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= 019431
(341 letters)
Database: nr
23,463,169 sequences; 8,064,228,071 total letters
Searching..................................................done
>gi|224065743|ref|XP_002301949.1| predicted protein [Populus trichocarpa]
gi|222843675|gb|EEE81222.1| predicted protein [Populus trichocarpa]
Length = 444
Score = 451 bits (1161), Expect = e-124, Method: Compositional matrix adjust.
Identities = 238/337 (70%), Positives = 272/337 (80%), Gaps = 13/337 (3%)
Query: 3 MLSLNSASWGSASCTKGLQFSPTKIPFGVFKILRARCSSSSSGGNNREP--IANYAGVQL 60
MLS++S S SA + L PT ++L SS+ +N+ P NY+GV+L
Sbjct: 30 MLSISSVSRCSAP-SFFLSQKPT-----ASRLLTVHSSSTREPNSNQNPGQRINYSGVKL 83
Query: 61 EETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNC 120
EE+VD+K+GK RLD+WISSRI GISRARVQSSI+SGLVS+NG+V+ KVSHNVK GD VNC
Sbjct: 84 EESVDSKSGKSRLDSWISSRISGISRARVQSSIKSGLVSVNGKVIDKVSHNVKAGDKVNC 143
Query: 121 TISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPT 180
ISELQPLRAE E+IPLDIVYED+NVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPT
Sbjct: 144 VISELQPLRAEPENIPLDIVYEDENVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPT 203
Query: 181 LASSNQEAFSDAEDISDDEE--FSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
++S QE S AED+SDD++ SS AS+RPGIVHRLDKGTSGLLVVAKDEHSHAHL
Sbjct: 204 VSS--QEVLSGAEDVSDDDDEGLCSSSYAASVRPGIVHRLDKGTSGLLVVAKDEHSHAHL 261
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
SEQFKLHTI+RVY+SLT GVP+ +GRI+VPI RD +NRIRMAAI N+ GQARHAASR
Sbjct: 262 SEQFKLHTIKRVYVSLTCGVPAPMAGRIDVPIGRDVSNRIRMAAIVEPNR-GQARHAASR 320
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
YKVIEILAGGGSALVEWRLETGRTHQ+ K IP
Sbjct: 321 YKVIEILAGGGSALVEWRLETGRTHQIRAHAKYIGIP 357
>gi|359492029|ref|XP_003634352.1| PREDICTED: RNA pseudourine synthase 2, chloroplastic-like [Vitis
vinifera]
gi|302141717|emb|CBI18920.3| unnamed protein product [Vitis vinifera]
Length = 433
Score = 434 bits (1115), Expect = e-119, Method: Compositional matrix adjust.
Identities = 233/352 (66%), Positives = 270/352 (76%), Gaps = 23/352 (6%)
Query: 3 MLSLNSASWGSASCTKGLQFSPTKIPFG---VFKILRARCSSSSSGGNNREPI------- 52
+ SLNSAS+ S S T + P VF+ILRA CS+S+ EP+
Sbjct: 2 IFSLNSASFFSISHTSQSALLFPRNPKSCSRVFRILRA-CSNSTD-----EPLVSVSGRR 55
Query: 53 ANYAGVQLEETV---DTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVS 109
NYAGV+LEETV ++ +GKLRLD+WISSRI GISRARVQSSIRSGLVS+N ++V KVS
Sbjct: 56 TNYAGVRLEETVVDVNSDSGKLRLDSWISSRIIGISRARVQSSIRSGLVSVNDRIVDKVS 115
Query: 110 HNVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLV 169
H ++ GD VNCTISELQPLRAE EDIPLDIVYED++VLVVNKPAHMVVHPAPGNA+GTLV
Sbjct: 116 HVIRAGDKVNCTISELQPLRAEPEDIPLDIVYEDEHVLVVNKPAHMVVHPAPGNASGTLV 175
Query: 170 NGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSS----ISGASIRPGIVHRLDKGTSGL 225
NGILHHCSLPT+A N+++ D + F++ +IRPGIVHRLDKGTSGL
Sbjct: 176 NGILHHCSLPTVALPNRDSEEDDISDDEFNSFAAGQNCGTCETNIRPGIVHRLDKGTSGL 235
Query: 226 LVVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPG 285
LVVAKDEHSHAHLSEQFKLH+I RVYISLTSGVP+ SGR+E+P+ RDPNNRIRM A+PG
Sbjct: 236 LVVAKDEHSHAHLSEQFKLHSIHRVYISLTSGVPTPLSGRVEIPVGRDPNNRIRMTAVPG 295
Query: 286 SNKHGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIPRM 337
+ GQARHAASRYKVIEILA GGSALVEWRLETGRTHQ+ K IP +
Sbjct: 296 PSNSGQARHAASRYKVIEILAAGGSALVEWRLETGRTHQIRAHAKYLGIPLL 347
>gi|255556673|ref|XP_002519370.1| ribosomal pseudouridine synthase, putative [Ricinus communis]
gi|223541437|gb|EEF42987.1| ribosomal pseudouridine synthase, putative [Ricinus communis]
Length = 399
Score = 432 bits (1111), Expect = e-118, Method: Compositional matrix adjust.
Identities = 219/289 (75%), Positives = 245/289 (84%), Gaps = 4/289 (1%)
Query: 53 ANYAGVQLEETVDT---KAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVS 109
NY G++LEETV K+ KLRLD+WISSRI GISRARVQSSI+SGLVS+NG+VV KVS
Sbjct: 51 TNYGGIRLEETVQVVHAKSVKLRLDSWISSRISGISRARVQSSIKSGLVSVNGRVVDKVS 110
Query: 110 HNVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLV 169
HNVK GD V CTISELQPLRAE ED+PLDIVYED+++LVVNKP HMVVHPAPGN TGTLV
Sbjct: 111 HNVKFGDKVTCTISELQPLRAEPEDMPLDIVYEDEHLLVVNKPPHMVVHPAPGNPTGTLV 170
Query: 170 NGILHHCSLPTLASSNQEAFSDAEDISDDEE-FSSSISGASIRPGIVHRLDKGTSGLLVV 228
NGILHHC+LPT+A S+QE SDAED SDD+E SS +SIRPGIVHRLDKGTSGLLVV
Sbjct: 171 NGILHHCNLPTVAISSQEVLSDAEDRSDDDERSYSSSCESSIRPGIVHRLDKGTSGLLVV 230
Query: 229 AKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNK 288
AKDEH+HAHLSEQFK HTI+RVYISLTSGVPS +GRI++PI RD NNRIRM AIPG K
Sbjct: 231 AKDEHAHAHLSEQFKQHTIQRVYISLTSGVPSALTGRIDIPIGRDVNNRIRMTAIPGPIK 290
Query: 289 HGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIPRM 337
G+ARHAASR+KV+E LAGGGSALVEWRLETGRTHQ+ K IP +
Sbjct: 291 QGRARHAASRFKVVETLAGGGSALVEWRLETGRTHQIRAHAKYIGIPLL 339
>gi|449450654|ref|XP_004143077.1| PREDICTED: RNA pseudourine synthase 2, chloroplastic-like [Cucumis
sativus]
Length = 453
Score = 430 bits (1106), Expect = e-118, Method: Compositional matrix adjust.
Identities = 226/345 (65%), Positives = 260/345 (75%), Gaps = 21/345 (6%)
Query: 13 SASCTKGLQFSPTKIPF-----------GVFKI---LRARCSSS--SSGGNNREPIANYA 56
S + +Q SP+ I F V +I RCSS E IANYA
Sbjct: 3 SVCSARTIQASPSPIHFFFPPNRRRIGSNVLRISSNFSTRCSSDYDEYSEAQSERIANYA 62
Query: 57 GVQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGD 116
G +LEETVD GK+RLD+WIS RI+GISRARVQSSIR+GLVS+NG+V+ KVSHNVK GD
Sbjct: 63 GTRLEETVDVNPGKVRLDSWISCRINGISRARVQSSIRAGLVSVNGRVIDKVSHNVKAGD 122
Query: 117 MVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC 176
++NCTISELQPLRAE EDI LDIVYED++VLVVNKPAHMVVHPAPGNATGTLVN IL+HC
Sbjct: 123 VINCTISELQPLRAEPEDIDLDIVYEDEHVLVVNKPAHMVVHPAPGNATGTLVNAILNHC 182
Query: 177 SLPTLASSNQEAFSDAEDISDDEEFS----SSISGASIRPGIVHRLDKGTSGLLVVAKDE 232
SLP +A+S E SD+ D+SDDE S S +S A IRPGIVHRLDKGTSGLLVVAKDE
Sbjct: 183 SLPMVATSTGENESDS-DVSDDEFSSIGVFSRVSEAPIRPGIVHRLDKGTSGLLVVAKDE 241
Query: 233 HSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQA 292
HSHAHLS QFK H+IERVYISLT GVP ++GRIE+PI RDPNNRIRM AI G+ + A
Sbjct: 242 HSHAHLSAQFKQHSIERVYISLTCGVPPSTAGRIEMPICRDPNNRIRMTAIDGTKNNPHA 301
Query: 293 RHAASRYKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIPRM 337
++AASRY V+EILA GGS+LVEWRLETGRTHQ+ K IP +
Sbjct: 302 KYAASRYNVMEILAQGGSSLVEWRLETGRTHQIRAHAKYMGIPLL 346
>gi|42572121|ref|NP_974151.1| RNA pseudourine synthase 2 [Arabidopsis thaliana]
gi|122215273|sp|Q3ECD0.1|PUS2_ARATH RecName: Full=RNA pseudourine synthase 2, chloroplastic; AltName:
Full=RNA pseudouridylate synthase 2; AltName:
Full=RNA-uridine isomerase 2; Flags: Precursor
gi|332197669|gb|AEE35790.1| RNA pseudourine synthase 2 [Arabidopsis thaliana]
Length = 430
Score = 429 bits (1104), Expect = e-118, Method: Compositional matrix adjust.
Identities = 216/291 (74%), Positives = 245/291 (84%), Gaps = 4/291 (1%)
Query: 51 PIANYAGVQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSH 110
P N AG+++EE VD GK+RLD+WISSRI+G+SRARVQSSIR GLV++NG+VV KVSH
Sbjct: 62 PRVNNAGLRIEEIVDAAKGKIRLDSWISSRINGVSRARVQSSIRLGLVTVNGRVVDKVSH 121
Query: 111 NVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVN 170
NVK GD VNCTISELQPL+AEAEDIPLDIVYED +VLVVNKPAHMVVHPAPGN TGTLVN
Sbjct: 122 NVKSGDEVNCTISELQPLKAEAEDIPLDIVYEDKHVLVVNKPAHMVVHPAPGNPTGTLVN 181
Query: 171 GILHHCSLPTLASSN--QEAFSDAEDISDDEEFSSSIS--GASIRPGIVHRLDKGTSGLL 226
GILHHCSLP + SN ++ SD E SDDEE ++S S AS+RPGIVHRLDKGT+GLL
Sbjct: 182 GILHHCSLPCVDYSNSEEDDDSDEETFSDDEEMTTSPSSYAASVRPGIVHRLDKGTTGLL 241
Query: 227 VVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGS 286
VVAKDEHSHAHL+EQFKLHTIERVY+SLT+GVPS GRIE+PI RD +NRIRMAAIPG
Sbjct: 242 VVAKDEHSHAHLAEQFKLHTIERVYVSLTTGVPSPPQGRIEIPIGRDSSNRIRMAAIPGG 301
Query: 287 NKHGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIPRM 337
+ G+ARHAASRYKVIE AGGGSALVEWRLETGRTHQ+ K +P +
Sbjct: 302 VRGGRARHAASRYKVIETFAGGGSALVEWRLETGRTHQIRAHAKYMGVPLL 352
>gi|449500428|ref|XP_004161095.1| PREDICTED: LOW QUALITY PROTEIN: RNA pseudourine synthase 2,
chloroplastic-like [Cucumis sativus]
Length = 452
Score = 427 bits (1099), Expect = e-117, Method: Compositional matrix adjust.
Identities = 227/345 (65%), Positives = 261/345 (75%), Gaps = 22/345 (6%)
Query: 13 SASCTKGLQFSPTKIPF-----------GVFKI---LRARCSSS--SSGGNNREPIANYA 56
S + +Q SP+ I F V +I RCSS E IANYA
Sbjct: 3 SVCSARTIQASPSPIHFFFPPNRRRIGSNVLRISSNFSTRCSSDYDEYSEAQSERIANYA 62
Query: 57 GVQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGD 116
G +LEETVD GK+RLD+WIS RI+GISRARVQSSIR+GLVS+NG+V+ KVSHNVK GD
Sbjct: 63 GTRLEETVDVNPGKVRLDSWISCRINGISRARVQSSIRAGLVSVNGRVIDKVSHNVKAGD 122
Query: 117 MVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC 176
++NCTISELQPLRAE EDI LDIVYED++VLVVNKPAHMVVHPAPGNATGTLVN IL+HC
Sbjct: 123 VINCTISELQPLRAEPEDIDLDIVYEDEHVLVVNKPAHMVVHPAPGNATGTLVNAILNHC 182
Query: 177 SLPTLASSNQEAFSDAEDISDDEEFS----SSISGASIRPGIVHRLDKGTSGLLVVAKDE 232
SLP +A+S E SD+ D+SDDE S S +S A IRPGIVHRLDKGTSGLLVVAKDE
Sbjct: 183 SLPMVATSTGENESDS-DVSDDEFSSIGVFSRVSEAPIRPGIVHRLDKGTSGLLVVAKDE 241
Query: 233 HSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQA 292
HSHAHLS QFK H+IERVYISLT GVP ++GRIE+PI RDPNNRIRM AI G+N + A
Sbjct: 242 HSHAHLSAQFKQHSIERVYISLTCGVPPSTAGRIEMPICRDPNNRIRMTAIDGTN-NPHA 300
Query: 293 RHAASRYKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIPRM 337
++AASRY V+EILA GGS+LVEWRLETGRTHQ+ K IP +
Sbjct: 301 KYAASRYNVMEILAQGGSSLVEWRLETGRTHQIRAHAKYMGIPLL 345
>gi|6721111|gb|AAF26765.1|AC007396_14 T4O12.25 [Arabidopsis thaliana]
Length = 980
Score = 417 bits (1071), Expect = e-114, Method: Compositional matrix adjust.
Identities = 215/317 (67%), Positives = 244/317 (76%), Gaps = 30/317 (9%)
Query: 51 PIANYAGVQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKV-- 108
P N AG+++EE VD GK+RLD+WISSRI+G+SRARVQSSIR GLV++NG+VV KV
Sbjct: 586 PRVNNAGLRIEEIVDAAKGKIRLDSWISSRINGVSRARVQSSIRLGLVTVNGRVVDKVLT 645
Query: 109 ------------------------SHNVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDD 144
SHNVK GD VNCTISELQPL+AEAEDIPLDIVYED
Sbjct: 646 SKFDSSKKFQFCNQVSISLTLFQVSHNVKSGDEVNCTISELQPLKAEAEDIPLDIVYEDK 705
Query: 145 NVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSDAE--DISDDEEFS 202
+VLVVNKPAHMVVHPAPGN TGTLVNGILHHCSLP + SN E D++ SDDEE +
Sbjct: 706 HVLVVNKPAHMVVHPAPGNPTGTLVNGILHHCSLPCVDYSNSEEDDDSDEETFSDDEEMT 765
Query: 203 SSIS--GASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPS 260
+S S AS+RPGIVHRLDKGT+GLLVVAKDEHSHAHL+EQFKLHTIERVY+SLT+GVPS
Sbjct: 766 TSPSSYAASVRPGIVHRLDKGTTGLLVVAKDEHSHAHLAEQFKLHTIERVYVSLTTGVPS 825
Query: 261 QSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSALVEWRLETG 320
GRIE+PI RD +NRIRMAAIPG + G+ARHAASRYKVIE AGGGSALVEWRLETG
Sbjct: 826 PPQGRIEIPIGRDSSNRIRMAAIPGGVRGGRARHAASRYKVIETFAGGGSALVEWRLETG 885
Query: 321 RTHQVLMLYKLFYIPRM 337
RTHQ+ K +P +
Sbjct: 886 RTHQIRAHAKYMGVPLL 902
>gi|297839485|ref|XP_002887624.1| T4O12.25 [Arabidopsis lyrata subsp. lyrata]
gi|297333465|gb|EFH63883.1| T4O12.25 [Arabidopsis lyrata subsp. lyrata]
Length = 930
Score = 409 bits (1051), Expect = e-112, Method: Compositional matrix adjust.
Identities = 211/290 (72%), Positives = 235/290 (81%), Gaps = 15/290 (5%)
Query: 51 PIANYAGVQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSH 110
P N AG+++EETVD GK+RLD+WISSR++G+SRARVQSSIR GLV++NG+VV KVSH
Sbjct: 564 PRVNNAGLRIEETVDALKGKIRLDSWISSRVNGVSRARVQSSIRLGLVTVNGRVVDKVSH 623
Query: 111 NVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVN 170
NVK GD VNCTISELQPL+AEAEDIPLDIVYED +VLVVNKPAHMVVHPAPGN TGTLVN
Sbjct: 624 NVKAGDEVNCTISELQPLKAEAEDIPLDIVYEDKHVLVVNKPAHMVVHPAPGNPTGTLVN 683
Query: 171 GILHHCSLPTLASSNQE-AFSDAEDISDDEEF--SSSISGASIRPGIVHRLDKGTSGLLV 227
GILHHCSLP ++ SN E SD E SDDEE SSS AS+RPGIVHRLDKGT+GLLV
Sbjct: 684 GILHHCSLPCVSYSNAEDDDSDEETFSDDEEMTTSSSSYAASVRPGIVHRLDKGTTGLLV 743
Query: 228 VAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSN 287
VAKDEHSHAHL+EQFKLHTIERVY GRIE+PI RD +NRIRMAAIPG
Sbjct: 744 VAKDEHSHAHLAEQFKLHTIERVY------------GRIEIPIGRDSSNRIRMAAIPGGL 791
Query: 288 KHGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIPRM 337
G+ARHAASRYKVIE AGGGSALVEWRLETGRTHQ+ K +P +
Sbjct: 792 SGGRARHAASRYKVIETFAGGGSALVEWRLETGRTHQIRAHAKYMGVPLL 841
>gi|357467069|ref|XP_003603819.1| RNA pseudourine synthase [Medicago truncatula]
gi|355492867|gb|AES74070.1| RNA pseudourine synthase [Medicago truncatula]
Length = 465
Score = 406 bits (1043), Expect = e-111, Method: Compositional matrix adjust.
Identities = 222/373 (59%), Positives = 264/373 (70%), Gaps = 39/373 (10%)
Query: 3 MLSLNSAS--WGSASCTKGLQF------SPTKI-PFGVFKILRARCSSSSSGGNN----- 48
MLSLN++ G ++ TK QF SP P FK+ + S S+ N+
Sbjct: 1 MLSLNTSCGFCGVSTSTKAFQFHFRTSSSPFFFSPLNNFKLRSSIAKSFSTFSNDSNSST 60
Query: 49 REPIANYAGVQLEETVD---TKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVV 105
EP +NYAGV LEE V K+GKLRLD+WISSRI+GISRARVQSSI++GLV +NG+VV
Sbjct: 61 EEPKSNYAGVLLEEIVHDGGIKSGKLRLDSWISSRINGISRARVQSSIKAGLVHVNGRVV 120
Query: 106 SK---------VSHNVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMV 156
K VS NV+ GD + CTI+ELQ LRA E+IPLDIVYEDD++LV+NKPAHMV
Sbjct: 121 DKLSIVVILEQVSFNVRAGDEIKCTIAELQQLRAVPENIPLDIVYEDDHLLVINKPAHMV 180
Query: 157 VHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSDAEDISDDE------------EFSSS 204
VHPAPGN +GTLVNGILHHC+LP + S +EA SD ED SDDE S
Sbjct: 181 VHPAPGNTSGTLVNGILHHCNLPNVEFSKEEALSDTED-SDDELNGFSSQSSSSVGLDSR 239
Query: 205 ISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSG 264
+S ASIRPGIVHRLDKGTSGLLVVAK+EHSH LSEQFKL TI+RVY+SLT+GVP+ SG
Sbjct: 240 LSMASIRPGIVHRLDKGTSGLLVVAKNEHSHMKLSEQFKLRTIKRVYVSLTAGVPTPVSG 299
Query: 265 RIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQ 324
R+EVP+ RDPNNR+RM A+ G +ARHAASRYKVIEILAGG ALVEW+LETGRTHQ
Sbjct: 300 RVEVPVGRDPNNRLRMIAVAGLVNSVKARHAASRYKVIEILAGGSCALVEWKLETGRTHQ 359
Query: 325 VLMLYKLFYIPRM 337
+ K +P +
Sbjct: 360 IRAHAKYLGVPLL 372
>gi|147771519|emb|CAN66750.1| hypothetical protein VITISV_034413 [Vitis vinifera]
Length = 611
Score = 395 bits (1015), Expect = e-107, Method: Compositional matrix adjust.
Identities = 219/351 (62%), Positives = 253/351 (72%), Gaps = 63/351 (17%)
Query: 31 VFKILRARCSSSSSGGNNREPI-------ANYAGVQLEETV---DTKAGKLRLDAWISSR 80
VF+ILR CS+S+ EP+ NYAGV+LEETV ++ +GKLRLD+WISSR
Sbjct: 162 VFRILRD-CSNSTD-----EPLVSVSSRRTNYAGVRLEETVVDVNSDSGKLRLDSWISSR 215
Query: 81 IDGISRARVQSSIRSGLVSINGQVVSK---------------------------VSHNVK 113
I GISRARVQSSIRSGLVS+N ++V K VSH ++
Sbjct: 216 IIGISRARVQSSIRSGLVSVNDRIVDKAMLVSRKFEVGEGKKIEEKDPITYSEQVSHVIR 275
Query: 114 GGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGIL 173
GD VNCTISELQPLRAE EDIPLDIVYED++V VHPAPGNA+GTLVNGIL
Sbjct: 276 AGDKVNCTISELQPLRAEPEDIPLDIVYEDEHV----------VHPAPGNASGTLVNGIL 325
Query: 174 HHCSLPTLASSNQEAFSDAEDISDDEEFSSSISG-------ASIRPGIVHRLDKGTSGLL 226
HHCSLPT+A N++ S+ +DI DDE F+S +G +IRPGIVHRLDKGTSGLL
Sbjct: 326 HHCSLPTVALPNRD--SEEDDILDDE-FNSFAAGQNCGTCETNIRPGIVHRLDKGTSGLL 382
Query: 227 VVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGS 286
VVAKDEHSHAHLSEQFKLH+I RVYISLTSGVP+ SGR+E+P+ RDPNNRIRM A+PG
Sbjct: 383 VVAKDEHSHAHLSEQFKLHSIHRVYISLTSGVPTPLSGRVEIPVGRDPNNRIRMTAVPGP 442
Query: 287 NKHGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIPRM 337
+ GQARHAASRYKVIEILA GGSALVEWRLETGRTHQ+ K IP +
Sbjct: 443 SNSGQARHAASRYKVIEILAAGGSALVEWRLETGRTHQIRAHAKYLGIPLL 493
>gi|356509084|ref|XP_003523282.1| PREDICTED: RNA pseudourine synthase 2, chloroplastic-like [Glycine
max]
Length = 450
Score = 395 bits (1014), Expect = e-107, Method: Compositional matrix adjust.
Identities = 199/305 (65%), Positives = 237/305 (77%), Gaps = 19/305 (6%)
Query: 50 EPIANYAGVQLEETVDTK--AGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSK 107
EP N++GV+LEE VD++ +GKLRLD WISSRI+GISRARVQSSI+SGLV +NG+VV K
Sbjct: 59 EPKLNFSGVRLEEAVDSRIGSGKLRLDNWISSRINGISRARVQSSIKSGLVHVNGRVVDK 118
Query: 108 VSHNVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGT 167
VS NVK GD + CTI+ELQ LRA ++IPLDIVYED++VLV+NKPAHMVVHPAPGN +GT
Sbjct: 119 VSFNVKSGDEIKCTIAELQNLRAVPQNIPLDIVYEDEHVLVINKPAHMVVHPAPGNTSGT 178
Query: 168 LVNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGA---------------SIRP 212
LVNGILHHC+LP + S EA SD ED D+EF+S IS A SIRP
Sbjct: 179 LVNGILHHCNLPNVEFSKDEALSDTED--SDDEFNSYISLASSCEGLNSRLSVASNSIRP 236
Query: 213 GIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISR 272
GIVHRLDKGTSGLLVVAKDEHSH LSEQFK TI+R+Y+SLT+GVP+ +GR+EVP+ R
Sbjct: 237 GIVHRLDKGTSGLLVVAKDEHSHMKLSEQFKQRTIKRLYVSLTAGVPTPVAGRVEVPVGR 296
Query: 273 DPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQVLMLYKLF 332
D NNRIRM A+ G +AR+AASRYKVIEILAGG +LVEW+LETGRTHQ+ K
Sbjct: 297 DTNNRIRMTAVTGPVNSKKARYAASRYKVIEILAGGSCSLVEWKLETGRTHQIRAHAKYL 356
Query: 333 YIPRM 337
+P +
Sbjct: 357 GVPLL 361
>gi|242097088|ref|XP_002439034.1| hypothetical protein SORBIDRAFT_10g030300 [Sorghum bicolor]
gi|241917257|gb|EER90401.1| hypothetical protein SORBIDRAFT_10g030300 [Sorghum bicolor]
Length = 441
Score = 389 bits (1000), Expect = e-106, Method: Compositional matrix adjust.
Identities = 199/296 (67%), Positives = 230/296 (77%), Gaps = 16/296 (5%)
Query: 55 YAGVQLEETVDTKAGKLRLDAWISSRIDG--ISRARVQSSIRSGLVSINGQVVSKVSHNV 112
+ G++LEE V G+ R+DAWIS+R+ G +SRARVQ+SIR+GLV++NG+ VSKVSH V
Sbjct: 57 HGGMRLEEAVPVGEGRSRIDAWISARLGGGGVSRARVQASIRAGLVAVNGRPVSKVSHTV 116
Query: 113 KGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGI 172
KGGD+V+CT+SELQPLRAEAEDIPLDIVYEDD+VLVVNKPAHMVVHPAPGNA GTLVN I
Sbjct: 117 KGGDLVSCTVSELQPLRAEAEDIPLDIVYEDDHVLVVNKPAHMVVHPAPGNANGTLVNAI 176
Query: 173 LHHCSLPTL-----ASSNQEAFSDAEDISD--------DEEFSSSISGASIRPGIVHRLD 219
LHHC + T +S+ E ++D D E+ SS + A +RPGIVHRLD
Sbjct: 177 LHHCKISTFTCLARSSTGDECLDSSDDDIDVFNVDQFATEDASSEVRNALVRPGIVHRLD 236
Query: 220 KGTSGLLVVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIR 279
KGTSGLLVVAKDEHSHA L+EQFKLHTI RVYISLT GVP+ +SGRIE I+RDPNNRIR
Sbjct: 237 KGTSGLLVVAKDEHSHAQLAEQFKLHTIRRVYISLTCGVPNPNSGRIEASIARDPNNRIR 296
Query: 280 MAAIPGSNKHGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
M AI GS H ARHAASRYKV E+ GGGSALVEWRLETGRTHQ+ K IP
Sbjct: 297 MIAIAGSG-HRYARHAASRYKVREVFVGGGSALVEWRLETGRTHQIRAHAKYIGIP 351
>gi|226491450|ref|NP_001140404.1| RNA binding protein [Zea mays]
gi|194699356|gb|ACF83762.1| unknown [Zea mays]
gi|413943105|gb|AFW75754.1| RNA binding protein [Zea mays]
Length = 419
Score = 386 bits (992), Expect = e-105, Method: Compositional matrix adjust.
Identities = 199/296 (67%), Positives = 228/296 (77%), Gaps = 16/296 (5%)
Query: 55 YAGVQLEETVDTKAGKLRLDAWISSRIDG--ISRARVQSSIRSGLVSINGQVVSKVSHNV 112
+ G +LEE V G+ R+DAWIS+R+ G +SRARVQ+SIR+GLV++NG+ VSKVSH V
Sbjct: 54 HGGTRLEEAVPVGEGRSRVDAWISARLGGGGVSRARVQASIRAGLVAVNGRPVSKVSHTV 113
Query: 113 KGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGI 172
KGGD+V+CT+SELQPLRAEAEDIPLDIVYEDD+VLVVNKPAHMVVHPAPGNA GTLVN I
Sbjct: 114 KGGDLVSCTVSELQPLRAEAEDIPLDIVYEDDHVLVVNKPAHMVVHPAPGNAKGTLVNAI 173
Query: 173 LHHCSLPTLA----SSNQEAFSDAEDISDD---------EEFSSSISGASIRPGIVHRLD 219
LHHC + T SS + D+ D D E+ SS + A +RPGIVHRLD
Sbjct: 174 LHHCKISTFTCLARSSAGDECPDSTDEDTDVFHVDQFAAEDVSSEVRNALVRPGIVHRLD 233
Query: 220 KGTSGLLVVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIR 279
KGTSGLLVVAKDEHSHA L+EQFKLHTI RVYISLT G P+ +SGRIE I+RDPNNRIR
Sbjct: 234 KGTSGLLVVAKDEHSHARLAEQFKLHTIRRVYISLTCGAPNPNSGRIEASIARDPNNRIR 293
Query: 280 MAAIPGSNKHGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
M AI GS H AR+AASRYKV E+ AGGGSALVEWRLETGRTHQ+ K IP
Sbjct: 294 MTAIAGSG-HRYARNAASRYKVREVFAGGGSALVEWRLETGRTHQIRAHAKYIGIP 348
>gi|195644818|gb|ACG41877.1| RNA binding protein [Zea mays]
Length = 439
Score = 386 bits (991), Expect = e-104, Method: Compositional matrix adjust.
Identities = 199/296 (67%), Positives = 228/296 (77%), Gaps = 16/296 (5%)
Query: 55 YAGVQLEETVDTKAGKLRLDAWISSRIDG--ISRARVQSSIRSGLVSINGQVVSKVSHNV 112
+ G +LEE V G+ R+DAWIS+R+ G +SRARVQ+SIR+GLV++NG+ VSKVSH V
Sbjct: 54 HGGTRLEEAVPVGEGRSRVDAWISARLGGGGVSRARVQASIRAGLVAVNGRPVSKVSHTV 113
Query: 113 KGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGI 172
KGGD+V+CT+SELQPLRAEAEDIPLDIVYEDD+VLVVNKPAHMVVHPAPGNA GTLVN I
Sbjct: 114 KGGDLVSCTVSELQPLRAEAEDIPLDIVYEDDHVLVVNKPAHMVVHPAPGNAKGTLVNAI 173
Query: 173 LHHCSLPTLA----SSNQEAFSDAEDISDD---------EEFSSSISGASIRPGIVHRLD 219
LHHC + T SS + D+ D D E+ SS + A +RPGIVHRLD
Sbjct: 174 LHHCKISTFTCLARSSAGDECPDSSDEDTDVFHVDQFAAEDVSSEVRNALVRPGIVHRLD 233
Query: 220 KGTSGLLVVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIR 279
KGTSGLLVVAKDEHSHA L+EQFKLHTI RVYISLT G P+ +SGRIE I+RDPNNRIR
Sbjct: 234 KGTSGLLVVAKDEHSHARLAEQFKLHTIRRVYISLTCGAPNPNSGRIEASIARDPNNRIR 293
Query: 280 MAAIPGSNKHGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
M AI GS H AR+AASRYKV E+ AGGGSALVEWRLETGRTHQ+ K IP
Sbjct: 294 MTAIAGSG-HRYARNAASRYKVREVFAGGGSALVEWRLETGRTHQIRAHAKYIGIP 348
>gi|413943106|gb|AFW75755.1| hypothetical protein ZEAMMB73_425131 [Zea mays]
Length = 350
Score = 383 bits (983), Expect = e-104, Method: Compositional matrix adjust.
Identities = 196/285 (68%), Positives = 224/285 (78%), Gaps = 16/285 (5%)
Query: 55 YAGVQLEETVDTKAGKLRLDAWISSRIDG--ISRARVQSSIRSGLVSINGQVVSKVSHNV 112
+ G +LEE V G+ R+DAWIS+R+ G +SRARVQ+SIR+GLV++NG+ VSKVSH V
Sbjct: 54 HGGTRLEEAVPVGEGRSRVDAWISARLGGGGVSRARVQASIRAGLVAVNGRPVSKVSHTV 113
Query: 113 KGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGI 172
KGGD+V+CT+SELQPLRAEAEDIPLDIVYEDD+VLVVNKPAHMVVHPAPGNA GTLVN I
Sbjct: 114 KGGDLVSCTVSELQPLRAEAEDIPLDIVYEDDHVLVVNKPAHMVVHPAPGNAKGTLVNAI 173
Query: 173 LHHCSLPTLA----SSNQEAFSDAEDISDD---------EEFSSSISGASIRPGIVHRLD 219
LHHC + T SS + D+ D D E+ SS + A +RPGIVHRLD
Sbjct: 174 LHHCKISTFTCLARSSAGDECPDSTDEDTDVFHVDQFAAEDVSSEVRNALVRPGIVHRLD 233
Query: 220 KGTSGLLVVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIR 279
KGTSGLLVVAKDEHSHA L+EQFKLHTI RVYISLT G P+ +SGRIE I+RDPNNRIR
Sbjct: 234 KGTSGLLVVAKDEHSHARLAEQFKLHTIRRVYISLTCGAPNPNSGRIEASIARDPNNRIR 293
Query: 280 MAAIPGSNKHGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQ 324
M AI GS H AR+AASRYKV E+ AGGGSALVEWRLETGRTHQ
Sbjct: 294 MTAIAGSG-HRYARNAASRYKVREVFAGGGSALVEWRLETGRTHQ 337
>gi|218198893|gb|EEC81320.1| hypothetical protein OsI_24484 [Oryza sativa Indica Group]
Length = 445
Score = 382 bits (982), Expect = e-103, Method: Compositional matrix adjust.
Identities = 197/296 (66%), Positives = 226/296 (76%), Gaps = 16/296 (5%)
Query: 55 YAGVQLEETVDTKAGKLRLDAWISSRIDG--ISRARVQSSIRSGLVSINGQVVSKVSHNV 112
+ G +LEE V G+ R+DAWIS+R+ G +SRAR+Q+SIR+GLV +NG+ VSKVSH V
Sbjct: 56 HGGTRLEEAVPAGEGRSRIDAWISARLGGGGVSRARIQASIRAGLVVVNGRPVSKVSHMV 115
Query: 113 KGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGI 172
KGGD+V+CT+SELQPLRAE EDIPLDIVYEDD++LVVNKPAHMVVHPAPGNA GTLVN I
Sbjct: 116 KGGDIVSCTVSELQPLRAEPEDIPLDIVYEDDHLLVVNKPAHMVVHPAPGNANGTLVNAI 175
Query: 173 LHHCSLPTLASSNQEAFSDAEDISDDE-------------EFSSSISGASIRPGIVHRLD 219
LHHC + T + + D S D+ E SS + A +RPGIVHRLD
Sbjct: 176 LHHCKISTFTCLARNSIDDECPDSSDDDIDVFDIDQFTTGEVSSEVREALVRPGIVHRLD 235
Query: 220 KGTSGLLVVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIR 279
KGTSGLLVVAKDEHSHA L+EQFKLHTI RVYISLT G P+ +SGRIEVPI+RDPNNRIR
Sbjct: 236 KGTSGLLVVAKDEHSHAQLAEQFKLHTIRRVYISLTCGAPNPNSGRIEVPIARDPNNRIR 295
Query: 280 MAAIPGSNKHGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
M A PGS H ARHAASRYKV E+ AGGGSALVEWRLETGRTHQ+ K IP
Sbjct: 296 MIATPGSG-HRYARHAASRYKVREVFAGGGSALVEWRLETGRTHQIRAHAKYLGIP 350
>gi|115469990|ref|NP_001058594.1| Os06g0717400 [Oryza sativa Japonica Group]
gi|75252835|sp|Q5Z8P2.1|PUS2_ORYSJ RecName: Full=RNA pseudourine synthase 2, chloroplastic; AltName:
Full=RNA pseudouridylate synthase 2; AltName:
Full=RNA-uridine isomerase 2; Flags: Precursor
gi|53791796|dbj|BAD53590.1| ribosomal large subunit pseudouridine synthase-like [Oryza sativa
Japonica Group]
gi|54291043|dbj|BAD61720.1| ribosomal large subunit pseudouridine synthase-like [Oryza sativa
Japonica Group]
gi|113596634|dbj|BAF20508.1| Os06g0717400 [Oryza sativa Japonica Group]
gi|215706335|dbj|BAG93191.1| unnamed protein product [Oryza sativa Japonica Group]
gi|222636236|gb|EEE66368.1| hypothetical protein OsJ_22675 [Oryza sativa Japonica Group]
Length = 445
Score = 380 bits (975), Expect = e-103, Method: Compositional matrix adjust.
Identities = 196/296 (66%), Positives = 225/296 (76%), Gaps = 16/296 (5%)
Query: 55 YAGVQLEETVDTKAGKLRLDAWISSRIDG--ISRARVQSSIRSGLVSINGQVVSKVSHNV 112
+ G +LEE V G+ R+DAWIS+R+ G +SRAR+Q+SIR+GLV +NG+ VSKVSH V
Sbjct: 56 HGGTRLEEAVPAGEGRSRIDAWISARLGGGGVSRARIQASIRAGLVVVNGRPVSKVSHMV 115
Query: 113 KGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGI 172
KGGD+V+CT+ ELQPLRAE EDIPLDIVYEDD++LVVNKPAHMVVHPAPGNA GTLVN I
Sbjct: 116 KGGDIVSCTVLELQPLRAEPEDIPLDIVYEDDHLLVVNKPAHMVVHPAPGNANGTLVNAI 175
Query: 173 LHHCSLPTLASSNQEAFSDAEDISDDE-------------EFSSSISGASIRPGIVHRLD 219
LHHC + T + + D S D+ E SS + A +RPGIVHRLD
Sbjct: 176 LHHCKISTFTCLARNSIDDECPDSSDDDIDVFDIDQFTTGEVSSEVREALVRPGIVHRLD 235
Query: 220 KGTSGLLVVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIR 279
KGTSGLLVVAKDEHSHA L+EQFKLHTI RVYISLT G P+ +SGRIEVPI+RDPNNRIR
Sbjct: 236 KGTSGLLVVAKDEHSHAQLAEQFKLHTIRRVYISLTCGAPNPNSGRIEVPIARDPNNRIR 295
Query: 280 MAAIPGSNKHGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
M A PGS H ARHAASRYKV E+ AGGGSALVEWRLETGRTHQ+ K IP
Sbjct: 296 MIATPGSG-HRYARHAASRYKVREVFAGGGSALVEWRLETGRTHQIRAHAKYLGIP 350
>gi|357123160|ref|XP_003563280.1| PREDICTED: RNA pseudourine synthase 2, chloroplastic-like
[Brachypodium distachyon]
Length = 439
Score = 378 bits (971), Expect = e-102, Method: Compositional matrix adjust.
Identities = 193/295 (65%), Positives = 223/295 (75%), Gaps = 15/295 (5%)
Query: 55 YAGVQLEETVDTKAGKLRLDAWISSRIDG--ISRARVQSSIRSGLVSINGQVVSKVSHNV 112
+AG +LEE V G+ R+DAWIS+R+ G +SRARVQ+SIR+GLV++NG+ VSKVS V
Sbjct: 52 HAGTRLEEAVPAGEGRSRVDAWISARLGGGGVSRARVQASIRAGLVAVNGRPVSKVSQTV 111
Query: 113 KGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGI 172
KGGD V+CT+SELQPLRAEAEDIPLDIVYED+++LVVNKPAHMVVHPAPGNA GTLVN I
Sbjct: 112 KGGDTVSCTVSELQPLRAEAEDIPLDIVYEDEHLLVVNKPAHMVVHPAPGNANGTLVNAI 171
Query: 173 LHHCSLPTLASSNQEAFSDAEDISD------------DEEFSSSISGASIRPGIVHRLDK 220
LHHC + T + + D S + E SS + A +RPGIVHRLDK
Sbjct: 172 LHHCKISTFTCLARNSIDDECPESSDDDIDVFDVDQFNGEVSSEVRDAIVRPGIVHRLDK 231
Query: 221 GTSGLLVVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRM 280
GTSGLLVVAKDEHSHA L+EQFKLHTI R+YISLT GVP+ +S RIEVPISRDPNNRIRM
Sbjct: 232 GTSGLLVVAKDEHSHAQLAEQFKLHTIRRIYISLTCGVPNPNSARIEVPISRDPNNRIRM 291
Query: 281 AAIPGSNKHGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
A PGS H ARHAASRYKV E+ GGSALVEW+LETGRTHQ+ K P
Sbjct: 292 IAAPGSG-HRYARHAASRYKVREVFCSGGSALVEWKLETGRTHQIRAHAKYLGYP 345
>gi|42563248|ref|NP_177732.2| RNA pseudourine synthase 2 [Arabidopsis thaliana]
gi|332197668|gb|AEE35789.1| RNA pseudourine synthase 2 [Arabidopsis thaliana]
Length = 313
Score = 376 bits (966), Expect = e-102, Method: Compositional matrix adjust.
Identities = 190/252 (75%), Positives = 216/252 (85%), Gaps = 4/252 (1%)
Query: 51 PIANYAGVQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSH 110
P N AG+++EE VD GK+RLD+WISSRI+G+SRARVQSSIR GLV++NG+VV KVSH
Sbjct: 62 PRVNNAGLRIEEIVDAAKGKIRLDSWISSRINGVSRARVQSSIRLGLVTVNGRVVDKVSH 121
Query: 111 NVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVN 170
NVK GD VNCTISELQPL+AEAEDIPLDIVYED +VLVVNKPAHMVVHPAPGN TGTLVN
Sbjct: 122 NVKSGDEVNCTISELQPLKAEAEDIPLDIVYEDKHVLVVNKPAHMVVHPAPGNPTGTLVN 181
Query: 171 GILHHCSLPTLASSN--QEAFSDAEDISDDEEFSSSIS--GASIRPGIVHRLDKGTSGLL 226
GILHHCSLP + SN ++ SD E SDDEE ++S S AS+RPGIVHRLDKGT+GLL
Sbjct: 182 GILHHCSLPCVDYSNSEEDDDSDEETFSDDEEMTTSPSSYAASVRPGIVHRLDKGTTGLL 241
Query: 227 VVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGS 286
VVAKDEHSHAHL+EQFKLHTIERVY+SLT+GVPS GRIE+PI RD +NRIRMAAIPG
Sbjct: 242 VVAKDEHSHAHLAEQFKLHTIERVYVSLTTGVPSPPQGRIEIPIGRDSSNRIRMAAIPGG 301
Query: 287 NKHGQARHAASR 298
+ G+ARHAASR
Sbjct: 302 VRGGRARHAASR 313
>gi|356517956|ref|XP_003527651.1| PREDICTED: LOW QUALITY PROTEIN: RNA pseudourine synthase 2,
chloroplastic-like [Glycine max]
Length = 441
Score = 364 bits (935), Expect = 3e-98, Method: Compositional matrix adjust.
Identities = 190/308 (61%), Positives = 231/308 (75%), Gaps = 26/308 (8%)
Query: 50 EPIANYAGVQLEETVDTK--AGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSK 107
EP N++GV+LEE VD++ +GKLRLD WISSRI+GI RARVQSSI+SGLV +NG+VV K
Sbjct: 51 EPKLNFSGVRLEEAVDSRIGSGKLRLDNWISSRINGIRRARVQSSIKSGLVHVNGRVVDK 110
Query: 108 VSHNVKGGDMVNCTIS--ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNAT 165
VS NVK GD + CTI+ ELQ LRA E+IPLDIVYED++VLV+NKPAHMV+ P N +
Sbjct: 111 VSFNVKSGDEIKCTIAIAELQNLRAVTENIPLDIVYEDEHVLVINKPAHMVI---PNNTS 167
Query: 166 GTLVNGILHHCSLPTLA-SSNQEAFSDAEDISDDEEFSS---------------SISGAS 209
G LVNGILHHC+LP + S +EA SD ED D+EF+S S++ S
Sbjct: 168 GMLVNGILHHCNLPNVEFSKEEEALSDTED--SDDEFNSYRSLASFCEGLNSRLSVASNS 225
Query: 210 IRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVP 269
IR GIVHRLDKGTSGL VAKDEHSH LSEQFK HTI+R+Y+SLT+G+P+ +GR+EVP
Sbjct: 226 IRSGIVHRLDKGTSGL-PVAKDEHSHMKLSEQFKQHTIKRIYVSLTAGLPTPVAGRVEVP 284
Query: 270 ISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQVLMLY 329
+ RDPNNRIRM A+ G +ARHAASRYKVIEILAGG +LVEW+LETGRTHQ+
Sbjct: 285 VGRDPNNRIRMTAVAGPVNSRKARHAASRYKVIEILAGGSCSLVEWKLETGRTHQIRTYA 344
Query: 330 KLFYIPRM 337
K +P +
Sbjct: 345 KYLGVPLL 352
>gi|413943104|gb|AFW75753.1| hypothetical protein ZEAMMB73_425131 [Zea mays]
Length = 312
Score = 332 bits (850), Expect = 2e-88, Method: Compositional matrix adjust.
Identities = 172/258 (66%), Positives = 199/258 (77%), Gaps = 16/258 (6%)
Query: 55 YAGVQLEETVDTKAGKLRLDAWISSRIDG--ISRARVQSSIRSGLVSINGQVVSKVSHNV 112
+ G +LEE V G+ R+DAWIS+R+ G +SRARVQ+SIR+GLV++NG+ VSKVSH V
Sbjct: 54 HGGTRLEEAVPVGEGRSRVDAWISARLGGGGVSRARVQASIRAGLVAVNGRPVSKVSHTV 113
Query: 113 KGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGI 172
KGGD+V+CT+SELQPLRAEAEDIPLDIVYEDD+VLVVNKPAHMVVHPAPGNA GTLVN I
Sbjct: 114 KGGDLVSCTVSELQPLRAEAEDIPLDIVYEDDHVLVVNKPAHMVVHPAPGNAKGTLVNAI 173
Query: 173 LHHCSLPTLA----SSNQEAFSDAEDISDD---------EEFSSSISGASIRPGIVHRLD 219
LHHC + T SS + D+ D D E+ SS + A +RPGIVHRLD
Sbjct: 174 LHHCKISTFTCLARSSAGDECPDSTDEDTDVFHVDQFAAEDVSSEVRNALVRPGIVHRLD 233
Query: 220 KGTSGLLVVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIR 279
KGTSGLLVVAKDEHSHA L+EQFKLHTI RVYISLT G P+ +SGRIE I+RDPNNRIR
Sbjct: 234 KGTSGLLVVAKDEHSHARLAEQFKLHTIRRVYISLTCGAPNPNSGRIEASIARDPNNRIR 293
Query: 280 MAAIPGSNKHGQARHAAS 297
M AI GS H AR+AAS
Sbjct: 294 MTAIAGSG-HRYARNAAS 310
>gi|18855035|gb|AAL79727.1|AC091774_18 putative ribosomal large subunit pseudouridine synthase [Oryza
sativa Japonica Group]
Length = 275
Score = 320 bits (820), Expect = 6e-85, Method: Compositional matrix adjust.
Identities = 164/246 (66%), Positives = 187/246 (76%), Gaps = 28/246 (11%)
Query: 55 YAGVQLEETVDTKAGKLRLDAWISSRIDG--ISRARVQSSIRSGLVSINGQVVSKVSHNV 112
+ G +LEE V G+ R+DAWIS+R+ G +SRAR+Q+SIR+GLV +NG+ VSKVSH V
Sbjct: 56 HGGTRLEEAVPAGEGRSRIDAWISARLGGGGVSRARIQASIRAGLVVVNGRPVSKVSHMV 115
Query: 113 KGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGI 172
KGGD+V+CT+ ELQPLRAE EDIPLDIVYEDD++LVVNKPAHMVVHPAPGNA GTLVN I
Sbjct: 116 KGGDIVSCTVLELQPLRAEPEDIPLDIVYEDDHLLVVNKPAHMVVHPAPGNANGTLVNAI 175
Query: 173 LHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDE 232
LHHC + T S +RPGIVHRLDKGTSGLLVVAKDE
Sbjct: 176 LHHCKISTFTS-------------------------LVRPGIVHRLDKGTSGLLVVAKDE 210
Query: 233 HSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQA 292
HSHA L+EQFKLHTI RVYISLT G P+ +SGRIEVPI+RDPNNRIRM A PGS H A
Sbjct: 211 HSHAQLAEQFKLHTIRRVYISLTCGAPNPNSGRIEVPIARDPNNRIRMIATPGSG-HRYA 269
Query: 293 RHAASR 298
RHAASR
Sbjct: 270 RHAASR 275
>gi|302791942|ref|XP_002977737.1| hypothetical protein SELMODRAFT_107344 [Selaginella moellendorffii]
gi|300154440|gb|EFJ21075.1| hypothetical protein SELMODRAFT_107344 [Selaginella moellendorffii]
Length = 421
Score = 268 bits (685), Expect = 3e-69, Method: Compositional matrix adjust.
Identities = 155/308 (50%), Positives = 185/308 (60%), Gaps = 29/308 (9%)
Query: 52 IANYAGVQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHN 111
+ Y G EETV T R+D W+S ++ SRARVQ SIR GL +NG+ ++K S
Sbjct: 34 LGEYHGTIPEETVST-----RIDVWLSGQLPHTSRARVQDSIRKGLALVNGKTITKPSFP 88
Query: 112 VKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNG 171
V GGD V CT+ PL A E I LDIV+EDD+V+VVNK A MVVHPAPG+ GTLVN
Sbjct: 89 VIGGDEVVCTLCGAAPLEATPERIQLDIVHEDDHVIVVNKAADMVVHPAPGHYGGTLVNA 148
Query: 172 ILHHCSLPTLASS------------NQEAFSD--AEDISDDE--------EFSSSISGAS 209
ILHHC LP + S E S+ +D DE E S G
Sbjct: 149 ILHHCGLPAVEVSLPVMMDEESDDDEGEELSENGDQDYEKDEVEVHKARGETPSRFRGPR 208
Query: 210 --IRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIE 267
IRPGIVHRLDKGTSGL+VVAKDE S LSEQFK + R Y+SLT G PS +SGRIE
Sbjct: 209 PVIRPGIVHRLDKGTSGLIVVAKDEQSQLSLSEQFKSRKVRRTYLSLTCGTPSTTSGRIE 268
Query: 268 VPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQVLM 327
I RDP +R RM AR AASRYKV+++LA GG ALV+W+LETGRTHQ+ +
Sbjct: 269 AEILRDPRDRKRMTTSDTVPSARNARFAASRYKVLDVLANGGVALVQWKLETGRTHQIRV 328
Query: 328 LYKLFYIP 335
+ P
Sbjct: 329 HARYMGFP 336
>gi|159487279|ref|XP_001701661.1| RNA pseudouridine synthase [Chlamydomonas reinhardtii]
gi|158280880|gb|EDP06636.1| RNA pseudouridine synthase [Chlamydomonas reinhardtii]
Length = 338
Score = 248 bits (632), Expect = 4e-63, Method: Compositional matrix adjust.
Identities = 132/253 (52%), Positives = 173/253 (68%), Gaps = 13/253 (5%)
Query: 84 ISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAEAEDIPLDIVYED 143
+SRA+VQ+SI +GLV++NG+ VSK ++ GD V ++ P++A E IPLDI YED
Sbjct: 1 VSRAKVQASIAAGLVAVNGRPVSKAGQQLRAGDTVTASLLPPPPMQAIPEPIPLDIKYED 60
Query: 144 DNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSS 203
+++LV+NKPA MVVH APG+ TGTLVN +LHHCSLP L + E D E+ + SS
Sbjct: 61 EHLLVINKPAGMVVHVAPGHHTGTLVNALLHHCSLPALDLAPTEPGGDEEEEESAQLGSS 120
Query: 204 SISGAS-----------IRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVYI 252
+ +S +RPGIVHR+DKGTSGL+VVAK E + L QFK T++R+Y+
Sbjct: 121 RLLSSSSASSSSSGSRILRPGIVHRIDKGTSGLIVVAKTETALTRLQAQFKARTVDRLYL 180
Query: 253 SLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSAL 312
S+T G PS SGR+E ISRDP +R RMAA P G R AAS Y+V+E LAGGG AL
Sbjct: 181 SMTVGCPSSRSGRVETNISRDPGDRKRMAAAPYGGTRG--RTAASSYQVLEPLAGGGCAL 238
Query: 313 VEWRLETGRTHQV 325
V+W+L+TGRTHQ+
Sbjct: 239 VQWKLDTGRTHQI 251
>gi|224083169|ref|XP_002306957.1| predicted protein [Populus trichocarpa]
gi|222856406|gb|EEE93953.1| predicted protein [Populus trichocarpa]
Length = 192
Score = 245 bits (625), Expect = 2e-62, Method: Compositional matrix adjust.
Identities = 131/181 (72%), Positives = 148/181 (81%), Gaps = 7/181 (3%)
Query: 54 NYAGVQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKV-SHNV 112
N V+LEETVD+K+GKLRLD+WIS RI GISRARVQS I+SG+VS+NG++ KV SHNV
Sbjct: 7 NDFCVKLEETVDSKSGKLRLDSWISCRISGISRARVQSIIKSGIVSVNGKITYKVFSHNV 66
Query: 113 KGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGI 172
K GD ++C I E +PLR E E++PLDIVYED+NVLVVNKPA MVVHPAPGNATGTLVNGI
Sbjct: 67 KAGDEMDCIILEWKPLRVEPENLPLDIVYEDENVLVVNKPAQMVVHPAPGNATGTLVNGI 126
Query: 173 LHHCSLPTLASSNQEAFSDAEDISDD---EEFSSSISGASIRPGIVHRLDKGTSGLLVVA 229
LHH S PT+ SNQE SDAEDISDD E SS AS+RPGIVH LDKGTSGLLVVA
Sbjct: 127 LHHSS-PTV--SNQEVLSDAEDISDDGDGEGLCSSSYVASVRPGIVHWLDKGTSGLLVVA 183
Query: 230 K 230
K
Sbjct: 184 K 184
>gi|302846594|ref|XP_002954833.1| RNA pseudouridine synthase mitochondrial precursor [Volvox carteri
f. nagariensis]
gi|300259808|gb|EFJ44032.1| RNA pseudouridine synthase mitochondrial precursor [Volvox carteri
f. nagariensis]
Length = 343
Score = 236 bits (601), Expect = 1e-59, Method: Compositional matrix adjust.
Identities = 128/254 (50%), Positives = 165/254 (64%), Gaps = 8/254 (3%)
Query: 78 SSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAEAEDIPL 137
++R +SRA++Q+SI +GLV +NGQ +K S +K GD V C + P++A E IPL
Sbjct: 1 AARTQDVSRAKIQASIAAGLVLVNGQPAAKASQQLKAGDCVVCRLQPPPPMQALPEAIPL 60
Query: 138 DIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSDAEDIS- 196
DI YEDD+V+VVNKP+ MVVH APG+ GTLVN +LHHC+LP L +
Sbjct: 61 DIKYEDDHVIVVNKPSGMVVHVAPGHHHGTLVNALLHHCALPALDLDSSLDLDPDLGTGI 120
Query: 197 -----DDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
SS S + +RPGIVHRLDKGTSGLLVVAK E + L QFK T++R+Y
Sbjct: 121 GTSSSSSCSTSSLSSSSCLRPGIVHRLDKGTSGLLVVAKTEVALTRLQAQFKARTVDRLY 180
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
S+T G P Q +GR+E I RDP +R RMAA P + G+ R A S Y V+ LAGGG+A
Sbjct: 181 DSITVGCPVQPNGRVETNICRDPRDRKRMAAAPYGS--GRGRTAGSNYTVMAPLAGGGAA 238
Query: 312 LVEWRLETGRTHQV 325
LV W+L+TGRTHQ+
Sbjct: 239 LVRWKLDTGRTHQI 252
>gi|308805484|ref|XP_003080054.1| ribosomal large subunit pseudouridine syn (ISS) [Ostreococcus
tauri]
gi|116058513|emb|CAL53702.1| ribosomal large subunit pseudouridine syn (ISS) [Ostreococcus
tauri]
Length = 422
Score = 236 bits (601), Expect = 2e-59, Method: Compositional matrix adjust.
Identities = 136/287 (47%), Positives = 175/287 (60%), Gaps = 42/287 (14%)
Query: 72 RLDAWISSRI--DGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLR 129
RLDA+++S + SRARV +I++ +V +NG+ K + VK GD+V EL+ R
Sbjct: 68 RLDAYVASSVVDASASRARVARAIKASMVKVNGKTERKPARGVKPGDIVE---GELEGER 124
Query: 130 AEAEDIP-----LDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTL--- 181
+E IP LDIVYED++VLVV KPA MV HP+ G+A GTLVN +L HC LP L
Sbjct: 125 -RSEAIPEPSIELDIVYEDESVLVVCKPAGMVTHPSAGHARGTLVNAVLGHCDLPELVVP 183
Query: 182 ------------------ASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTS 223
S E+ SDAE SD ++ SIRPGIVHRLD+GTS
Sbjct: 184 TGRVSNRMNEDGDFDDDDGPSTSESDSDAESASDSDD-----DAGSIRPGIVHRLDRGTS 238
Query: 224 GLLVVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAI 283
G++VVAKD +H L QF T+ R Y+++ SGVP S GRIE P+ RDP +R+RMA
Sbjct: 239 GVMVVAKDASAHNSLCNQFASRTVRRRYVAILSGVPKTSKGRIEAPVGRDPKDRLRMAVT 298
Query: 284 PGSNKHGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQVLMLYK 330
PGS R+AAS Y+VI LA G ++LVEWRLETGRTHQ+ + K
Sbjct: 299 PGS-----GRYAASNYEVIATLASGNASLVEWRLETGRTHQIRVHAK 340
>gi|303287646|ref|XP_003063112.1| predicted protein [Micromonas pusilla CCMP1545]
gi|226455748|gb|EEH53051.1| predicted protein [Micromonas pusilla CCMP1545]
Length = 417
Score = 229 bits (585), Expect = 1e-57, Method: Compositional matrix adjust.
Identities = 127/270 (47%), Positives = 170/270 (62%), Gaps = 24/270 (8%)
Query: 72 RLDAWISSRID------GISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISEL 125
RLDA+I++ GI+RARV +SI++GLV +NG V K S V GD++ +
Sbjct: 87 RLDAYIATHAPPSEGGGGITRARVVASIKAGLVDVNGVVARKASERVSPGDVIRVALKPT 146
Query: 126 QPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSN 185
P A EDIPLD+ YED++VLVVNKPA MVVHPAPG+++GTLVN +L C P + ++
Sbjct: 147 PPTEAAPEDIPLDVKYEDEHVLVVNKPAGMVVHPAPGHSSGTLVNAVLFRCGCPAMRVAS 206
Query: 186 QEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLH 245
A + A+ ++ RPGIVHRLDKGTSGL+VVAK+E +HA L EQF
Sbjct: 207 GNA-NTADGVA--------------RPGIVHRLDKGTSGLIVVAKNEAAHASLCEQFATR 251
Query: 246 TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEIL 305
+ R Y+++ G P Q GR++ PI RDP +R++MA + R AAS YKV L
Sbjct: 252 VVRRRYLAICLGSPEQGEGRVDAPIGRDPRDRLKMAV---VRRSRGGRRAASNYKVRASL 308
Query: 306 AGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
A G ++LVEWRLETGRTHQ+ + + IP
Sbjct: 309 ARGNASLVEWRLETGRTHQIRVHAREIGIP 338
>gi|388510382|gb|AFK43257.1| unknown [Lotus japonicus]
Length = 209
Score = 226 bits (577), Expect = 1e-56, Method: Compositional matrix adjust.
Identities = 120/209 (57%), Positives = 148/209 (70%), Gaps = 13/209 (6%)
Query: 3 MLSLNSASWGSASCTKGLQFSPTKIPFGVFKILR-------ARCSS----SSSGGNNREP 51
M+ L+S+ + S + +F P +F AR SS +S G+ EP
Sbjct: 1 MILLHSSGYCRVSTPRAFKFQTPLSPSLLFSATNSKSRSAIARASSGFADNSDSGDGGEP 60
Query: 52 IANYAGVQLEETVDTK--AGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVS 109
ANYAGVQLEE VD + +GK RLD+WIS+RI+GISRARVQSSI+SGLV +NG+VV+KVS
Sbjct: 61 RANYAGVQLEEIVDNRIGSGKPRLDSWISTRINGISRARVQSSIKSGLVHVNGRVVNKVS 120
Query: 110 HNVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLV 169
NVK GD + CTI+ELQ LRA EDIPLDIVYED+++LV+NKPAHMVVHPAPGN GTLV
Sbjct: 121 FNVKSGDEIKCTIAELQSLRAVPEDIPLDIVYEDEHLLVINKPAHMVVHPAPGNTFGTLV 180
Query: 170 NGILHHCSLPTLASSNQEAFSDAEDISDD 198
NGILHHC+LP SN++A + ED DD
Sbjct: 181 NGILHHCNLPNAEFSNEDALAYTEDSDDD 209
>gi|302795552|ref|XP_002979539.1| hypothetical protein SELMODRAFT_36043 [Selaginella moellendorffii]
gi|300152787|gb|EFJ19428.1| hypothetical protein SELMODRAFT_36043 [Selaginella moellendorffii]
Length = 229
Score = 224 bits (572), Expect = 4e-56, Method: Compositional matrix adjust.
Identities = 128/247 (51%), Positives = 148/247 (59%), Gaps = 23/247 (9%)
Query: 52 IANYAGVQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHN 111
+ Y G EETV T R+D W+S ++ SRARVQ SIR GL +NG+ ++K S
Sbjct: 6 LGEYHGTIPEETVST-----RIDVWLSGQLPHTSRARVQDSIRKGLALVNGKTITKPSFP 60
Query: 112 VKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNG 171
V GGD V CT+ PL A E I LDIV+EDD+V+VVNK A MVVHPAPG+ GTLVN
Sbjct: 61 VIGGDEVVCTLCGAAPLEATPEKIQLDIVHEDDHVIVVNKAADMVVHPAPGHYGGTLVNA 120
Query: 172 ILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKD 231
ILHHC LP S F + IRPGIVHRLDKGTSGL+VVAKD
Sbjct: 121 ILHHCGLPATPSR----FRGPRPV--------------IRPGIVHRLDKGTSGLIVVAKD 162
Query: 232 EHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQ 291
E S LSEQFK + R Y+SLT G PS +SGRIE I RDP +R RM
Sbjct: 163 EQSQLSLSEQFKSRKVRRTYLSLTCGTPSTTSGRIEAEILRDPRDRKRMTTSDTVPSARN 222
Query: 292 ARHAASR 298
AR AASR
Sbjct: 223 ARFAASR 229
>gi|145343527|ref|XP_001416372.1| predicted protein [Ostreococcus lucimarinus CCE9901]
gi|144576597|gb|ABO94665.1| predicted protein [Ostreococcus lucimarinus CCE9901]
Length = 332
Score = 223 bits (569), Expect = 8e-56, Method: Compositional matrix adjust.
Identities = 125/259 (48%), Positives = 167/259 (64%), Gaps = 10/259 (3%)
Query: 72 RLDAWISSRID--GISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLR 129
RLDA++++ + SR RV ++I++ +V++NG+ SK S +K GD++ + +
Sbjct: 2 RLDAYVAANVPDASASRGRVAAAIKARMVTLNGKTASKPSRALKPGDVIEGELERERASE 61
Query: 130 AEAED-IPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA--SSNQ 186
A+ E + LDIV+ED++VLVVNK A MV HP+ G+ +GTLVN +L HC LP L + NQ
Sbjct: 62 AKPEPWVKLDIVHEDESVLVVNKAAGMVTHPSAGHESGTLVNAVLGHCDLPELVVPTGNQ 121
Query: 187 EAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHT 246
D ED D + IRPGIVHRLDKGTSG++VVAKD +H L EQF
Sbjct: 122 ALSDDDEDDEDAVDEDEGARDGMIRPGIVHRLDKGTSGVMVVAKDASAHNSLCEQFAARV 181
Query: 247 IERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILA 306
+ R Y+++ SGVPS S GRIE PI RDP +R+RMA G R AAS Y+VI LA
Sbjct: 182 VRRKYVAILSGVPSPSKGRIEAPIGRDPRDRLRMAVT-----QGGGRFAASNYEVIATLA 236
Query: 307 GGGSALVEWRLETGRTHQV 325
G ++LVEWRLETGRTHQ+
Sbjct: 237 NGNASLVEWRLETGRTHQI 255
>gi|384250930|gb|EIE24408.1| pseudouridine synthase [Coccomyxa subellipsoidea C-169]
Length = 352
Score = 218 bits (554), Expect = 4e-54, Method: Compositional matrix adjust.
Identities = 120/252 (47%), Positives = 155/252 (61%), Gaps = 20/252 (7%)
Query: 89 VQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLV 148
+Q++IR G V +N V SK ++ GD+V C + L L A EDIPLD+VYEDD++LV
Sbjct: 13 LQAAIRDGFVRVNEGVPSKPGLALRPGDVVACRLPPLPSLEASPEDIPLDVVYEDDHLLV 72
Query: 149 VNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD----AEDISDDEE---- 200
+NK A MV+HPAPGN TGTLV+ +LH LP++ S ++ D AE DEE
Sbjct: 73 INKAAGMVIHPAPGNYTGTLVSALLHRFGLPSVRLSADDSPGDELEAAESEDGDEERAVP 132
Query: 201 -------FSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVYIS 253
S SG IRPGIVHRLDKGT+GL+V AKDE + L+ QFK HT++RVY +
Sbjct: 133 WALPETPMSVGQSGDVIRPGIVHRLDKGTTGLMVAAKDERTLTGLAAQFKAHTVQRVYHA 192
Query: 254 LTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSALV 313
+ GVP ++ G IE I RD +R +M RHA S Y+VIE LAG +A
Sbjct: 193 IVLGVPKEAEGVIETNIGRDIRDRKKMGVF-----SYMGRHAVSGYRVIEPLAGDSAAYT 247
Query: 314 EWRLETGRTHQV 325
WRL+TGRTHQ+
Sbjct: 248 AWRLQTGRTHQI 259
>gi|412986880|emb|CCO15306.1| pseudouridine synthase, RluA family [Bathycoccus prasinos]
Length = 445
Score = 217 bits (552), Expect = 6e-54, Method: Compositional matrix adjust.
Identities = 118/287 (41%), Positives = 169/287 (58%), Gaps = 29/287 (10%)
Query: 72 RLDAWISS--RIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLR 129
RLDA+I+ R + I+R V SI +G V +NG K ++ V+ GD++ TI + L
Sbjct: 82 RLDAFIAENLREEKITRGAVARSIANGNVFVNGTKTMKKTYKVQRGDVIRLTIERAKSLT 141
Query: 130 AEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAF 189
AE EDI LD++YED++V+V+NKPA MVVHPAPG+++GTLVN +L+HC P L
Sbjct: 142 AEPEDIKLDVIYEDEDVIVINKPAGMVVHPAPGHSSGTLVNALLYHCGCPALVVQEGRKI 201
Query: 190 SDAEDISDDEE-------------------FSSSISGASIRPGIVHRLDKGTSGLLVVAK 230
+ D ++ + ++RPGIVHRLDKGTSGLLV AK
Sbjct: 202 PKSLDFAEVQNEEEEDDDDDDDDDDEIMPYLGPEEEDTTVRPGIVHRLDKGTSGLLVCAK 261
Query: 231 DEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHG 290
+ +H HL +QF ++ R+Y++L G P+ S+G +E PI RDP NR+RM +I S + G
Sbjct: 262 NGAAHQHLCDQFAARSVRRLYVALVLGHPNPSAGVVEEPIGRDPKNRLRM-SIASSLRTG 320
Query: 291 QARHAASRYKVIEIL-----AGGGSALVEWRLETGRTHQVLMLYKLF 332
R A S Y+ +E ++LVEW+L+TGRTHQ+ + K
Sbjct: 321 --RFARSNYRTLETFPTSADTATSASLVEWKLDTGRTHQIRVHSKFL 365
>gi|26450633|dbj|BAC42428.1| putative RNA pseudouridylate synthase [Arabidopsis thaliana]
Length = 148
Score = 211 bits (537), Expect = 4e-52, Method: Compositional matrix adjust.
Identities = 109/148 (73%), Positives = 123/148 (83%), Gaps = 4/148 (2%)
Query: 155 MVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSDAE--DISDDEEFSSSIS--GASI 210
MVVHPAPGN TGTLVNGILHHCSLP + SN E D++ SDDEE ++S S AS+
Sbjct: 1 MVVHPAPGNPTGTLVNGILHHCSLPCVDYSNSEEDDDSDEETFSDDEEMTTSPSSYAASV 60
Query: 211 RPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPI 270
RPGIVHRLDKGT+GLLVVAKDEHSHAHL+EQFKLHTIERVY+SLT+GVPS GRIE+PI
Sbjct: 61 RPGIVHRLDKGTTGLLVVAKDEHSHAHLAEQFKLHTIERVYVSLTTGVPSPPQGRIEIPI 120
Query: 271 SRDPNNRIRMAAIPGSNKHGQARHAASR 298
RD +NRIRMAAIPG + G+ARHAASR
Sbjct: 121 GRDSSNRIRMAAIPGGVRGGRARHAASR 148
>gi|392382839|ref|YP_005032036.1| pseudouridine synthase [Azospirillum brasilense Sp245]
gi|356877804|emb|CCC98656.1| pseudouridine synthase [Azospirillum brasilense Sp245]
Length = 350
Score = 206 bits (524), Expect = 1e-50, Method: Compositional matrix adjust.
Identities = 126/282 (44%), Positives = 160/282 (56%), Gaps = 39/282 (13%)
Query: 54 NYAGVQLEET---------VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSI-NGQ 103
Y G Q ET V AG RLD ++S + G+SR+RVQ+ + G V G+
Sbjct: 13 EYTGTQDGETGEGTRQRWSVPDDAGGQRLDKALASGLPGLSRSRVQALLEKGCVQDGTGR 72
Query: 104 VVSKVSHNVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGN 163
V+ S VK G + I E +P + EA+DIPLD+VYED++VLV++KPA MVVHPA GN
Sbjct: 73 TVTDPSMKVKPGQTFDVFIPEAEPAQPEAQDIPLDVVYEDEDVLVIDKPAGMVVHPAAGN 132
Query: 164 ATGTLVNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTS 223
GTLVN +L HC + S I G RPGIVHRLDK TS
Sbjct: 133 PDGTLVNALLAHCG----------------------DSLSGIGGVR-RPGIVHRLDKDTS 169
Query: 224 GLLVVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAI 283
GL+VVAK++ +H L+EQF T+ R Y +L GVPS GRIE I R +R +MA +
Sbjct: 170 GLMVVAKNDRAHHALTEQFSGRTLSRTYQALVWGVPSPREGRIEGNIGRSSTDRKKMAVV 229
Query: 284 PGSNKHGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQV 325
G K HAA+RY+V+ G ALVE LETGRTHQ+
Sbjct: 230 TGGGK-----HAATRYRVVRSF-GTALALVECTLETGRTHQI 265
>gi|422304578|ref|ZP_16391921.1| putative enzyme [Microcystis aeruginosa PCC 9806]
gi|389790244|emb|CCI13847.1| putative enzyme [Microcystis aeruginosa PCC 9806]
Length = 308
Score = 206 bits (523), Expect = 2e-50, Method: Compositional matrix adjust.
Identities = 113/263 (42%), Positives = 159/263 (60%), Gaps = 29/263 (11%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
+++ K RLDAW+ S++ +SR+R+Q I G + +NGQ+ + + V GD + TI
Sbjct: 5 SLEVAGKKERLDAWMGSQLPDLSRSRLQKLIEQGYIQLNGQICTNKNTKVGQGDRLKITI 64
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
+ QPL+ AE I LDI+YEDD ++++NKPA +VVHPAPG+ +GTLVN +LHHC P LA
Sbjct: 65 PDSQPLQLSAEAIELDILYEDDYLIIINKPADLVVHPAPGHESGTLVNALLHHC--PNLA 122
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
G RPGIVHRLDK T+G +V+AK + +H HL Q
Sbjct: 123 G----------------------IGGIQRPGIVHRLDKDTTGAIVIAKTDQAHQHLQAQL 160
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
K T R Y++L GVP +G I++PI R ++R +MA I K G R+A + ++V
Sbjct: 161 KTKTARREYMALVHGVPKSETGTIDLPIGRHRSDRQKMAII-AVEKGG--RNAVTHWQVK 217
Query: 303 EILAGGGSALVEWRLETGRTHQV 325
E L G L+E+RLETGRTHQ+
Sbjct: 218 ERL--GNYTLMEFRLETGRTHQI 238
>gi|397905194|ref|ZP_10506065.1| Ribosomal large subunit pseudouridine synthase D [Caloramator
australicus RC3]
gi|397161843|emb|CCJ33399.1| Ribosomal large subunit pseudouridine synthase D [Caloramator
australicus RC3]
Length = 305
Score = 205 bits (522), Expect = 2e-50, Method: Compositional matrix adjust.
Identities = 113/254 (44%), Positives = 159/254 (62%), Gaps = 33/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D ++S +I+ +SR+R+Q I + +N + + K ++ +K GD + + + L+ +
Sbjct: 17 RIDVFLSEKIEDMSRSRIQKLIEDNKIKVNAKEI-KSNYKIKNGDEITVEVPKPVMLQIQ 75
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AEDI +DI+YEDD+++VVNKP MVVHPA GN TGTLVN +L C TL
Sbjct: 76 AEDIDIDILYEDDDIVVVNKPQGMVVHPAAGNYTGTLVNALLKKCR--TL---------- 123
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
SSI+G IRPGIVHR+DK TSG+LVVAK++++H HL+EQ K HT++RVY
Sbjct: 124 -----------SSINGV-IRPGIVHRIDKDTSGVLVVAKNDYAHQHLAEQIKEHTVKRVY 171
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
I+LT GV Q G I+ PI R P +R +MA I + A + +KV+E +
Sbjct: 172 IALTEGVIKQDQGTIDKPIGRHPIHRKKMAVIEN------GKRAVTHFKVLE--RYKENT 223
Query: 312 LVEWRLETGRTHQV 325
LVE RLETGRTHQ+
Sbjct: 224 LVEARLETGRTHQI 237
>gi|443667130|ref|ZP_21133855.1| pseudouridine synthase, RluA family protein [Microcystis aeruginosa
DIANCHI905]
gi|159029548|emb|CAO87700.1| rluD [Microcystis aeruginosa PCC 7806]
gi|443331119|gb|ELS45796.1| pseudouridine synthase, RluA family protein [Microcystis aeruginosa
DIANCHI905]
Length = 308
Score = 205 bits (522), Expect = 2e-50, Method: Compositional matrix adjust.
Identities = 113/262 (43%), Positives = 159/262 (60%), Gaps = 29/262 (11%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
++ K RLDAW+ S++ +SR+R+Q I G + +NGQ+ + + V GD + TI
Sbjct: 6 LEVAGKKERLDAWMGSQLPDLSRSRLQKLIEQGYIQLNGQICTNKNTKVGQGDRLKITIP 65
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
+ QPL+ AE I LDI+YED+ ++++NKPA +VVHPAPG+ +GTLVN +LHHC P LA
Sbjct: 66 DSQPLQLSAEAIDLDILYEDEYLIIINKPADLVVHPAPGHESGTLVNALLHHC--PNLAG 123
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
G RPGIVHRLDK T+G +V+AK + +H HL Q K
Sbjct: 124 ----------------------IGGIQRPGIVHRLDKDTTGAIVIAKTDQAHQHLQAQLK 161
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
T R Y++L GVP +G I++PISR ++R +MA I K G R+A + ++V E
Sbjct: 162 TKTARREYMALVHGVPKSETGTIDLPISRHRSDRQKMAII-AVEKGG--RNAVTHWQVKE 218
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
L G L+E+RLETGRTHQ+
Sbjct: 219 RL--GNYTLMEFRLETGRTHQI 238
>gi|425442528|ref|ZP_18822771.1| putative enzyme [Microcystis aeruginosa PCC 9717]
gi|389716392|emb|CCH99374.1| putative enzyme [Microcystis aeruginosa PCC 9717]
Length = 308
Score = 205 bits (521), Expect = 3e-50, Method: Compositional matrix adjust.
