRNA pseudouridine synthase A [Neisseria meningitidis 961-5945]
 gi|325141434|gb|EGC63912.1| tRNA pseudouridine synthase A [Neisseria meningitidis 961-5945]
          Length = 265

 Score =  125 bits (313), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 112/206 (54%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSP-PTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
           +W + + YDG+R+ GWQ Q    PT+Q  +E AL ++     E +  + A RTDTGVHA 
Sbjct: 8   RWAITLSYDGSRFYGWQKQADGVPTVQAALETALAQIAG---EAVSTIVAGRTDTGVHAT 64

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
            QV HF T  +      +   +N  LP  I V       PEFHARF A  + Y Y + + 
Sbjct: 65  AQVVHFDTAAARPQQAWVRG-VNAHLPEGIAVLHARQVAPEFHARFDAYGRHYRYLLESV 123

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
            V  P   + A  +  KL+   MR AA   +G+ DFS+F   +   +A +PVK+I+R D+
Sbjct: 124 PVRSPLLKNRAGWTHLKLDIGPMRRAAALLIGEQDFSSFRAAE--CQAKSPVKTIYRADL 181

Query: 205 IEMGALLQLEVEGSGFLYRQVRNMVN 230
            +   L++L++ G+ FL+  VRN++ 
Sbjct: 182 TQSSGLVRLDLHGNAFLHHMVRNIMG 207


>gi|416165260|ref|ZP_11607384.1| tRNA pseudouridine synthase A [Neisseria meningitidis N1568]
 gi|433474364|ref|ZP_20431717.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis 97021]
 gi|433482794|ref|ZP_20440045.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis 2006087]
 gi|433484809|ref|ZP_20442023.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis 2002038]
 gi|433487040|ref|ZP_20444227.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis 97014]
 gi|325127315|gb|EGC50250.1| tRNA pseudouridine synthase A [Neisseria meningitidis N1568]
 gi|432207245|gb|ELK63237.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis 97021]
 gi|432214114|gb|ELK70021.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis 2006087]
 gi|432219046|gb|ELK74894.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis 2002038]
 gi|432220025|gb|ELK75852.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis 97014]
          Length = 265

 Score =  125 bits (313), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 75/212 (35%), Positives = 115/212 (54%), Gaps = 7/212 (3%)

Query: 20  DSFPGFKWRLVIGYDGTRYAGWQFQTSP-PTIQCIVEKALIRVTKLEREDLRLVGASRTD 78
           D+    +W + + YDG+R+ GWQ Q    PT+Q  +E AL ++     E +    A RTD
Sbjct: 2   DTAQKQRWAITLSYDGSRFYGWQKQADGVPTVQAALETALAQIAG---EAVSTTVAGRTD 58

Query: 79  TGVHAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYH 138
           TGVHA  QV HF T  +    ++    +N  LP  I V       PEFHARF A  + Y 
Sbjct: 59  TGVHATAQVVHFDTT-AVRPQQAWVRGVNAHLPEGIAVLHARQVAPEFHARFDAYGRHYR 117

Query: 139 YKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKS 198
           Y + +  V  P   + A  +  KL+   MR+AA   +G+ DFS+F   +   +A +PVK+
Sbjct: 118 YLLESAPVRSPLLKNRAGWTHLKLDIGQMRQAAALLIGEQDFSSFRAAE--CQAKSPVKT 175

Query: 199 IFRFDVIEMGALLQLEVEGSGFLYRQVRNMVN 230
           I+R D+ +   L++L++ G+ FL+  VRN++ 
Sbjct: 176 IYRADLTQSSGLVRLDLHGNAFLHHMVRNIMG 207


>gi|323490654|ref|ZP_08095859.1| tRNA pseudouridine synthase A [Planococcus donghaensis MPA1U2]
 gi|323395746|gb|EGA88587.1| tRNA pseudouridine synthase A [Planococcus donghaensis MPA1U2]
          Length = 247

 Score =  125 bits (313), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 74/201 (36%), Positives = 106/201 (52%), Gaps = 5/201 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + +  I YDG+ +AG+Q Q    T+Q  + K L  + K   + +++V + RTD  VHA G
Sbjct: 3   RLKATIAYDGSGFAGYQVQPDSRTVQLELMKVLETIHK--GKVIQVVASGRTDAKVHATG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF T  S   +  +  ALN LLP DIRV  I      FHAR+    K Y YK     
Sbjct: 61  QVIHFDTELSIPIIGWL-KALNVLLPEDIRVHSIEEVDTSFHARYHTTGKTYRYKWDRSQ 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           ++ PF      H    L+   M++A++  VG HDFS+F     N   ++ V+++ R D  
Sbjct: 120 IISPFTRSLMVHVKQPLDVEAMKKASQAIVGTHDFSSFC--AANTAVVDKVRTVRRLDFE 177

Query: 206 EMGALLQLEVEGSGFLYRQVR 226
           E G  L + +EG+GFLY  VR
Sbjct: 178 EHGNELHMVIEGTGFLYNMVR 198


>gi|227894551|ref|ZP_04012356.1| tRNA pseudouridine synthase A [Lactobacillus ultunensis DSM 16047]
 gi|227863710|gb|EEJ71131.1| tRNA pseudouridine synthase A [Lactobacillus ultunensis DSM 16047]
          Length = 262

 Score =  125 bits (313), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 115/206 (55%), Gaps = 6/206 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++++ + YDG  + G+Q Q    T+Q  VE AL ++TK +R  + + G+ RTD GVHA G
Sbjct: 4   RYKMTMAYDGHLFHGFQLQPDQRTVQGTVEDALKKMTKGKR--VIVQGSGRTDAGVHAIG 61

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P        +  A+N ++P DI   +      +FHAR+S K K Y Y++  D 
Sbjct: 62  QVIHFDYPGKTIPANRMILAMNSMMPMDIIFNKCQIVDEDFHARYSIKGKWYRYRVSLDH 121

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV- 204
            ++PF+  Y  H  Y+LN + M+EAA   +GKHDF++F       +  + V++I+  ++ 
Sbjct: 122 FVNPFKRFYTGHFPYQLNISKMQEAARDLLGKHDFTSFA--ASGGQIEDKVRTIYYVNIE 179

Query: 205 -IEMGALLQLEVEGSGFLYRQVRNMV 229
             E    +  +  GSGFLY  VR MV
Sbjct: 180 KDEKENEVIFDFIGSGFLYNMVRIMV 205


>gi|419766473|ref|ZP_14292672.1| tRNA pseudouridine(38-40) synthase [Streptococcus mitis SK579]
 gi|383354092|gb|EID31673.1| tRNA pseudouridine(38-40) synthase [Streptococcus mitis SK579]
          Length = 249

 Score =  125 bits (313), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 108/206 (52%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDG  +AG+Q Q+   ++Q  +EK L R+ K   + + + GA RTD+GVHA G
Sbjct: 3   RYKATISYDGYAFAGFQRQSHARSVQEEIEKTLTRLNK--GQAITVHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D  E +  AL+   P DI V  I     +FH R++  SK Y + +    
Sbjct: 61  QVIHFDLPYQMDE-EKLRFALDTQSPEDIDVISIELVEDDFHCRYAKHSKTYEFIVDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFR--FD 203
             +P + HYA H  Y L+   M+ A +   G HDF+ F          + V++I      
Sbjct: 120 PKNPMRRHYATHFSYPLDVERMQIAIKKLEGTHDFTGFT--ASGTSVEDKVRTITEASLT 177

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
           V E G  L     G+GFLY+Q+RNMV
Sbjct: 178 VDETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|297618350|ref|YP_003703509.1| tRNA pseudouridine synthase A [Syntrophothermus lipocalidus DSM
           12680]
 gi|297146187|gb|ADI02944.1| tRNA pseudouridine synthase A [Syntrophothermus lipocalidus DSM
           12680]
          Length = 244

 Score =  125 bits (313), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 80/205 (39%), Positives = 109/205 (53%), Gaps = 6/205 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + + ++ Y+GTRY+G+Q Q    TI+  +E A   + KL  E ++++ A RTD GVHA G
Sbjct: 3   RIKALVEYEGTRYSGFQRQPRGLTIEGELEAA---ICKLTGERVKVLAAGRTDAGVHALG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV  F T  S    E    ALN +LP DIRV +   A   FH R+ A++K Y Y IY   
Sbjct: 60  QVIAFDTE-SPIPPERFAPALNSVLPSDIRVLKSEKAKEGFHPRYQARAKAYRYLIYRQE 118

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
               F  + AY+    L+   M +AA Y  G HDF AF       R  N V+++F   + 
Sbjct: 119 EGRTFYRNLAYYYPQPLDLPAMAKAARYMEGTHDFMAFCASGSGVR--NYVRTVFEVSIN 176

Query: 206 EMGALLQLEVEGSGFLYRQVRNMVN 230
           E    LQ++V G GFLY  VR MV 
Sbjct: 177 EKPPFLQIDVCGDGFLYNMVRIMVG 201


>gi|420259269|ref|ZP_14761980.1| tRNA pseudouridine synthase A [Yersinia enterocolitica subsp.
           enterocolitica WA-314]
 gi|404513203|gb|EKA27027.1| tRNA pseudouridine synthase A [Yersinia enterocolitica subsp.
           enterocolitica WA-314]
          Length = 280

 Score =  125 bits (313), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 109/206 (52%), Gaps = 6/206 (2%)

Query: 24  GFKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHA 83
           G K  L I Y+G+RY GWQ Q    ++Q  +E AL   +K+  E + ++ A RTD GVHA
Sbjct: 18  GIKIALGIEYNGSRYFGWQRQQEVASVQACLEAAL---SKVANEPIGVLCAGRTDAGVHA 74

Query: 84  WGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYN 143
            GQV HFIT        +    +N  LPPDI VR +      FHARFSA ++ Y Y I+N
Sbjct: 75  TGQVVHFITTAERKD-AAWTMGVNSHLPPDIAVRWVKTVDDGFHARFSATARRYRYIIFN 133

Query: 144 DAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFD 203
                        H    L+   M +AA+  +G+HDF++F  IQ   R   P +++    
Sbjct: 134 HRYRPAVLAQGVTHCYMPLDAEKMEQAAQCLLGEHDFTSFRAIQCQSR--TPWRNVKHVK 191

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
           V   GA + ++++ + F++  VRN+V
Sbjct: 192 VTRHGAYIVVDIKANAFVHHMVRNIV 217


>gi|293364991|ref|ZP_06611708.1| tRNA pseudouridine synthase A [Streptococcus oralis ATCC 35037]
 gi|307703239|ref|ZP_07640185.1| tRNA pseudouridine synthase A [Streptococcus oralis ATCC 35037]
 gi|291316441|gb|EFE56877.1| tRNA pseudouridine synthase A [Streptococcus oralis ATCC 35037]
 gi|307623314|gb|EFO02305.1| tRNA pseudouridine synthase A [Streptococcus oralis ATCC 35037]
          Length = 249

 Score =  125 bits (313), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 107/206 (51%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDG  +AG+Q Q    ++Q  +EK L R+ K   + + + GA RTD+GVHA  
Sbjct: 3   RYKATISYDGFAFAGFQRQPHARSVQEEIEKTLTRLNK--GQAIAVHGAGRTDSGVHALE 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D  E +  AL+   P DI V  I     +FH R++  SK Y + +    
Sbjct: 61  QVIHFDLPYQMDE-EKLRFALDTQSPEDIDVISIEIVADDFHCRYAKHSKTYEFIVDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFR--FD 203
             +P + HYA H  Y L+   M+EA +   G HDF+ F          + V++I      
Sbjct: 120 PKNPMRRHYATHFPYPLDVERMQEAVKKLEGTHDFTGFT--ASGTSVEDKVRTITEASLS 177

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
           V E G  L     G+GFLY+Q+RNMV
Sbjct: 178 VDETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|427407117|ref|ZP_18897322.1| tRNA pseudouridine synthase A [Selenomonas sp. F0473]
 gi|425707592|gb|EKU70636.1| tRNA pseudouridine synthase A [Selenomonas sp. F0473]
          Length = 266

 Score =  125 bits (313), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 82/209 (39%), Positives = 115/209 (55%), Gaps = 18/209 (8%)

Query: 29  LVIGYDGTRYAGWQFQTSPP--TIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           L + YDGT Y G+Q Q SPP   +Q ++E AL +V     E + +  A RTD GVHA+GQ
Sbjct: 18  LRVAYDGTNYRGFQRQ-SPPVVAVQNVLEVALAQVCG---EPVEIAAAGRTDAGVHAYGQ 73

Query: 87  VAHFITPFSYDG---LESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYN 143
           V +F T    DG      +  A+NGLLPPDI V E   A  +F AR +A  K Y Y+I  
Sbjct: 74  VVNFFT----DGRIPAARLPRAVNGLLPPDIAVTEAWEAARDFSARHAATGKAYLYRIER 129

Query: 144 DAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSI--FR 201
            AV +PF   YA+     L+   MR A    VG HD+S+F       + ++PV+++   R
Sbjct: 130 CAVPNPFTRSYAWQIFRPLDVEAMRTALALLVGTHDYSSFRAA--GGKPMSPVRTLDEIR 187

Query: 202 FDVIEMGALLQLEVEGSGFLYRQVRNMVN 230
            +  E+   L   + G+GFLY  VRN+++
Sbjct: 188 LEA-EVDGRLTCYIHGNGFLYHMVRNIMS 215


>gi|208779289|ref|ZP_03246635.1| tRNA pseudouridine synthase A [Francisella novicida FTG]
 gi|208745089|gb|EDZ91387.1| tRNA pseudouridine synthase A [Francisella novicida FTG]
          Length = 258

 Score =  125 bits (313), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 70/204 (34%), Positives = 117/204 (57%), Gaps = 12/204 (5%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L I Y G  Y GWQ Q+  P++Q  +EKAL   +K+  +++ +  A RTDTGVHA  Q+ 
Sbjct: 6   LQIEYFGKNYCGWQRQSHSPSVQEELEKAL---SKIANQNIEVTCAGRTDTGVHATSQIV 62

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +F +  +   L +    +N LLP DI++  +     +F++RF+A ++ Y+Y IYN A   
Sbjct: 63  NFYSD-AERPLSAWQRGVNALLPQDIKILAVQQVDNDFNSRFTAINRTYNYIIYNSATSS 121

Query: 149 PFQHHYAYHSVYK---LNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           P    +A H +++   L+   M +A EY +G+ DFS+F + Q       P ++I + + I
Sbjct: 122 PI---FAEHCLWENRELDIYKMNQACEYLLGEQDFSSFRSSQCQSNT--PFRNIQKAEFI 176

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           + G+ +  EV G+ FL+  +RN+V
Sbjct: 177 KQGSFIVFEVVGNAFLHHMIRNLV 200


>gi|452204787|ref|YP_007484916.1| pseudouridylate synthase [Dehalococcoides mccartyi BTF08]
 gi|452111843|gb|AGG07574.1| pseudouridylate synthase [Dehalococcoides mccartyi BTF08]
          Length = 246

 Score =  125 bits (313), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 81/207 (39%), Positives = 107/207 (51%), Gaps = 15/207 (7%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           +VI Y+GTRY+G+Q Q    TIQ  +E A   + KL  E  R+ G+ RTD GVHA  QV 
Sbjct: 1   MVIEYEGTRYSGFQIQDKGATIQGELETA---IRKLTSEQTRVSGSGRTDAGVHAAYQVV 57

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
            ++T  S  GLE I   LN  LPPDI V+E+      F  R  A S+ Y Y I N     
Sbjct: 58  SYLTESSL-GLEKIKGGLNYYLPPDIAVKEVHFVAENFDVRRRAISREYSYHILNSKTRS 116

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVN-----IQRNDRALNPVKSIFRFD 203
           P     A+   YKL+  LM +A +   G+HDF AF +     I++  R +N      R D
Sbjct: 117 PLARLQAWQVPYKLDIKLMEQAFKMLEGEHDFIAFASSLGPEIKKTVRRVNWT----RLD 172

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMVN 230
           + E    L L +E + FL  QVRN + 
Sbjct: 173 IAE--DRLILRIEANSFLTHQVRNTIG 197


>gi|373106481|ref|ZP_09520783.1| tRNA pseudouridine synthase A [Stomatobaculum longum]
 gi|371652175|gb|EHO17593.1| tRNA pseudouridine synthase A [Stomatobaculum longum]
          Length = 357

 Score =  125 bits (313), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 80/208 (38%), Positives = 106/208 (50%), Gaps = 13/208 (6%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + RL++ YDGT Y G Q Q    T++  + +A   V  L R   +L+ ASRTDTGVHA G
Sbjct: 3   RIRLIVSYDGTAYFGSQMQPEAVTVEQKLTEA---VQGLTRAPAQLILASRTDTGVHALG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
            VA F T F     E    ALN  LPPDIR++        +H R     K Y Y+I+N  
Sbjct: 60  NVAVFDTEFPMSA-ERFATALNAYLPPDIRIQAADEVALNWHPRKQHCEKTYEYRIWNGR 118

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           +M+P   + A H    LN   MR A    +G+HDF AF        A + V+ IFR ++ 
Sbjct: 119 IMNPLLRNSAAHCYVPLNLAAMRAALPSLLGEHDFVAFC--ASGSAASHTVRRIFRAELT 176

Query: 206 ----EMGA---LLQLEVEGSGFLYRQVR 226
               E G+   L+   + GSGFLY  VR
Sbjct: 177 AECEESGSFAGLITFRITGSGFLYHMVR 204


>gi|336422209|ref|ZP_08602361.1| tRNA pseudouridine synthase A [Lachnospiraceae bacterium 5_1_57FAA]
 gi|336009119|gb|EGN39117.1| tRNA pseudouridine synthase A [Lachnospiraceae bacterium 5_1_57FAA]
          Length = 244

 Score =  125 bits (313), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 75/201 (37%), Positives = 108/201 (53%), Gaps = 8/201 (3%)

Query: 27  WRLVIGYDGTRYAGWQFQ-TSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++L I YDG+RY GWQ Q T+  TIQ ++E +   + KL    + + G+ RTD GVHA G
Sbjct: 4   YKLTIAYDGSRYQGWQRQATTDNTIQFVLEWS---IGKLVGYRVHVDGSGRTDAGVHARG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA       YD  E +  +LN  LP DIR+ ++      FHAR SAK K Y Y I    
Sbjct: 61  QVASVKLSKLYDTKE-LKDSLNRYLPEDIRIVKVELVKNGFHARKSAKGKKYEYYIDCRE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             D F   Y YH   KL+   MR A +Y +G  +F++F +   +    +P++ I    ++
Sbjct: 120 KPDVFSRRYCYHYPEKLDIEAMRGAVQYLIGPKNFTSFTD---DKECKDPIRRIINIKIV 176

Query: 206 EMGALLQLEVEGSGFLYRQVR 226
             G  +++   G+GFLY  VR
Sbjct: 177 STGEKVRITYYGTGFLYHMVR 197


>gi|161506903|ref|YP_001576857.1| tRNA pseudouridine synthase A [Lactobacillus helveticus DPC 4571]
 gi|260102386|ref|ZP_05752623.1| tRNA pseudouridine synthase A [Lactobacillus helveticus DSM 20075]
 gi|172048171|sp|A8YTB0.1|TRUA_LACH4 RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|160347892|gb|ABX26566.1| tRNA pseudouridine synthase A [Lactobacillus helveticus DPC 4571]
 gi|260083830|gb|EEW67950.1| tRNA pseudouridine synthase A [Lactobacillus helveticus DSM 20075]
          Length = 263

 Score =  124 bits (312), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 112/206 (54%), Gaps = 6/206 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++++ + YDG  + G+Q Q    T+Q  VE AL ++TK +R  + + G+ RTD GVHA G
Sbjct: 4   RYKMTMAYDGHLFHGFQLQPDQRTVQGTVEDALKKMTKGKR--IIVQGSGRTDAGVHAIG 61

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P        +  ALN ++P DI           FHAR+S K K Y Y++  D 
Sbjct: 62  QVIHFDYPGKTIPANRMILALNSMMPTDIIFNNCEIVNENFHARYSIKGKWYRYRVSLDH 121

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
            ++PF+  Y  H  Y L+   M+EAA+  +GKHDF++F       +  + V++I+  ++ 
Sbjct: 122 FVNPFKRFYTGHFSYALDVGKMQEAAKDLLGKHDFTSFA--ASGGQIEDKVRTIYYVNIA 179

Query: 206 --EMGALLQLEVEGSGFLYRQVRNMV 229
             E    +  +  GSGFLY  VR MV
Sbjct: 180 KDEKENEIVFDFIGSGFLYNMVRIMV 205


>gi|406671714|ref|ZP_11078953.1| tRNA pseudouridine synthase A [Facklamia hominis CCUG 36813]
 gi|405580964|gb|EKB55023.1| tRNA pseudouridine synthase A [Facklamia hominis CCUG 36813]
          Length = 263

 Score =  124 bits (312), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 73/208 (35%), Positives = 120/208 (57%), Gaps = 8/208 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGAS--RTDTGVHA 83
           ++ + + YDGTRY G+Q Q + P+IQ  +E AL+++TK ++ D ++  +   RTD+GVHA
Sbjct: 3   RYVIKLQYDGTRYVGYQVQPNGPSIQGALEAALLKITK-QKSDQKIATSCSGRTDSGVHA 61

Query: 84  WGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYN 143
            GQV HF        + +I  ALN LL  DIRV   +    +FHAR+    K Y Y+I  
Sbjct: 62  LGQVVHFDLELDLPPV-AILNALNALLDKDIRVVAANKVSDQFHARYQVLGKGYRYRIDT 120

Query: 144 DAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFD 203
             V++PF+  Y  H  Y  + T +++A E  +G HDF++F + + +    +  +++++ +
Sbjct: 121 GKVLNPFKRFYTTHHPYSYSLTSIQKALEPLLGWHDFTSFCSTKTDKE--DKRRTLYKAE 178

Query: 204 VIE--MGALLQLEVEGSGFLYRQVRNMV 229
           V E   G  L  +  G+GFLY  +R +V
Sbjct: 179 VREDNEGQELIFDFYGNGFLYNMIRIIV 206


>gi|418289198|ref|ZP_12901567.1| tRNA pseudouridine synthase A [Neisseria meningitidis NM233]
 gi|421541297|ref|ZP_15987423.1| tRNA pseudouridine synthase A [Neisseria meningitidis 93004]
 gi|372200114|gb|EHP14244.1| tRNA pseudouridine synthase A [Neisseria meningitidis NM233]
 gi|402314820|gb|EJU50388.1| tRNA pseudouridine synthase A [Neisseria meningitidis 93004]
          Length = 265

 Score =  124 bits (312), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 111/206 (53%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSP-PTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
           +W + + YDG+R+ GWQ Q    PT+Q  +E AL ++     E +    A RTDTGVHA 
Sbjct: 8   RWAITLSYDGSRFYGWQKQADGVPTVQAALETALAQIAG---EAVSTTVAGRTDTGVHAT 64

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
            QV HF T  +      +   +N  LP  I V       PEFHARF A  + Y Y + + 
Sbjct: 65  AQVVHFDTTAARPQQAWVRG-VNAHLPEGIAVLHARQVAPEFHARFDAYGRHYRYLLESA 123

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
            V  P   + A  +  KL+   MR AA   +G+ DFS+F   +   +A +PVK+I+R D+
Sbjct: 124 PVRSPLLKNRAGWTHLKLDIGPMRRAAALLIGEQDFSSFRAAE--CQAKSPVKTIYRADL 181

Query: 205 IEMGALLQLEVEGSGFLYRQVRNMVN 230
            +   L++L++ G+ FL+  VRN++ 
Sbjct: 182 TQSAGLVRLDLHGNAFLHHMVRNIMG 207


>gi|147669126|ref|YP_001213944.1| tRNA pseudouridine synthase A [Dehalococcoides sp. BAV1]
 gi|146270074|gb|ABQ17066.1| tRNA pseudouridine synthase A [Dehalococcoides sp. BAV1]
          Length = 246

 Score =  124 bits (312), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 81/207 (39%), Positives = 107/207 (51%), Gaps = 15/207 (7%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           +VI Y+GTRY+G+Q Q    TIQ  +E A   + KL  E  R+ G+ RTD GVHA  QV 
Sbjct: 1   MVIEYEGTRYSGFQIQDKGATIQGELETA---IRKLTSEQTRVSGSGRTDAGVHAAYQVV 57

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
            ++T  S  GLE I   LN  LPPDI V+E+      F  R  A S+ Y Y I N     
Sbjct: 58  SYLTESSL-GLEKIKGGLNYYLPPDIAVKEVHFVAENFDVRRRAISREYSYHILNSKTRS 116

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVN-----IQRNDRALNPVKSIFRFD 203
           P     A+   YKL+  LM +A +   G+HDF AF +     I++  R +N      R D
Sbjct: 117 PLARLQAWQVPYKLDIKLMEQAFKMLEGEHDFIAFASGLGPEIKKTVRRVNWT----RLD 172

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMVN 230
           + E    L L +E + FL  QVRN + 
Sbjct: 173 IAE--DRLILRIEANSFLTHQVRNTIG 197


>gi|391228875|ref|ZP_10265081.1| pseudouridylate synthase I [Opitutaceae bacterium TAV1]
 gi|391218536|gb|EIP96956.1| pseudouridylate synthase I [Opitutaceae bacterium TAV1]
          Length = 291

 Score =  124 bits (312), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 76/214 (35%), Positives = 113/214 (52%), Gaps = 11/214 (5%)

Query: 23  PGFKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVH 82
           P  +W+  + YDGT ++GWQ Q     IQ  +E+   R+  +    +R+ G+ RTD GVH
Sbjct: 17  PLRRWKCTVAYDGTGFSGWQSQPDGNAIQDHLER---RLALILGAPVRIHGSGRTDAGVH 73