Identities = 114/262 (43%), Positives = 156/262 (59%), Gaps = 29/262 (11%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
++ K RLDAW+ S + +SR+R+Q I G + +NGQ+ + + V GD + TI
Sbjct: 6 LEVAGKKERLDAWMGSHLPDLSRSRLQKLIEQGYIQLNGQICTNKNTKVGQGDRLKITIP 65
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
+ QPL AE I LDI+YEDD ++++NKPA +VVHPAPG+ +GTLVN +LHHC P LA
Sbjct: 66 DSQPLELTAEAIELDILYEDDYLIIINKPADLVVHPAPGHESGTLVNALLHHC--PNLAG 123
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
G RPGIVHRLDK T+G +V+AK + +H HL Q K
Sbjct: 124 ----------------------IGGIQRPGIVHRLDKDTTGAIVIAKTDQAHQHLQAQLK 161
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
T R YI+L GVP +G I++PI R ++R +MA I K G R+A + ++V E
Sbjct: 162 TKTARREYIALVHGVPKTETGTIDLPIGRHRSDRQKMAII-AVEKGG--RNAVTHWQVKE 218
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
L G L+E+RLETGRTHQ+
Sbjct: 219 RL--GNYTLMEFRLETGRTHQI 238
>gi|218438495|ref|YP_002376824.1| pseudouridine synthase [Cyanothece sp. PCC 7424]
gi|218171223|gb|ACK69956.1| pseudouridine synthase, RluA family [Cyanothece sp. PCC 7424]
Length = 306
Score = 205 bits (521), Expect = 3e-50, Method: Compositional matrix adjust.
Identities = 108/266 (40%), Positives = 160/266 (60%), Gaps = 29/266 (10%)
Query: 60 LEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
+E ++ + GKLRLD W++ ++ +SR+R+Q+ I G + +NG + + VK GD ++
Sbjct: 1 MEIHLEVEQGKLRLDRWLAQKLPDLSRSRLQTLIEQGNLQLNGTICTDKKTLVKSGDRLH 60
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
I ++PL + +DIPLDI+YEDD ++++NKPA +VVHP+PG+ GTLVN +L HCS
Sbjct: 61 LLIPPVKPLDLQPQDIPLDILYEDDQLIIINKPAGLVVHPSPGHEQGTLVNALLSHCS-- 118
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
LA G RPGIVHRLDK T+G LVVAK +++H HL
Sbjct: 119 NLAGI----------------------GGVQRPGIVHRLDKDTTGALVVAKTDYAHHHLQ 156
Query: 240 EQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRY 299
+Q K T R Y+ + GVP +SG+I + I R P R +MA +P R A + +
Sbjct: 157 QQLKAKTARREYLGIVYGVPKTTSGKINLSIGRHPIERKKMAVVPLEKG---GREAITHW 213
Query: 300 KVIEILAGGGSALVEWRLETGRTHQV 325
+++E L G +L+ +RLETGRTHQ+
Sbjct: 214 EILERL--GNYSLIYFRLETGRTHQI 237
>gi|166367953|ref|YP_001660226.1| ribosomal large subunit pseudouridine synthase D [Microcystis
aeruginosa NIES-843]
gi|166090326|dbj|BAG05034.1| ribosomal large subunit pseudouridine synthase D [Microcystis
aeruginosa NIES-843]
Length = 308
Score = 205 bits (521), Expect = 3e-50, Method: Compositional matrix adjust.
Identities = 114/262 (43%), Positives = 156/262 (59%), Gaps = 29/262 (11%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
++ K RLDAW+ S + +SR+R+Q I G + +NGQ+ + + V GD + TI
Sbjct: 6 LEVAGKKERLDAWMGSHLPDLSRSRLQKLIEQGYIQLNGQICTNKNTKVGQGDRLKITIP 65
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
+ QPL AE I LDI+YEDD ++++NKPA +VVHPAPG+ +GTLVN +LHHC P LA
Sbjct: 66 DSQPLELTAEAIELDILYEDDYLIIINKPADLVVHPAPGHESGTLVNALLHHC--PNLAG 123
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
G RPGIVHRLDK T+G +V+AK + +H HL Q K
Sbjct: 124 ----------------------IGGIQRPGIVHRLDKDTTGAIVIAKTDQAHQHLQAQLK 161
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
T R YI+L GVP +G I++PI R ++R +MA I K G R+A + ++V E
Sbjct: 162 TKTARREYIALVHGVPKSETGTIDLPIGRHRSDRQKMAII-AVEKGG--RNAVTHWQVKE 218
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
L G L+E+RLETGRTHQ+
Sbjct: 219 RL--GNYTLMEFRLETGRTHQI 238
>gi|307154024|ref|YP_003889408.1| RluA family pseudouridine synthase [Cyanothece sp. PCC 7822]
gi|306984252|gb|ADN16133.1| pseudouridine synthase, RluA family [Cyanothece sp. PCC 7822]
Length = 305
Score = 204 bits (520), Expect = 4e-50, Method: Compositional matrix adjust.
Identities = 108/266 (40%), Positives = 157/266 (59%), Gaps = 29/266 (10%)
Query: 60 LEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
+E T+ + GKLRLD W++ +I +SR+R+Q+ I G + +NG++ + V+ GD++
Sbjct: 1 MEITLQVEQGKLRLDVWLAQKIPDLSRSRLQNLIEQGNLRLNGKICTDKKTKVQQGDLLY 60
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
I ++PL + E+IPLD++YED+ ++++NKPA +VVHPAPG+ GTLVN +L HCS
Sbjct: 61 LFIPPVEPLNLQPEEIPLDVLYEDEQLIIINKPAGLVVHPAPGHEKGTLVNALLSHCS-- 118
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
LA G RPGIVHRLDK T+G LV+AK +++H HL
Sbjct: 119 NLAGI----------------------GGVQRPGIVHRLDKDTTGALVIAKTDYAHQHLQ 156
Query: 240 EQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRY 299
Q K T R Y+ + GVP SG I +PI R P R +MA +P R A + +
Sbjct: 157 AQLKAKTARREYLGVVYGVPKTGSGTINLPIGRHPIERKKMAVVPLEKG---GRVAITHW 213
Query: 300 KVIEILAGGGSALVEWRLETGRTHQV 325
++ E L G L+ +RLETGRTHQ+
Sbjct: 214 EIRERL--GNYTLIHFRLETGRTHQI 237
>gi|390438323|ref|ZP_10226804.1| putative enzyme [Microcystis sp. T1-4]
gi|389838270|emb|CCI30928.1| putative enzyme [Microcystis sp. T1-4]
Length = 308
Score = 204 bits (519), Expect = 4e-50, Method: Compositional matrix adjust.
Identities = 113/262 (43%), Positives = 157/262 (59%), Gaps = 29/262 (11%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
++ K RLDAW+ S++ +SR+R+Q I G + +NGQ+ + + V GD + TI
Sbjct: 6 LEVAGKKERLDAWMGSQLPDLSRSRLQKLIEQGYIQLNGQICTNKNTKVAQGDRLKITIP 65
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
+ QPL AE I LDI+YED+ ++++NKPA +VVHPAPG+ +GTLVN +LHHC P LA
Sbjct: 66 DSQPLELTAEAIELDILYEDEYLIIINKPADLVVHPAPGHESGTLVNALLHHC--PNLAG 123
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
G RPGIVHRLDK T+G +VVAK + +H HL Q K
Sbjct: 124 ----------------------IGGVQRPGIVHRLDKDTTGAIVVAKTDQAHQHLQAQLK 161
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
T R Y++L GVP +G I++PI R ++R +MA I K G R+A + ++V E
Sbjct: 162 TKTARREYMALVHGVPKSETGTIDLPIGRHRSDRQKMAII-AVEKGG--RNAVTHWQVKE 218
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
L G L+E+RLETGRTHQ+
Sbjct: 219 RL--GNYTLMEFRLETGRTHQI 238
>gi|294507190|ref|YP_003571248.1| ribosomal large subunit pseudouridine synthase D [Salinibacter
ruber M8]
gi|294343518|emb|CBH24296.1| Ribosomal large subunit pseudouridine synthase D [Salinibacter
ruber M8]
Length = 379
Score = 204 bits (519), Expect = 5e-50, Method: Compositional matrix adjust.
Identities = 114/264 (43%), Positives = 167/264 (63%), Gaps = 19/264 (7%)
Query: 69 GKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPL 128
G R+D +++ SR ++Q +I+ G + +NG V K S+ V+ GD + + P+
Sbjct: 37 GGPRIDKYLTRFYPEASRTKIQRAIKKGHLKVNGADVKK-SYGVEPGDEIVFRLIRKPPM 95
Query: 129 RAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEA 188
+AE E IPLD+V+EDD++LVVNKPA MVVHPAPG+ +GTLV+ +LHH +A+ ++
Sbjct: 96 QAEPEAIPLDVVHEDDDLLVVNKPAGMVVHPAPGHRSGTLVHALLHHVDGGEVAADDER- 154
Query: 189 FSDAEDISDDE-------EFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQ 241
+++S+DE S +RPGIVHRLDKGTSGLLVVAK +H L+EQ
Sbjct: 155 ----DEVSEDEVGLSLVNALPQSPDHPVVRPGIVHRLDKGTSGLLVVAKRGRAHQPLAEQ 210
Query: 242 FKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKV 301
FK HT++R Y ++ G + S G IE I RDP++R RMA +PG + + A + Y+
Sbjct: 211 FKAHTVDRRYRAIVWGHFAPSDGTIEGAIGRDPHHRQRMAVVPGD----EGKWARTHYET 266
Query: 302 IEILAGGGSALVEWRLETGRTHQV 325
+E A +++VE+ LETGRTHQ+
Sbjct: 267 VETYA--HTSVVEFELETGRTHQI 288
>gi|425464645|ref|ZP_18843955.1| putative enzyme [Microcystis aeruginosa PCC 9809]
gi|389833297|emb|CCI22302.1| putative enzyme [Microcystis aeruginosa PCC 9809]
Length = 308
Score = 204 bits (519), Expect = 5e-50, Method: Compositional matrix adjust.
Identities = 114/262 (43%), Positives = 156/262 (59%), Gaps = 29/262 (11%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
++ K RLDAW+ S++ +SR+R+Q I G + +NGQ+ + + V GD + TI
Sbjct: 6 LEVAGKKERLDAWMGSQLPDLSRSRLQKLIEQGYIQLNGQICTNKNTKVGQGDRLKITIP 65
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
+ QPL AE I LDI+YEDD ++++NKPA +VVHPAPG+ +GTLVN +LHHC P LA
Sbjct: 66 DSQPLELTAEAIELDILYEDDYLIIINKPADLVVHPAPGHESGTLVNALLHHC--PNLAG 123
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
G RPGIVHRLDK T+G +V+AK + +H HL Q K
Sbjct: 124 ----------------------IGGIQRPGIVHRLDKDTTGAIVIAKTDQAHQHLQAQLK 161
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
T R YI+L GVP G I++PI R ++R +MA I K G R+A + ++V E
Sbjct: 162 TKTARREYIALVHGVPKSEIGTIDLPIGRHRSDRQKMAII-AVEKGG--RNAVTHWQVKE 218
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
L G L+E+RLETGRTHQ+
Sbjct: 219 RL--GNYTLMEFRLETGRTHQI 238
>gi|295100789|emb|CBK98334.1| ribosomal large subunit pseudouridine synthase D [Faecalibacterium
prausnitzii L2-6]
Length = 310
Score = 203 bits (517), Expect = 7e-50, Method: Compositional matrix adjust.
Identities = 116/267 (43%), Positives = 159/267 (59%), Gaps = 28/267 (10%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q E V+ +A R+D ++S G+SR+ +Q + G V NG+ ++K S +K GD +
Sbjct: 3 QREFIVEAEAAGQRIDRFLSGEDTGLSRSALQGLVAEGHVLCNGKSIAK-SLKLKAGDTI 61
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
I + +P+ A +DIPLDIVYEDD++LVVNKP MVVHPAPGN GTLVN +L HC
Sbjct: 62 LLEIPDAKPIEAVPQDIPLDIVYEDDHLLVVNKPKGMVVHPAPGNPDGTLVNALLWHC-- 119
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+ S S G IRPGIVHR+DK TSGLLVVAKD+ +H L
Sbjct: 120 ---------------------KGSLSGIGGEIRPGIVHRIDKDTSGLLVVAKDDATHIGL 158
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
S+Q +H++ER Y ++ G +Q G +E + R +R +MA P S H ++A +
Sbjct: 159 SQQMAVHSVERAYQTVVYGGFAQDEGFVEANLGRSKTDRKKMAVYPASEPH--TKYAYTG 216
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQV 325
YKV+E GG L+E RL+TGRTHQ+
Sbjct: 217 YKVLERF--GGFTLLECRLKTGRTHQI 241
>gi|425445524|ref|ZP_18825552.1| putative enzyme [Microcystis aeruginosa PCC 9443]
gi|389734479|emb|CCI01876.1| putative enzyme [Microcystis aeruginosa PCC 9443]
Length = 308
Score = 203 bits (517), Expect = 8e-50, Method: Compositional matrix adjust.
Identities = 111/262 (42%), Positives = 158/262 (60%), Gaps = 29/262 (11%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
++ K RLDAW+ S++ +SR+R+Q I G + +NGQ+ + + V GD + TI
Sbjct: 6 LEVAGKKERLDAWMGSQLPDLSRSRLQKLIEQGYIQLNGQICTNKNTKVAQGDRLKITIP 65
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
+ QPL+ AE I L+I+YEDD ++++NKPA +VVHPAPG+ +GTLVN +LHHC P LA
Sbjct: 66 DSQPLQLSAEAIDLEILYEDDYLIIINKPADLVVHPAPGHESGTLVNALLHHC--PNLAG 123
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
G RPGIVHRLDK T+G +V+AK + +H HL Q K
Sbjct: 124 ----------------------IGGIQRPGIVHRLDKDTTGAIVIAKTDQAHQHLQAQLK 161
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
T R Y++L GVP +G I++PI R ++R +MA I K G R+A + +++ E
Sbjct: 162 TKTARREYMALVHGVPKSETGTIDLPIGRHRSDRQKMAII-AVEKGG--RNAVTHWQIKE 218
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
L G L+E+RLETGRTHQ+
Sbjct: 219 RL--GNYTLMEFRLETGRTHQI 238
>gi|425454973|ref|ZP_18834698.1| putative enzyme [Microcystis aeruginosa PCC 9807]
gi|389804214|emb|CCI16935.1| putative enzyme [Microcystis aeruginosa PCC 9807]
Length = 308
Score = 203 bits (517), Expect = 9e-50, Method: Compositional matrix adjust.
Identities = 111/262 (42%), Positives = 157/262 (59%), Gaps = 29/262 (11%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
++ K RLDAW+ S++ +SR+R+Q I G + +NGQ+ + + V GD + TI
Sbjct: 6 LEVAGKKERLDAWMGSQLPDLSRSRLQKLIEQGYIQLNGQICTNKNTKVAQGDRLKITIP 65
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
+ QPL+ AE I LDI+YED+ ++++NKPA +VVHPAPG+ +GTLVN +LHHC P LA
Sbjct: 66 DSQPLQLSAEAIELDILYEDEYLIIINKPADLVVHPAPGHESGTLVNALLHHC--PNLAG 123
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
G RPGIVHRLDK T+G +V+AK + +H HL Q K
Sbjct: 124 ----------------------IGGIQRPGIVHRLDKDTTGAIVIAKTDQAHQHLQAQLK 161
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
T R Y++L GVP +G I++PI R +R +MA I K G R+A + +++ E
Sbjct: 162 TKTARREYMALVHGVPKSETGTIDLPIGRHRGDRQKMAII-AVEKGG--RNAVTHWQIKE 218
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
L G L+E+RLETGRTHQ+
Sbjct: 219 RL--GNYTLMEFRLETGRTHQI 238
>gi|148379448|ref|YP_001253989.1| pseudouridine synthase [Clostridium botulinum A str. ATCC 3502]
gi|153934249|ref|YP_001383827.1| RluA family pseudouridine synthase [Clostridium botulinum A str.
ATCC 19397]
gi|153935171|ref|YP_001387377.1| RluA family pseudouridine synthase [Clostridium botulinum A str.
Hall]
gi|387817752|ref|YP_005678097.1| ribosomal large subunit pseudouridine synthase D [Clostridium
botulinum H04402 065]
gi|148288932|emb|CAL83019.1| putative ribosomal large subunit pseudouridine synthase
[Clostridium botulinum A str. ATCC 3502]
gi|152930293|gb|ABS35793.1| pseudouridine synthase, RluA family [Clostridium botulinum A str.
ATCC 19397]
gi|152931085|gb|ABS36584.1| pseudouridine synthase, RluA family [Clostridium botulinum A str.
Hall]
gi|322805794|emb|CBZ03359.1| ribosomal large subunit pseudouridine synthase D [Clostridium
botulinum H04402 065]
Length = 305
Score = 203 bits (517), Expect = 9e-50, Method: Compositional matrix adjust.
Identities = 119/269 (44%), Positives = 160/269 (59%), Gaps = 37/269 (13%)
Query: 57 GVQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGD 116
+Q+E+ D +RLD ++S + SR+ +Q I G V +N + K ++ +K GD
Sbjct: 5 NLQVEKEFDN----VRLDLYLSKIFEDKSRSYLQGIIDEGNVLVNNKE-KKRNYKLKVGD 59
Query: 117 MVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC 176
+ I E + L+ E EDI LDI+YED +V+VVNKP MVVHPAPG +GTLVN +LHHC
Sbjct: 60 NIEVNIPEPKLLQIEPEDIKLDIIYEDKDVIVVNKPQEMVVHPAPGVYSGTLVNALLHHC 119
Query: 177 SLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHA 236
+D+S I+G + RPGIVHR+DK TSG+LVVAK++ SH
Sbjct: 120 ----------------KDLS-------GINGVA-RPGIVHRIDKDTSGILVVAKNDISHN 155
Query: 237 HLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAA 296
+L+ QFK H+I RVY++L G+ G IE PI R P +RI+MA + RHA
Sbjct: 156 NLAAQFKEHSISRVYMALVEGIIKDEQGTIEAPIGRHPVDRIKMAVV------KDGRHAV 209
Query: 297 SRYKVIEILAGGGSALVEWRLETGRTHQV 325
+ YKVIE LVE RLETGRTHQ+
Sbjct: 210 THYKVIERFK--NHTLVECRLETGRTHQI 236
>gi|425435653|ref|ZP_18816100.1| putative enzyme [Microcystis aeruginosa PCC 9432]
gi|425448767|ref|ZP_18828611.1| putative enzyme [Microcystis aeruginosa PCC 7941]
gi|440753109|ref|ZP_20932312.1| pseudouridine synthase, RluA family protein [Microcystis aeruginosa
TAIHU98]
gi|389679748|emb|CCH91466.1| putative enzyme [Microcystis aeruginosa PCC 9432]
gi|389769929|emb|CCI05423.1| putative enzyme [Microcystis aeruginosa PCC 7941]
gi|440177602|gb|ELP56875.1| pseudouridine synthase, RluA family protein [Microcystis aeruginosa
TAIHU98]
Length = 308
Score = 203 bits (516), Expect = 1e-49, Method: Compositional matrix adjust.
Identities = 112/262 (42%), Positives = 157/262 (59%), Gaps = 29/262 (11%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
++ K RLDAW+ S++ +SR+R+Q I G + +NGQ+ + + V GD + TI
Sbjct: 6 LEVAGKKERLDAWMGSQLPDLSRSRLQKLIEQGYIQLNGQICTNKNTKVGQGDRLKITIP 65
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
+ QPL AE I LDI+YED+ ++++NKPA +VVHPAPG+ +GTLVN +LHHC P LA
Sbjct: 66 DSQPLELSAEAIELDILYEDEYLIIINKPADLVVHPAPGHESGTLVNALLHHC--PNLAG 123
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
G RPGIVHRLDK T+G +V+AK + +H HL Q K
Sbjct: 124 ----------------------IGGIQRPGIVHRLDKDTTGAIVIAKTDQAHQHLQAQLK 161
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
T R Y++L GVP +G I++PI R ++R +MA I K G R+A + ++V E
Sbjct: 162 TKTARREYMALVHGVPKSETGTIDLPIGRHRSDRQKMAII-AVEKGG--RNAVTHWQVKE 218
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
L G L+E+RLETGRTHQ+
Sbjct: 219 RL--GNYTLMEFRLETGRTHQI 238
>gi|153940691|ref|YP_001390824.1| RluA family pseudouridine synthase [Clostridium botulinum F str.
Langeland]
gi|384461876|ref|YP_005674471.1| RluA family pseudouridine synthase [Clostridium botulinum F str.
230613]
gi|152936587|gb|ABS42085.1| pseudouridine synthase, RluA family [Clostridium botulinum F str.
Langeland]
gi|295318893|gb|ADF99270.1| pseudouridine synthase, RluA family [Clostridium botulinum F str.
230613]
Length = 305
Score = 203 bits (516), Expect = 1e-49, Method: Compositional matrix adjust.
Identities = 119/269 (44%), Positives = 160/269 (59%), Gaps = 37/269 (13%)
Query: 57 GVQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGD 116
+Q+E+ D +RLD ++S + SR+ +Q I G V +N + K ++ +K GD
Sbjct: 5 NLQVEKEFDN----VRLDLYLSKIFEDKSRSYLQGIIDEGNVLVNNKE-KKRNYKLKVGD 59
Query: 117 MVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC 176
+ I E + L+ E EDI LDI+YED +V+VVNKP MVVHPAPG +GTLVN +LHHC
Sbjct: 60 NIEVNIPEPKLLQIEPEDIKLDIIYEDKDVIVVNKPQEMVVHPAPGVYSGTLVNALLHHC 119
Query: 177 SLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHA 236
+D+S I+G + RPGIVHR+DK TSG+LVVAK++ SH
Sbjct: 120 ----------------KDLS-------GINGVA-RPGIVHRIDKDTSGILVVAKNDISHN 155
Query: 237 HLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAA 296
+L+ QFK H+I RVY++L G+ G IE PI R P +RI+MA + RHA
Sbjct: 156 NLAAQFKEHSISRVYMALVEGIIKYEQGTIEAPIGRHPVDRIKMAVV------KDGRHAV 209
Query: 297 SRYKVIEILAGGGSALVEWRLETGRTHQV 325
+ YKVIE LVE RLETGRTHQ+
Sbjct: 210 THYKVIERFK--NHTLVECRLETGRTHQI 236
>gi|425470428|ref|ZP_18849298.1| putative enzyme [Microcystis aeruginosa PCC 9701]
gi|389883962|emb|CCI35700.1| putative enzyme [Microcystis aeruginosa PCC 9701]
Length = 308
Score = 203 bits (516), Expect = 1e-49, Method: Compositional matrix adjust.
Identities = 112/262 (42%), Positives = 157/262 (59%), Gaps = 29/262 (11%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
++ K RLDAW+ S++ +SR+R+Q I G + +NGQ+ + + V GD + TI
Sbjct: 6 LEVAGKKERLDAWMGSQLPDLSRSRLQKLIEQGYIQLNGQICTNKNTKVGQGDHLKITIP 65
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
+ QPL AE I LDI+YED+ ++++NKPA +VVHPAPG+ +GTLVN +LHHC P LA
Sbjct: 66 DSQPLELTAEAIELDILYEDEYLIIINKPADLVVHPAPGHESGTLVNALLHHC--PNLAG 123
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
G RPGIVHRLDK T+G +V+AK + +H HL Q K
Sbjct: 124 ----------------------IGGIQRPGIVHRLDKDTTGAIVIAKTDQAHQHLQAQLK 161
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
T R Y++L GVP +G I++PI R ++R +MA I K G R+A + ++V E
Sbjct: 162 TKTARREYMALVHGVPKSETGTIDLPIGRHRSDRQKMAII-AVEKGG--RNAVTHWQVKE 218
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
L G L+E+RLETGRTHQ+
Sbjct: 219 RL--GNYTLMEFRLETGRTHQI 238
>gi|425462108|ref|ZP_18841582.1| putative enzyme [Microcystis aeruginosa PCC 9808]
gi|389824925|emb|CCI25716.1| putative enzyme [Microcystis aeruginosa PCC 9808]
Length = 308
Score = 202 bits (513), Expect = 3e-49, Method: Compositional matrix adjust.
Identities = 112/262 (42%), Positives = 157/262 (59%), Gaps = 29/262 (11%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
++ K RLDAW+ S++ +SR+R+Q I G + +NGQ+ + + V GD + TI
Sbjct: 6 LEVAGKKERLDAWMGSQLPDLSRSRLQKLIEQGYIQLNGQICTNKNTKVGQGDRLKITIP 65
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
+ QPL AE I LDI+YED+ ++++NKPA +VVHPAPG+ +GTLVN +LHHC P LA
Sbjct: 66 DSQPLELTAEAIELDILYEDEYLIIINKPADLVVHPAPGHESGTLVNALLHHC--PNLAG 123
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
G RPGIVHRLDK T+G +V+AK + +H HL Q K
Sbjct: 124 ----------------------IGGIQRPGIVHRLDKDTTGAIVIAKTDQAHQHLQAQLK 161
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
T R Y++L GVP +G I++PI R ++R +M AI K G R+A + ++V E
Sbjct: 162 TKTARREYMALVHGVPKSETGTIDLPIGRHRSDRQKM-AIMTVEKGG--RNAVTHWQVKE 218
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
L G L+E+RLETGRTHQ+
Sbjct: 219 RL--GNYTLMEFRLETGRTHQI 238
>gi|427708515|ref|YP_007050892.1| ribosomal large subunit pseudouridine synthase D [Nostoc sp. PCC
7107]
gi|427361020|gb|AFY43742.1| ribosomal large subunit pseudouridine synthase D [Nostoc sp. PCC
7107]
Length = 312
Score = 201 bits (511), Expect = 4e-49, Method: Compositional matrix adjust.
Identities = 108/269 (40%), Positives = 152/269 (56%), Gaps = 31/269 (11%)
Query: 58 VQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDM 117
+Q E + RLD +++ + ISR+R+Q I G V +N QV + NVK GD
Sbjct: 1 MQTEFNLQVSENSQRLDRYLAEELPDISRSRIQQFIEQGNVQVNDQVCTSKKVNVKAGDR 60
Query: 118 VNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC- 176
+ I E QPL +AEDIPLDI+YEDD +L++NKPA +VVHPAPG+ GTLVN +L HC
Sbjct: 61 ITLQIPEAQPLELQAEDIPLDILYEDDQLLILNKPAGLVVHPAPGHYDGTLVNALLAHCP 120
Query: 177 SLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHA 236
+LP + G RPGIVHRLDK T+G + + K + ++
Sbjct: 121 NLPGI-------------------------GGVQRPGIVHRLDKDTTGAIAIVKTDIAYQ 155
Query: 237 HLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAA 296
HL Q + T +R Y+ + G P SG+I+ PI R P +R +MA +P R A
Sbjct: 156 HLQAQLQAKTAQREYLGVVYGAPKTQSGKIDFPIGRHPQDRKKMAVVPVEEG---GRAAV 212
Query: 297 SRYKVIEILAGGGSALVEWRLETGRTHQV 325
+ ++V+E L G L+ ++LETGRTHQ+
Sbjct: 213 THWQVLERL--GNYTLIHFQLETGRTHQI 239
>gi|110635475|ref|YP_675683.1| ribosomal large subunit pseudouridine synthase D [Chelativorans sp.
BNC1]
gi|110286459|gb|ABG64518.1| ribosomal large subunit pseudouridine synthase D [Chelativorans sp.
BNC1]
Length = 343
Score = 201 bits (511), Expect = 5e-49, Method: Compositional matrix adjust.
Identities = 115/286 (40%), Positives = 163/286 (56%), Gaps = 35/286 (12%)
Query: 50 EPIANYAGVQLEETVDTKAGKLRLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKV 108
+P + G E D KA RLD W+++R+ SR+R+Q+ IR G V++NG+ V++
Sbjct: 3 DPDSEAGGGWKELLADEKAEGNRLDQWLAARLAPDFSRSRIQALIREGAVTLNGRTVAEP 62
Query: 109 SHNVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTL 168
V G+ T+ E + + EDIPLDI+YED+ ++V++KPA +VVHP PGN TGTL
Sbjct: 63 KRKVAAGEFYCITLPEPEAPEPQGEDIPLDILYEDEALIVIDKPAGLVVHPGPGNWTGTL 122
Query: 169 VNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVV 228
VN ++HHC + S I G RPGIVHRLD+ TSG++VV
Sbjct: 123 VNALIHHCG----------------------DTLSGIGGVR-RPGIVHRLDRDTSGVMVV 159
Query: 229 AKDEHSHAHLSEQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIP 284
AK + +H L+E F H +ER Y++L GVP + SG ++ P+ R ++R A +P
Sbjct: 160 AKTDQAHRVLAEAFADHGQDGDLERAYVALVWGVPRRISGLVDAPLGRSASDRTLRAVVP 219
Query: 285 GSNKHGQARHAASRYKVIEILAGGG-----SALVEWRLETGRTHQV 325
ARHA + Y V+E G +ALVE RLETGRTHQ+
Sbjct: 220 --QGRADARHAVTHYTVLERYGTGTPEEQIAALVECRLETGRTHQI 263
>gi|428201072|ref|YP_007079661.1| RluA family pseudouridine synthase [Pleurocapsa sp. PCC 7327]
gi|427978504|gb|AFY76104.1| pseudouridine synthase, RluA family [Pleurocapsa sp. PCC 7327]
Length = 309
Score = 201 bits (510), Expect = 6e-49, Method: Compositional matrix adjust.
Identities = 112/254 (44%), Positives = 153/254 (60%), Gaps = 29/254 (11%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD+++S R+ +SR+R+Q I G V +NGQ+ + V+ GD + TI QPL +
Sbjct: 13 RLDSYLSQRLPELSRSRLQKLIEQGNVQLNGQICTAKKTAVREGDRLQITIPPTQPLDLQ 72
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E+IPLDI+YEDD ++++NKPA +VVHPAPG+ GTLVN +L HC P LA
Sbjct: 73 PEEIPLDILYEDDYLIIINKPADLVVHPAPGHENGTLVNALLSHC--PNLA--------- 121
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
I G S RPGIVHRLDK T+G LV+AK E +H +L Q K T R Y
Sbjct: 122 ------------GIGGVS-RPGIVHRLDKDTTGALVIAKTEFAHQNLQAQLKAKTARREY 168
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+ + GVP SG I +PI R +R +MA +P K G R A + ++++E L G
Sbjct: 169 LGIVYGVPKTESGIINLPIGRHRVDRKKMAVVP-VEKGG--REAITHWQILERL--GNYT 223
Query: 312 LVEWRLETGRTHQV 325
L+++RLETGRTHQ+
Sbjct: 224 LMQFRLETGRTHQI 237
>gi|83815887|ref|YP_445314.1| ribosomal large subunit pseudouridine synthase D [Salinibacter
ruber DSM 13855]
gi|83757281|gb|ABC45394.1| ribosomal large subunit pseudouridine synthase D [Salinibacter
ruber DSM 13855]
Length = 349
Score = 200 bits (509), Expect = 6e-49, Method: Compositional matrix adjust.
Identities = 113/268 (42%), Positives = 168/268 (62%), Gaps = 19/268 (7%)
Query: 65 DTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISE 124
+T+ G R+D +++ SR ++Q +I+ G + +NG V K S+ V+ GD + +
Sbjct: 3 ETETGGPRIDKYLTRFYPEASRTKIQRAIKKGHLKVNGTDVKK-SYGVEPGDEIVFRLIR 61
Query: 125 LQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASS 184
P++AE E IPLD+V+E D++LVVNKPA MVVHPAPG+ +GTLV+ +LHH +A+
Sbjct: 62 KPPMQAEPEAIPLDVVHEGDDLLVVNKPAGMVVHPAPGHRSGTLVHALLHHVDGGEVAAD 121
Query: 185 NQEAFSDAEDISDDE-------EFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAH 237
++ +++S+DE S +RPGIVHRLDKGTSGLLVVAK +H
Sbjct: 122 DER-----DEVSEDEVGLSLVNALPQSPDHPVVRPGIVHRLDKGTSGLLVVAKRGRAHQP 176
Query: 238 LSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAAS 297
L+EQFK HT++R Y ++ G + S G IE I RDP++R RMA +P + + A +
Sbjct: 177 LAEQFKAHTVDRRYRAIVWGRFAPSDGTIEGAIGRDPHHRQRMAVVPED----EGKWART 232
Query: 298 RYKVIEILAGGGSALVEWRLETGRTHQV 325
Y+ +E A +++VE+ LETGRTHQ+
Sbjct: 233 HYETVETHA--HTSVVEFELETGRTHQI 258
>gi|403386611|ref|ZP_10928668.1| RluA family pseudouridine synthase [Clostridium sp. JC122]
Length = 306
Score = 200 bits (509), Expect = 7e-49, Method: Compositional matrix adjust.
Identities = 116/262 (44%), Positives = 159/262 (60%), Gaps = 33/262 (12%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
VD RLD +IS ++G SR+ VQ I V +N ++ K ++ +K D++N +
Sbjct: 8 VDEDNINKRLDLFISENLEGKSRSYVQGLIEDEKVKVNEKI-KKSNYKLKLEDVINIEVP 66
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
+ + L EAEDI LDIVYED +V++VNK MVVHPAPGN GTLVN +L+HC
Sbjct: 67 QPRELEIEAEDISLDIVYEDSDVIIVNKAKDMVVHPAPGNYNGTLVNALLYHC------- 119
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
+D+S I+G + RPGIVHR+DK TSG+LV+AK++++H L+EQFK
Sbjct: 120 ---------KDLS-------GINGVA-RPGIVHRIDKDTSGILVIAKNDNAHNRLAEQFK 162
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
H+I R Y +L GV SG I+ PI R P RI+MA + K+G +HA + Y+VIE
Sbjct: 163 DHSITRTYYALVEGVIKTDSGVIDAPIGRHPVERIKMAVV----KNG--KHAVTHYEVIE 216
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
G LV+ LETGRTHQ+
Sbjct: 217 RFK--GYTLVKCNLETGRTHQI 236
>gi|23015589|ref|ZP_00055361.1| COG0564: Pseudouridylate synthases, 23S RNA-specific
[Magnetospirillum magnetotacticum MS-1]
Length = 327
Score = 199 bits (507), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 109/262 (41%), Positives = 150/262 (57%), Gaps = 28/262 (10%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
V+ + RLD W+++R+ +SR R+++ I G VS++ +S S VK G +
Sbjct: 14 VEPEEAATRLDRWLAARLPELSRTRIKALIEDGRVSLDATTISDASLRVKPGQCFTVEVP 73
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
P EA+DI L +VYED++++V++KPA MVVHPAPGN TLVN +L HC
Sbjct: 74 PDAPAEPEAQDIALSVVYEDEDLIVIDKPAGMVVHPAPGNPDETLVNALLAHCG------ 127
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
E + I G RPGIVHR+DK TSGLLV AK + +H L+ QF
Sbjct: 128 ----------------ESLAGIGGVK-RPGIVHRIDKDTSGLLVAAKTDAAHRGLAAQFA 170
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
H++ER Y +L G PS G IE I R+PN+R +MA + K A +RY+V++
Sbjct: 171 EHSLERAYWALVWGTPSPRQGEIEGNIGRNPNDRKKMAVVKSGGK-----PALTRYRVLK 225
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
AGG +LVE RL TGRTHQ+
Sbjct: 226 SFAGGAVSLVECRLATGRTHQI 247
>gi|168180134|ref|ZP_02614798.1| pseudouridine synthase, RluA family [Clostridium botulinum NCTC
2916]
gi|226948812|ref|YP_002803903.1| RluA family pseudouridine synthase [Clostridium botulinum A2 str.
Kyoto]
gi|182669142|gb|EDT81118.1| pseudouridine synthase, RluA family [Clostridium botulinum NCTC
2916]
gi|226841647|gb|ACO84313.1| pseudouridine synthase, RluA family [Clostridium botulinum A2 str.
Kyoto]
Length = 305
Score = 199 bits (507), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 118/269 (43%), Positives = 159/269 (59%), Gaps = 37/269 (13%)
Query: 57 GVQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGD 116
+Q+E+ D +RLD ++S + SR+ +Q I G V +N + K ++ +K D
Sbjct: 5 NLQVEKEFDN----VRLDLYLSKIFEDKSRSYLQGIIDEGNVLVNNKE-KKRNYKLKVRD 59
Query: 117 MVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC 176
+ I E + L+ E EDI LDI+YED +V+VVNKP MVVHPAPG +GTLVN +LHHC
Sbjct: 60 NIEVNIPEPKLLQIEPEDINLDIIYEDKDVIVVNKPQEMVVHPAPGVYSGTLVNALLHHC 119
Query: 177 SLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHA 236
+D+S I+G + RPGIVHR+DK TSG+LVVAK++ SH
Sbjct: 120 ----------------KDLS-------GINGVA-RPGIVHRIDKDTSGILVVAKNDISHN 155
Query: 237 HLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAA 296
+L+ QFK H+I RVY++L G+ G IE PI R P +RI+MA + RHA
Sbjct: 156 NLAAQFKEHSISRVYMALVEGIIKDEQGTIEAPIGRHPVDRIKMAVV------KDGRHAV 209
Query: 297 SRYKVIEILAGGGSALVEWRLETGRTHQV 325
+ YKVIE LVE RLETGRTHQ+
Sbjct: 210 THYKVIERFK--NHTLVECRLETGRTHQI 236
>gi|442805040|ref|YP_007373189.1| pseudouridine synthase RluA [Clostridium stercorarium subsp.
stercorarium DSM 8532]
gi|442740890|gb|AGC68579.1| pseudouridine synthase RluA [Clostridium stercorarium subsp.
stercorarium DSM 8532]
Length = 306
Score = 199 bits (506), Expect = 2e-48, Method: Compositional matrix adjust.
Identities = 109/267 (40%), Positives = 156/267 (58%), Gaps = 31/267 (11%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
++E TVD RLDA++S +I +SR +Q I LV +NGQ +K G +
Sbjct: 6 EIEITVDENEAGQRLDAFLSGKIPDVSRNYIQKLIEDNLVLVNGQS-TKAKVRTYPGMKI 64
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
+ + +PLR + E+IPLDIVYED ++L++NKP +MVVHPAPGN TLVN +L+HC
Sbjct: 65 TVYVPQPEPLRVKPENIPLDIVYEDSDILIINKPRNMVVHPAPGNEDNTLVNAVLYHCG- 123
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
++ SD I IRPGIVHR+DK T+GL+ VAK+ +H L
Sbjct: 124 --------DSLSDINGI--------------IRPGIVHRIDKDTTGLIAVAKNNKAHQSL 161
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
+ Q K H+++RVY ++ G+ + G I+ PI R P +R +MA +PG K A +
Sbjct: 162 ALQLKEHSMKRVYDAIVEGIIREDRGVIDAPIGRHPVDRKKMAVVPGKGK-----EAITH 216
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQV 325
++V+E L G+ V RLETGRTHQ+
Sbjct: 217 FEVLERLK--GATYVRLRLETGRTHQI 241
>gi|254423656|ref|ZP_05037374.1| pseudouridine synthase, RluA family [Synechococcus sp. PCC 7335]
gi|196191145|gb|EDX86109.1| pseudouridine synthase, RluA family [Synechococcus sp. PCC 7335]
Length = 309
Score = 199 bits (505), Expect = 2e-48, Method: Compositional matrix adjust.
Identities = 109/266 (40%), Positives = 154/266 (57%), Gaps = 29/266 (10%)
Query: 60 LEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
+E TV+ A + RLD W++ ++ SR RVQ I G VS+NG+V + V GD +
Sbjct: 3 IERTVEAGAPE-RLDRWLADNVEAFSRNRVQQLIEQGAVSVNGEVCDRKKELVTAGDYII 61
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
++ E QP EDIPLDI+YEDD +L+VNKPA MVVHPAPG+ATGTLV+ +L +C
Sbjct: 62 LSVPEAQPYELTPEDIPLDILYEDDQLLIVNKPAGMVVHPAPGHATGTLVHALLFYCG-- 119
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
E + + G RPGIVHRLDK T+G +VVAK E + +L
Sbjct: 120 --------------------EQLTGVGGVQ-RPGIVHRLDKNTTGAMVVAKTETALCNLQ 158
Query: 240 EQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRY 299
+Q + T +R Y+ + +G P G I+ PI R P +R +M+ +P + R A + +
Sbjct: 159 QQIQAKTAKREYLGIVNGAPKAEQGTIDQPIGRHPKHRKKMSILPVESG---GRTAITHW 215
Query: 300 KVIEILAGGGSALVEWRLETGRTHQV 325
K +E L G L+ ++LETGRTHQ+
Sbjct: 216 KTVERL--GNYTLIHFQLETGRTHQI 239
>gi|170759197|ref|YP_001786899.1| RluA family pseudouridine synthase [Clostridium botulinum A3 str.
Loch Maree]
gi|169406186|gb|ACA54597.1| pseudouridine synthase, RluA family [Clostridium botulinum A3 str.
Loch Maree]
Length = 305
Score = 198 bits (503), Expect = 3e-48, Method: Compositional matrix adjust.
Identities = 116/268 (43%), Positives = 159/268 (59%), Gaps = 37/268 (13%)
Query: 58 VQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDM 117
+Q+E+ D +RLD +S + SR+ +Q I G V +N + K ++ +K GD
Sbjct: 6 LQVEKEFDN----VRLDLCLSKIFEDKSRSYLQGIIDEGNVLVNNKE-KKRNYKLKVGDN 60
Query: 118 VNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCS 177
+ I E + L+ E ED+ LD++YED +V+VVNKP MVVHPAPG +GTLVN +LHHC
Sbjct: 61 IEINIPEPKLLQIEPEDVKLDVIYEDKDVIVVNKPQEMVVHPAPGVYSGTLVNALLHHC- 119
Query: 178 LPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAH 237
+D+S I+G + RPGIVHR+DK TSG+LVVAK++ SH +
Sbjct: 120 ---------------KDLS-------GINGVA-RPGIVHRIDKDTSGILVVAKNDISHNN 156
Query: 238 LSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAAS 297
L+ QFK H+I RVY++L G+ G IE PI R P +RI+MA + RHA +
Sbjct: 157 LAAQFKEHSISRVYMALVEGIIKNEQGTIEAPIGRHPVDRIKMAVV------KDGRHAVT 210
Query: 298 RYKVIEILAGGGSALVEWRLETGRTHQV 325
YKVI+ LVE RLETGRTHQ+
Sbjct: 211 HYKVIKRFK--NHTLVECRLETGRTHQI 236
>gi|295105659|emb|CBL03203.1| ribosomal large subunit pseudouridine synthase D [Faecalibacterium
prausnitzii SL3/3]
Length = 310
Score = 197 bits (502), Expect = 4e-48, Method: Compositional matrix adjust.
Identities = 114/267 (42%), Positives = 158/267 (59%), Gaps = 28/267 (10%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q E V+ + R+D ++S G+SR+ +Q+ + G V NG+ V+K S +K GD V
Sbjct: 3 QREFIVEQETAGQRIDRFLSGEDTGLSRSALQALVAEGHVQCNGKTVAK-SLKLKAGDTV 61
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
I + +P+ A +DIPL+IVYED ++LVVNKP MVVHPAPGN GTLVN +L HC
Sbjct: 62 LLEIPDAKPIEAVPQDIPLEIVYEDSHLLVVNKPKGMVVHPAPGNQDGTLVNALLWHC-- 119
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+ S S G IRPGIVHR+DK TSGLLVVAKD+ +H L
Sbjct: 120 ---------------------KGSLSGIGGEIRPGIVHRIDKDTSGLLVVAKDDATHIGL 158
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
S+Q +H++ER Y ++ G +Q G +E + R +R +MA P + H ++A +
Sbjct: 159 SQQMAVHSVERAYQTVVYGGFAQDEGFVEANLGRSKTDRKKMAVYPANEPH--TKYAYTG 216
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQV 325
YKV+E L G L+E RL+TGRTHQ+
Sbjct: 217 YKVLERL--GEFTLLECRLKTGRTHQI 241
>gi|440781918|ref|ZP_20960146.1| RluA family pseudouridine synthase [Clostridium pasteurianum DSM
525]
gi|440220636|gb|ELP59843.1| RluA family pseudouridine synthase [Clostridium pasteurianum DSM
525]
Length = 306
Score = 197 bits (502), Expect = 5e-48, Method: Compositional matrix adjust.
Identities = 110/271 (40%), Positives = 160/271 (59%), Gaps = 36/271 (13%)
Query: 55 YAGVQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKG 114
Y ++E+ D K RLD ++ + + SR+ +Q I +G V IN + K ++ +K
Sbjct: 3 YFKFRVEDLKDIK----RLDVFLKDKFEDKSRSYIQGIIENGNVKINDDKLKKSNYKLKL 58
Query: 115 GDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILH 174
D V I E + L EAEDI + I+YED +V+V++KP MVVHPAPGN TGTLVN +L+
Sbjct: 59 NDEVYVNIPENKELNVEAEDIKIHILYEDGDVIVIDKPQGMVVHPAPGNYTGTLVNALLY 118
Query: 175 HCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHS 234
HC +D+ S I+G + RPGIVHR+DK TSG+LVVAK++ +
Sbjct: 119 HC----------------KDL-------SGINGVN-RPGIVHRIDKDTSGILVVAKNDKA 154
Query: 235 HAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARH 294
H L+EQ K HT+ RVY++L G+ G+++VP+ R P RI+++ I R+
Sbjct: 155 HKFLAEQLKEHTMTRVYLALVEGIIKVDEGKVDVPLGRHPVERIKISVIK------DGRN 208
Query: 295 AASRYKVIEILAGGGSALVEWRLETGRTHQV 325
A + Y V+E + L+E RLETGRTHQ+
Sbjct: 209 AVTHYNVMERFK--NNTLIECRLETGRTHQI 237
>gi|255070545|ref|XP_002507354.1| predicted protein [Micromonas sp. RCC299]
gi|226522629|gb|ACO68612.1| predicted protein [Micromonas sp. RCC299]
Length = 357
Score = 197 bits (501), Expect = 6e-48, Method: Compositional matrix adjust.
Identities = 118/266 (44%), Positives = 166/266 (62%), Gaps = 22/266 (8%)
Query: 61 EETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNC 120
EE +A RLDA+++ +I G+SR+R+ SI+SG+V +NG V +K SH + GD V C
Sbjct: 26 EEVFVARASSSRLDAFLADQISGVSRSRIVESIKSGVVVVNGNVTTKPSHKLDIGDRVIC 85
Query: 121 -TISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
I P E+IPLD+V+EDD+++VVNKP MVVHP+ G+A G+LVN +L HC+
Sbjct: 86 GEIVASPPTEVAPENIPLDVVFEDDHLVVVNKPPGMVVHPSAGHAGGSLVNALLFHCN-- 143
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
SN+ DA + D R G+VHR+DKGTSGLLV+AKD + A L
Sbjct: 144 --ERSNRG--DDASKMID-----------VPRLGVVHRIDKGTSGLLVMAKDAAAQAGLQ 188
Query: 240 EQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRY 299
QF ++ R Y+++ G P++ SGRI+ PI RDP +R++MA + G+ R A S +
Sbjct: 189 TQFANRSVRRRYLAIVLGTPARESGRIDAPIGRDPADRLKMAIVRGAT----GRQAISNF 244
Query: 300 KVIEILAGGGSALVEWRLETGRTHQV 325
V L G ++LVEW+LETGRTHQ+
Sbjct: 245 GVRARLVRGNASLVEWQLETGRTHQI 270
>gi|428305379|ref|YP_007142204.1| ribosomal large subunit pseudouridine synthase D [Crinalium
epipsammum PCC 9333]
gi|428246914|gb|AFZ12694.1| ribosomal large subunit pseudouridine synthase D [Crinalium
epipsammum PCC 9333]
Length = 331
Score = 197 bits (501), Expect = 6e-48, Method: Compositional matrix adjust.
Identities = 107/255 (41%), Positives = 151/255 (59%), Gaps = 31/255 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
RLD+W+++++ +SR+R+Q I G V IN Q+ S VK GD ++ TI E +P +
Sbjct: 39 FRLDSWLANQLANLSRSRIQKLITQGCVQINDQICSVKDTKVKLGDRIHVTIPEAEPPKT 98
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
+AE+IPLDI+YEDD++L+VNKPA +VVHPA G+ TGTLVN +L HC L
Sbjct: 99 QAENIPLDILYEDDSLLIVNKPAGLVVHPAAGHETGTLVNALLAHCPL------------ 146
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
S I G RPGIVHRLDK T+G + +AK + +H HL Q K T R
Sbjct: 147 ------------SEIGGVQ-RPGIVHRLDKDTTGAIAIAKTDQAHQHLQAQLKAKTACRE 193
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y+ + G P SG ++ PI R P +R +MA + ++ R A + ++V E L G
Sbjct: 194 YLGVVYGSPKTDSGSVDAPIGRHPVDRKKMAVVAEAS----GRPAVTHWRVKERL--GNY 247
Query: 311 ALVEWRLETGRTHQV 325
L+ ++LETGRTHQ+
Sbjct: 248 TLLHFQLETGRTHQI 262
>gi|186683943|ref|YP_001867139.1| RluA family pseudouridine synthase [Nostoc punctiforme PCC 73102]
gi|186466395|gb|ACC82196.1| pseudouridine synthase, RluA family [Nostoc punctiforme PCC 73102]
Length = 345
Score = 197 bits (501), Expect = 6e-48, Method: Compositional matrix adjust.
Identities = 111/262 (42%), Positives = 150/262 (57%), Gaps = 33/262 (12%)
Query: 65 DTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISE 124
DTK R+D ++S + +SR+R+Q I G V +N +V + NVK GD + I E
Sbjct: 45 DTKGD--RIDRFLSQELPDLSRSRIQQLIEQGNVQLNDKVCTSKKINVKLGDRITLEIPE 102
Query: 125 LQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC-SLPTLAS 183
QPL AEDIPLDI+YEDD +L++NKPA +VVHPAPG+ GTLVN +L HC +LP +
Sbjct: 103 AQPLELLAEDIPLDILYEDDQLLILNKPAGLVVHPAPGHPDGTLVNALLAHCPNLPGI-- 160
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
G RPGIVHRLDK T+G + +AK E +H HL Q K
Sbjct: 161 -----------------------GGVQRPGIVHRLDKDTTGAIAIAKTEVAHHHLQAQLK 197
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
T R Y+ + G P SG I++PI R P +R +MA +P R A + ++V+E
Sbjct: 198 AKTARREYLGVVYGAPKVESGTIDLPIGRHPQDRKKMAIMPIEQG---GRSAVTHWQVLE 254
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
L G L+ ++LETGRTHQ+
Sbjct: 255 RL--GNFTLIRFQLETGRTHQI 274
>gi|424827321|ref|ZP_18252130.1| RluA family pseudouridine synthase [Clostridium sporogenes PA 3679]
gi|365980244|gb|EHN16280.1| RluA family pseudouridine synthase [Clostridium sporogenes PA 3679]
Length = 305
Score = 197 bits (501), Expect = 7e-48, Method: Compositional matrix adjust.
Identities = 114/262 (43%), Positives = 156/262 (59%), Gaps = 33/262 (12%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
V+ + +RLD ++S + SR+ +Q I G V +N + K ++ +K GD + I
Sbjct: 8 VEKEFDNVRLDLYLSKIFEDKSRSYLQGIIHEGNVLVNNKG-KKRNYKLKAGDNIEVNIP 66
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
E + L+ E EDI LDI+YED +V+VVNKP MVVHPAPG +GTLVN +L HC
Sbjct: 67 EPKLLQIEPEDIKLDIIYEDKDVIVVNKPQEMVVHPAPGVYSGTLVNALLSHC------- 119
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
+D+S I+G + RPGIVHR+DK TSG+LVVAK++ SH +L+ QFK
Sbjct: 120 ---------KDLS-------GINGVA-RPGIVHRIDKDTSGILVVAKNDISHNNLAAQFK 162
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
H+I RVY++L G+ G IE PI R P +RI+MA + R+A + YKVIE
Sbjct: 163 EHSISRVYMALVEGIIKNEQGTIEAPIGRHPVDRIKMAVVK------DGRYAVTHYKVIE 216
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
LVE +LETGRTHQ+
Sbjct: 217 RFK--NHTLVECKLETGRTHQI 236
>gi|354565422|ref|ZP_08984597.1| pseudouridine synthase, RluA family [Fischerella sp. JSC-11]
gi|353549381|gb|EHC18823.1| pseudouridine synthase, RluA family [Fischerella sp. JSC-11]
Length = 315
Score = 197 bits (500), Expect = 8e-48, Method: Compositional matrix adjust.
Identities = 107/255 (41%), Positives = 152/255 (59%), Gaps = 31/255 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +++ R+ +SR+RVQ I G V +NG++ + +VK GD + I +PL
Sbjct: 14 RLDRYLTERLTDLSRSRVQQLIEQGQVQLNGKICTSKKTSVKQGDRICLEIPPAEPLELT 73
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC-SLPTLASSNQEAFS 190
A+DIPLDI+YEDD +L++NKPA +VVHPAPG+ GTLVN IL HC +LP +
Sbjct: 74 AQDIPLDILYEDDQLLILNKPAGLVVHPAPGHPDGTLVNAILAHCPNLPGI--------- 124
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
G RPGIVHRLDK T+G + +AK E +H HL Q K T +R
Sbjct: 125 ----------------GGVQRPGIVHRLDKDTTGAIAIAKTEFAHQHLQAQLKAKTAQRE 168
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y+ + GVP +G I++PI R P +R +MA + S + G R A + ++++E L G
Sbjct: 169 YLGVVYGVPKTENGTIDLPIGRHPVDRKKMAVV--SPEKG-GRPATTHWRILERL--GNY 223
Query: 311 ALVEWRLETGRTHQV 325
L+ ++LETGRTHQ+
Sbjct: 224 TLMHFQLETGRTHQI 238
>gi|86605450|ref|YP_474213.1| RluA family pseudouridine synthase [Synechococcus sp. JA-3-3Ab]
gi|86553992|gb|ABC98950.1| pseudouridine synthase, RluA family [Synechococcus sp. JA-3-3Ab]
Length = 310
Score = 197 bits (500), Expect = 8e-48, Method: Compositional matrix adjust.
Identities = 109/263 (41%), Positives = 152/263 (57%), Gaps = 30/263 (11%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV K LRLD ++ ++ +SR+R+Q IR G V +NGQ ++ GD + I
Sbjct: 8 TVTEKQQGLRLDRGLAEQLPELSRSRLQQLIRQGQVWLNGQPCLDKDRPLQAGDQIEVRI 67
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
P + E IPLDI+YED+++LV+NKP +VVHPAPG+A+GTLV+ +L HC P L+
Sbjct: 68 PPATPTPLQPERIPLDILYEDEDLLVINKPRGLVVHPAPGHASGTLVHALLAHC--PRLS 125
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
N E RPGIVHRLDK T+G LV+AK + +H HL Q
Sbjct: 126 GINGEQ----------------------RPGIVHRLDKDTTGALVIAKHDQAHQHLQAQI 163
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
+ T R+Y+ + G P+QS G I PI R P +R +MA +P GQ R A + ++V+
Sbjct: 164 QAKTARRIYLGVVFGRPAQSQGTISAPIGRHPVDRQKMAVVPP----GQGRAAVTHWQVL 219
Query: 303 EILAGGGSALVEWRLETGRTHQV 325
E L G L+++ LETGRTHQ+
Sbjct: 220 ERL--GNYTLMQFELETGRTHQI 240
>gi|434398133|ref|YP_007132137.1| ribosomal large subunit pseudouridine synthase D [Stanieria
cyanosphaera PCC 7437]
gi|428269230|gb|AFZ35171.1| ribosomal large subunit pseudouridine synthase D [Stanieria
cyanosphaera PCC 7437]
Length = 314
Score = 196 bits (499), Expect = 9e-48, Method: Compositional matrix adjust.
Identities = 109/263 (41%), Positives = 155/263 (58%), Gaps = 31/263 (11%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV+ K+ RLD W+SS++ +SR+R+Q I G V +NGQV + + GD + TI
Sbjct: 11 TVEQKSD--RLDRWLSSQLTDLSRSRLQKLIEEGNVHLNGQVCTSKKIKLSPGDCLEVTI 68
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
+PL +AEDIPLDI+YED++++++NKPA +VVHPAPG+ TGTLV+ +L HC LA
Sbjct: 69 PSPEPLNLQAEDIPLDILYEDEDLIIINKPADLVVHPAPGHETGTLVHALLSHCD--NLA 126
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
G RPGIVHRLDK T+G +V+AK++++H HL Q
Sbjct: 127 GI----------------------GGIKRPGIVHRLDKDTTGAIVIAKNDYAHQHLQAQI 164
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
K T R Y + G S G+I++P+ R P R +MA +P R A + +K++
Sbjct: 165 KAKTARREYWGIVYGSYSDLEGKIDLPVGRHPVERKKMAVVPVEKG---GREAVTHWKIL 221
Query: 303 EILAGGGSALVEWRLETGRTHQV 325
E L G L+E+ LETGRTHQ+
Sbjct: 222 ERL--GNYTLMEFLLETGRTHQI 242
>gi|160945091|ref|ZP_02092317.1| hypothetical protein FAEPRAM212_02610 [Faecalibacterium prausnitzii
M21/2]
gi|158442822|gb|EDP19827.1| pseudouridine synthase, RluA family [Faecalibacterium prausnitzii
M21/2]
Length = 310
Score = 196 bits (498), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 114/267 (42%), Positives = 158/267 (59%), Gaps = 28/267 (10%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q E V+ + R+D ++S G+SR+ +Q+ + G V NG+ V+K S +K GD V
Sbjct: 3 QREFIVEQETAGQRIDRFLSGEDTGLSRSALQALVAEGHVQCNGKAVAK-SLKLKAGDTV 61
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
I + +P+ A +DIPL+IVYED ++LVVNKP MVVHPAPGN GTLVN +L HC
Sbjct: 62 LLEIPDAKPIEAVPQDIPLEIVYEDAHLLVVNKPKGMVVHPAPGNPDGTLVNALLWHC-- 119
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+ S S G IRPGIVHR+DK TSGLLVVAKD+ +H L
Sbjct: 120 ---------------------KGSLSGIGGEIRPGIVHRIDKDTSGLLVVAKDDATHIGL 158
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
S+Q +H++ER Y ++ G +Q G +E + R +R +MA P + H ++A +
Sbjct: 159 SQQMAVHSVERAYQTVVYGGFAQDEGFVEANLGRSKIDRKKMAVYPATEPH--TKYAYTG 216
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQV 325
YKV+E L G L+E RL+TGRTHQ+
Sbjct: 217 YKVLERL--GEFTLLECRLKTGRTHQI 241
>gi|187779872|ref|ZP_02996345.1| hypothetical protein CLOSPO_03468 [Clostridium sporogenes ATCC
15579]
gi|187773497|gb|EDU37299.1| pseudouridine synthase, RluA family [Clostridium sporogenes ATCC
15579]
Length = 305
Score = 196 bits (497), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 114/262 (43%), Positives = 156/262 (59%), Gaps = 33/262 (12%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
V+ + +RLD ++S + SR+ +Q I G V +N + K ++ +K GD + I
Sbjct: 8 VEKEFDNVRLDLYLSKIFEDKSRSYLQGIIDEGNVLVNNKE-KKRNYKLKVGDNIKVNIP 66
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
E + L+ E EDI LDI+YED +V+VVNKP MVVHPAPG +GTLVN +L HC
Sbjct: 67 EPKLLQIEPEDIKLDIIYEDKDVIVVNKPQEMVVHPAPGVYSGTLVNALLSHC------- 119
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
+D+S I+G + RPGIVHR+DK TSG+LVVAK++ SH +L+ QFK
Sbjct: 120 ---------KDLS-------GINGVA-RPGIVHRIDKDTSGILVVAKNDISHNNLAAQFK 162
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
H+I RVY++L G+ G IE PI R P +RI+MA + R+A + YKVIE
Sbjct: 163 EHSISRVYMALVEGIIKDGQGTIEAPIGRHPVDRIKMAVVK------DGRYAVTHYKVIE 216
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
LVE +LETGRTHQ+
Sbjct: 217 RFK--NHTLVECKLETGRTHQI 236
>gi|376002440|ref|ZP_09780273.1| 23S rRNA pseudouridine synthase [Arthrospira sp. PCC 8005]
gi|375329180|emb|CCE16026.1| 23S rRNA pseudouridine synthase [Arthrospira sp. PCC 8005]
Length = 308
Score = 196 bits (497), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 108/261 (41%), Positives = 149/261 (57%), Gaps = 29/261 (11%)
Query: 65 DTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISE 124
D RLD W+S R+D +SR+R+Q+ I SG V +N + V+ GD + I
Sbjct: 9 DKDGENQRLDKWLSERVDQLSRSRLQALISSGHVWVNNSPCTSKKATVQIGDRIQVEIPP 68
Query: 125 LQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASS 184
PL +A +IPLDI+YED+ +L++NKPA +VVHPAPG+ TLVN +L HC
Sbjct: 69 AIPLELKATNIPLDILYEDEELLIINKPAGLVVHPAPGHENDTLVNALLAHC-------- 120
Query: 185 NQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKL 244
E + I G RPGIVHRLDK T+G + +AK +H+H HL Q +
Sbjct: 121 ---------------ETLAGIGGVQ-RPGIVHRLDKDTTGAIAIAKTDHAHQHLQAQIQA 164
Query: 245 HTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEI 304
T R Y+ + GVP +SG I+ PI R P++R +MA +P +H R A + +KV E
Sbjct: 165 KTARRQYLGIIYGVPKTTSGVIDQPIGRHPSDRKKMAIVP---QHQGGRSAITHWKVKER 221
Query: 305 LAGGGSALVEWRLETGRTHQV 325
L G L+E+ LETGRTHQ+
Sbjct: 222 L--GNYTLIEFELETGRTHQI 240
>gi|307243485|ref|ZP_07525636.1| pseudouridine synthase, RluA family [Peptostreptococcus stomatis
DSM 17678]
gi|306493129|gb|EFM65131.1| pseudouridine synthase, RluA family [Peptostreptococcus stomatis
DSM 17678]
Length = 310
Score = 195 bits (496), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 114/262 (43%), Positives = 156/262 (59%), Gaps = 31/262 (11%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
VD + RLD +I+ + ISR+ VQ I+ GLV +N +V K S+ ++ GD + +
Sbjct: 13 VDQDSAGKRLDVFIADQYQDISRSYVQKLIKDGLVLVNEEV-KKASYKLEEGDRMEIAMP 71
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
E + L A+DI LDIVYEDD++L+VNKP MVVHPAPGN GTLVN I++HC
Sbjct: 72 EPEVLEVLAQDIDLDIVYEDDDLLIVNKPQGMVVHPAPGNPDGTLVNAIMYHC------- 124
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
++ SSI+G IRPGIVHR+DK TSGLLVVAK+ SH L++QFK
Sbjct: 125 ---------------KDKLSSINGV-IRPGIVHRIDKNTSGLLVVAKNNASHQGLADQFK 168
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
LH+I R Y + G + I+ I R+P +R++MA + RHA + + VIE
Sbjct: 169 LHSITREYEMVCIGGVNWDQMTIDKNIGRNPKDRLKMAVLDTG-----GRHAVTHFTVIE 223
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
L G ++ +LETGRTHQ+
Sbjct: 224 HLE--GYTYMKAKLETGRTHQI 243
>gi|268611664|ref|ZP_06145391.1| RluA family pseudouridine synthase [Ruminococcus flavefaciens FD-1]
Length = 304
Score = 195 bits (496), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 110/254 (43%), Positives = 154/254 (60%), Gaps = 31/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D +IS ++ ++R+ VQ + G + ++G+ VSK ++ ++ GD V I E +P+ A
Sbjct: 17 RIDKFISDNVEELTRSAVQGLMEKGKILVSGKSVSK-NYKLRDGDTVEVEIPEPEPMDAL 75
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
EDIPLDIVYED ++LVVNKP MVVHPA GN +GTLVN +LHHC
Sbjct: 76 PEDIPLDIVYEDSDLLVVNKPKGMVVHPAHGNHSGTLVNALLHHCG-------------- 121
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+ S I+G IRPGIVHR+DK TSGLL+VAK++ +H HL+EQ K+H+ R Y
Sbjct: 122 --------DSLSGINGV-IRPGIVHRIDKNTSGLLIVAKNDAAHLHLAEQIKVHSFTREY 172
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++ SG ++ G I+ PI R +R +M + +R+A + Y VI GG A
Sbjct: 173 EAVASGYFKETEGTIDAPIGRHKTDRKKMCVTTEN-----SRNAVTHYSVIR--QYGGYA 225
Query: 312 LVEWRLETGRTHQV 325
V RLETGRTHQ+
Sbjct: 226 HVRLRLETGRTHQI 239
>gi|158335489|ref|YP_001516661.1| RluA family pseudouridine synthase [Acaryochloris marina MBIC11017]
gi|158305730|gb|ABW27347.1| pseudouridine synthase, RluA family [Acaryochloris marina
MBIC11017]
Length = 328
Score = 195 bits (496), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 108/267 (40%), Positives = 160/267 (59%), Gaps = 26/267 (9%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
+LE +V+ A R+D W+++++D +SR+ +Q I G V IN ++ + + ++ GD V
Sbjct: 3 KLEFSVEGSAA--RIDRWLANQVDSLSRSHIQKLIEQGHVQINHKICTSKKYALQIGDQV 60
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
I QPL E E + L+I++EDD++L+VNKPA +VVHPAPG+ATGTLV+G+L HC
Sbjct: 61 EVHIPAPQPLALEPEPMDLEILFEDDHLLIVNKPAGLVVHPAPGHATGTLVHGLLAHC-- 118
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
D + + S G RPGIVHRLDK T+G ++VAK +H HL
Sbjct: 119 -----------------QDGQGSTLSGIGGVERPGIVHRLDKDTTGAIMVAKTNQAHQHL 161
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
Q T R Y+ L G PS +GR+E PI R ++RI+MA +P + A +
Sbjct: 162 QAQIAAKTALREYVGLVYGRPSALTGRMEFPIGRHRSDRIKMAVVPEEQG---GKVAVTH 218
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQV 325
+++++ L G ALV++RLETGRTHQ+
Sbjct: 219 WQILQPL--GNYALVKFRLETGRTHQI 243
>gi|411119450|ref|ZP_11391830.1| ribosomal large subunit pseudouridine synthase D [Oscillatoriales
cyanobacterium JSC-12]
gi|410711313|gb|EKQ68820.1| ribosomal large subunit pseudouridine synthase D [Oscillatoriales
cyanobacterium JSC-12]
Length = 322
Score = 194 bits (494), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 110/269 (40%), Positives = 156/269 (57%), Gaps = 23/269 (8%)
Query: 57 GVQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGD 116
V++E VD + R+D++++ +++ +SR+R+Q I V ING V + V GD
Sbjct: 4 AVEVECLVDVEDAGDRIDSFLTDQLEDLSRSRIQKLISQKQVLINGTVCTSKKEIVNQGD 63
Query: 117 MVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC 176
++ I + +PL + E+IPLDI+YEDD +L++NKPA MVVHP+PG++ GTLVN +L HC
Sbjct: 64 LIRVQIPDAEPLDIQPENIPLDILYEDDELLIINKPAGMVVHPSPGHSQGTLVNALLWHC 123
Query: 177 SLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHA 236
++ E S I G RPGIVHRLDK T+G + VAK + +H
Sbjct: 124 R-----------------TTNGESTLSGIGGVQ-RPGIVHRLDKDTTGAICVAKTDLAHL 165
Query: 237 HLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAA 296
HL +QF T R Y L G P SG I+ PI R P +R +MA +P K G R A
Sbjct: 166 HLQQQFHDKTARRDYWGLVHGAPKAESGTIDAPIGRHPVDRQKMAIVP-EEKGG--RRAV 222
Query: 297 SRYKVIEILAGGGSALVEWRLETGRTHQV 325
+ ++V E L G L+ + LETGRTHQ+
Sbjct: 223 THWQVKERL--GNYTLMNFELETGRTHQI 249
>gi|443320767|ref|ZP_21049847.1| pseudouridine synthase, RluA family [Gloeocapsa sp. PCC 73106]
gi|442789501|gb|ELR99154.1| pseudouridine synthase, RluA family [Gloeocapsa sp. PCC 73106]
Length = 310
Score = 194 bits (494), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 109/271 (40%), Positives = 159/271 (58%), Gaps = 33/271 (12%)
Query: 58 VQLEETVDTKAGKL--RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGG 115
+Q+E +D + RLD W++ ++ SRARVQ I GLV +NGQ+V++ +K G
Sbjct: 1 MQIERELDLQVDNQGDRLDRWLTEQLSDYSRARVQRLIDQGLVLVNGQIVTEKKTKLKIG 60
Query: 116 DMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHH 175
D ++ TI + PL + E I LDI+YEDD +L++NKPA +VVHPAPG+ +GT+VN +LHH
Sbjct: 61 DRLHLTIPKAVPLELQPEAIALDILYEDDFLLIINKPAGLVVHPAPGHDSGTVVNALLHH 120
Query: 176 C-SLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHS 234
C LP + G RPGIVHRLDK T+G +VVAK + +
Sbjct: 121 CPDLPGI-------------------------GEVKRPGIVHRLDKNTTGAMVVAKTDLA 155
Query: 235 HAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARH 294
+ HL Q + T +R YI + G PSQ G I++PI R+ + +MA +P QAR
Sbjct: 156 YQHLQAQIQAKTAQREYIGIVHGAPSQPQGIIDLPIGRNLTDHQKMAVVPQEKGGRQAR- 214
Query: 295 AASRYKVIEILAGGGSALVEWRLETGRTHQV 325
+ +K++E L+ L+ ++L TGRTHQ+
Sbjct: 215 --TTWKILERLS--NYTLMHFQLSTGRTHQI 241
>gi|366085944|ref|ZP_09452429.1| 23S RNA-specific pseudouridylate synthase [Lactobacillus zeae KCTC
3804]
Length = 306
Score = 194 bits (493), Expect = 5e-47, Method: Compositional matrix adjust.
Identities = 115/263 (43%), Positives = 155/263 (58%), Gaps = 36/263 (13%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
T+ T+ G R+D I++ +R++VQ ++ GLV++NGQ V K ++ V GD++ +I
Sbjct: 6 TITTEQG--RIDKVITAHESTHTRSQVQKWLQDGLVTVNGQPV-KANYKVSLGDVIAVSI 62
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E +PL A AE IPLDIVYEDD V+VVNKP MVVHPAPG+ GTLVNG+L+H LP
Sbjct: 63 PEARPLEAVAEPIPLDIVYEDDQVIVVNKPQGMVVHPAPGHPDGTLVNGLLYHTDLP--- 119
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
I+G IRPGIVHR+DK TSGLL+VAK E + LS Q
Sbjct: 120 ---------------------GINGV-IRPGIVHRIDKDTSGLLMVAKTEKAQLSLSAQL 157
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
K T R Y++L G + G I+ P+ RDP +R R A + RHA + ++V+
Sbjct: 158 KAKTSIREYLALVHGTFKEDEGTIDAPLGRDPRDRKRQAVV------ADGRHAVTHFQVL 211
Query: 303 EILAGGGSALVEWRLETGRTHQV 325
E A L++ LETGRTHQ+
Sbjct: 212 ERFA--HYTLIKCVLETGRTHQI 232
>gi|313114073|ref|ZP_07799625.1| pseudouridine synthase, RluA family [Faecalibacterium cf.
prausnitzii KLE1255]
gi|310623482|gb|EFQ06885.1| pseudouridine synthase, RluA family [Faecalibacterium cf.
prausnitzii KLE1255]
Length = 310
Score = 194 bits (492), Expect = 6e-47, Method: Compositional matrix adjust.
Identities = 111/267 (41%), Positives = 159/267 (59%), Gaps = 28/267 (10%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q E V+ + R+D ++S G+SR+ +Q+ + G V NG++V+K S +K GD +
Sbjct: 3 QREFVVEQETAGQRIDRFLSGEDTGLSRSALQALVADGHVLCNGRLVAK-SLKLKAGDTI 61
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
I + +P+ A +DIPL+IVYED+++LVVNKP MVVHPAPGN GTLVN +L HC
Sbjct: 62 VLEIPDAKPIEAVPQDIPLEIVYEDEHLLVVNKPKGMVVHPAPGNPDGTLVNALLWHC-- 119
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+ S S G IRPGIVHR+DK TSGLLVVAKD+ +H L
Sbjct: 120 ---------------------KGSLSGIGGEIRPGIVHRIDKDTSGLLVVAKDDATHIGL 158
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
S+Q +H++ER Y ++ G +Q G +E + R +R +MA P S H ++A +
Sbjct: 159 SQQMAVHSVERAYRTIVYGGFAQDEGFVESNLGRSKTDRKKMAVYPASEPH--TKYAYTG 216
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQV 325
Y+V+E L ++E RL+TGRTHQ+
Sbjct: 217 YQVLERL--NNFTMLECRLKTGRTHQI 241
>gi|297583963|ref|YP_003699743.1| RluA family pseudouridine synthase [Bacillus selenitireducens
MLS10]
gi|297142420|gb|ADH99177.1| pseudouridine synthase, RluA family [Bacillus selenitireducens
MLS10]
Length = 307
Score = 194 bits (492), Expect = 7e-47, Method: Compositional matrix adjust.
Identities = 117/276 (42%), Positives = 162/276 (58%), Gaps = 34/276 (12%)
Query: 60 LEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
E TVD + GK RLD W++ + D SR+ QS I+ G V++N + SK ++ +K GD+V
Sbjct: 4 FEFTVD-EQGK-RLDKWLTDQSDDWSRSLTQSWIQEGYVTVNDET-SKANYKLKIGDVVR 60
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
+ E++ L AED+ LDIVYED +V+VVNKPA MVVHPAPG+ +GTLVNG+++HC
Sbjct: 61 VKVPEVEELEITAEDLDLDIVYEDQDVIVVNKPAGMVVHPAPGHPSGTLVNGLMYHC--- 117
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
+D+ S I+G + RPGIVHR+DK TSGLL+VAK + +H L
Sbjct: 118 -------------QDL-------SGINGVA-RPGIVHRIDKDTSGLLMVAKHDKAHESLV 156
Query: 240 EQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRY 299
+Q K T R Y +L G G ++ PI RDP +R +M + AR A + +
Sbjct: 157 DQLKNKTTIRQYEALVVGTIPHEKGTVDAPIGRDPQDRQKMTVTEEN-----ARDAVTHF 211
Query: 300 KVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+VIE + G L E LETGRTHQ+ + K P
Sbjct: 212 QVIERMNGYTHVLCE--LETGRTHQIRVHMKYIGYP 245
>gi|75909134|ref|YP_323430.1| ribosomal large subunit pseudouridine synthase D [Anabaena
variabilis ATCC 29413]
gi|75702859|gb|ABA22535.1| ribosomal large subunit pseudouridine synthase D [Anabaena
variabilis ATCC 29413]
Length = 312
Score = 194 bits (492), Expect = 7e-47, Method: Compositional matrix adjust.