Query: 83  AWGQVAHFITPFSYDGLESIHAALNG-----LLPPDIRVREISAAVPEFHARFSAKSKIY 137
           A  QV HF   + + G + + AA         LP  I+V +   A P FHARFSA  K Y
Sbjct: 74  ARAQVFHFDAIWGH-GPQKLVAAFRAGSGADRLPEGIQVTDTQVAPPTFHARFSATGKRY 132

Query: 138 HYKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVK 197
            Y+I+N    DPF   Y +    +L+   M++AAE  VG+HDF AF      +R  + V+
Sbjct: 133 TYEIFNGGFADPFTQAYCWSVPRELDRAAMQDAAERLVGRHDFRAFSASGGEERE-STVR 191

Query: 198 SIFRFDVIEMG-ALLQLEVEGSGFLYRQVRNMVN 230
            +   +V E G   L++  +  GFLY+ VR++  
Sbjct: 192 ELRVLEVKERGHRRLRITAQADGFLYKMVRSLAG 225


>gi|83645231|ref|YP_433666.1| tRNA pseudouridine synthase A [Hahella chejuensis KCTC 2396]
 gi|83633274|gb|ABC29241.1| tRNA pseudouridine synthase A [Hahella chejuensis KCTC 2396]
          Length = 283

 Score =  124 bits (312), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 78/226 (34%), Positives = 121/226 (53%), Gaps = 18/226 (7%)

Query: 10  TNNTVKPPTDDSFPGF-KWRLVIGYDGTRYAGWQFQTSP-PTIQCIVEKALIRVTKLERE 67
           +N ++ P ++D  P   +  LV+GYDG+RY GWQ Q S  P++Q  VE AL +V      
Sbjct: 6   SNQSLYPLSNDLLPDTGRVALVLGYDGSRYHGWQAQNSGVPSVQAEVESALAKVAD---H 62

Query: 68  DLRLVGASRTDTGVHAWGQVAHFIT-----PFSYDGLESIHAALNGLLPPDIRVREISAA 122
            + +V A RTD GVHA  QV HF T     P+S+         +N  LP D+ V    A 
Sbjct: 63  PVSVVCAGRTDAGVHAVNQVVHFETKALRSPYSWA------MGVNHFLPADVSVSWAGAV 116

Query: 123 VPEFHARFSAKSKIYHYKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSA 182
             +FHAR++A S+ Y Y IYN  +   + ++    +   L+   M  A  + +G++DFSA
Sbjct: 117 PEDFHARYTATSRSYRYVIYNHPIRPAWLNNSVTWNYRPLDVESMSAAGAHLIGENDFSA 176

Query: 183 FVNIQRNDRALNPVKSIFRFDVIEMGALLQLEVEGSGFLYRQVRNM 228
           F       ++  P +++ R +V   G ++ +EVE + FL+  VRN+
Sbjct: 177 FRGSDCQSKS--PFRNLTRLEVSRFGDMVVIEVEANAFLHHMVRNI 220


>gi|163857158|ref|YP_001631456.1| tRNA pseudouridine synthase A [Bordetella petrii DSM 12804]
 gi|229557953|sp|A9IRL0.1|TRUA_BORPD RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|163260886|emb|CAP43188.1| pseudouridylate synthase I [Bordetella petrii]
          Length = 268

 Score =  124 bits (312), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 75/202 (37%), Positives = 105/202 (51%), Gaps = 4/202 (1%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L + YDG+ + GWQ Q    T+Q  +E AL R   ++   L  V A RTDTGVHA  QV 
Sbjct: 6   LGLAYDGSSWQGWQTQPHRQTVQDTLEAALARFAGID-GSLPTVCAGRTDTGVHAAMQVV 64

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           H  T       ES    +N  LPP I V+       +FHARFSA+S+ Y Y ++   V  
Sbjct: 65  HLDTRLERRA-ESWVRGVNAFLPPSIAVQWAQPVPDDFHARFSARSRTYLYLLWRGRVRP 123

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
           P     A      L+   MR+AA   +G+HDFS+F + Q   R  +PV+++ R D+ E G
Sbjct: 124 PLWAGRAGWCFQPLDVQAMRQAASALLGEHDFSSFRSSQCQAR--HPVRTLHRLDIDERG 181

Query: 209 ALLQLEVEGSGFLYRQVRNMVN 230
             L   +  + FL+  VRN++ 
Sbjct: 182 PFLVFTLRANAFLHHMVRNLMG 203


>gi|374310261|ref|YP_005056691.1| tRNA pseudouridine synthase A [Granulicella mallensis MP5ACTX8]
 gi|358752271|gb|AEU35661.1| tRNA pseudouridine synthase A [Granulicella mallensis MP5ACTX8]
          Length = 271

 Score =  124 bits (312), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 80/226 (35%), Positives = 113/226 (50%), Gaps = 26/226 (11%)

Query: 27  WRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           W+L + YDGT + GWQ Q   PT+Q  +  AL  VT    E +   G+ RTD+GVHA  Q
Sbjct: 4   WKLTLSYDGTLFHGWQVQPELPTVQGSLALALKYVTG---ESVLPQGSGRTDSGVHALAQ 60

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIY---- 142
           V  F    S     ++  ALN  LPP IR+         FHAR SA+ K Y Y+I+    
Sbjct: 61  VTSFALETSIPP-ANLQRALNRALPPSIRILTAELVDESFHARHSARRKTYEYRIFERRT 119

Query: 143 ----NDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAF--------VNIQRND 190
               ++ +  PF   YA+   ++L    M+EA++Y  G HDF++F        +  + +D
Sbjct: 120 AASPSERICSPFLAPYAWDCRWQLAIEPMQEASKYLCGTHDFTSFAASDPERGLREEESD 179

Query: 191 RA------LNPVKSIFRFDVIEMGALLQLEVEGSGFLYRQVRNMVN 230
            A       NPVK++ +        LL   V GSGFL+  VRN+V 
Sbjct: 180 DANGKAHGPNPVKTLLQAGWAHEDGLLVYRVTGSGFLHHMVRNIVG 225


>gi|152984048|ref|YP_001347395.1| tRNA pseudouridine synthase A [Pseudomonas aeruginosa PA7]
 gi|452881429|ref|ZP_21958189.1| tRNA pseudouridine synthase A [Pseudomonas aeruginosa VRFPA01]
 gi|150959206|gb|ABR81231.1| tRNA pseudouridine synthase A [Pseudomonas aeruginosa PA7]
 gi|452182352|gb|EME09370.1| tRNA pseudouridine synthase A [Pseudomonas aeruginosa VRFPA01]
          Length = 285

 Score =  124 bits (312), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 81/221 (36%), Positives = 118/221 (53%), Gaps = 9/221 (4%)

Query: 11  NNTVKPPTDDSFPGFKWRLVIG--YDGTRYAGWQFQTSP-PTIQCIVEKALIRVTKLERE 67
           N+ V P   +S      R+ +G  Y G+RY GWQ Q +  P++Q  +E+AL   +K+  E
Sbjct: 2   NDVVSPAAAESAAAGVSRIALGVEYKGSRYRGWQRQEAGVPSVQEALERAL---SKVAAE 58

Query: 68  DLRLVGASRTDTGVHAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFH 127
            + ++ A RTD  VHA GQV HF T      L++     N  LP DI V         FH
Sbjct: 59  SVGVICAGRTDAAVHASGQVVHFDTAVERP-LKAWVMGTNANLPGDISVTWARVMPAHFH 117

Query: 128 ARFSAKSKIYHYKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQ 187
           ARFSA ++ Y Y IYND +           +   L+   MREAA+  VG HDF++F  +Q
Sbjct: 118 ARFSAMARRYRYAIYNDPIRPAHMAEEVTWNHRPLDIERMREAAQVLVGTHDFTSFRAVQ 177

Query: 188 RNDRALNPVKSIFRFDVIEMGALLQLEVEGSGFLYRQVRNM 228
              R  +PVK++    ++E G L+ L++ G+ FL+  VRN+
Sbjct: 178 CQAR--SPVKTMHHVRLLEHGRLIVLDIRGNAFLHHMVRNI 216


>gi|55820220|ref|YP_138662.1| tRNA pseudouridine synthase A [Streptococcus thermophilus LMG
           18311]
 gi|55822111|ref|YP_140552.1| tRNA pseudouridine synthase A [Streptococcus thermophilus CNRZ1066]
 gi|418027764|ref|ZP_12666374.1| tRNA pseudouridine(38-40) synthase [Streptococcus thermophilus CNCM
           I-1630]
 gi|445370957|ref|ZP_21425933.1| tRNA pseudouridine synthase A [Streptococcus thermophilus MTCC
           5460]
 gi|445386165|ref|ZP_21427647.1| tRNA pseudouridine synthase A [Streptococcus thermophilus MTCC
           5461]
 gi|62901189|sp|Q5M1T6.1|TRUA_STRT1 RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|62901193|sp|Q5M6C9.1|TRUA_STRT2 RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|55736205|gb|AAV59847.1| tRNA pseudouridine synthase A (pseudouridylate synthase I)
           [Streptococcus thermophilus LMG 18311]
 gi|55738096|gb|AAV61737.1| tRNA pseudouridine synthase A (pseudouridylate synthase I)
           [Streptococcus thermophilus CNRZ1066]
 gi|354689766|gb|EHE89740.1| tRNA pseudouridine(38-40) synthase [Streptococcus thermophilus CNCM
           I-1630]
 gi|444751495|gb|ELW76232.1| tRNA pseudouridine synthase A [Streptococcus thermophilus MTCC
           5461]
 gi|444751563|gb|ELW76289.1| tRNA pseudouridine synthase A [Streptococcus thermophilus MTCC
           5460]
          Length = 248

 Score =  124 bits (312), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 77/206 (37%), Positives = 107/206 (51%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDGT ++G+Q Q +  +IQ  +EK L+R+       + + GA RTD GVHA+G
Sbjct: 3   RYKATISYDGTLFSGFQRQPNARSIQEEIEKTLLRLNS--GTPVTVHGAGRTDAGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P   D  E +   L+   P DI +  I     EFHAR+S   K Y + +    
Sbjct: 61  QVIHFDLPQERDP-EKLRFGLDTQCPDDIDIVSIELVSEEFHARYSKHIKTYEFLVDAGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +P   +YA H  Y L+  LM+EAA   VG HDF+ F          N V++I +  V 
Sbjct: 120 PKNPMMRNYAIHYPYPLSLALMQEAAMELVGTHDFTGFT--ASGTSVENKVRTITQASVS 177

Query: 206 --EMGALLQLEVEGSGFLYRQVRNMV 229
             E          G+GFLY+QVRNMV
Sbjct: 178 IDEKTGFYVFAFSGNGFLYKQVRNMV 203


>gi|400291243|ref|ZP_10793269.1| tRNA pseudouridine synthase A [Streptococcus ratti FA-1 = DSM
           20564]
 gi|399920390|gb|EJN93208.1| tRNA pseudouridine synthase A [Streptococcus ratti FA-1 = DSM
           20564]
          Length = 249

 Score =  124 bits (312), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 76/206 (36%), Positives = 108/206 (52%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDGT ++G+Q QT+  T+Q  +EK L R+       +++ GA RTD GVHA+G
Sbjct: 3   RYKAIISYDGTDFSGFQRQTNARTVQEEIEKTLFRLNSGTF--VKIHGAGRTDAGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF      D LE +   L+   P DI V  +      FHAR+   SK Y + +    
Sbjct: 61  QVIHFDLDEERD-LERLRFGLDTQTPDDIDVIRVDKVSENFHARYCKHSKTYEFLVDLGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +P   HYA H  Y ++ T +  A +   G HDF+ F          N +++I R DV 
Sbjct: 120 PKNPLMRHYATHFPYVVDVTAIEAAIKKLRGTHDFTGFT--ASGTSVDNKIRTISRADVA 177

Query: 206 EMGA--LLQLEVEGSGFLYRQVRNMV 229
             G   LL     G+GFLY+QVRNMV
Sbjct: 178 FDGENQLLIFTFTGNGFLYKQVRNMV 203


>gi|254854197|ref|ZP_05243545.1| tRNA pseudouridine synthase A [Listeria monocytogenes FSL R2-503]
 gi|300763651|ref|ZP_07073649.1| tRNA pseudouridine synthase A [Listeria monocytogenes FSL N1-017]
 gi|404282163|ref|YP_006683061.1| tRNA pseudouridine synthase A [Listeria monocytogenes SLCC2755]
 gi|404287977|ref|YP_006694563.1| tRNA pseudouridine synthase A [Listeria monocytogenes serotype 7
           str. SLCC2482]
 gi|258607589|gb|EEW20197.1| tRNA pseudouridine synthase A [Listeria monocytogenes FSL R2-503]
 gi|300515928|gb|EFK42977.1| tRNA pseudouridine synthase A [Listeria monocytogenes FSL N1-017]
 gi|404228798|emb|CBY50203.1| tRNA pseudouridine synthase A [Listeria monocytogenes SLCC2755]
 gi|404246906|emb|CBY05131.1| tRNA pseudouridine synthase A [Listeria monocytogenes serotype 7
           str. SLCC2482]
          Length = 248

 Score =  124 bits (312), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 69/202 (34%), Positives = 113/202 (55%), Gaps = 6/202 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDG+ + G+Q Q +  T+Q  +EKAL ++ K   + +R+  + RTDTGVHA G
Sbjct: 3   RYKAIISYDGSGFYGYQVQPNTRTVQAEIEKALTKMHK--GKTVRITASGRTDTGVHAKG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF +       E    AL  + P DI    +     +FHARF    K Y Y +    
Sbjct: 61  QVIHFDSELDITA-EKFQKALQAMTPFDISFLTVEEVPDDFHARFGTVGKEYRYVVKRTK 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           + DPF  ++A H  Y+L+ + M+ A++  +G+HDF++F +  R +R  + V++++  D  
Sbjct: 120 IFDPFSRNFALHYPYELDISKMKLASKRLIGEHDFTSFCS-ARTERD-SKVRTLYSIDFY 177

Query: 206 EM-GALLQLEVEGSGFLYRQVR 226
           E     L +  +G+GFLY  VR
Sbjct: 178 EEDDETLVIAFQGNGFLYNMVR 199


>gi|417694487|ref|ZP_12343674.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA47901]
 gi|332201036|gb|EGJ15107.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA47901]
          Length = 249

 Score =  124 bits (312), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 108/206 (52%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDG  +AG+Q Q    ++Q  +EK L R+ K   + + + GA RTD+GVHA G
Sbjct: 3   RYKATISYDGYAFAGFQRQPHARSVQEEIEKTLTRLNK--GQAITVHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D  E +  AL+   P DI V  I     +FH R++  SK Y + +    
Sbjct: 61  QVIHFDLPYQMDE-EKLRFALDTQSPEDIDVISIELVADDFHCRYAKHSKTYEFILDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +P + HYA H  Y L+   M+ A +   G HDF+ F          + V++I    +I
Sbjct: 120 PKNPMRRHYATHFPYPLDVERMQIAIKKLEGTHDFTGFT--ASGTSVEDKVRTITEASLI 177

Query: 206 --EMGALLQLEVEGSGFLYRQVRNMV 229
             E G  L     G+GFLY+Q+RNMV
Sbjct: 178 VDETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|240143728|ref|ZP_04742329.1| tRNA pseudouridine synthase A [Roseburia intestinalis L1-82]
 gi|257204287|gb|EEV02572.1| tRNA pseudouridine synthase A [Roseburia intestinalis L1-82]
 gi|291537295|emb|CBL10407.1| pseudouridylate synthase I [Roseburia intestinalis M50/1]
 gi|291539242|emb|CBL12353.1| pseudouridylate synthase I [Roseburia intestinalis XB6B4]
          Length = 251

 Score =  124 bits (312), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 70/200 (35%), Positives = 108/200 (54%), Gaps = 6/200 (3%)

Query: 27  WRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           +++++ YDGTRY GWQ   +  TIQ  ++  L   +K+    + + G+ RTD GVHA GQ
Sbjct: 4   YKMILQYDGTRYRGWQVLPAELTIQGKLQDVL---SKMAGYQVEVTGSGRTDAGVHAKGQ 60

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
            A+F     +D  + I   LN  LP DI V E+      FH+R+ A  K Y Y+I+   +
Sbjct: 61  TANFHLREEWDE-DKILFYLNQYLPEDIAVCEVKRVDERFHSRYQAVEKTYLYRIHTGKI 119

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
            + F+  Y Y     L+   MR+AAEY  G HDF +F   ++  ++   V++I R  + E
Sbjct: 120 PEVFERRYVYDYTEPLDVNRMRKAAEYLCGTHDFKSFCGNKKMKKS--TVRTISRIQIKE 177

Query: 207 MGALLQLEVEGSGFLYRQVR 226
           +   +Q+   G+GFL   VR
Sbjct: 178 LPGEIQIYYTGNGFLQNMVR 197


>gi|359788022|ref|ZP_09291006.1| tRNA pseudouridine synthase A [Mesorhizobium alhagi CCNWXJ12-2]
 gi|359256227|gb|EHK59099.1| tRNA pseudouridine synthase A [Mesorhizobium alhagi CCNWXJ12-2]
          Length = 250

 Score =  124 bits (312), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 75/208 (36%), Positives = 115/208 (55%), Gaps = 9/208 (4%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++RL I YDG+ YAGWQ Q  P ++Q  +E+A   +     +++ L GA RTD GVHA G
Sbjct: 3   RYRLDIEYDGSTYAGWQRQDGPHSVQAAIEQA---IKSFCGDEIALRGAGRTDAGVHATG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVP---EFHARFSAKSKIYHYKIY 142
           QVAH      +   +++  A+N  L        + AA P   +F ARFSA  + Y Y+I 
Sbjct: 60  QVAHADLTKEWPA-DTVRDAINAHLQMAGEAVAVLAAKPVPDDFDARFSATGRQYLYRII 118

Query: 143 NDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRF 202
           N       + + A+    +L+   M+EAA   VG+HDF+ F ++Q   +A +PV+++ R 
Sbjct: 119 NRRAPAALEKNRAWWVPKQLDVEAMQEAALMLVGRHDFTTFRSVQ--CQASSPVRTLERL 176

Query: 203 DVIEMGALLQLEVEGSGFLYRQVRNMVN 230
           DV   G L+++      FL+ QVR+MV 
Sbjct: 177 DVRRSGELIEIHAAARSFLHNQVRSMVG 204


>gi|320530646|ref|ZP_08031695.1| tRNA pseudouridine synthase A [Selenomonas artemidis F0399]
 gi|402303395|ref|ZP_10822490.1| tRNA pseudouridine(38-40) synthase [Selenomonas sp. FOBRC9]
 gi|320137097|gb|EFW29030.1| tRNA pseudouridine synthase A [Selenomonas artemidis F0399]
 gi|400378639|gb|EJP31491.1| tRNA pseudouridine(38-40) synthase [Selenomonas sp. FOBRC9]
          Length = 258

 Score =  124 bits (312), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 82/208 (39%), Positives = 113/208 (54%), Gaps = 16/208 (7%)

Query: 29  LVIGYDGTRYAGWQFQTSPP-TIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           L + YDGTRY G+Q Q+ P   +Q ++EK L  V     E + L  A RTDTGVHA+GQV
Sbjct: 10  LRLSYDGTRYHGFQRQSLPVVAVQNVLEKVLAEVCG---EPVELAAAGRTDTGVHAYGQV 66

Query: 88  AHFITPFSYDG---LESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
            +F T    DG   +  +  A+NGLLPPDI V     A  +F AR S+  K Y Y+I   
Sbjct: 67  VNFFT----DGRIPVAQLPRAVNGLLPPDIAVMAAWEAGRDFSARHSSTGKAYLYRIERC 122

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSI--FRF 202
            V +PF  +YA+     L+   MR      VG HD+S+F         ++PV+++   R 
Sbjct: 123 TVPNPFTRNYAWQIFRPLDVAAMRTVLRLLVGTHDYSSFRAA--GGAPMSPVRTLDEIRL 180

Query: 203 DVIEMGALLQLEVEGSGFLYRQVRNMVN 230
           D  E G  L   + G+GFLY  VRN+++
Sbjct: 181 DE-EEGGQLSCYMHGNGFLYHMVRNIMS 207


>gi|156502494|ref|YP_001428559.1| tRNA pseudouridine synthase A [Francisella tularensis subsp.
           holarctica FTNF002-00]
 gi|290953826|ref|ZP_06558447.1| tRNA pseudouridine synthase A [Francisella tularensis subsp.
           holarctica URFT1]
 gi|423050756|ref|YP_007009190.1| tRNA pseudouridine synthase A [Francisella tularensis subsp.
           holarctica F92]
 gi|166228698|sp|A7NCA0.1|TRUA_FRATF RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|156253097|gb|ABU61603.1| tRNA pseudouridine synthase A [Francisella tularensis subsp.
           holarctica FTNF002-00]
 gi|421951478|gb|AFX70727.1| tRNA pseudouridine synthase A [Francisella tularensis subsp.
           holarctica F92]
          Length = 258

 Score =  124 bits (312), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 70/204 (34%), Positives = 116/204 (56%), Gaps = 12/204 (5%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L I Y G  Y GWQ Q+   ++Q  +EKAL   +K+  +++ +  A RTDTGVHA  Q+ 
Sbjct: 6   LQIEYFGKNYCGWQRQSHSLSVQEELEKAL---SKIANQNIEVTCAGRTDTGVHATSQIV 62

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +F +  +Y  L +    +N LLP DI++  +      F++RF+A ++ Y+Y IYN A   
Sbjct: 63  NFYSN-AYRPLSAWQRGVNALLPQDIKILAVQQVNNNFNSRFTAINRTYNYIIYNSATSS 121

Query: 149 PFQHHYAYHSVYK---LNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           P    +A H +++   L+   M +A EY +G+ DFS+F + Q       P ++I + + I
Sbjct: 122 PI---FAEHCLWENRELDIDKMNQACEYLLGEQDFSSFRSSQCQSNT--PFRNIQKAEFI 176

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           + G+ +  EV G+ FL+  +RN+V
Sbjct: 177 KQGSFIVFEVVGNAFLHHMIRNLV 200


>gi|160903290|ref|YP_001568871.1| tRNA pseudouridine synthase ACD [Petrotoga mobilis SJ95]
 gi|189030138|sp|A9BGW7.1|TRUA_PETMO RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|160360934|gb|ABX32548.1| tRNA pseudouridine synthase A [Petrotoga mobilis SJ95]
          Length = 245

 Score =  124 bits (312), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 78/207 (37%), Positives = 113/207 (54%), Gaps = 8/207 (3%)

Query: 25  FKW-RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHA 83
            KW    + YDG+ + G+Q Q +  T+Q   EKAL  + K E   +      RTDTGVHA
Sbjct: 1   MKWVAATVMYDGSNFYGYQSQPTFRTVQDEFEKALKVIFKKE---IPSYACGRTDTGVHA 57

Query: 84  WGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYN 143
            GQV  F         ++I  ALN +LP D+ V+E+      F+ R  AK +IYHY IY 
Sbjct: 58  VGQVISFKVENENMTEKNIKDALNAILPEDVYVKEVKEVKEGFNPRAEAKKRIYHYFIYI 117

Query: 144 DAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFD 203
               + F     +   + LN   MR+AA+YF G+HDF++F   +  +   NP+++I+R  
Sbjct: 118 SEDPNIFLRDRVWWIPFALNLEKMRQAAKYFEGEHDFTSF---KTGNDERNPIRTIYRVR 174

Query: 204 VIEMGA-LLQLEVEGSGFLYRQVRNMV 229
           +IE+   L+ + VEG  FL R VRN+V
Sbjct: 175 IIELRKDLILIRVEGKSFLKRMVRNIV 201


>gi|134301921|ref|YP_001121890.1| tRNA pseudouridine synthase A [Francisella tularensis subsp.
           tularensis WY96-3418]
 gi|421751727|ref|ZP_16188766.1| tRNA pseudouridine synthase A [Francisella tularensis subsp.
           tularensis AS_713]
 gi|421753582|ref|ZP_16190573.1| tRNA pseudouridine synthase A [Francisella tularensis subsp.
           tularensis 831]
 gi|421757308|ref|ZP_16194190.1| tRNA pseudouridine synthase A [Francisella tularensis subsp.
           tularensis 80700103]
 gi|421759167|ref|ZP_16196001.1| tRNA pseudouridine synthase A [Francisella tularensis subsp.
           tularensis 70102010]
 gi|424674486|ref|ZP_18111404.1| tRNA pseudouridine synthase A [Francisella tularensis subsp.
           tularensis 70001275]
 gi|166228700|sp|A4IXW8.1|TRUA_FRATW RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|134049698|gb|ABO46769.1| tRNA pseudouridine synthase A [Francisella tularensis subsp.
           tularensis WY96-3418]
 gi|409086848|gb|EKM86961.1| tRNA pseudouridine synthase A [Francisella tularensis subsp.
           tularensis 831]
 gi|409087064|gb|EKM87174.1| tRNA pseudouridine synthase A [Francisella tularensis subsp.
           tularensis AS_713]
 gi|409091231|gb|EKM91234.1| tRNA pseudouridine synthase A [Francisella tularensis subsp.
           tularensis 70102010]
 gi|409092763|gb|EKM92730.1| tRNA pseudouridine synthase A [Francisella tularensis subsp.
           tularensis 80700103]
 gi|417434964|gb|EKT89896.1| tRNA pseudouridine synthase A [Francisella tularensis subsp.
           tularensis 70001275]
          Length = 258

 Score =  124 bits (312), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 70/204 (34%), Positives = 116/204 (56%), Gaps = 12/204 (5%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L I Y G  Y GWQ Q+  P++Q  +EKAL   +K+  +++ +  A RTDTGVHA  Q+ 
Sbjct: 6   LQIEYFGKNYCGWQRQSHSPSVQESLEKAL---SKIANQNIEVTCAGRTDTGVHATSQIV 62

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +F +  +   L +    +N LLP DI++  +      F++RF+A ++ Y+Y IYN A   
Sbjct: 63  NFYSN-ADRPLSAWQRGVNALLPQDIKILAVQQVDNNFNSRFTAINRTYNYIIYNSATSS 121

Query: 149 PFQHHYAYHSVYK---LNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           P    +A H +++   L+   M +A EY +G+ DFS+F + Q       P ++I + + I
Sbjct: 122 PI---FAEHCLWENRELDIDKMNQACEYLLGEQDFSSFRSSQCQSNT--PFRNIQKAEFI 176

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           + G+ +  EV G+ FL+  +RN+V
Sbjct: 177 KQGSFIVFEVVGNAFLHHMIRNLV 200


>gi|58336660|ref|YP_193245.1| tRNA pseudouridine synthase A [Lactobacillus acidophilus NCFM]
 gi|227903218|ref|ZP_04021023.1| tRNA pseudouridine synthase A [Lactobacillus acidophilus ATCC 4796]
 gi|62901152|sp|Q5FM60.1|TRUA_LACAC RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|58253977|gb|AAV42214.1| tRNA pseudouridine synthase A [Lactobacillus acidophilus NCFM]
 gi|227869023|gb|EEJ76444.1| tRNA pseudouridine synthase A [Lactobacillus acidophilus ATCC 4796]
          Length = 262

 Score =  124 bits (312), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 114/206 (55%), Gaps = 6/206 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++++ + YDG  + G+Q Q    T+Q  VE AL ++TK +R  + + G+ RTD GVHA G
Sbjct: 4   RYKMTMAYDGHLFHGFQLQPDQRTVQGTVEDALKKMTKGKR--IIVQGSGRTDAGVHAIG 61

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P        +  ALN ++P DI   +      +FHAR+S K K Y Y++  D 
Sbjct: 62  QVIHFDYPGKEIPANRMILALNSMMPTDIVFTDCQIVDEDFHARYSIKGKWYRYRLSLDY 121

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
            ++PF+  Y  H  Y+L+   MR AA+  +GKHDF++F       +  + V++I+  ++ 
Sbjct: 122 FVNPFKRFYTGHFPYQLDLEKMRIAAQDLLGKHDFTSFA--ASGGQIKDKVRTIYYINIT 179

Query: 206 --EMGALLQLEVEGSGFLYRQVRNMV 229
             E    +  +  GSGFLY  VR MV
Sbjct: 180 KDEKENEIVFDFIGSGFLYNMVRIMV 205


>gi|418967721|ref|ZP_13519369.1| tRNA pseudouridine synthase A [Streptococcus mitis SK616]
 gi|383342796|gb|EID21000.1| tRNA pseudouridine synthase A [Streptococcus mitis SK616]
          Length = 261

 Score =  124 bits (312), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 73/206 (35%), Positives = 107/206 (51%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDG  +AG+Q Q    ++Q  +EK L ++ K   + + + GA RTD+GVHA G
Sbjct: 15  RYKATISYDGYAFAGFQRQPHARSVQEEIEKNLTKLNK--GQAVTVHGAGRTDSGVHALG 72

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D  E +  AL+   P DI V  I     +FH R++  SK Y + +    
Sbjct: 73  QVIHFDLPYQMDE-EKLRFALDTQSPEDIDVISIELVADDFHCRYAKHSKTYEFVVDRGR 131

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFV--NIQRNDRALNPVKSIFRFD 203
             +P + HYA H  Y L+   M+ A +   G HDF+ F        D+     ++  R D
Sbjct: 132 PKNPMRRHYATHFPYPLDVERMQIAIKKLEGTHDFTGFTASGTSVEDKVRTITEASLRVD 191

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
             E G  L     G+GFLY+Q+RNMV
Sbjct: 192 --ETGQFLTFTFSGNGFLYKQIRNMV 215


>gi|322374222|ref|ZP_08048755.1| tRNA pseudouridine synthase A [Streptococcus sp. C150]
 gi|321276927|gb|EFX53999.1| tRNA pseudouridine synthase A [Streptococcus sp. C150]
          Length = 248

 Score =  124 bits (312), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 75/206 (36%), Positives = 108/206 (52%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDGT ++G+Q Q    +IQ  +EK L+R+       + + GA RTD GVHA+G
Sbjct: 3   RYKAIISYDGTLFSGFQRQPDARSIQEEIEKTLLRLNS--GTPVVVHGAGRTDAGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P   D  E +   L+   P DI +  I     +FHAR++  SK Y + +    
Sbjct: 61  QVIHFDLPQERDP-EKLRFGLDTQCPDDIDIVSIELVSEDFHARYNKHSKTYEFLVDAGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIF--RFD 203
             +P   +YA H  Y L+   M+EAA+  VG HDF+ F          N V++I   R  
Sbjct: 120 PKNPMMRNYATHYPYPLSLAPMQEAAKDLVGTHDFTGFT--ASGTSVENKVRTITQARVS 177

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
           + E          G+GFLY+QVRNMV
Sbjct: 178 IDEKTGFYVFTFSGNGFLYKQVRNMV 203


>gi|374709914|ref|ZP_09714348.1| tRNA pseudouridine synthase A [Sporolactobacillus inulinus CASD]
          Length = 246

 Score =  124 bits (312), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 76/202 (37%), Positives = 105/202 (51%), Gaps = 6/202 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           K +  + YDG+++ G+Q Q    T+Q  ++ AL R+       +++V + RTD GVHA+G
Sbjct: 3   KIKCTVAYDGSQFHGYQVQPQKRTVQREIQNALARMH--HGSTIKIVASGRTDAGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF +P     LE    ALN LLP DI VR   A    FHAR+  K K Y Y++    
Sbjct: 61  QVFHFESPLKIP-LERWPRALNSLLPGDIYVRHAEAVPETFHARYDVKQKEYRYRLLTRP 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             D F+  Y  H    L+   M +AAE  +G HDFS F     N    + V+++F   V 
Sbjct: 120 EPDLFRRAYTAHVAQPLDLEAMNQAAEAIIGTHDFSCFCAA--NTDVKDKVRTVFHLSVS 177

Query: 206 -EMGALLQLEVEGSGFLYRQVR 226
            E      + V GSGFLY+ VR
Sbjct: 178 REKDDETVIRVVGSGFLYQMVR 199


>gi|228470580|ref|ZP_04055437.1| tRNA pseudouridine synthase A [Porphyromonas uenonis 60-3]
 gi|228307707|gb|EEK16683.1| tRNA pseudouridine synthase A [Porphyromonas uenonis 60-3]
          Length = 262

 Score =  124 bits (312), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 72/205 (35%), Positives = 106/205 (51%), Gaps = 8/205 (3%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L + YDGT Y GWQ Q    ++Q  +E+AL   + L R+ + + GA RTD GVHA+  +A
Sbjct: 10  LEVAYDGTNYCGWQVQPRGVSVQSELERAL---SMLFRQPISVTGAGRTDAGVHAYSMMA 66

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           H   P  +  L  I   L G+L   I VR ++  +P  HARF A S+ YHY  Y  A  +
Sbjct: 67  HADLPIPHPPLAQIQRGLCGILRGGISVRSVTPVIPTAHARFDATSRRYHY--YISACSN 124

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
           PF   Y +      +  LM EA  +F+G+HDF++F  +    +          ++ +EM 
Sbjct: 125 PFWGDYCWERRTLPDMELMNEACRHFIGEHDFTSFSKLHTQTKHNRCTVYTAHWEQVEMP 184

Query: 209 AL---LQLEVEGSGFLYRQVRNMVN 230
            L   ++ EV  + FL+  VR MV 
Sbjct: 185 GLWDAMRYEVCANRFLHGMVRTMVG 209


>gi|377809963|ref|YP_005005184.1| tRNA pseudouridine synthase A [Pediococcus claussenii ATCC BAA-344]
 gi|361056704|gb|AEV95508.1| tRNA pseudouridine synthase A [Pediococcus claussenii ATCC BAA-344]
          Length = 248

 Score =  124 bits (312), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 69/209 (33%), Positives = 117/209 (55%), Gaps = 9/209 (4%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
            ++++ I YDGT +AG+Q Q +  T++ ++ K + ++ K   + +++ G+ RTD GVHA 
Sbjct: 1   MRYKVTIAYDGTDFAGFQMQPNERTVEGVLTKIVNKIAKNPGKRIQIFGSGRTDAGVHAL 60

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           GQV HF      +    +HA LN ++P D+ V+++     +FHARF+   K Y Y++   
Sbjct: 61  GQVVHFDMNTQMNEDNMLHA-LNSMMPLDMSVKKVEIVSEDFHARFTTHGKRYMYRLSLG 119

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFV----NIQRNDRALNPVKSIF 200
             +DPF+  Y  H  + ++  L++ A +   G HDFS+FV     ++ N R +   ++  
Sbjct: 120 EFVDPFKRRYTGHWKFPIDIKLIKAAIKDLEGTHDFSSFVAAGSTVKSNVRTI--YEASV 177

Query: 201 RFDVIEMGALLQLEVEGSGFLYRQVRNMV 229
           RFD  +    +  E  G+GFLY  VR MV
Sbjct: 178 RFD--DATQEIVFEFYGNGFLYNMVRIMV 204


>gi|421078729|ref|ZP_15539679.1| tRNA pseudouridine synthase A [Pelosinus fermentans JBW45]
 gi|392523205|gb|EIW46381.1| tRNA pseudouridine synthase A [Pelosinus fermentans JBW45]
          Length = 244

 Score =  124 bits (312), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 76/201 (37%), Positives = 111/201 (55%), Gaps = 6/201 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L + YDGT Y G+Q Q +   IQ ++E  L ++        R+  A RTD+GVHA+GQV
Sbjct: 5   KLTLAYDGTAYHGFQRQINAIGIQQVLEDKLAKIVG---HTFRIHMAGRTDSGVHAYGQV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            +F T  S   ++ I  A   LLP DI V +       F A++SA+SKIY YKIY   V 
Sbjct: 62  VNFKTT-STIPVDRIAIASRSLLPYDIVVLDAEEVPDNFDAQYSAQSKIYVYKIYQHTVP 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
           +PF  +  +     LN + M EAA+  +G HDFSAF        +++P+++I   +    
Sbjct: 121 NPFLRNLVWTIPQTLNVSAMEEAAQTIIGTHDFSAFR--ASGGASVSPIRTIMAVECQLQ 178

Query: 208 GALLQLEVEGSGFLYRQVRNM 228
             +L+L   G+GFLY  VRN+
Sbjct: 179 DRILELSFWGNGFLYHMVRNI 199


>gi|118497491|ref|YP_898541.1| tRNA pseudouridine synthase A [Francisella novicida U112]
 gi|195536184|ref|ZP_03079191.1| tRNA pseudouridine synthase A [Francisella novicida FTE]
 gi|254372827|ref|ZP_04988316.1| tRNA pseudouridine synthase A [Francisella tularensis subsp.
           novicida GA99-3549]
 gi|166228699|sp|A0Q6C2.1|TRUA_FRATN RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|118423397|gb|ABK89787.1| tRNA pseudouridine synthase A [Francisella novicida U112]
 gi|151570554|gb|EDN36208.1| tRNA pseudouridine synthase A [Francisella novicida GA99-3549]
 gi|194372661|gb|EDX27372.1| tRNA pseudouridine synthase A [Francisella tularensis subsp.
           novicida FTE]
          Length = 258

 Score =  124 bits (312), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 70/204 (34%), Positives = 116/204 (56%), Gaps = 12/204 (5%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L I Y G  Y GWQ Q+  P++Q  +EKAL   +K+  +++ +  A RTDTGVHA  Q+ 
Sbjct: 6   LQIEYFGRNYCGWQRQSHSPSVQEELEKAL---SKIANQNIEVTCAGRTDTGVHATSQIV 62

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +F +  +   L +    +N LLP DI++  +      F++RF+A ++ Y+Y IYN A   
Sbjct: 63  NFYSD-AERPLSAWQRGVNALLPQDIKILAVQQVDNNFNSRFTAINRTYNYIIYNSATSS 121

Query: 149 PFQHHYAYHSVYK---LNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           P    +A H +++   L+   M +A EY +G+ DFS+F + Q       P ++I + + I
Sbjct: 122 PI---FAEHCLWENRELDIDKMNQACEYLLGEQDFSSFRSSQCQSNT--PFRNIQKAEFI 176

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           + G+ +  EV G+ FL+  +RN+V
Sbjct: 177 KQGSFIVFEVVGNAFLHHMIRNLV 200


>gi|357636391|ref|ZP_09134266.1| tRNA pseudouridine synthase A [Streptococcus macacae NCTC 11558]
 gi|357584845|gb|EHJ52048.1| tRNA pseudouridine synthase A [Streptococcus macacae NCTC 11558]
          Length = 249

 Score =  124 bits (311), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 72/206 (34%), Positives = 112/206 (54%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ ++ YDG+ ++G+Q Q    T+Q  +EK L+R+     +++++ GA RTD GVHA+G
Sbjct: 3   RYKAIVSYDGSNFSGFQKQVQVRTVQEEIEKTLLRLNS--GKEVKIHGAGRTDAGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P   D LE +   L+     DI V ++     +FHAR+   SK Y + +    
Sbjct: 61  QVIHFDLPQERD-LEKLRFGLDTQTAEDIDVIKVEQVADDFHARYQKHSKTYEFLVDLGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +P   HYA H  Y ++ + +  A E   G HDF+ F     +    N V++I R DV 
Sbjct: 120 PKNPLMRHYATHFPYPIDFSAIEAAIEKLQGTHDFTGFTAAGAS--VENKVRTISRADVE 177

Query: 206 EMGAL--LQLEVEGSGFLYRQVRNMV 229
           +   +  L     G+GFLY+QVRNMV
Sbjct: 178 KDDKIGFLIFTFTGNGFLYKQVRNMV 203


>gi|337755424|ref|YP_004647935.1| tRNA pseudouridine synthase A [Francisella sp. TX077308]
 gi|336447029|gb|AEI36335.1| tRNA pseudouridine synthase A [Francisella sp. TX077308]
          Length = 258

 Score =  124 bits (311), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 71/204 (34%), Positives = 116/204 (56%), Gaps = 12/204 (5%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L I Y G  Y GWQ Q+  P+IQ  +EKAL   +K+  +++ +  A RTDTGVHA  QV 
Sbjct: 6   LQIEYFGKNYCGWQRQSHSPSIQEELEKAL---SKIANQNIEVTCAGRTDTGVHATSQVV 62

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +F +    + L S     N LLP  I++ +I     +F++RF+A ++ Y+Y IYN A+  
Sbjct: 63  NFHSDADRN-LSSWMRGTNALLPQGIKILDIKEVDNDFNSRFTATNRTYNYIIYNSAISS 121

Query: 149 PFQHHYAYHSVY---KLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           P    +A H ++   +LN   M +A +Y +G+ DF++F + Q       P ++I + + I
Sbjct: 122 PI---FAEHCLWENRQLNIDKMNQACKYLLGEQDFTSFRSSQCQSNT--PFRNIQKAEFI 176

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           + G+ +  EV G+ FL+  +RN +
Sbjct: 177 KQGSFIVFEVVGNAFLHHMIRNFI 200


>gi|422410882|ref|ZP_16487843.1| tRNA pseudouridine synthase A [Listeria monocytogenes FSL F2-208]
 gi|313606591|gb|EFR83384.1| tRNA pseudouridine synthase A [Listeria monocytogenes FSL F2-208]
          Length = 248

 Score =  124 bits (311), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 70/202 (34%), Positives = 113/202 (55%), Gaps = 6/202 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDG+ + G+Q Q +  T+Q  +EKAL ++ K   + +R+  + RTDTGVHA G
Sbjct: 3   RYKAIITYDGSGFYGYQVQPNTRTVQAEIEKALTKMHK--GKTVRITASGRTDTGVHAKG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF +       E    AL  + P DI    +     +FHARF    K Y Y +    
Sbjct: 61  QVIHFDSDLDITA-EKFQKALQVMTPFDISFLTVEEVPDDFHARFGTVGKEYRYVVKRTK 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           + DPF  ++A H  Y+L+ + M+ A++  +GKHDF++F +  R +R  + V++++  D  
Sbjct: 120 IFDPFSRNFALHYPYELDISKMKLASKRLIGKHDFTSFCS-ARTERD-SKVRTLYSIDFY 177

Query: 206 EM-GALLQLEVEGSGFLYRQVR 226
           E     L +  +G+GFLY  VR
Sbjct: 178 EEDDETLVIAFQGNGFLYNMVR 199


>gi|59802129|ref|YP_208841.1| tRNA pseudouridine synthase A [Neisseria gonorrhoeae FA 1090]
 gi|62901142|sp|Q5F5V8.1|TRUA_NEIG1 RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|59719024|gb|AAW90429.1| putative tRNA pseudouridine synthase [Neisseria gonorrhoeae FA
           1090]
          Length = 265

 Score =  124 bits (311), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 75/206 (36%), Positives = 108/206 (52%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSP-PTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
           +W + + YDG+R+ GWQ Q    PT+Q  +E AL R+     E +    A RTDTGVHA 
Sbjct: 8   RWAITLSYDGSRFYGWQKQAGGVPTVQAALETALARIAG---ESVATTVAGRTDTGVHAT 64

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
            QV HF T         I   +N  LP  I V       P FHARF A  + Y Y + + 
Sbjct: 65  AQVVHFDTAAVRPAQAWIRG-VNAHLPEGIAVLHARQVAPGFHARFDASGRHYRYLLESA 123

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
            V  P   + A  +  +L+   MR AA   VG+ DFS+F       +A +PVK+I+R D+
Sbjct: 124 PVRSPLLKNRAGWTHLELDIGPMRRAAALLVGEQDFSSFRAA--GCQAKSPVKTIYRADL 181

Query: 205 IEMGALLQLEVEGSGFLYRQVRNMVN 230
            +   L++L++ G+ FL+  VRN++ 
Sbjct: 182 TQSAGLVRLDLHGNAFLHHMVRNIMG 207


>gi|425057402|ref|ZP_18460821.1| tRNA pseudouridine synthase A [Enterococcus faecium 504]
 gi|403040550|gb|EJY51621.1| tRNA pseudouridine synthase A [Enterococcus faecium 504]
          Length = 246

 Score =  124 bits (311), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 69/200 (34%), Positives = 110/200 (55%), Gaps = 7/200 (3%)

Query: 28  RLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           +L I YDG RY+GWQ       TIQ  +EK L ++T    E++ ++G+ RTD G HA GQ
Sbjct: 5   KLTIEYDGKRYSGWQRLGDDDKTIQGKIEKVLHQMTN---EEIEIIGSGRTDAGTHARGQ 61

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           VA+F T     GL  +   +N  LP DI ++ I      FH+R++A  K Y Y ++N+ +
Sbjct: 62  VANFKTNTEI-GLAEMIDFMNRYLPRDIVIKRIEEMPERFHSRYNAVGKKYSYYVWNNVI 120

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
              F+ +Y+++   +L+   +  A E  VG HDF  F  ++++ ++   V++I    +  
Sbjct: 121 PSAFERNYSFYFPQELDMDKLNAACEKLVGTHDFIGFSALKKSKKS--TVRTIDELSIER 178

Query: 207 MGALLQLEVEGSGFLYRQVR 226
            G +L     G GFLY+ VR
Sbjct: 179 KGEMLHFTFVGDGFLYKMVR 198


>gi|123441645|ref|YP_001005630.1| tRNA pseudouridine synthase A [Yersinia enterocolitica subsp.
           enterocolitica 8081]
 gi|122088606|emb|CAL11401.1| tRNA pseudouridine synthase A [Yersinia enterocolitica subsp.
           enterocolitica 8081]
          Length = 280

 Score =  124 bits (311), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 109/206 (52%), Gaps = 6/206 (2%)

Query: 24  GFKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHA 83
           G K  L I Y+G+RY GWQ Q    ++Q  +E AL   +K+  E + ++ A RTD GVHA
Sbjct: 18  GIKIALGIEYNGSRYFGWQRQQEVASVQACLEAAL---SKVANEPIGVLCAGRTDAGVHA 74

Query: 84  WGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYN 143
            GQV HFIT        +    +N  LPPDI VR +      FHARFSA ++ Y Y I+N
Sbjct: 75  TGQVVHFITTAERKD-AAWTMGVNSHLPPDIAVRWVKTVDDGFHARFSATARRYRYIIFN 133

Query: 144 DAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFD 203
                        H    L+   M +AA+  +G+HDF++F  IQ   R   P +++    
Sbjct: 134 HRYRPAVLAQGVTHCYMPLDAEKMAQAAQCLLGEHDFTSFRAIQCQSR--TPWRNVKHVK 191

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
           V   GA + ++++ + F++  VRN+V
Sbjct: 192 VTRHGAYIVVDIKANAFVHHMVRNIV 217


>gi|254374311|ref|ZP_04989793.1| tRNA pseudouridine synthase A [Francisella novicida GA99-3548]
 gi|151572031|gb|EDN37685.1| tRNA pseudouridine synthase A [Francisella novicida GA99-3548]
          Length = 258

 Score =  124 bits (311), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 70/204 (34%), Positives = 116/204 (56%), Gaps = 12/204 (5%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L I Y G  Y GWQ Q+  P++Q  +EKAL   +K+  +++ +  A RTDTGVHA  Q+ 
Sbjct: 6   LQIEYFGKNYCGWQRQSHSPSVQEELEKAL---SKIANQNIEVTCAGRTDTGVHATSQIV 62

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +F +  +   L +    +N LLP DI++  +      F++RF+A ++ Y+Y IYN A   
Sbjct: 63  NFYSN-ADRPLSAWQRGVNALLPKDIKILAVQQVDNNFNSRFTAINRTYNYIIYNSATSS 121

Query: 149 PFQHHYAYHSVYK---LNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           P    +A H +++   L+   M +A EY +G+ DFS+F + Q       P ++I + + I
Sbjct: 122 PI---FAEHCLWENRELDIDKMNQACEYLLGEQDFSSFRSSQCQSNT--PFRNIQKAEFI 176

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           + G+ +  EV G+ FL+  +RN+V
Sbjct: 177 KQGSFIVFEVVGNAFLHHMIRNLV 200


>gi|385792860|ref|YP_005825836.1| hypothetical protein [Francisella cf. novicida Fx1]
 gi|332678185|gb|AEE87314.1| tRNA pseudouridine synthase A [Francisella cf. novicida Fx1]
          Length = 258

 Score =  124 bits (311), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 70/204 (34%), Positives = 116/204 (56%), Gaps = 12/204 (5%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L I Y G  Y GWQ Q+  P++Q  +EKAL   +K+  +++ +  A RTDTGVHA  Q+ 
Sbjct: 6   LQIEYFGKNYCGWQRQSHSPSVQEELEKAL---SKIANQNIEVTCAGRTDTGVHATSQII 62

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +F +  +   L +    +N LLP DI++  +      F++RF+A ++ Y+Y IYN A   
Sbjct: 63  NFYSD-AERPLSAWQRGVNALLPQDIKILAVQQVDNNFNSRFTAINRTYNYIIYNSATSS 121

Query: 149 PFQHHYAYHSVYK---LNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           P    +A H +++   L+   M +A EY +G+ DFS+F + Q       P ++I + + I
Sbjct: 122 PI---FAEHCLWENRELDIDKMNQACEYLLGEQDFSSFRSSQCQSNT--PFRNIQKAEFI 176

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           + G+ +  EV G+ FL+  +RN+V
Sbjct: 177 KQGSFIVFEVVGNAFLHHMIRNLV 200


>gi|403514344|ref|YP_006655164.1| tRNA pseudouridine synthase A [Lactobacillus helveticus R0052]
 gi|403079782|gb|AFR21360.1| tRNA pseudouridine synthase A [Lactobacillus helveticus R0052]
          Length = 262

 Score =  124 bits (311), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 112/206 (54%), Gaps = 6/206 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++++ + YDG  + G+Q Q    T+Q  VE AL ++TK +R  + + G+ RTD GVHA G
Sbjct: 4   RYKMTMAYDGHLFHGFQLQPDQRTVQGTVEDALKKMTKGKR--IIVQGSGRTDAGVHAIG 61

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P        +  ALN ++P DI           FHAR+S K K Y Y++  D 
Sbjct: 62  QVIHFDYPGKTIPANRMILALNSMMPTDIIFNNCEIVNENFHARYSIKGKWYRYRVSLDH 121

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
            ++PF+  Y  H  Y L+   M+EAA+  +GKHDF++F       +  + V++I+  ++ 
Sbjct: 122 FVNPFKRFYTGHFSYALDVGKMQEAAKDLLGKHDFTSFA--ASGGQIEDKVRTIYYVNIA 179

Query: 206 --EMGALLQLEVEGSGFLYRQVRNMV 229
             E    +  +  GSGFLY  VR MV
Sbjct: 180 KDEKENEIVFDFIGSGFLYNMVRIMV 205


>gi|336430072|ref|ZP_08610028.1| tRNA pseudouridine synthase A [Lachnospiraceae bacterium
           3_1_57FAA_CT1]
 gi|336001243|gb|EGN31388.1| tRNA pseudouridine synthase A [Lachnospiraceae bacterium
           3_1_57FAA_CT1]
          Length = 256

 Score =  124 bits (311), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 74/211 (35%), Positives = 111/211 (52%), Gaps = 17/211 (8%)

Query: 27  WRLVIGYDGTRYAGWQFQ----------TSPP-TIQCIVEKALIRVTKLEREDLRLVGAS 75
           +++V+ Y+GTRY GWQ Q           SP  TIQ  +E+ L R+     + + + G+ 
Sbjct: 4   FKIVLQYEGTRYKGWQKQGKGEGDSSSSASPENTIQGKLERLLSRIAG---KPVEIQGSG 60

Query: 76  RTDTGVHAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSK 135
           RTD GVHA+GQVA+F    + D  E++   +N  LP DI V  +      FH+R +AKSK
Sbjct: 61  RTDAGVHAYGQVANFHMD-TDDTSEALMEKINSYLPEDIGVISVEEVPERFHSRLNAKSK 119