Identities = 102/266 (38%), Positives = 154/266 (57%), Gaps = 31/266 (11%)
Query: 61 EETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNC 120
E ++ + R+D +++ + +SR+R+Q I G V +NG+V + N+K GD +
Sbjct: 4 EFYLEVEENSARIDRYLAEELPDLSRSRIQQLIEQGKVQVNGKVCTSKKINLKVGDRITL 63
Query: 121 TISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCS-LP 179
+ E QPL +AEDIPLDI+YEDD +L++NKPA +VVHPAPG++ GTLVN +L HC LP
Sbjct: 64 EVPEAQPLELQAEDIPLDILYEDDQLLILNKPAGLVVHPAPGHSHGTLVNALLAHCPHLP 123
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
+ G RPGIVHRLDK T+G + +AK + ++ H+
Sbjct: 124 GI-------------------------GGVQRPGIVHRLDKDTTGAIAIAKTDIAYKHIQ 158
Query: 240 EQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRY 299
Q + T R Y+ + G P SSG++++PI R P +R +MA +P R A + +
Sbjct: 159 AQLQTKTARREYLGVVYGAPKTSSGKVDLPIGRHPQDRKKMAIVPVEEG---GRSAITHW 215
Query: 300 KVIEILAGGGSALVEWRLETGRTHQV 325
++ E L G L+ ++LETGRTHQ+
Sbjct: 216 QIQERL--GNFTLIHFQLETGRTHQI 239
>gi|199598373|ref|ZP_03211792.1| Pseudouridylate synthase, 23S RNA-specific [Lactobacillus rhamnosus
HN001]
gi|258508458|ref|YP_003171209.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
rhamnosus GG]
gi|385828126|ref|YP_005865898.1| pseudouridylate synthase [Lactobacillus rhamnosus GG]
gi|199590692|gb|EDY98779.1| Pseudouridylate synthase, 23S RNA-specific [Lactobacillus rhamnosus
HN001]
gi|257148385|emb|CAR87358.1| Ribosomal large subunit pseudouridine synthase D [Lactobacillus
rhamnosus GG]
gi|259649771|dbj|BAI41933.1| pseudouridylate synthase [Lactobacillus rhamnosus GG]
Length = 306
Score = 193 bits (491), Expect = 8e-47, Method: Compositional matrix adjust.
Identities = 114/263 (43%), Positives = 155/263 (58%), Gaps = 36/263 (13%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
T+ T++G R+D I++ +R++VQ ++ GLV++NG V K + V GD+V TI
Sbjct: 6 TITTESG--RIDKIITAHETTHTRSQVQKWLQDGLVTVNGNPV-KANFKVTAGDVVTVTI 62
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E++PL+A AE IPL+IVYEDD V+VVNKP MVVHPAPG+ GTLVNG+L+H LP
Sbjct: 63 PEVKPLKAVAEPIPLEIVYEDDQVIVVNKPQGMVVHPAPGHPDGTLVNGLLYHTKLP--- 119
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
I+G IRPGIVHR+DK TSGLL+VAK E + LS Q
Sbjct: 120 ---------------------GINGV-IRPGIVHRIDKDTSGLLMVAKTEAAQLSLSAQL 157
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
K T R Y++L G + G I+ P+ RDP +R R A + RHA + ++V+
Sbjct: 158 KAKTSIREYLALVHGTFKEDEGTIDAPLGRDPRDRKRQAVV------ADGRHAVTHFQVL 211
Query: 303 EILAGGGSALVEWRLETGRTHQV 325
E LV+ L+TGRTHQ+
Sbjct: 212 ERFT--NYTLVKCILDTGRTHQI 232
>gi|319781137|ref|YP_004140613.1| RluA family pseudouridine synthase [Mesorhizobium ciceri biovar
biserrulae WSM1271]
gi|317167025|gb|ADV10563.1| pseudouridine synthase, RluA family [Mesorhizobium ciceri biovar
biserrulae WSM1271]
Length = 346
Score = 193 bits (491), Expect = 8e-47, Method: Compositional matrix adjust.
Identities = 108/271 (39%), Positives = 158/271 (58%), Gaps = 36/271 (13%)
Query: 65 DTKAGKLRLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
D A RLD W+++R+ +SR+RVQ IR G VS++G+++ + + G+ V+ T+
Sbjct: 22 DADAAGQRLDQWLAARLGPDMSRSRVQMLIRQGAVSVDGKLIDETKRKMAPGESVSVTMP 81
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
E +P + E+I LD++YEDD ++V+NKPA +VVHP GN TGTLVN ++HHC
Sbjct: 82 EPEPAEPQGENIALDVLYEDDELIVINKPAGLVVHPGAGNWTGTLVNALIHHCG------ 135
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
+ S I G RPGIVHRLDK TSG++VVAK + +H LSE F
Sbjct: 136 ----------------DSLSGIGGVR-RPGIVHRLDKETSGVMVVAKTDRAHKSLSEAFA 178
Query: 244 LH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRY 299
H +ER Y++L G+P + +GR++ P+ R +R+R A +P ARHA + +
Sbjct: 179 DHGLTGDLERAYLALVWGIPQRPTGRVDAPLGR-AADRVRRAVVPEGRD--DARHAVTHF 235
Query: 300 KVIEILAG-----GGSALVEWRLETGRTHQV 325
V E +++VE RLETGRTHQ+
Sbjct: 236 AVQERFGESQQEFATASMVECRLETGRTHQI 266
>gi|147678153|ref|YP_001212368.1| pseudouridylate synthase [Pelotomaculum thermopropionicum SI]
gi|146274250|dbj|BAF59999.1| pseudouridylate synthase [Pelotomaculum thermopropionicum SI]
Length = 312
Score = 193 bits (491), Expect = 9e-47, Method: Compositional matrix adjust.
Identities = 109/261 (41%), Positives = 157/261 (60%), Gaps = 33/261 (12%)
Query: 65 DTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISE 124
+ AGK RLD +++ ++G++R VQ I G+ S+NGQ + S+ VK GD+V + E
Sbjct: 11 EEDAGK-RLDLFLAGEMEGLTRTYVQKLIAEGMASVNGQR-GRASYRVKPGDVVVLQVPE 68
Query: 125 LQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASS 184
+ L + E IPL++ YED +V+V+NKP MVVHPA GN +GTLVN +L+HCS
Sbjct: 69 PEGLEIKKEPIPLEVYYEDADVIVINKPRGMVVHPADGNYSGTLVNALLYHCS------- 121
Query: 185 NQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKL 244
D+ S I+G +RPGIVHRLDK TSGL++VAK++ +H L+ Q K
Sbjct: 122 ---------DL-------SGINGV-MRPGIVHRLDKDTSGLIMVAKNDTAHLSLARQLKE 164
Query: 245 HTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEI 304
I R Y++L G+ + SG ++ PI RDP +R +MA + A+ A +RY+V+E
Sbjct: 165 RQITRRYLALVHGLLKEQSGMVDAPIGRDPRDRKKMAVL-----QKNAKQAVTRYRVLER 219
Query: 305 LAGGGSALVEWRLETGRTHQV 325
G +E LETGRTHQ+
Sbjct: 220 FK--GYTYIELMLETGRTHQI 238
>gi|83312285|ref|YP_422549.1| pseudouridylate synthase, 23S RNA-specific [Magnetospirillum
magneticum AMB-1]
gi|82947126|dbj|BAE51990.1| Pseudouridylate synthase, 23S RNA-specific [Magnetospirillum
magneticum AMB-1]
Length = 505
Score = 193 bits (491), Expect = 9e-47, Method: Compositional matrix adjust.
Identities = 108/262 (41%), Positives = 147/262 (56%), Gaps = 28/262 (10%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
V+ + RLD W++ R+ +SR R++ + G VS+ +S S VK G +
Sbjct: 192 VEPEEAGTRLDRWLALRLPELSRTRIKGLMEDGRVSLEETTISDASLRVKPGQCFVVDVP 251
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
P + E +DI L +VYED++++V++KPA MVVHPAPGN TLVN +L HC
Sbjct: 252 PDAPAQPEPQDIALTVVYEDEDLIVIDKPAGMVVHPAPGNPDETLVNALLAHCG------ 305
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
E + I G RPGIVHR+DK TSGLLV AK + +H L+ QF
Sbjct: 306 ----------------ESLAGIGGVK-RPGIVHRIDKDTSGLLVAAKTDAAHRGLATQFA 348
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
HT+ER Y +L G PS G IE I R+PN+R +MA + K A +RY+V++
Sbjct: 349 AHTLERAYWALVWGTPSPRQGEIEGNIGRNPNDRKKMAVVKSGGK-----PALTRYRVLK 403
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
AGG +LVE RL TGRTHQ+
Sbjct: 404 SFAGGAVSLVECRLATGRTHQI 425
>gi|209525222|ref|ZP_03273765.1| pseudouridine synthase, RluA family [Arthrospira maxima CS-328]
gi|423067859|ref|ZP_17056649.1| pseudouridine synthase RluA family [Arthrospira platensis C1]
gi|209494407|gb|EDZ94719.1| pseudouridine synthase, RluA family [Arthrospira maxima CS-328]
gi|406710602|gb|EKD05809.1| pseudouridine synthase RluA family [Arthrospira platensis C1]
Length = 308
Score = 193 bits (491), Expect = 1e-46, Method: Compositional matrix adjust.
Identities = 108/261 (41%), Positives = 148/261 (56%), Gaps = 29/261 (11%)
Query: 65 DTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISE 124
D RLD W+S R+ +SR+R+Q+ I SG V IN + V+ GD + I
Sbjct: 9 DKDGENQRLDKWLSERVHQLSRSRLQALISSGHVWINNSPCTSKKATVQIGDRIQVEIPP 68
Query: 125 LQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASS 184
PL +A +IPLDI+YED+ +L++NKPA +VVHPAPG+ TLVN +L HC
Sbjct: 69 AIPLELKATNIPLDILYEDEELLIINKPAGLVVHPAPGHENDTLVNALLAHC-------- 120
Query: 185 NQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKL 244
E + I G RPGIVHRLDK T+G + +AK +H+H HL Q +
Sbjct: 121 ---------------ETLAGIGGVQ-RPGIVHRLDKDTTGAIAIAKTDHAHQHLQAQIQA 164
Query: 245 HTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEI 304
T R Y+ + GVP +SG I+ PI R P++R +MA +P +H R A + +KV E
Sbjct: 165 KTARRQYLGIIYGVPKTTSGVIDQPIGRHPSDRQKMAIVP---QHQGGRSAITHWKVKER 221
Query: 305 LAGGGSALVEWRLETGRTHQV 325
L G L+E+ LETGRTHQ+
Sbjct: 222 L--GNYTLIEFELETGRTHQI 240
>gi|17228018|ref|NP_484566.1| hypothetical protein alr0522 [Nostoc sp. PCC 7120]
gi|9957317|gb|AAG09315.1| hypothetical protein [Nostoc sp. PCC 7120]
gi|17129867|dbj|BAB72480.1| alr0522 [Nostoc sp. PCC 7120]
Length = 312
Score = 193 bits (490), Expect = 1e-46, Method: Compositional matrix adjust.
Identities = 100/255 (39%), Positives = 150/255 (58%), Gaps = 31/255 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D +++ + +SR+R+Q I G V +NG+V + N+K GD + + E QPL +
Sbjct: 15 RIDRYLAEELPDLSRSRIQQLIEQGKVQVNGKVCTSKKINLKVGDRITLEVPEAQPLEIQ 74
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC-SLPTLASSNQEAFS 190
AEDIPLDI+YEDD +L++NKPA +VVHPAPG++ GTLVN +L HC LP +
Sbjct: 75 AEDIPLDILYEDDQLLILNKPAGLVVHPAPGHSHGTLVNALLAHCPDLPGI--------- 125
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
G RPGIVHRLDK T+G + +AK + ++ H+ Q + T R
Sbjct: 126 ----------------GGVQRPGIVHRLDKDTTGAIAIAKTDIAYKHIQAQLQAKTARRE 169
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y+ + G P +SG++++PI R P +R +MA +P R A + +++ E L G
Sbjct: 170 YLGVVYGAPKTASGKVDLPIGRHPQDRKKMAVVPIEEG---GRSAITHWQIQERL--GNF 224
Query: 311 ALVEWRLETGRTHQV 325
L+ ++LETGRTHQ+
Sbjct: 225 TLIHFQLETGRTHQI 239
>gi|187734524|ref|YP_001876636.1| RluA family pseudouridine synthase [Akkermansia muciniphila ATCC
BAA-835]
gi|187424576|gb|ACD03855.1| pseudouridine synthase, RluA family [Akkermansia muciniphila ATCC
BAA-835]
Length = 323
Score = 193 bits (490), Expect = 1e-46, Method: Compositional matrix adjust.
Identities = 116/270 (42%), Positives = 161/270 (59%), Gaps = 33/270 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
T D GK+RLD ++++ + +SR+R+QS I+SG V +NG +K + V GD + I
Sbjct: 4 TTDDADGKIRLDQYLAAHLPELSRSRIQSLIKSGDVLVNGSP-AKPKNPVSRGDSITVRI 62
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E +P A+ +DIPLDI+YED++V+V+NK + MVVHPA GN GT+VN +LHHC
Sbjct: 63 PEPEPAEAQPQDIPLDILYEDEDVVVINKESGMVVHPAAGNPDGTIVNALLHHCG----- 117
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
D+ S I G RPGIVHRLDK TSG LV+AK++ +H L+ QF
Sbjct: 118 -----------DL-------SGIGGVE-RPGIVHRLDKDTSGCLVIAKNDGAHQSLTAQF 158
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAI-PGSNKHGQARHAASRYKV 301
+ E+ Y+++ G+PSQSSG + I R P NR++MA + PGS K A + Y +
Sbjct: 159 AARSTEKRYLAVVQGIPSQSSGTVFTHIGRHPVNRLKMAVVNPGSGK-----AAITDYDL 213
Query: 302 IEILAGGGSALVEWRLETGRTHQ--VLMLY 329
+ S+LV L TGRTHQ V MLY
Sbjct: 214 LCADPSTDSSLVLCTLHTGRTHQIRVHMLY 243
>gi|229552260|ref|ZP_04440985.1| pseudouridylate synthase [Lactobacillus rhamnosus LMS2-1]
gi|258539670|ref|YP_003174169.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
rhamnosus Lc 705]
gi|385835319|ref|YP_005873093.1| RluA family pseudouridine synthase [Lactobacillus rhamnosus ATCC
8530]
gi|418070676|ref|ZP_12707951.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
rhamnosus R0011]
gi|421770413|ref|ZP_16207110.1| Ribosomal large subunit pseudouridine synthase D [Lactobacillus
rhamnosus LRHMDP2]
gi|421773631|ref|ZP_16210272.1| Ribosomal large subunit pseudouridine synthase D [Lactobacillus
rhamnosus LRHMDP3]
gi|423077996|ref|ZP_17066683.1| pseudouridine synthase, RluA family [Lactobacillus rhamnosus ATCC
21052]
gi|229314396|gb|EEN80369.1| pseudouridylate synthase [Lactobacillus rhamnosus LMS2-1]
gi|257151346|emb|CAR90318.1| Ribosomal large subunit pseudouridine synthase D [Lactobacillus
rhamnosus Lc 705]
gi|355394810|gb|AER64240.1| pseudouridine synthase, RluA family protein [Lactobacillus
rhamnosus ATCC 8530]
gi|357540096|gb|EHJ24113.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
rhamnosus R0011]
gi|357552376|gb|EHJ34149.1| pseudouridine synthase, RluA family [Lactobacillus rhamnosus ATCC
21052]
gi|411181631|gb|EKS48798.1| Ribosomal large subunit pseudouridine synthase D [Lactobacillus
rhamnosus LRHMDP3]
gi|411182285|gb|EKS49437.1| Ribosomal large subunit pseudouridine synthase D [Lactobacillus
rhamnosus LRHMDP2]
Length = 306
Score = 193 bits (490), Expect = 1e-46, Method: Compositional matrix adjust.
Identities = 114/263 (43%), Positives = 155/263 (58%), Gaps = 36/263 (13%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
T+ T++G R+D I++ +R++VQ ++ GLV++NG V K + V GD+V TI
Sbjct: 6 TITTESG--RIDKIITAHETTHTRSQVQKWLQDGLVTVNGNPV-KANFKVTAGDVVTVTI 62
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E++PL+A AE IPL+IVYEDD V+VVNKP MVVHPAPG+ GTLVNG+L+H LP
Sbjct: 63 PEVKPLKAVAEPIPLEIVYEDDQVIVVNKPQGMVVHPAPGHPDGTLVNGLLYHTKLP--- 119
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
I+G IRPGIVHR+DK TSGLL+VAK E + LS Q
Sbjct: 120 ---------------------GINGV-IRPGIVHRIDKDTSGLLMVAKTEAAQLSLSAQL 157
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
K T R Y++L G + G I+ P+ RDP +R R A + RHA + ++V+
Sbjct: 158 KAKTSIREYLALVHGTFKEDEGTIDAPLGRDPRDRKRQAVV------ADGRHAVTHFQVL 211
Query: 303 EILAGGGSALVEWRLETGRTHQV 325
E LV+ L+TGRTHQ+
Sbjct: 212 ERFT--NYTLVKCILDTGRTHQI 232
>gi|298492053|ref|YP_003722230.1| RluA family pseudouridine synthase ['Nostoc azollae' 0708]
gi|298233971|gb|ADI65107.1| pseudouridine synthase, RluA family ['Nostoc azollae' 0708]
Length = 329
Score = 193 bits (490), Expect = 1e-46, Method: Compositional matrix adjust.
Identities = 107/255 (41%), Positives = 149/255 (58%), Gaps = 31/255 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++SS + +SR+R+Q I G V +N QV + NVK GD + I LQPL+
Sbjct: 34 RLDLYLSSELQNLSRSRLQQLIEQGHVLLNDQVCTSKKVNVKVGDRICVEIPSLQPLKLV 93
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCS-LPTLASSNQEAFS 190
AEDIPLDI+YED+ +L++NKPA +VVHPAPG+ GTLVN +L HC+ LP +
Sbjct: 94 AEDIPLDILYEDEQLLILNKPAGLVVHPAPGHLDGTLVNALLAHCANLPGI--------- 144
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
G RPGIVHRLDK T+G + +AK + ++ HL Q + T R
Sbjct: 145 ----------------GGVQRPGIVHRLDKDTTGAIAIAKTDIAYQHLQAQLQAKTARRE 188
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y+ + GVP SG I +PISR P +R +MA +P R A + +++ E L+
Sbjct: 189 YLGVVYGVPKTESGIINLPISRHPQDRKKMAIVPTEQG---GRTAITHWQIRERLS--NY 243
Query: 311 ALVEWRLETGRTHQV 325
L+ ++LETGRTHQ+
Sbjct: 244 TLIHFQLETGRTHQI 258
>gi|257439832|ref|ZP_05615587.1| ribosomal large subunit pseudouridine synthase D [Faecalibacterium
prausnitzii A2-165]
gi|257197741|gb|EEU96025.1| pseudouridine synthase, RluA family [Faecalibacterium prausnitzii
A2-165]
Length = 314
Score = 192 bits (489), Expect = 1e-46, Method: Compositional matrix adjust.
Identities = 111/267 (41%), Positives = 157/267 (58%), Gaps = 28/267 (10%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q E V+ + R+D ++S G+SR+ +Q + G V NG+ +K S +K GD++
Sbjct: 3 QREYIVEAEGAGQRIDRFLSGEDTGLSRSALQGLVAEGHVLCNGKAPAK-SLKLKAGDII 61
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
I + +P+ A ++IPLDI+YED ++LVVNKP MVVHPAPGN GTLVN +L HC
Sbjct: 62 LLEIPDAKPIEAVPQEIPLDIIYEDAHLLVVNKPKGMVVHPAPGNPDGTLVNALLWHC-- 119
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+ S S G IRPGIVHR+DK TSGLLVVAKD+ +H L
Sbjct: 120 ---------------------KGSLSGIGGEIRPGIVHRVDKDTSGLLVVAKDDATHIGL 158
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
S+Q +H++ER Y ++ G +Q G +E + R +R +MA P S H ++A +
Sbjct: 159 SQQMAVHSVERAYNTIVYGGFAQDEGFVESNLGRSKTDRKKMAVYPASEPH--TKYAYTG 216
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQV 325
YKV+E L G ++E RL+TGRTHQ+
Sbjct: 217 YKVLERL--GEFTMLECRLKTGRTHQI 241
>gi|170756442|ref|YP_001781114.1| RluA family pseudouridine synthase [Clostridium botulinum B1 str.
Okra]
gi|429247523|ref|ZP_19210766.1| RluA family pseudouridine synthase [Clostridium botulinum
CFSAN001628]
gi|169121654|gb|ACA45490.1| pseudouridine synthase, RluA family [Clostridium botulinum B1 str.
Okra]
gi|428755477|gb|EKX78105.1| RluA family pseudouridine synthase [Clostridium botulinum
CFSAN001628]
Length = 305
Score = 192 bits (489), Expect = 1e-46, Method: Compositional matrix adjust.
Identities = 116/262 (44%), Positives = 155/262 (59%), Gaps = 33/262 (12%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
V+ + +RLD ++S + SR+ +Q I G V +N + + +K GD + I
Sbjct: 8 VEKEFDNVRLDLYLSKIFEDKSRSYLQGIIDQGSVLVNNKKKKRNY-KLKVGDNIEVNIP 66
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
E + L+ E EDI LDI+YED +V+VVNKP MVVHPAPG +GTLVN +LHHC
Sbjct: 67 EPKLLQIEPEDIKLDIIYEDKDVIVVNKPQEMVVHPAPGVYSGTLVNALLHHC------- 119
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
+D+S I+G + RPGIVHR+DK TSG+LVVAK++ SH +L+ QFK
Sbjct: 120 ---------KDLS-------GINGVA-RPGIVHRIDKDTSGILVVAKNDISHNNLAAQFK 162
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
H+I RVY++L G+ G IE PI R P +RI+MA + RHA + YKVIE
Sbjct: 163 EHSISRVYMALVEGIIKDEQGTIEAPIGRHPVDRIKMAVV------KDGRHAVTHYKVIE 216
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
LVE RLETGRTHQ+
Sbjct: 217 RFK--NHTLVECRLETGRTHQI 236
>gi|330814384|ref|YP_004358623.1| ribosomal large subunit pseudouridine synthase D [Candidatus
Pelagibacter sp. IMCC9063]
gi|327487479|gb|AEA81884.1| ribosomal large subunit pseudouridine synthase D [Candidatus
Pelagibacter sp. IMCC9063]
Length = 327
Score = 192 bits (489), Expect = 1e-46, Method: Compositional matrix adjust.
Identities = 109/266 (40%), Positives = 153/266 (57%), Gaps = 31/266 (11%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV + R+D +I + SR ++ I+ G + IN + + + S V GD V ++
Sbjct: 9 TVSEEQNLKRVDQFIVEELPTFSRTKISKLIKEGALLINNEPIEERSKKVSFGDEVELSV 68
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E P + ++IPLD+VYEDD++LV+NKP MVVHP GN GTLVN +LHHC
Sbjct: 69 PEPVPTDLKPQNIPLDVVYEDDDLLVINKPIGMVVHPGAGNPDGTLVNALLHHC------ 122
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
+E S I+G +RPGIVHR+DK TSGLLVVAK++ +H L++QF
Sbjct: 123 ----------------KENLSGING-ELRPGIVHRIDKDTSGLLVVAKNDIAHNVLAKQF 165
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
+ H+I+R Y++ G+P GRIE I R NR +M+A GS K A + YK +
Sbjct: 166 EDHSIQRTYLAFVWGMPKPIHGRIETLIGRSKYNRQKMSAEVGSGK-----DAITNYKTL 220
Query: 303 EILAGG---GSALVEWRLETGRTHQV 325
E+ G +L+E RLETGRTHQ+
Sbjct: 221 EVFKGKTIPDISLIECRLETGRTHQI 246
>gi|119513315|ref|ZP_01632353.1| Pseudouridine synthase, RluD [Nodularia spumigena CCY9414]
gi|119462022|gb|EAW43021.1| Pseudouridine synthase, RluD [Nodularia spumigena CCY9414]
Length = 309
Score = 192 bits (489), Expect = 1e-46, Method: Compositional matrix adjust.
Identities = 106/269 (39%), Positives = 157/269 (58%), Gaps = 37/269 (13%)
Query: 58 VQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDM 117
+Q+EET + RLD ++S + +SR+R+Q I G V +N Q+ + VK GD
Sbjct: 6 LQVEETGE------RLDRYLSENLPNLSRSRIQQLIEQGNVHLNEQICTTKKITVKAGDR 59
Query: 118 VNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC- 176
+ I E+QPL+ +A+DIPLDI+YEDD++L++NKPA +VVHPAPG+ GTLVN +L HC
Sbjct: 60 ITLEIPEVQPLQVQAQDIPLDILYEDDHLLILNKPAGLVVHPAPGHPDGTLVNALLAHCP 119
Query: 177 SLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHA 236
+LP + G RPGIVHRLDK T+G + +AK + ++
Sbjct: 120 NLPGI-------------------------GGVQRPGIVHRLDKDTTGAIAIAKTDIAYH 154
Query: 237 HLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAA 296
L Q + T R Y+ + G P +G+I+ PI R P +R +MA +P R+A
Sbjct: 155 SLQAQLQAKTARREYLGVVYGAPKTENGKIDEPIGRHPQDRKKMAVVPIEKG---GRNAV 211
Query: 297 SRYKVIEILAGGGSALVEWRLETGRTHQV 325
+ ++++E L G LV ++LETGRTHQ+
Sbjct: 212 THWQILERL--GNQTLVLFQLETGRTHQI 238
>gi|359457301|ref|ZP_09245864.1| RluA family pseudouridine synthase [Acaryochloris sp. CCMEE 5410]
Length = 328
Score = 192 bits (489), Expect = 2e-46, Method: Compositional matrix adjust.
Identities = 109/267 (40%), Positives = 163/267 (61%), Gaps = 26/267 (9%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
+LE +V+ A R+D W+++++D +SR+ +Q I G V IN Q+ + + ++ GD V
Sbjct: 3 KLEFSVEGSAA--RIDRWLANQVDSLSRSHIQKLIEQGHVQINHQICTSKKYALQIGDQV 60
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
I QPL E E + L+I++ED ++L+VNKPA +VVHPAPG+ATGTLV+G+L HC
Sbjct: 61 EVHIPAPQPLALEPELMDLEILFEDAHLLIVNKPAGLVVHPAPGHATGTLVHGLLAHC-- 118
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+ + + S G RPGIVHRLDK T+G ++VAK + +H HL
Sbjct: 119 -----------------QEGQGTTLSGIGGVERPGIVHRLDKDTTGAVMVAKTDQAHQHL 161
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
Q T R Y+ L G PS +GR+E PI R ++RI+MA +P + G+A A +
Sbjct: 162 QAQIAAKTALREYVGLVYGRPSALTGRMEFPIGRHRSDRIKMAVVP-VEQGGKA--AVTH 218
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQV 325
+++++ L G ALV++RLETGRTHQ+
Sbjct: 219 WQILQPL--GNYALVKFRLETGRTHQI 243
>gi|340749928|ref|ZP_08686775.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium
mortiferum ATCC 9817]
gi|229419571|gb|EEO34618.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium
mortiferum ATCC 9817]
Length = 318
Score = 192 bits (488), Expect = 2e-46, Method: Compositional matrix adjust.
Identities = 109/266 (40%), Positives = 165/266 (62%), Gaps = 31/266 (11%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D +++ ID +R+ VQ I +GLV I G+ ++K + +KG +++ I E + L
Sbjct: 19 RIDKFLNELIDDATRSYVQKIIDNGLVEIQGKKITKSGNKLKGTEIIVVNIPEDEVLDLT 78
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
EDIPLDI+YED +++V+NK ++VVHPA GN +GTLVN +L+H
Sbjct: 79 PEDIPLDIIYEDSDIVVINKAPNLVVHPAHGNYSGTLVNALLYHI--------------- 123
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+D+ S+I+G IRPGIVHRLDK TSG++VVAK++ +H LSE FK T+E++Y
Sbjct: 124 -KDL-------STINGV-IRPGIVHRLDKDTSGVIVVAKNDEAHGKLSEMFKEKTLEKIY 174
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+ + G+ + SGRI+ I RD +R +MA + N++G+ A S Y+VI+ G +
Sbjct: 175 VCIAKGIFKEKSGRIKTLIGRDSRDRKKMAVV---NENGKI--AISNYEVID--EGKNHS 227
Query: 312 LVEWRLETGRTHQVLMLYKLFYIPRM 337
LV+ R+ETGRTHQ+ + K P M
Sbjct: 228 LVKVRIETGRTHQIRVHMKHLNHPIM 253
>gi|381166654|ref|ZP_09875868.1| pseudouridine synthase (pseudouridines 1911, 1915, 1917 in 23S RNA)
[Phaeospirillum molischianum DSM 120]
gi|380684227|emb|CCG40680.1| pseudouridine synthase (pseudouridines 1911, 1915, 1917 in 23S RNA)
[Phaeospirillum molischianum DSM 120]
Length = 347
Score = 192 bits (488), Expect = 2e-46, Method: Compositional matrix adjust.
Identities = 115/295 (38%), Positives = 161/295 (54%), Gaps = 28/295 (9%)
Query: 31 VFKILRARCSSSSSGGNNREPIANYAGVQLEETVDTKAGKLRLDAWISSRIDGISRARVQ 90
+F L ++++ G++ E + + E V RLD W++ R+ +SR+R++
Sbjct: 1 MFDSLIYPVAAAAGIGDDSEMNETNSRLYTPEPVSPDEAGQRLDKWLAMRLLDLSRSRIK 60
Query: 91 SSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVN 150
I G VS++G + SH VK G ++ P EA+DI L +V+ED++++V++
Sbjct: 61 GLIEDGRVSLDGPTILDPSHRVKPGQSCRVSVPPDAPAIPEAQDIALTVVHEDEDLIVID 120
Query: 151 KPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASI 210
KP +VVHPAPGN TLVN +L HC E + I G
Sbjct: 121 KPPGLVVHPAPGNLDFTLVNALLAHCG----------------------ESLAGIGGVR- 157
Query: 211 RPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPI 270
RPGIVHRLDK TSGLLV AK + +H LSEQF H++ER Y +L GVPS S G IE I
Sbjct: 158 RPGIVHRLDKDTSGLLVAAKTDAAHRGLSEQFAAHSLERAYRALVWGVPSPSKGEIEGNI 217
Query: 271 SRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQV 325
R+P +R MA + G K A +RY V++ GG + VE RL TGRTHQ+
Sbjct: 218 GRNPRDRKTMAIVSGGGK-----RALTRYHVLQTYLGGCVSSVECRLATGRTHQI 267
>gi|86608591|ref|YP_477353.1| RluA family pseudouridine synthase [Synechococcus sp.
JA-2-3B'a(2-13)]
gi|86557133|gb|ABD02090.1| pseudouridine synthase, RluA family [Synechococcus sp.
JA-2-3B'a(2-13)]
Length = 317
Score = 192 bits (488), Expect = 2e-46, Method: Compositional matrix adjust.
Identities = 108/262 (41%), Positives = 150/262 (57%), Gaps = 30/262 (11%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
V K LRLD ++ ++ +SR+R+Q IR G V +NGQ ++ GD V I
Sbjct: 16 VTEKQQGLRLDRGLAEQLPELSRSRLQQLIRQGQVWLNGQPCRDKDRPLQAGDEVEVRIP 75
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
P + E IPLDI+YEDD++LV+NKP +VVHPAPG+A+GTLV+ +L HC P L+
Sbjct: 76 PATPTALQPEPIPLDILYEDDDLLVINKPRGLVVHPAPGHASGTLVHALLAHC--PRLSG 133
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
N E RPGIVHRLDK T+G LV+AK + +H HL Q +
Sbjct: 134 INGEQ----------------------RPGIVHRLDKDTTGALVIAKHDQAHQHLQAQIQ 171
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
T R+Y+ + G P+QS G + PI R P +R +MA + GQ R A + ++V+E
Sbjct: 172 AKTARRLYLGVVFGRPAQSQGTVSAPIGRHPVDRQKMAVL----TPGQGRVAVTHWQVLE 227
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
L G L+++ LETGRTHQ+
Sbjct: 228 RL--GNYTLMQFELETGRTHQI 247
>gi|428318071|ref|YP_007115953.1| ribosomal large subunit pseudouridine synthase D [Oscillatoria
nigro-viridis PCC 7112]
gi|428241751|gb|AFZ07537.1| ribosomal large subunit pseudouridine synthase D [Oscillatoria
nigro-viridis PCC 7112]
Length = 321
Score = 192 bits (487), Expect = 2e-46, Method: Compositional matrix adjust.
Identities = 104/254 (40%), Positives = 150/254 (59%), Gaps = 30/254 (11%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD W+S++I +SR+R+Q+ I G V +N + + +VK GD ++ T+ E QP +
Sbjct: 27 RLDIWLSNQIPDLSRSRIQTLISQGNVKVNDETCTSKKISVKTGDRIHLTLPETQPTSLQ 86
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E IPLDI+YEDD+++++NKPA +VVHPA G+A GTLVN +L HC L
Sbjct: 87 PEAIPLDILYEDDSLIIINKPAGLVVHPAAGHADGTLVNALLAHCPL------------- 133
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+ I G RPGIVHRLDK T+G + +AK + +H HL Q K T R Y
Sbjct: 134 -----------AEIGGVQ-RPGIVHRLDKDTTGAIAIAKTDIAHQHLQAQLKTKTARREY 181
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+ + G PS +G I++PI R P +R +MA +P K G R A + + + E + G
Sbjct: 182 LGVVYGTPSTETGTIDLPIGRHPTDRKKMAVVP-VEKGG--RPAVTHWTIKERI--GNYC 236
Query: 312 LVEWRLETGRTHQV 325
L+ ++LETGRTHQ+
Sbjct: 237 LMHYQLETGRTHQI 250
>gi|374849516|dbj|BAL52529.1| ribosomal large subunit pseudouridine synthase D [uncultured
Chloroflexi bacterium]
Length = 307
Score = 192 bits (487), Expect = 3e-46, Method: Compositional matrix adjust.
Identities = 105/254 (41%), Positives = 149/254 (58%), Gaps = 30/254 (11%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++S ++ SR R+Q I G V +NG VV+K H + GD V + P
Sbjct: 16 RLDRFLSQQLTEFSRTRLQGLIEDGFVRVNGLVVTKNGHKLAFGDRVEVRVPPPAPSSLI 75
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E IP+++++E+++V+V+NKPA +VVHPA G+ GTLV+ +LHH D
Sbjct: 76 PEAIPIEVLFENEDVVVINKPAGLVVHPAAGHDHGTLVHALLHH-------------LPD 122
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
E I +E RPGIVHRLDKGTSGL++VA++E +H +L +QF+L +E+ Y
Sbjct: 123 LEGIGGEE-----------RPGIVHRLDKGTSGLMIVARNERAHRYLQDQFRLRRVEKTY 171
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++L G P SGRIE PI RDP +R RMA + G+ R A S Y+++E A
Sbjct: 172 LALVDGHPPTPSGRIEAPIGRDPLHRKRMAIL----HPGKGREAISEYRLLETFP--AHA 225
Query: 312 LVEWRLETGRTHQV 325
L+E TGRTHQ+
Sbjct: 226 LLEVHPLTGRTHQI 239
>gi|295425512|ref|ZP_06818204.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
amylolyticus DSM 11664]
gi|295064803|gb|EFG55719.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
amylolyticus DSM 11664]
Length = 302
Score = 192 bits (487), Expect = 3e-46, Method: Compositional matrix adjust.
Identities = 109/267 (40%), Positives = 160/267 (59%), Gaps = 35/267 (13%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
+ E TV+ + G RLD +++ +ID +SR RV+ I GL+ +N Q V K S+ VK GD +
Sbjct: 4 KYELTVENEKG--RLDKYLADKIDDLSRTRVKELIDDGLILVN-QKVEKASYKVKDGDAI 60
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
T+ ++PL E+IPLDI+YED++V+VVNKP MVVHPA G+ TLVN +L+H
Sbjct: 61 EVTVPAVKPLDVIPENIPLDIIYEDNDVIVVNKPQGMVVHPAAGHPDHTLVNALLYHTK- 119
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
LASS E F RPGIVHR+DK TSGLL++AK+ L
Sbjct: 120 -DLASS-PEGF---------------------RPGIVHRIDKDTSGLLMIAKNSQVRESL 156
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
+Q T +R+Y+++ G ++ G I+ PI+R+P++R +M + G +HA +
Sbjct: 157 EDQLAHKTNKRLYLAIVHGNFAEEEGTIDAPIARNPHDRKKMGVVAG------GKHAVTH 210
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQV 325
+KVIE G +L++ +LETGRTHQ+
Sbjct: 211 FKVIEQFK--GYSLIQCKLETGRTHQI 235
>gi|118581597|ref|YP_902847.1| RluA family pseudouridine synthase [Pelobacter propionicus DSM
2379]
gi|118504307|gb|ABL00790.1| ribosomal large subunit pseudouridine synthase D [Pelobacter
propionicus DSM 2379]
Length = 315
Score = 192 bits (487), Expect = 3e-46, Method: Compositional matrix adjust.
Identities = 107/255 (41%), Positives = 158/255 (61%), Gaps = 32/255 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
+RLD ++SS++ +R+ +Q I SG + ++G+ V + S +KGG+ ++ + E R
Sbjct: 12 VRLDLFLSSQLASETRSTIQRLIESGNIMVDGREV-RPSLKLKGGESISIQLPEPVAARP 70
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
E IPL+++YED +++V+NKPA MVVHP PGN++GTLVN +L HC+
Sbjct: 71 LPESIPLEVLYEDGDLIVINKPAGMVVHPGPGNSSGTLVNALLAHCT------------- 117
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
D+S G +RPGIVHRLDKGTSG++VVAK++ SH LS QF +H+I+R+
Sbjct: 118 ---DLSG--------IGGELRPGIVHRLDKGTSGVMVVAKNDRSHQALSAQFSVHSIKRI 166
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y +L G P Q SGR+E I R P +R+R + + Q +HA +R++V G
Sbjct: 167 YQALVYGSPQQDSGRLEGQIGRHPTDRLRRSGLA-----RQGKHAVTRWRVRGRY--GRI 219
Query: 311 ALVEWRLETGRTHQV 325
L+E RLETGRTHQ+
Sbjct: 220 CLMELRLETGRTHQI 234
>gi|169343529|ref|ZP_02864528.1| pseudouridine synthase, RluA family [Clostridium perfringens C str.
JGS1495]
gi|169298089|gb|EDS80179.1| pseudouridine synthase, RluA family [Clostridium perfringens C str.
JGS1495]
Length = 306
Score = 192 bits (487), Expect = 3e-46, Method: Compositional matrix adjust.
Identities = 109/255 (42%), Positives = 155/255 (60%), Gaps = 33/255 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
+R D +++ +IDG+SR +Q G + ING+ K + + GD V I E + L+
Sbjct: 17 IRADKFLALKIDGVSRNFIQGLFDDGKILINGKA-EKGKYKLSVGDCVEVEIPEPEELKV 75
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
EAEDIPL+IVYED++V+VVNKP MVVHPAPGN TGTLVN +LHHC
Sbjct: 76 EAEDIPLNIVYEDEDVIVVNKPKGMVVHPAPGNYTGTLVNALLHHC-------------- 121
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
DD S I+G IRPGIVHR+DK TSG+LVVAK++++H L+EQFK H+I+R
Sbjct: 122 ------DD---LSGINGV-IRPGIVHRIDKDTSGILVVAKNDNAHQKLAEQFKDHSIKRE 171
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y ++ G + G I+ P+ R +R++ A + + A + Y+V+++
Sbjct: 172 YYAIVEGRFKKEGGTIDAPLGRHHRDRLKYAVVK------DGKRAVTHYEVLKVF--NSC 223
Query: 311 ALVEWRLETGRTHQV 325
+LV+ LETGRTHQ+
Sbjct: 224 SLVKCNLETGRTHQI 238
>gi|18310832|ref|NP_562766.1| hypothetical protein CPE1850 [Clostridium perfringens str. 13]
gi|110801362|ref|YP_696533.1| RluA family pseudouridine synthase [Clostridium perfringens ATCC
13124]
gi|168206096|ref|ZP_02632101.1| pseudouridine synthase, RluA family [Clostridium perfringens E str.
JGS1987]
gi|168210787|ref|ZP_02636412.1| pseudouridine synthase, RluA family [Clostridium perfringens B str.
ATCC 3626]
gi|422346519|ref|ZP_16427433.1| RluA family pseudouridine synthase [Clostridium perfringens
WAL-14572]
gi|422874769|ref|ZP_16921254.1| RluA family pseudouridine synthase [Clostridium perfringens F262]
gi|18145514|dbj|BAB81556.1| conserved hypothetical protein [Clostridium perfringens str. 13]
gi|110676009|gb|ABG84996.1| pseudouridine synthase, RluA family [Clostridium perfringens ATCC
13124]
gi|170662443|gb|EDT15126.1| pseudouridine synthase, RluA family [Clostridium perfringens E str.
JGS1987]
gi|170711120|gb|EDT23302.1| pseudouridine synthase, RluA family [Clostridium perfringens B str.
ATCC 3626]
gi|373226064|gb|EHP48391.1| RluA family pseudouridine synthase [Clostridium perfringens
WAL-14572]
gi|380304410|gb|EIA16699.1| RluA family pseudouridine synthase [Clostridium perfringens F262]
Length = 306
Score = 191 bits (486), Expect = 3e-46, Method: Compositional matrix adjust.
Identities = 109/255 (42%), Positives = 155/255 (60%), Gaps = 33/255 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
+R D +++ +IDG+SR +Q G + ING+ K + + GD V I E + L+
Sbjct: 17 IRADKFLALKIDGVSRNFIQGLFDDGKILINGKA-EKGKYKLSVGDCVEVEIPEPEELKV 75
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
EAEDIPL+IVYED++V+VVNKP MVVHPAPGN TGTLVN +LHHC
Sbjct: 76 EAEDIPLNIVYEDEDVIVVNKPKGMVVHPAPGNYTGTLVNALLHHC-------------- 121
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
DD S I+G IRPGIVHR+DK TSG+LVVAK++++H L+EQFK H+I+R
Sbjct: 122 ------DD---LSGINGV-IRPGIVHRIDKDTSGILVVAKNDNAHQKLAEQFKDHSIKRE 171
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y ++ G + G I+ P+ R +R++ A + + A + Y+V+++
Sbjct: 172 YYAIVEGRFKKEGGTIDAPLGRHHRDRLKYAVVK------DGKRAVTHYEVLKVF--NSC 223
Query: 311 ALVEWRLETGRTHQV 325
+LV+ LETGRTHQ+
Sbjct: 224 SLVKCTLETGRTHQI 238
>gi|414076345|ref|YP_006995663.1| pseudouridine synthase [Anabaena sp. 90]
gi|413969761|gb|AFW93850.1| pseudouridine synthase [Anabaena sp. 90]
Length = 311
Score = 191 bits (486), Expect = 3e-46, Method: Compositional matrix adjust.
Identities = 108/269 (40%), Positives = 155/269 (57%), Gaps = 37/269 (13%)
Query: 58 VQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDM 117
+Q+ E D RLD ++S + +SR+R+Q I G V IN + + N+K GD+
Sbjct: 7 IQVTENSD------RLDRYLSQELSDLSRSRIQQLIEQGHVQINNLICTSKKINLKTGDL 60
Query: 118 VNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC- 176
+ I +QPL AE+IPLDI+YEDD ++++NKPA +VVHPAPG+ GTLVN IL HC
Sbjct: 61 ITLEIPTVQPLAISAENIPLDILYEDDELIIINKPAGLVVHPAPGHPDGTLVNAILAHCP 120
Query: 177 SLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHA 236
+LP + G RPGIVHRLDK T+G + +AK + ++
Sbjct: 121 NLPGI-------------------------GGIQRPGIVHRLDKDTTGAIAIAKTDLAYQ 155
Query: 237 HLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAA 296
HL Q + T R Y+ L GVP +G I++PI R+P +R RMA + S + G R+A
Sbjct: 156 HLQAQLQAKTARREYLGLIYGVPKTETGSIDLPIGRNPQDRKRMAIV--SIEDG-GRNAV 212
Query: 297 SRYKVIEILAGGGSALVEWRLETGRTHQV 325
+ ++V E G L+ ++LETGRTHQ+
Sbjct: 213 THWRVKERF--GNYTLIHFQLETGRTHQI 239
>gi|182625703|ref|ZP_02953472.1| pseudouridine synthase, RluA family [Clostridium perfringens D str.
JGS1721]
gi|177909105|gb|EDT71580.1| pseudouridine synthase, RluA family [Clostridium perfringens D str.
JGS1721]
Length = 306
Score = 191 bits (486), Expect = 3e-46, Method: Compositional matrix adjust.
Identities = 109/255 (42%), Positives = 155/255 (60%), Gaps = 33/255 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
+R D +++ +IDG+SR +Q G + ING+ K + + GD V I E + L+
Sbjct: 17 IRADKFLALKIDGVSRNFIQGLFDDGKILINGKA-EKGKYKLSVGDCVEVEIPEPEELKV 75
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
EAEDIPL+IVYED++V+VVNKP MVVHPAPGN TGTLVN +LHHC
Sbjct: 76 EAEDIPLNIVYEDEDVIVVNKPKGMVVHPAPGNYTGTLVNALLHHC-------------- 121
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
DD S I+G IRPGIVHR+DK TSG+LVVAK++++H L+EQFK H+I+R
Sbjct: 122 ------DD---LSGINGV-IRPGIVHRIDKDTSGILVVAKNDNAHQKLAEQFKDHSIKRE 171
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y ++ G + G I+ P+ R +R++ A + + A + Y+V+++
Sbjct: 172 YYAIVEGRFKKEGGTIDAPLGRHHRDRLKYAVVK------DGKRAVTHYEVLKVF--NSC 223
Query: 311 ALVEWRLETGRTHQV 325
+LV+ LETGRTHQ+
Sbjct: 224 SLVKCTLETGRTHQI 238
>gi|409993260|ref|ZP_11276408.1| RluA family pseudouridine synthase [Arthrospira platensis str.
Paraca]
gi|291568935|dbj|BAI91207.1| probable pseudouridine synthase [Arthrospira platensis NIES-39]
gi|409935884|gb|EKN77400.1| RluA family pseudouridine synthase [Arthrospira platensis str.
Paraca]
Length = 308
Score = 191 bits (486), Expect = 3e-46, Method: Compositional matrix adjust.
Identities = 106/254 (41%), Positives = 148/254 (58%), Gaps = 29/254 (11%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD W+S R+ +SR+R+Q+ I SG V +N + V+ GD + I PL +
Sbjct: 16 RLDRWLSERVQQLSRSRLQALISSGHVWVNNSPCTSKKATVQIGDRIQVEIPPAIPLELK 75
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
A +IPLDI+YED+ +L++NKPA +VVHPAPG+A TLVN +L HC
Sbjct: 76 ATNIPLDILYEDEELLIINKPAGLVVHPAPGHANDTLVNALLAHC--------------- 120
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
E + I G RPGIVHRLDK T+G + +AK +H+H HL Q + T R Y
Sbjct: 121 --------ETLAGIGGVQ-RPGIVHRLDKDTTGAIAIAKTDHAHQHLQAQIQAKTARRQY 171
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+ + GVP +SG I+ PI R ++R +MA +P +H R A +R++V E L G
Sbjct: 172 LGIIYGVPKTTSGVIDQPIGRHHSDRKKMAIVP---EHQGGRSAITRWQVQERL--GNYT 226
Query: 312 LVEWRLETGRTHQV 325
L+E+ LETGRTHQ+
Sbjct: 227 LIEFELETGRTHQI 240
>gi|433772820|ref|YP_007303287.1| pseudouridine synthase, RluA family [Mesorhizobium australicum
WSM2073]
gi|433664835|gb|AGB43911.1| pseudouridine synthase, RluA family [Mesorhizobium australicum
WSM2073]
Length = 351
Score = 191 bits (486), Expect = 4e-46, Method: Compositional matrix adjust.
Identities = 108/264 (40%), Positives = 157/264 (59%), Gaps = 36/264 (13%)
Query: 72 RLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
RLD W+++ + +SR+RVQ IR G V I+G+ V++ ++ G+ V+ + E +P +
Sbjct: 34 RLDQWLAAALGPDMSRSRVQMLIRQGAVVIDGKPVAETKRKMRAGENVSVAMPEPEPAQP 93
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
+ E+I LD++YEDD ++V+NKPA +VVHP GN TGTLVN ++HHC
Sbjct: 94 QGENIALDVLYEDDELIVINKPAGLVVHPGAGNWTGTLVNALIHHCG------------- 140
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLH----T 246
+ S I G RPGIVHRLDK TSG++VVAK + +H LSE F H
Sbjct: 141 ---------DSLSGIGGVR-RPGIVHRLDKETSGVMVVAKTDRAHKALSEAFADHGLTGD 190
Query: 247 IERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILA 306
+ER Y++L G+P + +G I+ P+ R ++R+R A +P ARHA +R+ V E
Sbjct: 191 LERAYLALVWGIPQRPTGTIDAPLGR-ASDRVRRAVVPEGRD--DARHAVTRFAVQERFG 247
Query: 307 GG-----GSALVEWRLETGRTHQV 325
G ++LVE RLETGRTHQ+
Sbjct: 248 EGQREFAAASLVECRLETGRTHQI 271
>gi|15895383|ref|NP_348732.1| pseudouridylate synthase [Clostridium acetobutylicum ATCC 824]
gi|337737331|ref|YP_004636778.1| pseudouridylate synthase [Clostridium acetobutylicum DSM 1731]
gi|384458840|ref|YP_005671260.1| pseudouridylate synthase [Clostridium acetobutylicum EA 2018]
gi|15025103|gb|AAK80072.1|AE007712_8 Predicted pseudouridylate synthase, YLYB B.subtilis ortholog
[Clostridium acetobutylicum ATCC 824]
gi|325509529|gb|ADZ21165.1| pseudouridylate synthase [Clostridium acetobutylicum EA 2018]
gi|336291055|gb|AEI32189.1| pseudouridylate synthase [Clostridium acetobutylicum DSM 1731]
Length = 305
Score = 191 bits (485), Expect = 4e-46, Method: Compositional matrix adjust.
Identities = 104/254 (40%), Positives = 156/254 (61%), Gaps = 33/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D +++ + ISR+ +Q I V +NG+ V K ++ +K D V I + + L+ E
Sbjct: 16 RIDVYLAQEFENISRSHIQDLIGKKKVFVNGKAV-KSNYKLKSRDNVEFEIPDNEELKIE 74
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AE+IPLDIVYED +++VVNK MVVHPAPGN GTLVN +L+HC
Sbjct: 75 AENIPLDIVYEDRDIVVVNKAQGMVVHPAPGNYNGTLVNALLYHC--------------- 119
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+D+ S I+G +RPGIVHR+DK TSG+LVVAK++ +H +L+ Q K H++ RVY
Sbjct: 120 -KDL-------SGINGV-LRPGIVHRIDKDTSGILVVAKNDAAHKNLANQLKEHSMNRVY 170
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++ G+ + G ++ P++R P R+++A + G R+A + YKV+E S
Sbjct: 171 RAVVEGIIKEDEGTVDKPLARHPVERVKIAVVKG------GRNAVTHYKVLERYR--NST 222
Query: 312 LVEWRLETGRTHQV 325
L+E +LETGRTHQ+
Sbjct: 223 LIECKLETGRTHQI 236
>gi|393724529|ref|ZP_10344456.1| ribosomal large subunit pseudouridine synthase D [Sphingomonas sp.
PAMC 26605]
Length = 322
Score = 191 bits (484), Expect = 5e-46, Method: Compositional matrix adjust.
Identities = 113/273 (41%), Positives = 160/273 (58%), Gaps = 32/273 (11%)
Query: 54 NYAGVQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVS-INGQVVSKVSHNV 112
N V +E V KA LRLD ++ + +SR R+++ I G VS G +VS S
Sbjct: 8 NRGVVTIEARVSEKALGLRLDRALADALPEVSRERLKALIAGGAVSDPRGAIVSDPSSKA 67
Query: 113 KGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGI 172
G + + I E P A+DI L++V+EDD+++V++K A +VVHPA GNA GTLVN +
Sbjct: 68 MAGGLYSVAIPEATPSTNAAQDIALNVVFEDDHLIVIDKQAGLVVHPAAGNADGTLVNAL 127
Query: 173 LHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDE 232
LHHC+ N S I G + RPGIVHR+DK TSGL+V AK +
Sbjct: 128 LHHCA------GNL----------------SGIGGVA-RPGIVHRIDKDTSGLMVAAKTD 164
Query: 233 HSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQA 292
+H L+ QF H+I+R Y ++ SG P+ ++G ++ P++R P+NR +MA +PG +
Sbjct: 165 RAHEGLARQFHDHSIDRRYKAIVSGRPAPTAGSVDAPLARSPSNRKKMAIVPGGKR---- 220
Query: 293 RHAASRYKVIEILAGGGSALVEWRLETGRTHQV 325
A + Y +E + GG ALVE RLETGRTHQV
Sbjct: 221 --AVTHYTTLERVNGG--ALVECRLETGRTHQV 249
>gi|334340921|ref|YP_004545901.1| RluA family pseudouridine synthase [Desulfotomaculum ruminis DSM
2154]
gi|334092275|gb|AEG60615.1| pseudouridine synthase, RluA family [Desulfotomaculum ruminis DSM
2154]
Length = 309
Score = 191 bits (484), Expect = 5e-46, Method: Compositional matrix adjust.
Identities = 112/262 (42%), Positives = 152/262 (58%), Gaps = 32/262 (12%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
VD + K RLD +I+ + +SR+ VQ I G V++N SK ++ ++ GD V +
Sbjct: 8 VDGERAKCRLDIFITGQCAELSRSYVQKLIEEGRVTVNDNP-SKANYKLRAGDRVQLEVP 66
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
+ LR E E IPLDI YED +V+VVNK MVVHPA GN +GTLVN +L+HC
Sbjct: 67 PAEELRVEPEKIPLDIYYEDADVVVVNKVRGMVVHPAEGNHSGTLVNALLYHC------- 119
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
D+S I+G +RPGIVHRLDK TSGL++VAK++H+H L++Q K
Sbjct: 120 ---------RDLS-------GINGI-LRPGIVHRLDKDTSGLIMVAKNDHAHQCLTQQLK 162
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
T+ R Y +L GV + G I+ PI RDP R RMA + ++K A + Y+V+E
Sbjct: 163 DRTVTRRYTALAHGVIKEEKGTIDAPIGRDPRERQRMAVVEKNSK-----SAVTHYRVLE 217
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
L E RLETGRTHQ+
Sbjct: 218 RFQ--YYTLAECRLETGRTHQI 237
>gi|452964597|gb|EME69634.1| pseudouridylate synthase, 23S RNA-specific [Magnetospirillum sp.
SO-1]
Length = 323
Score = 191 bits (484), Expect = 6e-46, Method: Compositional matrix adjust.
Identities = 110/262 (41%), Positives = 148/262 (56%), Gaps = 28/262 (10%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
V+ + RLD W++ R+ +SR RV++ I G V ++G +S S VK G +
Sbjct: 10 VEPEEAGTRLDRWLAVRLPELSRTRVKALIEDGRVGLDGTTISDPSLRVKPGQCFVVEVP 69
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
P E +DI L +VYED++++V++KPA MVVHPAPGN TLVN +L HC
Sbjct: 70 PDAPAEPEPQDIALTVVYEDEDLIVIDKPAGMVVHPAPGNPDETLVNALLAHCG------ 123
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
E + I G RPGIVHR+DK TSGLLV AK + +H L+ QF
Sbjct: 124 ----------------ESLAGIGGVR-RPGIVHRIDKDTSGLLVAAKTDAAHRGLAAQFA 166
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
HT+ER Y +L G PS G IE I R+PN+R +MA + K A +RY+V++
Sbjct: 167 AHTLERAYWALVWGTPSPRQGEIEGNIGRNPNDRKKMAVVRSGGK-----PALTRYRVLK 221
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
AGG +LVE RL TGRTHQ+
Sbjct: 222 SFAGGAVSLVECRLATGRTHQI 243
>gi|334133945|ref|ZP_08507480.1| pseudouridine synthase, RluA family [Paenibacillus sp. HGF7]
gi|333608453|gb|EGL19750.1| pseudouridine synthase, RluA family [Paenibacillus sp. HGF7]
Length = 321
Score = 190 bits (483), Expect = 7e-46, Method: Compositional matrix adjust.
Identities = 107/272 (39%), Positives = 163/272 (59%), Gaps = 32/272 (11%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
V+ + R+D +S +DG+SR ++Q IR G ++G+ V K ++ + G +V+ I
Sbjct: 26 VEAEQNGERIDKLLSDALDGVSRTQIQQWIRDGHARVDGRNV-KPNYKLSEGQVVDLAIP 84
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
+ +PL AE+IPLD+VYED +V+V+NKP +VVHPAPG+ +GTLVN ++HHC
Sbjct: 85 DPEPLDIAAENIPLDVVYEDGDVIVINKPRGLVVHPAPGHYSGTLVNALMHHC------- 137
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
+D+ S I+G +RPGIVHR+DK TSGLL++AK++ +HA L+EQ K
Sbjct: 138 ---------KDL-------SGINGV-MRPGIVHRIDKDTSGLLMIAKNDQAHASLAEQLK 180
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
H++ R Y++L G G I+ PI RD +R ++ + N ++HA + + V+E
Sbjct: 181 EHSVTRKYVALVHGNLQHDHGTIDAPIGRDSYDR-KLYTVTDKN----SKHAVTHFAVLE 235
Query: 304 ILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
G LVE +LETGRTHQ+ + K P
Sbjct: 236 RF--DGYTLVELKLETGRTHQIRVHLKFIGHP 265
>gi|407975175|ref|ZP_11156081.1| ribosomal large subunit pseudouridine synthase D [Nitratireductor
indicus C115]
gi|407429260|gb|EKF41938.1| ribosomal large subunit pseudouridine synthase D [Nitratireductor
indicus C115]
Length = 349
Score = 190 bits (482), Expect = 9e-46, Method: Compositional matrix adjust.
Identities = 114/275 (41%), Positives = 153/275 (55%), Gaps = 35/275 (12%)
Query: 61 EETVDTKAGKLRLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
E VD A RLD W+S+ + + +SR+RVQ+ IR+G VS V++ H V G+
Sbjct: 20 EFRVDKDAAGERLDRWLSAMLGEAVSRSRVQTLIRAGAVSCGDAPVTEPKHKVASGETYG 79
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
+ E +P E IPLDI+YED +++VVNKPA +VVHPAPGN TGTLVN +LHHC
Sbjct: 80 LEMPEAEPAEPLPEPIPLDILYEDADLVVVNKPAGLVVHPAPGNWTGTLVNALLHHCG-- 137
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
+ S I G RPGIVHRLD+ TSG++VVAK + +H LS
Sbjct: 138 --------------------DTLSGIGGVR-RPGIVHRLDRDTSGVMVVAKTDRAHRALS 176
Query: 240 EQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHA 295
E F H +ER Y +L G P + +G I+ + R +R A +P ARHA
Sbjct: 177 EAFADHGRSGDLERAYEALVWGAPDRMAGSIDAALGRHAQSRTLRAVVPAGRS--DARHA 234
Query: 296 ASRYKVIEILAGGG-----SALVEWRLETGRTHQV 325
+ Y+V + G +AL+E RLETGRTHQ+
Sbjct: 235 VTHYQVKKRYGSDGRGGAFAALLECRLETGRTHQI 269
>gi|398831174|ref|ZP_10589353.1| pseudouridine synthase, RluA family [Phyllobacterium sp. YR531]
gi|398212742|gb|EJM99344.1| pseudouridine synthase, RluA family [Phyllobacterium sp. YR531]
Length = 350
Score = 190 bits (482), Expect = 1e-45, Method: Compositional matrix adjust.
Identities = 108/272 (39%), Positives = 159/272 (58%), Gaps = 35/272 (12%)
Query: 64 VDTKAGKLRLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
D A RLDAW+S+++ +SR R+QS I SG V+I+G+VVS+ H ++ G + +
Sbjct: 22 TDNDAAGKRLDAWLSAQLAPDLSRNRIQSLISSGQVTIDGKVVSETKHKLRDGMNIEIIV 81
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E + EDIPLDI+YED +++V+NKPA +VVHP GN TGTLVN ++HHC
Sbjct: 82 PEPEDATPTGEDIPLDILYEDTDLVVINKPAGLVVHPGNGNWTGTLVNALIHHCG----- 136
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
+ S I G RPGIVHRLDK TSG++VVAK++ +H HLS QF
Sbjct: 137 -----------------DTLSGIGGVK-RPGIVHRLDKETSGVIVVAKNDLAHRHLSAQF 178
Query: 243 KLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
H +ER Y+++ G P +++G I+ + R +R + A + + ARHA +
Sbjct: 179 ADHGRTGDLERAYLAIVWGTPDRTTGTIDAHLGRSHRDRTKQAIV--HEEREDARHAVTH 236
Query: 299 YKVIEILAG-----GGSALVEWRLETGRTHQV 325
++V+E ++L+E +LETGRTHQ+
Sbjct: 237 FEVLERFGAREDSTALASLIECQLETGRTHQI 268
>gi|428211292|ref|YP_007084436.1| ribosomal large subunit pseudouridine synthase D [Oscillatoria
acuminata PCC 6304]
gi|427999673|gb|AFY80516.1| ribosomal large subunit pseudouridine synthase D [Oscillatoria
acuminata PCC 6304]
Length = 311
Score = 190 bits (482), Expect = 1e-45, Method: Compositional matrix adjust.
Identities = 105/254 (41%), Positives = 147/254 (57%), Gaps = 29/254 (11%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +++S + +SR+R+Q I V +NGQV + V+ GD + I +PL
Sbjct: 17 RLDRYLASHLQDLSRSRIQQLISQNCVKVNGQVCTSKKMMVETGDRLCIEIPPAEPLEIG 76
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
A +IPLDI+YEDD ++++NKPA +VVHPAPG++ TLVN +L HC
Sbjct: 77 ATEIPLDILYEDDCLIIINKPAGLVVHPAPGHSDDTLVNALLAHC--------------- 121
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
E S I G RPGIVHRLDK TSG +VVAK +H+H HL Q + T R Y
Sbjct: 122 --------ENLSGIGGVQ-RPGIVHRLDKDTSGAIVVAKTDHAHQHLQGQIQAKTARRDY 172
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+ + GVP SG I+ PI+R P++R +MA +P R A + +++ E L G
Sbjct: 173 LGIIYGVPKTESGTIDAPIARHPHDRKKMAVVPVEKG---GRLAVTHWQIKERL--GNYT 227
Query: 312 LVEWRLETGRTHQV 325
L+ ++LETGRTHQ+
Sbjct: 228 LIHFQLETGRTHQI 241
>gi|83589720|ref|YP_429729.1| ribosomal large subunit pseudouridine synthase D [Moorella
thermoacetica ATCC 39073]
gi|83572634|gb|ABC19186.1| ribosomal large subunit pseudouridine synthase D [Moorella
thermoacetica ATCC 39073]
Length = 306
Score = 190 bits (482), Expect = 1e-45, Method: Compositional matrix adjust.
Identities = 107/266 (40%), Positives = 159/266 (59%), Gaps = 31/266 (11%)
Query: 60 LEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
+E V +A R+DAW++ + +SR+R+Q + +G +++ K ++ ++GG+ V
Sbjct: 1 MEVVVPPEARGRRIDAWLAGELPEVSRSRIQQLLEAGEITLALPGRLKANYRLRGGERVR 60
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
+ E L A E IPLDI+YED++++VVNKP MVVHPAPG+ GTLVN +L+HC
Sbjct: 61 VRLPEPTLLAARPEAIPLDILYEDEDIIVVNKPQGMVVHPAPGSEGGTLVNALLYHCG-- 118
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
D+ S I+G +RPGIVHRLDK TSG+LV AK++ +H L+
Sbjct: 119 --------------DL-------SGINGV-LRPGIVHRLDKDTSGILVAAKNDAAHRGLA 156
Query: 240 EQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRY 299
Q K H+++R+Y++L G ++ GR+E PI R P +R RMA +R A + Y
Sbjct: 157 AQIKDHSMKRIYLALVHGEVAEPRGRVEAPIGRHPVDRQRMAV-----TLKNSRPAVTHY 211
Query: 300 KVIEILAGGGSALVEWRLETGRTHQV 325
+V+E G L+E RLETGRTHQ+
Sbjct: 212 RVVEHFP--GYTLLEARLETGRTHQI 235
>gi|404371419|ref|ZP_10976724.1| RluA family pseudouridine synthase [Clostridium sp. 7_2_43FAA]
gi|226912453|gb|EEH97654.1| RluA family pseudouridine synthase [Clostridium sp. 7_2_43FAA]
Length = 305
Score = 189 bits (481), Expect = 1e-45, Method: Compositional matrix adjust.
Identities = 106/255 (41%), Positives = 161/255 (63%), Gaps = 32/255 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
+R+D ++S+ I+G SR+ +Q I SG + +N + V K ++ ++ D + ++ E L
Sbjct: 16 IRIDKYLSNIIEGKSRSFIQGLIDSGAILVNNKEV-KSNYKLRNHDEIIVSMPEPIELDV 74
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
E EDI L+IVYED++V+V+NKP +VVHPAPGN +GTLVNG+L+HC
Sbjct: 75 EPEDIDLNIVYEDEDVIVLNKPQGVVVHPAPGNYSGTLVNGLLYHC-------------- 120
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
+D+S I+G IRPGIVHR+DK TSG+LV+AK++ +H HL++QFK H+I+R
Sbjct: 121 --KDLS-------GINGV-IRPGIVHRIDKDTSGILVIAKNDDAHNHLAKQFKNHSIKRE 170
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y +L G S+ G ++ PI R+ +R++MA + + A + Y V+E G+
Sbjct: 171 YYALVEGKFSKIEGTVDKPIGRNKKDRLKMAIME------DGKRAVTHYNVLE-QYNNGT 223
Query: 311 ALVEWRLETGRTHQV 325
ALV+ LETGRTHQ+
Sbjct: 224 ALVKCTLETGRTHQI 238
>gi|220909998|ref|YP_002485309.1| RluA family pseudouridine synthase [Cyanothece sp. PCC 7425]
gi|219866609|gb|ACL46948.1| pseudouridine synthase, RluA family [Cyanothece sp. PCC 7425]
Length = 313
Score = 189 bits (481), Expect = 1e-45, Method: Compositional matrix adjust.
Identities = 111/263 (42%), Positives = 154/263 (58%), Gaps = 36/263 (13%)
Query: 66 TKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISEL 125
T AG RLD ++++++ +SR+R+Q I G V +NGQ+ V+ GD + +
Sbjct: 5 TTAGNERLDRYLAAQLPDLSRSRIQQLIEQGQVYVNGQLCQAKKQIVQVGDRIQLELPP- 63
Query: 126 QPLRAEA--EDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC-SLPTLA 182
P+ AE E IPLDI+YEDD +L+VNKPA +VVHPAPG++ GTLVN +L HC LP +
Sbjct: 64 -PVAAEPLPEHIPLDILYEDDQLLIVNKPAGLVVHPAPGHSGGTLVNALLAHCGDLPGI- 121
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
G RPGIVHRLDK TSG + +AK E +H HL Q
Sbjct: 122 ------------------------GGVQRPGIVHRLDKDTSGAIAIAKTELAHRHLQAQI 157
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
K T R Y+ + GVP SSGRI++PI R P +R +MA + S+K R A + +++
Sbjct: 158 KAKTARREYLGVVYGVPKTSSGRIDLPIGRHPVDRKKMAVV-ASDK---GRSAVTHWQIQ 213
Query: 303 EILAGGGSALVEWRLETGRTHQV 325
E L G L++++LETGRTHQ+
Sbjct: 214 ERL--GNFTLLQFQLETGRTHQI 234
>gi|402833548|ref|ZP_10882161.1| pseudouridine synthase, RluA family [Selenomonas sp. CM52]
gi|402280041|gb|EJU28811.1| pseudouridine synthase, RluA family [Selenomonas sp. CM52]
Length = 301
Score = 189 bits (481), Expect = 1e-45, Method: Compositional matrix adjust.
Identities = 109/262 (41%), Positives = 151/262 (57%), Gaps = 33/262 (12%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
VD A RLD +++ R +SR+ +Q I SG V +NG+ +K + ++ GD V +
Sbjct: 7 VDEGAAGERLDRFLAGRELEVSRSHIQKLIESGCVLVNGRT-AKANAKLREGDAVETELP 65
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
E Q L EDIPLDI+YED +V+V+NK MVVHPA G A GTLVN +LHHC
Sbjct: 66 EAQELEILPEDIPLDILYEDSDVIVINKARGMVVHPAAGAADGTLVNALLHHC------- 118
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
ED+S I+G IRPGIVHRLDK TSG++V AK++ +H L+EQ +
Sbjct: 119 ---------EDLS-------GINGV-IRPGIVHRLDKDTSGVMVAAKNDRAHVDLAEQIR 161
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
T +R+Y ++ G ++ G I PI R P R +MA +PG + A + ++V+E
Sbjct: 162 EKTAQRIYRAIVCGTIAEDRGEIRAPIGRHPTERKKMAVVPG------GKEATTLFRVVE 215
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
LVE RL+TGRTHQ+
Sbjct: 216 RFP--AHTLVECRLKTGRTHQI 235
>gi|163814069|ref|ZP_02205461.1| hypothetical protein COPEUT_00222 [Coprococcus eutactus ATCC 27759]
gi|158450518|gb|EDP27513.1| pseudouridine synthase, RluA family [Coprococcus eutactus ATCC
27759]
Length = 304
Score = 189 bits (480), Expect = 1e-45, Method: Compositional matrix adjust.
Identities = 105/256 (41%), Positives = 153/256 (59%), Gaps = 34/256 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +S DG SR+ ++ GL+ +N + V K S+ V+ GDM++ ++ + +
Sbjct: 16 RLDKVLSEYFDGYSRSFIKKLFDDGLILVNSKAV-KPSYKVRAGDMIDISVPDPVSIDIV 74
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
EDIPLDI+YEDD+V++VNKP MVVHPAPG+ +GTLVNG+++H
Sbjct: 75 PEDIPLDIIYEDDDVILVNKPKGMVVHPAPGHYSGTLVNGLMYH---------------- 118
Query: 192 AEDISDDEEFSSSISG--ASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIER 249
F SS+SG RPGIVHR+D T+G+LVV K++++H LSEQ H+I R
Sbjct: 119 ---------FGSSLSGINGEFRPGIVHRIDMDTTGVLVVCKNDNAHRALSEQLHEHSITR 169
Query: 250 VYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGG 309
Y ++ G S G ++ PI R P +R +MA +N++G R A + Y+V+E GG
Sbjct: 170 KYYAIVYGNISSDEGTVDAPIGRSPKDRKKMAI---NNRNG--RRAVTHYRVLERF-GGR 223
Query: 310 SALVEWRLETGRTHQV 325
+E +LETGRTHQ+
Sbjct: 224 YTYIECQLETGRTHQI 239
>gi|332981610|ref|YP_004463051.1| ribosomal large subunit pseudouridine synthase D [Mahella
australiensis 50-1 BON]
gi|332699288|gb|AEE96229.1| ribosomal large subunit pseudouridine synthase D [Mahella
australiensis 50-1 BON]
Length = 304
Score = 189 bits (480), Expect = 1e-45, Method: Compositional matrix adjust.
Identities = 103/254 (40%), Positives = 157/254 (61%), Gaps = 33/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +++ + +R+ +Q+ I++G +++NGQ + K + +K GD++ + EL+P+ +
Sbjct: 16 RLDTFLAESFEQWTRSHIQNLIKNGNITVNGQHI-KSGYKLKDGDIIKVEVPELRPIDIQ 74
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
EDIPL+I+YED++++V+NKP MVVHPA GN + TLVN +L HC
Sbjct: 75 PEDIPLNILYEDEDIIVINKPQGMVVHPAAGNYSATLVNALLAHC--------------- 119
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+D+ S I+G IRPGIVHR+DK TSG+LVVAK++ +H L++Q K T R Y
Sbjct: 120 -KDL-------SGING-EIRPGIVHRIDKDTSGVLVVAKNDMAHVALAQQIKEKTAIRKY 170
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++L G + +G I PI+R P +R +MA + G R A + +KV+E G
Sbjct: 171 VALLEGDIKEDTGVINAPIARHPTDRKKMAVVSG------GRSAVTHFKVLERF--GRYT 222
Query: 312 LVEWRLETGRTHQV 325
L+E RLETGRTHQ+
Sbjct: 223 LIEARLETGRTHQI 236
>gi|168182405|ref|ZP_02617069.1| pseudouridine synthase, RluA family [Clostridium botulinum Bf]
gi|237794814|ref|YP_002862366.1| RluA family pseudouridine synthase [Clostridium botulinum Ba4 str.
657]
gi|182674415|gb|EDT86376.1| pseudouridine synthase, RluA family [Clostridium botulinum Bf]
gi|229261378|gb|ACQ52411.1| pseudouridine synthase, RluA family [Clostridium botulinum Ba4 str.
657]
Length = 305
Score = 189 bits (480), Expect = 1e-45, Method: Compositional matrix adjust.
Identities = 115/262 (43%), Positives = 154/262 (58%), Gaps = 33/262 (12%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
V+ + +RLD ++S + SR+ +Q I G V +N + + +K GD + I
Sbjct: 8 VEKEFDNVRLDLYLSKIFEDKSRSYLQGIIDEGNVLVNNKKKKRNY-KLKVGDNIEVNIP 66
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
E + L E EDI LDI+YED +V+VVNKP MVVHPAPG +GTLVN +L+HC
Sbjct: 67 EPKLLEIEPEDIKLDIIYEDKDVIVVNKPQEMVVHPAPGVYSGTLVNALLNHC------- 119
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
+D+S I+G + RPGIVHR+DK TSG+LVVAK++ SH +L+ QFK
Sbjct: 120 ---------KDLS-------GINGVA-RPGIVHRIDKDTSGILVVAKNDISHNNLAAQFK 162
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
H+I RVY++L G+ G IE PI R P +RI+MA + RHA + YKVIE
Sbjct: 163 EHSISRVYMALVEGIIKDEQGTIEAPIGRHPVDRIKMAVV------KDGRHAVTHYKVIE 216
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
LVE RLETGRTHQ+
Sbjct: 217 RFK--NHTLVECRLETGRTHQI 236
>gi|110803816|ref|YP_699133.1| pseudouridine synthase [Clostridium perfringens SM101]
gi|110684317|gb|ABG87687.1| pseudouridine synthase, RluA family [Clostridium perfringens SM101]
Length = 306
Score = 189 bits (480), Expect = 1e-45, Method: Compositional matrix adjust.
Identities = 107/255 (41%), Positives = 155/255 (60%), Gaps = 33/255 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
+R D +++ +IDG+SR +Q G + ING+ K + + GD V I E + L+
Sbjct: 17 IRADKFLALKIDGVSRNFIQGLFDDGKILINGKA-EKGKYKLSVGDCVEVEIPEPEELKV 75
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
EAEDIPL+I+YED++V+VVNKP MVVHPAPGN TGTLVN +L+HC
Sbjct: 76 EAEDIPLNIIYEDEDVIVVNKPKGMVVHPAPGNYTGTLVNALLYHC-------------- 121
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
DD S I+G IRPGIVHR+DK TSG+LVVAK++++H L+EQFK H+I+R
Sbjct: 122 ------DD---LSGINGV-IRPGIVHRIDKDTSGILVVAKNDNAHQKLAEQFKDHSIKRE 171
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y ++ G + G I+ P+ R +R++ A + + A + Y+V+++
Sbjct: 172 YYAIVEGRFKKEGGTIDAPLGRHHRDRLKYAVVK------DGKRAVTHYEVLKVF--NSC 223
Query: 311 ALVEWRLETGRTHQV 325
+LV+ LETGRTHQ+
Sbjct: 224 SLVKCTLETGRTHQI 238
>gi|254415358|ref|ZP_05029119.1| pseudouridine synthase, RluA family [Coleofasciculus chthonoplastes
PCC 7420]
gi|196177833|gb|EDX72836.1| pseudouridine synthase, RluA family [Coleofasciculus chthonoplastes
PCC 7420]
Length = 330
Score = 189 bits (480), Expect = 2e-45, Method: Compositional matrix adjust.