Query: 136 IYHYKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNP 195
            Y Y++ N AV   F+  Y Y     L+   MR AA    G HDF AF + ++  ++   
Sbjct: 120 TYRYRVLNSAVPHIFERRYVYQVPEHLDMEAMRRAAILLTGSHDFKAFTSAKKGKKS--T 177

Query: 196 VKSIFRFDVIEMGALLQLEVEGSGFLYRQVR 226
           V+++    +  +G  +     G+GFLY  VR
Sbjct: 178 VRTVDSIQIDRVGEEIHFTFSGNGFLYHMVR 208


>gi|381165806|ref|ZP_09875033.1| tRNA pseudouridine synthase A (tRNA-uridine isomerase I) (tRNA
           pseudouridylate synthase I) [Phaeospirillum molischianum
           DSM 120]
 gi|380685296|emb|CCG39845.1| tRNA pseudouridine synthase A (tRNA-uridine isomerase I) (tRNA
           pseudouridylate synthase I) [Phaeospirillum molischianum
           DSM 120]
          Length = 263

 Score =  124 bits (311), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 77/206 (37%), Positives = 108/206 (52%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++RL++ YDG+ Y GWQ Q    ++Q  +E A     KL  E++ L  A RTD GVHA G
Sbjct: 3   RYRLLVEYDGSSYNGWQRQDHGTSVQGAIEAA---AAKLCGEEVTLYAAGRTDAGVHATG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPE-FHARFSAKSKIYHYKIYND 144
           QVAH   P SY G E++  A+N  L P+      +    + FHARFSA  + Y Y+I N 
Sbjct: 60  QVAHLDLPRSYSG-ETVRDAINFHLKPNAIAILAAEEAEDGFHARFSAIGRSYLYRILNR 118

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
                   H  +     L+   M EAA   +G HDF++F       +A +P K++ R DV
Sbjct: 119 RSAPALDRHRVWWVAASLDAERMAEAATRLLGHHDFTSFR--AGCCQAKSPNKTLDRLDV 176

Query: 205 IEMGALLQLEVEGSGFLYRQVRNMVN 230
             +G  + +  E   FL+ QVRNMV 
Sbjct: 177 TRIGDEIHIVAEARSFLHHQVRNMVG 202


>gi|56708110|ref|YP_170006.1| tRNA pseudouridine synthase A [Francisella tularensis subsp.
           tularensis SCHU S4]
 gi|110670581|ref|YP_667138.1| tRNA pseudouridine synthase A [Francisella tularensis subsp.
           tularensis FSC198]
 gi|254370594|ref|ZP_04986599.1| tRNA pseudouridine synthase A [Francisella tularensis subsp.
           tularensis FSC033]
 gi|254874909|ref|ZP_05247619.1| tRNA pseudouridine synthase A [Francisella tularensis subsp.
           tularensis MA00-2987]
 gi|379717351|ref|YP_005305687.1| tRNA pseudouridine synthase A( ) [Francisella tularensis subsp.
           tularensis TIGB03]
 gi|379725955|ref|YP_005318141.1| tRNA pseudouridine synthase A [Francisella tularensis subsp.
           tularensis TI0902]
 gi|385794775|ref|YP_005831181.1| tRNA pseudouridine synthase A [Francisella tularensis subsp.
           tularensis NE061598]
 gi|421755656|ref|ZP_16192598.1| tRNA pseudouridine synthase A [Francisella tularensis subsp.
           tularensis 80700075]
 gi|62901197|sp|Q5NG36.1|TRUA_FRATT RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|123169371|sp|Q14HI8.1|TRUA_FRAT1 RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|56604602|emb|CAG45654.1| tRNA pseudouridine synthase A [Francisella tularensis subsp.
           tularensis SCHU S4]
 gi|110320914|emb|CAL09037.1| tRNA pseudouridine synthase A [Francisella tularensis subsp.
           tularensis FSC198]
 gi|151568837|gb|EDN34491.1| tRNA pseudouridine synthase A [Francisella tularensis subsp.
           tularensis FSC033]
 gi|254840908|gb|EET19344.1| tRNA pseudouridine synthase A [Francisella tularensis subsp.
           tularensis MA00-2987]
 gi|282159310|gb|ADA78701.1| tRNA pseudouridine synthase A [Francisella tularensis subsp.
           tularensis NE061598]
 gi|377827404|gb|AFB80652.1| tRNA pseudouridine synthase A( ) [Francisella tularensis subsp.
           tularensis TI0902]
 gi|377829028|gb|AFB79107.1| tRNA pseudouridine synthase A( ) [Francisella tularensis subsp.
           tularensis TIGB03]
 gi|409087814|gb|EKM87902.1| tRNA pseudouridine synthase A [Francisella tularensis subsp.
           tularensis 80700075]
          Length = 258

 Score =  124 bits (311), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 70/204 (34%), Positives = 116/204 (56%), Gaps = 12/204 (5%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L I Y G  Y GWQ Q+  P++Q  +EKAL   +K+  +++ +  A RTDTGVHA  Q+ 
Sbjct: 6   LQIEYFGKNYCGWQRQSHSPSVQEELEKAL---SKIANQNIEVTCAGRTDTGVHATSQIV 62

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +F +  +   L +    +N LLP DI++  +      F++RF+A ++ Y+Y IYN A   
Sbjct: 63  NFYSN-ADRPLSAWQRGVNALLPQDIKILAVQQVDNNFNSRFTAINRTYNYIIYNSATSS 121

Query: 149 PFQHHYAYHSVYK---LNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           P    +A H +++   L+   M +A EY +G+ DFS+F + Q       P ++I + + I
Sbjct: 122 PI---FAEHCLWENRELDIDKMNQACEYLLGEQDFSSFRSSQCQSNT--PFRNIQKAEFI 176

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           + G+ +  EV G+ FL+  +RN+V
Sbjct: 177 KQGSFIVFEVVGNAFLHHMIRNLV 200


>gi|225026395|ref|ZP_03715587.1| hypothetical protein EUBHAL_00644 [Eubacterium hallii DSM 3353]
 gi|224956284|gb|EEG37493.1| tRNA pseudouridine synthase A [Eubacterium hallii DSM 3353]
          Length = 256

 Score =  124 bits (311), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 74/210 (35%), Positives = 114/210 (54%), Gaps = 16/210 (7%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++LV+ YDGT Y GWQ Q +  T++ ++ K L R  K   E++ ++GASRTD+GVH++G
Sbjct: 6   RFKLVVAYDGTNYCGWQIQPNGITVEEVLNKTLSRFLK---EEIHIIGASRTDSGVHSFG 62

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
            VA F +  +    E +  ALN  LP DIR+        +FH R+    K Y Y I N  
Sbjct: 63  NVAVFDSETTIPP-EKLCFALNPQLPEDIRIVSSEQVPGDFHPRYCDTRKTYEYHIQNGK 121

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           +  P +  Y++  ++ LN   M+EA++Y VG HDF +F   +   +A   V+++   +V 
Sbjct: 122 IPLPTERLYSHLVIFPLNIQAMQEASQYLVGTHDFKSFCAAK--TQAQTTVRTVTGIEV- 178

Query: 206 EMGALLQ---------LEVEGSGFLYRQVR 226
           E   L +         + V G GFLY  VR
Sbjct: 179 EAHPLSEGEYPSKKVIIRVTGEGFLYNMVR 208


>gi|291562296|emb|CBL41112.1| pseudouridylate synthase I [butyrate-producing bacterium SS3/4]
          Length = 344

 Score =  124 bits (311), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 78/200 (39%), Positives = 112/200 (56%), Gaps = 7/200 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +L + YDGT Y GWQ Q +  TI+ ++ KAL   + L +E + ++GASRTD+GVHA G V
Sbjct: 5   KLTVAYDGTAYKGWQLQPNGVTIEEMLNKAL---SDLLKEPVCVIGASRTDSGVHARGNV 61

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A F T     G +    A+N  LP DIRV E      ++H R     K Y Y+I N  + 
Sbjct: 62  AVFDTESRIPG-DKFCYAVNRGLPEDIRVVESEEVPLDWHPRKQNCVKTYEYQILNCKIE 120

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
            P +  YA+   Y LN   M EAA+Y +G+HDF +F     N +A   V++I+  +V + 
Sbjct: 121 IPTRRLYAHFCYYPLNVEKMNEAAKYLIGEHDFISFCAA--NHQAEETVRTIYGAEVKKN 178

Query: 208 GA-LLQLEVEGSGFLYRQVR 226
              ++ + + GSGFLY  VR
Sbjct: 179 DEDIVTIRLCGSGFLYNMVR 198


>gi|387762152|ref|YP_006069129.1| tRNA pseudouridine synthase A [Streptococcus salivarius 57.I]
 gi|339292919|gb|AEJ54266.1| tRNA pseudouridine synthase A [Streptococcus salivarius 57.I]
          Length = 248

 Score =  124 bits (311), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 77/206 (37%), Positives = 108/206 (52%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDGT ++G+Q Q +  +IQ  +EK L+R+       + + GA RTD GVHA+G
Sbjct: 3   RYKATISYDGTLFSGFQRQPNARSIQEELEKTLLRLNS--GTPVTVHGAGRTDAGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P   D  E +   L+   P DI V  I     EFHAR++  SK Y + +    
Sbjct: 61  QVVHFDLPQERDP-EKLRFGLDTQCPDDIDVVSIELVSEEFHARYNKHSKTYEFLVDAGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +P   +YA H  Y L+   M+EAA+  VG HDF+ F          N V++I +  V 
Sbjct: 120 PKNPMMRNYATHYPYPLSLAPMQEAAKDLVGTHDFTGFT--ASGTSVENKVRTITQASVS 177

Query: 206 --EMGALLQLEVEGSGFLYRQVRNMV 229
             E          G+GFLY+QVRNMV
Sbjct: 178 IDEKTGFYIFTFSGNGFLYKQVRNMV 203


>gi|56961964|ref|YP_173686.1| pseudouridylate synthase [Bacillus clausii KSM-K16]
 gi|62901228|sp|Q5WLN0.1|TRUA_BACSK RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|56908198|dbj|BAD62725.1| pseudouridylate synthase I [Bacillus clausii KSM-K16]
          Length = 261

 Score =  124 bits (311), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 77/199 (38%), Positives = 108/199 (54%), Gaps = 5/199 (2%)

Query: 31  IGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVAHF 90
           + YDGT +AG+Q Q    T+Q  VE+AL  + K  R  + +V + RTD GVHA GQV HF
Sbjct: 8   LSYDGTAFAGYQVQPGKRTVQSEVERALQEIHKGAR--VPVVASGRTDAGVHACGQVLHF 65

Query: 91  ITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDPF 150
            T  +    E   +ALN  LP DI V   +   P+FHAR+ A++K Y Y I      + F
Sbjct: 66  DTELTI-APERWVSALNTHLPDDIVVTNAAMVEPDFHARYGAQAKEYRYYIQCGPFENVF 124

Query: 151 QHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMGAL 210
           + H+A H    L+   M+ AA++ +G HDFSAF     N    + V++I    V      
Sbjct: 125 RRHFAVHIKQALDVPAMQTAAKHLLGTHDFSAFC--AANTTVTDKVRTITHVAVQPSEEG 182

Query: 211 LQLEVEGSGFLYRQVRNMV 229
           L + + G+GFLY  VR +V
Sbjct: 183 LLISIRGTGFLYNMVRIIV 201


>gi|410476973|ref|YP_006743732.1| tRNA-pseudouridine synthase I [Streptococcus pneumoniae gamPNI0373]
 gi|444387096|ref|ZP_21185122.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae PCS125219]
 gi|444389302|ref|ZP_21187219.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae PCS70012]
 gi|444393635|ref|ZP_21191271.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae PCS81218]
 gi|444394589|ref|ZP_21192140.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae PNI0002]
 gi|444398045|ref|ZP_21195528.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae PNI0006]
 gi|444398888|ref|ZP_21196363.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae PNI0007]
 gi|444402597|ref|ZP_21199756.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae PNI0008]
 gi|444405386|ref|ZP_21202291.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae PNI0009]
 gi|444407663|ref|ZP_21204330.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae PNI0010]
 gi|444418829|ref|ZP_21214780.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae PNI0360]
 gi|444419855|ref|ZP_21215690.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae PNI0427]
 gi|406369918|gb|AFS43608.1| tRNA-pseudouridine synthase I [Streptococcus pneumoniae gamPNI0373]
 gi|444254306|gb|ELU60752.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae PCS125219]
 gi|444257902|gb|ELU64235.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae PCS70012]
 gi|444258241|gb|ELU64568.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae PCS81218]
 gi|444259831|gb|ELU66140.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae PNI0002]
 gi|444260702|gb|ELU67010.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae PNI0006]
 gi|444266183|gb|ELU72151.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae PNI0008]
 gi|444269624|gb|ELU75428.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae PNI0007]
 gi|444271259|gb|ELU77010.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae PNI0010]
 gi|444273832|gb|ELU79493.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae PNI0009]
 gi|444280050|gb|ELU85427.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae PNI0360]
 gi|444286041|gb|ELU91047.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae PNI0427]
          Length = 249

 Score =  124 bits (311), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 73/206 (35%), Positives = 107/206 (51%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDG  + G+Q Q    ++Q  +EK L R+ K   + + + GA RTD+GVHA G
Sbjct: 3   RYKATISYDGYAFTGFQRQPHARSVQEEIEKTLTRLNK--GQAITVHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D  E +  AL+   P DI V  I     +FH R++  SK Y + +    
Sbjct: 61  QVIHFDLPYQMDE-EKLRFALDTQSPEDIDVISIELVADDFHCRYAKHSKTYEFTVDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +P + HYA H  Y L+   M+ A +   G HDF+ F          + V++I    +I
Sbjct: 120 PKNPMRRHYATHFPYPLDVERMQIAIKKLEGTHDFTGFT--ASGTSVEDKVRTITEASLI 177

Query: 206 --EMGALLQLEVEGSGFLYRQVRNMV 229
             E G  L     G+GFLY+Q+RNMV
Sbjct: 178 VDETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|293374636|ref|ZP_06620951.1| tRNA pseudouridine synthase A [Turicibacter sanguinis PC909]
 gi|325845439|ref|ZP_08168732.1| tRNA pseudouridine synthase A [Turicibacter sp. HGF1]
 gi|292646726|gb|EFF64721.1| tRNA pseudouridine synthase A [Turicibacter sanguinis PC909]
 gi|325488545|gb|EGC90961.1| tRNA pseudouridine synthase A [Turicibacter sp. HGF1]
          Length = 258

 Score =  124 bits (311), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 70/204 (34%), Positives = 116/204 (56%), Gaps = 8/204 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + +  + YDGT + G+Q Q    T+Q  +E AL +++K   + + +  + RTDTGVHA+G
Sbjct: 3   RIKCTVAYDGTLFNGYQRQPGQRTVQGEIEAALEKISK---QPVTIHSSGRTDTGVHAYG 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF +  + DG   +  ALN +LP DI + +     PEFH+R+  K K Y Y++  + 
Sbjct: 60  QVFHFDSVVNMDGSRYVR-ALNSILPEDIYIIDSQEVHPEFHSRYHGKVKEYRYRLSLNE 118

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +P + +Y Y+  + L+   MREA  Y +G H+F++F     N   ++ V++I++ D+I
Sbjct: 119 -YNPMKRNYVYYHRFSLDVEKMREAMTYLLGTHNFTSFCG---NLDDIDKVRTIYQADLI 174

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           +    L     G+GFL   +R MV
Sbjct: 175 DEDGELTFIFVGNGFLRYMIRIMV 198


>gi|187931655|ref|YP_001891639.1| tRNA pseudouridine synthase A [Francisella tularensis subsp.
           mediasiatica FSC147]
 gi|238691562|sp|B2SGK2.1|TRUA_FRATM RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|187712564|gb|ACD30861.1| tRNA pseudouridine synthase A [Francisella tularensis subsp.
           mediasiatica FSC147]
          Length = 258

 Score =  124 bits (311), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 70/204 (34%), Positives = 116/204 (56%), Gaps = 12/204 (5%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L I Y G  Y GWQ Q+  P++Q  +EKAL   +K+  +++ +  A RTDTGVHA  Q+ 
Sbjct: 6   LQIEYFGKNYCGWQRQSHSPSVQEELEKAL---SKIANQNIEVTCAGRTDTGVHATSQIV 62

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +F +  +   L +    +N LLP DI++  +      F++RF+A ++ Y+Y IYN A   
Sbjct: 63  NFYSN-ADRPLSAWQRGVNALLPQDIKILAVQQVDNNFNSRFTAINRTYNYIIYNSATSS 121

Query: 149 PFQHHYAYHSVYK---LNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           P    +A H +++   L+   M +A EY +G+ DFS+F + Q       P ++I + + I
Sbjct: 122 PI---FAEHCLWENRELDIDKMNQACEYLLGEQDFSSFRSSQCQSNT--PFRNIQKAEFI 176

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           + G+ +  EV G+ FL+  +RN+V
Sbjct: 177 KQGSFIVFEVVGNAFLHHMIRNLV 200


>gi|116493132|ref|YP_804867.1| pseudouridylate synthase [Pediococcus pentosaceus ATCC 25745]
 gi|116103282|gb|ABJ68425.1| Pseudouridylate synthase [Pediococcus pentosaceus ATCC 25745]
          Length = 248

 Score =  124 bits (311), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 68/207 (32%), Positives = 116/207 (56%), Gaps = 5/207 (2%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
            ++++++ YDGT +AG+Q Q +  T++ ++++ + ++ K    ++ + G+ RTD GVHA 
Sbjct: 1   MRYKIILAYDGTNFAGFQMQPNQRTVEGVLKRIVNKIAKNPTPEISVYGSGRTDAGVHAL 60

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           GQV HF           +HA LN  LP D++V+++      FHARF+   K Y Y++   
Sbjct: 61  GQVVHFDLSIEMSERSMLHA-LNSQLPLDMQVKKVEIVDETFHARFTTHGKKYQYRMALG 119

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
             +DPF+ +Y  H  + +N  L+++A +   G HDFS+FV         + V++I+   V
Sbjct: 120 QFVDPFKRNYTGHWKFPINIGLIQKAIKDLEGTHDFSSFV--ASGSTVKDHVRTIYEAKV 177

Query: 205 IEMGALLQL--EVEGSGFLYRQVRNMV 229
            E     ++  E  G+GFLY  VR MV
Sbjct: 178 WEDKKQNEIVFEFYGNGFLYNMVRIMV 204


>gi|269213866|ref|ZP_05983015.2| tRNA pseudouridine synthase A [Neisseria cinerea ATCC 14685]
 gi|269145225|gb|EEZ71643.1| tRNA pseudouridine synthase A [Neisseria cinerea ATCC 14685]
          Length = 277

 Score =  124 bits (311), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 76/206 (36%), Positives = 109/206 (52%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSP-PTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
           +W L + YDG+R+ GWQ Q    PT+Q  +E AL ++     E +  + A RTDTGVHA 
Sbjct: 20  RWALTLSYDGSRFYGWQKQAGGVPTVQTALENALAQIAG---EAVSTIVAGRTDTGVHAT 76

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
            QV HF T         I   +N  LP  I V     A PEFHARF A  + Y Y + + 
Sbjct: 77  AQVVHFDTAAVRPAQAWIRG-VNANLPEGIAVLHAQQAAPEFHARFDAYGRHYRYLLESS 135

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
            V  P   H    +  KL+   MR AA   VG+ DFS+F   +   +A +PVK+I+  ++
Sbjct: 136 PVRSPLLKHRVGWTHLKLDIEPMRRAAALLVGEQDFSSFRAAE--CQAKSPVKTIYSAEI 193

Query: 205 IEMGALLQLEVEGSGFLYRQVRNMVN 230
                L++L++ G+ FL+  VRN++ 
Sbjct: 194 AYGRGLIRLDLHGNAFLHHMVRNIMG 219


>gi|150395284|ref|YP_001325751.1| tRNA pseudouridine synthase A [Sinorhizobium medicae WSM419]
 gi|166229839|sp|A6U5I6.1|TRUA_SINMW RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|150026799|gb|ABR58916.1| tRNA pseudouridine synthase A [Sinorhizobium medicae WSM419]
          Length = 247

 Score =  124 bits (311), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 71/207 (34%), Positives = 115/207 (55%), Gaps = 13/207 (6%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++RL++ YDGT Y GWQ Q + P++Q  +EKA++ +T    E +R+ GA RTD+GVHA G
Sbjct: 3   RFRLIVEYDGTDYVGWQRQDNGPSVQGAIEKAVLSLTG---ETVRVRGAGRTDSGVHARG 59

Query: 86  QVAHF-----ITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYK 140
           QVAH        P++     + H +L G     + + E+  A  +F ARFSA  + Y Y+
Sbjct: 60  QVAHLDLTRAWKPYTLQNALNAHLSLAG---ERVSILEVEEAAADFDARFSAIRRHYLYR 116

Query: 141 IYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIF 200
           I +       +   A+     L+   M EAA+  +G HDF+ F +   N +A +P++++ 
Sbjct: 117 IISRRSPLALEARRAWWVPKALDHDAMHEAAQRLLGHHDFTTFRSA--NCQATSPMRTLD 174

Query: 201 RFDVIEMGALLQLEVEGSGFLYRQVRN 227
           R DV   G L+++      FL+ Q+R+
Sbjct: 175 RLDVTRTGDLIEIRASAQSFLHNQIRS 201


>gi|430853073|ref|ZP_19470803.1| tRNA pseudouridine synthase A [Enterococcus faecium E1258]
 gi|430540895|gb|ELA81072.1| tRNA pseudouridine synthase A [Enterococcus faecium E1258]
          Length = 247

 Score =  124 bits (311), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 69/200 (34%), Positives = 110/200 (55%), Gaps = 7/200 (3%)

Query: 28  RLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           +L I YDG RY+GWQ       TIQ  +EK L ++T    E++ ++G+ RTD G HA GQ
Sbjct: 5   KLTIEYDGKRYSGWQRLGDDDKTIQGKIEKVLHQMTN---EEIEIIGSGRTDAGTHARGQ 61

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           VA+F T     GL  +   +N  LP DI ++ I      FH+R++A  K Y Y ++ND +
Sbjct: 62  VANFKTNTEI-GLAEMIDFMNRYLPRDIVIKRIEEMPERFHSRYNAVGKKYSYYVWNDVI 120

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
              F+ +++++   +L+   +  A E  VG HDF  F  ++++ ++   V++I    +  
Sbjct: 121 PSAFERNHSFYFPQELDMDKLNAACEKLVGTHDFIGFSALKKSKKS--TVRTIDELSIER 178

Query: 207 MGALLQLEVEGSGFLYRQVR 226
            G +L     G GFLY+ VR
Sbjct: 179 KGEMLHFTFVGDGFLYKMVR 198


>gi|168187780|ref|ZP_02622415.1| tRNA pseudouridine synthase A [Clostridium botulinum C str. Eklund]
 gi|169294335|gb|EDS76468.1| tRNA pseudouridine synthase A [Clostridium botulinum C str. Eklund]
          Length = 246

 Score =  124 bits (311), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 77/202 (38%), Positives = 116/202 (57%), Gaps = 7/202 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +LVI YDG+ Y+GWQ Q    T+Q  +E+A+  +TK   +++ ++G SRTD GVHA   V
Sbjct: 6   KLVIEYDGSNYSGWQKQKHSMTVQQRIEEAIFDITK---QNIEIIGCSRTDAGVHARNFV 62

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVP-EFHARFSAKSKIYHYKIYNDAV 146
           A+FI   S    E    A+N  LP DI +++ S  VP +FHARF +K K Y Y I N   
Sbjct: 63  ANFIID-SNIPPEKFKYAINSKLPKDIVIKK-SCEVPIDFHARFQSKGKKYVYTILNREE 120

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
                    YH   KL+  LM+ A++YF+G H+F +F   +      + +++I+  DV +
Sbjct: 121 PPTIDRGVVYHFNKKLDVDLMKSASKYFIGSHEFDSFYK-KAGSSVKSTLRTIYYCDVTK 179

Query: 207 MGALLQLEVEGSGFLYRQVRNM 228
           +  ++++ V G GFLY  VR M
Sbjct: 180 VDDIIKIIVIGEGFLYNMVRIM 201


>gi|290891783|ref|ZP_06554780.1| truA protein [Listeria monocytogenes FSL J2-071]
 gi|404408978|ref|YP_006691693.1| tRNA pseudouridine synthase A [Listeria monocytogenes SLCC2376]
 gi|290558377|gb|EFD91894.1| truA protein [Listeria monocytogenes FSL J2-071]
 gi|404243127|emb|CBY64527.1| tRNA pseudouridine synthase A [Listeria monocytogenes SLCC2376]
          Length = 248

 Score =  124 bits (310), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 69/202 (34%), Positives = 113/202 (55%), Gaps = 6/202 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDG+ + G+Q Q +  T+Q  +EKAL ++ K   + +R+  + RTDTGVHA G
Sbjct: 3   RYKAIISYDGSGFYGYQVQPNTRTVQAEIEKALTKMNK--GKTVRVTASGRTDTGVHAKG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF +       E    AL  + P DI    +     +FHARF    K Y Y +    
Sbjct: 61  QVIHFDSELDITA-EKFQKALQVMTPFDISFLTVEEVPDDFHARFGTVGKEYRYVVKRTK 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           + DPF  ++A H  Y+L+ + M+ A++  +G+HDF++F +  R +R  + V++++  D  
Sbjct: 120 IFDPFSRNFALHYPYELDISKMKLASKRLIGEHDFTSFCS-ARTERD-SKVRTLYSIDFY 177