Identities = 101/254 (39%), Positives = 147/254 (57%), Gaps = 29/254 (11%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +++ ++ +SR+R+Q I G V +N + + ++ GD ++ TI + +PL +
Sbjct: 14 RLDRYLAQQLPDLSRSRIQKLIEEGNVQLNHNLCTSKKATIQPGDSIHLTIPDAKPLDLK 73
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E IPLDI+YEDD +L+VNKPA++VVHPAPG+ GTLVN +L HC P LA
Sbjct: 74 PEAIPLDILYEDDQILIVNKPANLVVHPAPGHENGTLVNALLAHC--PNLAG-------- 123
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
G RPGIVHRLDK T+G + +AK +H+H HL Q K T R Y
Sbjct: 124 --------------IGGVQRPGIVHRLDKDTTGAIAIAKTDHAHHHLQAQLKAKTARRDY 169
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+ + G P+ +G I PI R P++R +MA +P R A + +++ E L G
Sbjct: 170 LGVVYGSPATETGTINFPIGRHPSDRKKMAVVPLEKG---GRSAITHWQIKERL--GNYT 224
Query: 312 LVEWRLETGRTHQV 325
L+ ++LETGRTHQ+
Sbjct: 225 LIHFQLETGRTHQI 238
>gi|407778588|ref|ZP_11125851.1| ribosomal large subunit pseudouridine synthase D [Nitratireductor
pacificus pht-3B]
gi|407299665|gb|EKF18794.1| ribosomal large subunit pseudouridine synthase D [Nitratireductor
pacificus pht-3B]
Length = 338
Score = 189 bits (480), Expect = 2e-45, Method: Compositional matrix adjust.
Identities = 111/275 (40%), Positives = 155/275 (56%), Gaps = 35/275 (12%)
Query: 61 EETVDTKAGKLRLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
E V T A RLD W+S ++ D +SR+R+Q+ IR+G V+ G V++ H V G+
Sbjct: 9 ELIVGTDAQGTRLDLWLSGQLGDAVSRSRLQALIRAGAVTRAGSPVTEPKHRVAAGEQYA 68
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
+ E +P E++PL+I+ EDD ++VVNKPA +VVHPAPGN +GTLVN +L+HC
Sbjct: 69 LVVPEAEPAEPLPENLPLEILCEDDALIVVNKPAGLVVHPAPGNWSGTLVNALLYHCG-D 127
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
TLA G RPGIVHRLD+ TSG++V AK + +H LS
Sbjct: 128 TLAG----------------------IGGVRRPGIVHRLDRDTSGVMVAAKTDQAHRALS 165
Query: 240 EQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHA 295
E F H +ER Y +L P + +G ++ P+ RDP +R A +P ARHA
Sbjct: 166 EAFADHGRSGDLERAYSALVWDAPDRWAGTVDAPLGRDPRSRTLRAVVP--EGRADARHA 223
Query: 296 ASRYKVIEILAGGG-----SALVEWRLETGRTHQV 325
+ Y+V + G +AL+E RLETGRTHQ+
Sbjct: 224 VTHYQVQKRYGSDGKGGALAALIECRLETGRTHQI 258
>gi|451948094|ref|YP_007468689.1| ribosomal large subunit pseudouridine synthase D [Desulfocapsa
sulfexigens DSM 10523]
gi|451907442|gb|AGF79036.1| ribosomal large subunit pseudouridine synthase D [Desulfocapsa
sulfexigens DSM 10523]
Length = 329
Score = 189 bits (479), Expect = 2e-45, Method: Compositional matrix adjust.
Identities = 111/279 (39%), Positives = 165/279 (59%), Gaps = 32/279 (11%)
Query: 47 NNREPIANYAGVQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVS 106
+N P + + L+ V + R D ++ I SR + +IR GL+ ++G+
Sbjct: 7 DNSRPAGSAGAIDLQ--VSAEFAGYRFDHFLVQLIPEASRNNLNQAIRLGLLLVDGKN-K 63
Query: 107 KVSHNVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATG 166
K S+ +K G+ ++ ++ E +PL ++IP D++YEDD++L+V+KP +VVHPA GN G
Sbjct: 64 KSSYKLKVGEQISGSLFEAEPLTLAPQNIPFDLLYEDDSLLIVSKPPGIVVHPAVGNPDG 123
Query: 167 TLVNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLL 226
TLVNG+L+HC ++I+D G +IRPGIVHRLDK TSG++
Sbjct: 124 TLVNGLLYHC----------------QEIAD--------VGDTIRPGIVHRLDKDTSGIM 159
Query: 227 VVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGS 286
VVAK H L E FK T+E+ Y++L GV SQ SGRI PI+R P R +MA
Sbjct: 160 VVAKTAQCHRLLGEAFKERTVEKKYLALVFGVLSQRSGRIVAPIARHPLQRQKMAVC--- 216
Query: 287 NKHGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQV 325
+ G+ R+AAS ++V+E + G S LV+ +ETGRTHQ+
Sbjct: 217 -EEGRGRYAASSWRVLEEYSEGCS-LVQVLIETGRTHQI 253
>gi|293401501|ref|ZP_06645644.1| ribosomal large subunit pseudouridine synthase D
[Erysipelotrichaceae bacterium 5_2_54FAA]
gi|373452301|ref|ZP_09544216.1| RluA family pseudouridine synthase [Eubacterium sp. 3_1_31]
gi|291305139|gb|EFE46385.1| ribosomal large subunit pseudouridine synthase D
[Erysipelotrichaceae bacterium 5_2_54FAA]
gi|371966794|gb|EHO84276.1| RluA family pseudouridine synthase [Eubacterium sp. 3_1_31]
Length = 305
Score = 189 bits (479), Expect = 2e-45, Method: Compositional matrix adjust.
Identities = 107/254 (42%), Positives = 153/254 (60%), Gaps = 32/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D +IS + D +SR+RVQ ++ G+V +NG K ++ +K D + + + A+
Sbjct: 16 RIDKYISEKEDDLSRSRVQQLLQEGIVCVNGNA-CKANYKIKPKDHITAVFCDEIEMEAK 74
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E + LDI YED +V+V+NKP MVVHPA GN TGTLVNG+L+HC
Sbjct: 75 PEQMDLDIRYEDHDVIVINKPKGMVVHPAVGNQTGTLVNGLLYHC--------------- 119
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+D+ S I+G +RPGIVHR+DK T+GLL+VAK++ +H LS+Q + T+ R+Y
Sbjct: 120 -KDL-------SGINGV-LRPGIVHRIDKDTTGLLIVAKNDKAHTALSKQLQNKTVNRLY 170
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+L GV G I+ PI RD +R +M A+ +N A+ A + +KVIE A
Sbjct: 171 YALVHGVIEHDFGTIDAPIGRDVKDRQKM-AVTATN----AKDARTHFKVIERFA--HYT 223
Query: 312 LVEWRLETGRTHQV 325
LVE RLETGRTHQ+
Sbjct: 224 LVECRLETGRTHQI 237
>gi|443315971|ref|ZP_21045436.1| pseudouridine synthase, RluA family [Leptolyngbya sp. PCC 6406]
gi|442784409|gb|ELR94284.1| pseudouridine synthase, RluA family [Leptolyngbya sp. PCC 6406]
Length = 306
Score = 189 bits (479), Expect = 2e-45, Method: Compositional matrix adjust.
Identities = 105/254 (41%), Positives = 148/254 (58%), Gaps = 28/254 (11%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD W+S+ + +SR R+Q I V++NGQ+ + V+ GD++ T+ E QPL
Sbjct: 11 RLDRWLSAHLPDLSRNRLQKLIDGEYVTLNGQLCTDKKRLVQAGDIICLTLPEAQPLELT 70
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E IPLDI+YEDD++++VNKPA +VVHPAPGN +GTLVN +L HC
Sbjct: 71 PESIPLDILYEDDHLIIVNKPAGLVVHPAPGNRSGTLVNALLAHCG-------------- 116
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
E I G RPGIVHRLDK T+G +VVAK + +H L Q K T R Y
Sbjct: 117 --------EGLLGIGGVQ-RPGIVHRLDKDTTGAIVVAKTDLAHQDLQAQMKAKTARREY 167
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+ + G P + G ++ P+ RDP++R R A + K G R+A + ++V E + G
Sbjct: 168 LGVVYGAPREQGGTVDAPLGRDPSDRKRQAIV-TVEKGG--RNAVTHWQVQERI--GNFT 222
Query: 312 LVEWRLETGRTHQV 325
++ +RLETGRTHQ+
Sbjct: 223 VMAFRLETGRTHQI 236
>gi|434395257|ref|YP_007130204.1| ribosomal large subunit pseudouridine synthase D [Gloeocapsa sp.
PCC 7428]
gi|428267098|gb|AFZ33044.1| ribosomal large subunit pseudouridine synthase D [Gloeocapsa sp.
PCC 7428]
Length = 309
Score = 189 bits (479), Expect = 2e-45, Method: Compositional matrix adjust.
Identities = 104/263 (39%), Positives = 151/263 (57%), Gaps = 31/263 (11%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
+ +A RLD +++ + +SR+R+Q I G V +N +V + +K GD + I
Sbjct: 5 IQVQAQSDRLDRYLAQELSDLSRSRIQHLIEQGQVQLNDRVCTSKKITIKPGDRITVEIP 64
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC-SLPTLA 182
+ QPL + EDIPLDI+YEDD++L++NKPA +VVHPAPG+A GTLVN +L HC +LP +
Sbjct: 65 DAQPLDLQPEDIPLDILYEDDSLLIINKPAGLVVHPAPGHAGGTLVNALLAHCPNLPGI- 123
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
G RPGIVHRLDK T+G + +AK + + HL Q
Sbjct: 124 ------------------------GGVQRPGIVHRLDKDTTGAIAIAKTDFAQQHLQAQL 159
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
K T R Y+ + GVP SG ++ PI R P +R +MA + S + G R A + ++ +
Sbjct: 160 KAKTARREYLGVVYGVPKSESGTVDFPIGRHPVDRKKMAVV--SVEKG-GRSAVTHWQTL 216
Query: 303 EILAGGGSALVEWRLETGRTHQV 325
E L G L+ ++LETGRTHQ+
Sbjct: 217 ERL--GNYTLMHFQLETGRTHQI 237
>gi|428226934|ref|YP_007111031.1| ribosomal large subunit pseudouridine synthase D [Geitlerinema sp.
PCC 7407]
gi|427986835|gb|AFY67979.1| ribosomal large subunit pseudouridine synthase D [Geitlerinema sp.
PCC 7407]
Length = 323
Score = 189 bits (479), Expect = 2e-45, Method: Compositional matrix adjust.
Identities = 103/262 (39%), Positives = 151/262 (57%), Gaps = 29/262 (11%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
VD + RLD+W++ ++ +SR+R+Q I G VS+NG V S ++ GD + I
Sbjct: 21 VDGVSSTPRLDSWLAEQVPDLSRSRIQKLIAQGQVSVNGAVCSSKKAVLQAGDRIEIVIP 80
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
+PL + E IPLDI+YEDD++L++NKPA MVVHPAPG++ GTLV+ +L HC
Sbjct: 81 APEPLDLQPEAIPLDILYEDDSLLILNKPAGMVVHPAPGHSEGTLVHALLAHCD------ 134
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
S + G RPGIVHRLDK T+G LV+AK + ++ HL Q +
Sbjct: 135 ------------------SLAGIGGVQRPGIVHRLDKETTGALVIAKTDLAYQHLQAQIQ 176
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
T R Y+++ G P + SG ++ PI R P +R +MA +P R A + +++ E
Sbjct: 177 AKTARREYLAVVYGAPREESGTVDQPIGRHPVDRKKMAILPIEQG---GRRAVTHWRIRE 233
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
L G L+++ LETGRTHQ+
Sbjct: 234 RL--GNYTLIDFELETGRTHQI 253
>gi|375006258|ref|YP_004975042.1| pseudouridine synthase [Azospirillum lipoferum 4B]
gi|357427516|emb|CBS90459.1| pseudouridine synthase [Azospirillum lipoferum 4B]
Length = 353
Score = 189 bits (479), Expect = 2e-45, Method: Compositional matrix adjust.
Identities = 110/266 (41%), Positives = 155/266 (58%), Gaps = 29/266 (10%)
Query: 60 LEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
L TV +A RLD +++ + +SR+RVQ+ + G V +G+ ++ S VK G
Sbjct: 32 LAYTVPDEAAGQRLDKALAAGLPDLSRSRVQALLEQGCVRGDGRTITDPSLRVKPGQTFE 91
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
+ + A+DIP+D+V+ED +VLV++KPA +VVHPA GN GTLVN +L HC
Sbjct: 92 VEVPGAEAAEPVAQDIPIDVVFEDADVLVIDKPAGLVVHPAAGNPDGTLVNALLAHCG-- 149
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
+ S I G RPGIVHRLDK TSGL+VVAK++ +H LS
Sbjct: 150 --------------------DSLSGIGGVK-RPGIVHRLDKDTSGLMVVAKNDRAHHGLS 188
Query: 240 EQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRY 299
EQF T+ R Y++L GVP+ + GRIE I R +R +MA + G K HAA++Y
Sbjct: 189 EQFSDRTLSRTYLALVWGVPNPTQGRIEGNIGRSSADRKKMAVVTGGGK-----HAATKY 243
Query: 300 KVIEILAGGGSALVEWRLETGRTHQV 325
+V++ G ++LVE LETGRTHQ+
Sbjct: 244 RVVKSF-GMAASLVECVLETGRTHQI 268
>gi|423084352|ref|ZP_17072857.1| pseudouridine synthase, RluA family [Clostridium difficile
002-P50-2011]
gi|423088048|ref|ZP_17076433.1| pseudouridine synthase, RluA family [Clostridium difficile
050-P50-2011]
gi|357542657|gb|EHJ24699.1| pseudouridine synthase, RluA family [Clostridium difficile
002-P50-2011]
gi|357543576|gb|EHJ25593.1| pseudouridine synthase, RluA family [Clostridium difficile
050-P50-2011]
Length = 315
Score = 189 bits (479), Expect = 2e-45, Method: Compositional matrix adjust.
Identities = 103/254 (40%), Positives = 151/254 (59%), Gaps = 32/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +++ ++ +SR+ +Q I+ G V +N +V K + VK D + I E + L
Sbjct: 29 RLDIYLAEQLGDMSRSYIQKIIKDGKVKVNNKV-EKAKYLVKEEDNIVIEIPEPKVLEVL 87
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
+DIP+DIVYEDD+VL++NKP MVVHPAPGN TLVNGIL+HC
Sbjct: 88 PQDIPIDIVYEDDDVLIINKPQDMVVHPAPGNYENTLVNGILYHC--------------- 132
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
++ SSI+G IRPGIVHR+DK TSGLL++AK+ ++H L+EQ K HTI R Y
Sbjct: 133 -------KDKLSSINGV-IRPGIVHRIDKDTSGLLMIAKNNYAHNFLAEQLKEHTITREY 184
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+ GV + ++ PI R+P +R++MA + + ++A + ++V+E
Sbjct: 185 EFICYGVVKEDKVTVDKPIGRNPKDRLKMAVV------KEGKNAITHFEVVERF--DKFT 236
Query: 312 LVEWRLETGRTHQV 325
+ RLETGRTHQ+
Sbjct: 237 HMRARLETGRTHQI 250
>gi|169350183|ref|ZP_02867121.1| hypothetical protein CLOSPI_00927 [Clostridium spiroforme DSM 1552]
gi|169292966|gb|EDS75099.1| pseudouridine synthase, RluA family [Clostridium spiroforme DSM
1552]
Length = 306
Score = 188 bits (478), Expect = 3e-45, Method: Compositional matrix adjust.
Identities = 106/255 (41%), Positives = 151/255 (59%), Gaps = 34/255 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD I+ ++ +SR ++Q I GLV +NG+V K S+ K D + TI + L E
Sbjct: 15 RLDKIIALNMEELSRTQIQEMIGRGLVLVNGKV-EKASYKTKLNDQIEITIEDNSDLEIE 73
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AEDIPL++VYED +V+V++KP M+VHP+PG +GTLVN +L HC
Sbjct: 74 AEDIPLNVVYEDKDVIVIDKPTGMIVHPSPGITSGTLVNALLFHC--------------- 118
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+D+ S I+G + RPGIVHR+DK TSGLL+VAK++ +H LSEQ K H++ R Y
Sbjct: 119 -KDL-------SGINGVN-RPGIVHRIDKETSGLLMVAKNDIAHRFLSEQLKDHSVTRRY 169
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAA-SRYKVIEILAGGGS 310
++L G+ G+I+ PI R+PN+R M ++K+ RYK
Sbjct: 170 VALVHGLIPHVQGKIDAPIGRNPNDRQSMCVTKNNSKNAITNFTVLKRYK--------NM 221
Query: 311 ALVEWRLETGRTHQV 325
+L+E RLETGRTHQ+
Sbjct: 222 SLIECRLETGRTHQI 236
>gi|408411254|ref|ZP_11182423.1| Pseudouridine synthase [Lactobacillus sp. 66c]
gi|407874547|emb|CCK84229.1| Pseudouridine synthase [Lactobacillus sp. 66c]
Length = 302
Score = 188 bits (477), Expect = 3e-45, Method: Compositional matrix adjust.
Identities = 108/264 (40%), Positives = 161/264 (60%), Gaps = 35/264 (13%)
Query: 62 ETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCT 121
E + +AG LRLD +++ RID +SR+R++ ++G V +NG+ +KVS+ V+ GD +
Sbjct: 6 ELIVDQAG-LRLDKYLAERID-LSRSRIKDLAQAGQVLVNGKK-AKVSYKVEAGDQIEVN 62
Query: 122 ISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTL 181
I L+PL E E+IPLDIVYEDD+V+VVNKP MVVHPA G+ TLVN +L+H
Sbjct: 63 ILPLEPLDLEPENIPLDIVYEDDDVIVVNKPQGMVVHPAAGHPNHTLVNALLYHT----- 117
Query: 182 ASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQ 241
D++D E RPGIVHR+DK TSGLL+VAK+ + L Q
Sbjct: 118 -----------RDLADSPE--------GFRPGIVHRIDKDTSGLLMVAKNAKARESLEAQ 158
Query: 242 FKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKV 301
+ +R+Y+S+ G ++ SG ++ PI+R+P +R +MA + ++A + +KV
Sbjct: 159 LAQKSNKRIYLSIVHGNFAEKSGTVDAPIARNPRDRKQMAVVEN------GKNAVTHFKV 212
Query: 302 IEILAGGGSALVEWRLETGRTHQV 325
+E G +L+E +LETGRTHQ+
Sbjct: 213 LEQYP--GYSLIECQLETGRTHQI 234
>gi|88802386|ref|ZP_01117913.1| ribosomal large subunit pseudouridine synthase D [Polaribacter
irgensii 23-P]
gi|88781244|gb|EAR12422.1| ribosomal large subunit pseudouridine synthase D [Polaribacter
irgensii 23-P]
Length = 346
Score = 188 bits (477), Expect = 3e-45, Method: Compositional matrix adjust.
Identities = 115/263 (43%), Positives = 159/263 (60%), Gaps = 36/263 (13%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
LR+D ++ + I+ +R+++Q + ++G V +N ++ K +H VK D+V ++ P +
Sbjct: 29 LRVDKFLMNFIENATRSKLQQAAKAGNVLVN-EISVKSNHKVKPNDVVRIVLA-YPPAES 86
Query: 131 --EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC-SLPTLASSNQE 187
AEDIPLDI+YEDD V+VVNKPA MVVHP GN +GTLVNG++HH +LPT +SN+
Sbjct: 87 LLVAEDIPLDIIYEDDTVIVVNKPAGMVVHPGHGNYSGTLVNGLIHHIENLPT--NSNE- 143
Query: 188 AFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTI 247
RPG+VHR+DK TSGLLVVAK E + A+LS QF T
Sbjct: 144 -----------------------RPGLVHRIDKDTSGLLVVAKTEFAMANLSRQFFERTT 180
Query: 248 ERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAG 307
ER+Y +L G ++ GRIE I R NR++MA P + +HA S YKV+E L
Sbjct: 181 ERLYYALVWGNVAEDEGRIEGNIGRSLKNRLQMAVFPDGDF---GKHAVSHYKVLERLT- 236
Query: 308 GGSALVEWRLETGRTHQVLMLYK 330
LVE +LETGRTHQ+ +K
Sbjct: 237 -YVTLVECKLETGRTHQIRAHFK 258
>gi|300812431|ref|ZP_07092861.1| pseudouridine synthase, RluA family [Lactobacillus delbrueckii
subsp. bulgaricus PB2003/044-T3-4]
gi|300496598|gb|EFK31690.1| pseudouridine synthase, RluA family [Lactobacillus delbrueckii
subsp. bulgaricus PB2003/044-T3-4]
Length = 304
Score = 188 bits (477), Expect = 4e-45, Method: Compositional matrix adjust.
Identities = 102/254 (40%), Positives = 157/254 (61%), Gaps = 33/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +++ + +SR+R++ +++G V +NG+ SKVS+ V+ GD++ T+ L+PL+ E
Sbjct: 15 RLDKYLAGEMTNLSRSRIKELVQAGEVLVNGKK-SKVSYKVQKGDLIQVTVLPLEPLKLE 73
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AE+IPLDIVYED++V+VVNKP MVVHPA G+ + TLVN +L+H
Sbjct: 74 AENIPLDIVYEDEDVIVVNKPQGMVVHPAAGHPSHTLVNALLYHTR-------------- 119
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
D++D E RPGIVHR+DK TSGLL+VAK+ + L +Q + +R Y
Sbjct: 120 --DLADSPE--------GFRPGIVHRIDKDTSGLLMVAKNAAARESLEKQLAAKSNKRQY 169
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+++ G ++ G I+ PI R+P +R +MA + + + A + +KV+E G +
Sbjct: 170 LAIVHGNFAEEEGTIDAPIGRNPKDRKQMAVVE------KGKSAVTHFKVLEQYQ--GYS 221
Query: 312 LVEWRLETGRTHQV 325
LVE +LETGRTHQ+
Sbjct: 222 LVECQLETGRTHQI 235
>gi|336392300|ref|ZP_08573699.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
coryniformis subsp. torquens KCTC 3535]
gi|420146122|ref|ZP_14653559.1| Pseudouridine synthase [Lactobacillus coryniformis subsp.
coryniformis CECT 5711]
gi|398402202|gb|EJN55574.1| Pseudouridine synthase [Lactobacillus coryniformis subsp.
coryniformis CECT 5711]
Length = 304
Score = 188 bits (477), Expect = 4e-45, Method: Compositional matrix adjust.
Identities = 111/266 (41%), Positives = 156/266 (58%), Gaps = 36/266 (13%)
Query: 60 LEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
L TV T++G RLD ISS + +SRA+VQ I++ V +NGQ+ K + V GD +
Sbjct: 6 LTLTVTTESG--RLDKVISSHFEELSRAQVQQLIKTEHVQVNGQL-EKAKYAVAAGDQIT 62
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
+I L + ++IPLDIVYEDD+VLVVNKP MVVHPAPG+ TLVN +L+H L
Sbjct: 63 VSIPAPAALDVQPQNIPLDIVYEDDDVLVVNKPQGMVVHPAPGHPQDTLVNALLYHSPL- 121
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
S+I+G IRPGIVHR+DK TSGLL+VAK++ +H L+
Sbjct: 122 -----------------------STINGV-IRPGIVHRIDKDTSGLLMVAKNDQAHISLA 157
Query: 240 EQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRY 299
Q + T +R Y++L GV + G I+ PI+R N+R + A + G +HA + +
Sbjct: 158 AQLQAKTSQREYLALVHGVIKEDKGTIDAPIARAKNDRKKQAVVAG------GKHAVTHF 211
Query: 300 KVIEILAGGGSALVEWRLETGRTHQV 325
+V+E L++ LETGRTHQ+
Sbjct: 212 EVLERF--NEYTLIKCILETGRTHQI 235
>gi|168215478|ref|ZP_02641103.1| pseudouridine synthase, RluA family [Clostridium perfringens NCTC
8239]
gi|182382386|gb|EDT79865.1| pseudouridine synthase, RluA family [Clostridium perfringens NCTC
8239]
Length = 306
Score = 188 bits (477), Expect = 4e-45, Method: Compositional matrix adjust.
Identities = 107/255 (41%), Positives = 155/255 (60%), Gaps = 33/255 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
+R D +++ +I+G+SR +Q G + ING+ K + + GD V I E + L+
Sbjct: 17 IRADKFLALKIEGVSRNFIQGLFDDGKILINGKA-EKGKYKLSVGDCVEVEIPEPEELKV 75
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
EAEDIPL+IVYED++V+VVNKP MVVHPAPGN TGTLVN +L+HC
Sbjct: 76 EAEDIPLNIVYEDEDVIVVNKPKGMVVHPAPGNYTGTLVNALLYHC-------------- 121
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
DD S I+G IRPGIVHR+DK TSG+LVVAK++++H L+EQFK H+I+R
Sbjct: 122 ------DD---LSGINGV-IRPGIVHRIDKDTSGILVVAKNDNAHQKLAEQFKDHSIKRE 171
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y ++ G + G I+ P+ R +R++ A + + A + Y+V+++
Sbjct: 172 YYAIVEGRFKKEGGTIDAPLGRHHRDRLKYAVVK------DGKRAVTHYEVLKVF--NSC 223
Query: 311 ALVEWRLETGRTHQV 325
+LV+ LETGRTHQ+
Sbjct: 224 SLVKCTLETGRTHQI 238
>gi|334121150|ref|ZP_08495224.1| pseudouridine synthase, RluA family [Microcoleus vaginatus FGP-2]
gi|333455436|gb|EGK84085.1| pseudouridine synthase, RluA family [Microcoleus vaginatus FGP-2]
Length = 321
Score = 188 bits (477), Expect = 4e-45, Method: Compositional matrix adjust.
Identities = 105/273 (38%), Positives = 153/273 (56%), Gaps = 30/273 (10%)
Query: 53 ANYAGVQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNV 112
A V+ E D RLD W+S++I +SR+R+Q+ I G V +N + + +V
Sbjct: 8 AQIYTVENTEEFDRSNVNQRLDIWLSNQIPDLSRSRIQTLISQGNVKVNDETCTSKKISV 67
Query: 113 KGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGI 172
K GD + + E+Q + E IPLDI+YEDD+++++NKPA +VVHPA G+ GTLVN +
Sbjct: 68 KTGDRIQIILPEIQATNLQPEAIPLDILYEDDSLIIINKPAGLVVHPAAGHQDGTLVNAL 127
Query: 173 LHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDE 232
L HC L + I G RPGIVHRLDK T+G + +AK +
Sbjct: 128 LAHCPL------------------------AEIGGVQ-RPGIVHRLDKDTTGAIAIAKTD 162
Query: 233 HSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQA 292
+H HL Q K T R Y+ + G P+ +G I++PI R P +R +MA +P K G
Sbjct: 163 IAHQHLQAQLKTKTARREYLGIVYGAPNSETGTIDLPIGRHPTDRKKMAVVP-VEKGG-- 219
Query: 293 RHAASRYKVIEILAGGGSALVEWRLETGRTHQV 325
R A + +K+ E + G L+ ++LETGRTHQ+
Sbjct: 220 RPAVTHWKIKEKI--GNYCLMHYQLETGRTHQI 250
>gi|325295189|ref|YP_004281703.1| RluA family pseudouridine synthase [Desulfurobacterium
thermolithotrophum DSM 11699]
gi|325065637|gb|ADY73644.1| pseudouridine synthase, RluA family [Desulfurobacterium
thermolithotrophum DSM 11699]
Length = 313
Score = 188 bits (477), Expect = 4e-45, Method: Compositional matrix adjust.
Identities = 112/265 (42%), Positives = 158/265 (59%), Gaps = 30/265 (11%)
Query: 61 EETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNC 120
E VD++ RLD +I+S I ISR++ ++ I G VSING++V K S+ VK G+ V+
Sbjct: 3 EIVVDSEKKGKRLDQFIAS-IADISRSQAKNLIEDGEVSINGRIVKKPSYKVKEGETVSF 61
Query: 121 TISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPT 180
I E PL + E+IPLDIVYED +V+V+NKPA +VVHPAPG+ +GTLVN +L++C
Sbjct: 62 EIPEPIPLDLQPENIPLDIVYEDKDVIVINKPAGLVVHPAPGHYSGTLVNALLYYC---- 117
Query: 181 LASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSE 240
D + I+ ++RPGIVHRLDK T+GLLVVAK++ + L E
Sbjct: 118 ---------KDFQGIN-----------GTLRPGIVHRLDKDTAGLLVVAKNDLAQQSLIE 157
Query: 241 QFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYK 300
QFK T+ R Y +L G+ + RI VPI RD +R + + S K A + Y
Sbjct: 158 QFKRRTVGRFYRALVLGIFEKQHDRIVVPIGRDKFDRKKFSPNTTSPK-----EAITNYW 212
Query: 301 VIEILAGGGSALVEWRLETGRTHQV 325
V+E + ++ +LETGRTHQ+
Sbjct: 213 VLESFPTHNVSDIKCKLETGRTHQI 237
>gi|154483515|ref|ZP_02025963.1| hypothetical protein EUBVEN_01219 [Eubacterium ventriosum ATCC
27560]
gi|149735425|gb|EDM51311.1| pseudouridine synthase, RluA family [Eubacterium ventriosum ATCC
27560]
Length = 301
Score = 187 bits (476), Expect = 4e-45, Method: Compositional matrix adjust.
Identities = 102/264 (38%), Positives = 155/264 (58%), Gaps = 35/264 (13%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
VD + +R+D ++S + +SR+ +Q ++ + +N + V K ++ V+ D +N I
Sbjct: 7 VDEELFDIRIDRYLSELLPDVSRSFIQKLLKDNEILLNDKPV-KANYKVQPSDKININIP 65
Query: 124 ELQPLRAE--AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTL 181
+P+ A AE+IPLDI+YEDD+ L+VNKP MVVHPAPG+ TGTLVNG+++HC
Sbjct: 66 --KPVEANIVAENIPLDIIYEDDDFLIVNKPKDMVVHPAPGHYTGTLVNGLMYHC----- 118
Query: 182 ASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQ 241
+ S+I+G +RPGIVHR+DK T+G L++ K+++SH ++EQ
Sbjct: 119 -----------------KNHLSNINGV-LRPGIVHRIDKDTTGALIICKNDYSHNFIAEQ 160
Query: 242 FKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKV 301
K+H+I R Y+ + GV SG I PI R P NR MA H + A + YKV
Sbjct: 161 LKVHSITRKYVGIVQGVVKDESGTINAPIGRHPVNRKEMAI-----NHKNGKEAVTHYKV 215
Query: 302 IEILAGGGSALVEWRLETGRTHQV 325
++ +E++LETGRTHQ+
Sbjct: 216 LKRF--DKYTFMEFQLETGRTHQI 237
>gi|254976188|ref|ZP_05272660.1| putative pseudouridylate synthase [Clostridium difficile QCD-66c26]
gi|255093577|ref|ZP_05323055.1| putative pseudouridylate synthase [Clostridium difficile CIP
107932]
gi|255315322|ref|ZP_05356905.1| putative pseudouridylate synthase [Clostridium difficile QCD-76w55]
gi|255517989|ref|ZP_05385665.1| putative pseudouridylate synthase [Clostridium difficile QCD-97b34]
gi|255651105|ref|ZP_05398007.1| putative pseudouridylate synthase [Clostridium difficile QCD-37x79]
gi|384361812|ref|YP_006199664.1| pseudouridylate synthase [Clostridium difficile BI1]
Length = 315
Score = 187 bits (476), Expect = 4e-45, Method: Compositional matrix adjust.
Identities = 103/254 (40%), Positives = 150/254 (59%), Gaps = 32/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +++ ++ +SR+ +Q I+ G V +N +V K + VK D + I E + L
Sbjct: 29 RLDIYLAEQLGDMSRSYIQKIIKDGKVKVNNKV-EKAKYLVKEEDNIVIEIPEPKVLEVL 87
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
+DIP+DIVYEDD+VL++NKP MVVHPAPGN TLVNGIL+HC
Sbjct: 88 PQDIPIDIVYEDDDVLIINKPQDMVVHPAPGNYENTLVNGILYHC--------------- 132
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
++ SSI+G IRPGIVHR+DK TSGLL++AK+ ++H L+EQ K HTI R Y
Sbjct: 133 -------KDKLSSINGV-IRPGIVHRIDKDTSGLLMIAKNNYAHNFLAEQLKEHTITREY 184
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+ GV + ++ PI R+P +R++MA + ++A + ++V+E
Sbjct: 185 EFICYGVVKEDKITVDKPIGRNPKDRLKMAVV------KDGKNAITHFEVVERF--DKFT 236
Query: 312 LVEWRLETGRTHQV 325
+ RLETGRTHQ+
Sbjct: 237 HMRARLETGRTHQI 250
>gi|427731293|ref|YP_007077530.1| RluA family pseudouridine synthase [Nostoc sp. PCC 7524]
gi|427367212|gb|AFY49933.1| pseudouridine synthase, RluA family [Nostoc sp. PCC 7524]
Length = 312
Score = 187 bits (476), Expect = 5e-45, Method: Compositional matrix adjust.
Identities = 101/255 (39%), Positives = 148/255 (58%), Gaps = 31/255 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +++ + +SR+R+Q I G V +NG+V + +VK GD + I E QPL +
Sbjct: 15 RLDRYLAEELPDLSRSRIQQLIEQGKVQLNGRVCTSKKISVKVGDRITLEIPEAQPLELK 74
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC-SLPTLASSNQEAFS 190
AE+IPLDI+YED+ +L++NKPA +VVHPAPG+ GTLVN +L HC +LP +
Sbjct: 75 AENIPLDILYEDEQLLILNKPAGLVVHPAPGHPDGTLVNALLAHCPNLPGI--------- 125
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
G RPGIVHRLDK T+G + +AK + ++ HL Q + T R
Sbjct: 126 ----------------GGVQRPGIVHRLDKDTTGAIAIAKTDIAYQHLQAQLQAKTARRE 169
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y+ + G P SG +++PI R P +R +MA +P R A + +++ E L G
Sbjct: 170 YLGVVYGAPKTESGTVDLPIGRHPQDRKKMAIVPVEQG---GRVAITHWQIQERL--GNY 224
Query: 311 ALVEWRLETGRTHQV 325
L+ ++LETGRTHQ+
Sbjct: 225 TLIHFQLETGRTHQI 239
>gi|409402118|ref|ZP_11251731.1| ribosomal large subunit pseudouridine synthase D [Acidocella sp.
MX-AZ02]
gi|409129251|gb|EKM99112.1| ribosomal large subunit pseudouridine synthase D [Acidocella sp.
MX-AZ02]
Length = 324
Score = 187 bits (476), Expect = 5e-45, Method: Compositional matrix adjust.
Identities = 109/254 (42%), Positives = 149/254 (58%), Gaps = 29/254 (11%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD+++++RI ISR+RV++ I G +G V + S V+ G + + P +
Sbjct: 19 RLDSYLAARIGTISRSRVKALILEGACRRDGIVTTDASETVQPGTLYQLALPAAAPALPQ 78
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E +PLDI+YEDD +L+++K A MVVHPAPGN GTLVN ++ HC
Sbjct: 79 PESLPLDILYEDDALLILDKAAGMVVHPAPGNPDGTLVNALIAHCG-------------- 124
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
E + I G RPGIVHRLDK TSGL+VVAK E + LS F IER Y
Sbjct: 125 --------ESLTGIGGER-RPGIVHRLDKDTSGLMVVAKTELALTRLSATFAARDIERRY 175
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++L G+P+ + GRIE I RDP +R RMA + + K HAA+ Y+V+E AG ++
Sbjct: 176 LALCWGLPNPAKGRIEGDIGRDPKDRKRMAVVKSNGK-----HAATNYQVLE-QAGLAAS 229
Query: 312 LVEWRLETGRTHQV 325
L+ RLETGRTHQ+
Sbjct: 230 LIACRLETGRTHQI 243
>gi|418008048|ref|ZP_12647919.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
casei UW4]
gi|410547807|gb|EKQ22033.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
casei UW4]
Length = 306
Score = 187 bits (476), Expect = 5e-45, Method: Compositional matrix adjust.
Identities = 110/263 (41%), Positives = 152/263 (57%), Gaps = 36/263 (13%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
T+ T+ G R+D I++ +R++VQ ++ GLV++NGQ +K ++ V GD++ +I
Sbjct: 6 TITTEQG--RIDKVITAHETTHTRSQVQKWLQDGLVTVNGQP-TKANYKVASGDVIAISI 62
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E +PL A E IPLDIVYEDD V+VV+KP MVVHPAPG+ GTLVNG+L+H LP
Sbjct: 63 PEAKPLEAIPEPIPLDIVYEDDQVIVVDKPQGMVVHPAPGHPDGTLVNGLLYHTDLP--- 119
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
I+G IRPGIVHR+DK TSGLL+VAK E + LS Q
Sbjct: 120 ---------------------GINGV-IRPGIVHRIDKDTSGLLMVAKTEKAQLSLSAQL 157
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
K T R Y++L G + G I+ P+ RDP +R R A + RHA + ++V+
Sbjct: 158 KAKTSVREYLALVHGTFKEDEGTIDAPLGRDPRDRKRQAVV------ADGRHAVTHFQVL 211
Query: 303 EILAGGGSALVEWRLETGRTHQV 325
E ++ LETGRTHQ+
Sbjct: 212 ERFE--HYTFIKCILETGRTHQI 232
>gi|260684170|ref|YP_003215455.1| pseudouridylate synthase [Clostridium difficile CD196]
gi|260687829|ref|YP_003218963.1| pseudouridylate synthase [Clostridium difficile R20291]
gi|260210333|emb|CBA64669.1| putative pseudouridylate synthase [Clostridium difficile CD196]
gi|260213846|emb|CBE05842.1| putative pseudouridylate synthase [Clostridium difficile R20291]
Length = 303
Score = 187 bits (476), Expect = 5e-45, Method: Compositional matrix adjust.
Identities = 103/254 (40%), Positives = 150/254 (59%), Gaps = 32/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +++ ++ +SR+ +Q I+ G V +N +V K + VK D + I E + L
Sbjct: 17 RLDIYLAEQLGDMSRSYIQKIIKDGKVKVNNKV-EKAKYLVKEEDNIVIEIPEPKVLEVL 75
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
+DIP+DIVYEDD+VL++NKP MVVHPAPGN TLVNGIL+HC
Sbjct: 76 PQDIPIDIVYEDDDVLIINKPQDMVVHPAPGNYENTLVNGILYHC--------------- 120
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
++ SSI+G IRPGIVHR+DK TSGLL++AK+ ++H L+EQ K HTI R Y
Sbjct: 121 -------KDKLSSINGV-IRPGIVHRIDKDTSGLLMIAKNNYAHNFLAEQLKEHTITREY 172
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+ GV + ++ PI R+P +R++MA + ++A + ++V+E
Sbjct: 173 EFICYGVVKEDKITVDKPIGRNPKDRLKMAVV------KDGKNAITHFEVVERF--DKFT 224
Query: 312 LVEWRLETGRTHQV 325
+ RLETGRTHQ+
Sbjct: 225 HMRARLETGRTHQI 238
>gi|407783254|ref|ZP_11130457.1| pseudouridylate synthase, 23S RNA-specific [Oceanibaculum indicum
P24]
gi|407202434|gb|EKE72425.1| pseudouridylate synthase, 23S RNA-specific [Oceanibaculum indicum
P24]
Length = 336
Score = 187 bits (476), Expect = 5e-45, Method: Compositional matrix adjust.
Identities = 109/257 (42%), Positives = 155/257 (60%), Gaps = 35/257 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++++R+ +SR+R+++ I G+V+ + V+ SH VK G+ T+ + +
Sbjct: 28 RLDRFLAARLGDLSRSRLKALIEQGMVTASDGPVTDPSHKVKEGECFAVTLPPPEAAEPD 87
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
A+DIPL +VYEDD+++V++KPA MVVHPAPGN TLVN +L HC
Sbjct: 88 AQDIPLVVVYEDDDLIVIDKPAGMVVHPAPGNPDSTLVNALLAHCG-------------- 133
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+ S I G RPGIVHR+DK TSGLLV AK++ +HA L+EQF H+I+R Y
Sbjct: 134 --------DSLSGIGGVR-RPGIVHRIDKDTSGLLVAAKNDLAHAALTEQFAAHSIDRAY 184
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI---EILAGG 308
++L GVP +G I I R +R +MA + GS +HA +RY+ + ILA
Sbjct: 185 LALVWGVPVPPAGEIAGNIGRSNRDRKKMAVV-GSG----GKHALTRYRTLGRHGILA-- 237
Query: 309 GSALVEWRLETGRTHQV 325
+LVE RLETGRTHQ+
Sbjct: 238 --SLVECRLETGRTHQI 252
>gi|374582996|ref|ZP_09656090.1| pseudouridine synthase, RluA family [Desulfosporosinus youngiae DSM
17734]
gi|374419078|gb|EHQ91513.1| pseudouridine synthase, RluA family [Desulfosporosinus youngiae DSM
17734]
Length = 338
Score = 187 bits (475), Expect = 6e-45, Method: Compositional matrix adjust.
Identities = 108/255 (42%), Positives = 153/255 (60%), Gaps = 33/255 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
+RLD ++ + G SR+ +Q I V +NG + K ++ V+ GDM+ I + A
Sbjct: 50 IRLDVGVTD-VLGKSRSFIQGLIAGECVKVNG-FIKKANYKVRQGDMIEVMIPAPREAAA 107
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
E E+IPL+I+YED++VLVVNKP MVVHPAPG TGT+VN +L+HC
Sbjct: 108 EPENIPLEILYEDEDVLVVNKPQGMVVHPAPGAWTGTMVNALLYHC-------------- 153
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
+ S I+G +RPGIVHR+DK TSG+LVVAK++ +H L+ Q K HT+ER
Sbjct: 154 ---------KNLSGINGV-LRPGIVHRIDKDTSGILVVAKNDSAHQGLAAQLKAHTMERK 203
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y++L GV S+ SG + PI RDP++R RMA + ++ A + Y V+E +
Sbjct: 204 YLTLVQGVMSEPSGTVSAPIGRDPSDRKRMAVV-----MLHSKPAVTYYTVLERFK--ET 256
Query: 311 ALVEWRLETGRTHQV 325
+E RLETGRTHQ+
Sbjct: 257 TYLEVRLETGRTHQI 271
>gi|333394895|ref|ZP_08476714.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
coryniformis subsp. coryniformis KCTC 3167]
Length = 304
Score = 187 bits (475), Expect = 6e-45, Method: Compositional matrix adjust.
Identities = 111/266 (41%), Positives = 155/266 (58%), Gaps = 36/266 (13%)
Query: 60 LEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
L TV T+ G RLD ISS + +SRA+VQ I++ V +NGQ+ K + V GD +
Sbjct: 6 LTLTVTTENG--RLDKVISSHFEELSRAQVQQLIKTEHVQVNGQL-EKAKYAVAAGDQIT 62
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
+I L + ++IPLDIVYEDD+VLVVNKP MVVHPAPG+ TLVN +L+H L
Sbjct: 63 VSIPAPAALDVQPQNIPLDIVYEDDDVLVVNKPQGMVVHPAPGHPQDTLVNALLYHSPL- 121
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
S+I+G IRPGIVHR+DK TSGLL+VAK++ +H L+
Sbjct: 122 -----------------------STINGV-IRPGIVHRIDKDTSGLLMVAKNDQAHISLA 157
Query: 240 EQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRY 299
Q + T +R Y++L GV + G I+ PI+R N+R + A + G +HA + +
Sbjct: 158 AQLQAKTSQREYLALVHGVIKEDKGTIDAPIARAKNDRKKQAVVAG------GKHAVTHF 211
Query: 300 KVIEILAGGGSALVEWRLETGRTHQV 325
+V+E L++ LETGRTHQ+
Sbjct: 212 EVLERF--NEYTLIKCILETGRTHQI 235
>gi|323489511|ref|ZP_08094738.1| putative RNA pseudouridine synthase ylyB [Planococcus donghaensis
MPA1U2]
gi|323396642|gb|EGA89461.1| putative RNA pseudouridine synthase ylyB [Planococcus donghaensis
MPA1U2]
Length = 303
Score = 187 bits (475), Expect = 6e-45, Method: Compositional matrix adjust.
Identities = 112/265 (42%), Positives = 159/265 (60%), Gaps = 35/265 (13%)
Query: 72 RLDAWISSRIDG-ISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
R+D +SS IDG SR+++ + ++ G V +NG+ V K ++ V+ D++ T EL+ L
Sbjct: 16 RVDKAVSS-IDGDWSRSQISNWVKEGAVKVNGETV-KPNYKVRLQDIIIVTPPELEELDV 73
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
ED+ L+IVYED++VLVVNKP MVVHPAPG+A GTLVNG++HHC+
Sbjct: 74 VPEDLNLEIVYEDEDVLVVNKPKGMVVHPAPGHAKGTLVNGLMHHCT------------- 120
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L +Q T+ R
Sbjct: 121 ---DL-------SGINGV-VRPGIVHRIDKDTSGLLMVAKNDAAHTSLVDQLVKKTVTRK 169
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y++L G G I+ PI+RDP R MA + + +HA + ++V+E G
Sbjct: 170 YVALVHGHIPHDKGTIQAPIARDPKERQNMAIV------DKGKHAVTHFRVLERF--GNF 221
Query: 311 ALVEWRLETGRTHQVLMLYKLFYIP 335
LVE RLETGRTHQ+ + K P
Sbjct: 222 TLVECRLETGRTHQIRVHMKYIGFP 246
>gi|220928062|ref|YP_002504971.1| pseudouridine synthase [Clostridium cellulolyticum H10]
gi|219998390|gb|ACL74991.1| pseudouridine synthase, RluA family [Clostridium cellulolyticum
H10]
Length = 304
Score = 187 bits (475), Expect = 6e-45, Method: Compositional matrix adjust.
Identities = 107/255 (41%), Positives = 154/255 (60%), Gaps = 31/255 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
+R+D+W++ ++ SR+ +Q G V NG + K ++ VK D + + E + L
Sbjct: 13 VRIDSWLAGNLEDYSRSYIQKLCLDGNVWANG-IQVKSNYRVKTDDNIKVNVPEAEILDV 71
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
E EDIPLDIVYED +++V+NKP MVVHPA GN TGTLVN ++ HC ++ S
Sbjct: 72 EPEDIPLDIVYEDKHIIVINKPKGMVVHPAVGNYTGTLVNALMKHCG---------DSLS 122
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
D I+G IRPGIVHR+DK TSGLLVVAK +H LSE+ K H I+R
Sbjct: 123 D-------------INGV-IRPGIVHRIDKDTSGLLVVAKSNIAHERLSEKLKTHDIKRE 168
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
YI+L G+ ++SG+I+ PI R+P R +M + ++G R+A + +KV+E +
Sbjct: 169 YIALVDGIIYENSGKIDAPIGRNPVERKKMCV---NTENG--RNAITHFKVLERFQ--NA 221
Query: 311 ALVEWRLETGRTHQV 325
+E +LETGRTHQ+
Sbjct: 222 TYLELKLETGRTHQI 236
>gi|239631456|ref|ZP_04674487.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
paracasei subsp. paracasei 8700:2]
gi|417980747|ref|ZP_12621427.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
casei 12A]
gi|417984062|ref|ZP_12624690.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
casei 21/1]
gi|239525921|gb|EEQ64922.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
paracasei subsp. paracasei 8700:2]
gi|410525070|gb|EKP99977.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
casei 12A]
gi|410526714|gb|EKQ01596.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
casei 21/1]
Length = 306
Score = 187 bits (475), Expect = 6e-45, Method: Compositional matrix adjust.
Identities = 110/263 (41%), Positives = 152/263 (57%), Gaps = 36/263 (13%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
T+ T+ G R+D I++ +R++VQ ++ GLV++NGQ +K ++ V GD++ +I
Sbjct: 6 TITTEQG--RIDKVITAHETTHTRSQVQKWLQDGLVTVNGQP-TKANYKVASGDVIAISI 62
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E +PL A E IPLDIVYEDD V+VV+KP MVVHPAPG+ GTLVNG+L+H LP
Sbjct: 63 PEAKPLEAIPEPIPLDIVYEDDQVIVVDKPQGMVVHPAPGHPDGTLVNGLLYHTDLP--- 119
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
I+G IRPGIVHR+DK TSGLL+VAK E + LS Q
Sbjct: 120 ---------------------GINGV-IRPGIVHRIDKDTSGLLMVAKTEKAQLSLSAQL 157
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
K T R Y++L G + G I+ P+ RDP +R R A + RHA + ++V+
Sbjct: 158 KAKTSIREYLALVHGTFKEDEGTIDAPLGRDPRDRKRQAVV------ADGRHAVTHFQVL 211
Query: 303 EILAGGGSALVEWRLETGRTHQV 325
E ++ LETGRTHQ+
Sbjct: 212 ERFE--HYTFIKCILETGRTHQI 232
>gi|154685962|ref|YP_001421123.1| hypothetical protein RBAM_015290 [Bacillus amyloliquefaciens FZB42]
gi|394993883|ref|ZP_10386622.1| YlyB [Bacillus sp. 916]
gi|429505097|ref|YP_007186281.1| hypothetical protein B938_07935 [Bacillus amyloliquefaciens subsp.
plantarum AS43.3]
gi|154351813|gb|ABS73892.1| YlyB [Bacillus amyloliquefaciens FZB42]
gi|393805207|gb|EJD66587.1| YlyB [Bacillus sp. 916]
gi|429486687|gb|AFZ90611.1| hypothetical protein B938_07935 [Bacillus amyloliquefaciens subsp.
plantarum AS43.3]
Length = 304
Score = 187 bits (475), Expect = 6e-45, Method: Compositional matrix adjust.
Identities = 116/277 (41%), Positives = 158/277 (57%), Gaps = 32/277 (11%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q E TV + R+D +++S + SR +VQ ++ GLVS+NG+ V K ++ ++ GD V
Sbjct: 3 QFEITVQPEQKSERIDKFLASTGENWSRTQVQQWVKEGLVSVNGKSV-KANYKMQPGDQV 61
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
N TI E + L AE + LDI YED +VLVVNKP MVVHPAPG+ TGTLVNG++ HC+
Sbjct: 62 NVTIPEPEELDVLAEPMDLDIYYEDQDVLVVNKPRGMVVHPAPGHVTGTLVNGLMAHCN- 120
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 121 ---------------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESL 157
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
Q T+ R Y ++ GV S G I+ PI RD +R M S+K +A +
Sbjct: 158 VNQLVNKTVTRKYTAVVHGVISHDDGTIDAPIGRDKKDRQSMTVTRESSK-----NAVTH 212
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ V+E LVE RLETGRTHQ+ + K P
Sbjct: 213 FHVLERFQ--DFTLVECRLETGRTHQIRVHMKYIGFP 247
>gi|376260970|ref|YP_005147690.1| RluA family pseudouridine synthase [Clostridium sp. BNL1100]
gi|373944964|gb|AEY65885.1| pseudouridine synthase, RluA family [Clostridium sp. BNL1100]
Length = 304
Score = 187 bits (475), Expect = 6e-45, Method: Compositional matrix adjust.
Identities = 106/255 (41%), Positives = 155/255 (60%), Gaps = 31/255 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
+R+D+W++ ++ SR+ +Q G + +N +V K ++ VK GD + + + + L
Sbjct: 13 VRIDSWLAVNLEDYSRSYIQKLCLDGNIWVN-EVQVKSNYKVKPGDSIKVNVPDAEILDV 71
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
E EDIPLDIVYED +++V+NKP MVVHPA GN TGTLVN ++ HC ++ S
Sbjct: 72 EPEDIPLDIVYEDKHIIVINKPKGMVVHPAVGNYTGTLVNALMKHCG---------DSLS 122
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
D I+G IRPGIVHR+DK TSGLLVVAK +H LSE+ K H I+R
Sbjct: 123 D-------------INGV-IRPGIVHRIDKDTSGLLVVAKSNIAHERLSEKLKTHDIKRE 168
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
YI+L G+ ++SG+I+ PI R P R +M + ++G R+A + +KV+E +
Sbjct: 169 YIALVDGIIYENSGKIDAPIGRHPVERKKMCV---NTENG--RNAITHFKVLERFP--NT 221
Query: 311 ALVEWRLETGRTHQV 325
+E +LETGRTHQ+
Sbjct: 222 TYLELKLETGRTHQI 236
>gi|255101761|ref|ZP_05330738.1| putative pseudouridylate synthase [Clostridium difficile QCD-63q42]
gi|255307629|ref|ZP_05351800.1| putative pseudouridylate synthase [Clostridium difficile ATCC
43255]
gi|423092627|ref|ZP_17080431.1| pseudouridine synthase, RluA family [Clostridium difficile
70-100-2010]
gi|357553497|gb|EHJ35244.1| pseudouridine synthase, RluA family [Clostridium difficile
70-100-2010]
Length = 315
Score = 187 bits (475), Expect = 6e-45, Method: Compositional matrix adjust.
Identities = 103/254 (40%), Positives = 150/254 (59%), Gaps = 32/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +++ ++ +SR+ +Q I+ G V +N +V K + VK D + I E + L
Sbjct: 29 RLDIYLAEQLGDMSRSYIQKIIKDGKVKVNNKV-EKARYLVKEEDNIVIEIPEPKVLEVL 87
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
+DIP+DIVYEDD+VL++NKP MVVHPAPGN TLVNGIL+HC
Sbjct: 88 PQDIPIDIVYEDDDVLIINKPQDMVVHPAPGNYENTLVNGILYHC--------------- 132
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
++ SSI+G IRPGIVHR+DK TSGLL++AK+ ++H L+EQ K HTI R Y
Sbjct: 133 -------KDKLSSINGV-IRPGIVHRIDKDTSGLLMIAKNNYAHNFLAEQLKEHTITREY 184
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+ GV + ++ PI R+P +R++MA + ++A + ++V+E
Sbjct: 185 EFICYGVVKEDKITVDKPIGRNPKDRLKMAVV------KDGKNAITHFEVVERF--DKFT 236
Query: 312 LVEWRLETGRTHQV 325
+ RLETGRTHQ+
Sbjct: 237 HMRARLETGRTHQI 250
>gi|443311463|ref|ZP_21041091.1| pseudouridine synthase, RluA family [Synechocystis sp. PCC 7509]
gi|442778501|gb|ELR88766.1| pseudouridine synthase, RluA family [Synechocystis sp. PCC 7509]
Length = 314
Score = 187 bits (475), Expect = 6e-45, Method: Compositional matrix adjust.
Identities = 103/255 (40%), Positives = 151/255 (59%), Gaps = 31/255 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +++ + +SR+R+Q I G V +NG++ V+ GD + I ++QPL +
Sbjct: 14 RLDLYLAQNLSDLSRSRLQQLIAEGNVQVNGKICLSKKATVQKGDHILIQIPDVQPLDLK 73
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC-SLPTLASSNQEAFS 190
AE+IPLDI+YEDD +L+VNKPA +VVHPAPG+ GTLVN +L HC +LP +
Sbjct: 74 AENIPLDILYEDDALLIVNKPAGLVVHPAPGHPDGTLVNALLAHCPNLPGI--------- 124
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
G RPGIVHRLDK T+G + +AK + + HL Q K T R
Sbjct: 125 ----------------GGVQRPGIVHRLDKDTTGAIAIAKTDFAQQHLQAQLKAKTARRD 168
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y+ + GVP+ G+I++P+ R P +R +MA +P K G R+A + +++IE L
Sbjct: 169 YLGVVYGVPATPKGKIDLPVGRHPVDRKKMAVVP-IEKGG--RNAITHWEIIERL--DNY 223
Query: 311 ALVEWRLETGRTHQV 325
L+ ++LETGRTHQ+
Sbjct: 224 TLMHFQLETGRTHQI 238
>gi|340757887|ref|ZP_08694479.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium
varium ATCC 27725]
gi|251836173|gb|EES64710.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium
varium ATCC 27725]
Length = 313
Score = 187 bits (475), Expect = 6e-45, Method: Compositional matrix adjust.
Identities = 104/264 (39%), Positives = 160/264 (60%), Gaps = 31/264 (11%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D++++ ID +R+ +Q I G V I G+ V+K + +KG +++ I E + L
Sbjct: 20 RIDSFLNEIIDDATRSYIQKIIDGGYVEITGKKVTKSGNKLKGTEIIVVNIPEDEILNVV 79
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E+IPL+I+YED +++++NK A+MVVHPA GN GTLVN +L+
Sbjct: 80 PENIPLNIIYEDKDIVIINKTANMVVHPAHGNYNGTLVNALLYQI--------------- 124
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+D+ S+I+G IRPGIVHRLDK TSG++VVAK++ +H+ LS+ FK T+E+ Y
Sbjct: 125 -KDL-------STINGV-IRPGIVHRLDKDTSGVIVVAKNDEAHSTLSDMFKEKTLEKTY 175
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
I +T G+ SG+IE I RDP +R +M + + K +A S Y+V++ G +
Sbjct: 176 ICITKGIFKDKSGKIETLIGRDPKDRKKMTVVDINGK-----NAISNYEVLD--EGKNFS 228
Query: 312 LVEWRLETGRTHQVLMLYKLFYIP 335
LV+ R+ETGRTHQ+ + K P
Sbjct: 229 LVKVRIETGRTHQIRVHMKYLNHP 252
>gi|417992968|ref|ZP_12633319.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
casei CRF28]
gi|410532377|gb|EKQ07085.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
casei CRF28]
Length = 291
Score = 187 bits (475), Expect = 6e-45, Method: Compositional matrix adjust.
Identities = 110/263 (41%), Positives = 152/263 (57%), Gaps = 36/263 (13%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
T+ T+ G R+D I++ +R++VQ ++ GLV++NGQ +K ++ V GD++ +I
Sbjct: 6 TITTEQG--RIDKVITAHETTHTRSQVQKWLQDGLVTVNGQP-TKANYKVASGDVIAISI 62
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E +PL A E IPLDIVYEDD V+VV+KP MVVHPAPG+ GTLVNG+L+H LP
Sbjct: 63 PEAKPLEAIPEPIPLDIVYEDDQVIVVDKPQGMVVHPAPGHPDGTLVNGLLYHTDLP--- 119
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
I+G IRPGIVHR+DK TSGLL+VAK E + LS Q
Sbjct: 120 ---------------------GINGV-IRPGIVHRIDKDTSGLLMVAKTEKAQLSLSAQL 157
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
K T R Y++L G + G I+ P+ RDP +R R A + RHA + ++V+
Sbjct: 158 KAKTSIREYLALVRGTFKEDEGTIDAPLGRDPRDRKRQAVV------AAGRHAVTHFQVL 211
Query: 303 EILAGGGSALVEWRLETGRTHQV 325
E ++ LETGRTHQ+
Sbjct: 212 ERFE--HYTFIKCILETGRTHQI 232
>gi|424780438|ref|ZP_18207311.1| Ribosomal large subunit pseudouridine synthase D [Catellicoccus
marimammalium M35/04/3]
gi|422842840|gb|EKU27287.1| Ribosomal large subunit pseudouridine synthase D [Catellicoccus
marimammalium M35/04/3]
Length = 301
Score = 187 bits (475), Expect = 6e-45, Method: Compositional matrix adjust.
Identities = 101/263 (38%), Positives = 158/263 (60%), Gaps = 35/263 (13%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
T+ T+ G R+D +++ +R+++Q+ ++ G+V++NG+ +K ++ V GD ++ T
Sbjct: 7 TITTEKG--RIDKVLANLFPEYTRSKLQTWVKEGIVTVNGKP-TKSNYKVATGDQISFTP 63
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E +PL AE ++IPLDI+YED++V+V+NKP MVVHP+PG+ GTLVNG+L+H L
Sbjct: 64 QEDKPLTAEPQNIPLDIIYEDEDVIVINKPQGMVVHPSPGHPDGTLVNGLLYHTQL---- 119
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
S + +IRPGIVHR+DK TSGLL+VAK+ SH L++Q
Sbjct: 120 --------------------SEMEEGTIRPGIVHRIDKDTSGLLMVAKNNQSHESLAKQL 159
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
T R Y+++ G + G+I+ PI RDP +R + A I + R A + ++V+
Sbjct: 160 SEKTSHRRYLAIVHGDIDHAKGKIDAPIGRDPKDRKKQAVI------KEGRPAVTHFEVL 213
Query: 303 EILAGGGSALVEWRLETGRTHQV 325
E G L+ +LETGRTHQ+
Sbjct: 214 ERF--GRYTLIACQLETGRTHQI 234
>gi|409351550|ref|ZP_11234218.1| Pseudouridine synthase [Lactobacillus equicursoris CIP 110162]
gi|407876703|emb|CCK86276.1| Pseudouridine synthase [Lactobacillus equicursoris CIP 110162]
Length = 302
Score = 187 bits (475), Expect = 6e-45, Method: Compositional matrix adjust.
Identities = 107/264 (40%), Positives = 161/264 (60%), Gaps = 35/264 (13%)
Query: 62 ETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCT 121
E + +AG LRLD +++ RID +SR+R++ ++G V +NG+ +KVS+ V+ GD +
Sbjct: 6 ELIVDQAG-LRLDKYLAERID-LSRSRIKDLAQAGQVLVNGKK-TKVSYKVEAGDQIEVN 62
Query: 122 ISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTL 181
I L+PL E E+IPLDIVYEDD+V+VVNKP MVVHPA G+ TLVN +L+H
Sbjct: 63 ILPLEPLDLEPENIPLDIVYEDDDVIVVNKPQGMVVHPAAGHPNHTLVNALLYHT----- 117
Query: 182 ASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQ 241
D++D E RPGIVHR+DK TSGLL+VAK+ + L Q
Sbjct: 118 -----------RDLADSPE--------GFRPGIVHRIDKDTSGLLMVAKNAKARESLEAQ 158
Query: 242 FKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKV 301
+ +R+Y+++ G ++ SG ++ PI+R+P +R +MA + ++A + +KV
Sbjct: 159 LAQKSNKRIYLAIVHGNFAEKSGTVDAPIARNPRDRKQMAVVEN------GKNAVTHFKV 212
Query: 302 IEILAGGGSALVEWRLETGRTHQV 325
+E G +L+E +LETGRTHQ+
Sbjct: 213 LEQYP--GYSLIECQLETGRTHQI 234
>gi|260887804|ref|ZP_05899067.1| ribosomal large subunit pseudouridine synthase D [Selenomonas
sputigena ATCC 35185]
gi|330838700|ref|YP_004413280.1| pseudouridine synthase, RluA family [Selenomonas sputigena ATCC
35185]
gi|260862480|gb|EEX76980.1| ribosomal large subunit pseudouridine synthase D [Selenomonas
sputigena ATCC 35185]
gi|329746464|gb|AEB99820.1| pseudouridine synthase, RluA family [Selenomonas sputigena ATCC
35185]
Length = 301
Score = 187 bits (475), Expect = 6e-45, Method: Compositional matrix adjust.
Identities = 108/262 (41%), Positives = 151/262 (57%), Gaps = 33/262 (12%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
VD A RLD +++ R +SR+ +Q I SG V +NG+ +K + ++ GD V +
Sbjct: 7 VDEGAAGERLDRFLAGRELEVSRSHIQKLIESGCVLVNGRT-AKANAKLREGDAVETELP 65
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
E + L EDIPLDI+YED +V+V+NK MVVHPA G A GTLVN +LHHC
Sbjct: 66 EARELEILPEDIPLDILYEDSDVIVINKARGMVVHPAAGAADGTLVNALLHHC------- 118
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
ED+S I+G IRPGIVHRLDK TSG++V AK++ +H L+EQ +
Sbjct: 119 ---------EDLS-------GINGV-IRPGIVHRLDKDTSGVMVAAKNDRAHVDLAEQIR 161
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
T +R+Y ++ G ++ G I PI R P R +MA +PG + A + ++V+E
Sbjct: 162 EKTAQRIYRAIVCGTIAEDRGEIRAPIGRHPTERKKMAVVPGGKE------ATTLFRVVE 215
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
LVE RL+TGRTHQ+
Sbjct: 216 RFP--AHTLVECRLKTGRTHQI 235
>gi|326203544|ref|ZP_08193408.1| pseudouridine synthase, RluA family [Clostridium papyrosolvens DSM
2782]
gi|325986364|gb|EGD47196.1| pseudouridine synthase, RluA family [Clostridium papyrosolvens DSM
2782]
Length = 304
Score = 187 bits (475), Expect = 6e-45, Method: Compositional matrix adjust.
Identities = 105/255 (41%), Positives = 158/255 (61%), Gaps = 31/255 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
+R+D+W++ ++ SR+ +Q G + +N +V +K ++ VK GD + ++ + + L
Sbjct: 13 VRIDSWLAGNLEDYSRSYIQKLCLDGNIWVN-EVQAKSNYKVKPGDNIKVSVPDAEILDV 71
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
E EDIPLDIVYED +++V+NKP MVVHPA GN +GTLVN ++ HC ++ S
Sbjct: 72 EPEDIPLDIVYEDKHIIVINKPKGMVVHPAVGNYSGTLVNALMKHCG---------DSLS 122
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
D I+G IRPGIVHR+DK TSGLLVVAK +H LSE+ K H I+R
Sbjct: 123 D-------------INGV-IRPGIVHRIDKDTSGLLVVAKSNIAHERLSEKLKTHDIKRE 168
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
YI+L G+ ++SG+I+ PI R P R +M+ + ++G R+A + +KV+E +
Sbjct: 169 YIALVDGIIYENSGKIDAPIGRHPVERKKMSV---NTQNG--RNAITHFKVLERFP--SA 221
Query: 311 ALVEWRLETGRTHQV 325
V+ +LETGRTHQ+
Sbjct: 222 TYVQLKLETGRTHQI 236
>gi|116494944|ref|YP_806678.1| pseudouridylate synthase, 23S RNA-specific [Lactobacillus casei
ATCC 334]
gi|227535056|ref|ZP_03965105.1| pseudouridylate synthase [Lactobacillus paracasei subsp. paracasei
ATCC 25302]
gi|301066507|ref|YP_003788530.1| 23S RNA-specific pseudouridylate synthase [Lactobacillus casei str.
Zhang]
gi|417986821|ref|ZP_12627386.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
casei 32G]
gi|417999198|ref|ZP_12639410.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
casei T71499]
gi|418002143|ref|ZP_12642267.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
casei UCD174]
gi|418010905|ref|ZP_12650676.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
casei Lc-10]
gi|116105094|gb|ABJ70236.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
casei ATCC 334]
gi|227187271|gb|EEI67338.1| pseudouridylate synthase [Lactobacillus paracasei subsp. paracasei
ATCC 25302]
gi|300438914|gb|ADK18680.1| Pseudouridylate synthase, 23S RNA-specific [Lactobacillus casei
str. Zhang]
gi|410524555|gb|EKP99463.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
casei 32G]
gi|410539748|gb|EKQ14273.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
casei T71499]
gi|410544826|gb|EKQ19140.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
casei UCD174]
gi|410553484|gb|EKQ27487.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
casei Lc-10]
Length = 306
Score = 187 bits (475), Expect = 6e-45, Method: Compositional matrix adjust.
Identities = 110/263 (41%), Positives = 152/263 (57%), Gaps = 36/263 (13%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
T+ T+ G R+D I++ +R++VQ ++ GLV++NGQ +K ++ V GD++ +I
Sbjct: 6 TITTEQG--RIDKVITAHETTHTRSQVQKWLQDGLVTVNGQP-TKANYKVASGDVIAISI 62
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E +PL A E IPLDIVYEDD V+VV+KP MVVHPAPG+ GTLVNG+L+H LP
Sbjct: 63 PEAKPLEAIPEPIPLDIVYEDDQVIVVDKPQGMVVHPAPGHPDGTLVNGLLYHTDLP--- 119
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
I+G IRPGIVHR+DK TSGLL+VAK E + LS Q
Sbjct: 120 ---------------------GINGV-IRPGIVHRIDKDTSGLLMVAKTEKAQLSLSAQL 157
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
K T R Y++L G + G I+ P+ RDP +R R A + RHA + ++V+
Sbjct: 158 KAKTSIREYLALVHGTFKEDEGTIDAPLGRDPRDRKRQAVV------ADGRHAVTHFQVL 211
Query: 303 EILAGGGSALVEWRLETGRTHQV 325
E ++ LETGRTHQ+
Sbjct: 212 ERFE--HYTFIKCILETGRTHQI 232
>gi|225181681|ref|ZP_03735121.1| pseudouridine synthase, RluA family [Dethiobacter alkaliphilus AHT
1]
gi|225167662|gb|EEG76473.1| pseudouridine synthase, RluA family [Dethiobacter alkaliphilus AHT
1]
Length = 312
Score = 187 bits (475), Expect = 7e-45, Method: Compositional matrix adjust.
Identities = 104/263 (39%), Positives = 151/263 (57%), Gaps = 31/263 (11%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TVD RLD +S ++ ++RARVQ I V ++G+ K ++ ++ G+ V T+
Sbjct: 7 TVDEVLAGERLDVAVSRHVEELTRARVQKLIAEDYVQVDGKP-QKANYRLRAGETVEVTV 65
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E++P AE I LDI+YED +VLV+NKP +V+HPA G+A GTLVN +LHHC
Sbjct: 66 PEVKPAEIAAEKIDLDILYEDQDVLVLNKPKGLVIHPAAGHAGGTLVNALLHHC------ 119
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
+D+S G RPGIVHRLDK TSG++VVAK++ +H LS QF
Sbjct: 120 ----------DDLSG--------IGGEARPGIVHRLDKDTSGVMVVAKNDRAHLSLSRQF 161
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
K H++ R Y+++ G P+ G I+ I+R P R +MA + R A + +KV+
Sbjct: 162 KAHSVTREYVAIVHGEPAVEQGTIDAAIARHPKERKKMALTTAE----KGRRAVTHFKVL 217
Query: 303 EILAGGGSALVEWRLETGRTHQV 325
+ G + + RLETGRTHQ+
Sbjct: 218 DRF--GEYSYLALRLETGRTHQI 238
>gi|452855493|ref|YP_007497176.1| pseudouridylate synthase [Bacillus amyloliquefaciens subsp.
plantarum UCMB5036]
gi|452079753|emb|CCP21510.1| pseudouridylate synthase [Bacillus amyloliquefaciens subsp.
plantarum UCMB5036]
Length = 304
Score = 187 bits (475), Expect = 7e-45, Method: Compositional matrix adjust.
Identities = 116/277 (41%), Positives = 158/277 (57%), Gaps = 32/277 (11%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q E TV + R+D +++S + SR +VQ ++ GLVS+NG+ V K ++ ++ GD V
Sbjct: 3 QFEITVQLEQKSERIDKFLASTGENWSRTQVQQWVKEGLVSVNGKSV-KANYKMQPGDQV 61
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
N TI E + L AE + LDI YED +VLVVNKP MVVHPAPG+ TGTLVNG++ HC+
Sbjct: 62 NVTIPEPEELDVLAEPMDLDIYYEDQDVLVVNKPRGMVVHPAPGHVTGTLVNGLMAHCN- 120
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 121 ---------------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESL 157
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
Q T+ R Y ++ GV S G I+ PI RD +R M S+K +A +
Sbjct: 158 VNQLVNKTVTRKYTAVVHGVISHDDGTIDAPIGRDKKDRQSMTVTRESSK-----NAVTH 212
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ V+E LVE RLETGRTHQ+ + K P
Sbjct: 213 FHVLERFQ--DFTLVECRLETGRTHQIRVHMKYIGFP 247
>gi|385264670|ref|ZP_10042757.1| RNA pseudouridylate synthase [Bacillus sp. 5B6]
gi|385149166|gb|EIF13103.1| RNA pseudouridylate synthase [Bacillus sp. 5B6]
Length = 304
Score = 187 bits (474), Expect = 7e-45, Method: Compositional matrix adjust.
Identities = 116/277 (41%), Positives = 158/277 (57%), Gaps = 32/277 (11%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q E TV + R+D +++S + SR +VQ ++ GLVS+NG+ V K ++ ++ GD V
Sbjct: 3 QFEITVQPEQKSERIDKFLASTGENWSRTQVQQWVKEGLVSVNGKSV-KANYKMQPGDQV 61
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
N TI E + L AE + LDI YED +VLVVNKP MVVHPAPG+ TGTLVNG++ HC+
Sbjct: 62 NVTIPEPEELDVLAEPMDLDIYYEDQDVLVVNKPRGMVVHPAPGHVTGTLVNGLMAHCN- 120
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 121 ---------------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESL 157
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
Q T+ R Y ++ GV S G I+ PI RD +R M S+K +A +
Sbjct: 158 VNQLVNKTVTRKYTAVVHGVISHDDGTIDAPIGRDKKDRQSMTVTRESSK-----NAVTH 212
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ V+E LVE RLETGRTHQ+ + K P
Sbjct: 213 FHVLERFQ--DFTLVECRLETGRTHQIRVHMKYIGFP 247
>gi|239832765|ref|ZP_04681094.1| pseudouridine synthase, RluA family [Ochrobactrum intermedium LMG
3301]
gi|239825032|gb|EEQ96600.1| pseudouridine synthase, RluA family [Ochrobactrum intermedium LMG
3301]
Length = 402
Score = 187 bits (474), Expect = 7e-45, Method: Compositional matrix adjust.
Identities = 116/303 (38%), Positives = 167/303 (55%), Gaps = 35/303 (11%)
Query: 33 KILRARCSSSSSGGNNREPIANYAGVQLEETVDTKAGKLRLDAWISSRI-DGISRARVQS 91
K + + SSS EP++ E T D+ A RLD W+++ + +SR+RVQS
Sbjct: 43 KCGKIKRQSSSDDFVKTEPLSTRKTRVKELTTDSDATGKRLDQWLAAALGPDLSRSRVQS 102
Query: 92 SIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNK 151
I G V+I+G + ++ G + + E +P AE+IPLDI+YEDD+++V+NK
Sbjct: 103 LIAEGHVTIDGVPARETKQKLREGMTIAVVLPEPEPAEPIAENIPLDILYEDDDLIVINK 162
Query: 152 PAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIR 211
PA +VVHP GN TGTLVN +++HC + S I G R
Sbjct: 163 PAGLVVHPGNGNWTGTLVNALIYHCG----------------------DSLSGIGGIR-R 199
Query: 212 PGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLH----TIERVYISLTSGVPSQSSGRIE 267
PGIVHRLDK TSG++VVAK++ SH HLSEQF H +ER Y++L G+ + G I+
Sbjct: 200 PGIVHRLDKDTSGVMVVAKNDLSHRHLSEQFADHGRTGDLERAYLALVWGMTERPQGYID 259
Query: 268 VPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEIL-----AGGGSALVEWRLETGRT 322
+ R +R + A + + + ARHA + Y +E A ++LVE RLETGRT
Sbjct: 260 AHLGRSHRDRTKQAVV--NEERDDARHAITHYATVEKFGPREDATALASLVECRLETGRT 317
Query: 323 HQV 325
HQ+
Sbjct: 318 HQI 320
>gi|417989705|ref|ZP_12630206.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
casei A2-362]
gi|417996323|ref|ZP_12636604.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
casei M36]
gi|418015330|ref|ZP_12654905.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
casei Lpc-37]
gi|410535634|gb|EKQ10251.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
casei M36]
gi|410537450|gb|EKQ12024.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
casei A2-362]
gi|410551806|gb|EKQ25849.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
casei Lpc-37]
Length = 306
Score = 187 bits (474), Expect = 7e-45, Method: Compositional matrix adjust.
Identities = 110/263 (41%), Positives = 152/263 (57%), Gaps = 36/263 (13%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
T+ T+ G R+D I++ +R++VQ ++ GLV++NGQ +K ++ V GD++ +I
Sbjct: 6 TITTEQG--RIDKVITAHETTHTRSQVQKWLQDGLVTVNGQP-TKANYKVASGDVIAISI 62
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E +PL A E IPLDIVYEDD V+VV+KP MVVHPAPG+ GTLVNG+L+H LP
Sbjct: 63 PEAKPLEAIPEPIPLDIVYEDDQVIVVDKPQGMVVHPAPGHPDGTLVNGLLYHTDLP--- 119
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
I+G IRPGIVHR+DK TSGLL+VAK E + LS Q
Sbjct: 120 ---------------------GINGV-IRPGIVHRIDKDTSGLLMVAKTEKAQLSLSAQL 157
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
K T R Y++L G + G I+ P+ RDP +R R A + RHA + ++V+
Sbjct: 158 KAKTSIREYLALVRGTFKEDEGTIDAPLGRDPRDRKRQAVV------AAGRHAVTHFQVL 211
Query: 303 EILAGGGSALVEWRLETGRTHQV 325
E ++ LETGRTHQ+
Sbjct: 212 ERFE--HYTFIKCILETGRTHQI 232
>gi|313123676|ref|YP_004033935.1| pseudouridine synthase [Lactobacillus delbrueckii subsp. bulgaricus
ND02]
gi|312280239|gb|ADQ60958.1| Pseudouridine synthase [Lactobacillus delbrueckii subsp. bulgaricus
ND02]
Length = 304
Score = 187 bits (474), Expect = 7e-45, Method: Compositional matrix adjust.
Identities = 101/254 (39%), Positives = 157/254 (61%), Gaps = 33/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +++ + +SR+R++ +++G V +NG+ SKVS+ V+ GD++ T+ L+PL+ E
Sbjct: 15 RLDKYLAGEMTDLSRSRIKELVQAGEVLVNGKK-SKVSYKVQKGDLIQVTVLPLEPLKLE 73
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AE+IPLDIVYED++++VVNKP MVVHPA G+ + TLVN +L+H
Sbjct: 74 AENIPLDIVYEDEDIIVVNKPQGMVVHPAAGHPSHTLVNALLYHTR-------------- 119
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
D++D E RPGIVHR+DK TSGLL+VAK+ + L +Q + +R Y
Sbjct: 120 --DLADSPE--------GFRPGIVHRIDKDTSGLLMVAKNAAARESLEKQLAAKSNKRQY 169
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+++ G ++ G I+ PI R+P +R +MA + + + A + +KV+E G +
Sbjct: 170 LAIVHGNFAEEEGTIDAPIGRNPKDRKQMAVVE------KGKSAVTHFKVLEQYQ--GYS 221
Query: 312 LVEWRLETGRTHQV 325
LVE +LETGRTHQ+
Sbjct: 222 LVECQLETGRTHQI 235
>gi|428208374|ref|YP_007092727.1| ribosomal large subunit pseudouridine synthase D [Chroococcidiopsis
thermalis PCC 7203]
gi|428010295|gb|AFY88858.1| ribosomal large subunit pseudouridine synthase D [Chroococcidiopsis
thermalis PCC 7203]
Length = 311
Score = 187 bits (474), Expect = 7e-45, Method: Compositional matrix adjust.
Identities = 105/255 (41%), Positives = 148/255 (58%), Gaps = 31/255 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +++ ++ +SR+R+Q I G V IN V + VK GD + I +QPL +
Sbjct: 14 RLDRYLAQQLTQLSRSRLQQLIEQGCVQINDSVCTAKKTEVKTGDRIRIEIPAVQPLELK 73
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC-SLPTLASSNQEAFS 190
E IPLDI+YEDD++L++NKPA +VVHPAPG+A GTLVN +L HC +LP +
Sbjct: 74 PEAIPLDILYEDDSLLIINKPAGLVVHPAPGHADGTLVNALLAHCPNLPGI--------- 124
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
G RPGIVHRLDK T+G + +AK + + HL Q K T R
Sbjct: 125 ----------------GGVQRPGIVHRLDKDTTGAIAIAKTDLAQQHLQAQLKAKTARRE 168
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y+ + G P +G +++PI R P +R +MA +P K G+A A + ++V E L G
Sbjct: 169 YLGIIYGAPRSPNGTVDLPIGRHPTDRKKMAIVP-VEKGGRA--AITLWQVKERL--GNY 223
Query: 311 ALVEWRLETGRTHQV 325
LV ++LETGRTHQ+
Sbjct: 224 TLVHFQLETGRTHQI 238
>gi|255528132|ref|ZP_05394960.1| pseudouridine synthase, RluA family [Clostridium carboxidivorans
P7]
gi|296186658|ref|ZP_06855060.1| pseudouridine synthase, RluA family [Clostridium carboxidivorans
P7]
gi|255508173|gb|EET84585.1| pseudouridine synthase, RluA family [Clostridium carboxidivorans
P7]
gi|296048695|gb|EFG88127.1| pseudouridine synthase, RluA family [Clostridium carboxidivorans
P7]
Length = 305
Score = 187 bits (474), Expect = 8e-45, Method: Compositional matrix adjust.
Identities = 110/265 (41%), Positives = 154/265 (58%), Gaps = 33/265 (12%)
Query: 61 EETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNC 120
E +D + RLD ++S R++ SR+ +Q I V +NG ++ K ++ +K D +
Sbjct: 5 EFIIDENSVNTRLDLFLSERMEDKSRSYIQGLIEKSQVKVNG-ILKKSNYKLKIKDKILI 63
Query: 121 TISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPT 180
TI + L E EDIPLDIVYED +V+VVNKP MVVHPA G TGTLVN +L+HCS
Sbjct: 64 TIPDPVGLDIEPEDIPLDIVYEDSDVIVVNKPQGMVVHPASGVYTGTLVNALLNHCS--- 120
Query: 181 LASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSE 240
D+ S I+G + RPGIVHR+DK TSG+LVVAK++ SH L+E
Sbjct: 121 -------------DL-------SGINGVT-RPGIVHRIDKDTSGILVVAKNDKSHNKLAE 159
Query: 241 QFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYK 300
Q K H++ R Y +L G+ + G I+ P+ R P RI+++ I + A + Y+
Sbjct: 160 QLKDHSMTRAYTALVEGILKEDEGTIDKPLGRHPVERIKISVIK------DGKRAVTHYR 213
Query: 301 VIEILAGGGSALVEWRLETGRTHQV 325
V+E + LVE LETGRTHQ+
Sbjct: 214 VLERFK--SNTLVECVLETGRTHQI 236
>gi|385823357|ref|YP_005859699.1| Hypothetical RNA pseudouridine synthase (RNA-uridine isomerase)
[Lactobacillus casei BD-II]
gi|418005172|ref|ZP_12645168.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
casei UW1]
gi|327385684|gb|AEA57158.1| Hypothetical RNA pseudouridine synthase (RNA-uridine isomerase)
[Lactobacillus casei BD-II]
gi|410547425|gb|EKQ21658.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
casei UW1]
Length = 306
Score = 187 bits (474), Expect = 8e-45, Method: Compositional matrix adjust.
Identities = 110/263 (41%), Positives = 152/263 (57%), Gaps = 36/263 (13%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
T+ T+ G R+D I++ +R++VQ ++ GLV++NGQ +K ++ V GD++ +I
Sbjct: 6 TITTEQG--RIDKVITAHETTHTRSQVQKWLQDGLVTVNGQP-TKANYKVASGDVIAISI 62
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E +PL A E IPLDIVYEDD V+VV+KP MVVHPAPG+ GTLVNG+L+H LP
Sbjct: 63 PEAKPLEAIPEPIPLDIVYEDDQVIVVDKPQGMVVHPAPGHPDGTLVNGLLYHTDLP--- 119
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
I+G IRPGIVHR+DK TSGLL+VAK E + LS Q
Sbjct: 120 ---------------------GINGV-IRPGIVHRIDKDTSGLLMVAKTEKAQLSLSAQL 157
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
K T R Y++L G + G I+ P+ RDP +R R A + RHA + ++V+
Sbjct: 158 KAKTSIREYLALVHGTFKEDEGTIDAPLGRDPRDRKRQAVV------AAGRHAVTHFQVL 211
Query: 303 EILAGGGSALVEWRLETGRTHQV 325
E ++ LETGRTHQ+
Sbjct: 212 ERFE--HYTFIKCILETGRTHQI 232
>gi|191638454|ref|YP_001987620.1| pseudouridine synthase [Lactobacillus casei BL23]
gi|385820159|ref|YP_005856546.1| Hypothetical RNA pseudouridine synthase (RNA-uridine isomerase)
[Lactobacillus casei LC2W]
gi|409997315|ref|YP_006751716.1| RNA pseudouridine synthase YlyB [Lactobacillus casei W56]
gi|190712756|emb|CAQ66762.1| Pseudouridine synthase [Lactobacillus casei BL23]
gi|327382486|gb|AEA53962.1| Hypothetical RNA pseudouridine synthase (RNA-uridine isomerase)
[Lactobacillus casei LC2W]
gi|406358327|emb|CCK22597.1| Uncharacterized RNA pseudouridine synthase YlyB [Lactobacillus
casei W56]
Length = 307
Score = 187 bits (474), Expect = 8e-45, Method: Compositional matrix adjust.
Identities = 110/263 (41%), Positives = 152/263 (57%), Gaps = 36/263 (13%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
T+ T+ G R+D I++ +R++VQ ++ GLV++NGQ +K ++ V GD++ +I
Sbjct: 7 TITTEQG--RIDKVITAHETTHTRSQVQKWLQDGLVTVNGQP-TKANYKVASGDVIAISI 63
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E +PL A E IPLDIVYEDD V+VV+KP MVVHPAPG+ GTLVNG+L+H LP
Sbjct: 64 PEAKPLEAIPEPIPLDIVYEDDQVIVVDKPQGMVVHPAPGHPDGTLVNGLLYHTDLP--- 120
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
I+G IRPGIVHR+DK TSGLL+VAK E + LS Q
Sbjct: 121 ---------------------GINGV-IRPGIVHRIDKDTSGLLMVAKTEKAQLSLSAQL 158
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
K T R Y++L G + G I+ P+ RDP +R R A + RHA + ++V+
Sbjct: 159 KAKTSIREYLALVHGTFKEDEGTIDAPLGRDPRDRKRQAVV------AAGRHAVTHFQVL 212
Query: 303 EILAGGGSALVEWRLETGRTHQV 325
E ++ LETGRTHQ+
Sbjct: 213 ERFE--HYTFIKCILETGRTHQI 233
>gi|126700216|ref|YP_001089113.1| pseudouridylate synthase, RluC/RluD family [Clostridium difficile
630]
gi|115251653|emb|CAJ69486.1| putative pseudouridylate synthase, RluC/RluD family [Clostridium
difficile 630]
Length = 303
Score = 187 bits (474), Expect = 9e-45, Method: Compositional matrix adjust.
Identities = 103/254 (40%), Positives = 150/254 (59%), Gaps = 32/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +++ ++ +SR+ +Q I+ G V +N +V K + VK D + I E + L
Sbjct: 17 RLDIYLAEQLGDMSRSYIQKIIKDGKVKVNNKV-EKARYLVKEEDNIVIEIPEPKVLEVL 75
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
+DIP+DIVYEDD+VL++NKP MVVHPAPGN TLVNGIL+HC
Sbjct: 76 PQDIPIDIVYEDDDVLIINKPQDMVVHPAPGNYENTLVNGILYHC--------------- 120
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
++ SSI+G IRPGIVHR+DK TSGLL++AK+ ++H L+EQ K HTI R Y
Sbjct: 121 -------KDKLSSINGV-IRPGIVHRIDKDTSGLLMIAKNNYAHNFLAEQLKEHTITREY 172
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+ GV + ++ PI R+P +R++MA + ++A + ++V+E
Sbjct: 173 EFICYGVVKEDKITVDKPIGRNPKDRLKMAVV------KDGKNAITHFEVVERF--DKFT 224
Query: 312 LVEWRLETGRTHQV 325
+ RLETGRTHQ+
Sbjct: 225 HMRARLETGRTHQI 238
>gi|345303045|ref|YP_004824947.1| RluA family pseudouridine synthase [Rhodothermus marinus
SG0.5JP17-172]
gi|345112278|gb|AEN73110.1| pseudouridine synthase, RluA family [Rhodothermus marinus
SG0.5JP17-172]
Length = 355
Score = 186 bits (473), Expect = 9e-45, Method: Compositional matrix adjust.
Identities = 115/271 (42%), Positives = 166/271 (61%), Gaps = 11/271 (4%)
Query: 58 VQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDM 117
+QLE + G RLDA+++ + SR ++Q IR G V++NG VV K ++ V+ GD+
Sbjct: 8 IQLEVPPGYREGG-RLDAYLARFLAQASRTKIQRGIREGRVTVNGVVVQKPAYTVQPGDV 66
Query: 118 VNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCS 177
+ I P+ E IPLDIVYED ++VVNK A +VVHPA GN +GTLVN +L+H
Sbjct: 67 ITLRILRPPPVEIVPEPIPLDIVYEDPYLIVVNKQAGLVVHPARGNRSGTLVNALLYHIG 126
Query: 178 LPTLASSNQEAFSDAEDISDDEEFSSSISGASI---RPGIVHRLDKGTSGLLVVAKDEHS 234
+ ++ + ++I S+ + A + RPGIVHRLDK T+GL+VVAKD+ +
Sbjct: 127 SGPVRFDEEDDLPEDDEIGLS-MVSTGPTEAKLEAPRPGIVHRLDKDTTGLIVVAKDDVT 185
Query: 235 HAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARH 294
H L+ QF+ TI R Y+++ GVP GRIE I RDP +R RMA +P + +
Sbjct: 186 HTGLARQFEHRTIARTYLAIVWGVPDPPWGRIEAAIGRDPRDRQRMAVVPDE----RGKR 241
Query: 295 AASRYKVIEILAGGGSALVEWRLETGRTHQV 325
A + Y+V+E L +ALV ++LETGRTHQ+
Sbjct: 242 AVTHYEVVEALP--AAALVRFKLETGRTHQI 270
>gi|190893167|ref|YP_001979709.1| RNA-pseudouridylate synthase, ribosomal large subunit D [Rhizobium
etli CIAT 652]
gi|190698446|gb|ACE92531.1| RNA-pseudouridylate synthase protein, ribosomal large subunit D
[Rhizobium etli CIAT 652]
Length = 354
Score = 186 bits (473), Expect = 9e-45, Method: Compositional matrix adjust.
Identities = 121/306 (39%), Positives = 171/306 (55%), Gaps = 45/306 (14%)
Query: 31 VFKILRARCSSSSSGGNNREPIANYAGVQLEETVDTKAGKLRLDAWISSRI-DGISRARV 89
V KI R R S +P AG++ T D A + RLDAW+++++ + SR+R+
Sbjct: 4 VLKIRRRRSVLS-------DPFKQAAGIRKVLTADETA-EGRLDAWLTAQLGEEFSRSRI 55
Query: 90 QSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVV 149
+ I+ G VS+ GQ+++ V+ GD T+ E + + EDIPLDI+YEDD+++V+
Sbjct: 56 KVLIKDGQVSMRGQLITDPQRKVRAGDSFEITLPEPEDPTPQGEDIPLDILYEDDDLIVI 115
Query: 150 NKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGAS 209
+KPA +VVHP GN TGTLVN ++HHC TL S I G
Sbjct: 116 SKPAGLVVHPGSGNWTGTLVNALIHHCGA-TL---------------------SGIGGVR 153
Query: 210 IRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLH----TIERVYISLTSGVPSQSSGR 265
RPGIVHRLDK T+G++VVAK++ +H HLS QF H +ER Y ++ G P +G
Sbjct: 154 -RPGIVHRLDKDTTGVMVVAKNDVAHRHLSLQFADHGRTMPLERAYRAIVWGRPRSLTGT 212
Query: 266 IEVPISRDPNNRIRMAAI-PGSNKHGQARHAASRYKVIEIL-----AGGGSALVEWRLET 319
++ P+ R +R R A P S A A + Y+VIE A ++LVE RLET
Sbjct: 213 VDAPLGRATGDRTRRAVKRPDSQ---DADEAITHYEVIERFHETPDATALASLVECRLET 269
Query: 320 GRTHQV 325
GRTHQ+
Sbjct: 270 GRTHQI 275
>gi|251778563|ref|ZP_04821483.1| ribosomal large subunit pseudouridine synthase D [Clostridium
botulinum E1 str. 'BoNT E Beluga']
gi|243082878|gb|EES48768.1| ribosomal large subunit pseudouridine synthase D [Clostridium
botulinum E1 str. 'BoNT E Beluga']
Length = 302
Score = 186 bits (473), Expect = 1e-44, Method: Compositional matrix adjust.
Identities = 103/255 (40%), Positives = 153/255 (60%), Gaps = 32/255 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
+R+D ++S ++G SR+ +Q I + +N +++ K ++ +K D + T+ E++ L+
Sbjct: 15 IRIDKYLSEMLNGKSRSFIQGLIEKESIKVNDKLI-KSNYKLKACDEIVITMPEVETLKV 73
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
E+EDI LDI+YED +V+VVNK MVVHPAPGN GTLVN +L HC+
Sbjct: 74 ESEDIDLDILYEDKDVIVVNKEQGMVVHPAPGNYNGTLVNALLFHCT------------- 120
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
D+ SSI+G IRPGIVHR+DK TSG+LV+AK++ SH L+ Q K H++ R
Sbjct: 121 ---DL-------SSINGV-IRPGIVHRIDKDTSGVLVIAKNDESHNKLAAQLKDHSMNRE 169
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y +L G SG I+ P+ RD NR+++A R A + Y+V+E G
Sbjct: 170 YYALVEGRFKNDSGVIDKPLGRDKKNRLKIAITE------DGRRAITHYEVLE-RYDTGC 222
Query: 311 ALVEWRLETGRTHQV 325
L++ +LETGRTHQ+
Sbjct: 223 TLIKCKLETGRTHQI 237
>gi|306520956|ref|ZP_07407303.1| putative pseudouridylate synthase [Clostridium difficile QCD-32g58]
Length = 453
Score = 186 bits (473), Expect = 1e-44, Method: Compositional matrix adjust.
Identities = 103/254 (40%), Positives = 150/254 (59%), Gaps = 32/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +++ ++ +SR+ +Q I+ G V +N +V K + VK D + I E + L
Sbjct: 167 RLDIYLAEQLGDMSRSYIQKIIKDGKVKVNNKV-EKAKYLVKEEDNIVIEIPEPKVLEVL 225
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
+DIP+DIVYEDD+VL++NKP MVVHPAPGN TLVNGIL+HC
Sbjct: 226 PQDIPIDIVYEDDDVLIINKPQDMVVHPAPGNYENTLVNGILYHC--------------- 270
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
++ SSI+G IRPGIVHR+DK TSGLL++AK+ ++H L+EQ K HTI R Y
Sbjct: 271 -------KDKLSSINGV-IRPGIVHRIDKDTSGLLMIAKNNYAHNFLAEQLKEHTITREY 322
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+ GV + ++ PI R+P +R++MA + ++A + ++V+E
Sbjct: 323 EFICYGVVKEDKITVDKPIGRNPKDRLKMAVVK------DGKNAITHFEVVERFDKFTH- 375
Query: 312 LVEWRLETGRTHQV 325
+ RLETGRTHQ+
Sbjct: 376 -MRARLETGRTHQI 388
>gi|255656576|ref|ZP_05401985.1| putative pseudouridylate synthase [Clostridium difficile QCD-23m63]
gi|296449972|ref|ZP_06891736.1| ribosomal large subunit pseudouridine synthase D [Clostridium
difficile NAP08]
gi|296878353|ref|ZP_06902361.1| ribosomal large subunit pseudouridine synthase D [Clostridium
difficile NAP07]
gi|296261242|gb|EFH08073.1| ribosomal large subunit pseudouridine synthase D [Clostridium
difficile NAP08]
gi|296430651|gb|EFH16490.1| ribosomal large subunit pseudouridine synthase D [Clostridium
difficile NAP07]
Length = 315
Score = 186 bits (473), Expect = 1e-44, Method: Compositional matrix adjust.
Identities = 101/254 (39%), Positives = 151/254 (59%), Gaps = 32/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +++ ++ +SR+ +Q I+ G V +N ++ K + VK D + I E + L
Sbjct: 29 RLDIYLAEQLGDMSRSYIQKIIKDGKVKVNNKI-EKAKYLVKEEDNIVIEIPEPKVLEVV 87
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
+DIP+DIVYEDD+VL++NKP MVVHPAPGN TLVNGIL+HC
Sbjct: 88 PQDIPIDIVYEDDDVLIINKPQDMVVHPAPGNYENTLVNGILYHC--------------- 132
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
++ SSI+G IRPGIVHR+DK TSGLL++AK+ ++H L+EQ K HTI R Y
Sbjct: 133 -------KDKLSSINGV-IRPGIVHRIDKDTSGLLMIAKNNYAHNFLAEQLKEHTITREY 184
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+ GV ++ ++ PI R+P +R++MA + ++A + ++V+E
Sbjct: 185 EFICYGVVKENKITVDKPIGRNPKDRLKMAVV------KDGKNAITHFEVVERF--DKFT 236
Query: 312 LVEWRLETGRTHQV 325
+ +LETGRTHQ+
Sbjct: 237 HMRAKLETGRTHQI 250
>gi|389815966|ref|ZP_10207203.1| RNA pseudouridine synthase ylyB [Planococcus antarcticus DSM 14505]
gi|388465460|gb|EIM07777.1| RNA pseudouridine synthase ylyB [Planococcus antarcticus DSM 14505]
Length = 303
Score = 186 bits (473), Expect = 1e-44, Method: Compositional matrix adjust.
Identities = 111/274 (40%), Positives = 162/274 (59%), Gaps = 34/274 (12%)
Query: 62 ETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCT 121
E + AG+ R+D +SS + SR+++ + ++ G V +NG ++ K ++ V+ D++ T
Sbjct: 7 EITEEMAGE-RVDKAVSSIDEDWSRSQIANWVKEGAVKVNG-IIVKPNYKVRLQDIIIVT 64
Query: 122 ISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTL 181
EL+ L ED+ L+IVYED++VLVVNKP MVVHPAPG+A GTLVNG++HHC+
Sbjct: 65 PPELEELDVVPEDLNLEIVYEDEDVLVVNKPKGMVVHPAPGHADGTLVNGLMHHCT---- 120
Query: 182 ASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQ 241
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L +Q
Sbjct: 121 ------------DL-------SGINGV-VRPGIVHRIDKDTSGLLMVAKNDVAHTSLVDQ 160
Query: 242 FKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKV 301
T+ R Y++L G G I+ PI+RDP R MA + + +HA + ++V
Sbjct: 161 LVKKTVTRKYVALVHGHIPHDKGTIQAPIARDPKERQNMAIV------DKGKHAVTHFRV 214
Query: 302 IEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+E G LVE RLETGRTHQ+ + K P
Sbjct: 215 LERF--GDFTLVECRLETGRTHQIRVHMKYIGYP 246
>gi|37519642|ref|NP_923019.1| pseudouridine synthase [Gloeobacter violaceus PCC 7421]
gi|35210633|dbj|BAC88014.1| glr0073 [Gloeobacter violaceus PCC 7421]
Length = 310
Score = 186 bits (473), Expect = 1e-44, Method: Compositional matrix adjust.
Identities = 108/266 (40%), Positives = 154/266 (57%), Gaps = 33/266 (12%)
Query: 60 LEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
L TV +RLD W++ ++ +SRAR+Q+ I GLV +N + + V GD V
Sbjct: 9 LTLTVQPDQSAMRLDRWLAEQVADLSRARIQALIDQGLVLLNNRP-CRPRDLVHSGDAVA 67
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
TI +PL EA I LDIVYED+ ++V++KP +VVHPAPG++ TLVN +L HC
Sbjct: 68 LTIPAPEPLAIEARPIALDIVYEDEELIVIDKPRGLVVHPAPGHSDDTLVNALLAHC--- 124
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
S I+G +RPGIVHRLDK T+GLLVVAK + +H HL
Sbjct: 125 --------------------RNLSGINGV-LRPGIVHRLDKDTTGLLVVAKTDRAHQHLQ 163
Query: 240 EQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRY 299
Q + T R Y+++ +G P++++G I+ PI R P +R +MA H + R A + +
Sbjct: 164 TQIQAKTARRDYLAIIAGAPAETTGTIDAPIGRHPVHRQKMAV------HPKGRPARTHW 217
Query: 300 KVIEILAGGGSALVEWRLETGRTHQV 325
+V+E L G LVE+ L+TGRTHQ+
Sbjct: 218 RVLERL--GNFTLVEFSLQTGRTHQI 241
>gi|296133340|ref|YP_003640587.1| RluA family pseudouridine synthase [Thermincola potens JR]
gi|296031918|gb|ADG82686.1| pseudouridine synthase, RluA family [Thermincola potens JR]
Length = 321
Score = 186 bits (472), Expect = 1e-44, Method: Compositional matrix adjust.
Identities = 105/254 (41%), Positives = 153/254 (60%), Gaps = 32/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D +++ D +SR+ +Q I G +++NG V K ++ +K G++V I + L
Sbjct: 34 RIDVYLAGIFDHLSRSFIQKLIGDGYITVNGTRV-KANYKLKAGELVRVEIPYTEELEVS 92
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AE IPL+I+YED +V+V+NKP MVVHPAPGN +GTLVN +L HC
Sbjct: 93 AEPIPLEILYEDRDVIVINKPQGMVVHPAPGNYSGTLVNALLWHC--------------- 137
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+D+ S I+G +RPGIVHRLDK TSG+++ AK++ +HA L++Q K T+ R Y
Sbjct: 138 -KDL-------SGINGV-MRPGIVHRLDKDTSGVIMAAKNDETHASLAKQIKDRTVTRRY 188
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++L GV + +G IE PI RDP +R +MA ++K A + YKV+E
Sbjct: 189 LALIHGVIPEPAGIIEAPIGRDPKDRKKMAVTTKNSK-----PAVTHYKVLERF--NKYT 241
Query: 312 LVEWRLETGRTHQV 325
VE +LETGRTHQ+
Sbjct: 242 FVECKLETGRTHQI 255
>gi|144897894|emb|CAM74758.1| ribosomal large subunit pseudouridine synthase D [Magnetospirillum
gryphiswaldense MSR-1]
Length = 327
Score = 186 bits (472), Expect = 1e-44, Method: Compositional matrix adjust.
Identities = 107/264 (40%), Positives = 147/264 (55%), Gaps = 28/264 (10%)
Query: 62 ETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCT 121
+ V T RLD W+S+R+ +SR R++ I VS GQ ++ S VK G
Sbjct: 12 DAVTTDEAGSRLDKWLSARLPDLSRTRIKGLIDDSRVSAAGQTITDASARVKPGQCFVVA 71
Query: 122 ISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTL 181
I +P + + L + YEDD+++V++KP +VVHPAPG+ TLVN +L HC
Sbjct: 72 IPPERPADPLPQAMDLSVAYEDDDLIVIDKPPGLVVHPAPGSPDHTLVNALLAHCG---- 127
Query: 182 ASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQ 241
E S I G RPGIVHR+DK TSGLLVVAK++ +H L+EQ
Sbjct: 128 ------------------ESLSGIGGVK-RPGIVHRIDKDTSGLLVVAKNDRAHHGLAEQ 168
Query: 242 FKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKV 301
F +H++ER Y +L GVP + G I I R P +R +MA + HG + A +RY+V
Sbjct: 169 FSVHSLERAYRALVWGVPMPAQGEIHGNIGRSPQDRKKMAIV----SHG-GKPALTRYRV 223
Query: 302 IEILAGGGSALVEWRLETGRTHQV 325
+ AGG +LVE RL TGRTHQ+
Sbjct: 224 LRSFAGGAVSLVECRLATGRTHQI 247
>gi|384265127|ref|YP_005420834.1| ribosomal large subunit pseudouridine synthase D [Bacillus
amyloliquefaciens subsp. plantarum YAU B9601-Y2]
gi|387898123|ref|YP_006328419.1| ribosomal large subunit pseudouridine synthase D [Bacillus
amyloliquefaciens Y2]
gi|380498480|emb|CCG49518.1| ribosomal large subunit pseudouridine synthase D [Bacillus
amyloliquefaciens subsp. plantarum YAU B9601-Y2]
gi|387172233|gb|AFJ61694.1| ribosomal large subunit pseudouridine synthase D [Bacillus
amyloliquefaciens Y2]
Length = 304
Score = 186 bits (472), Expect = 1e-44, Method: Compositional matrix adjust.
Identities = 115/277 (41%), Positives = 158/277 (57%), Gaps = 32/277 (11%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q E TV + R+D +++S + SR +VQ ++ GLVS+NG+ V K ++ ++ GD V
Sbjct: 3 QFEITVQPEQKSERIDKFLASTGENWSRTQVQQWVKEGLVSVNGKSV-KANYKMQPGDQV 61
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
N TI E + L AE + LDI YED +VLVVNKP MVVHPAPG+ TGTLVNG++ HC+
Sbjct: 62 NVTIPEPEELDVLAEPMDLDIYYEDQDVLVVNKPRGMVVHPAPGHVTGTLVNGLMAHCN- 120
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 121 ---------------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESL 157
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
Q T+ R Y ++ G+ S G I+ PI RD +R M S+K +A +
Sbjct: 158 VNQLVNKTVTRKYTAVVHGMISHDDGTIDAPIGRDKKDRQSMTVTRESSK-----NAVTH 212
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ V+E LVE RLETGRTHQ+ + K P
Sbjct: 213 FHVLERFQ--DFTLVECRLETGRTHQIRVHMKYIGFP 247
>gi|319789350|ref|YP_004150983.1| pseudouridine synthase, RluA family [Thermovibrio ammonificans
HB-1]
gi|317113852|gb|ADU96342.1| pseudouridine synthase, RluA family [Thermovibrio ammonificans
HB-1]
Length = 314
Score = 186 bits (472), Expect = 1e-44, Method: Compositional matrix adjust.
Identities = 104/256 (40%), Positives = 149/256 (58%), Gaps = 30/256 (11%)
Query: 70 KLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLR 129
K RLD +++ ISR++ + I GLV +NG+ V K ++ VK G+ V + E +P+
Sbjct: 8 KQRLDQFVAEAAQ-ISRSQAKEIIEKGLVKVNGKTVQKPAYKVKEGERVEFEVPEPEPIE 66
Query: 130 AEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAF 189
+ E IPL+++YED +V+V+NKPA MVVHPAPG+ +GTLVN +LHHC
Sbjct: 67 VKPEAIPLEVIYEDQDVIVINKPAGMVVHPAPGHYSGTLVNALLHHC------------- 113
Query: 190 SDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIER 249
D I G ++RPGIVHRLDK T+GL+VVAK++ + L EQFK ++ R
Sbjct: 114 KDLGGI-----------GGALRPGIVHRLDKDTAGLIVVAKNDLAQQSLIEQFKNRSVGR 162
Query: 250 VYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGG 309
Y +L G+P + RI +PI RD +R + + S K A + Y VIE
Sbjct: 163 FYRALIYGIPKREHDRIVLPIGRDKFDRKKFSPNTTSPK-----EAITNYWVIEKFPEHN 217
Query: 310 SALVEWRLETGRTHQV 325
A ++ +LETGRTHQ+
Sbjct: 218 VAEIKCKLETGRTHQI 233
>gi|222054127|ref|YP_002536489.1| RluA family pseudouridine synthase [Geobacter daltonii FRC-32]
gi|221563416|gb|ACM19388.1| pseudouridine synthase, RluA family [Geobacter daltonii FRC-32]
Length = 319
Score = 186 bits (472), Expect = 1e-44, Method: Compositional matrix adjust.
Identities = 110/266 (41%), Positives = 159/266 (59%), Gaps = 32/266 (12%)
Query: 60 LEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
+E TV RLD++I+ ++ ++RA VQ + SG++++NG + K S +KGG+ +
Sbjct: 4 IELTVPENTEAERLDSYIARTVETLTRAAVQRLMESGMITVNG-MPPKPSLKLKGGEQLK 62
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
+ E+IPL+I+YED +++VVNK A MVVHP GN+ GTLVN +L HC+
Sbjct: 63 IAVPPPVEAGPAPENIPLEILYEDRDLVVVNKGAGMVVHPGAGNSGGTLVNALLGHCT-- 120
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
D+S G +RPGIVHR+DK TSG+LVVAK++ SH LS
Sbjct: 121 --------------DLSG--------IGGELRPGIVHRIDKDTSGILVVAKNDASHLALS 158
Query: 240 EQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRY 299
EQF+ H+I+R+YI++ G P SGR+E I R P +R RM+ G +HG +HA + +
Sbjct: 159 EQFREHSIKRIYIAIVYGSPKTDSGRLESIIGRHPVDRKRMS---GKARHG--KHAVTHW 213
Query: 300 KVIEILAGGGSALVEWRLETGRTHQV 325
+VI G L+ RLETGRTHQ+
Sbjct: 214 RVIGRYP--GMCLIRLRLETGRTHQI 237
>gi|125973425|ref|YP_001037335.1| ribosomal large subunit pseudouridine synthase D [Clostridium
thermocellum ATCC 27405]
gi|256004403|ref|ZP_05429384.1| pseudouridine synthase, RluA family [Clostridium thermocellum DSM
2360]
gi|281417627|ref|ZP_06248647.1| pseudouridine synthase, RluA family [Clostridium thermocellum JW20]
gi|385778659|ref|YP_005687824.1| RluA family pseudouridine synthase [Clostridium thermocellum DSM
1313]
gi|419722986|ref|ZP_14250122.1| pseudouridine synthase, RluA family [Clostridium thermocellum AD2]
gi|419724666|ref|ZP_14251725.1| pseudouridine synthase, RluA family [Clostridium thermocellum YS]
gi|125713650|gb|ABN52142.1| pseudouridine synthase, RluA family [Clostridium thermocellum ATCC
27405]
gi|255991687|gb|EEU01788.1| pseudouridine synthase, RluA family [Clostridium thermocellum DSM
2360]
gi|281409029|gb|EFB39287.1| pseudouridine synthase, RluA family [Clostridium thermocellum JW20]
gi|316940339|gb|ADU74373.1| pseudouridine synthase, RluA family [Clostridium thermocellum DSM
1313]
gi|380771885|gb|EIC05746.1| pseudouridine synthase, RluA family [Clostridium thermocellum YS]
gi|380781043|gb|EIC10705.1| pseudouridine synthase, RluA family [Clostridium thermocellum AD2]
Length = 303
Score = 186 bits (472), Expect = 1e-44, Method: Compositional matrix adjust.
Identities = 107/255 (41%), Positives = 153/255 (60%), Gaps = 31/255 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
+R+DAW+ ++ SR+ +Q I G++ +NG+ V K ++ +K D + I E Q L
Sbjct: 13 IRIDAWLCGKVKDYSRSYIQKLINDGMILVNGKPV-KSNYKIKQNDEILARIPEPQVLDV 71
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
AEDI + I+YED++++VV+KP MVVHPA GN +GTLVN +L HC
Sbjct: 72 VAEDIDVPILYEDEHIIVVDKPKGMVVHPAAGNYSGTLVNALLKHCGTNL---------- 121
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
S+I+G IRPGIVHR+DK TSG+LVVAK +H LSE+ K H IERV
Sbjct: 122 ------------SNINGI-IRPGIVHRIDKDTSGVLVVAKSNAAHEGLSEKLKDHDIERV 168
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
YI++ G+ + G+I+ PI R P +R +MA + K+G R A +R+KV+E +
Sbjct: 169 YIAVVHGIIREDYGKIDAPIGRHPVDRKKMAV---NTKNG--RRAVTRFKVLERFK--DA 221
Query: 311 ALVEWRLETGRTHQV 325
+E LETGRTHQ+
Sbjct: 222 TYIEATLETGRTHQI 236
>gi|300854258|ref|YP_003779242.1| ribosomal large subunit pseudouridine synthase D [Clostridium
ljungdahlii DSM 13528]
gi|300434373|gb|ADK14140.1| ribosomal large subunit pseudouridine synthase D [Clostridium
ljungdahlii DSM 13528]
Length = 302
Score = 186 bits (472), Expect = 1e-44, Method: Compositional matrix adjust.
Identities = 105/255 (41%), Positives = 152/255 (59%), Gaps = 33/255 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
+RLD ++S SR+ +Q+ I LV +NG+ K ++ +K GD + TI + L
Sbjct: 15 MRLDVFLSKCFQDKSRSYIQNVIEYKLVEVNGKA-KKSNYKIKSGDNIEITIPDPVNLNI 73
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
++EDIPLDI+YED +V+VVNKP M+VHPAPG GTLVN +L+HC
Sbjct: 74 QSEDIPLDILYEDKDVIVVNKPQGMIVHPAPGVYEGTLVNALLNHC-------------- 119
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
D+ S I+G + RPGIVHR+DK TSG+LVVAK+++SH L++Q K H++ R
Sbjct: 120 --RDL-------SGINGVT-RPGIVHRIDKDTSGILVVAKNDNSHNKLAKQLKDHSMTRE 169
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
YI+L GV G ++ PI+R P ++I+MA + A + YKVI+ +
Sbjct: 170 YIALVEGVVKLDEGTVDEPIARHPKDKIKMAVCV------NGKRAITHYKVIKRFK--NN 221
Query: 311 ALVEWRLETGRTHQV 325
L++ LETGRTHQ+
Sbjct: 222 TLIKCILETGRTHQI 236
>gi|310828904|ref|YP_003961261.1| ribosomal large subunit pseudouridine synthase D [Eubacterium
limosum KIST612]
gi|308740638|gb|ADO38298.1| ribosomal large subunit pseudouridine synthase D [Eubacterium
limosum KIST612]
Length = 307
Score = 186 bits (471), Expect = 2e-44, Method: Compositional matrix adjust.
Identities = 106/261 (40%), Positives = 159/261 (60%), Gaps = 32/261 (12%)
Query: 65 DTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISE 124
+ KAG +RLDA+ + + SR +++ + G V ++G K S+ +KG +++ I E
Sbjct: 10 EEKAG-VRLDAYCAEQEPDFSRGYIKNLLNEGAVKVDGGQ-KKASYKLKGKEIITMEIPE 67
Query: 125 LQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASS 184
E E+IPL+I+YED++V+VVNKP MVVHPAPG+ +GTLVN ++HH T A S
Sbjct: 68 PAESTIEPENIPLEIIYEDEDVIVVNKPKGMVVHPAPGSPSGTLVNALMHH----TGALS 123
Query: 185 NQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKL 244
N I+G RPGI+HR+DK TSGLL+VAK+ +H +L+EQ K
Sbjct: 124 N-------------------INGV-YRPGIIHRIDKDTSGLLMVAKNNAAHQNLTEQLKA 163
Query: 245 HTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEI 304
HTI R Y +L G+ + G I++PI R P +R+RMA + ++K A + ++ ++
Sbjct: 164 HTITRQYKALVKGIMENNRGTIDMPIGRHPKDRVRMAVVKENSK-----EAVTHFETLKR 218
Query: 305 LAGGGSALVEWRLETGRTHQV 325
A G L+++RLETGRTHQ+
Sbjct: 219 YA-EGYTLMQFRLETGRTHQI 238
>gi|317056645|ref|YP_004105112.1| RluA family pseudouridine synthase [Ruminococcus albus 7]
gi|315448914|gb|ADU22478.1| pseudouridine synthase, RluA family [Ruminococcus albus 7]
Length = 304
Score = 186 bits (471), Expect = 2e-44, Method: Compositional matrix adjust.
Identities = 105/254 (41%), Positives = 150/254 (59%), Gaps = 31/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D +S ++ +SR+ +Q + G V +NG +VSK ++ +K D ++ I E + L+AE
Sbjct: 17 RIDKVLSKQLPEMSRSSLQKLVNDGCVLVNGNIVSK-NYKIKNSDTISVEIPEAEELKAE 75
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
+DIP+DIVYEDD++LVVNKP MVVHPA GN GTLVN +L HC
Sbjct: 76 PQDIPIDIVYEDDSLLVVNKPQGMVVHPAAGNPDGTLVNALLFHCKGRL----------- 124
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
SSI+G IRPGIVHR+DK TSGLL+VAK + +H L++Q K H R Y
Sbjct: 125 -----------SSINGV-IRPGIVHRIDKFTSGLLMVAKTDKAHNFLAQQIKDHNFTREY 172
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++ G + +G + PI R +R +M + + A + Y+V+E L G +
Sbjct: 173 NAICIGRFKEPTGTVNEPIGRSKFDRKKMCVT-----YQNCKEAVTHYEVLEDL--GQYS 225
Query: 312 LVEWRLETGRTHQV 325
LV++RLETGRTHQ+
Sbjct: 226 LVKFRLETGRTHQI 239
>gi|308173508|ref|YP_003920213.1| pseudouridylate synthase [Bacillus amyloliquefaciens DSM 7]
gi|384159472|ref|YP_005541545.1| pseudouridylate synthase [Bacillus amyloliquefaciens TA208]
gi|384164092|ref|YP_005545471.1| pseudouridylate synthase [Bacillus amyloliquefaciens LL3]
gi|384168520|ref|YP_005549898.1| pseudouridylate synthase [Bacillus amyloliquefaciens XH7]
gi|307606372|emb|CBI42743.1| pseudouridylate synthase [Bacillus amyloliquefaciens DSM 7]
gi|328553560|gb|AEB24052.1| pseudouridylate synthase [Bacillus amyloliquefaciens TA208]
gi|328911647|gb|AEB63243.1| pseudouridylate synthase [Bacillus amyloliquefaciens LL3]
gi|341827799|gb|AEK89050.1| putative pseudouridylate synthase [Bacillus amyloliquefaciens XH7]
Length = 304
Score = 186 bits (471), Expect = 2e-44, Method: Compositional matrix adjust.
Identities = 115/277 (41%), Positives = 159/277 (57%), Gaps = 32/277 (11%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q E TV + R+D +++S + SR +VQ ++ GLVS+NG+ V K ++ ++ GD V
Sbjct: 3 QFEITVQPEQKSERIDKFLASTGENWSRTQVQQWVKEGLVSVNGKSV-KANYKMQPGDQV 61
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
N TI E + L AE + LDI YED +VLVVNKP MVVHPAPG+ TGTLVNG++ HC+
Sbjct: 62 NVTIPEPEELDVLAEPMDLDIYYEDQDVLVVNKPRGMVVHPAPGHVTGTLVNGLMAHCN- 120
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 121 ---------------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESL 157
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
Q T+ R Y ++ GV S G I+ PI RD +R M + G +++A +
Sbjct: 158 VNQLVNKTVTRKYTAVVHGVISHDDGTIDAPIGRDKKDRQSMTV----TREG-SKNAVTH 212
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ V+E LVE RLETGRTHQ+ + K P
Sbjct: 213 FHVLERFQ--DFTLVECRLETGRTHQIRVHMKYIGFP 247
>gi|375362190|ref|YP_005130229.1| ribosomal large subunit pseudouridine synthase D [Bacillus
amyloliquefaciens subsp. plantarum CAU B946]
gi|421731785|ref|ZP_16170908.1| ribosomal large subunit pseudouridine synthase D [Bacillus
amyloliquefaciens subsp. plantarum M27]
gi|451347084|ref|YP_007445715.1| ribosomal large subunit pseudouridine synthase D [Bacillus
amyloliquefaciens IT-45]
gi|371568184|emb|CCF05034.1| ribosomal large subunit pseudouridine synthase D [Bacillus
amyloliquefaciens subsp. plantarum CAU B946]
gi|407073998|gb|EKE46988.1| ribosomal large subunit pseudouridine synthase D [Bacillus
amyloliquefaciens subsp. plantarum M27]
gi|449850842|gb|AGF27834.1| ribosomal large subunit pseudouridine synthase D [Bacillus
amyloliquefaciens IT-45]
Length = 304
Score = 186 bits (471), Expect = 2e-44, Method: Compositional matrix adjust.
Identities = 115/277 (41%), Positives = 158/277 (57%), Gaps = 32/277 (11%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q E TV + R+D +++S + SR +VQ ++ GLVS+NG+ V K ++ ++ GD V
Sbjct: 3 QFEITVQPEQKSERIDKFLASTGENWSRTQVQQWVKEGLVSVNGKSV-KANYKMQPGDQV 61
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
N TI E + L AE + LDI YED +VLVVNKP MVVHPAPG+ TGTLVNG++ HC+
Sbjct: 62 NVTIPEPEELDVLAEPMDLDIYYEDQDVLVVNKPRGMVVHPAPGHVTGTLVNGLMAHCN- 120
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 121 ---------------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESL 157
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
Q T+ R Y ++ G+ S G I+ PI RD +R M S+K +A +
Sbjct: 158 VNQLVNKTVTRKYTAVVHGLISHDDGTIDAPIGRDKKDRQSMTVTRESSK-----NAVTH 212
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ V+E LVE RLETGRTHQ+ + K P
Sbjct: 213 FHVLERFQ--DFTLVECRLETGRTHQIRVHMKYIGFP 247
>gi|254495420|ref|ZP_05108344.1| ribosomal large subunit pseudouridine synthase D [Polaribacter sp.
MED152]
gi|85819775|gb|EAQ40932.1| ribosomal large subunit pseudouridine synthase D [Polaribacter sp.
MED152]
Length = 345
Score = 186 bits (471), Expect = 2e-44, Method: Compositional matrix adjust.
Identities = 116/265 (43%), Positives = 158/265 (59%), Gaps = 40/265 (15%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
LR+D ++ + I+ +R +VQ + ++G V +N + K +H VK D+V ++ P A
Sbjct: 29 LRVDKFLMNFIENATRNKVQQAAKAGNVLVN-DIAVKSNHKVKPKDVVRVVLA-YPP--A 84
Query: 131 E----AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC-SLPTLASSN 185
E AEDIPLDI+YEDD V+VVNKPA MVVHP GN +GTLVNG++HH +LPT +SN
Sbjct: 85 ENLLVAEDIPLDIIYEDDAVIVVNKPAGMVVHPGHGNYSGTLVNGLIHHIENLPT--NSN 142
Query: 186 QEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLH 245
+ RPG+VHR+DK TSGLLVVAK E + AHLS+QF
Sbjct: 143 E------------------------RPGLVHRIDKDTSGLLVVAKTEFAMAHLSKQFFDR 178
Query: 246 TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEIL 305
T ER+Y +L G + GRIE I R NR++MA P + +HA + +KV+E L
Sbjct: 179 TTERLYYALVWGNIEEDEGRIEGNIGRSLKNRLQMAVFPDGDF---GKHAVTHFKVLERL 235
Query: 306 AGGGSALVEWRLETGRTHQVLMLYK 330
LV+ +LETGRTHQ+ +K
Sbjct: 236 T--YVTLVQCKLETGRTHQIRAHFK 258
>gi|392394868|ref|YP_006431470.1| ribosomal large subunit pseudouridine synthase D
[Desulfitobacterium dehalogenans ATCC 51507]
gi|390525946|gb|AFM01677.1| ribosomal large subunit pseudouridine synthase D
[Desulfitobacterium dehalogenans ATCC 51507]
Length = 344
Score = 186 bits (471), Expect = 2e-44, Method: Compositional matrix adjust.
Identities = 109/254 (42%), Positives = 150/254 (59%), Gaps = 33/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++ + G SR+ +Q I G V +NG K ++ V+ D + + + L+ E
Sbjct: 53 RLDVGVTEVV-GKSRSFIQGLIEDGHVLVNG-ASKKSNYKVRTKDKITVVLPPPKELQVE 110
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AEDIPL+I+YED++VLVVNKP MVVHPAPG T TLVN +L+HC
Sbjct: 111 AEDIPLEILYEDEDVLVVNKPQGMVVHPAPGAWTKTLVNALLYHCR-------------- 156
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
S I+G +RPGIVHR+DK TSGLLVVAK++ +H L+EQ K H++ R Y
Sbjct: 157 ---------NLSGINGV-LRPGIVHRIDKDTSGLLVVAKNDLAHQGLAEQIKAHSMARRY 206
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+++ GV + SG +E PI RDP +R +MA + A+ A + YKV+E
Sbjct: 207 LAIVHGVVFEPSGTVEAPIGRDPADRKKMAVV-----FQNAKEAVTHYKVLERFR--DFT 259
Query: 312 LVEWRLETGRTHQV 325
L+E RLETGRTHQ+
Sbjct: 260 LIEARLETGRTHQI 273
>gi|392426940|ref|YP_006467934.1| ribosomal large subunit pseudouridine synthase D [Desulfosporosinus
acidiphilus SJ4]
gi|391356903|gb|AFM42602.1| ribosomal large subunit pseudouridine synthase D [Desulfosporosinus
acidiphilus SJ4]
Length = 324
Score = 186 bits (471), Expect = 2e-44, Method: Compositional matrix adjust.
Identities = 109/255 (42%), Positives = 152/255 (59%), Gaps = 33/255 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
LRLD +++ + G SR+ VQ I + +NG + K ++ ++ GD + TI +P A
Sbjct: 36 LRLDVGVTNVL-GKSRSFVQDLIAKECIKVNG-LSKKGNYKIRKGDRIEATIPIPRPAAA 93
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
E E+IPLDI+YEDD+VLVVNKP MVVHPAPG TGTLVN +L HC
Sbjct: 94 EPENIPLDILYEDDDVLVVNKPQGMVVHPAPGAWTGTLVNALLFHC-------------- 139
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
S I+G +RPGIVHR+DK TSG+LVVAK++ +H L+ Q K H++ER
Sbjct: 140 ---------RNLSGINGV-LRPGIVHRIDKDTSGILVVAKNDEAHQSLAAQLKEHSMERF 189
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y+++ GV + SG + PI RDP++R RMA + ++ A + YKV+E +
Sbjct: 190 YLAVAHGVIHEPSGTVNAPIGRDPSDRKRMAVV-----MHHSKTAVTHYKVLERYK--DA 242
Query: 311 ALVEWRLETGRTHQV 325
+E LETGRTHQ+
Sbjct: 243 TYLEVHLETGRTHQI 257
>gi|366162122|ref|ZP_09461877.1| ribosomal large subunit pseudouridine synthase D [Acetivibrio
cellulolyticus CD2]
Length = 304
Score = 186 bits (471), Expect = 2e-44, Method: Compositional matrix adjust.
Identities = 107/255 (41%), Positives = 150/255 (58%), Gaps = 31/255 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
+R+DAWISSR+ SR+ +Q + G V +NG +V K ++ +K D + I E + L
Sbjct: 13 VRIDAWISSRLKEYSRSYIQKLLNDGHVLVNGSLV-KSNYKIKSSDEITVQIPEPEVLDI 71
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
E+I + ++YED++VLVVNKP MVVHPA GN +GTLVN ++ +C
Sbjct: 72 VPENIEIPVLYEDEHVLVVNKPKGMVVHPAAGNYSGTLVNALMDYCG------------- 118
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
+ SSI+G IRPGIVHR+DK TSG+LVVAK +H LS + K H I RV
Sbjct: 119 ---------DSLSSINGV-IRPGIVHRIDKDTSGVLVVAKSNEAHEKLSLKLKDHDINRV 168
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y++L G+ + SG+I+ PI R P +R +MA R A + +KV+E +
Sbjct: 169 YVALVHGIIREESGKIDAPIGRHPVDRKKMAV-----NTNNGRRAVTYFKVLERFK--DA 221
Query: 311 ALVEWRLETGRTHQV 325
LVE +LETGRTHQ+
Sbjct: 222 TLVEVKLETGRTHQI 236
>gi|422843703|ref|ZP_16890413.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
delbrueckii subsp. lactis DSM 20072]
gi|325686216|gb|EGD28262.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
delbrueckii subsp. lactis DSM 20072]
Length = 304
Score = 185 bits (470), Expect = 2e-44, Method: Compositional matrix adjust.
Identities = 101/254 (39%), Positives = 157/254 (61%), Gaps = 33/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +++ + +SR+R++ +++G V +NG+ SKVS+ V+ GD++ T+ L+PL+ E
Sbjct: 15 RLDKYLAGEMIDLSRSRIKELVQAGEVLVNGKK-SKVSYKVQKGDLIQVTVLPLEPLKLE 73
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AE+IPLDIVYED++++VVNKP MVVHPA G+ + TLVN +L+H
Sbjct: 74 AENIPLDIVYEDEDIIVVNKPQGMVVHPAVGHPSHTLVNALLYHTR-------------- 119
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
D++D E RPGIVHR+DK TSGLL+VAK+ + L +Q + +R Y
Sbjct: 120 --DLADSPE--------GFRPGIVHRIDKDTSGLLMVAKNAAARESLEKQLAAKSNKRQY 169
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+++ G ++ G I+ PI R+P +R +MA + + + A + +KV+E G +
Sbjct: 170 LAIVHGNFAEEEGTIDAPIGRNPKDRKQMAVVE------KGKSAVTHFKVLEQYQ--GYS 221
Query: 312 LVEWRLETGRTHQV 325
LVE +LETGRTHQ+
Sbjct: 222 LVECQLETGRTHQI 235
>gi|268317176|ref|YP_003290895.1| RluA family pseudouridine synthase [Rhodothermus marinus DSM 4252]
gi|262334710|gb|ACY48507.1| pseudouridine synthase, RluA family [Rhodothermus marinus DSM 4252]
Length = 355
Score = 185 bits (470), Expect = 2e-44, Method: Compositional matrix adjust.
Identities = 114/271 (42%), Positives = 166/271 (61%), Gaps = 11/271 (4%)
Query: 58 VQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDM 117
+QLE + G RLDA+++ + SR ++Q IR G V++NG VV K ++ V+ GD+
Sbjct: 8 IQLEVPPGYREGG-RLDAYLARFLAQASRTKIQRGIREGRVTVNGVVVQKPAYTVQPGDV 66
Query: 118 VNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCS 177
+ I P+ E IPLDIVYED ++VVNK A +VVHPA GN +GTLVN +L++
Sbjct: 67 ITLRILRPPPVEIVPEPIPLDIVYEDPYLIVVNKQAGLVVHPARGNRSGTLVNALLYYIG 126
Query: 178 LPTLASSNQEAFSDAEDISDDEEFSSSISGASI---RPGIVHRLDKGTSGLLVVAKDEHS 234
+ ++ + ++I S+ + A + RPGIVHRLDK T+GL+VVAKD+ +
Sbjct: 127 SGPVRFDEEDDLPEDDEIGLS-MVSTGPTEAKLEAPRPGIVHRLDKDTTGLIVVAKDDVT 185
Query: 235 HAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARH 294
H L+ QF+ TI R Y+++ GVP GRIE I RDP +R RMA +P + +
Sbjct: 186 HTGLARQFEHRTIARTYLAIVWGVPDPPRGRIEAAIGRDPRDRQRMAVVPDD----RGKR 241
Query: 295 AASRYKVIEILAGGGSALVEWRLETGRTHQV 325
A + Y+V+E L +ALV ++LETGRTHQ+
Sbjct: 242 AVTHYEVVEALP--AAALVRFKLETGRTHQI 270
>gi|357041028|ref|ZP_09102810.1| pseudouridine synthase, RluA family [Desulfotomaculum gibsoniae DSM
7213]
gi|355355887|gb|EHG03690.1| pseudouridine synthase, RluA family [Desulfotomaculum gibsoniae DSM
7213]
Length = 312
Score = 185 bits (470), Expect = 2e-44, Method: Compositional matrix adjust.
Identities = 108/262 (41%), Positives = 157/262 (59%), Gaps = 32/262 (12%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
VD +RLD +++ + + +SR+ VQ I G V++N + V + ++ +K GD V +
Sbjct: 9 VDAGDAGVRLDVFVAFKEEQLSRSFVQKLIGDGAVTVNQEAV-RANYRLKEGDTVAVVVP 67
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
L+ E IPLDI YED +++VVNKP MVVHPA GN +GTLVN +LHHC
Sbjct: 68 PPVELKVCPEPIPLDIFYEDKDIIVVNKPRGMVVHPAEGNYSGTLVNALLHHC------- 120
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
+D+S I+G +RPGIVHR+DK TSGLL+VAK++ +H HL+ Q K
Sbjct: 121 ---------QDLS-------GINGV-LRPGIVHRIDKDTSGLLMVAKNDLAHEHLAGQLK 163
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
HT+ R Y++L GV + G ++ PI R P R +MA +N++G+A A + Y+V+
Sbjct: 164 EHTVRRGYLALVHGVLTSDLGVVDAPIGRHPRERQKMAV---TNRNGKA--AVTHYRVLN 218
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
G L++ RLETGRTHQ+
Sbjct: 219 --RAGNYTLLQLRLETGRTHQI 238
>gi|345021939|ref|ZP_08785552.1| hypothetical protein OTW25_11464 [Ornithinibacillus scapharcae
TW25]
Length = 299
Score = 185 bits (470), Expect = 2e-44, Method: Compositional matrix adjust.
Identities = 106/275 (38%), Positives = 159/275 (57%), Gaps = 33/275 (12%)
Query: 61 EETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNC 120
+ V K+RLD ++ SR++VQ I SGLV +NG V++K ++ + GD++
Sbjct: 4 QHVVTDTQNKMRLDKLLAEVNPEQSRSQVQGWITSGLVKVNG-VIAKANYKCQQGDVITW 62
Query: 121 TISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPT 180
+ E++ L + E+IPLDIVYED +V+V+NKP MVVHP+ G+ +GTLVN +L+HC
Sbjct: 63 QLPEVKELEIQPENIPLDIVYEDQDVIVINKPKGMVVHPSAGHQSGTLVNALLYHC---- 118
Query: 181 LASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSE 240
+D+ S I+G RPGIVHR+DK TSGLLVVAK++ +HA L+E
Sbjct: 119 ------------KDL-------SGINGVE-RPGIVHRIDKDTSGLLVVAKNDKAHASLAE 158
Query: 241 QFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYK 300
Q +ER Y ++ GV + +G ++ PI RDP +R RM + RHA + +
Sbjct: 159 QLSKKDVERRYEAVVHGVINHDTGMVDAPIGRDPKDRQRMGIV------DNGRHAVTHFL 212
Query: 301 VIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
V++ +E +LETGRTHQ+ + + P
Sbjct: 213 VLQRFK--EFTHIECKLETGRTHQIRVHMRYIGFP 245
>gi|20807974|ref|NP_623145.1| pseudouridylate synthase [Thermoanaerobacter tengcongensis MB4]
gi|20516547|gb|AAM24749.1| Pseudouridylate synthase, 23S RNA-specific [Thermoanaerobacter
tengcongensis MB4]
Length = 309
Score = 185 bits (470), Expect = 3e-44, Method: Compositional matrix adjust.
Identities = 104/254 (40%), Positives = 152/254 (59%), Gaps = 34/254 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D +++S +D SR+ ++ I GLV +NG+ V K S+ VK D V I E + +
Sbjct: 19 RIDVFLASELD-YSRSYIKKLIEEGLVLVNGKNV-KPSYKVKEDDEVIVNIKEAEKIEVV 76
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E+IPLDI+YED++++V+NKP MVVHPAPGN +GTLVN +L+HC
Sbjct: 77 PENIPLDILYEDEDIIVINKPQGMVVHPAPGNYSGTLVNALLYHC--------------- 121
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+ S I+G +RPGIVHRLDK TSG++VVAK++ +H LS Q K ++ + Y
Sbjct: 122 --------KNLSGINGI-LRPGIVHRLDKDTSGVMVVAKNDKAHMSLSNQIKERSVLKKY 172
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+++ GV + G+IE PI R P +R RMA + R+A + YKV+E +
Sbjct: 173 VAIVEGVIKEEEGKIEAPIGRHPVDRKRMAVVQ------DGRYALTLYKVLERFK--NNT 224
Query: 312 LVEWRLETGRTHQV 325
VE ++TGRTHQ+
Sbjct: 225 FVEATIKTGRTHQI 238
>gi|187932847|ref|YP_001886621.1| ribosomal large subunit pseudouridine synthase D [Clostridium
botulinum B str. Eklund 17B]
gi|187721000|gb|ACD22221.1| ribosomal large subunit pseudouridine synthase D [Clostridium
botulinum B str. Eklund 17B]
Length = 302
Score = 185 bits (470), Expect = 3e-44, Method: Compositional matrix adjust.
Identities = 103/255 (40%), Positives = 152/255 (59%), Gaps = 32/255 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
+R+D ++S ++G SR+ +Q I + +N +++ K ++ +K D + T+ E + L+
Sbjct: 15 IRIDKYLSEMLNGKSRSFIQGLIEKESIKVNDKLI-KNNYKLKACDEIVITMPEAETLKV 73
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
E+EDI LDI+YED +V+VVNK MVVHPAPGN GTLVN +L HC+
Sbjct: 74 ESEDIDLDILYEDKDVIVVNKEQGMVVHPAPGNYNGTLVNALLFHCT------------- 120
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
D+ SSI+G IRPGIVHR+DK TSG+LV+AK++ SH L+ Q K H++ R
Sbjct: 121 ---DL-------SSINGV-IRPGIVHRIDKDTSGVLVIAKNDESHNKLAAQLKDHSMNRE 169
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y +L G SG I+ P+ RD NR+++A R A + Y+V+E G
Sbjct: 170 YYALVEGRFKNDSGIIDKPLGRDKKNRLKIAITE------DGRRAITHYEVLE-RYDTGC 222
Query: 311 ALVEWRLETGRTHQV 325
L++ +LETGRTHQ+
Sbjct: 223 TLIKCKLETGRTHQI 237
>gi|366088576|ref|ZP_09455049.1| ribosomal large subunit pseudouridine synthase [Lactobacillus
acidipiscis KCTC 13900]
Length = 300
Score = 185 bits (469), Expect = 3e-44, Method: Compositional matrix adjust.
Identities = 106/256 (41%), Positives = 147/256 (57%), Gaps = 34/256 (13%)
Query: 70 KLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLR 129
K RLD +S+ SR+ ++ + G + +NGQ K + VK GD V E+ L
Sbjct: 10 KGRLDQVLSAAFPEFSRSMIKKLLLDGKILVNGQQ-EKPRYQVKDGDQVTINEPEVHKLD 68
Query: 130 AEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAF 189
A+DIPLDIVYEDD+VLVVNKPA MVVHPAPG+ TLVN +L+HC L
Sbjct: 69 LVAQDIPLDIVYEDDDVLVVNKPAGMVVHPAPGHPDQTLVNALLYHCPL----------- 117
Query: 190 SDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIER 249
S I+G ++RPGIVHR+D+ TSGLL+VAK++H+H L++Q K T R
Sbjct: 118 -------------SKING-TLRPGIVHRIDRDTSGLLMVAKNDHAHHSLAQQLKDKTTIR 163
Query: 250 VYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGG 309
YI+L G+ + G + P++R P +R + A + G R A + ++V+
Sbjct: 164 YYIALVHGIIKEDHGTVNAPLARSPKDRKKQAVVAG------GRRAVTHFEVLRRYQ--N 215
Query: 310 SALVEWRLETGRTHQV 325
LV+ RLETGRTHQ+
Sbjct: 216 YTLVKCRLETGRTHQI 231
>gi|51892381|ref|YP_075072.1| 23S rRNA pseudouridine synthase [Symbiobacterium thermophilum IAM
14863]
gi|51856070|dbj|BAD40228.1| 23S rRNA pseudouridine synthase [Symbiobacterium thermophilum IAM
14863]
Length = 304
Score = 185 bits (469), Expect = 3e-44, Method: Compositional matrix adjust.
Identities = 111/266 (41%), Positives = 155/266 (58%), Gaps = 33/266 (12%)
Query: 61 EETVDTKAGKLRLDAWISSRID-GISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
E + + G R+D +++ R + G+SR+R+Q+ I G V++NG + K V GD++
Sbjct: 3 EYRITAEEGHPRIDVFLAGRPEIGLSRSRIQALIDEGQVTLNG-AMPKARQAVNPGDVIV 61
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
+ + +P+ EDIPLDIVYED+++LVVNK +VVHPA G+ TGTLV+ +L
Sbjct: 62 VRVPDPEPMELVPEDIPLDIVYEDEDILVVNKQRGLVVHPAAGHWTGTLVHALL------ 115
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
+ D E I G +RPGIVHRLDK T+GLLVVAK E + A L
Sbjct: 116 -------DKVDDLEGI-----------GGELRPGIVHRLDKDTTGLLVVAKSERAMASLQ 157
Query: 240 EQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRY 299
EQ + H ++RVY +L G +GRIE PI R P +R RMA P + R A + +
Sbjct: 158 EQIRDHMVQRVYWALVHGNSMPDTGRIEAPIGRHPRDRKRMAVNPKT-----GRDAVTYF 212
Query: 300 KVIEILAGGGSALVEWRLETGRTHQV 325
+V+E G AL+E RLETGRTHQ+
Sbjct: 213 RVLERYR--GYALLECRLETGRTHQI 236
>gi|440681498|ref|YP_007156293.1| ribosomal large subunit pseudouridine synthase D [Anabaena
cylindrica PCC 7122]
gi|428678617|gb|AFZ57383.1| ribosomal large subunit pseudouridine synthase D [Anabaena
cylindrica PCC 7122]
Length = 306
Score = 185 bits (469), Expect = 3e-44, Method: Compositional matrix adjust.
Identities = 102/255 (40%), Positives = 148/255 (58%), Gaps = 31/255 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++S + +SR+RVQ I G V +N ++ + ++ GD ++ I QPL+
Sbjct: 14 RLDRYLSEELPDVSRSRVQQLIEQGHVQVNNKICTSKKIHLNAGDRISLEIPAAQPLKLV 73
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC-SLPTLASSNQEAFS 190
AEDIPLDI+YEDD +L++NKPA +VVHPAPG+ GTLVN +L HC +LP +
Sbjct: 74 AEDIPLDILYEDDQLLILNKPAGLVVHPAPGHPDGTLVNALLAHCPNLPGI--------- 124
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
G RPGIVHRLDK T+G + +AK + ++ L Q + T +R
Sbjct: 125 ----------------GGVQRPGIVHRLDKDTTGAIAIAKTDIAYQSLQAQLQAKTAKRE 168
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y+ + GVP +G I++PI R+P +R +MA IP R A + ++V E L G
Sbjct: 169 YLGVIYGVPKTENGIIDLPIGRNPQDRKKMAIIPIEEG---GRSAITHWQVRERL--GNY 223
Query: 311 ALVEWRLETGRTHQV 325
L+ ++LETGRTHQ+
Sbjct: 224 TLIHFQLETGRTHQI 238
>gi|254478536|ref|ZP_05091911.1| pseudouridine synthase, RluA family [Carboxydibrachium pacificum
DSM 12653]
gi|214035544|gb|EEB76243.1| pseudouridine synthase, RluA family [Carboxydibrachium pacificum
DSM 12653]
Length = 309
Score = 185 bits (469), Expect = 3e-44, Method: Compositional matrix adjust.
Identities = 104/254 (40%), Positives = 152/254 (59%), Gaps = 34/254 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D +++S +D SR+ ++ I GLV +NG+ V K S+ VK D V I E + +
Sbjct: 19 RIDVFLASELD-YSRSYIKKLIEEGLVLVNGKNV-KPSYKVKEDDEVVVNIPEAEKIEVV 76
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E+IPLDI+YED++++V+NKP MVVHPAPGN +GTLVN +L+HC
Sbjct: 77 PENIPLDILYEDEDIIVINKPQGMVVHPAPGNYSGTLVNALLYHC--------------- 121
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+ S I+G +RPGIVHRLDK TSG++VVAK++ +H LS Q K ++ + Y
Sbjct: 122 --------KNLSGINGI-LRPGIVHRLDKDTSGVMVVAKNDKAHMSLSNQIKERSVLKKY 172
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+++ GV + G+IE PI R P +R RMA + R+A + YKV+E +
Sbjct: 173 VAIVEGVIKEEEGKIEAPIGRHPVDRKRMAVV------QDGRYALTLYKVLERFK--NNT 224
Query: 312 LVEWRLETGRTHQV 325
VE ++TGRTHQ+
Sbjct: 225 FVEATIKTGRTHQI 238
>gi|67920300|ref|ZP_00513820.1| Pseudouridine synthase, RluD [Crocosphaera watsonii WH 8501]
gi|67857784|gb|EAM53023.1| Pseudouridine synthase, RluD [Crocosphaera watsonii WH 8501]
Length = 313
Score = 185 bits (469), Expect = 3e-44, Method: Compositional matrix adjust.
Identities = 105/261 (40%), Positives = 152/261 (58%), Gaps = 36/261 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD W+S+++ ISR+R+Q I G +++N +V +K GD + I E QPL +
Sbjct: 13 RLDIWLSNQLTDISRSRIQKLIEQGNITLNNEVCPNKKIKLKIGDRLQVNIPEPQPLELQ 72
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E IPLDI+YED+ ++++NK A++VVHPAPG+ TGTLV+ +L+HCS LA
Sbjct: 73 PEPIPLDILYEDEQLIIINKSANLVVHPAPGHETGTLVHALLYHCS--NLAGI------- 123
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
G RPGIVHRLDK T+G +VVAK + +H +L Q K T +R Y
Sbjct: 124 ---------------GGVQRPGIVHRLDKDTTGAIVVAKTDFAHQNLQFQIKNRTAKREY 168
Query: 252 ISLTSGV-------PSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEI 304
+ + GV ++ G I +PI R P +R RMA +P + R A + +++IE
Sbjct: 169 LGIIYGVLNNEEDENNRDKGMINLPIGRHPVDRKRMAVVP---REKPGREAVTYWEIIER 225
Query: 305 LAGGGSALVEWRLETGRTHQV 325
L G +LV++ LETGRTHQ+
Sbjct: 226 L--GNYSLVKFILETGRTHQI 244
>gi|427737025|ref|YP_007056569.1| ribosomal large subunit pseudouridine synthase D [Rivularia sp. PCC
7116]
gi|427372066|gb|AFY56022.1| ribosomal large subunit pseudouridine synthase D [Rivularia sp. PCC
7116]
Length = 309
Score = 185 bits (469), Expect = 3e-44, Method: Compositional matrix adjust.
Identities = 102/255 (40%), Positives = 147/255 (57%), Gaps = 31/255 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD+++S + +SR+R+Q I G V +NG++ + +++K GD++ I QPL +
Sbjct: 17 RLDSYLSGKKLDLSRSRIQQLIEQGHVKLNGEICNSKKNSLKQGDLIVLEIPTAQPLELQ 76
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC-SLPTLASSNQEAFS 190
E+IPLDI+YED+ +L++NKPA +VVHPAPG+ GTLVN +L HC +LP +
Sbjct: 77 PENIPLDILYEDEQILILNKPAGLVVHPAPGHPNGTLVNAVLAHCPNLPGI--------- 127
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
G RPGIVHRLDK T+G + +AK E +H L Q K T R
Sbjct: 128 ----------------GGVQRPGIVHRLDKDTTGAIAIAKTELAHHSLQAQLKAKTARRE 171
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y+ + G Q G I +PI R P R +MA +P K G R A + +++ E L G
Sbjct: 172 YLGVVYGATKQPEGTINLPIGRHPKERKKMAVVP-VEKGG--REAVTHWQIKERL--GNY 226
Query: 311 ALVEWRLETGRTHQV 325
L+ ++LETGRTHQ+
Sbjct: 227 TLMHFQLETGRTHQI 241
>gi|325680269|ref|ZP_08159829.1| pseudouridine synthase, RluA family [Ruminococcus albus 8]
gi|324107978|gb|EGC02234.1| pseudouridine synthase, RluA family [Ruminococcus albus 8]
Length = 304
Score = 185 bits (469), Expect = 3e-44, Method: Compositional matrix adjust.
Identities = 108/254 (42%), Positives = 151/254 (59%), Gaps = 31/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D +S+++ +SR+ +Q G V + G+ VSK ++ +K GD++ I E Q L+AE
Sbjct: 17 RIDKLLSAQLSDMSRSALQKLTEDGSVLVGGKAVSK-NYKLKNGDVITVDIPEPQELKAE 75
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
+DIP+DIVYEDD +LVVNKP MVVHPA GN GTLVN +L+HC
Sbjct: 76 PQDIPIDIVYEDDALLVVNKPKGMVVHPAAGNPDGTLVNALLYHC--------------- 120
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+ SSI+G IRPGIVHR+DK TSGLL+VAK + +H L+ Q K H+ R Y
Sbjct: 121 -------KGRLSSINGV-IRPGIVHRIDKFTSGLLMVAKTDKAHNSLAAQIKEHSFTREY 172
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++ G + +G I PI R +R +M + ++ A + Y+VIE L G +
Sbjct: 173 NAVCVGRFKEPTGTINEPIGRSKFDRKKMCVT-----YQNSKEAVTHYEVIEEL--GQYS 225
Query: 312 LVEWRLETGRTHQV 325
LV +RLETGRTHQ+
Sbjct: 226 LVRFRLETGRTHQI 239
>gi|188590369|ref|YP_001921578.1| ribosomal large subunit pseudouridine synthase D [Clostridium
botulinum E3 str. Alaska E43]
gi|188500650|gb|ACD53786.1| ribosomal large subunit pseudouridine synthase D [Clostridium
botulinum E3 str. Alaska E43]
Length = 302
Score = 185 bits (469), Expect = 3e-44, Method: Compositional matrix adjust.
Identities = 103/255 (40%), Positives = 152/255 (59%), Gaps = 32/255 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
+R+D ++S ++G SR+ +Q I + +N +++ K ++ +K D + T+ E + L+
Sbjct: 15 IRIDKYLSEMLNGKSRSFIQGLIEKESIKVNNKLI-KSNYKLKACDEIVITMPEAEILKV 73
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
E+EDI LDI+YED +V+VVNK MVVHPAPGN GTLVN +L HC+
Sbjct: 74 ESEDIDLDILYEDKDVIVVNKEQGMVVHPAPGNYNGTLVNALLFHCT------------- 120
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
D+ SSI+G IRPGIVHR+DK TSG+LV+AK++ SH L+ Q K H++ R
Sbjct: 121 ---DL-------SSINGV-IRPGIVHRIDKDTSGVLVIAKNDESHNKLAAQLKDHSMNRE 169
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y +L G SG I+ P+ RD NR+++A R A + Y+V+E G
Sbjct: 170 YYALVEGRFKNDSGVIDKPLGRDKKNRLKIAITE------DGRRAITHYEVLE-RYDTGC 222
Query: 311 ALVEWRLETGRTHQV 325
L++ +LETGRTHQ+
Sbjct: 223 TLIKCKLETGRTHQI 237
>gi|158320450|ref|YP_001512957.1| RluA family pseudouridine synthase [Alkaliphilus oremlandii OhILAs]
gi|158140649|gb|ABW18961.1| pseudouridine synthase, RluA family [Alkaliphilus oremlandii
OhILAs]
Length = 308
Score = 185 bits (469), Expect = 3e-44, Method: Compositional matrix adjust.
Identities = 104/266 (39%), Positives = 155/266 (58%), Gaps = 37/266 (13%)
Query: 60 LEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
LEE VD RLD +IS + + +SR+ +Q I+ + +NG++ K + +K GD +
Sbjct: 9 LEEDVDN-----RLDLYISEQYEELSRSYIQKLIKDHHIKVNGKI-EKAKYMIKLGDEIE 62
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
+ +++ + E E+IPL IVYED++V+VV+KP MVVHPAPGN +GTLVN +L HC
Sbjct: 63 INLPQVEEVTIEPENIPLTIVYEDEDVIVVDKPQGMVVHPAPGNYSGTLVNALLFHC--- 119
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
NQ S ++G +RPGIVHR+DK TSGLLVVAK+ +H L+
Sbjct: 120 ----KNQ---------------LSDVNG-PMRPGIVHRIDKDTSGLLVVAKNNAAHEILA 159
Query: 240 EQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRY 299
EQF+ HT R Y ++ G + ++ PI R P +R++ A + +HA + +
Sbjct: 160 EQFRAHTNTRKYHAIVVGNIREKEAAVDAPIGRHPVDRLKRAVM------NDGKHAVTHF 213
Query: 300 KVIEILAGGGSALVEWRLETGRTHQV 325
KV+E+ +E +LETGRTHQ+
Sbjct: 214 KVLEVFR--DFTYIEAKLETGRTHQI 237
>gi|374296459|ref|YP_005046650.1| RluA family pseudouridine synthase [Clostridium clariflavum DSM
19732]
gi|359825953|gb|AEV68726.1| pseudouridine synthase, RluA family [Clostridium clariflavum DSM
19732]
Length = 311
Score = 185 bits (469), Expect = 3e-44, Method: Compositional matrix adjust.