Query: 206 EM-GALLQLEVEGSGFLYRQVR 226
           E     L +  +G+GFLY  VR
Sbjct: 178 EEDDETLVIAFQGNGFLYNMVR 199


>gi|444920165|ref|ZP_21240008.1| tRNA pseudouridine synthase A [Wohlfahrtiimonas chitiniclastica
           SH04]
 gi|444508484|gb|ELV08653.1| tRNA pseudouridine synthase A [Wohlfahrtiimonas chitiniclastica
           SH04]
          Length = 248

 Score =  124 bits (310), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 77/206 (37%), Positives = 114/206 (55%), Gaps = 14/206 (6%)

Query: 29  LVIGYDGTRYAGWQFQTSPP--TIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           LVI YDGT++ GWQ Q  PP  T++ ++  A   + K+    + L+ A RTD GVHA  Q
Sbjct: 8   LVISYDGTQFRGWQAQKKPPVRTVESVLVPA---IEKVANHSIELMCAGRTDAGVHARNQ 64

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYN--- 143
           V +FIT         I   +N  LP D  V E+     +FHAR+SAK + Y Y I N   
Sbjct: 65  VVNFITTAKRSDYSWIRG-INTNLPDDCAVTEVRRMPLDFHARYSAKGRYYQYVIANLPY 123

Query: 144 DAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFD 203
            +VMD F   Y  H  Y L+   M++AA   +G+HDF+A+ + +   +A   ++ IF   
Sbjct: 124 RSVMDRF---YTTHINYPLDVAAMQQAANDLIGEHDFNAYRSSEC--QAPTSIREIFDIR 178

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
           + + GA + ++V G+ FL+  VRN+V
Sbjct: 179 LRQQGAYIYIDVHGNAFLHHMVRNIV 204


>gi|421451529|ref|ZP_15900890.1| tRNA pseudouridine synthase A [Streptococcus salivarius K12]
 gi|400181960|gb|EJO16222.1| tRNA pseudouridine synthase A [Streptococcus salivarius K12]
          Length = 248

 Score =  124 bits (310), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 77/206 (37%), Positives = 108/206 (52%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDGT ++G+Q Q +  +IQ  +EK L+R+       + + GA RTD GVHA+G
Sbjct: 3   RYKATISYDGTLFSGFQRQPNARSIQEELEKTLLRLNS--GTPVTVHGAGRTDAGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P   D LE +   L+   P DI V  I     EFHAR++  SK Y + +    
Sbjct: 61  QVIHFDLPQERD-LEKLRFGLDTQCPDDIDVVSIELVSEEFHARYNKHSKTYEFLVDAGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +P   +YA H  Y L+   M+EAA+  VG HDF+ F          N V++I +  V 
Sbjct: 120 PKNPMMRNYATHYPYPLSLAPMQEAAKDLVGTHDFTGFT--ASGTSVENKVRTITQASVS 177

Query: 206 --EMGALLQLEVEGSGFLYRQVRNMV 229
             E           +GFLY+QVRNMV
Sbjct: 178 IDEKTGFYIFTFSSNGFLYKQVRNMV 203


>gi|89256403|ref|YP_513765.1| tRNA pseudouridine synthase A [Francisella tularensis subsp.
           holarctica LVS]
 gi|115314847|ref|YP_763570.1| tRNA pseudouridine synthase A [Francisella tularensis subsp.
           holarctica OSU18]
 gi|254367741|ref|ZP_04983762.1| tRNA pseudouridine synthase A [Francisella tularensis subsp.
           holarctica 257]
 gi|422938792|ref|YP_007011939.1| tRNA pseudouridine synthase A [Francisella tularensis subsp.
           holarctica FSC200]
 gi|122325138|sp|Q0BLV1.1|TRUA_FRATO RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|122999741|sp|Q2A3D7.1|TRUA_FRATH RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|89144234|emb|CAJ79507.1| tRNA pseudouridine synthase A [Francisella tularensis subsp.
           holarctica LVS]
 gi|115129746|gb|ABI82933.1| tRNA-pseudouridine synthase I [Francisella tularensis subsp.
           holarctica OSU18]
 gi|134253552|gb|EBA52646.1| tRNA pseudouridine synthase A [Francisella tularensis subsp.
           holarctica 257]
 gi|407293943|gb|AFT92849.1| tRNA pseudouridine synthase A [Francisella tularensis subsp.
           holarctica FSC200]
          Length = 258

 Score =  124 bits (310), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 70/204 (34%), Positives = 116/204 (56%), Gaps = 12/204 (5%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L I Y G  Y GWQ Q+   ++Q  +EKAL   +K+  +++ +  A RTDTGVHA  Q+ 
Sbjct: 6   LQIEYFGKNYCGWQRQSHSLSVQEELEKAL---SKIANQNIEVTCAGRTDTGVHATSQIV 62

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +F +  +Y  L +    +N LLP DI++  +      F++RF+A ++ Y+Y IYN A   
Sbjct: 63  NFYSN-AYRPLSAWQRGVNALLPQDIKILAVQQVDNNFNSRFTAINRTYNYIIYNSATSS 121

Query: 149 PFQHHYAYHSVYK---LNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           P    +A H +++   L+   M +A EY +G+ DFS+F + Q       P ++I + + I
Sbjct: 122 PI---FAEHCLWENRELDIDKMNQACEYLLGEQDFSSFRSSQCQSNT--PFRNIQKAEFI 176

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           + G+ +  EV G+ FL+  +RN+V
Sbjct: 177 KQGSFIVFEVVGNAFLHHMIRNLV 200


>gi|312622107|ref|YP_004023720.1| tRNA pseudouridine synthase a [Caldicellulosiruptor kronotskyensis
           2002]
 gi|312202574|gb|ADQ45901.1| tRNA pseudouridine synthase A [Caldicellulosiruptor kronotskyensis
           2002]
          Length = 244

 Score =  124 bits (310), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 70/198 (35%), Positives = 107/198 (54%), Gaps = 6/198 (3%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L I YDGT Y GWQ Q +  TIQ  +E+A   + KL  E++ L+G+ RTD GVHA  Q A
Sbjct: 6   LTIEYDGTGYFGWQKQPNKKTIQGTIEEA---IKKLTGEEVNLIGSGRTDRGVHALNQKA 62

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +F T  S    +    ALN +LP DI +++      +F AR+SA+ K Y Y IYN     
Sbjct: 63  NFKTS-SKIPTDKFPLALNSVLPGDISIKDAIEVPLDFSARYSARQKTYKYLIYNKKSRP 121

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
               +YAY+  Y+L+   M+   EYF+G++DF +F +   +  A   ++ ++   +    
Sbjct: 122 ALLRNYAYYYPYQLDVDAMQRTCEYFIGEYDFKSFCSA--DSEAKTTIRRVYNAYLTFEN 179

Query: 209 ALLQLEVEGSGFLYRQVR 226
             + + +  +GFLY   R
Sbjct: 180 ECIAIYITANGFLYNMAR 197


>gi|121635695|ref|YP_975940.1| tRNA pseudouridine synthase A [Neisseria meningitidis FAM18]
 gi|416214900|ref|ZP_11623156.1| tRNA pseudouridine synthase A [Neisseria meningitidis M01-240013]
 gi|421560032|ref|ZP_16005897.1| tRNA pseudouridine synthase A [Neisseria meningitidis 92045]
 gi|433495529|ref|ZP_20452587.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis NM762]
 gi|433501713|ref|ZP_20458692.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis NM174]
 gi|166228740|sp|A1KWB6.1|TRUA_NEIMF RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|120867401|emb|CAM11173.1| tRNA pseudouridine synthase [Neisseria meningitidis FAM18]
 gi|325143594|gb|EGC65914.1| tRNA pseudouridine synthase A [Neisseria meningitidis M01-240013]
 gi|402334117|gb|EJU69411.1| tRNA pseudouridine synthase A [Neisseria meningitidis 92045]
 gi|432227098|gb|ELK82810.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis NM762]
 gi|432232714|gb|ELK88350.1| tRNA pseudouridine(38-40) synthase [Neisseria meningitidis NM174]
          Length = 265

 Score =  124 bits (310), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 111/206 (53%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSP-PTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
           +W + + YDG+R+ GWQ Q    PT+Q  +E AL ++     E +    A RTDTGVHA 
Sbjct: 8   RWAITLSYDGSRFYGWQKQADGVPTVQAALETALAQIAG---EAVSTTVAGRTDTGVHAT 64

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
            QV HF T  +      +   +N  LP  I V       PEFHARF A  + Y Y + + 
Sbjct: 65  AQVVHFDTTAARPQQAWVRG-VNAHLPEGIAVLHARQVAPEFHARFDAYGRHYRYLLESV 123

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
            V  P   + A  +  KL+   MR AA   +G+ DFS+F   +   +A +PVK+I+R D+
Sbjct: 124 PVRSPLLKNRAGWTHLKLDIGPMRRAAALLIGEQDFSSFRAAE--CQAKSPVKTIYRADL 181

Query: 205 IEMGALLQLEVEGSGFLYRQVRNMVN 230
            +   L++L++ G+ FL+  VRN++ 
Sbjct: 182 TQSSGLVRLDLHGNAFLHHMVRNIMG 207


>gi|219666536|ref|YP_002456971.1| tRNA pseudouridine synthase A [Desulfitobacterium hafniense DCB-2]
 gi|219536796|gb|ACL18535.1| tRNA pseudouridine synthase A [Desulfitobacterium hafniense DCB-2]
          Length = 271

 Score =  124 bits (310), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 80/200 (40%), Positives = 105/200 (52%), Gaps = 8/200 (4%)

Query: 29  LVIGYDGTRYAGWQFQTS--PPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           L + YDGT Y G+Q Q     PTIQ  +E       KL  E + L  A RTDTGVHA GQ
Sbjct: 9   LKVAYDGTYYHGFQRQPEFHGPTIQGTLETVW---AKLVEEQVTLNTAGRTDTGVHAAGQ 65

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           V +F T      ++ I  A N LLP DIR+     A  +FHARFSAK K Y Y+I N  V
Sbjct: 66  VVNFRTGARIP-VDKIPKAFNSLLPRDIRILAAQEAAEDFHARFSAKWKRYDYRIDNHPV 124

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
            D F   Y+ H   +L+   M++ A+Y VG+H+F AF       +     ++++   V E
Sbjct: 125 ADVFTRLYSLHEPVRLDWQRMQQGAQYLVGRHNFKAFSAAGGTSKTFE--RTLYLCQVAE 182

Query: 207 MGALLQLEVEGSGFLYRQVR 226
               L++   G GFLY  VR
Sbjct: 183 NQGHLRITCIGDGFLYNMVR 202


>gi|407642131|ref|YP_006805890.1| tRNA pseudouridine synthase A [Nocardia brasiliensis ATCC 700358]
 gi|407305015|gb|AFT98915.1| tRNA pseudouridine synthase A [Nocardia brasiliensis ATCC 700358]
          Length = 287

 Score =  124 bits (310), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 76/215 (35%), Positives = 111/215 (51%), Gaps = 8/215 (3%)

Query: 17  PTDDSFPGFKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASR 76
           P   S    + RL IGYDGT + GW  Q    T+Q ++E++L   TK+ RE ++L  A R
Sbjct: 9   PAAQSPDPVRVRLDIGYDGTDFTGWARQPGLRTVQGVLEESL---TKVFREPVQLTVAGR 65

Query: 77  TDTGVHAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKI 136
           TD GVHA GQVAHF T    D  + +H  +   LP D+R++++  A  EF ARFSA  + 
Sbjct: 66  TDAGVHAEGQVAHFDTAAEVDPAKLVH-RMARFLPKDVRIKDVQLAPAEFDARFSAIRRH 124

Query: 137 YHYKIYNDAV-MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNP 195
           Y Y++       +P Q        + ++   MR A+   +G H+F+AF    R       
Sbjct: 125 YAYRLTTARYGAEPLQARSVVACRHDVDLDAMRAASRKLLGLHNFAAFC---RRREGATT 181

Query: 196 VKSIFRFDVIEMGALLQLEVEGSGFLYRQVRNMVN 230
           V+ + RFD  + G LL   V    F +  VR++V 
Sbjct: 182 VRELQRFDWAQQGELLTAYVSADAFCWSMVRSLVG 216


>gi|253681679|ref|ZP_04862476.1| tRNA pseudouridine synthase A [Clostridium botulinum D str. 1873]
 gi|416351428|ref|ZP_11681135.1| tRNA pseudouridine synthase A [Clostridium botulinum C str.
           Stockholm]
 gi|253561391|gb|EES90843.1| tRNA pseudouridine synthase A [Clostridium botulinum D str. 1873]
 gi|338196000|gb|EGO88223.1| tRNA pseudouridine synthase A [Clostridium botulinum C str.
           Stockholm]
          Length = 245

 Score =  124 bits (310), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 73/203 (35%), Positives = 111/203 (54%), Gaps = 7/203 (3%)

Query: 28  RLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           +L I YDGTRY GWQ    +  TIQ  +E  L    +L  E++ L+ + RTD GVHA  Q
Sbjct: 5   KLTIQYDGTRYKGWQKLGDADNTIQYKIESVL---NELLGEEVSLIASGRTDAGVHANMQ 61

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           +A+F T  +    ++I       LP DI +  IS A   FH+R++ K KIY Y IYN+ V
Sbjct: 62  IANFKTNSNVTN-DTILKHCYKYLPQDIVITNISDASENFHSRYNVKKKIYTYNIYNNPV 120

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
            D F   Y+YH    L+   M+EA++ F+G+HDF +F  ++   ++         F   +
Sbjct: 121 HDVFTRKYSYHIKETLDIKKMKEASKLFIGEHDFKSFTALKSKKKSTVKTIDSITFKKKD 180

Query: 207 MGALLQLEVEGSGFLYRQVRNMV 229
               +++   G+GFLY+ +R +V
Sbjct: 181 NN--IEIIFTGNGFLYKMIRILV 201


>gi|160947056|ref|ZP_02094223.1| hypothetical protein PEPMIC_00987 [Parvimonas micra ATCC 33270]
 gi|158446190|gb|EDP23185.1| tRNA pseudouridine synthase A [Parvimonas micra ATCC 33270]
          Length = 247

 Score =  124 bits (310), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 71/201 (35%), Positives = 112/201 (55%), Gaps = 6/201 (2%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L I YDG+ + G+Q Q +  T+Q  +E AL ++T+   E++ ++ A RTD GVH+   + 
Sbjct: 6   LTISYDGSLFFGFQKQKNVVTVQGEIEDALKKITE---ENINIISAGRTDRGVHSLRHII 62

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           +F T  S  G+ +   ALN  LP  +RV +       FH+RF AK K Y Y +  D VMD
Sbjct: 63  NFHTE-SNVGVLNFKTALNHFLPIGVRVLDSKEVSENFHSRFDAKMKTYKYILNLDEVMD 121

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
           P  ++Y  +  Y L+   M+ A EYF+G+  F AF+  +  +  +NP++ I  F++ +  
Sbjct: 122 PIYYNYKANFPYPLDIEKMKRAKEYFIGRKSFKAFMGPRTGN--INPIREINSFEIYKEN 179

Query: 209 ALLQLEVEGSGFLYRQVRNMV 229
             L   ++G  F+  QVR MV
Sbjct: 180 NDLIFLIKGQSFIRNQVRIMV 200


>gi|406666891|ref|ZP_11074654.1| tRNA pseudouridine synthase A [Bacillus isronensis B3W22]
 gi|405385174|gb|EKB44610.1| tRNA pseudouridine synthase A [Bacillus isronensis B3W22]
          Length = 249

 Score =  124 bits (310), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 74/202 (36%), Positives = 103/202 (50%), Gaps = 6/202 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + +  I YDGT +AG+Q Q    T+Q  +EK L  + K  +  +++  + RTD  VHA G
Sbjct: 3   RLKATISYDGTGFAGYQVQPGERTVQLEIEKVLTTMQKGTQ--VKITASGRTDARVHATG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF T       E    ALN  LP DIRV  +     +FHAR+    K Y Y      
Sbjct: 61  QVIHFDTALEIPP-EKFQKALNVQLPRDIRVLHMEQVKEDFHARYDVSGKRYRYIWDCST 119

Query: 146 VMDPFQHHYAYHS-VYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
           V  PF+ HY   +   K N   MREAA+  VG HDFS F     N   ++ V+++   ++
Sbjct: 120 VQSPFRRHYTVETGGVKPNVEAMREAAQAIVGTHDFSCFCAA--NTSVVDKVRTVETLEL 177

Query: 205 IEMGALLQLEVEGSGFLYRQVR 226
           +  G  L + + G+GFLY  VR
Sbjct: 178 VWQGEELHMTISGNGFLYNMVR 199


>gi|392530584|ref|ZP_10277721.1| tRNA pseudouridine synthase A [Carnobacterium maltaromaticum ATCC
           35586]
          Length = 272

 Score =  124 bits (310), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 73/206 (35%), Positives = 113/206 (54%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++++ I YDGT Y+G+Q Q    T+Q  +EKAL  +TK     ++L  + RTD GVHA G
Sbjct: 5   RYKVTIQYDGTNYSGFQIQPKDRTVQGDIEKALKTMTK--GIAIKLQASGRTDAGVHALG 62

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV H+  P +    E +  ALN L   +I + ++      FHAR+    K Y Y++  + 
Sbjct: 63  QVIHYDYP-AMIPPERMQQALNSLTTDEIAIVKVEIVDETFHARYFTAEKTYQYRVNTNQ 121

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           V+DPF+ +YA H  Y ++   ++ A    VG+HDFS+F  ++      N V++I+  DV 
Sbjct: 122 VVDPFRRNYALHHPYPVHLDDLKAALTDIVGEHDFSSFCAVKSGRE--NKVRTIYEADVT 179

Query: 206 --EMGALLQLEVEGSGFLYRQVRNMV 229
             E    L     G+GFLY  VR ++
Sbjct: 180 WNEATGDLIFTFRGNGFLYNMVRILI 205


>gi|418017001|ref|ZP_12656560.1| tRNA pseudouridine synthase A [Streptococcus salivarius M18]
 gi|345527694|gb|EGX31002.1| tRNA pseudouridine synthase A [Streptococcus salivarius M18]
          Length = 248

 Score =  124 bits (310), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 77/206 (37%), Positives = 108/206 (52%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDGT ++G+Q Q +  +IQ  +EK L+R+       + + GA RTD GVHA+G
Sbjct: 3   RYKATISYDGTLFSGFQRQPNARSIQEELEKTLLRLNS--GTPVTVHGAGRTDAGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P   D  E +   L+   P DI V  I     EFHAR++  SK Y + +    
Sbjct: 61  QVIHFDLPQERDP-EKLRFGLDTQCPDDIDVVSIELVSEEFHARYNKHSKTYEFLVDAGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +P   +YA H  Y L+   M+EAA+  VG HDF+ F          N V++I +  V 
Sbjct: 120 PKNPMMRNYATHYPYPLSLAPMQEAAKDLVGTHDFTGFT--ASGTSVENKVRTITQASVS 177

Query: 206 --EMGALLQLEVEGSGFLYRQVRNMV 229
             E          G+GFLY+QVRNMV
Sbjct: 178 IDEKTGFYIFTFSGNGFLYKQVRNMV 203


>gi|89893262|ref|YP_516749.1| hypothetical protein DSY0516 [Desulfitobacterium hafniense Y51]
 gi|89332710|dbj|BAE82305.1| hypothetical protein [Desulfitobacterium hafniense Y51]
          Length = 271

 Score =  124 bits (310), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 80/200 (40%), Positives = 105/200 (52%), Gaps = 8/200 (4%)

Query: 29  LVIGYDGTRYAGWQFQTS--PPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           L + YDGT Y G+Q Q     PTIQ  +E       KL  E++ L  A RTDTGVHA GQ
Sbjct: 9   LKVAYDGTYYHGFQRQPEFHGPTIQGTLEAVW---AKLVEEEVTLNTAGRTDTGVHAAGQ 65

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           V +F T      ++ I  A N LLP DIR+     A   FHARFSAK K Y Y+I N  V
Sbjct: 66  VVNFRTGARIP-VDKIPKAFNSLLPRDIRILAAQEAAENFHARFSAKWKRYDYRIDNHPV 124

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
            D F   Y+ H   +L+   M++ A+Y VG+H+F AF       +     ++++   V E
Sbjct: 125 ADVFTRLYSLHEPVRLDWQRMQQGAQYLVGRHNFKAFSAAGGTSKTFE--RTLYLCQVAE 182

Query: 207 MGALLQLEVEGSGFLYRQVR 226
               L++   G GFLY  VR
Sbjct: 183 NQGHLRITCIGDGFLYNMVR 202


>gi|345858432|ref|ZP_08810825.1| tRNA pseudouridine synthase A [Desulfosporosinus sp. OT]
 gi|344328451|gb|EGW39836.1| tRNA pseudouridine synthase A [Desulfosporosinus sp. OT]
          Length = 263

 Score =  124 bits (310), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 81/204 (39%), Positives = 108/204 (52%), Gaps = 8/204 (3%)

Query: 28  RLVIGYDGTRYAGWQFQ--TSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           RL + YDGT Y G+Q Q  T  PTIQ  +E       KL  E++ L  A RTD GVHA G
Sbjct: 5   RLTVAYDGTNYHGFQRQDQTYGPTIQGTLEAVW---KKLVEEEVTLATAGRTDAGVHASG 61

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV +F+T       E I  A N LLP DIR+ +  +   +F+AR+SAK K Y Y+I N  
Sbjct: 62  QVVNFMTAARIPE-EKIPKAFNSLLPRDIRILQAESVPHDFNARWSAKWKRYDYQIDNHR 120

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           + + F   YA H    LN   M+ AA  F G H+F  F       +     ++I+R  V 
Sbjct: 121 IPNVFLRLYASHVPIPLNVNQMQAAASLFEGHHNFKTFAAAGGASKTFE--RTIYRCQVK 178

Query: 206 EMGALLQLEVEGSGFLYRQVRNMV 229
           E   ++++   G+GFLY  VR MV
Sbjct: 179 EDKGIIRVSCVGNGFLYHMVRIMV 202


>gi|387783250|ref|YP_006069333.1| tRNA pseudouridine synthase A [Streptococcus salivarius JIM8777]
 gi|338744132|emb|CCB94498.1| tRNA pseudouridine synthase A (tRNA-uridine isomerase I) (tRNA
           pseudouridylate synthase I) [Streptococcus salivarius
           JIM8777]
          Length = 248

 Score =  124 bits (310), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 77/206 (37%), Positives = 108/206 (52%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDGT ++G+Q Q +  +IQ  +EK L+R+       + + GA RTD GVHA+G
Sbjct: 3   RYKATISYDGTLFSGFQRQPNARSIQEELEKTLLRLNS--GTPVTVHGAGRTDAGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P   D  E +   L+   P DI V  I     EFHAR++  SK Y + +    
Sbjct: 61  QVIHFDLPQERDP-EKLRFGLDTQCPDDIDVVSIELVSEEFHARYNKHSKTYEFLVDAGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +P   +YA H  Y L+   M+EAA+  VG HDF+ F          N V++I +  V 
Sbjct: 120 PKNPMMRNYATHYPYPLSLAPMQEAAKDLVGTHDFTGFT--ASGTSVENKVRTITQASVS 177

Query: 206 --EMGALLQLEVEGSGFLYRQVRNMV 229
             E          G+GFLY+QVRNMV
Sbjct: 178 IDEKTGFYIFTFSGNGFLYKQVRNMV 203


>gi|347531079|ref|YP_004837842.1| tRNA pseudouridine synthase A [Roseburia hominis A2-183]
 gi|345501227|gb|AEN95910.1| tRNA pseudouridine synthase A [Roseburia hominis A2-183]
          Length = 256

 Score =  124 bits (310), Expect = 5e-26,   Method: Compositional matrix adjust.
 Identities = 75/201 (37%), Positives = 108/201 (53%), Gaps = 7/201 (3%)

Query: 27  WRLVIGYDGTRYAGWQFQ-TSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +R+ I YDGTRY+GWQ Q  +  TIQ  +E  L R+T    + + ++G+ RTD GVHA G
Sbjct: 4   YRMTIQYDGTRYSGWQSQHATDATIQGKLETVLTRMTG---QQVDVIGSGRTDAGVHAIG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QVA+F      +  E +   LN  LP DI V  ++     FH+R+ A  K Y Y+I+   
Sbjct: 61  QVANFHLKQPRNTGELLDG-LNRYLPEDIAVSSLTEVDERFHSRYQAVCKTYRYRIHTGE 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           V D F   Y Y     L+   MREAA   +G+HDF +F    R  ++   V++++   V 
Sbjct: 120 VPDVFARRYVYDYRIPLDVERMREAAGLLLGEHDFKSFCGNTRMKKS--TVRTLYEIRVE 177

Query: 206 EMGALLQLEVEGSGFLYRQVR 226
           E  + + L   G+GFL   VR
Sbjct: 178 EHESEIDLFFTGNGFLQNMVR 198


>gi|228477786|ref|ZP_04062414.1| tRNA pseudouridine synthase A [Streptococcus salivarius SK126]
 gi|228250478|gb|EEK09692.1| tRNA pseudouridine synthase A [Streptococcus salivarius SK126]
          Length = 248

 Score =  124 bits (310), Expect = 5e-26,   Method: Compositional matrix adjust.
 Identities = 77/206 (37%), Positives = 108/206 (52%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDGT ++G+Q Q +  +IQ  +EK L+R+       + + GA RTD GVHA+G
Sbjct: 3   RYKATISYDGTLFSGFQRQPNARSIQEELEKTLLRLNS--GTPVTVHGAGRTDAGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P   D  E +   L+   P DI V  I     EFHAR++  SK Y + +    
Sbjct: 61  QVIHFDLPQERDP-EKLRFGLDTQCPDDIDVVSIELVSEEFHARYNKHSKTYEFLVDAGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +P   +YA H  Y L+   M+EAA+  VG HDF+ F          N V++I +  V 
Sbjct: 120 PKNPMMRNYATHYPYPLSLAPMQEAAKDLVGTHDFTGFT--ASGTSVENKVRTITQASVS 177

Query: 206 --EMGALLQLEVEGSGFLYRQVRNMV 229
             E          G+GFLY+QVRNMV
Sbjct: 178 IDEKTGFYIFTFSGNGFLYKQVRNMV 203


>gi|307709543|ref|ZP_07645997.1| tRNA pseudouridine synthase A [Streptococcus mitis SK564]
 gi|307619674|gb|EFN98796.1| tRNA pseudouridine synthase A [Streptococcus mitis SK564]
          Length = 249

 Score =  124 bits (310), Expect = 5e-26,   Method: Compositional matrix adjust.
 Identities = 73/206 (35%), Positives = 106/206 (51%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDG  +AG+Q Q    ++Q  +EK L R+ K   + + + GA RTD+GVHA G
Sbjct: 3   RYKATISYDGYAFAGFQRQPHARSVQEEIEKTLTRLNK--GQTITVHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF   +  D  E +  AL+   P DI V  I     +FH R++  SK Y + +    
Sbjct: 61  QVIHFDLAYQMDE-EKLRFALDTQSPEDIDVISIELVADDFHCRYAKHSKTYEFIVDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFV--NIQRNDRALNPVKSIFRFD 203
             +P + HYA H  Y L+   M+ A +   G HDF+ F        D+     ++  R D
Sbjct: 120 PKNPMRRHYATHFPYPLDVERMQIAIKKLEGTHDFTGFTASGTSVEDKVRTITEASLRVD 179

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
             E G  L     G+GFLY+Q+RNMV
Sbjct: 180 --ETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|261401977|ref|ZP_05988102.1| tRNA pseudouridine synthase A [Neisseria lactamica ATCC 23970]
 gi|269207832|gb|EEZ74287.1| tRNA pseudouridine synthase A [Neisseria lactamica ATCC 23970]
          Length = 267

 Score =  124 bits (310), Expect = 5e-26,   Method: Compositional matrix adjust.
 Identities = 79/220 (35%), Positives = 112/220 (50%), Gaps = 13/220 (5%)

Query: 12  NTVKPPTDDSFPGFKWRLVIGYDGTRYAGWQFQTSP-PTIQCIVEKALIRVTKLEREDLR 70
           NT  P T       +W L + YDG+R+ GWQ Q    PT+Q  +E AL ++     E + 
Sbjct: 2   NTQPPDTQ------RWALTLSYDGSRFYGWQKQAGGVPTVQTALEDALAQIAG---ESVA 52

Query: 71  LVGASRTDTGVHAWGQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARF 130
              A RTDTGVHA  QV HF T         I    N  LP  I V       P FHARF
Sbjct: 53  TTVAGRTDTGVHATAQVVHFDTAARRPAQAWIRGT-NAALPEGIAVLHARQTSPGFHARF 111

Query: 131 SAKSKIYHYKIYNDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRND 190
            A  + Y Y + +  V  P   + A  +  KL+   MR+AA   VG+ DFS+F   +   
Sbjct: 112 DAYGRHYRYLLESSPVRSPLLKNRAGWTHLKLDIGPMRQAAALLVGEQDFSSFRAAE--C 169

Query: 191 RALNPVKSIFRFDVIEMGALLQLEVEGSGFLYRQVRNMVN 230
           +A +PVK+I+   + + G L++L++ G+ FL+  VRN++ 
Sbjct: 170 QAKSPVKTIYSATLAQTGGLIRLDLHGNAFLHHMVRNIMG 209


>gi|257868757|ref|ZP_05648410.1| tRNA pseudouridine synthase [Enterococcus gallinarum EG2]
 gi|357049656|ref|ZP_09110874.1| tRNA pseudouridine synthase A [Enterococcus saccharolyticus 30_1]
 gi|257802921|gb|EEV31743.1| tRNA pseudouridine synthase [Enterococcus gallinarum EG2]
 gi|355382990|gb|EHG30079.1| tRNA pseudouridine synthase A [Enterococcus saccharolyticus 30_1]
          Length = 246

 Score =  124 bits (310), Expect = 5e-26,   Method: Compositional matrix adjust.
 Identities = 73/200 (36%), Positives = 110/200 (55%), Gaps = 7/200 (3%)

Query: 28  RLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           +L I YDG RY GWQ    S  TIQ  +E  L   T++  E + ++G+ RTD G HA GQ
Sbjct: 5   KLTIEYDGKRYLGWQRLGDSDRTIQEKIESIL---TQMTNEKIEIIGSGRTDAGTHARGQ 61

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           VA+F T  S    E +   LN  LP DI ++E++ A   FHAR++A  K Y Y ++N  +
Sbjct: 62  VANFKTA-SDLSPEKMLQFLNRYLPQDIVIKEVAEASERFHARYNATGKQYSYYVWNSPI 120

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
              F+ H ++H   +L+   M+ A E F+G HDF  F  +++     +  ++I    +  
Sbjct: 121 PTVFERHRSFHCPQELDWDKMQAACEKFIGTHDFIGFSALKKT--KKSTTRTIEELSLTR 178

Query: 207 MGALLQLEVEGSGFLYRQVR 226
            G +L+   +G GFLY+ VR
Sbjct: 179 EGDMLRFRFKGDGFLYKMVR 198


>gi|339499824|ref|YP_004697859.1| tRNA pseudouridine synthase A [Spirochaeta caldaria DSM 7334]
 gi|338834173|gb|AEJ19351.1| tRNA pseudouridine synthase A [Spirochaeta caldaria DSM 7334]
          Length = 250

 Score =  123 bits (309), Expect = 5e-26,   Method: Compositional matrix adjust.
 Identities = 72/202 (35%), Positives = 111/202 (54%), Gaps = 5/202 (2%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           RLV+ YDGT ++GWQ Q    ++Q  +E AL    K+ +  ++L+G+ RTD GVHA GQV
Sbjct: 7   RLVVAYDGTDFSGWQRQGPDRSVQGDIEDALF---KMHKHPVQLIGSGRTDAGVHAIGQV 63

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
           A+FIT  S+   E    ALN +L  D+R+     A  +FHARF AKS+ Y Y I +    
Sbjct: 64  ANFITDISHIPAERFVPALNSILKRDVRILHAEEASLDFHARFDAKSRTYRYHIISGRHA 123

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
            P +  YA+    + N + +   A   +G+ D S F + +  D +L+  + I +      
Sbjct: 124 MPHELRYAWQIWRQPNISCLNAYARLLIGETDCSLFASPR--DPSLSRCRYISQARFFVA 181

Query: 208 GALLQLEVEGSGFLYRQVRNMV 229
           G  L  E+  + FL++ VR++V
Sbjct: 182 GTTLLFEITANAFLWKMVRSIV 203


>gi|71892269|ref|YP_278003.1| tRNA pseudouridine synthase A [Candidatus Blochmannia
           pennsylvanicus str. BPEN]
 gi|123775274|sp|Q492H3.1|TRUA_BLOPB RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|71796375|gb|AAZ41126.1| tRNA pseudouridine synthase A [Candidatus Blochmannia
           pennsylvanicus str. BPEN]
          Length = 261

 Score =  123 bits (309), Expect = 5e-26,   Method: Compositional matrix adjust.
 Identities = 70/201 (34%), Positives = 109/201 (54%), Gaps = 6/201 (2%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L I YDG+ Y GWQ Q   P+IQ  +E A+ ++T    E + +  A RTD+GVHA GQV 
Sbjct: 6   LGIEYDGSWYCGWQRQRDAPSIQSYIENAIKKITS---ESVTVFCAGRTDSGVHALGQVV 62

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           HF T +S     +    +N  LP  I VR       +FHARFSA S+ Y Y I N+ +  
Sbjct: 63  HFET-YSRRSKSAWTLGMNRYLPSSICVRWARLVNKDFHARFSAISRRYCYIINNNCIRS 121

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
                  +H    L+   M +AA+Y +G++DFS+F       ++ +  + ++   +I  G
Sbjct: 122 ALLFRKTWHYKKYLDINKMCDAAQYLLGENDFSSFR--AAGCQSYSARRKLYHIRIIRKG 179

Query: 209 ALLQLEVEGSGFLYRQVRNMV 229
             + ++++ + F+YR VRN+V
Sbjct: 180 QCIVIDIKANSFMYRMVRNIV 200


>gi|421227783|ref|ZP_15684485.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 2072047]
 gi|395594067|gb|EJG54307.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae 2072047]
          Length = 249

 Score =  123 bits (309), Expect = 5e-26,   Method: Compositional matrix adjust.
 Identities = 73/208 (35%), Positives = 107/208 (51%), Gaps = 11/208 (5%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDG  + G+Q Q    ++Q  +EK L R+ K   + + + GA RTD+GVHA G
Sbjct: 3   RYKATISYDGYAFDGFQRQPHARSVQEEIEKTLTRLNK--GQAITVHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D  E +  AL+   P DI V  I     +FH R++  SK Y + +    
Sbjct: 61  QVIHFDLPYQMDE-EKLRFALDTQSPEDIDVISIELVADDFHCRYAKHSKTYEFTVDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAF----VNIQRNDRALNPVKSIFR 201
             +P + HYA H  Y L+   M+ A +   G HDF+ F     +++   R +     I  
Sbjct: 120 PKNPMRRHYATHFPYPLDVERMQIAIKKLEGTHDFTGFTASGTSVEDKVRTITEASLI-- 177

Query: 202 FDVIEMGALLQLEVEGSGFLYRQVRNMV 229
             V E G  L     G+GFLY+Q+RNMV
Sbjct: 178 --VDETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|291042704|ref|ZP_06568449.1| tRNA pseudouridine synthase A [Neisseria gonorrhoeae DGI2]
 gi|291013373|gb|EFE05335.1| tRNA pseudouridine synthase A [Neisseria gonorrhoeae DGI2]
          Length = 265

 Score =  123 bits (309), Expect = 5e-26,   Method: Compositional matrix adjust.
 Identities = 74/206 (35%), Positives = 108/206 (52%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSP-PTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
           +W + + YDG+R+ GWQ Q    PT+Q  +E AL R+     E +    A RTDTGVHA 
Sbjct: 8   RWAITLSYDGSRFYGWQKQAGGVPTVQAALETALARIAG---ESVATTVAGRTDTGVHAA 64

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
            QV HF T  +      +   +N  LP  I V       P FHARF A  + Y Y + + 
Sbjct: 65  AQVVHFDTTAARPQQAWVRG-VNAHLPEGIAVLHARQVAPGFHARFDASGRHYRYLLESA 123

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
            V  P   + A  +  KL+   MR AA   VG+ DFS+F       +A +PVK+I+R  +
Sbjct: 124 PVRSPLLKNRAGWTHLKLDIEPMRRAASLLVGEQDFSSFRAA--GCQAKSPVKTIYRTGL 181

Query: 205 IEMGALLQLEVEGSGFLYRQVRNMVN 230
            +   L++L++ G+ FL+  VRN++ 
Sbjct: 182 TQSAGLIRLDLHGNAFLHHMVRNIMG 207


>gi|71280165|ref|YP_270466.1| tRNA pseudouridine synthase A [Colwellia psychrerythraea 34H]
 gi|123760979|sp|Q47XK4.1|TRUA_COLP3 RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|71145905|gb|AAZ26378.1| tRNA pseudouridine synthase A [Colwellia psychrerythraea 34H]
          Length = 259

 Score =  123 bits (309), Expect = 5e-26,   Method: Compositional matrix adjust.
 Identities = 73/205 (35%), Positives = 110/205 (53%), Gaps = 6/205 (2%)

Query: 25  FKWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
            ++ L I YDG  Y GWQ Q +  T+Q  +EKAL   +K+  E + +V A RTDTGV+A 
Sbjct: 1   MRYALGIEYDGKNYCGWQRQNNVITVQEKLEKAL---SKIADEKIEVVCAGRTDTGVNAT 57

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
            QV HF T        +    +N  LP D+ V  +     +FHARFSA ++ Y Y IYN 
Sbjct: 58  NQVIHFDTEKKRKD-TAWTLGVNTHLPSDVAVAWVKKVDDDFHARFSATARNYRYIIYNK 116

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
            +      H   H  + L+  LM++ A+Y +GKHDF++F  +     +   V++I    V
Sbjct: 117 PLRSAILSHGISHCHFALDENLMQQGADYLLGKHDFTSFRTVHCQSHS--AVRTIKHCRV 174

Query: 205 IEMGALLQLEVEGSGFLYRQVRNMV 229
              G  L ++++ + FL+  VRN+V
Sbjct: 175 TRQGDYLVVDIKANAFLHHMVRNVV 199


>gi|116627085|ref|YP_819704.1| tRNA pseudouridine synthase A [Streptococcus thermophilus LMD-9]
 gi|122268312|sp|Q03MR4.1|TRUA_STRTD RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|116100362|gb|ABJ65508.1| Pseudouridylate synthase [Streptococcus thermophilus LMD-9]
          Length = 248

 Score =  123 bits (309), Expect = 5e-26,   Method: Compositional matrix adjust.
 Identities = 77/206 (37%), Positives = 107/206 (51%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDGT ++G+Q Q +  +IQ  +EK L+R+       + + GA RTD GVHA+G
Sbjct: 3   RYKATISYDGTLFSGFQRQPNARSIQEEIEKTLLRLNS--GIPVTVHGAGRTDAGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P   D  E +   L+   P DI +  I     EFHAR+S   K Y + +    
Sbjct: 61  QVIHFDLPQERDP-EKLRFGLDTQCPDDIDIVSIELVSEEFHARYSKHIKTYEFLVDAGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +P   +YA H  Y L+  LM+EAA   VG HDF+ F          N V++I +  V 
Sbjct: 120 PKNPMMRNYAIHYPYPLSLALMQEAAMELVGTHDFTGFT--ASGTSVENKVRTITQASVS 177

Query: 206 --EMGALLQLEVEGSGFLYRQVRNMV 229
             E          G+GFLY+QVRNMV
Sbjct: 178 IDEKTGFYVFAFSGNGFLYKQVRNMV 203


>gi|393198978|ref|YP_006460820.1| pseudouridylate synthase [Solibacillus silvestris StLB046]
 gi|327438309|dbj|BAK14674.1| pseudouridylate synthase [Solibacillus silvestris StLB046]
          Length = 249

 Score =  123 bits (309), Expect = 5e-26,   Method: Compositional matrix adjust.
 Identities = 74/202 (36%), Positives = 103/202 (50%), Gaps = 6/202 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           + +  I YDGT +AG+Q Q    T+Q  +EK L  + K  +  +++  + RTD  VHA G
Sbjct: 3   RLKTTISYDGTGFAGYQVQPGERTVQLEIEKVLTTMQKGTQ--VKITASGRTDARVHATG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF T       E    ALN  LP DIRV  +     +FHAR+    K Y Y      
Sbjct: 61  QVIHFDTALEIPP-EKFQKALNVQLPRDIRVLHMEQVKEDFHARYDVSGKRYRYIWDCST 119

Query: 146 VMDPFQHHYAYHS-VYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
           V  PF+ HY   +   K N   MREAA+  VG HDFS F     N   ++ V+++   ++
Sbjct: 120 VQSPFRRHYTVETGGVKPNVEAMREAAKAIVGTHDFSCFCAA--NTSVVDKVRTVETLEL 177

Query: 205 IEMGALLQLEVEGSGFLYRQVR 226
           +  G  L + + G+GFLY  VR
Sbjct: 178 VWQGEELHMTISGNGFLYNMVR 199


>gi|423073078|ref|ZP_17061821.1| tRNA pseudouridine synthase A [Desulfitobacterium hafniense DP7]
 gi|361855908|gb|EHL07842.1| tRNA pseudouridine synthase A [Desulfitobacterium hafniense DP7]
          Length = 271

 Score =  123 bits (309), Expect = 5e-26,   Method: Compositional matrix adjust.
 Identities = 80/200 (40%), Positives = 104/200 (52%), Gaps = 8/200 (4%)

Query: 29  LVIGYDGTRYAGWQFQTS--PPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           L + YDGT Y G+Q Q     PTIQ  +E       KL  E++ L  A RTDTGVHA GQ
Sbjct: 9   LKVAYDGTHYHGFQRQPEFHGPTIQGTLEAVW---AKLVEEEVTLNTAGRTDTGVHAAGQ 65

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           V +F T      +  I  A N LLP DIR+     A   FHARFSAK K Y Y+I N  V
Sbjct: 66  VVNFRTGARIP-VAKIPKAFNSLLPRDIRILAAQEAAENFHARFSAKWKRYDYRIDNHPV 124

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
            D F   Y+ H   +L+   M++ A+Y VG+H+F AF       +     ++++   V E
Sbjct: 125 ADVFTRLYSLHEPVRLDWQRMQQGAQYLVGRHNFKAFSAAGGTSKTFE--RTLYLCQVAE 182

Query: 207 MGALLQLEVEGSGFLYRQVR 226
               L++   G GFLY  VR
Sbjct: 183 NQGHLRITCIGDGFLYNMVR 202


>gi|386859243|ref|YP_006271949.1| tRNA pseudouridine synthase A [Borrelia crocidurae str. Achema]
 gi|384934124|gb|AFI30797.1| tRNA pseudouridine synthase A [Borrelia crocidurae str. Achema]
          Length = 245

 Score =  123 bits (309), Expect = 5e-26,   Method: Compositional matrix adjust.
 Identities = 70/199 (35%), Positives = 110/199 (55%), Gaps = 6/199 (3%)

Query: 31  IGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVAHF 90
           I YDG+ Y G+Q Q + PTIQ  +EKAL    K+ +  +++  A RTD GVHA  Q+  F
Sbjct: 8   IAYDGSLYHGFQIQPTKPTIQGEIEKAL---EKINKTKVKIQSAGRTDKGVHAKRQIISF 64

Query: 91  ITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMDPF 150
               + + L+++  A+N LL  DIR+ ++     EF  RF AK + Y Y I N+    P+
Sbjct: 65  YIKININ-LKNLKTAINSLLKNDIRIIKLKYVSNEFQPRFHAKKRKYTYYILNNENHYPW 123

Query: 151 QHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMGAL 210
           + + AY+   KLN   +   AE  +G HDF+ F  I+  D+  + +K I+     +    
Sbjct: 124 EEYKAYYVRKKLNINRLNTMAEMLIGLHDFTTFSCIR--DKTNSKLKEIYLAKFKKKNKF 181

Query: 211 LQLEVEGSGFLYRQVRNMV 229
           +  E+ GS FL++ VR++V
Sbjct: 182 IVFEIIGSSFLWKMVRSIV 200


>gi|270293156|ref|ZP_06199367.1| tRNA pseudouridine synthase A [Streptococcus sp. M143]
 gi|270279135|gb|EFA24981.1| tRNA pseudouridine synthase A [Streptococcus sp. M143]
          Length = 249

 Score =  123 bits (309), Expect = 5e-26,   Method: Compositional matrix adjust.
 Identities = 72/206 (34%), Positives = 108/206 (52%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDG  +AG+Q Q    ++Q  +EK L R+ K   + + + GA RTD+GVHA G
Sbjct: 3   RYKAIISYDGYAFAGFQRQPHARSVQEEIEKTLTRLNK--GQAVTVHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           Q  HF  P+  +  E +  AL+   P DI V  I     +FH R++  SK Y + +    
Sbjct: 61  QAIHFDLPYQMNE-EKLRFALDTQSPEDIDVISIEIVADDFHCRYAKHSKTYEFIVDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFR--FD 203
             +P + HYA H  Y L+   M+EA +   G HDF+ F          + V++I      
Sbjct: 120 PKNPMRRHYATHFPYPLDVEQMQEAIKKLEGTHDFTGFT--ASGTSVEDKVRTITEASLS 177

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
           V + G  L     G+GFLY+Q+RNMV
Sbjct: 178 VDKTGQFLTFTFSGNGFLYKQIRNMV 203


>gi|424942487|ref|ZP_18358250.1| tRNA-pseudouridine synthase I [Pseudomonas aeruginosa NCMG1179]
 gi|346058933|dbj|GAA18816.1| tRNA-pseudouridine synthase I [Pseudomonas aeruginosa NCMG1179]
          Length = 285

 Score =  123 bits (309), Expect = 6e-26,   Method: Compositional matrix adjust.
 Identities = 77/203 (37%), Positives = 111/203 (54%), Gaps = 7/203 (3%)

Query: 29  LVIGYDGTRYAGWQFQTSP-PTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           L I Y G+RY GWQ Q +  P++Q  +E+AL   +K+  E + ++ A RTD  VHA GQV
Sbjct: 22  LGIEYKGSRYRGWQRQEAGVPSVQEALERAL---SKVAAEPVGVICAGRTDAAVHASGQV 78

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF T      L++     N  LP DI V         FHARFSA ++ Y Y IYND + 
Sbjct: 79  VHFDTAVERP-LKAWVMGTNANLPADISVTWARGMPAHFHARFSAMARRYRYAIYNDPIR 137

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
                     +   L+   MREAA+  VG HDF++F  +Q   +A +PVK++    ++E 
Sbjct: 138 PAHLAEEVTWNHRPLDIGRMREAAQVLVGTHDFTSFRAVQ--CQAKSPVKTMHHVRLLEH 195

Query: 208 GALLQLEVEGSGFLYRQVRNMVN 230
           G L+ L++ G+ FL+  VRN+  
Sbjct: 196 GRLIVLDIRGNAFLHHMVRNIAG 218


>gi|227824316|ref|ZP_03989148.1| tRNA pseudouridine synthase A [Acidaminococcus sp. D21]
 gi|352683828|ref|YP_004895812.1| tRNA pseudouridine synthase A [Acidaminococcus intestini RyC-MR95]
 gi|226904815|gb|EEH90733.1| tRNA pseudouridine synthase A [Acidaminococcus sp. D21]
 gi|350278482|gb|AEQ21672.1| tRNA pseudouridine synthase A [Acidaminococcus intestini RyC-MR95]
          Length = 253

 Score =  123 bits (309), Expect = 6e-26,   Method: Compositional matrix adjust.
 Identities = 79/202 (39%), Positives = 102/202 (50%), Gaps = 7/202 (3%)

Query: 30  VIGYDGTRYAGWQFQTSPPT-IQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           V+ YDGT Y G+Q Q      +Q ++EKAL   +    ED+ +  A RTD GVHA GQV 
Sbjct: 8   VVAYDGTNYQGFQRQKDYGVGVQQVLEKAL---STALHEDISIKAAGRTDAGVHALGQVI 64

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
            F T  S    E+   AL  LLPPDI +RE       FHARF A  K Y Y +    + D
Sbjct: 65  SFETS-SPIPPENYRRALQHLLPPDIAIREAFIKPDGFHARFDALDKTYRYTVLYAPLPD 123

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
           P    YA+     L    M EAA   VG HDFS+F N  +     +PV++++     +  
Sbjct: 124 PCARRYAWEVRSSLTLAAMNEAAALLVGTHDFSSFKN--QGSEKTSPVRTLYEAYWTQEK 181

Query: 209 ALLQLEVEGSGFLYRQVRNMVN 230
                 + G GFLYR VRN+V 
Sbjct: 182 ERFTFTIRGDGFLYRMVRNIVG 203


>gi|430743910|ref|YP_007203039.1| pseudouridylate synthase I [Singulisphaera acidiphila DSM 18658]
 gi|430015630|gb|AGA27344.1| pseudouridylate synthase I [Singulisphaera acidiphila DSM 18658]
          Length = 255

 Score =  123 bits (309), Expect = 6e-26,   Method: Compositional matrix adjust.
 Identities = 80/203 (39%), Positives = 106/203 (52%), Gaps = 8/203 (3%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGAS-RTDTGVHAWGQ 86
           +L++ YDGT ++GWQ Q    T+Q  +E+A+ R+T        +  AS RTD GVHA GQ
Sbjct: 5   KLLLSYDGTDFSGWQRQPDRRTVQQTLEEAIQRLTGAAA----VTNASGRTDAGVHAIGQ 60

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           V HF T  S    E    ALN  LP DIRVR        FH+    KSK Y Y I N  +
Sbjct: 61  VVHFYT-VSRHAPEVFVKALNATLPHDIRVRNAWDMPQAFHSTLDTKSKRYRYVIDNGRI 119

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
            DPFQ  Y+ H    L+   M  AA+   G+HDF +F   Q  +R  + V++I    V  
Sbjct: 120 ADPFQTRYSNHVYQPLDVAAMHRAAQALKGRHDFHSF-ETQWPNRT-SSVRTIVDIAVTR 177