Identities = 107/254 (42%), Positives = 151/254 (59%), Gaps = 31/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+DAW+S +D SR+ +Q I GLV +NG V K ++ V+ D + I E + L
Sbjct: 22 RIDAWLSKMLDKYSRSYIQKLINDGLVLVNGTAV-KSNYKVRMKDDITVQIPEPEVLDIV 80
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
EDI + I+YED++++VV+KP MVVHPA GN +GTLVN ++ HC
Sbjct: 81 PEDIDVPILYEDEHIIVVDKPKGMVVHPAAGNYSGTLVNALMKHCG-------------- 126
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+ SSI+G IRPGIVHR+DK TSG+LVVAK +H LS K H I RVY
Sbjct: 127 --------DNLSSINGV-IRPGIVHRIDKDTSGVLVVAKSNEAHEKLSMMLKEHDINRVY 177
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
I+L G+ + +G+I+ PI R P +R +MA + K+G R A + +KV+E +
Sbjct: 178 IALVHGIIREEAGKIDAPIGRHPVDRKKMAV---NTKNG--RRAVTHFKVLERFK--DAT 230
Query: 312 LVEWRLETGRTHQV 325
++E +LETGRTHQ+
Sbjct: 231 MLEVKLETGRTHQI 244
>gi|197301721|ref|ZP_03166791.1| hypothetical protein RUMLAC_00447 [Ruminococcus lactaris ATCC
29176]
gi|197299161|gb|EDY33691.1| pseudouridine synthase, RluA family [Ruminococcus lactaris ATCC
29176]
Length = 304
Score = 185 bits (469), Expect = 3e-44, Method: Compositional matrix adjust.
Identities = 101/262 (38%), Positives = 153/262 (58%), Gaps = 32/262 (12%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
+ K G+ R+D ++ +D +SR+ +Q ++ GL+ +NG+ V K ++ + GD ++ +
Sbjct: 7 ISKKKGE-RIDKFLGENLDDLSRSYIQKLLKDGLILVNGKKV-KANYKLNEGDQIDVEVP 64
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
+ +PL AE+IPLDI+YED+++L+VNKP MVVHP+PG+ TLVN IL+HC
Sbjct: 65 DPEPLDIAAENIPLDILYEDEDILIVNKPKGMVVHPSPGHPDHTLVNAILYHCG------ 118
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
E S I+G IRPGIVHR+D T+G L++ K++H+H L+EQ K
Sbjct: 119 ----------------EHLSGINGV-IRPGIVHRIDMNTTGSLLICKNDHAHQILAEQLK 161
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
H+I R Y ++ G +G + I R P +R +M S K RHA + Y+V+E
Sbjct: 162 EHSITRRYHAIVHGSLKADTGTVNASIGRHPTDRKKM-----STKALNGRHAVTHYRVLE 216
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
L G +E LETGRTHQ+
Sbjct: 217 RL--GNYTYIECELETGRTHQI 236
>gi|407796629|ref|ZP_11143582.1| pseudouridine synthase [Salimicrobium sp. MJ3]
gi|407019145|gb|EKE31864.1| pseudouridine synthase [Salimicrobium sp. MJ3]
Length = 302
Score = 184 bits (468), Expect = 4e-44, Method: Compositional matrix adjust.
Identities = 106/254 (41%), Positives = 151/254 (59%), Gaps = 33/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D W+S ++ +SRA+VQ IR VS+N + V K ++ ++ GD+V ++ E++P E
Sbjct: 15 RIDKWLSDHLEDVSRAQVQQWIREHHVSVNDRHV-KSNYKIQEGDLVAWSVPEVKPAAIE 73
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E+IPL IVYED++VLVVNKP MVVHP+ G+ +GTLVNG+L+HC
Sbjct: 74 KENIPLTIVYEDEDVLVVNKPVGMVVHPSAGHYSGTLVNGLLYHC--------------- 118
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
DD S I+G RPGIVHR+DK TSGLL+VAK + +H HL++Q + T+ER Y
Sbjct: 119 -----DD---LSGINGVE-RPGIVHRIDKDTSGLLMVAKHDKAHQHLADQLQEKTVEREY 169
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++ GV + G I+ PI RDP R RMA + + A + + V
Sbjct: 170 EAIAHGVIAHDHGTIDAPIGRDPKERQRMAVTE------EGKDAVTHFTVERRFEEFTH- 222
Query: 312 LVEWRLETGRTHQV 325
+ +LETGRTHQ+
Sbjct: 223 -LTCKLETGRTHQI 235
>gi|416391378|ref|ZP_11685677.1| Ribosomal large subunit pseudouridine synthase D [Crocosphaera
watsonii WH 0003]
gi|357263860|gb|EHJ12816.1| Ribosomal large subunit pseudouridine synthase D [Crocosphaera
watsonii WH 0003]
Length = 313
Score = 184 bits (468), Expect = 4e-44, Method: Compositional matrix adjust.
Identities = 105/261 (40%), Positives = 152/261 (58%), Gaps = 36/261 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD W+S+++ ISR+R+Q I G +++N +V +K GD + I E QPL +
Sbjct: 13 RLDIWLSNQLTDISRSRIQKLIEQGNITLNNEVCPNKKIKLKIGDRLQVNIPEPQPLELQ 72
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E IPLDI+YED+ ++++NK A++VVHPAPG+ TGTLV+ +L+HCS LA
Sbjct: 73 PEPIPLDILYEDEQLIIINKSANLVVHPAPGHETGTLVHALLYHCS--NLAGI------- 123
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
G RPGIVHRLDK T+G +VVAK + +H +L Q K T +R Y
Sbjct: 124 ---------------GGGQRPGIVHRLDKDTTGAIVVAKTDFAHQNLQFQIKNRTAKREY 168
Query: 252 ISLTSGV-------PSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEI 304
+ + GV ++ G I +PI R P +R RMA +P + R A + +++IE
Sbjct: 169 LGIIYGVLNNKEDENNRDKGMINLPIGRHPVDRKRMAVVP---REKPGREAVTYWEIIER 225
Query: 305 LAGGGSALVEWRLETGRTHQV 325
L G +LV++ LETGRTHQ+
Sbjct: 226 L--GYYSLVKFILETGRTHQI 244
>gi|423073746|ref|ZP_17062483.1| pseudouridine synthase, RluA family [Desulfitobacterium hafniense
DP7]
gi|361855368|gb|EHL07344.1| pseudouridine synthase, RluA family [Desulfitobacterium hafniense
DP7]
Length = 334
Score = 184 bits (468), Expect = 4e-44, Method: Compositional matrix adjust.
Identities = 106/254 (41%), Positives = 151/254 (59%), Gaps = 33/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++ R+ G SR+ +Q I G V +NG K ++ V+ D + I + L+ E
Sbjct: 44 RLDVGVTERV-GKSRSFIQGLIEEGHVLVNG-AARKANYKVRAMDQITVVIPPPRELKVE 101
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AE+IPL+I+YED++VLVVNKP MVVHPAPG T T+VN +L+HC
Sbjct: 102 AENIPLEILYEDEDVLVVNKPQGMVVHPAPGAWTKTMVNALLYHCR-------------- 147
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
S I+G +RPGIVHR+DK TSGLLVVAK++ +H L+EQ K H++ R Y
Sbjct: 148 ---------NLSGINGV-LRPGIVHRIDKDTSGLLVVAKNDLAHQGLAEQIKAHSMARRY 197
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+++ GV + SG ++ P+ RDP +R +MA + A+ A + Y+V+E
Sbjct: 198 LAIVHGVVFEPSGTVDAPVGRDPADRKKMAVV-----FQNAKEAVTHYEVLERFR--DFT 250
Query: 312 LVEWRLETGRTHQV 325
L+E RLETGRTHQ+
Sbjct: 251 LLEARLETGRTHQI 264
>gi|167037761|ref|YP_001665339.1| RluA family pseudouridine synthase [Thermoanaerobacter
pseudethanolicus ATCC 33223]
gi|320116174|ref|YP_004186333.1| RluA family pseudouridine synthase [Thermoanaerobacter brockii
subsp. finnii Ako-1]
gi|166856595|gb|ABY95003.1| pseudouridine synthase, RluA family [Thermoanaerobacter
pseudethanolicus ATCC 33223]
gi|319929265|gb|ADV79950.1| pseudouridine synthase, RluA family [Thermoanaerobacter brockii
subsp. finnii Ako-1]
Length = 305
Score = 184 bits (468), Expect = 4e-44, Method: Compositional matrix adjust.
Identities = 104/254 (40%), Positives = 152/254 (59%), Gaps = 34/254 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D ++++ +D +R+ ++ I GLV +NG+ V K S+ VK D V + E + +
Sbjct: 19 RIDVFLAAELD-YTRSYIKKLIVDGLVFVNGKTV-KPSYKVKENDEVVLNVPEAEKIDVL 76
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
EDIPLDI+YEDD+++V+NKP MVVHPAPGN +GTLVN +L+HC
Sbjct: 77 PEDIPLDILYEDDDIIVINKPQGMVVHPAPGNYSGTLVNALLYHC--------------- 121
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+ S I+G +RPGIVHRLDK TSG++VVAK++ +H LS Q K ++ + Y
Sbjct: 122 --------KNLSGINGI-LRPGIVHRLDKDTSGVMVVAKNDKAHISLSNQIKERSVFKKY 172
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+++ GV G+IE PI R P +R +MA I R+A + YKV+E +
Sbjct: 173 VAIVEGVIKDEEGKIEAPIGRHPVDRKKMAVIE------DGRYALTLYKVLERFK--ENT 224
Query: 312 LVEWRLETGRTHQV 325
LVE ++TGRTHQ+
Sbjct: 225 LVEAVIKTGRTHQI 238
>gi|148262954|ref|YP_001229660.1| RluA family pseudouridine synthase [Geobacter uraniireducens Rf4]
gi|146396454|gb|ABQ25087.1| ribosomal large subunit pseudouridine synthase D [Geobacter
uraniireducens Rf4]
Length = 320
Score = 184 bits (468), Expect = 4e-44, Method: Compositional matrix adjust.
Identities = 109/254 (42%), Positives = 152/254 (59%), Gaps = 32/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD++I+ ++G++RA Q I +G ++++G K S +KGG+ + TI
Sbjct: 16 RLDSFIARSVNGMTRATAQRLIEAGQITVDGHP-QKPSLKLKGGERLMVTIPPPVAAEPA 74
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AE IPL+I++ED N++VVNK A MVVHP GN+ GTLVN +L HC+
Sbjct: 75 AETIPLEILFEDRNLVVVNKAAGMVVHPGAGNSGGTLVNALLGHCT-------------- 120
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
D+S G +RPGIVHR+DK TSG+LVVAK + +H L+EQFK HTI+RVY
Sbjct: 121 --DLSG--------IGGELRPGIVHRIDKDTSGVLVVAKSDAAHQSLAEQFKEHTIKRVY 170
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++L G P GR+E I R P +R RM+ G KHG +HA + ++V+ G
Sbjct: 171 LALVYGAPKDDKGRLESHIGRHPVDRKRMS---GKAKHG--KHAVTHWRVVGRYR--GIT 223
Query: 312 LVEWRLETGRTHQV 325
L+ RLETGRTHQ+
Sbjct: 224 LLRLRLETGRTHQI 237
>gi|337265946|ref|YP_004610001.1| RluA family pseudouridine synthase [Mesorhizobium opportunistum
WSM2075]
gi|336026256|gb|AEH85907.1| pseudouridine synthase, RluA family [Mesorhizobium opportunistum
WSM2075]
Length = 334
Score = 184 bits (468), Expect = 4e-44, Method: Compositional matrix adjust.
Identities = 107/264 (40%), Positives = 152/264 (57%), Gaps = 36/264 (13%)
Query: 72 RLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
RLD W+++ + +SR+RVQ IR G VSING+ V + + G+ V+ + E +P
Sbjct: 17 RLDQWLAASLGPDMSRSRVQMLIRQGAVSINGKPVDETKRKMLPGESVSVAMPEPEPAEP 76
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
+ E+I LD++YEDD ++V+NKPA +VVHP GN TGTLVN ++HHC
Sbjct: 77 QGENIALDVLYEDDALIVINKPAGLVVHPGAGNWTGTLVNALIHHCG------------- 123
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLH----T 246
+ S I G RPGIVHRLDK TSG++VVAK + +H LSE F H
Sbjct: 124 ---------DSLSGIGGVR-RPGIVHRLDKETSGVMVVAKTDRAHKALSEAFADHGLTGD 173
Query: 247 IERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILA 306
+ER Y++L G+P + +G ++ P+ R +R+R A +P ARHA + + V E
Sbjct: 174 LERAYLALVWGIPQRPTGTVDAPLGR-AADRVRRAVVPEGRD--DARHAVTHFAVQERFG 230
Query: 307 G-----GGSALVEWRLETGRTHQV 325
++LVE RLETGRTHQ+
Sbjct: 231 EKQQEFATASLVECRLETGRTHQI 254
>gi|332707717|ref|ZP_08427744.1| ribosomal large subunit pseudouridine synthase D [Moorea producens
3L]
gi|332353420|gb|EGJ32933.1| ribosomal large subunit pseudouridine synthase D [Moorea producens
3L]
Length = 320
Score = 184 bits (467), Expect = 5e-44, Method: Compositional matrix adjust.
Identities = 108/270 (40%), Positives = 155/270 (57%), Gaps = 31/270 (11%)
Query: 58 VQLEETVDTKAGK--LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGG 115
+Q++ET + RLD++I+ + +SR+R+Q I G V +N V V+ G
Sbjct: 10 LQVQETSKSTGSTPSYRLDSYIAQQTPDLSRSRIQKLIEQGNVQVNDHVCISKKAKVQLG 69
Query: 116 DMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHH 175
D ++ TI + +PL + E IPLDI+YEDD ++++NKPA +VVHPAPG+ +GTLVN +L H
Sbjct: 70 DRISLTIPDPKPLELQPEVIPLDILYEDDVLIIINKPAGLVVHPAPGHESGTLVNALLAH 129
Query: 176 CSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSH 235
C P L + I G RPGIVHRLDK T+G + +AK + +H
Sbjct: 130 C--PKL---------------------TGIGGVQ-RPGIVHRLDKDTTGAIAIAKTDQAH 165
Query: 236 AHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHA 295
HL Q + T +R Y+ + G PS SG I PI R P +R +MA +P K G R A
Sbjct: 166 GHLQAQLQAKTAQRQYLGVVYGAPSAESGTINQPIGRHPVDRKKMAVVP-VEKGG--RPA 222
Query: 296 ASRYKVIEILAGGGSALVEWRLETGRTHQV 325
+ ++V E L G L+ ++LETGRTHQ+
Sbjct: 223 ITHWQVRERL--GNYTLMHFQLETGRTHQI 250
>gi|261222782|ref|ZP_05937063.1| ribosomal large subunit pseudouridine synthase D [Brucella ceti
B1/94]
gi|340791252|ref|YP_004756717.1| RluA family pseudouridine synthase [Brucella pinnipedialis B2/94]
gi|260921366|gb|EEX88019.1| ribosomal large subunit pseudouridine synthase D [Brucella ceti
B1/94]
gi|340559711|gb|AEK54949.1| RluA family pseudouridine synthase [Brucella pinnipedialis B2/94]
Length = 347
Score = 184 bits (467), Expect = 5e-44, Method: Compositional matrix adjust.
Identities = 109/283 (38%), Positives = 161/283 (56%), Gaps = 36/283 (12%)
Query: 54 NYAGVQLEETV-DTKAGKLRLDAWISSRID-GISRARVQSSIRSGLVSINGQVVSKVSHN 111
N +L+E + D+ A RLD W+++ + +SR+RVQS I G V+I+G +
Sbjct: 8 NEGKTRLKELIADSDAAGKRLDQWLAAALGPELSRSRVQSLIADGHVTIDGAPARETKQK 67
Query: 112 VKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNG 171
++ G + +SE +P + E+IPLDI+YEDD+++V+NKPA +VVHP GN TGTLVN
Sbjct: 68 LREGMNIAIVLSEPEPAEPQGENIPLDILYEDDDLIVINKPAGLVVHPGNGNWTGTLVNA 127
Query: 172 ILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKD 231
+++HC + S I G RPGIVHRLDK TSG++VVAK+
Sbjct: 128 LIYHCG----------------------DSLSGIGGIR-RPGIVHRLDKDTSGVMVVAKN 164
Query: 232 EHSHAHLSEQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSN 287
+ +H HLSEQF H +ER Y++L G+ + G ++ + R +R + A +
Sbjct: 165 DRAHRHLSEQFADHGRTGDLERAYLALVWGMTERPQGTVDAYLGRSHRDRTKQAVV--HE 222
Query: 288 KHGQARHAASRYKVIEIL-----AGGGSALVEWRLETGRTHQV 325
+ ARHA + Y +E A ++LVE RLETGRTHQ+
Sbjct: 223 EREDARHAITHYATVEKFSPREDATALASLVECRLETGRTHQI 265
>gi|444313109|ref|ZP_21148668.1| RluA family pseudouridine synthase [Ochrobactrum intermedium M86]
gi|443483547|gb|ELT46390.1| RluA family pseudouridine synthase [Ochrobactrum intermedium M86]
Length = 334
Score = 184 bits (467), Expect = 5e-44, Method: Compositional matrix adjust.
Identities = 110/275 (40%), Positives = 157/275 (57%), Gaps = 35/275 (12%)
Query: 61 EETVDTKAGKLRLDAWISSRID-GISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
E T D+ A RLD W+++ + +SR+RVQS I G V+I+G + ++ G +
Sbjct: 3 ELTTDSDATGKRLDQWLAAALGPDLSRSRVQSLIAEGHVTIDGVPARETKQKLREGMTIA 62
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
+ E +P AE+IPLDI+YEDD+++V+NKPA +VVHP GN TGTLVN +++HC
Sbjct: 63 VVLPEPEPAEPIAENIPLDILYEDDDLIVINKPAGLVVHPGNGNWTGTLVNALIYHCG-- 120
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
+ S I G RPGIVHRLDK TSG++VVAK++ SH HLS
Sbjct: 121 --------------------DSLSGIGGIR-RPGIVHRLDKDTSGVMVVAKNDLSHRHLS 159
Query: 240 EQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHA 295
EQF H +ER Y++L G+ + G I+ + R +R + A + + + ARHA
Sbjct: 160 EQFADHGRTGDLERAYLALVWGMTERPQGYIDAHLGRSHRDRTKQAVV--NEERDDARHA 217
Query: 296 ASRYKVIEIL-----AGGGSALVEWRLETGRTHQV 325
+ Y +E A ++LVE RLETGRTHQ+
Sbjct: 218 ITHYATVEKFGPREDATALASLVECRLETGRTHQI 252
>gi|160914264|ref|ZP_02076485.1| hypothetical protein EUBDOL_00274 [Eubacterium dolichum DSM 3991]
gi|158433891|gb|EDP12180.1| pseudouridine synthase, RluA family [Eubacterium dolichum DSM 3991]
Length = 303
Score = 184 bits (466), Expect = 6e-44, Method: Compositional matrix adjust.
Identities = 104/258 (40%), Positives = 154/258 (59%), Gaps = 32/258 (12%)
Query: 68 AGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQP 127
A R+D ++S ++ +SR+R+ S I G + +NG+V+ + + VK D + +
Sbjct: 12 ADSQRIDKYLSMVVEDLSRSRIASLIEEGSILVNGEVI-RAKYKVKPADHITAAFEDEMA 70
Query: 128 LRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQE 187
L A E + LDI YED +V+V+NKP +VVHPA GN +GTLVNG+L+HC
Sbjct: 71 LEAAPEKMELDIRYEDHDVIVINKPKGIVVHPANGNQSGTLVNGLLYHC----------- 119
Query: 188 AFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTI 247
+D+S I+G +RPGIVHR+DK T+GLL+VAK++ +HA LS+Q + ++
Sbjct: 120 -----KDLS-------GINGV-LRPGIVHRIDKDTTGLLIVAKNDKAHASLSKQLQNKSV 166
Query: 248 ERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAG 307
R+Y +L GV G I+ PI RDP +R +MA I ++K A + ++V+E A
Sbjct: 167 NRLYYALVHGVIEHEFGTIDAPIGRDPKDRQKMAVIATNSK-----PARTHFRVVERFA- 220
Query: 308 GGSALVEWRLETGRTHQV 325
LVE RLETGRTHQ+
Sbjct: 221 -KYTLVECRLETGRTHQI 237
>gi|373498068|ref|ZP_09588583.1| RluA family pseudouridine synthase [Fusobacterium sp. 12_1B]
gi|371962108|gb|EHO79717.1| RluA family pseudouridine synthase [Fusobacterium sp. 12_1B]
Length = 313
Score = 184 bits (466), Expect = 6e-44, Method: Compositional matrix adjust.
Identities = 111/289 (38%), Positives = 166/289 (57%), Gaps = 39/289 (13%)
Query: 47 NNREPIANYAGVQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVS 106
N +E I YA + GK R+D++++ ID +R+ +Q I G V I G+ V+
Sbjct: 3 NIKETITVYAD-------ENDKGK-RIDSFLNEVIDDATRSYIQKIIDGGYVEITGKKVT 54
Query: 107 KVSHNVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATG 166
K + +KG + + I E + L E+IPL+I+YED +++V+NK MVVHPA GN G
Sbjct: 55 KSGNKLKGTETITVNIPEDEILDVIPENIPLNIIYEDKDIVVINKAPDMVVHPAHGNYNG 114
Query: 167 TLVNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLL 226
TLVN +L+H +D+ S+I+G IRPGIVHRLDK TSG++
Sbjct: 115 TLVNALLYHI----------------KDL-------STINGV-IRPGIVHRLDKDTSGVI 150
Query: 227 VVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGS 286
VVAK++ +H+ LS+ FK T+E+ YI + G+ SGRIE I RD +R +MA + +
Sbjct: 151 VVAKNDEAHSTLSDMFKEKTLEKTYICIAKGIFKDKSGRIETLIGRDSRDRKKMAVVDIN 210
Query: 287 NKHGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
K +A S Y++++ G +LV+ R+ETGRTHQ+ + K P
Sbjct: 211 GK-----NAISNYEILD--EGKNFSLVKVRIETGRTHQIRVHMKYLNHP 252
>gi|381182085|ref|ZP_09890907.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
protein [Listeriaceae bacterium TTU M1-001]
gi|380318001|gb|EIA21298.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
protein [Listeriaceae bacterium TTU M1-001]
Length = 306
Score = 184 bits (466), Expect = 7e-44, Method: Compositional matrix adjust.
Identities = 108/254 (42%), Positives = 152/254 (59%), Gaps = 34/254 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +S D +SR+ +QS ++SG + +N + V K ++ V+ GD + I E+ L AE
Sbjct: 16 RLDKALSELTD-LSRSLIQSMLKSGDILVNNESV-KANYKVQTGDTITYQIREVTELVAE 73
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AEDIPLDI YED +VLVVNKP MVVHPA G+ +GTLVN +L+HC
Sbjct: 74 AEDIPLDIYYEDKDVLVVNKPQGMVVHPAAGHMSGTLVNALLYHC--------------- 118
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+D+ S I+G IRPGIVHR+DK TSGLL+VAK++ +H LS Q K T +R+Y
Sbjct: 119 -QDL-------SGINGV-IRPGIVHRIDKDTSGLLMVAKNDAAHVSLSSQLKDKTSDRIY 169
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++L G G IE PI R +R +MA + + A + ++V+E G
Sbjct: 170 LALVHGDIKHQKGTIEAPIGRAKEDRKKMAVV------ADGKEARTHFEVVERF--GDYT 221
Query: 312 LVEWRLETGRTHQV 325
L++ +L+TGRTHQ+
Sbjct: 222 LIKCQLDTGRTHQI 235
>gi|260063592|ref|YP_003196672.1| ribosomal large subunit pseudouridine synthase D [Robiginitalea
biformata HTCC2501]
gi|88783037|gb|EAR14210.1| ribosomal large subunit pseudouridine synthase D [Robiginitalea
biformata HTCC2501]
Length = 343
Score = 184 bits (466), Expect = 7e-44, Method: Compositional matrix adjust.
Identities = 113/265 (42%), Positives = 149/265 (56%), Gaps = 34/265 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
T DT LR+D ++ +RI +R ++Q + R G + N QV+ K ++ VK GD + +
Sbjct: 22 TADTGQKPLRVDKFLMTRIRNATRNKIQQAARDGNIRANEQVI-KQNYRVKPGDTIRV-L 79
Query: 123 SELQPLR--AEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPT 180
E P EDIPLDIVYED+ +LVVNKPA MVVHP GN TGTLVN ++HH
Sbjct: 80 FEHPPYENLLLPEDIPLDIVYEDEVLLVVNKPAGMVVHPGHGNYTGTLVNALVHHLDQLP 139
Query: 181 LASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSE 240
L S N RPG+VHR+DK TSGLLV+AK E + A+L+
Sbjct: 140 LNSDN-------------------------RPGLVHRIDKETSGLLVIAKTEAAMANLAR 174
Query: 241 QFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYK 300
QF T R Y++L G + SG +E PI R+P NR++M P + Q + A + Y+
Sbjct: 175 QFFDKTTRREYLALVWGNVADDSGTVEGPIGRNPKNRLQMQVFPDGS---QGKEAVTHYR 231
Query: 301 VIEILAGGGSALVEWRLETGRTHQV 325
V E L G LV RLETGRTHQ+
Sbjct: 232 VEERL--GYVTLVSCRLETGRTHQI 254
>gi|196228386|ref|ZP_03127253.1| pseudouridine synthase, RluA family [Chthoniobacter flavus
Ellin428]
gi|196227789|gb|EDY22292.1| pseudouridine synthase, RluA family [Chthoniobacter flavus
Ellin428]
Length = 302
Score = 184 bits (466), Expect = 7e-44, Method: Compositional matrix adjust.
Identities = 112/272 (41%), Positives = 159/272 (58%), Gaps = 35/272 (12%)
Query: 61 EETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNC 120
E VD A RLD +++S G+SRAR+Q I+ G V++NG V +K S ++ GD V
Sbjct: 5 EFRVDAAAAGPRLDQFLASAAAGLSRARIQDLIKEGHVTLNGGV-AKASARLRAGDAV-- 61
Query: 121 TISELQPLRAE--AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
T+ E P+ E AE+I LD+++EDD+++V+NKPA +VVHPA GN +GT+VN +LHHC
Sbjct: 62 TLHEPPPVPTETVAEEIALDVLFEDDDLIVINKPAGLVVHPAAGNWSGTVVNALLHHCQ- 120
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+ S G RPGIVHRLDK TSG LVVAK++ +H L
Sbjct: 121 -----------------------TLSGIGGEQRPGIVHRLDKDTSGCLVVAKNDAAHQSL 157
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
++QF + ++Y++L +G ++ SG IE PI R P R +M +P + R A +
Sbjct: 158 AKQFAGREVTKIYLALAAGKWARKSGVIEAPIGRHPVQRKKMTVLPAD----KGRAAKTG 213
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYK 330
Y+V+ L G LVE L TGRTHQ+ + K
Sbjct: 214 YRVLLELPVG--TLVECTLHTGRTHQIRVHLK 243
>gi|226313367|ref|YP_002773261.1| pseudouridine synthase [Brevibacillus brevis NBRC 100599]
gi|226096315|dbj|BAH44757.1| pseudouridine synthase [Brevibacillus brevis NBRC 100599]
Length = 309
Score = 184 bits (466), Expect = 7e-44, Method: Compositional matrix adjust.
Identities = 107/273 (39%), Positives = 161/273 (58%), Gaps = 32/273 (11%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TVD R+D +I+ + + SR++VQ+ ++ G V++NG+ + K ++ ++ D V +
Sbjct: 13 TVDPADKNERIDKFITLQNEDWSRSQVQAWVKEGRVTVNGEPI-KNNYKLQAEDEVTLRV 71
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
+ + + E++ LDIVYED +V+VVNKP +VVHPAPG+ +GTLVNG+L HC
Sbjct: 72 PPPKEMAIQPEEMSLDIVYEDSDVVVVNKPRGLVVHPAPGHYSGTLVNGLLAHC------ 125
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
+D+S I+G +RPGIVHR+DK TSGLL+VAK++ +H L+EQ
Sbjct: 126 ----------KDLS-------GINGV-LRPGIVHRIDKDTSGLLMVAKNDKAHMGLAEQL 167
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
K HT+ R Y++L GV G IE PI RDP NR +MA + ++ A + + V+
Sbjct: 168 KAHTVNRKYVALVHGVIPHEMGTIEAPIGRDPKNRQQMAVV-----FENSKPAVTHFIVL 222
Query: 303 EILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
E +VE +LETGRTHQ+ + K P
Sbjct: 223 ERFK--EYTMVELKLETGRTHQIRVHMKYIDYP 253
>gi|452752001|ref|ZP_21951745.1| Ribosomal large subunit pseudouridine synthase D [alpha
proteobacterium JLT2015]
gi|451960521|gb|EMD82933.1| Ribosomal large subunit pseudouridine synthase D [alpha
proteobacterium JLT2015]
Length = 319
Score = 184 bits (466), Expect = 7e-44, Method: Compositional matrix adjust.
Identities = 106/261 (40%), Positives = 146/261 (55%), Gaps = 30/261 (11%)
Query: 65 DTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISE 124
+T AG +RLD ++ + SR R+++ +++G V V S V G+ + +
Sbjct: 14 ETAAG-MRLDRALADALPQFSRERLKALLKAGAVQGGRGVERTASRKVTAGERLTVDVPA 72
Query: 125 LQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASS 184
P AE +DIPLDIVYED ++VV+KPA +VVHPA GN GTLVN +LHHC
Sbjct: 73 PTPSAAEPQDIPLDIVYEDAGLIVVDKPAGLVVHPAAGNRDGTLVNALLHHCG------- 125
Query: 185 NQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKL 244
E S G RPGIVHR+DK TSGLLV AK H+H L+ QF
Sbjct: 126 --------------GELSG--IGGVTRPGIVHRIDKDTSGLLVAAKTAHAHMALAAQFAA 169
Query: 245 HTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEI 304
H++ R Y+++T GVP + R+E + R P NR +MA + G+ + A + Y+ +
Sbjct: 170 HSVGRRYLAITRGVPVPPAARVEGNVGRSPKNRKKMAVL----DDGRGKAAVTHYRTLRA 225
Query: 305 LAGGGSALVEWRLETGRTHQV 325
L +AL+E RLETGRTHQV
Sbjct: 226 LE--DAALIECRLETGRTHQV 244
>gi|404320463|ref|ZP_10968396.1| RluA family pseudouridine synthase [Ochrobactrum anthropi CTS-325]
Length = 334
Score = 184 bits (466), Expect = 7e-44, Method: Compositional matrix adjust.
Identities = 110/275 (40%), Positives = 157/275 (57%), Gaps = 35/275 (12%)
Query: 61 EETVDTKAGKLRLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
E T D+ A RLD W+++ + +SR+RVQS I G V+I+G + ++ G +
Sbjct: 3 ELTTDSDATGKRLDQWLAAALGPELSRSRVQSLIADGHVTIDGAPARETKQKLREGMTIA 62
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
+ E +P AE+IPLDI+YEDD+++V+NKPA +VVHP GN TGTLVN +++HC
Sbjct: 63 IVLPEPEPAEPIAENIPLDILYEDDDLIVINKPAGLVVHPGNGNWTGTLVNALIYHCG-- 120
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
+ S I G RPGIVHRLDK TSG++VVAK++ SH HLS
Sbjct: 121 --------------------DSLSGIGGIR-RPGIVHRLDKDTSGVMVVAKNDRSHRHLS 159
Query: 240 EQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHA 295
EQF H +ER Y++L G+ + G I+ + R +R + A + + + ARHA
Sbjct: 160 EQFADHGRTGDLERAYLALVWGMTERPQGFIDAHLGRSHRDRTKQAVV--NEEREDARHA 217
Query: 296 ASRYKVIEIL-----AGGGSALVEWRLETGRTHQV 325
+ Y +E A ++LVE RLETGRTHQ+
Sbjct: 218 ITHYVTVEKFAPLEDATALASLVECRLETGRTHQI 252
>gi|288962534|ref|YP_003452829.1| ribosomal large subunit pseudouridine synthase D [Azospirillum sp.
B510]
gi|288914800|dbj|BAI76285.1| ribosomal large subunit pseudouridine synthase D [Azospirillum sp.
B510]
Length = 363
Score = 184 bits (466), Expect = 7e-44, Method: Compositional matrix adjust.
Identities = 110/261 (42%), Positives = 152/261 (58%), Gaps = 30/261 (11%)
Query: 65 DTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISE 124
DT AG+ RLD +S+ + +SR+RVQ+ + G V +G+ ++ S VK G + +
Sbjct: 48 DTAAGQ-RLDKALSAGLPDLSRSRVQALLEQGCVRGDGRTITDPSQRVKYGQIFELRMPG 106
Query: 125 LQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASS 184
+DIPLD+VYED +VLVV+KPA +VVHPA GN GTLVN +L HC
Sbjct: 107 SAAAEPLPQDIPLDVVYEDADVLVVDKPAGLVVHPAAGNPDGTLVNALLAHCG------- 159
Query: 185 NQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKL 244
+ S I G RPGIVHRLDK TSGL+VVAK++ +H LS+QF
Sbjct: 160 ---------------DSLSGIGGVR-RPGIVHRLDKDTSGLMVVAKNDRAHHGLSDQFSD 203
Query: 245 HTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEI 304
T+ R Y++L GVP+ + GRIE I R +R +MA + G K A ++Y+V++
Sbjct: 204 RTLSRTYLALVWGVPNPTQGRIEGNIGRSSADRKKMAVVTGGGK-----PAGTKYRVVKS 258
Query: 305 LAGGGSALVEWRLETGRTHQV 325
G ++LVE LETGRTHQ+
Sbjct: 259 F-GMAASLVECVLETGRTHQI 278
>gi|431794675|ref|YP_007221580.1| ribosomal large subunit pseudouridine synthase D
[Desulfitobacterium dichloroeliminans LMG P-21439]
gi|430784901|gb|AGA70184.1| ribosomal large subunit pseudouridine synthase D
[Desulfitobacterium dichloroeliminans LMG P-21439]
Length = 332
Score = 183 bits (465), Expect = 8e-44, Method: Compositional matrix adjust.
Identities = 116/275 (42%), Positives = 158/275 (57%), Gaps = 34/275 (12%)
Query: 52 IANYAGVQLEETVDTKAGK-LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSH 110
I N V + ET++ + + RLD ++ + G SR+ VQ I G V +NG V K ++
Sbjct: 22 IENSETVGVGETLELELQEGTRLDVGLTEVV-GKSRSTVQGLIGDGHVLVNG-TVKKSNY 79
Query: 111 NVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVN 170
V+ GD + I Q L+ +AE+IPLDIVYED+++LVVNKP MVVHPAPG TGTLVN
Sbjct: 80 KVRSGDKITVVIPPPQELKVDAENIPLDIVYEDEDLLVVNKPQGMVVHPAPGAWTGTLVN 139
Query: 171 GILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAK 230
+LHHC S I+G +RPGIVHR+DK TSGLLVVAK
Sbjct: 140 ALLHHC-----------------------RNLSGINGV-LRPGIVHRIDKDTSGLLVVAK 175
Query: 231 DEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHG 290
+ +H L+EQ K H++ R Y ++ GV + SG I+ PI RDP +R +MA
Sbjct: 176 SDLAHHGLAEQVKAHSMTRQYQAIVHGVLFEPSGTIDAPIGRDPVDRKKMAV-----AFR 230
Query: 291 QARHAASRYKVIEILAGGGSALVEWRLETGRTHQV 325
+ A + Y+V+E ++ RLETGRTHQ+
Sbjct: 231 NFKEAITHYEVLERFF--DFTYIQARLETGRTHQI 263
>gi|289578538|ref|YP_003477165.1| pseudouridine synthase [Thermoanaerobacter italicus Ab9]
gi|289528251|gb|ADD02603.1| pseudouridine synthase, RluA family [Thermoanaerobacter italicus
Ab9]
Length = 305
Score = 183 bits (465), Expect = 8e-44, Method: Compositional matrix adjust.
Identities = 104/254 (40%), Positives = 152/254 (59%), Gaps = 34/254 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D ++++ +D +R+ ++ I GLV +NG+ V K S+ VK D V I E + +
Sbjct: 19 RIDVFLAAELD-YTRSYIKKLIVDGLVFVNGKTV-KPSYKVKENDEVVVNIPEAEKIDVL 76
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E+IPLDI+YEDD+++V+NKP MVVHPAPGN +GTLVN +L+HC
Sbjct: 77 PENIPLDILYEDDDIIVINKPQGMVVHPAPGNYSGTLVNALLYHC--------------- 121
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+ S I+G +RPGIVHRLDK TSG++VVAK++ +H LS Q K ++ + Y
Sbjct: 122 --------KNLSGINGI-LRPGIVHRLDKDTSGVMVVAKNDKAHISLSNQIKERSVFKKY 172
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+++ GV G+IE PI R P +R +MA I R+A + YKV+E +
Sbjct: 173 VAIVEGVIKDEEGKIEAPIGRHPVDRKKMAVIE------DGRYALTLYKVLERFK--ENT 224
Query: 312 LVEWRLETGRTHQV 325
LVE ++TGRTHQ+
Sbjct: 225 LVEAVIKTGRTHQI 238
>gi|153008568|ref|YP_001369783.1| RluA family pseudouridine synthase [Ochrobactrum anthropi ATCC
49188]
gi|151560456|gb|ABS13954.1| pseudouridine synthase, RluA family [Ochrobactrum anthropi ATCC
49188]
Length = 334
Score = 183 bits (465), Expect = 8e-44, Method: Compositional matrix adjust.
Identities = 110/275 (40%), Positives = 157/275 (57%), Gaps = 35/275 (12%)
Query: 61 EETVDTKAGKLRLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
E T D+ A RLD W+++ + +SR+RVQS I G V+I+G + ++ G +
Sbjct: 3 ELTTDSDATGKRLDQWLAAALGPELSRSRVQSLIAEGHVTIDGAPAREAKQKLREGMTIA 62
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
+ E +P AE+IPLDI+YEDD+++V+NKPA +VVHP GN TGTLVN +++HC
Sbjct: 63 IVLPEPEPAEPIAENIPLDILYEDDDLIVINKPAGLVVHPGNGNWTGTLVNALIYHCG-- 120
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
+ S I G RPGIVHRLDK TSG++VVAK++ SH HLS
Sbjct: 121 --------------------DSLSGIGGIR-RPGIVHRLDKDTSGVMVVAKNDRSHRHLS 159
Query: 240 EQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHA 295
EQF H +ER Y++L G+ + G I+ + R +R + A + + + ARHA
Sbjct: 160 EQFADHGRTGDLERAYLALVWGMTERPQGFIDAHLGRSHRDRTKQAVV--NEEREDARHA 217
Query: 296 ASRYKVIEIL-----AGGGSALVEWRLETGRTHQV 325
+ Y +E A ++LVE RLETGRTHQ+
Sbjct: 218 ITHYVTVEKFAPLEDATALASLVECRLETGRTHQI 252
>gi|434402867|ref|YP_007145752.1| ribosomal large subunit pseudouridine synthase D [Cylindrospermum
stagnale PCC 7417]
gi|428257122|gb|AFZ23072.1| ribosomal large subunit pseudouridine synthase D [Cylindrospermum
stagnale PCC 7417]
Length = 321
Score = 183 bits (465), Expect = 9e-44, Method: Compositional matrix adjust.
Identities = 102/255 (40%), Positives = 149/255 (58%), Gaps = 31/255 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++S + ISR+R+Q I G V +N +V + + GD + I E++PL+ +
Sbjct: 22 RLDRYLSQELSDISRSRIQQLIEQGNVQLNDKVCTSKKITLVRGDRITLEIPEVKPLQLQ 81
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC-SLPTLASSNQEAFS 190
AEDIPLDI+YEDD ++++NKPA +VVHPAPG+ GTLVN +L HC +LP +
Sbjct: 82 AEDIPLDILYEDDQLIILNKPAGLVVHPAPGHPDGTLVNALLAHCPNLPGI--------- 132
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
G RPGIVHRLDK T+G + +AK + + HL Q + T R
Sbjct: 133 ----------------GGVQRPGIVHRLDKDTTGAIAIAKTDIAFQHLQAQLQAKTARRE 176
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y+ + G P SG I++PI R P +R +MA + S + G R+A + +++ E L G
Sbjct: 177 YLGVVYGAPRTESGIIDLPIGRHPQDRKKMAIV--SIEQG-GRNAITHWQIRERL--GNY 231
Query: 311 ALVEWRLETGRTHQV 325
L+ ++LETGRTHQ+
Sbjct: 232 TLIHFQLETGRTHQI 246
>gi|89895611|ref|YP_519098.1| hypothetical protein DSY2865 [Desulfitobacterium hafniense Y51]
gi|89335059|dbj|BAE84654.1| hypothetical protein [Desulfitobacterium hafniense Y51]
Length = 300
Score = 183 bits (465), Expect = 9e-44, Method: Compositional matrix adjust.
Identities = 104/254 (40%), Positives = 151/254 (59%), Gaps = 33/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++ R+ G SR+ +Q I G + +NG K ++ V+ D + I + L+ E
Sbjct: 10 RLDVGVTERV-GKSRSFIQGLIEEGHILVNG-AARKANYKVRAMDQITVVIPPPRELKVE 67
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AE+IPL+++YED++VLVVNKP MVVHPAPG T T+VN +L+HC
Sbjct: 68 AENIPLEVLYEDEDVLVVNKPQGMVVHPAPGAWTKTMVNALLYHC--------------- 112
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
S I+G +RPGIVHR+DK TSGLLVVAK++ +H L+EQ K H++ R Y
Sbjct: 113 --------RNLSGINGV-LRPGIVHRIDKDTSGLLVVAKNDLAHQGLAEQIKAHSMARRY 163
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+++ GV + SG ++ P+ RDP +R +MA + A+ A + Y+V+E
Sbjct: 164 LAIVHGVVFEPSGTVDAPVGRDPADRKKMAVV-----FQNAKEAVTHYEVLERFR--DFT 216
Query: 312 LVEWRLETGRTHQV 325
L+E RLETGRTHQ+
Sbjct: 217 LLEARLETGRTHQI 230
>gi|257058664|ref|YP_003136552.1| RluA family pseudouridine synthase [Cyanothece sp. PCC 8802]
gi|256588830|gb|ACU99716.1| pseudouridine synthase, RluA family [Cyanothece sp. PCC 8802]
Length = 318
Score = 183 bits (465), Expect = 9e-44, Method: Compositional matrix adjust.
Identities = 111/270 (41%), Positives = 151/270 (55%), Gaps = 34/270 (12%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q+E TV K R+D W+S +D ISR+ +Q I G + +N QV V GD +
Sbjct: 10 QIELTVQDKGD--RIDLWLSQNLDQISRSHLQKLIEQGNIYLNNQVCLNKKTKVNSGDRL 67
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
+ +PL + E IPLDI+YEDD+++++NK A +VVHPAPG+ TGTLV+G+L+HC
Sbjct: 68 QVFLPPPEPLELQPEPIPLDILYEDDSLIIINKSAGLVVHPAPGHTTGTLVHGLLYHC-- 125
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
P L G RPGIVHRLDK T+G +VVAK +++H HL
Sbjct: 126 PNLVG----------------------IGGIQRPGIVHRLDKDTTGAIVVAKTDYAHQHL 163
Query: 239 SEQFKLHTIERVYISLTSGVPSQS---SGRIEVPISRDPNNRIRMAAIPGSNKHGQARHA 295
Q K T R Y+ + GVP G I VPI R +R +MA +P N R A
Sbjct: 164 QAQLKAKTARREYLGVVYGVPRHEDTHQGTINVPIGRHRGDRKKMAVVPVENG---GREA 220
Query: 296 ASRYKVIEILAGGGSALVEWRLETGRTHQV 325
+ ++++E L G LVE+RLETGRTHQ+
Sbjct: 221 ITHWQIVERL--GNYTLVEFRLETGRTHQI 248
>gi|354582313|ref|ZP_09001215.1| pseudouridine synthase, RluA family [Paenibacillus lactis 154]
gi|353199712|gb|EHB65174.1| pseudouridine synthase, RluA family [Paenibacillus lactis 154]
Length = 322
Score = 183 bits (464), Expect = 1e-43, Method: Compositional matrix adjust.
Identities = 110/276 (39%), Positives = 161/276 (58%), Gaps = 33/276 (11%)
Query: 61 EETVDTKAGKLRLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
E VD ++ K R+D +I+ + + +SR++VQ I G V +N V K ++ V GD +
Sbjct: 23 EWIVDAESAKTRIDKYITDGLAEDVSRSQVQLWIADGHVLVNDSPV-KANYKVSQGDRIA 81
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
TI + EDIPLDI YED +V+VVNKP MVVHPAPG+ +GTLVN ++HHC
Sbjct: 82 LTIPAPSVVEIVPEDIPLDIAYEDRDVIVVNKPRGMVVHPAPGHVSGTLVNALMHHC--- 138
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
+D+ S I+G +RPGIVHR+DK T+GL++ AK++ +HA L+
Sbjct: 139 -------------KDL-------SGING-ELRPGIVHRIDKDTTGLIMAAKNDKAHASLA 177
Query: 240 EQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRY 299
Q K H++ R Y++L G S G I+ PI RDP +R +M + N ++HA + +
Sbjct: 178 AQLKEHSVNRRYLALVHGNISHDQGTIDAPIGRDPQDR-KMYTVTDRN----SKHAVTHF 232
Query: 300 KVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
V+E G +L+E +LETGRTHQ+ + K P
Sbjct: 233 TVVERF--GDYSLLELKLETGRTHQIRVHMKYIGHP 266
>gi|451819459|ref|YP_007455660.1| pseudouridine synthase, RluA family [Clostridium
saccharoperbutylacetonicum N1-4(HMT)]
gi|451785438|gb|AGF56406.1| pseudouridine synthase, RluA family [Clostridium
saccharoperbutylacetonicum N1-4(HMT)]
Length = 303
Score = 183 bits (464), Expect = 1e-43, Method: Compositional matrix adjust.
Identities = 105/263 (39%), Positives = 154/263 (58%), Gaps = 33/263 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
VD R+D ++S SR+ +Q I + +NG++ K ++ +K D + T
Sbjct: 7 VVDESDKGARIDKYLSEIFVDKSRSFIQGLIEKDGIEVNGKI-PKSNYKLKTFDKIEVTF 65
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
SE + L EAEDIPL+I+YED +++VVNK MVVHPAPGN GTLVN +L+HC+
Sbjct: 66 SEPEVLNVEAEDIPLNILYEDADIVVVNKEQGMVVHPAPGNYNGTLVNALLYHCT----- 120
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
D+ SSI+G IRPGIVHR+DK TSG+LVVAK++ +H LSEQ
Sbjct: 121 -----------DL-------SSINGI-IRPGIVHRIDKDTSGVLVVAKNDEAHNKLSEQL 161
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
K H+++R Y +L G G I+ P++R+ +R++M + G + A + Y+V+
Sbjct: 162 KDHSMKREYYALVEGRIKNDKGIIDKPLARNKKDRLKMGIVEG------GKRAVTHYEVL 215
Query: 303 EILAGGGSALVEWRLETGRTHQV 325
E G +L++ LETGRTHQ+
Sbjct: 216 E--RYNGFSLIKCVLETGRTHQI 236
>gi|337748284|ref|YP_004642446.1| hypothetical protein KNP414_04043 [Paenibacillus mucilaginosus
KNP414]
gi|336299473|gb|AEI42576.1| YlyB [Paenibacillus mucilaginosus KNP414]
Length = 329
Score = 183 bits (464), Expect = 1e-43, Method: Compositional matrix adjust.
Identities = 109/279 (39%), Positives = 165/279 (59%), Gaps = 35/279 (12%)
Query: 60 LEETVDTKAGKLRLDAWISSRIDG---ISRARVQSSIRSGLVSINGQVVSKVSHNVKGGD 116
LE V + R+D +++ ++ +SR ++Q I+ G V+++G++V K ++ + GD
Sbjct: 25 LEWHVGEEEAGERIDKFLAEMLENGLDVSRTQLQQWIKDGHVTVSGRIV-KPNYKLGEGD 83
Query: 117 MVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC 176
+ + E Q L AEDIPLD+VYED +V+VVNKP MVVHPAPG+ +GTLVN +L+HC
Sbjct: 84 SLKLVVPEPQELELTAEDIPLDVVYEDSDVIVVNKPRGMVVHPAPGHYSGTLVNALLYHC 143
Query: 177 SLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHA 236
+D+ S I+G +RPGIVHR+DK TSGLL+ AK++ +HA
Sbjct: 144 ----------------KDL-------SGINGI-MRPGIVHRIDKDTSGLLMAAKNDLAHA 179
Query: 237 HLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAA 296
L+EQ K H+ R YI+L G +G ++ PI RDP +R ++ + N ++HA
Sbjct: 180 GLTEQLKAHSATRKYIALVHGNVPHENGTVDAPIGRDPKDR-KLYTVTEKN----SKHAV 234
Query: 297 SRYKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ + V+E G L+E +LETGRTHQ+ + K P
Sbjct: 235 THFIVLERF--GDYTLLELKLETGRTHQIRVHMKFIGHP 271
>gi|261219246|ref|ZP_05933527.1| pseudouridine synthase [Brucella ceti M13/05/1]
gi|261316161|ref|ZP_05955358.1| pseudouridine synthase [Brucella pinnipedialis B2/94]
gi|261322307|ref|ZP_05961504.1| pseudouridine synthase [Brucella ceti M644/93/1]
gi|265987225|ref|ZP_06099782.1| pseudouridine synthase [Brucella pinnipedialis M292/94/1]
gi|265998740|ref|ZP_06111297.1| pseudouridine synthase [Brucella ceti M490/95/1]
gi|260924335|gb|EEX90903.1| pseudouridine synthase [Brucella ceti M13/05/1]
gi|261294997|gb|EEX98493.1| pseudouridine synthase [Brucella ceti M644/93/1]
gi|261295384|gb|EEX98880.1| pseudouridine synthase [Brucella pinnipedialis B2/94]
gi|262553429|gb|EEZ09198.1| pseudouridine synthase [Brucella ceti M490/95/1]
gi|264659422|gb|EEZ29683.1| pseudouridine synthase [Brucella pinnipedialis M292/94/1]
Length = 334
Score = 183 bits (464), Expect = 1e-43, Method: Compositional matrix adjust.
Identities = 107/275 (38%), Positives = 156/275 (56%), Gaps = 35/275 (12%)
Query: 61 EETVDTKAGKLRLDAWISSRID-GISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
E D+ A RLD W+++ + +SR+RVQS I G V+I+G + ++ G +
Sbjct: 3 ELIADSDAAGKRLDQWLAAALGPELSRSRVQSLIADGHVTIDGAPARETKQKLREGMNIA 62
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
+SE +P + E+IPLDI+YEDD+++V+NKPA +VVHP GN TGTLVN +++HC
Sbjct: 63 IVLSEPEPAEPQGENIPLDILYEDDDLIVINKPAGLVVHPGNGNWTGTLVNALIYHCG-- 120
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
+ S I G RPGIVHRLDK TSG++VVAK++ +H HLS
Sbjct: 121 --------------------DSLSGIGGIR-RPGIVHRLDKDTSGVMVVAKNDRAHRHLS 159
Query: 240 EQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHA 295
EQF H +ER Y++L G+ + G ++ + R +R + A + + ARHA
Sbjct: 160 EQFADHGRTGDLERAYLALVWGMTERPQGTVDAYLGRSHRDRTKQAVV--HEEREDARHA 217
Query: 296 ASRYKVIEIL-----AGGGSALVEWRLETGRTHQV 325
+ Y +E A ++LVE RLETGRTHQ+
Sbjct: 218 ITHYATVEKFSPREDATALASLVECRLETGRTHQI 252
>gi|429727610|ref|ZP_19262374.1| pseudouridine synthase, RluA family [Peptostreptococcus anaerobius
VPI 4330]
gi|429151914|gb|EKX94755.1| pseudouridine synthase, RluA family [Peptostreptococcus anaerobius
VPI 4330]
Length = 320
Score = 183 bits (464), Expect = 1e-43, Method: Compositional matrix adjust.
Identities = 105/254 (41%), Positives = 147/254 (57%), Gaps = 31/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +I+S+ ISR+ +Q I+ + +N ++ K S+ VK GD + + E Q L E
Sbjct: 32 RLDFYIASQYRDISRSYIQKLIKEDRIRVNSKI-EKASYKVKTGDKIEVNMPEPQALEIE 90
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
+DI +DIVYEDD ++VVNK MVVHPAPGN TLVN +L HC
Sbjct: 91 PQDIGIDIVYEDDYLMVVNKQQGMVVHPAPGNPDRTLVNAVLFHCG-------------- 136
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+ SSI+G IRPGIVHR+DK TSGLLV+AKD +H LS+QFK+H+I R Y
Sbjct: 137 --------DRLSSINGV-IRPGIVHRIDKNTSGLLVIAKDNQTHQGLSDQFKVHSITREY 187
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+ G I+ PI R+P +R++MA + + K A + ++++E G +
Sbjct: 188 EMICIGNVEWQEKTIDGPIGRNPKDRMKMAIVKTNGK-----RAVTHFRLVE--NYDGYS 240
Query: 312 LVEWRLETGRTHQV 325
+ RLETGRTHQ+
Sbjct: 241 HLSARLETGRTHQI 254
>gi|219670033|ref|YP_002460468.1| pseudouridine synthase [Desulfitobacterium hafniense DCB-2]
gi|219540293|gb|ACL22032.1| pseudouridine synthase, RluA family [Desulfitobacterium hafniense
DCB-2]
Length = 334
Score = 183 bits (464), Expect = 1e-43, Method: Compositional matrix adjust.
Identities = 108/254 (42%), Positives = 150/254 (59%), Gaps = 33/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++ R+ G SR+ +Q I G V +NG K ++ V+ D + I + L+ E
Sbjct: 44 RLDVGVTERV-GKSRSFIQGLIEEGHVLVNG-AARKANYKVRAMDQIAVVIPPPRELKVE 101
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AE+IPL+I+YED++VLVVNK MVVHPAPG T TLVN +L+HC
Sbjct: 102 AENIPLEILYEDEDVLVVNKSQGMVVHPAPGAWTKTLVNALLYHCR-------------- 147
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
S I+G +RPGIVHR+DK TSGLLVVAK++ +H L+EQ K H++ R Y
Sbjct: 148 ---------NLSGINGV-LRPGIVHRIDKDTSGLLVVAKNDLAHQGLAEQIKAHSMARRY 197
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+++ GV + SG +E PI RDP +R +MA + A+ A + Y+V+E
Sbjct: 198 LAIVHGVVFEPSGTVEAPIGRDPADRKKMAVV-----FQNAKEAVTHYEVLERFR--DFT 250
Query: 312 LVEWRLETGRTHQV 325
L+E RLETGRTHQ+
Sbjct: 251 LLEARLETGRTHQI 264
>gi|289422301|ref|ZP_06424151.1| ribosomal large subunit pseudouridine synthase D
[Peptostreptococcus anaerobius 653-L]
gi|289157246|gb|EFD05861.1| ribosomal large subunit pseudouridine synthase D
[Peptostreptococcus anaerobius 653-L]
Length = 320
Score = 183 bits (464), Expect = 1e-43, Method: Compositional matrix adjust.
Identities = 105/254 (41%), Positives = 147/254 (57%), Gaps = 31/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +I+S+ ISR+ +Q I+ + +N ++ K S+ VK GD + + E Q L E
Sbjct: 32 RLDFYIASQYRDISRSYIQKLIKEDRIRVNSKI-EKASYKVKTGDKIEVNMPEPQALEIE 90
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
+DI +DIVYEDD ++VVNK MVVHPAPGN TLVN +L HC
Sbjct: 91 PQDIGIDIVYEDDYLMVVNKQQGMVVHPAPGNPDRTLVNAVLFHCG-------------- 136
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+ SSI+G IRPGIVHR+DK TSGLLV+AKD +H LS+QFK+H+I R Y
Sbjct: 137 --------DRLSSINGV-IRPGIVHRIDKNTSGLLVIAKDNQTHQGLSDQFKVHSITREY 187
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+ G I+ PI R+P +R++MA + + K A + ++++E G +
Sbjct: 188 EMICIGNVEWQEKTIDGPIGRNPKDRMKMAIVKTNGK-----RAVTHFRLVE--NYDGYS 240
Query: 312 LVEWRLETGRTHQV 325
+ RLETGRTHQ+
Sbjct: 241 HLSARLETGRTHQI 254
>gi|270308540|ref|YP_003330598.1| RluD subfamily ribosomal large subunit pseudouridine synthase
[Dehalococcoides sp. VS]
gi|270154432|gb|ACZ62270.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Dehalococcoides sp. VS]
Length = 302
Score = 183 bits (464), Expect = 1e-43, Method: Compositional matrix adjust.
Identities = 102/254 (40%), Positives = 148/254 (58%), Gaps = 33/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +I+ + +SR+ +Q+ I SG V +NG+ +K S +K GD + IS P +
Sbjct: 16 RLDKYIAQKETDLSRSFIQALIDSGHVQVNGKT-AKPSLKLKNGDTITIEISPETPPELK 74
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AEDIPL+I+++D ++L++NKP + VHPAPG+ TL+NG+L E F D
Sbjct: 75 AEDIPLEIIFQDKDLLLINKPPGLTVHPAPGHPDHTLINGVL-------ALEPKMEDFDD 127
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+RPGIVHRLDK TSGLL+VAK+ + A+LS QFK T+ + Y
Sbjct: 128 P-----------------LRPGIVHRLDKDTSGLLLVAKNRETLANLSAQFKERTVRKYY 170
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++L G + G IE P+ RDP NR ++A + RHA + YKV+ + G +
Sbjct: 171 LTLVKGELHPAEGFIEAPLGRDPQNRQKIAVV------SNGRHARTGYKVLRYIQ--GYS 222
Query: 312 LVEWRLETGRTHQV 325
L+E +LETGRTHQ+
Sbjct: 223 LLEVKLETGRTHQI 236
>gi|429765557|ref|ZP_19297842.1| pseudouridine synthase, RluA family [Clostridium celatum DSM 1785]
gi|429186008|gb|EKY26971.1| pseudouridine synthase, RluA family [Clostridium celatum DSM 1785]
Length = 315
Score = 183 bits (464), Expect = 1e-43, Method: Compositional matrix adjust.
Identities = 108/272 (39%), Positives = 162/272 (59%), Gaps = 37/272 (13%)
Query: 58 VQLEETV----DTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVK 113
+ +EE + + K G+ R+D ++S I+G SR+ +Q I V++N + + K ++ ++
Sbjct: 11 INMEEIIFNIDEEKVGQ-RIDKYLSEAIEGKSRSFIQGLIDDENVNVNDKKI-KSNYKLR 68
Query: 114 GGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGIL 173
D++ + E + L E + LDIVYED +V+++NK +VVHPAPGN TGTLVNGIL
Sbjct: 69 KNDVITVKLKEPEELNVLPEKMDLDIVYEDSDVIIINKSKGVVVHPAPGNYTGTLVNGIL 128
Query: 174 HHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEH 233
HHC+ D+S I+G IRPGIVHR+DK TSG+LV+AK++
Sbjct: 129 HHCT----------------DLS-------GINGV-IRPGIVHRIDKDTSGILVIAKNDD 164
Query: 234 SHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQAR 293
+H L+ QFK H+I+R Y +L G S G ++ PISRD +RI+MA + +
Sbjct: 165 AHNSLAVQFKDHSIKREYYALVEGRFSTLEGTVDKPISRDKKDRIKMAI------NSDGK 218
Query: 294 HAASRYKVIEILAGGGSALVEWRLETGRTHQV 325
A + Y+V+E G S L++ LETGRTHQ+
Sbjct: 219 RAVTHYEVLEQYDKGVS-LIKCTLETGRTHQI 249
>gi|319408111|emb|CBI81764.1| ribosomal large subunit pseudouridine synthase D [Bartonella
schoenbuchensis R1]
Length = 340
Score = 183 bits (464), Expect = 1e-43, Method: Compositional matrix adjust.
Identities = 104/276 (37%), Positives = 157/276 (56%), Gaps = 35/276 (12%)
Query: 60 LEETVDTKAGKLRLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
+++ D A R+D W++ + + +SR+R+Q+ IR G + ++GQ++ + ++ +
Sbjct: 2 IQQITDESALGQRIDQWLAKKYHNELSRSRLQTLIREGYLKVDGQLIKEPKTKLQPNQTI 61
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
I L+ + E E I LDI++EDD+V+V+NKPA +VVHP GN TGTLVN ++HHC
Sbjct: 62 ELIIPPLKNVHLEGEAIVLDILFEDDHVIVINKPAGLVVHPGNGNWTGTLVNALIHHCG- 120
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+ S I G RPGIVHRLDK TSG++VVAK++ +H L
Sbjct: 121 ---------------------DSLSGIGGVK-RPGIVHRLDKNTSGVMVVAKNDFAHKSL 158
Query: 239 SEQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARH 294
S QF H ++R Y +L P ++ G I+VP+ R P+NRI+ + N H ARH
Sbjct: 159 SAQFSDHGRTCALDRRYHALIWNAPRRNIGTIDVPLGRSPHNRIKQTVVRHQNVH--ARH 216
Query: 295 AASRYKVIEILAGGGSA-----LVEWRLETGRTHQV 325
A + + ++E A L+E RLETGRTHQ+
Sbjct: 217 AITHFSLLEKYKTCADAEPFASLLECRLETGRTHQI 252
>gi|379723203|ref|YP_005315334.1| hypothetical protein PM3016_5487 [Paenibacillus mucilaginosus 3016]
gi|386725924|ref|YP_006192250.1| hypothetical protein B2K_27955 [Paenibacillus mucilaginosus K02]
gi|378571875|gb|AFC32185.1| YlyB [Paenibacillus mucilaginosus 3016]
gi|384093049|gb|AFH64485.1| hypothetical protein B2K_27955 [Paenibacillus mucilaginosus K02]
Length = 329
Score = 182 bits (463), Expect = 1e-43, Method: Compositional matrix adjust.
Identities = 110/279 (39%), Positives = 166/279 (59%), Gaps = 35/279 (12%)
Query: 60 LEETVDTKAGKLRLDAWISSRI-DG--ISRARVQSSIRSGLVSINGQVVSKVSHNVKGGD 116
LE V + R+D +++ + DG +SR ++Q I+ G V+++G++V K ++ + GD
Sbjct: 25 LEWHVGEEEAGERIDKFLAEMLEDGLDVSRTQLQQWIKDGHVTVSGRIV-KPNYKLGEGD 83
Query: 117 MVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC 176
+ + E Q L AEDIPLD++YED +V+VVNKP MVVHPAPG+ +GTLVN +L+HC
Sbjct: 84 SLKLVVPEPQELELTAEDIPLDVIYEDSDVIVVNKPRGMVVHPAPGHYSGTLVNALLYHC 143
Query: 177 SLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHA 236
+D+ S I+G +RPGIVHR+DK TSGLL+ AK++ +HA
Sbjct: 144 ----------------KDL-------SGINGI-MRPGIVHRIDKDTSGLLMAAKNDLAHA 179
Query: 237 HLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAA 296
L+EQ K H+ R YI+L G +G ++ PI RDP +R ++ + N ++HA
Sbjct: 180 GLTEQLKAHSATRKYIALVHGNVPHENGTVDAPIGRDPKDR-KLYTVTEKN----SKHAV 234
Query: 297 SRYKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ + V+E G L+E +LETGRTHQ+ + K P
Sbjct: 235 THFIVLERF--GDYTLLELKLETGRTHQIRVHMKFIGHP 271
>gi|225628223|ref|ZP_03786257.1| pseudouridine synthase, RluA family protein [Brucella ceti str.
Cudo]
gi|261757311|ref|ZP_06001020.1| ribosomal large subunit pseudouridine synthase [Brucella sp. F5/99]
gi|225616069|gb|EEH13117.1| pseudouridine synthase, RluA family protein [Brucella ceti str.
Cudo]
gi|261737295|gb|EEY25291.1| ribosomal large subunit pseudouridine synthase [Brucella sp. F5/99]
Length = 334
Score = 182 bits (463), Expect = 2e-43, Method: Compositional matrix adjust.
Identities = 107/275 (38%), Positives = 156/275 (56%), Gaps = 35/275 (12%)
Query: 61 EETVDTKAGKLRLDAWISSRID-GISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
E D+ A RLD W+++ + +SR+RVQS I G V+I+G + ++ G +
Sbjct: 3 ELIADSDAAGKRLDQWLAAALGPELSRSRVQSLIAYGHVTIDGAPARETKQKLREGMNIA 62
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
+SE +P + E+IPLDI+YEDD+++V+NKPA +VVHP GN TGTLVN +++HC
Sbjct: 63 IVLSEPEPAEPQGENIPLDILYEDDDLIVINKPAGLVVHPGNGNWTGTLVNALIYHCG-- 120
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
+ S I G RPGIVHRLDK TSG++VVAK++ +H HLS
Sbjct: 121 --------------------DSLSGIGGIR-RPGIVHRLDKDTSGVMVVAKNDRAHRHLS 159
Query: 240 EQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHA 295
EQF H +ER Y++L G+ + G ++ + R +R + A + + ARHA
Sbjct: 160 EQFADHGRTGDLERAYLALVWGMTERPQGTVDAYLGRSHRDRTKQAVV--HEEREDARHA 217
Query: 296 ASRYKVIEIL-----AGGGSALVEWRLETGRTHQV 325
+ Y +E A ++LVE RLETGRTHQ+
Sbjct: 218 ITHYATVEKFSPREDATALASLVECRLETGRTHQI 252
>gi|117925422|ref|YP_866039.1| ribosomal large subunit pseudouridine synthase D [Magnetococcus
marinus MC-1]
gi|117609178|gb|ABK44633.1| ribosomal large subunit pseudouridine synthase D [Magnetococcus
marinus MC-1]
Length = 332
Score = 182 bits (463), Expect = 2e-43, Method: Compositional matrix adjust.
Identities = 106/254 (41%), Positives = 147/254 (57%), Gaps = 24/254 (9%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD + ++R+ +Q I+ V ++ +V S V+ G + SE +P A
Sbjct: 22 RLDKALCCHFPDLTRSTLQRWIKEERVIVDHEVAKLPSQKVRVGQHIIIYPSEPEPSTAL 81
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E+I L+I++ED++++V+NKPA MVVHP G GTLVN +L+HC P
Sbjct: 82 PEEIALEILFEDEHLIVLNKPAGMVVHPGAGVNHGTLVNALLYHCGTP------------ 129
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
D+ S G IRPGIVHRLDK TSG++V AK +H+H HLS QF+ TI R Y
Sbjct: 130 -----DNPHGGLSGIGGVIRPGIVHRLDKETSGIMVAAKQDHAHIHLSRQFEQRTIGRRY 184
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++LT G+P + GRIE I R P +R +MA + R AA+RYKV+E L G A
Sbjct: 185 LALTRGIPQPAQGRIEGAIGRHPIHRTKMAVVEQG-----GRAAATRYKVLEPL--GQFA 237
Query: 312 LVEWRLETGRTHQV 325
L+ RLE+GRTHQ+
Sbjct: 238 LIRCRLESGRTHQI 251
>gi|392940816|ref|ZP_10306460.1| pseudouridine synthase, RluA family [Thermoanaerobacter
siderophilus SR4]
gi|392292566|gb|EIW01010.1| pseudouridine synthase, RluA family [Thermoanaerobacter
siderophilus SR4]
Length = 307
Score = 182 bits (463), Expect = 2e-43, Method: Compositional matrix adjust.
Identities = 104/254 (40%), Positives = 152/254 (59%), Gaps = 34/254 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D ++++ +D +R+ ++ I GLV +NG+ V K S+ VK D V I E + +
Sbjct: 19 RIDVFLAAELD-YTRSYIKKLIVDGLVFVNGKTV-KPSYKVKENDEVVVNIPEAEKIDVL 76
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E+IPLDI+YEDD+++V+NKP MVVHPAPGN +GTLVN +L+HC
Sbjct: 77 PENIPLDILYEDDDIIVINKPQGMVVHPAPGNYSGTLVNALLYHC--------------- 121
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+ S I+G +RPGIVHRLDK TSG++VVAK++ +H LS Q K ++ + Y
Sbjct: 122 --------KNLSGINGI-LRPGIVHRLDKDTSGVMVVAKNDKAHISLSNQIKERSVFKKY 172
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+++ GV +G IE PI R P +R +MA I R+A + YKV+E +
Sbjct: 173 VAIVEGVIKDEAGEIEAPIGRHPVDRKKMAVIE------DGRYALTLYKVLERFK--ENT 224
Query: 312 LVEWRLETGRTHQV 325
LVE ++TGRTHQ+
Sbjct: 225 LVEAVIKTGRTHQI 238
>gi|372210267|ref|ZP_09498069.1| ribosomal large subunit pseudouridine synthase D [Flavobacteriaceae
bacterium S85]
Length = 337
Score = 182 bits (463), Expect = 2e-43, Method: Compositional matrix adjust.
Identities = 112/262 (42%), Positives = 151/262 (57%), Gaps = 34/262 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
LR+D ++ + I ++R +VQ +++ G V +N +VV K +H VK GD+V + E P
Sbjct: 25 LRVDKFLMNFIMNVTRNKVQQAVKDGNVLVNDEVV-KANHKVKAGDVVRV-VFEYAPRET 82
Query: 131 E--AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEA 188
E E+IPLDIV+EDD V+VVNKPA MVVHP GN TGTLVN ++HH
Sbjct: 83 EILPENIPLDIVHEDDAVIVVNKPAGMVVHPGHGNYTGTLVNALMHH------------- 129
Query: 189 FSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIE 248
F + A RPG+VHR+DK TSGLLV+AK EH+ AHLS+QFK T E
Sbjct: 130 ------------FKNLPENADGRPGLVHRIDKDTSGLLVIAKTEHALAHLSQQFKDKTSE 177
Query: 249 RVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGG 308
R+Y +L G + G IE I R NR+ M + +HG+ A + +KV+E
Sbjct: 178 RLYYALVWGNIEEDEGTIEGHIGRHLKNRL-MQDVFTDGEHGKP--AVTHFKVLERFT-- 232
Query: 309 GSALVEWRLETGRTHQVLMLYK 330
LV+ LETGRTHQ+ +K
Sbjct: 233 YVTLVQCELETGRTHQIRAHFK 254
>gi|443327970|ref|ZP_21056575.1| pseudouridine synthase, RluA family [Xenococcus sp. PCC 7305]
gi|442792379|gb|ELS01861.1| pseudouridine synthase, RluA family [Xenococcus sp. PCC 7305]
Length = 322
Score = 182 bits (463), Expect = 2e-43, Method: Compositional matrix adjust.
Identities = 101/262 (38%), Positives = 148/262 (56%), Gaps = 29/262 (11%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
++ K RLD W++S++ ISR+R+Q I G V +NG+V +++ GD + TI
Sbjct: 20 LEVKTQSDRLDRWLASQLTDISRSRIQKLIEDGHVILNGKVCGSKKNSLTNGDRLKITIP 79
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
L AE+IPLD++YED+ ++++NKP +VVHPAPG+ GTLVN +L+HC
Sbjct: 80 APTKLDLIAENIPLDVLYEDEELIIINKPPGLVVHPAPGHPNGTLVNALLYHC------- 132
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
+ + I G RPGIVHRLDK T+G +VVAK + +H HL Q K
Sbjct: 133 ----------------QNLAGIGGVE-RPGIVHRLDKDTTGAIVVAKSDRAHQHLQAQIK 175
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
T R Y + G P SG+I +PI R ++R +MA IP R A + + ++E
Sbjct: 176 AKTARREYWGVVCGCPKTESGQINLPIGRHKSDRKKMAVIPVDQG---GREAITHWSILE 232
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
L+ L+++ LETGRTHQ+
Sbjct: 233 RLS--NYTLMQFLLETGRTHQI 252
>gi|172057958|ref|YP_001814418.1| RluA family pseudouridine synthase [Exiguobacterium sibiricum
255-15]
gi|171990479|gb|ACB61401.1| pseudouridine synthase, RluA family [Exiguobacterium sibiricum
255-15]
Length = 307
Score = 182 bits (463), Expect = 2e-43, Method: Compositional matrix adjust.
Identities = 110/277 (39%), Positives = 162/277 (58%), Gaps = 33/277 (11%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q E V R+D W++ + D SR++VQ +++G V ++G++V K ++ + G + +
Sbjct: 4 QNEWAVKANGATGRIDKWLAEQQDW-SRSQVQDWLKAGHVEVDGRIV-KPNYKMSGTEEI 61
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
I E L EDIPLD+VYED +V+V+NKP MVVHPA G+ +GTLVN +LHHC
Sbjct: 62 LVRIPEAVELEVLPEDIPLDVVYEDSDVIVINKPKGMVVHPAAGHVSGTLVNALLHHC-- 119
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+D+ S I+G RPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 120 --------------QDL-------SGINGVK-RPGIVHRIDKDTSGLLMVAKNDLAHESL 157
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
++Q K T ER+YI+L G G IE P+ RD N+R RM ++K+ +A A +
Sbjct: 158 AQQLKDKTTERLYIALVHGEIPHELGTIEAPVGRDKNDRQRMTV---TDKNSKA--AVTH 212
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
++V+E G +VE +LETGRTHQ+ + + P
Sbjct: 213 FRVLERYE--GFTVVECKLETGRTHQIRVHMRYIGFP 247
>gi|427722328|ref|YP_007069605.1| ribosomal large subunit pseudouridine synthase D [Leptolyngbya sp.
PCC 7376]
gi|427354048|gb|AFY36771.1| ribosomal large subunit pseudouridine synthase D [Leptolyngbya sp.
PCC 7376]
Length = 308
Score = 182 bits (462), Expect = 2e-43, Method: Compositional matrix adjust.