Query: 207 MGALLQLEVEGSGFLYRQVRNMV 229
               + +EVE  GFLY  VR++ 
Sbjct: 178 RHDTVWVEVEADGFLYNMVRSIT 200


>gi|46908770|ref|YP_015159.1| tRNA pseudouridine synthase A [Listeria monocytogenes serotype 4b
           str. F2365]
 gi|47093538|ref|ZP_00231299.1| tRNA pseudouridine synthase A [Listeria monocytogenes str. 4b
           H7858]
 gi|226225144|ref|YP_002759251.1| pseudouridylate synthase I [Listeria monocytogenes serotype 4b str.
           CLIP 80459]
 gi|254825041|ref|ZP_05230042.1| tRNA pseudouridine synthase A [Listeria monocytogenes FSL J1-194]
 gi|254992719|ref|ZP_05274909.1| tRNA pseudouridine synthase A [Listeria monocytogenes FSL J2-064]
 gi|255520577|ref|ZP_05387814.1| tRNA pseudouridine synthase A [Listeria monocytogenes FSL J1-175]
 gi|386733283|ref|YP_006206779.1| tRNA pseudouridine synthase A [Listeria monocytogenes 07PF0776]
 gi|405753805|ref|YP_006677270.1| tRNA pseudouridine synthase A [Listeria monocytogenes SLCC2378]
 gi|406705333|ref|YP_006755687.1| tRNA pseudouridine synthase A [Listeria monocytogenes L312]
 gi|417313813|ref|ZP_12100519.1| tRNA pseudouridine synthase A [Listeria monocytogenes J1816]
 gi|424715408|ref|YP_007016123.1| tRNA pseudouridine synthase A [Listeria monocytogenes serotype 4b
           str. LL195]
 gi|51316671|sp|Q71WI0.1|TRUA_LISMF RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|259550404|sp|C1KZ13.1|TRUA_LISMC RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|46882043|gb|AAT05336.1| tRNA pseudouridine synthase A [Listeria monocytogenes serotype 4b
           str. F2365]
 gi|47018098|gb|EAL08870.1| tRNA pseudouridine synthase A [Listeria monocytogenes str. 4b
           H7858]
 gi|225877606|emb|CAS06320.1| Putative pseudouridylate synthase I [Listeria monocytogenes
           serotype 4b str. CLIP 80459]
 gi|293594283|gb|EFG02044.1| tRNA pseudouridine synthase A [Listeria monocytogenes FSL J1-194]
 gi|328468084|gb|EGF39090.1| tRNA pseudouridine synthase A [Listeria monocytogenes J1816]
 gi|384392041|gb|AFH81111.1| tRNA pseudouridine synthase A [Listeria monocytogenes 07PF0776]
 gi|404223005|emb|CBY74368.1| tRNA pseudouridine synthase A [Listeria monocytogenes SLCC2378]
 gi|406362363|emb|CBY68636.1| tRNA pseudouridine synthase A [Listeria monocytogenes L312]
 gi|424014592|emb|CCO65132.1| tRNA pseudouridine synthase A [Listeria monocytogenes serotype 4b
           str. LL195]
          Length = 248

 Score =  123 bits (309), Expect = 6e-26,   Method: Compositional matrix adjust.
 Identities = 69/202 (34%), Positives = 113/202 (55%), Gaps = 6/202 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDG+ + G+Q Q +  T+Q  +EKAL ++ K   + +R+  + RTDTGVHA G
Sbjct: 3   RYKAIISYDGSGFYGYQVQPNTRTVQAEIEKALTKMHK--GKTVRITASGRTDTGVHAKG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF +       E    AL  + P DI    +     +FHARF    K Y Y +    
Sbjct: 61  QVIHFDSELDITA-EKFQKALQVMTPFDISFLTVEEVPDDFHARFGTVGKEYRYVVKRTK 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           + DPF  ++A H  Y+L+ + M+ A++  +G+HDF++F +  R +R  + V++++  D  
Sbjct: 120 IFDPFSRNFALHYPYELDISKMKLASKRLIGEHDFTSFCS-ARTERD-SKVRTLYSIDFY 177

Query: 206 EM-GALLQLEVEGSGFLYRQVR 226
           E     L +  +G+GFLY  VR
Sbjct: 178 EEDDETLVIAFQGNGFLYNMVR 199


>gi|366087906|ref|ZP_09454391.1| tRNA pseudouridine synthase A [Lactobacillus zeae KCTC 3804]
          Length = 247

 Score =  123 bits (309), Expect = 6e-26,   Method: Compositional matrix adjust.
 Identities = 74/205 (36%), Positives = 114/205 (55%), Gaps = 7/205 (3%)

Query: 27  WRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           +++ + YDGT +AG+Q Q    T+Q +++KAL ++TK   + + + G+ RTD+GVHA GQ
Sbjct: 4   YKVTLAYDGTNFAGYQVQPKQRTVQGVLQKALTKMTK--GQPVHVDGSGRTDSGVHALGQ 61

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           V  F  P +    ES+  A+N L+P DI + +      +FHAR+SAK K Y Y++     
Sbjct: 62  VISFDYPGNIPA-ESMLRAMNSLMPLDIEILKAEIVAADFHARYSAKGKRYMYRVARGYY 120

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
            +PF   Y  H  YKL+   +  A +  VG HDF++F          + V++I+   V E
Sbjct: 121 TNPFNRLYTGHYPYKLDVARIEIALKDLVGTHDFTSFA--ASGGVIKDKVRTIYEATVRE 178

Query: 207 MGALLQL--EVEGSGFLYRQVRNMV 229
                +L  E  G+GFLY  VR +V
Sbjct: 179 DTTTNELIFEFYGNGFLYNMVRILV 203


>gi|405756718|ref|YP_006680182.1| tRNA pseudouridine synthase A [Listeria monocytogenes SLCC2540]
 gi|404225918|emb|CBY77280.1| tRNA pseudouridine synthase A [Listeria monocytogenes SLCC2540]
          Length = 248

 Score =  123 bits (309), Expect = 6e-26,   Method: Compositional matrix adjust.
 Identities = 69/202 (34%), Positives = 113/202 (55%), Gaps = 6/202 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDG+ + G+Q Q +  T+Q  +EKAL ++ K   + +R+  + RTDTGVHA G
Sbjct: 3   RYKAIISYDGSGFYGYQVQPNTRTVQAEIEKALTKMHK--GKTVRITASGRTDTGVHAKG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF +       E    AL  + P DI    +     +FHARF    K Y Y +    
Sbjct: 61  QVIHFDSELDITA-EKFQKALQVMTPFDISFLTVEEVPDDFHARFGTVGKEYRYVVKRTK 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           + DPF  ++A H  Y+L+ + M+ A++  +G+HDF++F +  R +R  + V++++  D  
Sbjct: 120 IFDPFSRNFALHYPYELDISKMKLASKRLIGEHDFTSFCS-ARTERD-SKVRTLYSIDFY 177

Query: 206 EM-GALLQLEVEGSGFLYRQVR 226
           E     L +  +G+GFLY  VR
Sbjct: 178 EEDDETLVIAFQGNGFLYNMVR 199


>gi|255025629|ref|ZP_05297615.1| tRNA pseudouridine synthase A [Listeria monocytogenes FSL J2-003]
          Length = 248

 Score =  123 bits (309), Expect = 6e-26,   Method: Compositional matrix adjust.
 Identities = 69/202 (34%), Positives = 113/202 (55%), Gaps = 6/202 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDG+ + G+Q Q +  T+Q  +EKAL ++ K   + +R+  + RTDTGVHA G
Sbjct: 3   RYKAIISYDGSGFYGYQVQPNTRTVQAEIEKALTKMHK--GKTVRITASGRTDTGVHAKG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF +       E    AL  + P DI    +     +FHARF    K Y Y +    
Sbjct: 61  QVIHFDSELDITA-EKFQKALQVMTPFDISFLTVEEVPDDFHARFGTVGKEYRYVVKRTK 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           + DPF  ++A H  Y+L+ + M+ A++  +G+HDF++F +  R +R  + V++++  D  
Sbjct: 120 IFDPFSRNFALHYPYELDISKMKLASKRLIGEHDFTSFCS-ARTERD-SKVRTLYSIDFY 177

Query: 206 EM-GALLQLEVEGSGFLYRQVR 226
           E     L +  +G+GFLY  VR
Sbjct: 178 EEDDETLVIAFQGNGFLYNMVR 199


>gi|153007028|ref|YP_001381353.1| tRNA pseudouridine synthase A [Anaeromyxobacter sp. Fw109-5]
 gi|152030601|gb|ABS28369.1| tRNA pseudouridine synthase A [Anaeromyxobacter sp. Fw109-5]
          Length = 245

 Score =  123 bits (309), Expect = 6e-26,   Method: Compositional matrix adjust.
 Identities = 80/207 (38%), Positives = 108/207 (52%), Gaps = 13/207 (6%)

Query: 28  RLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           +LV+ YDGTRY GWQ Q + P+IQ  VE+AL     L +E  R+  A RTD GVHA GQV
Sbjct: 5   KLVLEYDGTRYVGWQVQPNGPSIQAEVERAL---ATLHKEPRRVTAAGRTDAGVHARGQV 61

Query: 88  AHF--ITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
             F    P     L +    +N LLP ++ VR  S     F AR SA+ K Y Y + N  
Sbjct: 62  VSFPEARPLP---LAAYVKGMNALLPDEVAVRAASVEPDGFDARRSARGKRYRYVLENLE 118

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALN-PVKSIFRFDV 204
              P     A+     L+   MREA+ + +G+ DF+AF   Q  D A +  V+ + R DV
Sbjct: 119 TRAPLSRLQAWQLFGALDVGAMREASRHLLGRQDFAAF---QAADCACDHAVREVHRLDV 175

Query: 205 I-EMGALLQLEVEGSGFLYRQVRNMVN 230
           + E    ++L VE + F+   VRN V 
Sbjct: 176 LGEPSGRVELVVEATAFVKHMVRNFVG 202


>gi|317471507|ref|ZP_07930858.1| tRNA pseudouridine synthase [Anaerostipes sp. 3_2_56FAA]
 gi|316901002|gb|EFV22965.1| tRNA pseudouridine synthase [Anaerostipes sp. 3_2_56FAA]
          Length = 249

 Score =  123 bits (308), Expect = 6e-26,   Method: Compositional matrix adjust.
 Identities = 72/202 (35%), Positives = 108/202 (53%), Gaps = 9/202 (4%)

Query: 28  RLVIGYDGTRYAGWQF---QTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
           RL I YDGTRY GWQ      +  TIQ  +E  L   +K+  E ++++G+ RTD GVHA 
Sbjct: 7   RLKIEYDGTRYQGWQKLGKNANASTIQGKLESVL---SKMTGESIQIIGSGRTDAGVHAC 63

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           GQ+A+F T  S+   E I   L   LP DI +         FH+R +AK K Y Y+I   
Sbjct: 64  GQIANFHTDCSFSCRE-IKEYLTKYLPSDIGIVTADEVSERFHSRLNAKQKTYQYRIAIP 122

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
             ++ F+  Y +     LN   M +AA + +G HDF  F ++++  ++   V++I+   +
Sbjct: 123 GTVNVFERKYLWKYPETLNIEKMNKAAAFCLGTHDFLGFSSVKKTKKS--TVRTIYSIVI 180

Query: 205 IEMGALLQLEVEGSGFLYRQVR 226
            E  + ++L   G GFLY  VR
Sbjct: 181 EEEHSEIRLSFTGDGFLYNMVR 202


>gi|357024212|ref|ZP_09086373.1| tRNA pseudouridine synthase A [Mesorhizobium amorphae CCNWGS0123]
 gi|355543898|gb|EHH13013.1| tRNA pseudouridine synthase A [Mesorhizobium amorphae CCNWGS0123]
          Length = 255

 Score =  123 bits (308), Expect = 7e-26,   Method: Compositional matrix adjust.
 Identities = 76/208 (36%), Positives = 118/208 (56%), Gaps = 9/208 (4%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           ++RL I YDG+++AGWQ Q   P++Q  +E+A+ R      E++RL  A RTD GVHA  
Sbjct: 3   RFRLDIEYDGSQFAGWQHQADQPSVQQAIEQAIERFCG---EEVRLRAAGRTDAGVHATA 59

Query: 86  QVAHFITPFSYDGLESIHAALNGLLP-PDIRVREI-SAAVPE-FHARFSAKSKIYHYKIY 142
           QVAH     ++ G + +  A+N  L     R+  + +AAVP+ F ARFSA  + Y Y+I 
Sbjct: 60  QVAHVDLAKAWPG-DKVRDAVNAHLQMAGARIALLKAAAVPDGFDARFSATGRHYLYRIL 118

Query: 143 NDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRF 202
           N       +    +    +L+   M EAA+  +G+HDF+ F + Q   +A +PV+++ R 
Sbjct: 119 NRRAPSALEKGKVWWVPKRLDAAAMHEAAKLLLGRHDFTTFRSTQ--CQADSPVRTLDRI 176

Query: 203 DVIEMGALLQLEVEGSGFLYRQVRNMVN 230
           DV   G L+++      FL+ QVR+MV 
Sbjct: 177 DVSREGDLIEVRASARSFLHNQVRSMVG 204


>gi|167746683|ref|ZP_02418810.1| hypothetical protein ANACAC_01394 [Anaerostipes caccae DSM 14662]
 gi|167653643|gb|EDR97772.1| tRNA pseudouridine synthase A [Anaerostipes caccae DSM 14662]
          Length = 249

 Score =  123 bits (308), Expect = 7e-26,   Method: Compositional matrix adjust.
 Identities = 72/202 (35%), Positives = 108/202 (53%), Gaps = 9/202 (4%)

Query: 28  RLVIGYDGTRYAGWQF---QTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAW 84
           RL I YDGTRY GWQ      +  TIQ  +E  L   +K+  E ++++G+ RTD GVHA 
Sbjct: 7   RLKIEYDGTRYQGWQKLGKNANASTIQGKLESVL---SKMTGESIQIIGSGRTDAGVHAC 63

Query: 85  GQVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYND 144
           GQ+A+F T  S+   E I   L   LP DI +         FH+R +AK K Y Y+I   
Sbjct: 64  GQIANFHTDCSFSCRE-IKEYLTKYLPSDIGIVTADEVSERFHSRLNAKQKTYQYRIAIP 122

Query: 145 AVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
             ++ F+  Y +     LN   M +AA + +G HDF  F ++++  ++   V++I+   +
Sbjct: 123 GTVNVFERKYLWKYPETLNIEKMNKAAAFCLGTHDFLGFSSVKKTKKS--TVRTIYSIVI 180

Query: 205 IEMGALLQLEVEGSGFLYRQVR 226
            E  + ++L   G GFLY  VR
Sbjct: 181 EEEHSEIRLSFTGDGFLYNMVR 202


>gi|418977407|ref|ZP_13525226.1| tRNA pseudouridine synthase A [Streptococcus mitis SK575]
 gi|383349924|gb|EID27838.1| tRNA pseudouridine synthase A [Streptococcus mitis SK575]
          Length = 249

 Score =  123 bits (308), Expect = 7e-26,   Method: Compositional matrix adjust.
 Identities = 73/206 (35%), Positives = 106/206 (51%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDG  +AG+Q Q    ++Q  +EK L R+ K   + + + GA RTD+GVHA G
Sbjct: 3   RYKATISYDGYAFAGFQRQPHARSVQEEIEKTLTRLNK--GQGITVHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  +  E +  AL+     DI V  I     +FH R++  SK Y + +    
Sbjct: 61  QVIHFDLPYQMNE-EKLRFALDTQSSEDIDVISIELVSDDFHCRYAKHSKTYEFIVDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFV--NIQRNDRALNPVKSIFRFD 203
             DP + HYA H  Y L+   M+ A +   G HDF+ F        D+     ++  R D
Sbjct: 120 PKDPMRRHYATHFPYPLDVERMQIAIKKLEGTHDFTGFTASGTSVEDKVRTITEASLRVD 179

Query: 204 VIEMGALLQLEVEGSGFLYRQVRNMV 229
             E G  L     G+GFLY+Q+RNMV
Sbjct: 180 --ETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|160894208|ref|ZP_02074986.1| hypothetical protein CLOL250_01762 [Clostridium sp. L2-50]
 gi|156864241|gb|EDO57672.1| tRNA pseudouridine synthase A [Clostridium sp. L2-50]
          Length = 273

 Score =  123 bits (308), Expect = 7e-26,   Method: Compositional matrix adjust.
 Identities = 75/202 (37%), Positives = 108/202 (53%), Gaps = 8/202 (3%)

Query: 27  WRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           +R +I YDGTRY GW+ +    TIQ  +E  L   + +  E++R+ GA RTD GVHA   
Sbjct: 28  YRFLIAYDGTRYHGWEHKKDVVTIQGKIESVL---SLMAGEEVRINGAGRTDAGVHARAM 84

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           VA    P +    E I   +N  LP DI + E++ A   FHARF+AK K Y Y IY   +
Sbjct: 85  VASGPVP-TDKTPEEIRDYMNHYLPDDICILEVTPAAERFHARFNAKGKHYRYTIYRGRL 143

Query: 147 MDPFQHHYAY--HSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDV 204
              F   Y +       ++   MR+AA Y VG+HDF +F   ++  ++   V+ +F  D+
Sbjct: 144 KPVFDRKYVWTLDEGETIDCERMRKAAAYLVGEHDFKSFCGNKQMKKST--VRKLFAIDI 201

Query: 205 IEMGALLQLEVEGSGFLYRQVR 226
            E G  + L+  G+GFL   VR
Sbjct: 202 KEDGDYVILDFYGAGFLQNMVR 223


>gi|435853007|ref|YP_007314326.1| pseudouridylate synthase I [Halobacteroides halobius DSM 5150]
 gi|433669418|gb|AGB40233.1| pseudouridylate synthase I [Halobacteroides halobius DSM 5150]
          Length = 247

 Score =  123 bits (308), Expect = 7e-26,   Method: Compositional matrix adjust.
 Identities = 76/207 (36%), Positives = 116/207 (56%), Gaps = 11/207 (5%)

Query: 27  WRLVIGYDGTRYAGWQ---FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHA 83
            + VI YDGT Y G+Q    QT   T+Q  +E  + +V K   +++ ++GASRTD  VHA
Sbjct: 4   LKCVIAYDGTNYHGFQRQPHQTHVATVQGRLESTIKQVIK---QEVDIIGASRTDADVHA 60

Query: 84  WGQVAHFITPFSY-DGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIY 142
            GQV +     S   G  S+  ALN  LP DI + + +    +FHAR+ ++ K Y+Y++Y
Sbjct: 61  EGQVFNCYLDCSIPTGKFSL--ALNTRLPNDIVILDTTEVDAKFHARYHSQGKKYYYQVY 118

Query: 143 NDAVMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRF 202
            D    PF  +YAYH  + L+   +++A  Y  GKHDFS+F     N  A +P+++I   
Sbjct: 119 YDQFPSPFLRNYAYHVYHHLDLDAIKDALPYLEGKHDFSSFRAAGCN--ASSPIRTIHNL 176

Query: 203 DVIEMGALLQLEVEGSGFLYRQVRNMV 229
            + +   L+   + G GFLY+ VR +V
Sbjct: 177 SMEQKDNLITFSIYGDGFLYKMVRTIV 203


>gi|340397983|ref|YP_004727008.1| tRNA pseudouridine synthase A [Streptococcus salivarius CCHSS3]
 gi|338741976|emb|CCB92481.1| tRNA pseudouridine synthase A (tRNA-uridine isomerase I) (tRNA
           pseudouridylate synthase I) [Streptococcus salivarius
           CCHSS3]
          Length = 248

 Score =  123 bits (308), Expect = 7e-26,   Method: Compositional matrix adjust.
 Identities = 74/208 (35%), Positives = 108/208 (51%), Gaps = 11/208 (5%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDGT ++G+Q Q +  +IQ  +EK L+R+       + + GA RTD GVHA+G
Sbjct: 3   RYKATISYDGTLFSGFQRQPNARSIQEELEKTLLRLNS--GTPVTVHGAGRTDAGVHAYG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P   D  E +   L+   P DI V  I     EFHAR++  SK Y + +    
Sbjct: 61  QVIHFDLPQERDP-EKLRFGLDTQCPDDIDVVSIELVSEEFHARYNKHSKTYEFLVDAGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAF----VNIQRNDRALNPVKSIFR 201
             +P   +YA H  Y L+   M+EAA+  VG HDF+ F     +++  +R +        
Sbjct: 120 PKNPMMRNYATHYPYPLSLAPMQEAAKDLVGTHDFTGFTASGTSVENKERTITQAS---- 175

Query: 202 FDVIEMGALLQLEVEGSGFLYRQVRNMV 229
             + E          G+GFLY+QVRNMV
Sbjct: 176 VSIDEKTGFYIFTFSGNGFLYKQVRNMV 203


>gi|307943162|ref|ZP_07658507.1| tRNA pseudouridine synthase A [Roseibium sp. TrichSKD4]
 gi|307773958|gb|EFO33174.1| tRNA pseudouridine synthase A [Roseibium sp. TrichSKD4]
          Length = 271

 Score =  123 bits (308), Expect = 7e-26,   Method: Compositional matrix adjust.
 Identities = 80/211 (37%), Positives = 116/211 (54%), Gaps = 17/211 (8%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++L + YDG  + GWQ Q++ P+ Q ++E+A   +     ED+ + GA RTDTGVHA G
Sbjct: 3   RYKLTVEYDGRPFCGWQRQSNGPSAQGVIERA---IKAFSGEDVTIGGAGRTDTGVHALG 59

Query: 86  QVAHFITPFSYDGLE-SIHAALNGLLPPD-IRVREISAAVPEFHARFSAKSKIYHYKIYN 143
           QVAH     S D  E ++  ALN    PD + +         F ARFSA  + Y Y+I+N
Sbjct: 60  QVAH--ADLSEDWPEKTVMGALNFHCQPDPVVILACEKKHDGFDARFSAIRRSYRYRIHN 117

Query: 144 DAVMDPFQHH--YAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDR--ALNPVKSI 199
              + P  H    A+H  ++L+   M EAA+ FVG HDF+ F    R+ R  A +PVK++
Sbjct: 118 R--LPPLTHELGLAWHVKHELDADAMNEAAQEFVGHHDFTTF----RHSRCQAKSPVKTL 171

Query: 200 FRFDVIEMGALLQLEVEGSGFLYRQVRNMVN 230
             F V   G ++  E     FL+ QVR+MV 
Sbjct: 172 ENFTVRREGEIILAECSSRSFLHNQVRSMVG 202


>gi|149006661|ref|ZP_01830347.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae SP18-BS74]
 gi|418096699|ref|ZP_12733810.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA16531]
 gi|147761576|gb|EDK68540.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae SP18-BS74]
 gi|353768420|gb|EHD48944.1| tRNA pseudouridine synthase A [Streptococcus pneumoniae GA16531]
          Length = 249

 Score =  123 bits (308), Expect = 7e-26,   Method: Compositional matrix adjust.
 Identities = 73/206 (35%), Positives = 107/206 (51%), Gaps = 7/206 (3%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++  I YDG  + G+Q Q    ++Q  +EK L R+ K   + + + GA RTD+GVHA G
Sbjct: 3   RYKATISYDGYAFDGFQRQPHARSVQEEIEKTLTRLNK--GQTITVHGAGRTDSGVHALG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF  P+  D  E +  AL+   P DI V  I     +FH R++  SK Y + +    
Sbjct: 61  QVIHFDLPYQMDE-EKLRFALDTQSPEDIDVISIELVADDFHCRYAKHSKTYEFIVDRGR 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
             +P + HYA H  Y L+   M+ A +   G HDF+ F          + V++I    +I
Sbjct: 120 PKNPMRRHYATHFPYPLDVERMQIAIKKLEGTHDFTGFT--ASGTSVEDKVRTITEASLI 177

Query: 206 --EMGALLQLEVEGSGFLYRQVRNMV 229
             E G  L     G+GFLY+Q+RNMV
Sbjct: 178 VDETGQFLTFTFSGNGFLYKQIRNMV 203


>gi|421173688|ref|ZP_15631426.1| tRNA pseudouridine synthase A, partial [Pseudomonas aeruginosa
           CI27]
 gi|404535440|gb|EKA45137.1| tRNA pseudouridine synthase A, partial [Pseudomonas aeruginosa
           CI27]
          Length = 274

 Score =  123 bits (308), Expect = 7e-26,   Method: Compositional matrix adjust.
 Identities = 77/203 (37%), Positives = 111/203 (54%), Gaps = 7/203 (3%)

Query: 29  LVIGYDGTRYAGWQFQTSP-PTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           L I Y G+RY GWQ Q +  P++Q  +E+AL   +K+  E + ++ A RTD  VHA GQV
Sbjct: 11  LGIEYKGSRYRGWQRQEAGVPSVQEALERAL---SKVAAEPVGVICAGRTDAAVHASGQV 67

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF T      L++     N  LP DI V         FHARFSA ++ Y Y IYND + 
Sbjct: 68  VHFDTAVERP-LKAWVMGTNANLPADISVTWARVMPAHFHARFSAMARRYRYAIYNDPIR 126

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
                     +   L+   MREAA+  VG HDF++F  +Q   +A +PVK++    ++E 
Sbjct: 127 PAHLAEEVTWNHRPLDIGRMREAAQVLVGTHDFTSFRAVQ--CQAKSPVKTMHHVRLLEH 184

Query: 208 GALLQLEVEGSGFLYRQVRNMVN 230
           G L+ L++ G+ FL+  VRN+  
Sbjct: 185 GRLIVLDIRGNAFLHHMVRNIAG 207


>gi|258540648|ref|YP_003175147.1| tRNA pseudouridine synthase A [Lactobacillus rhamnosus Lc 705]
 gi|385836286|ref|YP_005874061.1| tRNA pseudouridine synthase A [Lactobacillus rhamnosus ATCC 8530]
 gi|257152324|emb|CAR91296.1| tRNA pseudouridine synthase A [Lactobacillus rhamnosus Lc 705]
 gi|355395778|gb|AER65208.1| tRNA pseudouridine synthase A [Lactobacillus rhamnosus ATCC 8530]
          Length = 247

 Score =  123 bits (308), Expect = 7e-26,   Method: Compositional matrix adjust.
 Identities = 74/205 (36%), Positives = 114/205 (55%), Gaps = 7/205 (3%)

Query: 27  WRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           +++ + YDGT +AG+Q Q    T+Q +++KAL ++ K   + + + G+ RTD+GVHA GQ
Sbjct: 4   YKVTLAYDGTNFAGYQVQPKQRTVQGVLQKALTKMAK--GQPVHVDGSGRTDSGVHALGQ 61

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           V  F  P +    ES+  A+N L+P DI + +      +FHAR+SAK K Y Y++     
Sbjct: 62  VISFDYPGNIPA-ESMLRAMNSLMPLDIEILKAEIVAADFHARYSAKGKRYRYRVARGYY 120

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
            +PF   Y  H  YKL+   +  A +  VG HDF++F          + V++I+   V E
Sbjct: 121 TNPFNRLYTGHYPYKLDVKRIEVALKDLVGTHDFTSFA--ASGGVIKDKVRTIYEATVEE 178