Identities = 104/262 (39%), Positives = 149/262 (56%), Gaps = 31/262 (11%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
V +A RLD W+S ++D +SR+R+Q I G V+IN +V + + + GGD + TI
Sbjct: 9 VTAEAQGQRLDQWLSLQLDDLSRSRIQKLIGQGQVAINEKVCTTKKYKLSGGDRLQVTIP 68
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
L + E + LDI++EDD+ L+VNK A++VVHPAPG+ TGTLV+G+L HC
Sbjct: 69 APVSLELQPEAMDLDILFEDDHFLIVNKAANVVVHPAPGHYTGTLVHGLLAHCG------ 122
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
+ + I G RPGIVHRLDK T+G + +AK + +H HL Q K
Sbjct: 123 ----------------DRLAGIGGVQ-RPGIVHRLDKDTTGAIAIAKTDQAHQHLQAQIK 165
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
T R Y+ + G P Q +G +E PI R +R +MA I R A +R+++ E
Sbjct: 166 AKTARREYLGVVYGCPQQPAGIVEAPIDRHKIDRKKMAVIES------GRPALTRWELQE 219
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
L G +L+ +RLETGRTHQ+
Sbjct: 220 RL--GNYSLLYYRLETGRTHQI 239
>gi|52430462|ref|YP_089634.1| ribosomal large subunit pseudouridine synthase D [Brucella suis
1330]
gi|161619586|ref|YP_001593473.1| RluA family pseudouridine synthase [Brucella canis ATCC 23365]
gi|163845235|ref|YP_001622890.1| RluA family pseudouridine synthase [Brucella suis ATCC 23445]
gi|237816033|ref|ZP_04595029.1| pseudouridine synthase, RluA family [Brucella abortus str. 2308 A]
gi|256370063|ref|YP_003107574.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Brucella microti CCM 4915]
gi|294850907|ref|ZP_06791583.1| ribosomal large subunit pseudouridine synthase D [Brucella sp. NVSL
07-0026]
gi|297248929|ref|ZP_06932637.1| ribosomal large subunit pseudouridine synthase D [Brucella abortus
bv. 5 str. B3196]
gi|376281305|ref|YP_005155311.1| ribosomal large subunit pseudouridine synthase D [Brucella suis
VBI22]
gi|384225297|ref|YP_005616461.1| ribosomal large subunit pseudouridine synthase D [Brucella suis
1330]
gi|423169261|ref|ZP_17155962.1| RluA family pseudouridine synthase [Brucella abortus bv. 1 str.
NI435a]
gi|423172590|ref|ZP_17159263.1| RluA family pseudouridine synthase [Brucella abortus bv. 1 str.
NI474]
gi|423175726|ref|ZP_17162394.1| RluA family pseudouridine synthase [Brucella abortus bv. 1 str.
NI486]
gi|423178716|ref|ZP_17165359.1| RluA family pseudouridine synthase [Brucella abortus bv. 1 str.
NI488]
gi|423181848|ref|ZP_17168487.1| RluA family pseudouridine synthase [Brucella abortus bv. 1 str.
NI010]
gi|423185151|ref|ZP_17171786.1| RluA family pseudouridine synthase [Brucella abortus bv. 1 str.
NI016]
gi|423188305|ref|ZP_17174917.1| RluA family pseudouridine synthase [Brucella abortus bv. 1 str.
NI021]
gi|423191444|ref|ZP_17178051.1| RluA family pseudouridine synthase [Brucella abortus bv. 1 str.
NI259]
gi|47524301|gb|AAT34906.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Brucella suis 1330]
gi|161336397|gb|ABX62702.1| pseudouridine synthase, RluA family [Brucella canis ATCC 23365]
gi|163675958|gb|ABY40068.1| pseudouridine synthase, RluA family [Brucella suis ATCC 23445]
gi|237788696|gb|EEP62908.1| pseudouridine synthase, RluA family [Brucella abortus str. 2308 A]
gi|256000226|gb|ACU48625.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Brucella microti CCM 4915]
gi|294821550|gb|EFG38546.1| ribosomal large subunit pseudouridine synthase D [Brucella sp. NVSL
07-0026]
gi|297174062|gb|EFH33419.1| ribosomal large subunit pseudouridine synthase D [Brucella abortus
bv. 5 str. B3196]
gi|343383477|gb|AEM18969.1| ribosomal large subunit pseudouridine synthase D [Brucella suis
1330]
gi|358258904|gb|AEU06639.1| ribosomal large subunit pseudouridine synthase D [Brucella suis
VBI22]
gi|374535160|gb|EHR06687.1| RluA family pseudouridine synthase [Brucella abortus bv. 1 str.
NI486]
gi|374535353|gb|EHR06879.1| RluA family pseudouridine synthase [Brucella abortus bv. 1 str.
NI474]
gi|374535447|gb|EHR06969.1| RluA family pseudouridine synthase [Brucella abortus bv. 1 str.
NI435a]
gi|374544603|gb|EHR16072.1| RluA family pseudouridine synthase [Brucella abortus bv. 1 str.
NI488]
gi|374544770|gb|EHR16235.1| RluA family pseudouridine synthase [Brucella abortus bv. 1 str.
NI010]
gi|374545128|gb|EHR16592.1| RluA family pseudouridine synthase [Brucella abortus bv. 1 str.
NI016]
gi|374552956|gb|EHR24378.1| RluA family pseudouridine synthase [Brucella abortus bv. 1 str.
NI021]
gi|374553149|gb|EHR24570.1| RluA family pseudouridine synthase [Brucella abortus bv. 1 str.
NI259]
Length = 347
Score = 182 bits (462), Expect = 2e-43, Method: Compositional matrix adjust.
Identities = 108/283 (38%), Positives = 160/283 (56%), Gaps = 36/283 (12%)
Query: 54 NYAGVQLEETV-DTKAGKLRLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKVSHN 111
N +L+E + D+ A RLD W+++ + +SR+RVQS I G V+I+G +
Sbjct: 8 NEGKTRLKELIADSDAAGKRLDQWLAAALGPELSRSRVQSLIADGHVTIDGAPARETKQK 67
Query: 112 VKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNG 171
++ G + + E +P + E+IPLDI+YEDD+++V+NKPA +VVHP GN TGTLVN
Sbjct: 68 LREGMNIAIVLPEPEPAEPQGENIPLDILYEDDDLIVINKPAGLVVHPGNGNWTGTLVNA 127
Query: 172 ILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKD 231
+++HC + S I G RPGIVHRLDK TSG++VVAK+
Sbjct: 128 LIYHCG----------------------DSLSGIGGIR-RPGIVHRLDKDTSGVMVVAKN 164
Query: 232 EHSHAHLSEQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSN 287
+ +H HLSEQF H +ER Y++L G+ + G ++ + R +R + A +
Sbjct: 165 DRAHRHLSEQFADHGRTGDLERAYLALVWGMTERPQGTVDAYLGRSHRDRTKQAVV--HE 222
Query: 288 KHGQARHAASRYKVIEIL-----AGGGSALVEWRLETGRTHQV 325
+ ARHA + Y +E A ++LVE RLETGRTHQ+
Sbjct: 223 EREDARHAITHYATVEKFSPREDATALASLVECRLETGRTHQI 265
>gi|254478004|ref|ZP_05091388.1| pseudouridine synthase, RluA family [Carboxydibrachium pacificum
DSM 12653]
gi|214036008|gb|EEB76698.1| pseudouridine synthase, RluA family [Carboxydibrachium pacificum
DSM 12653]
Length = 309
Score = 182 bits (462), Expect = 2e-43, Method: Compositional matrix adjust.
Identities = 102/254 (40%), Positives = 152/254 (59%), Gaps = 34/254 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D +++S +D SR+ ++ I GLV +NG+ V K S+ VK D + I E + +
Sbjct: 19 RIDVFLASELD-YSRSYIKKLIEEGLVLVNGKNV-KPSYKVKEDDEIVVNIKEAEKIEVV 76
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E+IPLDI+YED++++V+NKP MVVHPA GN +GTLVN +L+HC
Sbjct: 77 PENIPLDILYEDEDIIVINKPQGMVVHPAAGNYSGTLVNALLYHC--------------- 121
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+ S I+G +RPGIVHRLDK TSG++VVAK++ +H LS Q K ++ + Y
Sbjct: 122 --------KNLSGINGI-LRPGIVHRLDKDTSGVMVVAKNDKAHMSLSNQIKERSVLKKY 172
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
I++ GV + G++E PI R P +R RMA + + R+A + YKV+E +
Sbjct: 173 IAIVEGVIKEEEGKVEAPIGRHPVDRKRMAVVQ------EGRYALTLYKVLERFK--NNT 224
Query: 312 LVEWRLETGRTHQV 325
VE ++TGRTHQ+
Sbjct: 225 FVEATIKTGRTHQI 238
>gi|118443119|ref|YP_878025.1| ribosomal large subunit pseudouridine synthase D [Clostridium novyi
NT]
gi|118133575|gb|ABK60619.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Clostridium novyi NT]
Length = 304
Score = 182 bits (462), Expect = 2e-43, Method: Compositional matrix adjust.
Identities = 103/254 (40%), Positives = 151/254 (59%), Gaps = 33/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +IS + SR+ Q I V +NG + K ++ +K GD V TI E + + E
Sbjct: 16 RLDVFISKCFEEKSRSYAQKLIEDKNVLVNGSI-KKSNYKLKTGDNVEVTIKEDETINIE 74
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
EDI L+I+YED++V+V++KP MVVHP GN +GTLVNG+L+HC
Sbjct: 75 PEDIKLNILYEDEDVIVIDKPQGMVVHPGNGNYSGTLVNGLLYHC--------------- 119
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+ SSI+G +RPGIVHR+DK TSG+LVVAK++++H LSEQ K H+++R Y
Sbjct: 120 --------DSLSSING-DVRPGIVHRIDKDTSGVLVVAKNDNAHIILSEQLKEHSMKREY 170
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++L G+ G I+ P+ R+P +RI+ A + ++A + Y+VI +
Sbjct: 171 VALVEGIIKDDEGTIDEPLGRNPKDRIKRAVVRN------GKNAITHYEVIRRF--NKNT 222
Query: 312 LVEWRLETGRTHQV 325
LV+ LETGRTHQ+
Sbjct: 223 LVKCILETGRTHQI 236
>gi|291550385|emb|CBL26647.1| ribosomal large subunit pseudouridine synthase D [Ruminococcus
torques L2-14]
Length = 304
Score = 182 bits (462), Expect = 2e-43, Method: Compositional matrix adjust.
Identities = 100/254 (39%), Positives = 148/254 (58%), Gaps = 31/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D ++ RI+ +SR+ +Q I+ + +N Q+ K ++ + GD + I + +PL +
Sbjct: 14 RIDKFLDGRIESLSRSYIQKLIKEKKILVN-QLPVKANYKLTTGDTIILQIPDPEPLDIQ 72
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E+IPLDI+YEDD++LVVNKP MVVHPAPG+ + TLVN +L+HC
Sbjct: 73 PENIPLDILYEDDDILVVNKPKGMVVHPAPGHYSHTLVNAVLYHCG-------------- 118
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
E S I+G IRPGIVHR+D T+G L++ K++ +H L+EQ K H+I R Y
Sbjct: 119 --------ENLSGINGV-IRPGIVHRIDMNTTGSLLICKNDKAHQILAEQLKEHSITRKY 169
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
S+ G + +G + PI R P +R +M S K RHA + Y+V+E G
Sbjct: 170 HSIVHGNLKEDTGTVNAPIGRHPTDRKKM-----STKAPNGRHAVTHYRVLERF--GNFT 222
Query: 312 LVEWRLETGRTHQV 325
+E +LETGRTHQ+
Sbjct: 223 YIECQLETGRTHQI 236
>gi|160880488|ref|YP_001559456.1| RluA family pseudouridine synthase [Clostridium phytofermentans
ISDg]
gi|160429154|gb|ABX42717.1| pseudouridine synthase, RluA family [Clostridium phytofermentans
ISDg]
Length = 313
Score = 182 bits (462), Expect = 2e-43, Method: Compositional matrix adjust.
Identities = 100/267 (37%), Positives = 159/267 (59%), Gaps = 34/267 (12%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
+D++ R+D++++ +GISR+ +Q I+ LV ING V+ K ++ +K GD++ +
Sbjct: 9 IDSEYEDERIDSFLAEFEEGISRSYIQKLIKDSLVKINGNVI-KANYRLKEGDILTYEVP 67
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
+ L AE+IPLDI+YED++++V+NKP +VVHPA G+ +GTLVN +L+HC
Sbjct: 68 QPVSLEIAAENIPLDILYEDEDIIVINKPKGLVVHPAAGHYSGTLVNALLYHC------- 120
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
++ S I+G +RPGIVHR+D T+G+LVV K++ SH ++EQ K
Sbjct: 121 ---------------KDRLSGINGV-MRPGIVHRIDMNTTGVLVVCKNDKSHQSIAEQLK 164
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
+H+I R Y +L Q+ G ++ PI R P +R +MA H ++A + Y+V+E
Sbjct: 165 VHSITRKYEALVYNSFKQTEGTVDAPIGRHPVDRKKMAI-----NHKNGKNAVTNYRVLE 219
Query: 304 ILAGG-----GSALVEWRLETGRTHQV 325
G G A +E L+TGRTHQ+
Sbjct: 220 NFNLGYVHNQGYAHIECTLKTGRTHQI 246
>gi|399888864|ref|ZP_10774741.1| pseudouridylate synthase [Clostridium arbusti SL206]
Length = 305
Score = 182 bits (462), Expect = 2e-43, Method: Compositional matrix adjust.
Identities = 104/255 (40%), Positives = 153/255 (60%), Gaps = 33/255 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
+R+D +IS++ SR+ ++ I V++NG+ K ++ +K D ++ I E + L
Sbjct: 15 MRIDVFISTKFKDKSRSYIKGIIDELGVTVNGRD-KKSNYKLKIDDEISFAIPENRELDV 73
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
EAE I +DI+YED +V+VV+K MVVHPAPGN TGTLVN +L+HC
Sbjct: 74 EAEKIDIDILYEDSDVIVVDKQQGMVVHPAPGNYTGTLVNALLYHC-------------- 119
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
+D+S I+G + RPGIVHR+DK TSG+LVVAK++ SH L+EQ K H++ R+
Sbjct: 120 --KDLS-------GINGIN-RPGIVHRIDKDTSGVLVVAKNDKSHKFLAEQLKEHSMNRI 169
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y++L G+ G I+ P+ R P RI+++ + R A + YKVIE +
Sbjct: 170 YLALVEGIIKVDEGTIDAPLGRHPVERIKISIVK------NGREAVTHYKVIERFK--NN 221
Query: 311 ALVEWRLETGRTHQV 325
LVE +LETGRTHQ+
Sbjct: 222 TLVECKLETGRTHQI 236
>gi|375309375|ref|ZP_09774656.1| RNA pseudouridine synthase ylyb [Paenibacillus sp. Aloe-11]
gi|375078684|gb|EHS56911.1| RNA pseudouridine synthase ylyb [Paenibacillus sp. Aloe-11]
Length = 323
Score = 182 bits (462), Expect = 2e-43, Method: Compositional matrix adjust.
Identities = 109/296 (36%), Positives = 173/296 (58%), Gaps = 35/296 (11%)
Query: 40 SSSSSGGNNREPIANYAGVQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVS 99
SS S+G + E + + LE T + K R+D +I+ +++ +SR+++Q I +GLV
Sbjct: 7 SSESTGLSYDEELERES---LEWTAEAGDAKTRIDKYIAEKMEDVSRSQIQLWIGNGLVL 63
Query: 100 INGQVVSKVSHNVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHP 159
+NG + K ++ + GD + ++ E + + E+IPLD+VYED +V+V+NK +VVHP
Sbjct: 64 VNGSAI-KANYKLAEGDRIELSVPEPESVDIIPENIPLDVVYEDSDVIVINKQRGLVVHP 122
Query: 160 APGNATGTLVNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLD 219
APG+ +GTLVN +++HC D+S I+G +RPGIVHR+D
Sbjct: 123 APGHTSGTLVNALMYHC----------------HDLS-------GING-ELRPGIVHRID 158
Query: 220 KGTSGLLVVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIR 279
K TSGL++ AK++ +HA L+ Q K H++ R YI+L G S G ++ PI RD +R +
Sbjct: 159 KDTSGLIMAAKNDQAHASLAAQLKEHSVTRKYIALVHGHLSHDQGTVDAPIGRDSGDR-K 217
Query: 280 MAAIPGSNKHGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ + N ++HA + + VIE L G L+E +LETGRTHQ+ + K P
Sbjct: 218 LFTVTERN----SKHAVTHFLVIERL--GDYTLLELQLETGRTHQIRVHMKFIGHP 267
>gi|374997203|ref|YP_004972702.1| RluA family pseudouridine synthase [Desulfosporosinus orientis DSM
765]
gi|357215569|gb|AET70187.1| pseudouridine synthase, RluA family [Desulfosporosinus orientis DSM
765]
Length = 339
Score = 182 bits (462), Expect = 2e-43, Method: Compositional matrix adjust.
Identities = 106/255 (41%), Positives = 152/255 (59%), Gaps = 33/255 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
+RLD ++ + G SR+ VQ I + +NG + K ++ V+ GD + + Q L+A
Sbjct: 46 VRLDVGVTEVL-GRSRSYVQGLIIQNYILVNG-LSKKANYKVRFGDKITVMVPPPQELQA 103
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
E E+IPL+I+YED++VLVVNKP MVVHPAPG GTLVN +L HC
Sbjct: 104 EPENIPLEILYEDEDVLVVNKPQGMVVHPAPGAWQGTLVNALLFHC-------------- 149
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
S I+G +RPGIVHR+DK TSG+LVVAK++ +H L+ Q K H++ER
Sbjct: 150 ---------HNLSGINGV-LRPGIVHRIDKDTSGILVVAKNDTAHQGLAAQLKAHSMERR 199
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y+++ GV + SG ++ PI RDP R RMA + ++HA + Y V++ L+ +
Sbjct: 200 YLTIVHGVIHEPSGTVDAPIGRDPAERKRMAVV-----RQHSKHAVTHYTVLKRLS--ET 252
Query: 311 ALVEWRLETGRTHQV 325
+E RLETGRTHQ+
Sbjct: 253 TFLEVRLETGRTHQI 267
>gi|427407864|ref|ZP_18898066.1| RluA family pseudouridine synthase [Sphingobium yanoikuyae ATCC
51230]
gi|425713827|gb|EKU76839.1| RluA family pseudouridine synthase [Sphingobium yanoikuyae ATCC
51230]
Length = 316
Score = 182 bits (462), Expect = 2e-43, Method: Compositional matrix adjust.
Identities = 111/271 (40%), Positives = 157/271 (57%), Gaps = 40/271 (14%)
Query: 60 LEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVS-----KVSHNVKG 114
+E T+ LRLD ++ + +SR R+++ I + GQ+VS S V
Sbjct: 8 IETTIGEAQAGLRLDRALAELLPDLSRERIKALI------VEGQIVSGSRSLNPSMKVAV 61
Query: 115 GDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILH 174
G + T+ L A A+DIPLDIV+ED +++VV+KPA +VVHPA GN GTLVN +LH
Sbjct: 62 GQDYSITLPAPVALDAVAQDIPLDIVHEDADLIVVDKPAGLVVHPAAGNLDGTLVNALLH 121
Query: 175 HCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHS 234
HC D + S G RPGIVHR+DK TSGLLVVAK + +
Sbjct: 122 HC---------------------DGQLSGI--GGVARPGIVHRIDKDTSGLLVVAKSDKA 158
Query: 235 HAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARH 294
H L+ QFK H+I+R+Y ++ G+P+ SG ++ I R +R +MA ++ G+ +H
Sbjct: 159 HEGLARQFKDHSIDRLYAAIVYGIPTPGSGTVDAWIGRSDADRKKMAV----HREGRGKH 214
Query: 295 AASRYKVIEILAGGGSALVEWRLETGRTHQV 325
A + Y+V+E L G+A+VE RLETGRTHQV
Sbjct: 215 AVTHYRVMERLR--GAAMVECRLETGRTHQV 243
>gi|430750496|ref|YP_007213404.1| RluA family pseudouridine synthase [Thermobacillus composti KWC4]
gi|430734461|gb|AGA58406.1| pseudouridine synthase, RluA family [Thermobacillus composti KWC4]
Length = 317
Score = 182 bits (462), Expect = 2e-43, Method: Compositional matrix adjust.
Identities = 113/272 (41%), Positives = 159/272 (58%), Gaps = 35/272 (12%)
Query: 65 DTKAGKLRLDAWIS-SRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
+ +AG+ RLD +++ S +G+SR +VQ IR+G V++NG V K ++ ++ GD+V T
Sbjct: 24 EAEAGE-RLDKFVAESAEEGVSRTQVQEWIRTGAVTVNGATV-KPNYRLEPGDVVAVTPP 81
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
E + E IPL +VYED +V+VV+KP MVVHPA G+A+GTLVN +LHHC
Sbjct: 82 EPEDADIRPEPIPLHVVYEDGDVIVVDKPRGMVVHPAHGHASGTLVNALLHHC------- 134
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
D+S I+G +RPGIVHR+DK TSGLL+ AK++ +H LSEQ K
Sbjct: 135 ---------RDLS-------GING-RLRPGIVHRIDKDTSGLLMAAKNDLAHVSLSEQLK 177
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
HT+ER YI+L G G I+ PI RDP++R + A G + + + V+E
Sbjct: 178 AHTVERAYIALVHGNLPHDQGTIDAPIGRDPHDRKKFAVTAGGKP------SVTHFAVLE 231
Query: 304 ILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
G LV +LETGRTHQ+ + K P
Sbjct: 232 RF--GDYTLVRLQLETGRTHQIRVHMKYIGHP 261
>gi|304404034|ref|ZP_07385696.1| pseudouridine synthase, RluA family [Paenibacillus curdlanolyticus
YK9]
gi|304347012|gb|EFM12844.1| pseudouridine synthase, RluA family [Paenibacillus curdlanolyticus
YK9]
Length = 324
Score = 182 bits (461), Expect = 2e-43, Method: Compositional matrix adjust.
Identities = 109/278 (39%), Positives = 161/278 (57%), Gaps = 34/278 (12%)
Query: 60 LEETVDTKAGKLRLDAWISSRI--DGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDM 117
LE V+ RLD +++ +SR ++Q I+SG V +NG +K H ++ GD+
Sbjct: 23 LEWVVEVDEAGERLDKYVTESFADSAVSRTQIQEWIKSGAVLVNG-TEAKAKHRLEAGDV 81
Query: 118 VNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCS 177
+ + E +P AE IPL+IVYED++V+V+NK +VVHPAPG+ +GT+VN +++HC
Sbjct: 82 ITVEVPEPEPAEIIAEPIPLNIVYEDEDVIVINKQRGLVVHPAPGHHSGTVVNALMYHC- 140
Query: 178 LPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAH 237
+D+ S I+G SIRPGIVHR+DK TSGLL+ AK++ +HA
Sbjct: 141 ---------------QDL-------SGING-SIRPGIVHRIDKDTSGLLMAAKNDAAHAS 177
Query: 238 LSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAAS 297
LS Q K HT+ R YI+L G G ++ PI RD +R +M A+ N ++HA +
Sbjct: 178 LSAQLKEHTVTRKYIALVHGNLPHDRGTVDAPIGRDSRDR-KMFAVTDKN----SKHAVT 232
Query: 298 RYKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ VIE L ++E +LETGRTHQ+ + K P
Sbjct: 233 HFSVIERL--DDYTVLELQLETGRTHQIRVHMKYIGHP 268
>gi|315121810|ref|YP_004062299.1| RNA-pseudouridylate synthase protein, ribosomal large subunit D
[Candidatus Liberibacter solanacearum CLso-ZC1]
gi|313495212|gb|ADR51811.1| RNA-pseudouridylate synthase protein, ribosomal large subunit D
[Candidatus Liberibacter solanacearum CLso-ZC1]
Length = 340
Score = 182 bits (461), Expect = 2e-43, Method: Compositional matrix adjust.
Identities = 109/262 (41%), Positives = 153/262 (58%), Gaps = 33/262 (12%)
Query: 72 RLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
R+D W++ + + SR+ V++ I +G +SING V S V G+ + +LQ L
Sbjct: 24 RIDRWLAINLKEKFSRSYVKTLILNGAISINGVVSINPSRKVVPGESFFIDVPQLQQLNI 83
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
AE+IPLDI+YEDD+++V+NK A +VVHPAPGN TGTLVN +LHHC+
Sbjct: 84 AAENIPLDILYEDDDIIVINKQAGLVVHPAPGNWTGTLVNALLHHCN------------- 130
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLH----T 246
S I+G RPGIVHRLDK T+G +VVAK++ +H LSEQF H
Sbjct: 131 ---------NNLSGINGIK-RPGIVHRLDKDTTGTMVVAKNDIAHQRLSEQFADHGLHMG 180
Query: 247 IERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEIL- 305
++R Y ++ GVPS SG I P+ R +NR+R A +K G A +RY+ +EI
Sbjct: 181 LKRSYYAMVWGVPSPDSGTINAPLGRCKSNRLRRAVKRIEDKTGD--RAVTRYQTVEIYN 238
Query: 306 --AGGGSALVEWRLETGRTHQV 325
+ ++L+ LETGRTHQ+
Sbjct: 239 KNSNFAASLLRCDLETGRTHQI 260
>gi|309778048|ref|ZP_07672988.1| ribosomal large subunit pseudouridine synthase D
[Erysipelotrichaceae bacterium 3_1_53]
gi|308914185|gb|EFP59985.1| ribosomal large subunit pseudouridine synthase D
[Erysipelotrichaceae bacterium 3_1_53]
Length = 304
Score = 182 bits (461), Expect = 2e-43, Method: Compositional matrix adjust.
Identities = 103/255 (40%), Positives = 156/255 (61%), Gaps = 33/255 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
+R+D +IS + + +SR+RVQS ++ GL+ +N + +K ++ VK D + + L A
Sbjct: 15 VRIDKYISEQ-EELSRSRVQSLLQEGLILVNEKP-AKANYKVKAQDHITACFDDEMELEA 72
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
E + LD+ YED++V+V+NKP ++VVHPA GN TGTLVNG+L+HC
Sbjct: 73 RPEAMELDVRYEDEDVIVINKPKNIVVHPAAGNQTGTLVNGLLYHC-------------- 118
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
+D+ S I+G ++RPGI+HR+DK T+GLL+VAK++ +HA LS+Q + T+ R+
Sbjct: 119 --KDL-------SGING-TLRPGIIHRIDKDTTGLLIVAKNDLAHASLSKQLQSKTVNRL 168
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y +L GV G I+ PI RD +R +MA ++K A + ++VIE
Sbjct: 169 YYALVHGVIQHDFGTIDAPIGRDVKDRQKMAVTSTNSK-----DARTHFQVIERFE--NY 221
Query: 311 ALVEWRLETGRTHQV 325
LVE RLETGRTHQ+
Sbjct: 222 TLVECRLETGRTHQI 236
>gi|150390556|ref|YP_001320605.1| RluA family pseudouridine synthase [Alkaliphilus metalliredigens
QYMF]
gi|149950418|gb|ABR48946.1| pseudouridine synthase, RluA family [Alkaliphilus metalliredigens
QYMF]
Length = 310
Score = 182 bits (461), Expect = 3e-43, Method: Compositional matrix adjust.
Identities = 103/255 (40%), Positives = 149/255 (58%), Gaps = 32/255 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
+RLD +I+ + D +SR+ +Q I+ V+++G+ K + VK G ++ ++ E + L
Sbjct: 15 VRLDIYIAEQYDDLSRSYIQKVIKDNGVTVDGRP-EKNRYIVKVGQVIVVSLPEAKELEV 73
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
A++IPLDIVYEDD++LVVNKP MVVHPAPGN T+VN +L+HC
Sbjct: 74 TAQNIPLDIVYEDDDLLVVNKPQDMVVHPAPGNYENTMVNALLYHCKGKL---------- 123
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
SSI+G IRPGIVHR+DK TSGLL+VAK+ H+H LSEQ K H+ R
Sbjct: 124 ------------SSINGI-IRPGIVHRIDKDTSGLLMVAKNNHAHQFLSEQLKDHSTTRK 170
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y ++ G + I PI+R +R++MA + G R+A + +V+ G
Sbjct: 171 YHGISVGTIKEERATINAPIARHQTDRLKMAVLAG------GRNAVTHIQVLNRF--GDH 222
Query: 311 ALVEWRLETGRTHQV 325
+E +LETGRTHQ+
Sbjct: 223 TYMEAQLETGRTHQI 237
>gi|414152988|ref|ZP_11409315.1| Uncharacterized RNA pseudouridine synthase ylyB [Desulfotomaculum
hydrothermale Lam5 = DSM 18033]
gi|411455370|emb|CCO07217.1| Uncharacterized RNA pseudouridine synthase ylyB [Desulfotomaculum
hydrothermale Lam5 = DSM 18033]
Length = 307
Score = 182 bits (461), Expect = 3e-43, Method: Compositional matrix adjust.
Identities = 104/263 (39%), Positives = 153/263 (58%), Gaps = 32/263 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
+ + K RLD +++ ISR+ +Q I +V+++ + V K +H +K G+ V +
Sbjct: 7 VIKPEHAKTRLDVFLAGVCQDISRSYIQKLIDEAMVTVDDRPV-KANHKLKAGEKVCLIV 65
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
L+ E E+IPLDI YED +++VVNKP MVVHPA G +GTLVN +L+HC
Sbjct: 66 PPAAELKVEPENIPLDIYYEDSHLIVVNKPRGMVVHPADGTVSGTLVNALLYHC------ 119
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
+D+ S I+G +RPGIVHRLDK TSGLL+VAK++++H L++Q
Sbjct: 120 ----------QDL-------SGINGV-MRPGIVHRLDKDTSGLLMVAKNDNAHQALAQQL 161
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
K T+ R Y++L + G + PI RDP +R +MA I ++K A + Y+V+
Sbjct: 162 KDRTVTRRYLALVHNNLKEEQGTVNAPIGRDPRDRQKMAVIERNSK-----PAVTHYRVV 216
Query: 303 EILAGGGSALVEWRLETGRTHQV 325
E G L+E RLETGRTHQ+
Sbjct: 217 ERF--GRYTLIECRLETGRTHQI 237
>gi|402574180|ref|YP_006623523.1| ribosomal large subunit pseudouridine synthase D [Desulfosporosinus
meridiei DSM 13257]
gi|402255377|gb|AFQ45652.1| ribosomal large subunit pseudouridine synthase D [Desulfosporosinus
meridiei DSM 13257]
Length = 323
Score = 182 bits (461), Expect = 3e-43, Method: Compositional matrix adjust.
Identities = 106/255 (41%), Positives = 156/255 (61%), Gaps = 33/255 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
+RLD ++ ++ SR+ VQ I V +NG + K ++ ++ GD+V TI + A
Sbjct: 37 VRLDLGVTEVLEK-SRSFVQGLITKEWVLVNG-LARKSNYKIRQGDLVKVTIPAPRESSA 94
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
E+IPL+I+Y+D++VLVVNKP MVVHPAPG TGT+VN +L+HC
Sbjct: 95 TPENIPLEIIYQDEDVLVVNKPQGMVVHPAPGAWTGTMVNALLYHC-------------- 140
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
+ S I+G +RPGIVHR+DK TSG+LVVAK++ SH L+ Q K H++ER
Sbjct: 141 ---------DNLSGINGV-LRPGIVHRIDKDTSGILVVAKNDFSHQGLAAQLKAHSMERK 190
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y++L GV ++ SG ++ PI RDP++R RMA + ++K A + Y V+E G +
Sbjct: 191 YLALVHGVMTEPSGTVDAPIGRDPSDRKRMAVVMQNSK-----QAVTHYTVVERF--GDT 243
Query: 311 ALVEWRLETGRTHQV 325
+ +E LETGRTHQ+
Sbjct: 244 SYLEVCLETGRTHQI 258
>gi|406990235|gb|EKE09914.1| hypothetical protein ACD_16C00100G0076 [uncultured bacterium]
Length = 326
Score = 182 bits (461), Expect = 3e-43, Method: Compositional matrix adjust.
Identities = 107/254 (42%), Positives = 146/254 (57%), Gaps = 30/254 (11%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +++ + +SR R+Q I++G V ING ++ V+ VK G + I +
Sbjct: 23 RLDKFLAIKAQDLSRTRLQDLIQTGFVQINGVAMNDVALKVKEGQKIQINIPPVVEAAPV 82
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
+ IPLDI YED++++V+NKPA +VVHPAPGN GTLVN +L+HC
Sbjct: 83 PQKIPLDIFYEDEDLIVLNKPAGLVVHPAPGNPEGTLVNALLNHCG-------------- 128
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
E S I+G RPGIVHRLDK TSGL+VVAK++ +H L+ Q + RVY
Sbjct: 129 --------ESLSGINGVK-RPGIVHRLDKDTSGLMVVAKNDKTHHSLAYQLATREMSRVY 179
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+L G G IE PI RDP++R RMA + + A + YK I+I G ++
Sbjct: 180 QALIWGTLIPHKGIIEGPIGRDPHHRQRMAL------REKGKFARTHYKTIKIF-GRLAS 232
Query: 312 LVEWRLETGRTHQV 325
LVE RLETGRTHQ+
Sbjct: 233 LVECRLETGRTHQI 246
>gi|265984699|ref|ZP_06097434.1| pseudouridine synthase [Brucella sp. 83/13]
gi|306840039|ref|ZP_07472826.1| pseudouridine synthase, RluA family [Brucella sp. NF 2653]
gi|264663291|gb|EEZ33552.1| pseudouridine synthase [Brucella sp. 83/13]
gi|306404853|gb|EFM61145.1| pseudouridine synthase, RluA family [Brucella sp. NF 2653]
Length = 334
Score = 181 bits (460), Expect = 3e-43, Method: Compositional matrix adjust.
Identities = 106/275 (38%), Positives = 155/275 (56%), Gaps = 35/275 (12%)
Query: 61 EETVDTKAGKLRLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
E D+ A RLD W+++ + +SR+RVQS I G V+I+G + ++ G +
Sbjct: 3 ELIADSDAAGKRLDQWLAAALGPELSRSRVQSLIADGHVTIDGAPARETKQKLREGMNIA 62
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
+ E +P + E+IPLDI+YEDD+++V+NKPA +VVHP GN TGTLVN +++HC
Sbjct: 63 IVLPEPEPAEPQGENIPLDILYEDDDLIVINKPAGLVVHPGNGNWTGTLVNALIYHCG-- 120
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
+ S I G RPGIVHRLDK TSG++VVAK++ +H HLS
Sbjct: 121 --------------------DSLSGIGGIR-RPGIVHRLDKDTSGVMVVAKNDRAHRHLS 159
Query: 240 EQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHA 295
EQF H +ER Y++L G+ + G ++ + R +R + A + + ARHA
Sbjct: 160 EQFADHGRTGDLERAYLALVWGMTERPQGTVDAYLGRSHRDRTKQAVV--REEREDARHA 217
Query: 296 ASRYKVIEIL-----AGGGSALVEWRLETGRTHQV 325
+ Y +E A ++LVE RLETGRTHQ+
Sbjct: 218 ITHYATVEKFSPREDATALASLVECRLETGRTHQI 252
>gi|372325255|ref|ZP_09519844.1| Ribosomal large subunit pseudouridine synthase D [Oenococcus
kitaharae DSM 17330]
gi|366984063|gb|EHN59462.1| Ribosomal large subunit pseudouridine synthase D [Oenococcus
kitaharae DSM 17330]
Length = 287
Score = 181 bits (460), Expect = 3e-43, Method: Compositional matrix adjust.
Identities = 107/254 (42%), Positives = 145/254 (57%), Gaps = 36/254 (14%)
Query: 73 LDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVS-HNVKGGDMVNCTISELQPLRAE 131
+D +S +I SR+R+ I+ V++NG+ S+ S + V D + T + +PL
Sbjct: 1 MDKVLSEKIADASRSRIDQLIKESYVTVNGE--SRASKYQVNPDDKIQVTFPQSKPLSLT 58
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AE+IPLDIVYEDD++LVVNKPA MVVHP+ G+A TLVN +L H L
Sbjct: 59 AENIPLDIVYEDDDLLVVNKPAGMVVHPSAGHADHTLVNALLAHAPL------------- 105
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
S+I+G RPGIVHR+DK TSGLL+VAK+ +H LS Q KLH R Y
Sbjct: 106 -----------STING-EFRPGIVHRIDKDTSGLLMVAKNNFAHEKLSAQLKLHKTGRKY 153
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+++ G S+ SG I PI RDP NR + A + G R A + + V+E A
Sbjct: 154 LAIVHGRFSEKSGTINAPIGRDPKNRQKQAVVAG------GREAVTHFTVLEQF--DNFA 205
Query: 312 LVEWRLETGRTHQV 325
L++ LETGRTHQ+
Sbjct: 206 LIQAVLETGRTHQI 219
>gi|49473932|ref|YP_031974.1| ribosomal large subunit pseudouridine synthase D [Bartonella
quintana str. Toulouse]
gi|49239435|emb|CAF25784.1| Ribosomal large subunit pseudouridine synthase D [Bartonella
quintana str. Toulouse]
Length = 334
Score = 181 bits (460), Expect = 3e-43, Method: Compositional matrix adjust.
Identities = 105/275 (38%), Positives = 158/275 (57%), Gaps = 35/275 (12%)
Query: 61 EETVDTKAGKLRLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
++ D A RLD W++ + +SR+R+Q+ IR G + I+GQ++ + +K M+
Sbjct: 4 QQITDEGALGQRLDQWLTKQYHSALSRSRLQALIREGYLKIDGQLIHEPKTKLKPNQMIE 63
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
TI L+ + E I LDI++EDD+V+V+NK A +VVHP GN TGTLVN +++HC
Sbjct: 64 LTIPILRDAKPSGEAIKLDILFEDDHVIVINKQAGLVVHPGNGNLTGTLVNALIYHCG-- 121
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
+ S I G RPGIVHRLDK TSG++VVAK++ +H +LS
Sbjct: 122 --------------------DSLSGIGGVK-RPGIVHRLDKNTSGIMVVAKNDLAHKNLS 160
Query: 240 EQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHA 295
QF H ++R Y +L G P+++ +I+ P+ R P+NR + A I N H ARHA
Sbjct: 161 AQFSDHGRTSALDRRYHALIWGSPNRNVWKIDAPLGRSPHNRTKQAVIYSQNPH--ARHA 218
Query: 296 ASRYKVIEILA-----GGGSALVEWRLETGRTHQV 325
+ + ++E ++L+E RLETGRTHQ+
Sbjct: 219 VTHFSLLEKYGICSDKTSFASLLECRLETGRTHQI 253
>gi|428780052|ref|YP_007171838.1| RluA family pseudouridine synthase [Dactylococcopsis salina PCC
8305]
gi|428694331|gb|AFZ50481.1| pseudouridine synthase, RluA family [Dactylococcopsis salina PCC
8305]
Length = 310
Score = 181 bits (460), Expect = 3e-43, Method: Compositional matrix adjust.
Identities = 106/265 (40%), Positives = 149/265 (56%), Gaps = 31/265 (11%)
Query: 61 EETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNC 120
++ + GK RLD + SR+R+Q I G V +NG + V+ D +
Sbjct: 7 QQVTISATGKQRLDRALVEGFPDFSRSRLQKLIEQGNVQVNGIISKDKKQLVQAKDEIVL 66
Query: 121 TISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPT 180
I QPL + E IPLDI+YED+++++VNKPA +VVHPAPGN TGTLVN +L HC
Sbjct: 67 WIPPPQPLDVQPESIPLDILYEDEHLIIVNKPAGLVVHPAPGNETGTLVNALLAHC---- 122
Query: 181 LASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSE 240
E + I G RPGIVHRLDK TSG +VVAK++ SH HL +
Sbjct: 123 -------------------ENLAGIGGIE-RPGIVHRLDKDTSGAIVVAKNDFSHQHLQK 162
Query: 241 QFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYK 300
Q + T +R Y+ L GVP +G I++PI R P +R +MA + R+A + ++
Sbjct: 163 QIQDKTAKREYLGLVYGVPKGENGSIDLPIGRHPVDRKKMAVVERG-----GRNAITHWQ 217
Query: 301 VIEILAGGGSALVEWRLETGRTHQV 325
+ E L G +L+ ++LETGRTHQ+
Sbjct: 218 LQERL--GNYSLLAFQLETGRTHQI 240
>gi|398382781|ref|ZP_10540862.1| pseudouridine synthase, RluA family [Sphingobium sp. AP49]
gi|397726181|gb|EJK86622.1| pseudouridine synthase, RluA family [Sphingobium sp. AP49]
Length = 298
Score = 181 bits (460), Expect = 3e-43, Method: Compositional matrix adjust.
Identities = 108/255 (42%), Positives = 152/255 (59%), Gaps = 30/255 (11%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
+RLD ++ + +SR R++S I G +S +G S V G + T+ L A
Sbjct: 1 MRLDRALAELLPDLSRERIKSLIVDGQIS-SGSRSLNPSMKVAAGQDFSITLPAPVALDA 59
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
A+DIPLDIV+ED +++VV+KPA +VVHPA GN GTLVN +LHHC
Sbjct: 60 VAQDIPLDIVHEDADLIVVDKPAGLVVHPAAGNLDGTLVNALLHHC-------------- 105
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
D + S G RPGIVHR+DK TSGLLVVAK + +H L+ QFK H+I+R+
Sbjct: 106 -------DGQLSGI--GGVARPGIVHRIDKDTSGLLVVAKSDKAHEGLARQFKDHSIDRL 156
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y ++ G+P+ SG ++ I R +R +MA ++ G+ +HA + Y+V+E L G+
Sbjct: 157 YAAIVYGIPTPGSGTVDAWIGRSDADRKKMAV----HREGRGKHAVTHYRVMERLR--GA 210
Query: 311 ALVEWRLETGRTHQV 325
A+VE RLETGRTHQV
Sbjct: 211 AMVECRLETGRTHQV 225
>gi|62290527|ref|YP_222320.1| ribosomal large subunit pseudouridine synthase D [Brucella abortus
bv. 1 str. 9-941]
gi|82700443|ref|YP_415017.1| ribosomal large subunit pseudouridine synthase [Brucella melitensis
biovar Abortus 2308]
gi|148558837|ref|YP_001259509.1| ribosomal large subunit pseudouridine synthase D [Brucella ovis
ATCC 25840]
gi|189024749|ref|YP_001935517.1| RluD subfamily ribosomal large subunit pseudouridine synthase
[Brucella abortus S19]
gi|260547225|ref|ZP_05822963.1| ribosomal large subunit pseudouridine synthase [Brucella abortus
NCTC 8038]
gi|260568746|ref|ZP_05839214.1| ribosomal large subunit pseudouridine synthase [Brucella suis bv. 4
str. 40]
gi|260755356|ref|ZP_05867704.1| pseudouridine synthase [Brucella abortus bv. 6 str. 870]
gi|260758578|ref|ZP_05870926.1| pseudouridine synthase [Brucella abortus bv. 4 str. 292]
gi|260762410|ref|ZP_05874747.1| pseudouridine synthase [Brucella abortus bv. 2 str. 86/8/59]
gi|260884372|ref|ZP_05895986.1| pseudouridine synthase [Brucella abortus bv. 9 str. C68]
gi|261214623|ref|ZP_05928904.1| pseudouridine synthase [Brucella abortus bv. 3 str. Tulya]
gi|261315976|ref|ZP_05955173.1| pseudouridine synthase [Brucella pinnipedialis M163/99/10]
gi|261325700|ref|ZP_05964897.1| pseudouridine synthase [Brucella neotomae 5K33]
gi|261750812|ref|ZP_05994521.1| pseudouridine synthase [Brucella suis bv. 5 str. 513]
gi|261754066|ref|ZP_05997775.1| pseudouridine synthase [Brucella suis bv. 3 str. 686]
gi|376272620|ref|YP_005151198.1| pseudouridine synthase [Brucella abortus A13334]
gi|376275741|ref|YP_005116180.1| pseudouridine synthase [Brucella canis HSK A52141]
gi|62196659|gb|AAX74959.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Brucella abortus bv. 1 str. 9-941]
gi|82616544|emb|CAJ11622.1| Prenyl group binding site (CAAX box):RNA-binding S4:Pseudouridine
synthase:Pseudouridine synthase, Rlu:Pseudouridine
synthase [Brucella melitensis biovar Abortus 2308]
gi|148370094|gb|ABQ60073.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Brucella ovis ATCC 25840]
gi|189020321|gb|ACD73043.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Brucella abortus S19]
gi|260095590|gb|EEW79468.1| ribosomal large subunit pseudouridine synthase [Brucella abortus
NCTC 8038]
gi|260154130|gb|EEW89212.1| ribosomal large subunit pseudouridine synthase [Brucella suis bv. 4
str. 40]
gi|260668896|gb|EEX55836.1| pseudouridine synthase [Brucella abortus bv. 4 str. 292]
gi|260672836|gb|EEX59657.1| pseudouridine synthase [Brucella abortus bv. 2 str. 86/8/59]
gi|260675464|gb|EEX62285.1| pseudouridine synthase [Brucella abortus bv. 6 str. 870]
gi|260873900|gb|EEX80969.1| pseudouridine synthase [Brucella abortus bv. 9 str. C68]
gi|260916230|gb|EEX83091.1| pseudouridine synthase [Brucella abortus bv. 3 str. Tulya]
gi|261301680|gb|EEY05177.1| pseudouridine synthase [Brucella neotomae 5K33]
gi|261305002|gb|EEY08499.1| pseudouridine synthase [Brucella pinnipedialis M163/99/10]
gi|261740565|gb|EEY28491.1| pseudouridine synthase [Brucella suis bv. 5 str. 513]
gi|261743819|gb|EEY31745.1| pseudouridine synthase [Brucella suis bv. 3 str. 686]
gi|363400226|gb|AEW17196.1| pseudouridine synthase [Brucella abortus A13334]
gi|363404308|gb|AEW14603.1| pseudouridine synthase [Brucella canis HSK A52141]
Length = 334
Score = 181 bits (460), Expect = 4e-43, Method: Compositional matrix adjust.
Identities = 106/275 (38%), Positives = 155/275 (56%), Gaps = 35/275 (12%)
Query: 61 EETVDTKAGKLRLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
E D+ A RLD W+++ + +SR+RVQS I G V+I+G + ++ G +
Sbjct: 3 ELIADSDAAGKRLDQWLAAALGPELSRSRVQSLIADGHVTIDGAPARETKQKLREGMNIA 62
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
+ E +P + E+IPLDI+YEDD+++V+NKPA +VVHP GN TGTLVN +++HC
Sbjct: 63 IVLPEPEPAEPQGENIPLDILYEDDDLIVINKPAGLVVHPGNGNWTGTLVNALIYHCG-- 120
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
+ S I G RPGIVHRLDK TSG++VVAK++ +H HLS
Sbjct: 121 --------------------DSLSGIGGIR-RPGIVHRLDKDTSGVMVVAKNDRAHRHLS 159
Query: 240 EQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHA 295
EQF H +ER Y++L G+ + G ++ + R +R + A + + ARHA
Sbjct: 160 EQFADHGRTGDLERAYLALVWGMTERPQGTVDAYLGRSHRDRTKQAVV--HEEREDARHA 217
Query: 296 ASRYKVIEIL-----AGGGSALVEWRLETGRTHQV 325
+ Y +E A ++LVE RLETGRTHQ+
Sbjct: 218 ITHYATVEKFSPREDATALASLVECRLETGRTHQI 252
>gi|365904068|ref|ZP_09441827.1| pseudouridine synthase [Lactobacillus versmoldensis KCTC 3814]
Length = 297
Score = 181 bits (460), Expect = 4e-43, Method: Compositional matrix adjust.
Identities = 104/257 (40%), Positives = 148/257 (57%), Gaps = 34/257 (13%)
Query: 69 GKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPL 128
GK+RLD +I ++ +SR+++ I+ +++N QV++K + + GD V+ TI +P+
Sbjct: 10 GKVRLDKFIDEQMSELSRSQISKFIKDSEITVNNQVITKTGYKLVNGDEVSFTIPAEKPI 69
Query: 129 RAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEA 188
A +DIPLDIVYEDD+VLVVNKP MVVHPA G+ GTLVN IL+H
Sbjct: 70 EAIPQDIPLDIVYEDDDVLVVNKPQGMVVHPAAGHRDGTLVNAILYHSK----------- 118
Query: 189 FSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIE 248
I+DD+ IRPGIVHR+DK TSGLL+VAK+ + L Q K +
Sbjct: 119 ------INDDD---------LIRPGIVHRIDKDTSGLLMVAKNNLAKQSLMNQLKEKSNL 163
Query: 249 RVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGG 308
R Y+++ G + G I P+ R NNR + A + R A + ++VIE
Sbjct: 164 REYVAIVHGNFKERKGIINAPLGRAKNNRKKQAIV------DDGRKAVTHFEVIEQFE-- 215
Query: 309 GSALVEWRLETGRTHQV 325
G +LV+ +LETGRTHQ+
Sbjct: 216 GYSLVKLKLETGRTHQI 232
>gi|452992514|emb|CCQ96045.1| pseudouridylate synthase [Clostridium ultunense Esp]
Length = 305
Score = 181 bits (460), Expect = 4e-43, Method: Compositional matrix adjust.
Identities = 108/266 (40%), Positives = 153/266 (57%), Gaps = 33/266 (12%)
Query: 60 LEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
LE V+ G+ RLD++++ R++ +SR+ +Q I+ GLV +NG SK + VK GD +
Sbjct: 4 LEFYVEDTEGE-RLDSYLAFRLNNVSRSYLQKLIKEGLVLVNGNG-SKARYRVKIGDYIQ 61
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
+ E + E++PLDI+YED ++++VNKP MVVHPAPGN TGTLVN +L+H
Sbjct: 62 IKLPEQEQEEPIPENLPLDIIYEDKDIVIVNKPEDMVVHPAPGNPTGTLVNALLYHV--- 118
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
++ +DI IRPGIVHRLDK TSGLL VAK+E ++ L
Sbjct: 119 -------DSLYSGKDI--------------IRPGIVHRLDKDTSGLLAVAKNEIAYNSLI 157
Query: 240 EQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRY 299
+Q K ++ERVY +L GV + G I VPI R P +R RM + + A + +
Sbjct: 158 QQLKNRSMERVYEALVYGVLNSDEGTINVPIGRHPVDRKRMTV-----RKENGKEAITHF 212
Query: 300 KVIEILAGGGSALVEWRLETGRTHQV 325
K +E L+E LETGRTHQ+
Sbjct: 213 KALEKFQ--DYTLLEASLETGRTHQI 236
>gi|189423553|ref|YP_001950730.1| pseudouridine synthase [Geobacter lovleyi SZ]
gi|189419812|gb|ACD94210.1| pseudouridine synthase, RluA family [Geobacter lovleyi SZ]
Length = 326
Score = 181 bits (460), Expect = 4e-43, Method: Compositional matrix adjust.
Identities = 107/262 (40%), Positives = 156/262 (59%), Gaps = 32/262 (12%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
V +A RLDA++++R+ +SRA VQ I G V + + + S + GG+ + I
Sbjct: 10 VPAEAAGQRLDAFLATRLTDLSRAAVQRLIDDGQVLLT-EGKPRSSMKLAGGEQITVEIP 68
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
P AE IPLD++YED +++V+NK A M VHP G +GTLVN +L HC+
Sbjct: 69 PPAPAVPLAEQIPLDVLYEDHDLIVINKSAGMTVHPGAGVDSGTLVNALLGHCT------ 122
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
D+S G IRPGIVHRLDKGTSG+LVVAK++ +H L+EQF
Sbjct: 123 ----------DLSG--------IGGEIRPGIVHRLDKGTSGVLVVAKNDIAHRGLAEQFA 164
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
H+I+R+Y +L G P++ +G++ I R P +R+RM+ G KHG + A + ++V+E
Sbjct: 165 AHSIKRLYWALIYGSPNEDTGKVSNSIGRHPTDRLRMS---GKAKHG--KEATTNWRVLE 219
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
G ++LV+ RLETGRTHQ+
Sbjct: 220 RF--GAASLVQLRLETGRTHQI 239
>gi|159899422|ref|YP_001545669.1| RluA family pseudouridine synthase [Herpetosiphon aurantiacus DSM
785]
gi|159892461|gb|ABX05541.1| pseudouridine synthase, RluA family [Herpetosiphon aurantiacus DSM
785]
Length = 323
Score = 181 bits (460), Expect = 4e-43, Method: Compositional matrix adjust.
Identities = 111/276 (40%), Positives = 159/276 (57%), Gaps = 38/276 (13%)
Query: 50 EPIANYAGVQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVS 109
EP AN +Q+ E +AG+ RLD +S+ + +SR VQ I + +NG+ +K S
Sbjct: 2 EPTANLTTIQVGEA---EAGQ-RLDRLVSANMPDLSRTYVQQLITDLHIRVNGRG-AKAS 56
Query: 110 HNVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLV 169
V+ GD + + +P AED+PLD++YED +VL+VNK A MVVHPAPG+ TGTLV
Sbjct: 57 LPVQIGDQIEIFLPLAKPTDIVAEDLPLDVIYEDADVLLVNKAAGMVVHPAPGHTTGTLV 116
Query: 170 NGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVA 229
N +L+ P L +S +RPGIVHRLDK TSGLLV+A
Sbjct: 117 NALLY--RYPHLTTS-----------------------GDLRPGIVHRLDKETSGLLVIA 151
Query: 230 KDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKH 289
K + + L+EQ + + Y++L G + +G I+ PI R+PNNR+RM +P
Sbjct: 152 KHDQARMMLTEQQMARRMHKKYLALVEGHWREPTGTIDAPIGRNPNNRLRMMVMP----- 206
Query: 290 GQARHAASRYKVIEILAGGGSALVEWRLETGRTHQV 325
+ R+A + Y+V+E+L G +LV LETGRTHQ+
Sbjct: 207 -EGRYAVTHYQVLEVL--GPYSLVRATLETGRTHQI 239
>gi|306844672|ref|ZP_07477257.1| pseudouridine synthase, RluA family [Brucella inopinata BO1]
gi|306274844|gb|EFM56614.1| pseudouridine synthase, RluA family [Brucella inopinata BO1]
Length = 334
Score = 181 bits (459), Expect = 4e-43, Method: Compositional matrix adjust.
Identities = 106/275 (38%), Positives = 155/275 (56%), Gaps = 35/275 (12%)
Query: 61 EETVDTKAGKLRLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
E D+ A RLD W+++ + +SR+RVQS I G V+I+G + ++ G +
Sbjct: 3 ELIADSDAAGKRLDQWLAAALGPELSRSRVQSLIADGHVTIDGAPARETKQKLREGMNIA 62
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
+ E +P + E+IPLDI+YEDD+++V+NKPA +VVHP GN TGTLVN +++HC
Sbjct: 63 IVLPEPEPAEPQGENIPLDILYEDDDLIVINKPAGLVVHPGNGNWTGTLVNALIYHCG-- 120
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
+ S I G RPGIVHRLDK TSG++VVAK++ +H HLS
Sbjct: 121 --------------------DSLSGIGGIR-RPGIVHRLDKDTSGVMVVAKNDRAHRHLS 159
Query: 240 EQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHA 295
EQF H +ER Y++L G+ + G ++ + R +R + A + + ARHA
Sbjct: 160 EQFADHGRTGDLERAYLALVWGMTERPQGTVDAYLGRSHRDRTKQAVV--REEREDARHA 217
Query: 296 ASRYKVIEIL-----AGGGSALVEWRLETGRTHQV 325
+ Y +E A ++LVE RLETGRTHQ+
Sbjct: 218 ITHYATVEKFSPREDATALASLVECRLETGRTHQI 252
>gi|300867006|ref|ZP_07111676.1| conserved hypothetical protein [Oscillatoria sp. PCC 6506]
gi|300334989|emb|CBN56842.1| conserved hypothetical protein [Oscillatoria sp. PCC 6506]
Length = 319
Score = 181 bits (459), Expect = 4e-43, Method: Compositional matrix adjust.
Identities = 103/270 (38%), Positives = 154/270 (57%), Gaps = 32/270 (11%)
Query: 58 VQLEETVDTKAGKL--RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGG 115
+Q+E+ KL RLD W+S+ + +SR+R+Q+ I G V++N + NVK G
Sbjct: 9 IQVEDIGKPTESKLSQRLDLWLSNELPDLSRSRIQNLILQGNVTVNDLICKSKKENVKNG 68
Query: 116 DMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHH 175
D ++ I + +PL + E IPLDI+YED++++++NKPA +VVHPA G+ GTLVN +L H
Sbjct: 69 DRIHIAIPDAEPLDLKPEAIPLDILYEDESLIIINKPAGLVVHPAAGHPGGTLVNALLAH 128
Query: 176 CSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSH 235
C L + G +RPGIVHRLDK TSG +VVAK + +H
Sbjct: 129 CPLAEI-------------------------GGVLRPGIVHRLDKDTSGAIVVAKTDFAH 163
Query: 236 AHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHA 295
HL Q K T R Y+ + G +G I++PI R +R +MA + + + G R A
Sbjct: 164 QHLQAQLKAKTARREYLGVVYGTLKTENGTIDLPIGRHSVDRKKMAVV--TIEKG-GRSA 220
Query: 296 ASRYKVIEILAGGGSALVEWRLETGRTHQV 325
+ +++ E L G L+ ++LETGRTHQ+
Sbjct: 221 VTHWQIQERL--GNYTLIHFQLETGRTHQI 248
>gi|398818376|ref|ZP_10576968.1| pseudouridine synthase, RluA family [Brevibacillus sp. BC25]
gi|398028144|gb|EJL21668.1| pseudouridine synthase, RluA family [Brevibacillus sp. BC25]
Length = 309
Score = 181 bits (459), Expect = 4e-43, Method: Compositional matrix adjust.
Identities = 106/272 (38%), Positives = 160/272 (58%), Gaps = 32/272 (11%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
VD R+D +I+ + + SR++VQ+ ++ G V++NG+ + K ++ ++ D V +
Sbjct: 14 VDPADKSERIDKFITLQNEDWSRSQVQAWVKEGRVTVNGEPI-KNNYKLQAEDEVTLRVP 72
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
+ + + E++ LDIVYED +V+VVNKP +VVHPAPG+ +GTLVNG+L HC
Sbjct: 73 PPKEMAIQPEEMSLDIVYEDSDVVVVNKPRGLVVHPAPGHYSGTLVNGLLAHC------- 125
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
+D+S I+G +RPGIVHR+DK TSGLL+VAK++ +H L+EQ K
Sbjct: 126 ---------KDLS-------GINGV-LRPGIVHRIDKDTSGLLMVAKNDKAHMGLAEQLK 168
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
HT+ R Y+++ GV G IE PI RDP NR +MA + ++ A + + V+E
Sbjct: 169 AHTVNRKYVAIVHGVIPHEMGTIEAPIGRDPKNRQQMAVV-----FENSKPAVTHFIVLE 223
Query: 304 ILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
LVE +LETGRTHQ+ + K P
Sbjct: 224 RFK--EYTLVELKLETGRTHQIRVHMKYIGYP 253
>gi|332185831|ref|ZP_08387578.1| pseudouridine synthase, RluA family protein [Sphingomonas sp. S17]
gi|332014189|gb|EGI56247.1| pseudouridine synthase, RluA family protein [Sphingomonas sp. S17]
Length = 315
Score = 181 bits (459), Expect = 4e-43, Method: Compositional matrix adjust.
Identities = 100/254 (39%), Positives = 144/254 (56%), Gaps = 31/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++ + +SR R++ I SG V+ G + + GD+ + P E
Sbjct: 20 RLDRALADAVPTLSRERLKVLIASGAVTREGVMARDPAKRAAAGDLFQVAVPAPTPAHNE 79
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
A+DIPL I YED++++V++KPA +VVHPA GN GTLVN +LH+C
Sbjct: 80 AQDIPLVIAYEDEHLIVIDKPAGLVVHPAAGNLDGTLVNALLHYCG-------------- 125
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
S S G RPGIVHR+DK TSGL+V AK + +H L++QF H+I+R Y
Sbjct: 126 ---------GSLSGIGGVARPGIVHRIDKDTSGLMVAAKTDRTHEGLAKQFAAHSIDRRY 176
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++T G+P + G ++ P++R P NR ++A + G + A + Y+ IE L +A
Sbjct: 177 RAITGGIPRPADGTVDAPLARSPQNRKKVAIVQGGKR------AVTHYRTIEKL--NNAA 228
Query: 312 LVEWRLETGRTHQV 325
LVE RLETGRTHQV
Sbjct: 229 LVECRLETGRTHQV 242
>gi|251797854|ref|YP_003012585.1| pseudouridine synthase [Paenibacillus sp. JDR-2]
gi|247545480|gb|ACT02499.1| pseudouridine synthase, RluA family [Paenibacillus sp. JDR-2]
Length = 315
Score = 181 bits (459), Expect = 4e-43, Method: Compositional matrix adjust.
Identities = 110/276 (39%), Positives = 164/276 (59%), Gaps = 34/276 (12%)
Query: 62 ETVDTKAGKLRLDAWISSRI--DGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
E +AG+ R+D +++ + D ISR +VQ I+SG V +N V K ++ + GD V
Sbjct: 16 EAAPEQAGE-RIDKFVTDSLNEDSISRTQVQEWIKSGAVLVNQNTV-KPNYKLSSGDHVG 73
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
+ E + AEDIPLDIVYED +V+V+NKP MVVHPAPG+++GT+VN +++HC
Sbjct: 74 IRVPEPEDAAIVAEDIPLDIVYEDADVIVINKPRGMVVHPAPGHSSGTVVNALMYHC--- 130
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
+D+ S I+G +RPGIVHR+DK TSGLL+ AK++ +H L+
Sbjct: 131 -------------KDL-------SGINGV-LRPGIVHRIDKDTSGLLMAAKNDLAHVSLA 169
Query: 240 EQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRY 299
EQ K H++ R YI+L G G I+ PI RD N+R ++ + N ++HA + +
Sbjct: 170 EQLKDHSVSRKYIALVHGNLPHDQGTIDAPIGRDQNDR-KLFTVTDRN----SKHAVTHF 224
Query: 300 KVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
V+E +A + +VE +LETGRTHQ+ + K P
Sbjct: 225 AVLERIADDYT-IVELQLETGRTHQIRVHMKYIGYP 259
>gi|227824343|ref|ZP_03989175.1| pseudouridine synthase [Acidaminococcus sp. D21]
gi|226904842|gb|EEH90760.1| pseudouridine synthase [Acidaminococcus sp. D21]
Length = 311
Score = 181 bits (459), Expect = 4e-43, Method: Compositional matrix adjust.
Identities = 111/267 (41%), Positives = 153/267 (57%), Gaps = 33/267 (12%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
++ E K LR D +++ +D +SR+ +Q + GLV+ G+ V K S+ VK GD+
Sbjct: 8 KVTEPAAEKDQGLRADCYLADVLD-LSRSSLQHDMEKGLVTKEGKPV-KASYKVKLGDVF 65
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
I L AE E IPL I+YED++V+VVNKP MVVHPA GN TGTLVN +L+HC
Sbjct: 66 TVVIPPAVSLEAEPEPIPLAILYEDEDVIVVNKPRGMVVHPAAGNYTGTLVNALLYHC-- 123
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+D+ S I+G +RPGIVHRLDK TSG++V AK++ +H L
Sbjct: 124 --------------KDL-------SGINGV-VRPGIVHRLDKDTSGVMVCAKNDRAHLSL 161
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
S+Q K +R YI++ G G IE I RDP +R+RMA +P R A +
Sbjct: 162 SQQIKDKEAKRTYIAVVRGNIKDDRGHIETLIDRDPKDRMRMAVVPSG-----GRLAVTD 216
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQV 325
Y+V+E G +V RL+TGRTHQ+
Sbjct: 217 YEVLERY--GRFTVVRCRLQTGRTHQI 241
>gi|310642966|ref|YP_003947724.1| RNA pseudouridine synthase ylyb [Paenibacillus polymyxa SC2]
gi|309247916|gb|ADO57483.1| Uncharacterized RNA pseudouridine synthase ylyB [Paenibacillus
polymyxa SC2]
Length = 323
Score = 181 bits (459), Expect = 4e-43, Method: Compositional matrix adjust.
Identities = 108/279 (38%), Positives = 164/279 (58%), Gaps = 32/279 (11%)
Query: 57 GVQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGD 116
G LE T D+ K R+D +I+ + +SR+++Q I +G V +NG V K ++ + GD
Sbjct: 21 GESLEWTADSGNVKTRIDKYIAEEMKEVSRSQIQLWIGNGRVLVNGTAV-KANYKLAEGD 79
Query: 117 MVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC 176
+ ++ E + + E+IPLD+VYED +V+V+NK +VVHPAPG+++GTLVN +++HC
Sbjct: 80 HIVLSVPEPESVDIMPENIPLDVVYEDSDVIVINKQRGLVVHPAPGHSSGTLVNALMYHC 139
Query: 177 SLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHA 236
D+S I+G +RPGIVHR+DK TSGLL+ AK++ +HA
Sbjct: 140 ----------------HDLS-------GING-ELRPGIVHRIDKDTSGLLMAAKNDQAHA 175
Query: 237 HLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAA 296
L+ Q K H++ R YI+L G S G ++ PI RD +R +M + N ++HA
Sbjct: 176 SLAAQLKDHSVTRKYIALVHGHLSHDQGTVDAPIGRDSGDR-KMFTVTERN----SKHAV 230
Query: 297 SRYKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ + VIE L G L+E +LETGRTHQ+ + K P
Sbjct: 231 THFLVIERL--GDYTLLELQLETGRTHQIRVHMKFIGHP 267
>gi|258515575|ref|YP_003191797.1| RluA family pseudouridine synthase [Desulfotomaculum acetoxidans
DSM 771]
gi|257779280|gb|ACV63174.1| pseudouridine synthase, RluA family [Desulfotomaculum acetoxidans
DSM 771]
Length = 305
Score = 181 bits (459), Expect = 4e-43, Method: Compositional matrix adjust.
Identities = 105/254 (41%), Positives = 154/254 (60%), Gaps = 32/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++S+ ISR+++Q I GLV ING+ V+ + +K GD +N TI + + E
Sbjct: 15 RLDVYLSNCYPDISRSQLQRLIAQGLVEINGKKVA-AKYKIKPGDYINLTIPDPVGVSVE 73
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AE+I LDI +ED++V+V+NKP MVVHPA GN TGT+VN +L+HC
Sbjct: 74 AENIALDIYFEDEDVIVINKPRGMVVHPAEGNYTGTMVNALLYHC--------------- 118
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
D+ S I+G +RPGIVHRLDK TSGLL+VAK++ +H +L+ Q + + R Y
Sbjct: 119 -RDL-------SGINGV-LRPGIVHRLDKDTSGLLMVAKNDLAHNNLAAQLEKRLVNRRY 169
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++L G Q +G ++ PI RD +R +MA + +R A + +KV++ G
Sbjct: 170 LALVHGNLKQDAGTVDAPIGRDACSRQKMAVTDRN-----SRSAVTHFKVLKRF--GRYT 222
Query: 312 LVEWRLETGRTHQV 325
L+E +LETGRTHQ+
Sbjct: 223 LLELKLETGRTHQI 236
>gi|392303781|emb|CCI70144.1| ribosomal large subunit pseudouridine synthase D [Paenibacillus
polymyxa M1]
Length = 334
Score = 181 bits (459), Expect = 5e-43, Method: Compositional matrix adjust.
Identities = 108/279 (38%), Positives = 164/279 (58%), Gaps = 32/279 (11%)
Query: 57 GVQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGD 116
G LE T D+ K R+D +I+ + +SR+++Q I +G V +NG V K ++ + GD
Sbjct: 32 GESLEWTADSGNVKTRIDKYIAEEMKEVSRSQIQLWIGNGRVLVNGTAV-KANYKLAEGD 90
Query: 117 MVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC 176
+ ++ E + + E+IPLD+VYED +V+V+NK +VVHPAPG+++GTLVN +++HC
Sbjct: 91 HIVLSVPEPESVDIMPENIPLDVVYEDSDVIVINKQRGLVVHPAPGHSSGTLVNALMYHC 150
Query: 177 SLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHA 236
D+S I+G +RPGIVHR+DK TSGLL+ AK++ +HA
Sbjct: 151 ----------------HDLS-------GING-ELRPGIVHRIDKDTSGLLMAAKNDQAHA 186
Query: 237 HLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAA 296
L+ Q K H++ R YI+L G S G ++ PI RD +R +M + N ++HA
Sbjct: 187 SLAAQLKDHSVTRKYIALVHGHLSHDQGTVDAPIGRDSGDR-KMFTVTERN----SKHAV 241
Query: 297 SRYKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ + VIE L G L+E +LETGRTHQ+ + K P
Sbjct: 242 THFLVIERL--GDYTLLELQLETGRTHQIRVHMKFIGHP 278
>gi|310779318|ref|YP_003967651.1| RluA family pseudouridine synthase [Ilyobacter polytropus DSM 2926]
gi|309748641|gb|ADO83303.1| pseudouridine synthase, RluA family [Ilyobacter polytropus DSM
2926]
Length = 313
Score = 181 bits (459), Expect = 5e-43, Method: Compositional matrix adjust.
Identities = 101/254 (39%), Positives = 150/254 (59%), Gaps = 31/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLDA+++ D ++R+ +Q I + I G+ +K + +KG + + I E + L E
Sbjct: 20 RLDAFVNESFDYLTRSYIQKLIEQRDIIIEGKEKNKSGNKLKGNEKILVRIPEDEMLDIE 79
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
+DIP++ VYED +++V+NK MVVHPAPGN +GTLVN ++H
Sbjct: 80 PQDIPIEKVYEDKDLVVINKAPDMVVHPAPGNYSGTLVNALMH----------------- 122
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+I D S+I+G IRPGIVHRLDK TSGL+V+AK++ SH LS+ FK I + Y
Sbjct: 123 --NIKD----LSNINGV-IRPGIVHRLDKNTSGLIVIAKNDFSHLKLSDMFKNKDISKTY 175
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
I + G+ S+ +GRIE I R+P NR M + ++A S YK+++ G +
Sbjct: 176 ICICKGIFSEKTGRIENLIGRNPKNRKTMTVV-----QKNGKNAISNYKILD--EAGDFS 228
Query: 312 LVEWRLETGRTHQV 325
LVE ++ETGRTHQ+
Sbjct: 229 LVEVKIETGRTHQI 242
>gi|424883104|ref|ZP_18306736.1| pseudouridine synthase, RluA family [Rhizobium leguminosarum bv.
trifolii WU95]
gi|392519467|gb|EIW44199.1| pseudouridine synthase, RluA family [Rhizobium leguminosarum bv.
trifolii WU95]
Length = 341
Score = 181 bits (459), Expect = 5e-43, Method: Compositional matrix adjust.
Identities = 113/287 (39%), Positives = 163/287 (56%), Gaps = 38/287 (13%)
Query: 50 EPIANYAGVQLEETVDTKAGKLRLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKV 108
+P AG + T D A + RLDAW+++++ + SR+R+++ I+ G V + G+ V+
Sbjct: 3 DPFKQAAGNRKVLTADESA-EGRLDAWLTAQVGEEFSRSRIKALIKDGQVFLRGEPVTDP 61
Query: 109 SHNVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTL 168
V+ GD T+ E + + EDIPLDI++EDD+V+V++KP+ +VVHP GN TGTL
Sbjct: 62 QRKVRTGDSFELTLPEPEDPTPQGEDIPLDILHEDDDVIVISKPSGLVVHPGAGNWTGTL 121
Query: 169 VNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVV 228
VN ++HHCS + S I G RPGIVHRLDK T+G++VV
Sbjct: 122 VNALIHHCS----------------------DTLSGIGGVR-RPGIVHRLDKDTTGVMVV 158
Query: 229 AKDEHSHAHLSEQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAI- 283
AK++ +H HLS QF H +ER Y ++ G P SG ++ P+ R +R R A
Sbjct: 159 AKNDIAHRHLSLQFADHGRTMPLERAYQAIVWGRPRSLSGMVDAPLGRATGDRTRRAVKR 218
Query: 284 PGSNKHGQARHAASRYKVIEIL-----AGGGSALVEWRLETGRTHQV 325
P S A A + Y+VIE A ++LVE RLETGRTHQ+
Sbjct: 219 PDSQ---DADEAITHYQVIERFHEKPDATAFASLVECRLETGRTHQI 262
>gi|424872040|ref|ZP_18295702.1| pseudouridine synthase, RluA family [Rhizobium leguminosarum bv.
viciae WSM1455]
gi|393167741|gb|EJC67788.1| pseudouridine synthase, RluA family [Rhizobium leguminosarum bv.
viciae WSM1455]
Length = 341
Score = 181 bits (459), Expect = 5e-43, Method: Compositional matrix adjust.
Identities = 113/287 (39%), Positives = 163/287 (56%), Gaps = 38/287 (13%)
Query: 50 EPIANYAGVQLEETVDTKAGKLRLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKV 108
+P AG + T D A + RLDAW+++++ + SR+R+++ I+ G V + G+ V+
Sbjct: 3 DPFKQAAGNRKVLTADETA-EGRLDAWLTAQVGEEFSRSRIKALIKDGQVFLRGEPVTDP 61
Query: 109 SHNVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTL 168
V+ GD T+ E + + EDIPLDI++EDD+V+V++KP+ +VVHP GN TGTL
Sbjct: 62 QRKVRTGDSFELTLPEPEDPTPQGEDIPLDILHEDDDVIVISKPSGLVVHPGAGNWTGTL 121
Query: 169 VNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVV 228
VN ++HHCS + S I G RPGIVHRLDK T+G++VV
Sbjct: 122 VNALIHHCS----------------------DTLSGIGGVR-RPGIVHRLDKDTTGVMVV 158
Query: 229 AKDEHSHAHLSEQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAI- 283
AK++ +H HLS QF H +ER Y ++ G P SG ++ P+ R +R R A
Sbjct: 159 AKNDIAHRHLSLQFADHGRTMPLERAYQAIVWGRPRTLSGTVDAPLGRATGDRTRRAVKR 218
Query: 284 PGSNKHGQARHAASRYKVIEIL-----AGGGSALVEWRLETGRTHQV 325
P S A A + Y+VIE A ++LVE RLETGRTHQ+
Sbjct: 219 PDSQ---DADEAITHYQVIERFHEKPDATAFASLVECRLETGRTHQI 262
>gi|352684044|ref|YP_004896028.1| pseudouridine synthase [Acidaminococcus intestini RyC-MR95]
gi|350278698|gb|AEQ21888.1| pseudouridine synthase [Acidaminococcus intestini RyC-MR95]
Length = 318
Score = 181 bits (459), Expect = 5e-43, Method: Compositional matrix adjust.
Identities = 111/267 (41%), Positives = 153/267 (57%), Gaps = 33/267 (12%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
++ E K LR D +++ +D +SR+ +Q + GLV+ G+ V K S+ VK GD+
Sbjct: 15 KVTEPAAEKDQGLRADCYLADVLD-LSRSSLQHDMEKGLVTKEGKPV-KASYKVKLGDVF 72
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
I L AE E IPL I+YED++V+VVNKP MVVHPA GN TGTLVN +L+HC
Sbjct: 73 TVVIPPAVSLEAEPEPIPLAILYEDEDVIVVNKPRGMVVHPAAGNYTGTLVNALLYHC-- 130
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+D+ S I+G +RPGIVHRLDK TSG++V AK++ +H L
Sbjct: 131 --------------KDL-------SGINGV-VRPGIVHRLDKDTSGVMVCAKNDRAHLSL 168
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
S+Q K +R YI++ G G IE I RDP +R+RMA +P R A +
Sbjct: 169 SQQIKDKEAKRTYIAVVRGNIKDDRGHIETLIDRDPKDRMRMAVVPSG-----GRLAVTD 223
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQV 325
Y+V+E G +V RL+TGRTHQ+
Sbjct: 224 YEVLERY--GRFTVVRCRLQTGRTHQI 248
>gi|218245618|ref|YP_002370989.1| RluA family pseudouridine synthase [Cyanothece sp. PCC 8801]
gi|218166096|gb|ACK64833.1| pseudouridine synthase, RluA family [Cyanothece sp. PCC 8801]
Length = 318
Score = 181 bits (459), Expect = 5e-43, Method: Compositional matrix adjust.