Query: 207 MGALLQL--EVEGSGFLYRQVRNMV 229
             A  +L  E  G+GFLY  VR +V
Sbjct: 179 DPATNELIFEFYGNGFLYNMVRILV 203


>gi|293572050|ref|ZP_06683062.1| tRNA pseudouridine synthase A [Enterococcus faecium E980]
 gi|431738808|ref|ZP_19527750.1| tRNA pseudouridine synthase A [Enterococcus faecium E1972]
 gi|291607912|gb|EFF37222.1| tRNA pseudouridine synthase A [Enterococcus faecium E980]
 gi|430596921|gb|ELB34733.1| tRNA pseudouridine synthase A [Enterococcus faecium E1972]
          Length = 246

 Score =  123 bits (308), Expect = 7e-26,   Method: Compositional matrix adjust.
 Identities = 69/200 (34%), Positives = 111/200 (55%), Gaps = 7/200 (3%)

Query: 28  RLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           +L I YDG RY+GWQ       TIQ  +EK L ++T    E++ ++G+ RTD G HA GQ
Sbjct: 5   KLTIEYDGKRYSGWQRLGDDDKTIQGKIEKVLHQMTN---EEIEIIGSGRTDAGTHARGQ 61

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           VA+F T  S  GL  +   +N  LP DI ++ I      FHAR++A  K Y Y ++N+ +
Sbjct: 62  VANFKTN-SEIGLAEMIDFMNRYLPRDIVIKRIEEMPERFHARYNAVGKKYSYYVWNNVI 120

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
              F+ +++++   +L+   +  A E  +G HDF  F  ++++ ++   V++I    +  
Sbjct: 121 PSAFERNHSFYFPQELDMDKLNAACEKLMGTHDFIGFSALKKSKKS--TVRTIDELSIER 178

Query: 207 MGALLQLEVEGSGFLYRQVR 226
            G +L     G GFLY+ VR
Sbjct: 179 KGEMLHFTFVGDGFLYKMVR 198


>gi|257900124|ref|ZP_05679777.1| tRNA pseudouridine synthase [Enterococcus faecium Com15]
 gi|257838036|gb|EEV63110.1| tRNA pseudouridine synthase [Enterococcus faecium Com15]
          Length = 247

 Score =  123 bits (308), Expect = 7e-26,   Method: Compositional matrix adjust.
 Identities = 69/200 (34%), Positives = 111/200 (55%), Gaps = 7/200 (3%)

Query: 28  RLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           +L I YDG RY+GWQ       TIQ  +EK L ++T    E++ ++G+ RTD G HA GQ
Sbjct: 5   KLTIEYDGKRYSGWQRLGDDDKTIQGKIEKVLHQMTN---EEIEIIGSGRTDAGTHARGQ 61

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           VA+F T  S  GL  +   +N  LP DI ++ I      FHAR++A  K Y Y ++N+ +
Sbjct: 62  VANFKTN-SEIGLAEMIDFMNRYLPRDIVIKRIEEMPERFHARYNAVGKKYSYYVWNNVI 120

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
              F+ +++++   +L+   +  A E  +G HDF  F  ++++ ++   V++I    +  
Sbjct: 121 PSAFERNHSFYFPQELDMDKLNAACEKLMGTHDFIGFSALKKSKKS--TVRTIDELSIER 178

Query: 207 MGALLQLEVEGSGFLYRQVR 226
            G +L     G GFLY+ VR
Sbjct: 179 KGEMLHFTFVGDGFLYKMVR 198


>gi|258509450|ref|YP_003172201.1| tRNA pseudouridine synthase A [Lactobacillus rhamnosus GG]
 gi|385829084|ref|YP_005866856.1| tRNA pseudouridine synthase [Lactobacillus rhamnosus GG]
 gi|257149377|emb|CAR88350.1| tRNA pseudouridine synthase A [Lactobacillus rhamnosus GG]
 gi|259650729|dbj|BAI42891.1| tRNA pseudouridine synthase [Lactobacillus rhamnosus GG]
          Length = 247

 Score =  123 bits (308), Expect = 7e-26,   Method: Compositional matrix adjust.
 Identities = 74/205 (36%), Positives = 114/205 (55%), Gaps = 7/205 (3%)

Query: 27  WRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           +++ + YDGT +AG+Q Q    T+Q +++KAL ++ K   + + + G+ RTD+GVHA GQ
Sbjct: 4   YKVTLAYDGTNFAGYQVQPKQRTVQGVLQKALTKMAK--GQPVHVDGSGRTDSGVHALGQ 61

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           V  F  P +    ES+  A+N L+P DI + +      +FHAR+SAK K Y Y++     
Sbjct: 62  VISFDYPGNIPA-ESMLRAMNSLMPLDIEILKAEIVAADFHARYSAKGKRYRYRVARGYY 120

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
            +PF   Y  H  YKL+   +  A +  VG HDF++F          + V++I+   V E
Sbjct: 121 TNPFNRLYTGHYPYKLDVKRIEVALKDLVGTHDFTSFA--ASGGVIKDKVRTIYEATVEE 178

Query: 207 MGALLQL--EVEGSGFLYRQVRNMV 229
             A  +L  E  G+GFLY  VR +V
Sbjct: 179 DPAANELVFEFYGNGFLYNMVRILV 203


>gi|422698342|ref|ZP_16756255.1| tRNA pseudouridine synthase A [Enterococcus faecalis TX1346]
 gi|315173151|gb|EFU17168.1| tRNA pseudouridine synthase A [Enterococcus faecalis TX1346]
          Length = 877

 Score =  123 bits (308), Expect = 7e-26,   Method: Compositional matrix adjust.
 Identities = 71/203 (34%), Positives = 115/203 (56%), Gaps = 7/203 (3%)

Query: 28  RLVIGYDGTRYAGWQ-FQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQ 86
           +L I YDG RY+GWQ    S  TIQ  +E  L   T++  E + ++G+ RTD G HA GQ
Sbjct: 636 KLTIEYDGKRYSGWQRLGNSEKTIQGKIESIL---TQMTGEPIEIIGSGRTDAGTHARGQ 692

Query: 87  VAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAV 146
           VA+F T  S    E + + LN  LP DI V+E++     FHAR++A  K Y Y ++N  +
Sbjct: 693 VANFKTTSSLTTTEML-SFLNRYLPGDIVVKEVTEMPERFHARYNATGKQYSYYVWNSPI 751

Query: 147 MDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIE 206
            + F+ ++++H    L+   M +A +  +G HDF  F  +++  ++    ++I +  +  
Sbjct: 752 PNAFERYHSFHFPKALDQEKMEQACQKLIGTHDFIGFSALKKTKKST--TRTIEKITIER 809

Query: 207 MGALLQLEVEGSGFLYRQVRNMV 229
            G +LQ    G+GFL++ VR +V
Sbjct: 810 NGKMLQFTFVGNGFLHKMVRILV 832


>gi|16804636|ref|NP_466121.1| tRNA pseudouridine synthase A [Listeria monocytogenes EGD-e]
 gi|254829047|ref|ZP_05233734.1| truA [Listeria monocytogenes FSL N3-165]
 gi|254912843|ref|ZP_05262855.1| tRNA pseudouridine synthase A [Listeria monocytogenes J2818]
 gi|254937223|ref|ZP_05268920.1| truA [Listeria monocytogenes F6900]
 gi|255029029|ref|ZP_05300980.1| tRNA pseudouridine synthase A [Listeria monocytogenes LO28]
 gi|284800516|ref|YP_003412381.1| tRNA pseudouridine synthase A [Listeria monocytogenes 08-5578]
 gi|284993702|ref|YP_003415470.1| tRNA pseudouridine synthase A [Listeria monocytogenes 08-5923]
 gi|386044906|ref|YP_005963711.1| tRNA pseudouridine synthase A [Listeria monocytogenes 10403S]
 gi|386048328|ref|YP_005966660.1| tRNA pseudouridine synthase A [Listeria monocytogenes J0161]
 gi|386051570|ref|YP_005969561.1| tRNA pseudouridine synthase A [Listeria monocytogenes FSL R2-561]
 gi|386054788|ref|YP_005972346.1| tRNA pseudouridine synthase A [Listeria monocytogenes Finland 1998]
 gi|404285094|ref|YP_006685991.1| tRNA pseudouridine synthase A [Listeria monocytogenes SLCC2372]
 gi|404411848|ref|YP_006697436.1| tRNA pseudouridine synthase A [Listeria monocytogenes SLCC5850]
 gi|404414674|ref|YP_006700261.1| tRNA pseudouridine synthase A [Listeria monocytogenes SLCC7179]
 gi|405759651|ref|YP_006688927.1| tRNA pseudouridine synthase A [Listeria monocytogenes SLCC2479]
 gi|24212550|sp|Q8Y457.1|TRUA_LISMO RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|16412086|emb|CAD00676.1| truA [Listeria monocytogenes EGD-e]
 gi|258601456|gb|EEW14781.1| truA [Listeria monocytogenes FSL N3-165]
 gi|258609828|gb|EEW22436.1| truA [Listeria monocytogenes F6900]
 gi|284056078|gb|ADB67019.1| tRNA pseudouridine synthase A [Listeria monocytogenes 08-5578]
 gi|284059169|gb|ADB70108.1| tRNA pseudouridine synthase A [Listeria monocytogenes 08-5923]
 gi|293590841|gb|EFF99175.1| tRNA pseudouridine synthase A [Listeria monocytogenes J2818]
 gi|345535319|gb|AEO04760.1| tRNA pseudouridine synthase A [Listeria monocytogenes J0161]
 gi|345538140|gb|AEO07580.1| tRNA pseudouridine synthase A [Listeria monocytogenes 10403S]
 gi|346425416|gb|AEO26941.1| tRNA pseudouridine synthase A [Listeria monocytogenes FSL R2-561]
 gi|346647439|gb|AEO40064.1| tRNA pseudouridine synthase A [Listeria monocytogenes Finland 1998]
 gi|404231674|emb|CBY53078.1| tRNA pseudouridine synthase A [Listeria monocytogenes SLCC5850]
 gi|404234596|emb|CBY55999.1| tRNA pseudouridine synthase A [Listeria monocytogenes SLCC2372]
 gi|404237533|emb|CBY58935.1| tRNA pseudouridine synthase A [Listeria monocytogenes SLCC2479]
 gi|404240373|emb|CBY61774.1| tRNA pseudouridine synthase A [Listeria monocytogenes SLCC7179]
          Length = 248

 Score =  123 bits (308), Expect = 8e-26,   Method: Compositional matrix adjust.
 Identities = 69/202 (34%), Positives = 113/202 (55%), Gaps = 6/202 (2%)

Query: 26  KWRLVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWG 85
           +++ +I YDG+ + G+Q Q +  T+Q  +EKAL ++ K   + +R+  + RTDTGVHA G
Sbjct: 3   RYKAIISYDGSGFYGYQVQPNTRTVQAEIEKALTKMHK--GKTVRVTASGRTDTGVHAKG 60

Query: 86  QVAHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDA 145
           QV HF +       E    AL  + P DI    +     +FHARF    K Y Y +    
Sbjct: 61  QVIHFDSELDITA-EKFQKALQVMTPFDISFLTVEEVPDDFHARFGTVGKEYRYVVKRTK 119

Query: 146 VMDPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVI 205
           + DPF  ++A H  Y+L+ + M+ A++  +G+HDF++F +  R +R  + V++++  D  
Sbjct: 120 IFDPFSRNFALHYPYELDISKMKLASKRLIGEHDFTSFCS-ARTERD-SKVRTLYSIDFY 177

Query: 206 EM-GALLQLEVEGSGFLYRQVR 226
           E     L +  +G+GFLY  VR
Sbjct: 178 EEDDETLVIAFQGNGFLYNMVR 199


>gi|15598310|ref|NP_251804.1| tRNA pseudouridine synthase A [Pseudomonas aeruginosa PAO1]
 gi|107102663|ref|ZP_01366581.1| hypothetical protein PaerPA_01003728 [Pseudomonas aeruginosa PACS2]
 gi|218890685|ref|YP_002439549.1| tRNA pseudouridine synthase A [Pseudomonas aeruginosa LESB58]
 gi|254236084|ref|ZP_04929407.1| tRNA-pseudouridine synthase I [Pseudomonas aeruginosa C3719]
 gi|254241809|ref|ZP_04935131.1| tRNA-pseudouridine synthase I [Pseudomonas aeruginosa 2192]
 gi|296388384|ref|ZP_06877859.1| tRNA pseudouridine synthase A [Pseudomonas aeruginosa PAb1]
 gi|313108437|ref|ZP_07794441.1| tRNA-pseudouridine synthase I [Pseudomonas aeruginosa 39016]
 gi|386057915|ref|YP_005974437.1| tRNA pseudouridine synthase A [Pseudomonas aeruginosa M18]
 gi|386067149|ref|YP_005982453.1| tRNA pseudouridine synthase A [Pseudomonas aeruginosa NCGM2.S1]
 gi|392983161|ref|YP_006481748.1| tRNA pseudouridine synthase A [Pseudomonas aeruginosa DK2]
 gi|416860906|ref|ZP_11914441.1| tRNA pseudouridine synthase A [Pseudomonas aeruginosa 138244]
 gi|416885612|ref|ZP_11922526.1| tRNA pseudouridine synthase A [Pseudomonas aeruginosa 152504]
 gi|418588632|ref|ZP_13152636.1| tRNA pseudouridine synthase A [Pseudomonas aeruginosa MPAO1/P1]
 gi|418593267|ref|ZP_13157117.1| tRNA pseudouridine synthase A [Pseudomonas aeruginosa MPAO1/P2]
 gi|419752559|ref|ZP_14278966.1| tRNA pseudouridine synthase A [Pseudomonas aeruginosa PADK2_CF510]
 gi|421152962|ref|ZP_15612530.1| tRNA pseudouridine synthase A [Pseudomonas aeruginosa ATCC 14886]
 gi|421159509|ref|ZP_15618639.1| tRNA pseudouridine synthase A [Pseudomonas aeruginosa ATCC 25324]
 gi|421517644|ref|ZP_15964318.1| tRNA pseudouridine synthase A [Pseudomonas aeruginosa PAO579]
 gi|451987872|ref|ZP_21936023.1| tRNA pseudouridine synthase A [Pseudomonas aeruginosa 18A]
 gi|8134770|sp|O87016.1|TRUA_PSEAE RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|9949225|gb|AAG06502.1|AE004735_9 tRNA-pseudouridine synthase I [Pseudomonas aeruginosa PAO1]
 gi|3237313|gb|AAC23941.1| HisT [Pseudomonas aeruginosa PAO1]
 gi|126168015|gb|EAZ53526.1| tRNA-pseudouridine synthase I [Pseudomonas aeruginosa C3719]
 gi|126195187|gb|EAZ59250.1| tRNA-pseudouridine synthase I [Pseudomonas aeruginosa 2192]
 gi|218770908|emb|CAW26673.1| tRNA-pseudouridine synthase I [Pseudomonas aeruginosa LESB58]
 gi|310880943|gb|EFQ39537.1| tRNA-pseudouridine synthase I [Pseudomonas aeruginosa 39016]
 gi|334833745|gb|EGM12789.1| tRNA pseudouridine synthase A [Pseudomonas aeruginosa 152504]
 gi|334837174|gb|EGM15947.1| tRNA pseudouridine synthase A [Pseudomonas aeruginosa 138244]
 gi|347304221|gb|AEO74335.1| tRNA pseudouridine synthase A [Pseudomonas aeruginosa M18]
 gi|348035708|dbj|BAK91068.1| tRNA pseudouridine synthase A [Pseudomonas aeruginosa NCGM2.S1]
 gi|375040503|gb|EHS33262.1| tRNA pseudouridine synthase A [Pseudomonas aeruginosa MPAO1/P1]
 gi|375047873|gb|EHS40410.1| tRNA pseudouridine synthase A [Pseudomonas aeruginosa MPAO1/P2]
 gi|384401099|gb|EIE47455.1| tRNA pseudouridine synthase A [Pseudomonas aeruginosa PADK2_CF510]
 gi|392318666|gb|AFM64046.1| tRNA pseudouridine synthase A [Pseudomonas aeruginosa DK2]
 gi|404347126|gb|EJZ73475.1| tRNA pseudouridine synthase A [Pseudomonas aeruginosa PAO579]
 gi|404524640|gb|EKA34967.1| tRNA pseudouridine synthase A [Pseudomonas aeruginosa ATCC 14886]
 gi|404546975|gb|EKA55998.1| tRNA pseudouridine synthase A [Pseudomonas aeruginosa ATCC 25324]
 gi|451754419|emb|CCQ88546.1| tRNA pseudouridine synthase A [Pseudomonas aeruginosa 18A]
 gi|453043118|gb|EME90852.1| tRNA pseudouridine synthase A [Pseudomonas aeruginosa PA21_ST175]
          Length = 285

 Score =  123 bits (308), Expect = 8e-26,   Method: Compositional matrix adjust.
 Identities = 77/201 (38%), Positives = 111/201 (55%), Gaps = 7/201 (3%)

Query: 29  LVIGYDGTRYAGWQFQTSP-PTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           L I Y G+RY GWQ Q +  P++Q  +E+AL   +K+  E + ++ A RTD  VHA GQV
Sbjct: 22  LGIEYKGSRYRGWQRQEAGVPSVQEALERAL---SKVAAEPVGVICAGRTDAAVHASGQV 78

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF T      L++     N  LP DI V         FHARFSA ++ Y Y IYND + 
Sbjct: 79  VHFDTAVERP-LKAWVMGTNANLPADISVTWARVMPAHFHARFSAMARRYRYAIYNDPIR 137

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
                     +   L+   MREAA+  VG HDF++F  +Q   +A +PVK++    ++E 
Sbjct: 138 PAHLAEEVTWNHRPLDIGRMREAAQVLVGTHDFTSFRAVQ--CQAKSPVKTMHHVRLLEH 195

Query: 208 GALLQLEVEGSGFLYRQVRNM 228
           G L+ L++ G+ FL+  VRN+
Sbjct: 196 GRLIVLDIRGNAFLHHMVRNI 216


>gi|77360999|ref|YP_340574.1| tRNA pseudouridine synthase A [Pseudoalteromonas haloplanktis
           TAC125]
 gi|123587603|sp|Q3IF40.1|TRUA_PSEHT RecName: Full=tRNA pseudouridine synthase A; AltName: Full=tRNA
           pseudouridine(38-40) synthase; AltName: Full=tRNA
           pseudouridylate synthase I; AltName: Full=tRNA-uridine
           isomerase I
 gi|76875910|emb|CAI87131.1| tRNA pseudouridylate synthase I [Pseudoalteromonas haloplanktis
           TAC125]
          Length = 264

 Score =  123 bits (308), Expect = 8e-26,   Method: Compositional matrix adjust.
 Identities = 71/200 (35%), Positives = 112/200 (56%), Gaps = 6/200 (3%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L + Y+G RY+GWQ Q+   ++Q  VE AL R+       + +V A RTD GVH  GQV 
Sbjct: 5   LGVEYNGARYSGWQRQSHVNSVQQEVETALSRICN---HPVAIVCAGRTDAGVHGTGQVV 61

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
           HF T    D + +    +N LLP DI +R       +FHARFSA ++ Y Y IYN+ +  
Sbjct: 62  HFDTDAPRD-MVAFTLGMNTLLPKDIAIRFAQPVADDFHARFSATARRYRYVIYNNPLRG 120

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
              +    H  + L+ T M+EA +Y +GK+DF++F  I  + +A   +++I    V   G
Sbjct: 121 AVLNEGVTHFHHTLDETKMQEACQYLIGKYDFTSFRAI--HCQANTAIRTIQHLSVQRQG 178

Query: 209 ALLQLEVEGSGFLYRQVRNM 228
           + + ++++ + FL+  VRN+
Sbjct: 179 SYVIIDIKANAFLHHMVRNI 198


>gi|116051110|ref|YP_790059.1| tRNA pseudouridine synthase A [Pseudomonas aeruginosa UCBPP-PA14]
 gi|115586331|gb|ABJ12346.1| tRNA-pseudouridine synthase I [Pseudomonas aeruginosa UCBPP-PA14]
          Length = 285

 Score =  123 bits (308), Expect = 8e-26,   Method: Compositional matrix adjust.
 Identities = 77/201 (38%), Positives = 111/201 (55%), Gaps = 7/201 (3%)

Query: 29  LVIGYDGTRYAGWQFQTSP-PTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQV 87
           L I Y G+RY GWQ Q +  P++Q  +E+AL   +K+  E + ++ A RTD  VHA GQV
Sbjct: 22  LGIEYKGSRYRGWQRQEAGVPSVQEALERAL---SKVAAEPVGVICAGRTDAAVHASGQV 78

Query: 88  AHFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVM 147
            HF T      L++     N  LP DI V         FHARFSA ++ Y Y IYND + 
Sbjct: 79  VHFDTAVERP-LKAWVMGTNANLPADISVTWARVMPAHFHARFSAMARRYRYAIYNDPIR 137

Query: 148 DPFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEM 207
                     +   L+   MREAA+  VG HDF++F  +Q   +A +PVK++    ++E 
Sbjct: 138 PAHLAEEVTWNHRPLDIGRMREAAQVLVGTHDFTSFRAVQ--CQAKSPVKTMHHVRLLEH 195

Query: 208 GALLQLEVEGSGFLYRQVRNM 228
           G L+ L++ G+ FL+  VRN+
Sbjct: 196 GRLIVLDIRGNAFLHHMVRNI 216


>gi|378823182|ref|ZP_09845861.1| tRNA pseudouridine synthase A [Sutterella parvirubra YIT 11816]
 gi|378597991|gb|EHY31200.1| tRNA pseudouridine synthase A [Sutterella parvirubra YIT 11816]
          Length = 266

 Score =  123 bits (308), Expect = 8e-26,   Method: Compositional matrix adjust.
 Identities = 72/202 (35%), Positives = 108/202 (53%), Gaps = 6/202 (2%)

Query: 29  LVIGYDGTRYAGWQFQTSPPTIQCIVEKALIRVTKLEREDLRLVGASRTDTGVHAWGQVA 88
           L I YDGT + GWQ Q   PT+Q  +E+A+ R   +    +  + A RTD GVHA  QV 
Sbjct: 10  LGIEYDGTAFNGWQTQPDVPTVQDTLEEAIERFLTVP---VPTICAGRTDAGVHATHQVV 66

Query: 89  HFITPFSYDGLESIHAALNGLLPPDIRVREISAAVPEFHARFSAKSKIYHYKIYNDAVMD 148
            F T       ES   A+N  LP  + VR +     +FHARF+A+S+ Y Y I ND V  
Sbjct: 67  SFQTD-KVRSPESWVRAINTFLPKSVAVRWMRPVPDDFHARFTARSRTYEYWILNDPVRS 125

Query: 149 PFQHHYAYHSVYKLNTTLMREAAEYFVGKHDFSAFVNIQRNDRALNPVKSIFRFDVIEMG 208
           P  H         L+   MR  A + +G+HDF++F   +   +A +PV+++ + +++ MG
Sbjct: 126 PVMHGRTGWYFRPLDVERMRAGAAHLLGEHDFTSFRAAE--CQAASPVRTVEKLEIVRMG 183

Query: 209 ALLQLEVEGSGFLYRQVRNMVN 230
            L+ + +  + FL   VRN+V 
Sbjct: 184 RLVGVRIRANAFLQHMVRNIVG 205


  Database: nr
    Posted date:  Mar 3, 2013 10:45 PM
  Number of letters in database: 999,999,864
  Number of sequences in database:  2,912,245
  
  Database: /local_scratch/syshi//blastdatabase/nr.01
    Posted date:  Mar 3, 2013 10:52 PM
  Number of letters in database: 999,999,666
  Number of sequences in database:  2,912,720
  
  Database: /local_scratch/syshi//blastdatabase/nr.02
    Posted date:  Mar 3, 2013 10:58 PM
  Number of letters in database: 999,999,938
  Number of sequences in database:  3,014,250
  
  Database: /local_scratch/syshi//blastdatabase/nr.03
    Posted date:  Mar 3, 2013 11:03 PM
  Number of letters in database: 999,999,780
  Number of sequences in database:  2,805,020
  
  Database: /local_scratch/syshi//blastdatabase/nr.04
    Posted date:  Mar 3, 2013 11:08 PM
  Number of letters in database: 999,999,551
  Number of sequences in database:  2,816,253
  
  Database: /local_scratch/syshi//blastdatabase/nr.05
    Posted date:  Mar 3, 2013 11:13 PM
  Number of letters in database: 999,999,897
  Number of sequences in database:  2,981,387
  
  Database: /local_scratch/syshi//blastdatabase/nr.06
    Posted date:  Mar 3, 2013 11:18 PM
  Number of letters in database: 999,999,649
  Number of sequences in database:  2,911,476
  
  Database: /local_scratch/syshi//blastdatabase/nr.07
    Posted date:  Mar 3, 2013 11:24 PM
  Number of letters in database: 999,999,452
  Number of sequences in database:  2,920,260
  
  Database: /local_scratch/syshi//blastdatabase/nr.08
    Posted date:  Mar 3, 2013 11:25 PM
  Number of letters in database: 64,230,274
  Number of sequences in database:  189,558
  
Lambda     K      H
   0.323    0.138    0.425 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,875,704,503
Number of Sequences: 23463169
Number of extensions: 157627876
Number of successful extensions: 332110
Number of sequences better than 100.0: 1000
Number of HSP's better than 100.0 without gapping: 3364
Number of HSP's successfully gapped in prelim test: 2072
Number of HSP's that attempted gapping in prelim test: 314729
Number of HSP's gapped (non-prelim): 5857
length of query: 237
length of database: 8,064,228,071
effective HSP length: 138
effective length of query: 99
effective length of database: 9,121,278,045
effective search space: 903006526455
effective search space used: 903006526455
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 74 (33.1 bits)