Identities = 110/270 (40%), Positives = 151/270 (55%), Gaps = 34/270 (12%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q+E TV K R+D W+S +D ISR+ +Q I G + +N QV V GD +
Sbjct: 10 QIELTVQDKGD--RIDLWLSQNLDQISRSHLQKLIEQGNIYLNNQVCLNKKTKVNLGDRL 67
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
+ +PL + E IPLDI+YEDD+++++NK A +VVHPAPG+ +GTLV+G+L+HC
Sbjct: 68 QVFLPPPEPLELQPEPIPLDILYEDDSLIIINKSAGLVVHPAPGHTSGTLVHGLLYHC-- 125
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
P L G RPGIVHRLDK T+G +VVAK +++H HL
Sbjct: 126 PNLVG----------------------IGGVQRPGIVHRLDKDTTGAIVVAKTDYAHQHL 163
Query: 239 SEQFKLHTIERVYISLTSGVPSQS---SGRIEVPISRDPNNRIRMAAIPGSNKHGQARHA 295
Q K T R Y+ + GVP G I VPI R +R +MA +P N R A
Sbjct: 164 QAQLKAKTARREYLGVVYGVPRHKDTHQGTINVPIGRHRGDRKKMAVVPVENG---GREA 220
Query: 296 ASRYKVIEILAGGGSALVEWRLETGRTHQV 325
+ ++++E L G LVE+RLETGRTHQ+
Sbjct: 221 ITHWQIVERL--GNYTLVEFRLETGRTHQI 248
>gi|116514036|ref|YP_812942.1| pseudouridylate synthase, 23S RNA-specific [Lactobacillus
delbrueckii subsp. bulgaricus ATCC BAA-365]
gi|385815689|ref|YP_005852080.1| Pseudouridine synthase [Lactobacillus delbrueckii subsp. bulgaricus
2038]
gi|418035576|ref|ZP_12674032.1| tRNA pseudouridine(38-40) synthase [Lactobacillus delbrueckii
subsp. bulgaricus CNCM I-1519]
gi|116093351|gb|ABJ58504.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
delbrueckii subsp. bulgaricus ATCC BAA-365]
gi|325125726|gb|ADY85056.1| Pseudouridine synthase [Lactobacillus delbrueckii subsp. bulgaricus
2038]
gi|354690106|gb|EHE90061.1| tRNA pseudouridine(38-40) synthase [Lactobacillus delbrueckii
subsp. bulgaricus CNCM I-1519]
Length = 304
Score = 181 bits (459), Expect = 5e-43, Method: Compositional matrix adjust.
Identities = 99/254 (38%), Positives = 154/254 (60%), Gaps = 33/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +++ + +SR+R++ +++G + +NG+ SKVS+ V+ D++ + L+PL+ E
Sbjct: 15 RLDKYLAGEMTDLSRSRIKELVQAGEILVNGKK-SKVSYKVQKDDLIQVIVLPLEPLKLE 73
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AE+IPLDIVYED +V+VVNKP MVVHPA G+ + TLVN +L+H
Sbjct: 74 AENIPLDIVYEDKDVIVVNKPQGMVVHPAAGHPSHTLVNALLYHTR-------------- 119
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
D++D E RPGIVHR+DK TSGLL+VAK+ + L +Q + +R Y
Sbjct: 120 --DLADSPE--------GFRPGIVHRIDKDTSGLLMVAKNAAARESLEKQLAAKSNKRQY 169
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+++ G ++ G I+ PI R+P +R +MA + + + A + +KV+E G +
Sbjct: 170 LAIVHGNFAEEEGTIDAPIGRNPKDRKQMAVVE------KGKSAVTHFKVLEQYQ--GYS 221
Query: 312 LVEWRLETGRTHQV 325
LVE +LETGRTHQ+
Sbjct: 222 LVECQLETGRTHQI 235
>gi|354595229|ref|ZP_09013265.1| RluA family pseudouridine synthase [Commensalibacter intestini
A911]
gi|353671521|gb|EHD13224.1| RluA family pseudouridine synthase [Commensalibacter intestini
A911]
Length = 329
Score = 181 bits (458), Expect = 5e-43, Method: Compositional matrix adjust.
Identities = 105/264 (39%), Positives = 151/264 (57%), Gaps = 33/264 (12%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
VD + +RLD +++ + SR+R++S I GL N +V S +VK GD + I
Sbjct: 16 VDQENNNIRLDRFLAQTCNDYSRSRIKSLIEQGLCQRNHLIVRDPSTSVKEGDHIELQIP 75
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC--SLPTL 181
+ +P EA++I LDI+YED+ ++V+NK A +VVHPAPGN GTLVN +L HC LP +
Sbjct: 76 KAKPYILEAQEIALDILYEDEVLIVINKSAGLVVHPAPGNEDGTLVNALLAHCGDQLPGI 135
Query: 182 ASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQ 241
G RPGIVHRLDK TSG++VVAK E + LSE
Sbjct: 136 -------------------------GGEKRPGIVHRLDKDTSGIIVVAKTEQALTKLSED 170
Query: 242 FKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKV 301
F I+R+Y++L G+ + + G IE I RDP +R +MA + + K A + YK
Sbjct: 171 FASRNIDRLYLALCWGILNPAKGTIEGDIGRDPYDRKKMAVVKRNGK-----FARTHYKT 225
Query: 302 IEILAGGGSALVEWRLETGRTHQV 325
+EI+ S L++ +L+TGRTHQ+
Sbjct: 226 LEIINPAIS-LIQCKLDTGRTHQI 248
>gi|343084378|ref|YP_004773673.1| RluA family pseudouridine synthase [Cyclobacterium marinum DSM 745]
gi|342352912|gb|AEL25442.1| pseudouridine synthase, RluA family [Cyclobacterium marinum DSM
745]
Length = 344
Score = 181 bits (458), Expect = 5e-43, Method: Compositional matrix adjust.
Identities = 110/267 (41%), Positives = 154/267 (57%), Gaps = 32/267 (11%)
Query: 61 EETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNC 120
E TVD +R+D +I+ ++ +R +VQ SI SG+V +NG+VV K ++ +K GD++
Sbjct: 20 ELTVDPGQSSIRIDKFITDKLAYATRNKVQQSITSGIVQVNGEVV-KANYKIKAGDLITF 78
Query: 121 TISE-LQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC-SL 178
+ + + AED+PLDI YEDD+++VV KPA MVVHPA GN TGTLVN + ++ +L
Sbjct: 79 AMEKSRKETEVVAEDLPLDIRYEDDHLMVVYKPAGMVVHPAHGNWTGTLVNALAYYFKNL 138
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
P L G S RPG+VHR+DK TSGLLV+AK E + HL
Sbjct: 139 PELP------------------------GNSGRPGLVHRIDKDTSGLLVIAKSERAMTHL 174
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
++QF H+I R Y++L G PS G I VPI R +R M A + + A +
Sbjct: 175 AKQFFDHSISRSYVALVWGEPSDEEGTINVPIGRGVKDRKVMQAYLEGDA---GKSAITH 231
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQV 325
+KVI+ L L+ LETGRTHQ+
Sbjct: 232 WKVIKRLR--YVTLLSCELETGRTHQI 256
>gi|418029431|ref|ZP_12667971.1| tRNA pseudouridine(38-40) synthase [Lactobacillus delbrueckii
subsp. bulgaricus CNCM I-1632]
gi|354689937|gb|EHE89903.1| tRNA pseudouridine(38-40) synthase [Lactobacillus delbrueckii
subsp. bulgaricus CNCM I-1632]
Length = 304
Score = 181 bits (458), Expect = 5e-43, Method: Compositional matrix adjust.
Identities = 99/254 (38%), Positives = 154/254 (60%), Gaps = 33/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +++ + +SR+R++ +++G + +NG+ SKVS+ V+ D++ + L+PL+ E
Sbjct: 15 RLDKYLAGEMTDLSRSRIKELVQAGEILVNGKK-SKVSYKVQKDDLIQVIVLPLEPLKLE 73
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AE+IPLDIVYED +V+VVNKP MVVHPA G+ + TLVN +L+H
Sbjct: 74 AENIPLDIVYEDKDVIVVNKPQGMVVHPAAGHPSHTLVNALLYHTR-------------- 119
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
D++D E RPGIVHR+DK TSGLL+VAK+ + L +Q + +R Y
Sbjct: 120 --DLADSPE--------GFRPGIVHRIDKDTSGLLMVAKNAAARESLEKQLAAKSNKRQY 169
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+++ G ++ G I+ PI R+P +R +MA + + + A + +KV+E G +
Sbjct: 170 LAIVHGNFAEEEGTIDAPIGRNPEDRKQMAVVE------KGKSAVTHFKVLEQYQ--GYS 221
Query: 312 LVEWRLETGRTHQV 325
LVE +LETGRTHQ+
Sbjct: 222 LVECQLETGRTHQI 235
>gi|404367672|ref|ZP_10973034.1| RluA family pseudouridine synthase [Fusobacterium ulcerans ATCC
49185]
gi|313688762|gb|EFS25597.1| RluA family pseudouridine synthase [Fusobacterium ulcerans ATCC
49185]
Length = 313
Score = 181 bits (458), Expect = 5e-43, Method: Compositional matrix adjust.
Identities = 110/289 (38%), Positives = 165/289 (57%), Gaps = 39/289 (13%)
Query: 47 NNREPIANYAGVQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVS 106
N +E I YA + GK R+D++++ ID +R+ +Q I G V I G+ V+
Sbjct: 3 NIKETITVYAD-------ENDKGK-RIDSFLNEVIDDATRSYIQKIIDGGYVEITGKKVT 54
Query: 107 KVSHNVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATG 166
K + +KG + + I E + L E+IPL+I+YED +++V+NK MVVHPA GN G
Sbjct: 55 KSGNKLKGTETITVNIPEDEILDVIPENIPLNIIYEDKDIVVINKAPDMVVHPAHGNYNG 114
Query: 167 TLVNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLL 226
TLVN +L+H +D+ S+I+G IRPGIVHRLDK TSG++
Sbjct: 115 TLVNALLYHI----------------KDL-------STINGV-IRPGIVHRLDKDTSGVI 150
Query: 227 VVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGS 286
VVAK++ +H+ LS+ FK T+E+ YI + G+ SGRIE I RD +R +MA + +
Sbjct: 151 VVAKNDEAHSTLSDMFKEKTLEKTYICIAKGIFKDKSGRIETLIGRDSRDRKKMAVVDIN 210
Query: 287 NKHGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
K +A S Y++++ +LV+ R+ETGRTHQ+ + K P
Sbjct: 211 GK-----NAISNYEILD--EEKNFSLVKVRIETGRTHQIRVHMKYLNHP 252
>gi|13473214|ref|NP_104781.1| pseudouridine synthase [Mesorhizobium loti MAFF303099]
gi|14023962|dbj|BAB50567.1| pseudouridine synthase [Mesorhizobium loti MAFF303099]
Length = 329
Score = 181 bits (458), Expect = 5e-43, Method: Compositional matrix adjust.
Identities = 106/272 (38%), Positives = 152/272 (55%), Gaps = 36/272 (13%)
Query: 64 VDTKAGKLRLDAWISSRID-GISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
V A RLD W+++ + +SR+RVQ IR G VS++G+ + + G+ V+ +
Sbjct: 4 VGADAAGQRLDQWLAASLGPDMSRSRVQMLIRQGAVSVDGKPADETKRKMSAGESVSIAM 63
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E +P + E I LD++YEDD ++V+NKPA +VVHP GN TGTLVN ++HHC
Sbjct: 64 PEPEPAAPQGEAIALDVLYEDDALIVINKPAGLVVHPGAGNWTGTLVNALIHHCG----- 118
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
+ S I G RPGIVHRLDK TSG++VVAK + +H LSE F
Sbjct: 119 -----------------DSLSGIGGVR-RPGIVHRLDKETSGVMVVAKTDRAHKALSEAF 160
Query: 243 KLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
H +ER Y++L G+P + +G ++ P+ R +R+R A +P ARHA +
Sbjct: 161 ADHGRTGDLERAYLALVWGIPQRPTGTVDAPLGR-AADRVRRAVVPEGRD--DARHAVTH 217
Query: 299 YKVIEILAG-----GGSALVEWRLETGRTHQV 325
+ V E ++LVE RLETGRTHQ+
Sbjct: 218 FAVQERFGENQQEFATASLVECRLETGRTHQI 249
>gi|73749059|ref|YP_308298.1| ribosomal large subunit pseudouridine synthase D [Dehalococcoides
sp. CBDB1]
gi|73660775|emb|CAI83382.1| ribosomal large subunit pseudouridine synthase,RluD subfamily
[Dehalococcoides sp. CBDB1]
Length = 300
Score = 181 bits (458), Expect = 5e-43, Method: Compositional matrix adjust.
Identities = 102/254 (40%), Positives = 146/254 (57%), Gaps = 33/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +I+ + G+SR+ +Q + SG + +N Q +K S +K GD + I P +
Sbjct: 14 RLDKYITQKESGLSRSFIQELVSSGHILVNNQS-AKPSLRLKTGDTITIEIPPETPSELK 72
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AEDIPL+I+++D ++L++NKP + VHPAPG+ TLVNG+L E F D
Sbjct: 73 AEDIPLEIIFQDKDLLLINKPPGLTVHPAPGHPDHTLVNGVL-------ALEPEMEDFDD 125
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+RPGIVHRLDK TSGLL+VAK+ + A+LS QFK TI + Y
Sbjct: 126 -----------------PLRPGIVHRLDKDTSGLLLVAKNRQALANLSAQFKERTIRKYY 168
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++L G + G IE P+ RDP NR ++A + RHA + YKV+ + G +
Sbjct: 169 LALVKGELRPAEGFIEAPLGRDPQNRQKIAVV------SDGRHARTGYKVLRYIQ--GYS 220
Query: 312 LVEWRLETGRTHQV 325
L+E +LETGRTHQ+
Sbjct: 221 LLEVKLETGRTHQI 234
>gi|323702053|ref|ZP_08113721.1| pseudouridine synthase, RluA family [Desulfotomaculum nigrificans
DSM 574]
gi|333923444|ref|YP_004497024.1| RluA family pseudouridine synthase [Desulfotomaculum
carboxydivorans CO-1-SRB]
gi|323532935|gb|EGB22806.1| pseudouridine synthase, RluA family [Desulfotomaculum nigrificans
DSM 574]
gi|333749005|gb|AEF94112.1| pseudouridine synthase, RluA family [Desulfotomaculum
carboxydivorans CO-1-SRB]
Length = 307
Score = 181 bits (458), Expect = 6e-43, Method: Compositional matrix adjust.
Identities = 107/262 (40%), Positives = 153/262 (58%), Gaps = 32/262 (12%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
VD + K RLD ++S + +SR+ +Q I G V++N + +K ++ ++ GD V +
Sbjct: 8 VDQENAKSRLDVFLSGQCHDLSRSYIQRLIEEGQVTVN-DLPTKANYKLRVGDRVAVEVP 66
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
+ L+ E IPLDI YED++V+VVNKP MVVHPA GN +GTLVN +L+HC
Sbjct: 67 PAEELQVVPEPIPLDIYYEDNDVIVVNKPRGMVVHPAEGNTSGTLVNALLYHC------- 119
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
D+ S I+G +RPGIVHRLDK TSGL++VAK++ +H L++Q K
Sbjct: 120 ---------RDL-------SGINGV-LRPGIVHRLDKDTSGLIMVAKNDLAHNSLAQQLK 162
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
T+ R Y +L + G + PI RDP +R RMA + ++K A + Y+V+E
Sbjct: 163 DRTVTRRYRALVHNNIREEVGTVNAPIGRDPRDRQRMAVVERNSK-----PAVTHYRVLE 217
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
G LVE RLETGRTHQ+
Sbjct: 218 RF--GQYTLVECRLETGRTHQI 237
>gi|357024379|ref|ZP_09086532.1| RluA family pseudouridine synthase [Mesorhizobium amorphae
CCNWGS0123]
gi|355543733|gb|EHH12856.1| RluA family pseudouridine synthase [Mesorhizobium amorphae
CCNWGS0123]
Length = 341
Score = 181 bits (458), Expect = 6e-43, Method: Compositional matrix adjust.
Identities = 105/270 (38%), Positives = 152/270 (56%), Gaps = 36/270 (13%)
Query: 66 TKAGKLRLDAWISSRIDG-ISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISE 124
T+A RLD W++ + +SR RVQ I+ G V I G+ V + + GD+V+ + E
Sbjct: 18 TEAAGQRLDQWLAGMLGPEMSRNRVQMLIKQGAVRIGGKPVDEAKRKLAAGDVVSVVMPE 77
Query: 125 LQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASS 184
+P + E I LDI+YED ++V++KPA +VVHP GN TGTLVN ++HHC
Sbjct: 78 PEPATPQGEAIALDILYEDAELIVIDKPAGLVVHPGAGNWTGTLVNALIHHCG------- 130
Query: 185 NQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKL 244
+ S I G RPGIVHRLDK TSG++VVAK + +H LSE F
Sbjct: 131 ---------------DSLSGIGGVK-RPGIVHRLDKETSGVMVVAKTDRAHKALSEAFAD 174
Query: 245 H----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYK 300
H ++R Y++L G+P + +G+++ P+ R +R+R A +P ARHA + +
Sbjct: 175 HGRTGDLQRAYLALVWGIPPRPTGKVDAPLGR-AADRVRRAVVPEGRD--DARHAVTHFT 231
Query: 301 VIEILAG-----GGSALVEWRLETGRTHQV 325
V+E ++LVE RLETGRTHQ+
Sbjct: 232 VVERFGEQQQEFATASLVECRLETGRTHQI 261
>gi|408370334|ref|ZP_11168111.1| RluA family pseudouridine synthase [Galbibacter sp. ck-I2-15]
gi|407744092|gb|EKF55662.1| RluA family pseudouridine synthase [Galbibacter sp. ck-I2-15]
Length = 343
Score = 181 bits (458), Expect = 6e-43, Method: Compositional matrix adjust.
Identities = 116/274 (42%), Positives = 154/274 (56%), Gaps = 40/274 (14%)
Query: 59 QLEETVDTKAGK----LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKG 114
+L E AGK LR+D ++ + I+ +R ++Q + + G + +NG V K +H VK
Sbjct: 14 ELFEHYSFTAGKGQEPLRVDKFLMNFIENATRNKIQQAAKGGNIYVNGHAV-KSNHKVKA 72
Query: 115 GDMVNCTISELQPLRA--EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNG- 171
D V + E P EDIPLDIVYEDD +LVVNKPA MVVHP GN +GTL+N
Sbjct: 73 NDQVKV-LFEHPPHEYLLTPEDIPLDIVYEDDELLVVNKPAGMVVHPGHGNYSGTLINAL 131
Query: 172 ILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKD 231
I H +LP +SN+ RPG+VHR+DK TSGLLVVAK
Sbjct: 132 IFHFDNLPL--NSNE------------------------RPGLVHRIDKDTSGLLVVAKT 165
Query: 232 EHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQ 291
E++ +HLS+QF T ER Y++L G + G +E I R P NR++MA P + Q
Sbjct: 166 ENALSHLSKQFFHKTSEREYMALVWGDLKEDQGVVEGHIGRHPKNRLQMAVFPDGD---Q 222
Query: 292 ARHAASRYKVIEILAGGGSALVEWRLETGRTHQV 325
+ A + YKV+E G LV RLETGRTHQ+
Sbjct: 223 GKEAVTHYKVLERF--GYVTLVSCRLETGRTHQI 254
>gi|116253506|ref|YP_769344.1| ribosomal large subunit pseudouridine synthase D [Rhizobium
leguminosarum bv. viciae 3841]
gi|115258154|emb|CAK09255.1| putative ribosomal large subunit pseudouridine synthase D
[Rhizobium leguminosarum bv. viciae 3841]
Length = 341
Score = 181 bits (458), Expect = 6e-43, Method: Compositional matrix adjust.
Identities = 113/287 (39%), Positives = 163/287 (56%), Gaps = 38/287 (13%)
Query: 50 EPIANYAGVQLEETVDTKAGKLRLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKV 108
+P AG + T D A + RLDAW+++++ + SR+R+++ I+ G V + G+ V+
Sbjct: 3 DPFKQAAGNRKVLTADETA-EGRLDAWLTAQVGEEFSRSRIKALIKDGQVLLRGEPVTDP 61
Query: 109 SHNVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTL 168
V+ GD T+ E + + EDIPLDI++EDD+V+V++KP+ +VVHP GN TGTL
Sbjct: 62 QRKVRTGDSFELTLPEPEDPTPQGEDIPLDILHEDDDVIVISKPSGLVVHPGAGNWTGTL 121
Query: 169 VNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVV 228
VN ++HHCS + S I G RPGIVHRLDK T+G++VV
Sbjct: 122 VNALIHHCS----------------------DTLSGIGGVR-RPGIVHRLDKDTTGVMVV 158
Query: 229 AKDEHSHAHLSEQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAI- 283
AK++ +H HLS QF H +ER Y ++ G P SG ++ P+ R +R R A
Sbjct: 159 AKNDIAHRHLSLQFADHGRTMPLERAYQAIVWGRPRTLSGTVDAPLGRATGDRTRRAVKR 218
Query: 284 PGSNKHGQARHAASRYKVIEIL-----AGGGSALVEWRLETGRTHQV 325
P S A A + Y+VIE A ++LVE RLETGRTHQ+
Sbjct: 219 PDSQ---DADEAITHYQVIERFHEKPDATAFASLVECRLETGRTHQI 262
>gi|291542663|emb|CBL15773.1| ribosomal large subunit pseudouridine synthase D [Ruminococcus
bromii L2-63]
Length = 306
Score = 181 bits (458), Expect = 6e-43, Method: Compositional matrix adjust.
Identities = 106/268 (39%), Positives = 152/268 (56%), Gaps = 37/268 (13%)
Query: 61 EETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNC 120
E ++ + +RLD +IS +SR+ + I +G V +N VVSK + + GD+V
Sbjct: 3 EFKLNCETSGVRLDKFISDANIDLSRSAAVNLIENGAVLVNDSVVSK-KYKLSQGDIVVV 61
Query: 121 TISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPT 180
+ + P A+AE+IPLDIVYED+ +LVVNKP MVVHPA GN GTLVN +L+HC
Sbjct: 62 NVPDPTPYEAKAENIPLDIVYEDECLLVVNKPKGMVVHPAAGNYDGTLVNALLYHC---- 117
Query: 181 LASSNQEAFSDAEDISDDEEFSSSISGAS--IRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
S+SG + +RPGIVHR+DK TSGLL+VAK++ SH L
Sbjct: 118 ---------------------GDSLSGINGVLRPGIVHRIDKDTSGLLIVAKNDFSHRSL 156
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAA-S 297
+EQ K H+ R Y S+ G G ++ PI R+P +R +M I ++K+ ++ +
Sbjct: 157 AEQIKEHSFTREYESIVFGNLKNDEGTVDAPIGRNPKDRKKMCVIEKNSKNAVTHYSVIT 216
Query: 298 RYKVIEILAGGGSALVEWRLETGRTHQV 325
RYK G ++ +LETGRTHQ+
Sbjct: 217 RYK--------GYTHIKCKLETGRTHQI 236
>gi|167040454|ref|YP_001663439.1| RluA family pseudouridine synthase [Thermoanaerobacter sp. X514]
gi|300914505|ref|ZP_07131821.1| pseudouridine synthase, RluA family [Thermoanaerobacter sp. X561]
gi|307724259|ref|YP_003904010.1| RluA family pseudouridine synthase [Thermoanaerobacter sp. X513]
gi|166854694|gb|ABY93103.1| pseudouridine synthase, RluA family [Thermoanaerobacter sp. X514]
gi|300889440|gb|EFK84586.1| pseudouridine synthase, RluA family [Thermoanaerobacter sp. X561]
gi|307581320|gb|ADN54719.1| pseudouridine synthase, RluA family [Thermoanaerobacter sp. X513]
Length = 305
Score = 180 bits (457), Expect = 7e-43, Method: Compositional matrix adjust.
Identities = 103/254 (40%), Positives = 151/254 (59%), Gaps = 34/254 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D ++++ +D +R+ ++ I LV +NG+ V K S+ VK D V I E + +
Sbjct: 19 RIDVFLAAELD-YTRSYIKKLIVDELVFVNGKTV-KPSYKVKENDEVVVNIPEAEKIDVL 76
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E+IPLDI+YEDD+++V+NKP MVVHPAPGN +GTLVN +L+HC
Sbjct: 77 PENIPLDILYEDDDIIVINKPQGMVVHPAPGNYSGTLVNALLYHC--------------- 121
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+ S I+G +RPGIVHRLDK TSG++VVAK++ +H LS Q K ++ + Y
Sbjct: 122 --------KNLSGINGI-LRPGIVHRLDKDTSGVMVVAKNDKAHISLSNQIKERSVFKKY 172
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+++ GV G+IE PI R P +R +MA I R+A + YKV+E +
Sbjct: 173 VAIVEGVIKDEEGKIEAPIGRHPVDRKKMAVIE------DGRYALTLYKVLERFK--ENT 224
Query: 312 LVEWRLETGRTHQV 325
LVE ++TGRTHQ+
Sbjct: 225 LVEAVIKTGRTHQI 238
>gi|224541418|ref|ZP_03681957.1| hypothetical protein CATMIT_00580 [Catenibacterium mitsuokai DSM
15897]
gi|224525664|gb|EEF94769.1| pseudouridine synthase, RluA family [Catenibacterium mitsuokai DSM
15897]
Length = 306
Score = 180 bits (457), Expect = 7e-43, Method: Compositional matrix adjust.
Identities = 105/255 (41%), Positives = 154/255 (60%), Gaps = 32/255 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
LRLD I + + SR +Q I++G V +N V K ++ V+ D++ T+ + Q
Sbjct: 15 LRLDKVILNHMPDRSRTEIQKWIKAGQVIVNDNV-EKANYKVEEEDVIQVTLPDPQSTEI 73
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
EDIPLDI+YED++V+VVNKP M+VHP+ G +GTLVN +L+HC
Sbjct: 74 RPEDIPLDIIYEDEDVIVVNKPTGMIVHPSAGIYSGTLVNALLYHCH------------- 120
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
D+S +I+G + RPGIVHR+DK TSGLL+VAK++++H LS+Q + H++ R
Sbjct: 121 ---DLS-------AINGIT-RPGIVHRIDKETSGLLMVAKNDNAHRSLSKQLEEHSVVRR 169
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y++L GV + + GRIE PI RD +R +MA + A+ A + +KV+E
Sbjct: 170 YVALVHGVINHNVGRIEAPIGRDSKDRKKMAVTSKN-----AKDAITNFKVLE--RYDDM 222
Query: 311 ALVEWRLETGRTHQV 325
L+E RLETGRTHQ+
Sbjct: 223 TLIECRLETGRTHQI 237
>gi|256752464|ref|ZP_05493322.1| pseudouridine synthase, RluA family [Thermoanaerobacter ethanolicus
CCSD1]
gi|256748666|gb|EEU61712.1| pseudouridine synthase, RluA family [Thermoanaerobacter ethanolicus
CCSD1]
Length = 305
Score = 180 bits (457), Expect = 7e-43, Method: Compositional matrix adjust.
Identities = 103/254 (40%), Positives = 151/254 (59%), Gaps = 34/254 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D ++++ +D +R+ ++ I LV +NG+ V K S+ VK D V I E + +
Sbjct: 19 RIDVFLAAELD-YTRSYIKKLIVDELVFVNGKTV-KPSYKVKENDEVVVNIPEAEKIDVL 76
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E+IPLDI+YEDD+++V+NKP MVVHPAPGN +GTLVN +L+HC
Sbjct: 77 PENIPLDILYEDDDIIVINKPQGMVVHPAPGNYSGTLVNALLYHC--------------- 121
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+ S I+G +RPGIVHRLDK TSG++VVAK++ +H LS Q K ++ + Y
Sbjct: 122 --------KNLSGINGI-LRPGIVHRLDKDTSGVMVVAKNDKAHISLSNQIKERSVFKKY 172
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+++ GV G+IE PI R P +R +MA I R+A + YKV+E +
Sbjct: 173 VAIVEGVIKDEEGKIEAPIGRHPVDRKKMAVIE------DGRYALTLYKVLERFK--ENT 224
Query: 312 LVEWRLETGRTHQV 325
LVE ++TGRTHQ+
Sbjct: 225 LVEAVIKTGRTHQI 238
>gi|23098941|ref|NP_692407.1| hypothetical protein OB1486 [Oceanobacillus iheyensis HTE831]
gi|22777169|dbj|BAC13442.1| hypothetical conserved protein [Oceanobacillus iheyensis HTE831]
Length = 303
Score = 180 bits (457), Expect = 7e-43, Method: Compositional matrix adjust.
Identities = 105/265 (39%), Positives = 152/265 (57%), Gaps = 33/265 (12%)
Query: 61 EETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNC 120
+ V + GK R+D ++ + SR+++Q I GLV +NG V K ++ GD +
Sbjct: 5 QHIVTEQQGKTRVDKLLTQLLADQSRSQIQGWIDEGLVEVNG-VSVKANYKCVEGDALTW 63
Query: 121 TISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPT 180
I E +PL E E+IPLD+VYED +V+V+NKP MVVHP+ G+ TGTLV+ +L+HC
Sbjct: 64 EIPETKPLILEPENIPLDVVYEDSDVIVINKPKGMVVHPSAGHQTGTLVHALLYHC---- 119
Query: 181 LASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSE 240
DD S I+G RPGIVHR+DK TSGLLVVAK++ +H LS+
Sbjct: 120 ----------------DD---LSGINGIE-RPGIVHRIDKDTSGLLVVAKNDVAHQKLSD 159
Query: 241 QFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYK 300
Q + ++R Y+++ G +G I+ PI RDP +R +MA + + A + ++
Sbjct: 160 QLQQKQLKRKYVAIVHGEIGHDTGLIDAPIGRDPKDRQKMAVV------DNGKSAITHFR 213
Query: 301 VIEILAGGGSALVEWRLETGRTHQV 325
VIE VE +LETGRTHQ+
Sbjct: 214 VIERFP--DYTFVECQLETGRTHQI 236
>gi|402297359|ref|ZP_10817131.1| large ribosomal pseudouridine synthesis protein [Bacillus
alcalophilus ATCC 27647]
gi|401727409|gb|EJT00599.1| large ribosomal pseudouridine synthesis protein [Bacillus
alcalophilus ATCC 27647]
Length = 304
Score = 180 bits (457), Expect = 7e-43, Method: Compositional matrix adjust.
Identities = 108/264 (40%), Positives = 155/264 (58%), Gaps = 32/264 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D +I+S+ + SR +VQ I+ V +NG VV K ++ V D V ++ E + L E
Sbjct: 16 RIDKFITSQQEDWSRTQVQQWIKDKRVKVNGNVV-KSNYKVSDLDQVEVSVPEPEVLEVE 74
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AE+IPLDIV+ED++V+VVNKP MVVHPAPG+ +GTLVN +++HC
Sbjct: 75 AENIPLDIVFEDEDVIVVNKPRGMVVHPAPGHYSGTLVNALMYHC--------------- 119
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+D+ S I+G IRPGIVHR+DK TSGLL+VAK++ +H L Q K T +RVY
Sbjct: 120 -KDL-------SGINGV-IRPGIVHRIDKDTSGLLMVAKNDQAHESLVSQLKAKTTKRVY 170
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++ GV S +G I+ PI RD R M +N++ +R A + + V++
Sbjct: 171 QAIVHGVISHQTGTIDAPIGRDKKERQSMTV---TNEN--SREAVTHFTVLDRFT--NYT 223
Query: 312 LVEWRLETGRTHQVLMLYKLFYIP 335
V+ LETGRTHQ+ + K P
Sbjct: 224 YVQCELETGRTHQIRVHMKYIGYP 247
>gi|421593555|ref|ZP_16038104.1| pseudouridine synthase [Rhizobium sp. Pop5]
gi|403700490|gb|EJZ17642.1| pseudouridine synthase [Rhizobium sp. Pop5]
Length = 341
Score = 180 bits (457), Expect = 7e-43, Method: Compositional matrix adjust.
Identities = 109/286 (38%), Positives = 165/286 (57%), Gaps = 36/286 (12%)
Query: 50 EPIANYAGVQLEETVDTKAGKLRLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKV 108
+P AG++ T D A + RLDAW+++++ + SR+R+++ I+ G VS+ G+ V+
Sbjct: 3 DPFKQAAGIRKVLTADETA-EGRLDAWLTAQVGEEFSRSRIKALIKDGQVSMRGEPVTDP 61
Query: 109 SHNVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTL 168
V+ GD T+ E + + E+IPLDI++ED++++V++KPA +VVHP PGN TGTL
Sbjct: 62 QRKVRAGDSFEITLPEPEDPTPQGENIPLDILHEDEDLIVISKPAGLVVHPGPGNWTGTL 121
Query: 169 VNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVV 228
VN ++HHC + S I G RPGIVHRLDK T+G++VV
Sbjct: 122 VNALIHHCG----------------------DTLSGIGGVR-RPGIVHRLDKDTTGVMVV 158
Query: 229 AKDEHSHAHLSEQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIP 284
AK++ +H HLS QF H +ER Y ++ G P +G ++ P+ R +R R A+
Sbjct: 159 AKNDIAHRHLSLQFADHGRTMPLERAYQAVVWGRPRTLTGTVDAPLGRSTGDRTRR-AVK 217
Query: 285 GSNKHGQARHAASRYKVIEIL-----AGGGSALVEWRLETGRTHQV 325
+ H A A + Y+VIE A ++LVE LETGRTHQ+
Sbjct: 218 RPDSH-DADEAITHYEVIERFQEKPDATALASLVECHLETGRTHQI 262
>gi|403530188|ref|YP_006664717.1| ribosomal large subunit pseudouridine synthase D [Bartonella
quintana RM-11]
gi|403232260|gb|AFR26003.1| ribosomal large subunit pseudouridine synthase D [Bartonella
quintana RM-11]
Length = 334
Score = 180 bits (457), Expect = 8e-43, Method: Compositional matrix adjust.
Identities = 104/275 (37%), Positives = 159/275 (57%), Gaps = 35/275 (12%)
Query: 61 EETVDTKAGKLRLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
++ D A RLD W++ + + +SR+R+Q+ IR G + I+GQ++ + +K M+
Sbjct: 4 QQITDEGALGQRLDQWLAKQYHNALSRSRLQALIREGHLKIDGQLIHEPKTKLKPNQMIE 63
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
TI L+ + E I LDI++EDD+V+V+NK A +VVHP GN TGTLVN +++HC
Sbjct: 64 LTIPILRDAKPSGEAIKLDILFEDDHVIVINKQAGLVVHPGNGNLTGTLVNALIYHCG-- 121
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
+ S I G RPGIVHRLDK T+G++VVAK++ +H +LS
Sbjct: 122 --------------------DSLSGIGGVK-RPGIVHRLDKNTTGIMVVAKNDLAHKNLS 160
Query: 240 EQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHA 295
QF H ++R Y +L G P+++ +I+ P+ R P+NR + A I N H ARHA
Sbjct: 161 AQFSDHGRTSALDRRYHALIWGSPNRNVWKIDAPLGRSPHNRTKQAVIYSQNPH--ARHA 218
Query: 296 ASRYKVIEILA-----GGGSALVEWRLETGRTHQV 325
+ + ++E ++L+E RLETGRTHQ+
Sbjct: 219 VTHFSLLEKYGICSDKTSFASLLECRLETGRTHQI 253
>gi|359788929|ref|ZP_09291894.1| pseudouridine synthase [Mesorhizobium alhagi CCNWXJ12-2]
gi|359255234|gb|EHK58162.1| pseudouridine synthase [Mesorhizobium alhagi CCNWXJ12-2]
Length = 331
Score = 180 bits (457), Expect = 8e-43, Method: Compositional matrix adjust.
Identities = 113/273 (41%), Positives = 151/273 (55%), Gaps = 36/273 (13%)
Query: 63 TVDTKAGKLRLDAWISSRID-GISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCT 121
T A LRLD W+++ + SR RVQ+ IR G V + G VV++ + GD V
Sbjct: 5 TAGPDAAGLRLDQWLAAALGPDFSRNRVQALIRQGAVRVGGAVVNEPKRKMVSGDDVALE 64
Query: 122 ISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTL 181
+ E +P EDIPLDI++EDD ++V+NKP +VVHP GN TGTLVN ++HHC
Sbjct: 65 LPEPEPAEPVGEDIPLDILFEDDQLIVLNKPPGLVVHPGAGNWTGTLVNALIHHCG---- 120
Query: 182 ASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQ 241
+ S I G RPGIVHRLDK TSG++VVAK + +H LSE
Sbjct: 121 ------------------DSLSGIGGVR-RPGIVHRLDKDTSGVMVVAKTDRAHQALSEA 161
Query: 242 FKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAAS 297
F H +ER YI+L +P + +G I+ P+ R ++R R A +P ARHA +
Sbjct: 162 FADHGRASDLERAYIALVWNIPQRRAGTIDAPLGR-ASDRTRRAVVPEGRD--DARHAVT 218
Query: 298 RYKVIEILAG-----GGSALVEWRLETGRTHQV 325
Y V+E +ALVE RLETGRTHQ+
Sbjct: 219 HYAVLERFGEKQEEFARAALVECRLETGRTHQI 251
>gi|227904070|ref|ZP_04021875.1| pseudouridine synthase [Lactobacillus acidophilus ATCC 4796]
gi|227868089|gb|EEJ75510.1| pseudouridine synthase [Lactobacillus acidophilus ATCC 4796]
Length = 305
Score = 180 bits (457), Expect = 8e-43, Method: Compositional matrix adjust.
Identities = 101/254 (39%), Positives = 150/254 (59%), Gaps = 33/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +IS ++ +SR RV+ I+ + +N + V KVS+ ++ GD + T+ ++PL
Sbjct: 18 RLDKFISEQLSDLSRTRVKELIQDQNILVN-EKVEKVSYKIQDGDKIEITVPAVKPLDIV 76
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AE+IPLDIVYEDD+V+VVNKP MVVHPAPG+ TLVN +L+H
Sbjct: 77 AENIPLDIVYEDDDVIVVNKPQGMVVHPAPGHPDHTLVNALLYHT--------------- 121
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
++ + S G RPGIVHR+DK TSGLL++AK+ + L +Q T +R+Y
Sbjct: 122 -------QDLAQSPEG--FRPGIVHRIDKDTSGLLMIAKNATARESLEQQLANKTNKRIY 172
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++ G S+ G I+ PI R+P +R +MA + K A + +KV++ G +
Sbjct: 173 WAIVHGNFSEEQGSIDAPIGRNPYDRKKMAVVENGKK------AITHFKVLKQFK--GYS 224
Query: 312 LVEWRLETGRTHQV 325
L+E +LETGRTHQ+
Sbjct: 225 LIECQLETGRTHQI 238
>gi|428301463|ref|YP_007139769.1| ribosomal large subunit pseudouridine synthase D [Calothrix sp. PCC
6303]
gi|428238007|gb|AFZ03797.1| ribosomal large subunit pseudouridine synthase D [Calothrix sp. PCC
6303]
Length = 307
Score = 180 bits (457), Expect = 8e-43, Method: Compositional matrix adjust.
Identities = 100/255 (39%), Positives = 143/255 (56%), Gaps = 31/255 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +++ + +SR+RVQ I G V +N ++ S VK GD + I E+QPL +
Sbjct: 14 RLDRYLAEELSELSRSRVQQLIEQGNVQLNEKICSSKKLTVKLGDRITLKIPEIQPLNLQ 73
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC-SLPTLASSNQEAFS 190
+ IPLDI+YEDD +L+VNK A +VVHPAPG+ GTLVN +L HC +LP +
Sbjct: 74 PQAIPLDILYEDDQILIVNKSAGLVVHPAPGHPDGTLVNALLAHCPNLPGI--------- 124
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
G RPGIVHRLDK T+G + +AK E +H +L Q K T R
Sbjct: 125 ----------------GGVQRPGIVHRLDKDTTGAIAIAKTEQAHQNLQAQLKAKTACRE 168
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y+ + G P G + +PI R P +R +MA +P + R A + +++ E +A
Sbjct: 169 YLGVVYGAPKTEKGSVNLPIGRHPIDRKKMAVVPVESG---GREAVTHWQIRERIA--NF 223
Query: 311 ALVEWRLETGRTHQV 325
L+ ++LETGRTHQ+
Sbjct: 224 TLMHFQLETGRTHQI 238
>gi|261367025|ref|ZP_05979908.1| ribosomal large subunit pseudouridine synthase D [Subdoligranulum
variabile DSM 15176]
gi|282571143|gb|EFB76678.1| pseudouridine synthase, RluA family [Subdoligranulum variabile DSM
15176]
Length = 310
Score = 180 bits (457), Expect = 8e-43, Method: Compositional matrix adjust.
Identities = 113/276 (40%), Positives = 159/276 (57%), Gaps = 37/276 (13%)
Query: 50 EPIANYAGVQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVS 109
EPI AG Q AG RLDAW++ + +GISR +Q+ I V+ +G+ V+K
Sbjct: 2 EPIEITAGPQ-------TAG--RLDAWLAGQCEGISRNALQTLIEQERVTKDGRPVNK-K 51
Query: 110 HNVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLV 169
V G + + + +P+ A +DIPL IVYED++++VVNKP MVVHPAPGN GTLV
Sbjct: 52 EKVCPGAVYLLQLPDPKPIEAVPQDIPLSIVYEDNDLIVVNKPKGMVVHPAPGNPDGTLV 111
Query: 170 NGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVA 229
N +L+HC+ S I GA IRPGIVHR+DK TSGLLVVA
Sbjct: 112 NALLYHCAGQL----------------------SGIGGA-IRPGIVHRIDKDTSGLLVVA 148
Query: 230 KDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKH 289
K++ +H LS Q +H+I RVY ++ G + G +E + RDP +R +MA + S
Sbjct: 149 KNDVAHQALSSQMSVHSIHRVYHAIVYGNLKEDEGFVEAWLGRDPRDRKKMAVL--SENT 206
Query: 290 GQARHAASRYKVIEILAGGGSALVEWRLETGRTHQV 325
AR+A + ++V+E G + +L+TGRTHQ+
Sbjct: 207 TGARYAYTGWRVLERF--GNFTYIACKLKTGRTHQI 240
>gi|114799098|ref|YP_762171.1| RluA family pseudouridine synthase [Hyphomonas neptunium ATCC
15444]
gi|114739272|gb|ABI77397.1| pseudouridine synthase, RluA family [Hyphomonas neptunium ATCC
15444]
Length = 341
Score = 180 bits (456), Expect = 9e-43, Method: Compositional matrix adjust.
Identities = 106/261 (40%), Positives = 149/261 (57%), Gaps = 31/261 (11%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLDA++ +R +GISR+R ++ I G V++ G V + VK G + + P E
Sbjct: 16 RLDAFLGARAEGISRSRAKTLIEEGAVTVGGAVETNPRAPVKKGLVYAVNMPPPVPAMPE 75
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AE IPL+I++ED +++++NK A M VHPAPG+ TGTLVN +LHHC
Sbjct: 76 AEAIPLEILFEDAHLVILNKAAGMAVHPAPGSQTGTLVNALLHHC--------------- 120
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+ S I G RPGIVHRLDK TSG++V AK E +H L+ F+ H I+RVY
Sbjct: 121 -------QGQLSGIGGVE-RPGIVHRLDKLTSGVMVAAKTESAHTGLAALFERHDIDRVY 172
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGG--- 308
++T G P SG IE I+R ++R +M ++ + ARHA + YK +E
Sbjct: 173 RAVTRGAPRPLSGTIEAAIARSESDRKKM-SVHRNPDSPAARHAVTHYKAVETFGYKDRA 231
Query: 309 ----GSALVEWRLETGRTHQV 325
+AL+E RLETGRTHQ+
Sbjct: 232 TRLPAAALLECRLETGRTHQI 252
>gi|431796026|ref|YP_007222930.1| RluA family pseudouridine synthase [Echinicola vietnamensis DSM
17526]
gi|430786791|gb|AGA76920.1| pseudouridine synthase, RluA family [Echinicola vietnamensis DSM
17526]
Length = 364
Score = 180 bits (456), Expect = 9e-43, Method: Compositional matrix adjust.
Identities = 106/265 (40%), Positives = 157/265 (59%), Gaps = 34/265 (12%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
VD R+D +++ ++ ++R +VQ +I +G V ING +K ++ +K GD++ +
Sbjct: 43 VDKGQAATRVDKFLTDKVANVTRNKVQQAIDNGQVKINGSN-TKANYKIKPGDVITVVL- 100
Query: 124 ELQPLRAEA--EDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCS-LPT 180
E++P E E + LDIV+EDD++LVVNKPA MVVHPA GN TGTLVNG+++H S LP
Sbjct: 101 EMEPRETEVLPEKLDLDIVHEDDHLLVVNKPAGMVVHPAYGNWTGTLVNGLVYHFSQLPE 160
Query: 181 LASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSE 240
+ G S RPG+VHR+DK TSGLLV+AK E + L++
Sbjct: 161 MP------------------------GNSGRPGLVHRIDKDTSGLLVIAKSEQAMTGLAK 196
Query: 241 QFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYK 300
QF H+IER YI+L G P + +G I+ + R +R M P + Q ++A + +K
Sbjct: 197 QFFDHSIERTYIALVWGEPQEDAGTIDAHVGRSARDRKVMDVFPEGD---QGKNAVTHWK 253
Query: 301 VIEILAGGGSALVEWRLETGRTHQV 325
V++ L +LV+ LETGRTHQ+
Sbjct: 254 VLKRLR--YVSLVQCNLETGRTHQI 276
>gi|347549239|ref|YP_004855567.1| hypothetical protein LIV_1819 [Listeria ivanovii subsp. ivanovii
PAM 55]
gi|346982310|emb|CBW86304.1| Conserved hypothetical protein [Listeria ivanovii subsp. ivanovii
PAM 55]
Length = 302
Score = 180 bits (456), Expect = 9e-43, Method: Compositional matrix adjust.
Identities = 107/272 (39%), Positives = 161/272 (59%), Gaps = 34/272 (12%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
++ K + R+D ++ + G SR+ +Q ++SG +++NG++ +K ++ V+ GD ++ +
Sbjct: 8 IEEKNARERIDKAVAE-LTGKSRSAIQIMLKSGDITVNGEI-AKPNYKVQVGDEIHLEVR 65
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
E + L AEDIPLDI YED ++LVVNKP MVVHP+ G+A+GTLVN +L HC
Sbjct: 66 EPETLEVLAEDIPLDIYYEDKDMLVVNKPEGMVVHPSAGHASGTLVNALLFHC------- 118
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
+D+ S I+G IRPGIVHR+DK TSGLL+VAK++H+H L++Q K
Sbjct: 119 ---------KDL-------SGING-KIRPGIVHRIDKDTSGLLMVAKNDHAHESLAKQLK 161
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
T +R YI+L G G IE PI R +R +MA + + A + ++VIE
Sbjct: 162 DKTSDREYIALVHGDIVHQKGTIEAPIGRAKEDRQKMAVVR------DGKEARTHFEVIE 215
Query: 304 ILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
L G L+ +L+TGRTHQ+ + K P
Sbjct: 216 RLE--GYTLINCKLDTGRTHQIRVHLKYIGHP 245
>gi|452204042|ref|YP_007484175.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Dehalococcoides mccartyi DCMB5]
gi|452111101|gb|AGG06833.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Dehalococcoides mccartyi DCMB5]
Length = 300
Score = 180 bits (456), Expect = 9e-43, Method: Compositional matrix adjust.
Identities = 101/254 (39%), Positives = 146/254 (57%), Gaps = 33/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +I+ + G+SR+ +Q + SG + +N Q +K S +K GD + I P +
Sbjct: 14 RLDKYITQKESGLSRSFIQELVSSGHILVNNQS-AKPSLRLKTGDTITIEIPPETPSELK 72
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AEDIPL+I+++D ++L++NKP + VHPAPG+ TLVNG+L E F D
Sbjct: 73 AEDIPLEIIFQDKDLLLINKPPGLTVHPAPGHPDHTLVNGVL-------ALEPEMEDFDD 125
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+RPGIVHRLDK TSGLL+VAK+ + A+LS QFK T+ + Y
Sbjct: 126 -----------------PLRPGIVHRLDKDTSGLLLVAKNRQALANLSAQFKERTVRKYY 168
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++L G + G IE P+ RDP NR ++A + RHA + YKV+ + G +
Sbjct: 169 LALVKGELRPAEGFIEAPLGRDPQNRQKIAVV------SDGRHARTGYKVLRYIQ--GYS 220
Query: 312 LVEWRLETGRTHQV 325
L+E +LETGRTHQ+
Sbjct: 221 LLEVKLETGRTHQI 234
>gi|407477639|ref|YP_006791516.1| hypothetical protein Eab7_1800 [Exiguobacterium antarcticum B7]
gi|407061718|gb|AFS70908.1| Hypothetical protein Eab7_1800 [Exiguobacterium antarcticum B7]
Length = 307
Score = 180 bits (456), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 109/277 (39%), Positives = 162/277 (58%), Gaps = 33/277 (11%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q E V R+D W++ + D SR++VQ +++G V ++G++V K ++ + G + +
Sbjct: 4 QNEWAVKANGATGRIDKWLAEQQD-WSRSQVQDWLKAGHVEVDGRIV-KPNYKMSGTEEI 61
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
I E L E+IPLD+VYED +V+V+NKP MVVHPA G+ +GTLVN +LHHC
Sbjct: 62 LVRIPEAVELEVLPENIPLDVVYEDGDVIVINKPKGMVVHPAAGHVSGTLVNALLHHC-- 119
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+D+S I+G RPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 120 --------------QDLS-------GINGVK-RPGIVHRIDKDTSGLLMVAKNDLAHESL 157
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
++Q K T ER+YI+L G G IE P+ RD N+R RM ++K+ +A A +
Sbjct: 158 AQQLKDKTTERLYIALVHGEIPHELGTIEAPVGRDKNDRQRMTV---TDKNSKA--AVTH 212
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
++V+E G +VE +LETGRTHQ+ + + P
Sbjct: 213 FRVLERYE--GFTVVECKLETGRTHQIRVHMRYIGFP 247
>gi|323486916|ref|ZP_08092232.1| pseudouridine synthase [Clostridium symbiosum WAL-14163]
gi|323399779|gb|EGA92161.1| pseudouridine synthase [Clostridium symbiosum WAL-14163]
Length = 305
Score = 180 bits (456), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 103/265 (38%), Positives = 154/265 (58%), Gaps = 31/265 (11%)
Query: 61 EETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNC 120
E V K+ LR+D +++ +R+ +Q ++S LV +NG+ V K S+ GD V
Sbjct: 4 EYIVPEKSSGLRIDKFLTESCPDYTRSFLQKLLKSELVEVNGKPV-KSSYKTAAGDTVTF 62
Query: 121 TISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPT 180
+ E A+++PLDI+YED++V+++NKP MVVHPA G+ GTLVNG++HHC
Sbjct: 63 EVPEAVEAEITAQEMPLDILYEDEDVILINKPKGMVVHPAAGHYEGTLVNGLMHHC---- 118
Query: 181 LASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSE 240
E S I+G +RPGIVHR+D T+G+L+V K++ +H ++E
Sbjct: 119 ------------------REQLSGINGV-MRPGIVHRIDMDTTGVLIVCKNDLAHNSIAE 159
Query: 241 QFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYK 300
Q K+H+I R Y ++ G G I PI R PN+R +M+ ++K+G + A + YK
Sbjct: 160 QLKVHSITRKYYAVVFGSLKDDEGTIHAPIGRHPNDRKKMSI---NSKNG--KDAVTHYK 214
Query: 301 VIEILAGGGSALVEWRLETGRTHQV 325
V+E G LVE RLETGRTHQ+
Sbjct: 215 VLERFH--GYTLVECRLETGRTHQI 237
>gi|153953824|ref|YP_001394589.1| pseudouridine synthase [Clostridium kluyveri DSM 555]
gi|219854440|ref|YP_002471562.1| hypothetical protein CKR_1097 [Clostridium kluyveri NBRC 12016]
gi|146346705|gb|EDK33241.1| Predicted pseudouridine synthase [Clostridium kluyveri DSM 555]
gi|219568164|dbj|BAH06148.1| hypothetical protein [Clostridium kluyveri NBRC 12016]
Length = 305
Score = 180 bits (456), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 104/255 (40%), Positives = 149/255 (58%), Gaps = 32/255 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
LRLD +I I SR+ +Q+ I LV +N ++ K ++ K GD + ++ + L
Sbjct: 15 LRLDLFICKHIQDKSRSYIQNLIEDNLVEVNHRM-KKSNYKTKTGDNIKVSLPDAVELNI 73
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
+ EDI LDI+YED +V+VVNKP M+VHPA G TGTLVN +L+HC
Sbjct: 74 KGEDIKLDILYEDSDVIVVNKPQGMIVHPASGVYTGTLVNALLNHCR------------- 120
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
ED+S I+G + RPGIVHR+DK TSG+LV+AK++ SH LSEQ K H++ R
Sbjct: 121 --EDLS-------GINGIA-RPGIVHRIDKDTSGILVIAKNDMSHNKLSEQLKDHSMTRE 170
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
YI+L G+ + G ++ PI R ++I+MA + G + A + Y+VI+
Sbjct: 171 YIALVEGIIKEEKGSLDKPIGRHKKDKIKMAVVEG------GKRAVTHYEVIKRFK--EY 222
Query: 311 ALVEWRLETGRTHQV 325
LV+ LETGRTHQ+
Sbjct: 223 TLVKCILETGRTHQI 237
>gi|210622438|ref|ZP_03293170.1| hypothetical protein CLOHIR_01118 [Clostridium hiranonis DSM 13275]
gi|210154254|gb|EEA85260.1| hypothetical protein CLOHIR_01118 [Clostridium hiranonis DSM 13275]
Length = 309
Score = 180 bits (456), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 102/254 (40%), Positives = 150/254 (59%), Gaps = 32/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +++ + +SR+ +Q I+ V++NG+V K + VK D + I + + L
Sbjct: 22 RLDVYLADQFVDMSRSYIQKIIKDKKVTVNGKV-EKAKYLVKEEDKIVIEIPKPKVLEVV 80
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
+DIP++IVYEDD++++VNKP MVVHPAPGN GTLVN IL+HC N
Sbjct: 81 PQDIPIEIVYEDDDIIIVNKPQGMVVHPAPGNYEGTLVNAILYHC------KGN------ 128
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
SSI+G IRPGIVHR+DK TSG+L++AK+ ++H L+EQ K H+I R Y
Sbjct: 129 ----------LSSINGV-IRPGIVHRIDKDTSGILMIAKNNNAHNCLAEQLKDHSITREY 177
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+ V + + ++ PI R+P +R++MA +P + A + ++VIE G
Sbjct: 178 EFICHSVFKEDNVTVDRPIGRNPKDRLKMAIVPN------GKRAVTHFEVIERF--NGYT 229
Query: 312 LVEWRLETGRTHQV 325
V RLETGRTHQ+
Sbjct: 230 HVRARLETGRTHQI 243
>gi|403383409|ref|ZP_10925466.1| RNA pseudouridine synthase ylyB [Kurthia sp. JC30]
Length = 306
Score = 180 bits (456), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 107/262 (40%), Positives = 152/262 (58%), Gaps = 32/262 (12%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
V T+ R+D +++ D SR +V+ I G + +NG+ V KV + V+ GD +
Sbjct: 8 VTTEIAGERIDKALAAMQDTWSRTQVKGLIEDGHLLVNGETV-KVKYKVQDGDRIEVNAP 66
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
+ +PL AED+ L+IVYED++VLVVNKP MVVHPAPG+A+GTLVNG++HHC+
Sbjct: 67 DPEPLEILAEDLNLEIVYEDEDVLVVNKPKGMVVHPAPGHASGTLVNGLMHHCT------ 120
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L +Q
Sbjct: 121 ----------DL-------SGINGI-MRPGIVHRIDKDTSGLLMVAKNDLAHEGLVQQLV 162
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
T+ R Y +L G G I+ PI RD +R +M + +HA + ++VI
Sbjct: 163 DKTVTRRYTALVHGHIPHDKGTIDAPIGRDQKDRQKMGVV------DNGKHAVTHFQVIG 216
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
G LV+ RLETGRTHQ+
Sbjct: 217 RF-GTDYTLVQCRLETGRTHQI 237
>gi|410724119|ref|ZP_11363318.1| pseudouridine synthase, RluA family [Clostridium sp. Maddingley
MBC34-26]
gi|410602405|gb|EKQ56885.1| pseudouridine synthase, RluA family [Clostridium sp. Maddingley
MBC34-26]
Length = 305
Score = 180 bits (456), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 101/262 (38%), Positives = 155/262 (59%), Gaps = 33/262 (12%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
V+ K + R+D ++S ++ SR+ VQ I + +N ++ K ++ VK D + ++S
Sbjct: 8 VEEKDKETRIDKYLSEILEDKSRSYVQGLIEKYSIKVNNKI-PKSNYKVKTKDEIEISLS 66
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
E + L + EDI L+I+YED +++VVNK MVVHPAPGN GTLVN +L HC
Sbjct: 67 EPEVLNVDPEDISLNILYEDKDIVVVNKEQGMVVHPAPGNYNGTLVNALLFHC------- 119
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
+D+S SI+G +RPGIVHR+DK TSG+LVVAK++ +H LSEQ K
Sbjct: 120 ---------KDLS-------SINGI-VRPGIVHRIDKDTSGVLVVAKNDEAHNKLSEQLK 162
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
H+++R Y +L G G I+ P++R+ +R+++ + G K A + Y+V+E
Sbjct: 163 DHSMKREYYALVEGRIKNDKGTIDKPLARNKKDRLKIGIVEGGKK------AVTHYEVLE 216
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
G L++ +LETGRTHQ+
Sbjct: 217 --RYNGYTLIKCKLETGRTHQI 236
>gi|169831112|ref|YP_001717094.1| RluA family pseudouridine synthase [Candidatus Desulforudis
audaxviator MP104C]
gi|169637956|gb|ACA59462.1| pseudouridine synthase, RluA family [Candidatus Desulforudis
audaxviator MP104C]
Length = 309
Score = 180 bits (456), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 106/263 (40%), Positives = 155/263 (58%), Gaps = 32/263 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV+ + + RLD +++ + +SRAR+Q I LV++NG+ ++ SH V+GGD V +
Sbjct: 8 TVEEEDEQTRLDVFLAGQNPELSRARIQKLISLELVTVNGRP-ARASHRVRGGDCVELKV 66
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
+ + R E E IPL++ +ED +VLVVNKP +VVHPA G+ +GTLVN +LHHC
Sbjct: 67 PDPETPRIEPEAIPLEVCFEDPDVLVVNKPRGLVVHPAVGHYSGTLVNALLHHC------ 120
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
D+ S I+G +RPGIVHRLD+ TSGLL+VAK++ +H L+ Q
Sbjct: 121 ----------RDL-------SGINGI-LRPGIVHRLDRDTSGLLMVAKNDAAHLALAGQL 162
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
K + R Y +L G P + +G ++ PI R P +R RMA P S R A + Y+V+
Sbjct: 163 KDRAVLRRYTALVHGRPRRETGTVDAPIGRHPRDRQRMAVTPRS-----GRAARTHYRVV 217
Query: 303 EILAGGGSALVEWRLETGRTHQV 325
+L+E L+TGRTHQ+
Sbjct: 218 RRF--DKFSLLELTLDTGRTHQI 238
>gi|335357350|ref|ZP_08549220.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
animalis KCTC 3501]
Length = 301
Score = 180 bits (456), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 106/266 (39%), Positives = 154/266 (57%), Gaps = 36/266 (13%)
Query: 60 LEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
+E T+ T+ G RLD +++ SR+++Q + G + +N + K + VK GD ++
Sbjct: 2 IEATITTQTG--RLDKVLTTVFPQYSRSQIQQLLEQGNILVN-ETQQKGKYKVKAGDKIS 58
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
T E++ L E E+I LDIVYEDD+V+VV+KP MVVHPAPG+ TLVN +L+HC L
Sbjct: 59 LTEPEIKELVVEPENIALDIVYEDDDVIVVDKPQGMVVHPAPGHEDHTLVNALLYHCPL- 117
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
S+I+G + RPGIVHR+DK TSGLL+VAK++ +H L+
Sbjct: 118 -----------------------STING-TYRPGIVHRIDKDTSGLLMVAKNDQAHRSLA 153
Query: 240 EQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRY 299
+Q K T R YI+L G + SG I+ P++R P +R + A + G R A + +
Sbjct: 154 KQLKDKTNLREYIALVHGRIKEDSGTIKAPLARSPKDRKKQAVVSG------GRDAVTHF 207
Query: 300 KVIEILAGGGSALVEWRLETGRTHQV 325
KV++ LV RLETGRTHQ+
Sbjct: 208 KVLKRYQ--DYTLVSCRLETGRTHQI 231
>gi|86358939|ref|YP_470831.1| pseudouridylate synthase, ribosomal large subunit D protein
[Rhizobium etli CFN 42]
gi|86283041|gb|ABC92104.1| pseudouridylate synthase, ribosomal large subunit D protein
[Rhizobium etli CFN 42]
Length = 354
Score = 180 bits (456), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 116/305 (38%), Positives = 169/305 (55%), Gaps = 43/305 (14%)
Query: 31 VFKILRARCSSSSSGGNNREPIANYAGVQLEETVDTKAGKLRLDAWISSRI-DGISRARV 89
V KI R R S +P AG++ T D A + RLDAW+++++ + SR+R+
Sbjct: 4 VLKIRRRRSVLS-------DPFKQAAGIRKVLTADETA-EGRLDAWLTAQVGEDFSRSRI 55
Query: 90 QSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVV 149
++ I+ G VS+ G+ V+ V+ GD T+ E + + EDIPL+I++EDD+++V+
Sbjct: 56 KALIKDGQVSLRGEQVTDPQRKVRVGDSFEITLPEPEDPTPKGEDIPLEILHEDDDLIVI 115
Query: 150 NKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGAS 209
+KPA +VVHP GN TGTLVN ++HHC + S I G
Sbjct: 116 SKPAGLVVHPGSGNWTGTLVNALIHHCG----------------------DTLSGIGGVR 153
Query: 210 IRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLH----TIERVYISLTSGVPSQSSGR 265
RPGIVHRLDK T+G++VVAK++ +H HLS QF H +ER Y ++ G P SG
Sbjct: 154 -RPGIVHRLDKDTTGVMVVAKNDVAHRHLSLQFADHGRTMPLERAYRAVVWGRPRTLSGT 212
Query: 266 IEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEIL-----AGGGSALVEWRLETG 320
I+ P+ R +R R A ++ A A + Y+VIE A ++LVE LETG
Sbjct: 213 IDAPLGRATGDRTRRAVKRPDSQDADA--AITHYEVIERFQENPDATALASLVECHLETG 270
Query: 321 RTHQV 325
RTHQ+
Sbjct: 271 RTHQI 275
>gi|58337436|ref|YP_194021.1| pseudouridine synthase [Lactobacillus acidophilus NCFM]
gi|58254753|gb|AAV42990.1| pseudouridine synthase [Lactobacillus acidophilus NCFM]
Length = 302
Score = 180 bits (456), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 101/254 (39%), Positives = 150/254 (59%), Gaps = 33/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +IS ++ +SR RV+ I+ + +N + V KVS+ ++ GD + T+ ++PL
Sbjct: 15 RLDKFISEQLSDLSRTRVKELIQDQNILVN-EKVEKVSYKIQDGDKIEITVPAVKPLDIV 73
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AE+IPLDIVYEDD+V+VVNKP MVVHPAPG+ TLVN +L+H
Sbjct: 74 AENIPLDIVYEDDDVIVVNKPQGMVVHPAPGHPDHTLVNALLYHT--------------- 118
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
++ + S G RPGIVHR+DK TSGLL++AK+ + L +Q T +R+Y
Sbjct: 119 -------QDLAQSPEG--FRPGIVHRIDKDTSGLLMIAKNATARESLEQQLANKTNKRIY 169
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++ G S+ G I+ PI R+P +R +MA + K A + +KV++ G +
Sbjct: 170 WAIVHGNFSEEQGSIDAPIGRNPYDRKKMAVVENGKK------AITHFKVLKQFK--GYS 221
Query: 312 LVEWRLETGRTHQV 325
L+E +LETGRTHQ+
Sbjct: 222 LIECQLETGRTHQI 235
>gi|17986660|ref|NP_539294.1| ribosomal large subunit pseudouridine synthase D [Brucella
melitensis bv. 1 str. 16M]
gi|225853117|ref|YP_002733350.1| pseudouridine synthase [Brucella melitensis ATCC 23457]
gi|384445674|ref|YP_005604393.1| RluA family pseudouridine synthase [Brucella melitensis NI]
gi|17982277|gb|AAL51558.1| ribosomal large subunit pseudouridine synthase d [Brucella
melitensis bv. 1 str. 16M]
gi|225641482|gb|ACO01396.1| pseudouridine synthase, RluA family protein [Brucella melitensis
ATCC 23457]
gi|349743663|gb|AEQ09206.1| pseudouridine synthase, RluA family [Brucella melitensis NI]
Length = 347
Score = 180 bits (456), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 107/283 (37%), Positives = 159/283 (56%), Gaps = 36/283 (12%)
Query: 54 NYAGVQLEETV-DTKAGKLRLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKVSHN 111
N +L+E + D+ A RLD W+++ + +SR+RVQS I G V+I+G +
Sbjct: 8 NEGKTRLKELIADSDAAGKRLDQWLAAALGPELSRSRVQSLIADGHVTIDGAPARETKQK 67
Query: 112 VKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNG 171
++ G + + E +P + E+IPLDI+YEDD+++V+NKPA +VVHP GN TGTLVN
Sbjct: 68 LREGMNIAIVLPEPEPAEPQGENIPLDILYEDDDLIVINKPAGLVVHPGNGNWTGTLVNA 127
Query: 172 ILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKD 231
+++ C + S I G RPGIVHRLDK TSG++VVAK+
Sbjct: 128 LIYQCG----------------------DSLSGIGGIR-RPGIVHRLDKDTSGVMVVAKN 164
Query: 232 EHSHAHLSEQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSN 287
+ +H HLSEQF H +ER Y++L G+ + G ++ + R +R + A +
Sbjct: 165 DRAHRHLSEQFADHGRTGDLERAYLALVWGMTERPQGTVDAYLGRSHRDRTKQAVV--HE 222
Query: 288 KHGQARHAASRYKVIEIL-----AGGGSALVEWRLETGRTHQV 325
+ ARHA + Y +E A ++LVE RLETGRTHQ+
Sbjct: 223 EREDARHAITHYATVEKFSPREDATALASLVECRLETGRTHQI 265
>gi|395792031|ref|ZP_10471470.1| RluA family pseudouridine synthase [Bartonella vinsonii subsp.
arupensis Pm136co]
gi|423714079|ref|ZP_17688338.1| RluA family pseudouridine synthase [Bartonella vinsonii subsp.
arupensis OK-94-513]
gi|395421226|gb|EJF87482.1| RluA family pseudouridine synthase [Bartonella vinsonii subsp.
arupensis OK-94-513]
gi|395432950|gb|EJF98924.1| RluA family pseudouridine synthase [Bartonella vinsonii subsp.
arupensis Pm136co]
Length = 332
Score = 179 bits (455), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 106/275 (38%), Positives = 158/275 (57%), Gaps = 35/275 (12%)
Query: 61 EETVDTKAGKLRLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
++ D A RLD W++ + + +SR+R+Q+ IR G + ++GQ++ + +K ++
Sbjct: 4 QQITDEDALGQRLDQWLAKQYHNALSRSRLQTLIREGYLKVDGQLIREPKTKLKPNQIIE 63
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
T+ L+ E I LDI++EDD+V+V+NKPA +VVHP GN TGTLVN ++HHC
Sbjct: 64 LTMPVLRDAEPRGEAIALDILFEDDHVIVINKPAGLVVHPGNGNWTGTLVNALIHHCG-- 121
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
S S G RPGIVHRLDK TSG++VVAK++ +H LS
Sbjct: 122 ---------------------NSLSGIGGVKRPGIVHRLDKNTSGVMVVAKNDLAHKSLS 160
Query: 240 EQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHA 295
QF H ++R Y +L GVPS++ I+ + R P+NRI+ A + H ARHA
Sbjct: 161 AQFSDHGRTCALDRRYHALIWGVPSRNIWTIDASLGRSPHNRIKQAVVHNHKTH--ARHA 218
Query: 296 ASRYKVIE---ILAGGG--SALVEWRLETGRTHQV 325
+ + ++E I A ++L+E RLETGRTHQ+
Sbjct: 219 VTHFSLLEKYRICANTTPFASLLECRLETGRTHQI 253
>gi|346314172|ref|ZP_08855693.1| hypothetical protein HMPREF9022_01350 [Erysipelotrichaceae
bacterium 2_2_44A]
gi|345906530|gb|EGX76254.1| hypothetical protein HMPREF9022_01350 [Erysipelotrichaceae
bacterium 2_2_44A]
Length = 304
Score = 179 bits (455), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 102/254 (40%), Positives = 153/254 (60%), Gaps = 33/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D +IS + D +SR+RVQ+ + G + +N V K ++ VK D + ++ + A
Sbjct: 16 RIDKYISEQED-LSRSRVQALLAEGSILVNQNAV-KANYKVKADDCITAVFNDEMEMEAR 73
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E + LD+ YED++V+V+NKP ++VVHPA GN +GTLVNG+L+HC
Sbjct: 74 PEKMELDVRYEDEDVIVINKPKNIVVHPAAGNQSGTLVNGLLYHC--------------- 118
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+D+S I+G ++RPGIVHR+DK T+GLL+VAK++ +HA LS+Q + T+ R+Y
Sbjct: 119 -KDLS-------GING-TLRPGIVHRIDKDTTGLLIVAKNDLAHASLSKQLQSKTVNRLY 169
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+L GV G I+ PI RD +R +MA ++K A + ++VIE
Sbjct: 170 YALVHGVIQHDFGTIDAPIGRDVKDRQKMAVTATNSK-----DARTHFQVIERFE--NYT 222
Query: 312 LVEWRLETGRTHQV 325
LVE RLETGRTHQ+
Sbjct: 223 LVECRLETGRTHQI 236
>gi|302670833|ref|YP_003830793.1| pseudouridine synthase [Butyrivibrio proteoclasticus B316]
gi|302395306|gb|ADL34211.1| pseudouridine synthase RluA family [Butyrivibrio proteoclasticus
B316]
Length = 309
Score = 179 bits (455), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 99/266 (37%), Positives = 153/266 (57%), Gaps = 30/266 (11%)
Query: 60 LEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
E V + +R+D IS ID +SR ++ I VS NG+VV K S +V D +
Sbjct: 8 FEFIVTDEYDGMRIDKLISELIDSLSRTYIKKLIDDKKVSCNGKVV-KASFHVSENDEIV 66
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
I ++ + +DIPLDI+YED++V+VVNKP MVVHPA G+ TLVN I++HC
Sbjct: 67 MEIPPIEIPQILPQDIPLDIIYEDNDVVVVNKPKDMVVHPAAGHYKDTLVNAIMYHC--- 123
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
++ S I+G +RPGIVHR+DK T+G +++ K++++H ++
Sbjct: 124 -------------------KDNLSGINGV-MRPGIVHRIDKDTTGSVIICKNDNAHQSIA 163
Query: 240 EQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRY 299
EQ K H+I RVY ++ GV + G + PI R N+R +MA +PG ++A++ Y
Sbjct: 164 EQLKEHSINRVYHAICYGVIKEDEGDVTAPIGRSVNDRKKMAVVPG------GKYASTHY 217
Query: 300 KVIEILAGGGSALVEWRLETGRTHQV 325
+V++ G +E +L+TGRTHQ+
Sbjct: 218 RVLKRFPEDGFTYIECKLQTGRTHQI 243
>gi|182417977|ref|ZP_02949285.1| ribosomal large subunit pseudouridine synthase D [Clostridium
butyricum 5521]
gi|237667420|ref|ZP_04527404.1| ribosomal large subunit pseudouridine synthase D [Clostridium
butyricum E4 str. BoNT E BL5262]
gi|182378148|gb|EDT75683.1| ribosomal large subunit pseudouridine synthase D [Clostridium
butyricum 5521]
gi|237655768|gb|EEP53324.1| ribosomal large subunit pseudouridine synthase D [Clostridium
butyricum E4 str. BoNT E BL5262]
Length = 304
Score = 179 bits (455), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 105/262 (40%), Positives = 153/262 (58%), Gaps = 33/262 (12%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
VD + LR+D ++S+ SR+ +Q I V +N + + K ++ +K D + I
Sbjct: 8 VDEQDEGLRIDKYLSNIFKDKSRSFIQGLIEKENVKVNSKTL-KSNYKLKKADEIEIMIP 66
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
E + L EAE+IP+DIVYED++V+VVNK MVVHPAPGN GTLVN +L+HC
Sbjct: 67 EPEILSVEAENIPIDIVYEDEDVIVVNKAQGMVVHPAPGNYNGTLVNALLYHC------- 119
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
+D+ SSI+G IRPGIVHR+DK TSG+LV+AK++ +H LSEQ K
Sbjct: 120 ---------KDL-------SSINGV-IRPGIVHRIDKDTSGILVIAKNDDAHNKLSEQLK 162
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
H+++R Y +L G + G I+ P+ R +R+++ I + A + Y+V+E
Sbjct: 163 DHSMKREYYALIEGRLKNNDGTIDKPLGRCKKDRLKIGIIE------DGKRAVTHYEVVE 216
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
G LV+ LETGRTHQ+
Sbjct: 217 --RYNGYTLVKCVLETGRTHQI 236
>gi|253681471|ref|ZP_04862268.1| ribosomal large subunit pseudouridine synthase D [Clostridium
botulinum D str. 1873]
gi|253561183|gb|EES90635.1| ribosomal large subunit pseudouridine synthase D [Clostridium
botulinum D str. 1873]
Length = 304
Score = 179 bits (455), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 102/256 (39%), Positives = 157/256 (61%), Gaps = 37/256 (14%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGD--MVNCTISELQPLR 129
RLD +IS+ ++G SR+ +Q I+ G V +NG+ K ++ +K D +VN +E Q +
Sbjct: 16 RLDVFISNSLEGKSRSYIQKLIQEGHVKVNGKD-KKSNYKLKLHDSVIVNNIENEFQ--K 72
Query: 130 AEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAF 189
E+I LDI+YED +++V+NKP MVVHPA N +GTLVNG+L+HC TL++ N +
Sbjct: 73 INPENIDLDILYEDKDIIVINKPQGMVVHPATSNYSGTLVNGLLYHCD--TLSTLNDDT- 129
Query: 190 SDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIER 249
RPGIVHR+DK TSG+LVVAK+ +H L+EQ K H+++R
Sbjct: 130 ---------------------RPGIVHRIDKDTSGVLVVAKNNKAHEVLAEQLKEHSMKR 168
Query: 250 VYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGG 309
YI+L G+ + +G I+ P+ R+P +RI+MA + + ++A + Y+V++
Sbjct: 169 EYIALVEGILKKDNGFIDKPLGRNPKDRIKMAVVQ------EGKNAITHYEVLKRFK--K 220
Query: 310 SALVEWRLETGRTHQV 325
+ LV+ LETGRTHQ+
Sbjct: 221 NTLVKCILETGRTHQI 236
>gi|253577879|ref|ZP_04855151.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39B_FAA]
gi|251850197|gb|EES78155.1| conserved hypothetical protein [Ruminococcus sp. 5_1_39BFAA]
Length = 304
Score = 179 bits (455), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 100/261 (38%), Positives = 157/261 (60%), Gaps = 32/261 (12%)
Query: 65 DTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISE 124
D ++G +R+D ++S + +SR+ +Q ++ +++NG V K ++ V+ GD ++ + +
Sbjct: 10 DGQSG-IRIDRYLSEMNEELSRSYIQKLLKEQKITVNGSAV-KANYKVQEGDEISVAVPD 67
Query: 125 LQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASS 184
++ EDIPLDI+YEDD+VL+VNKP MVVHP+ G+ +GTLVN I+ HC
Sbjct: 68 IKEPDILPEDIPLDILYEDDDVLIVNKPKGMVVHPSAGHTSGTLVNAIMFHC-------- 119
Query: 185 NQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKL 244
++ S I+G +RPGIVHR+DK T+G L+V K++++H +L+EQ K
Sbjct: 120 --------------KDNLSGINGV-LRPGIVHRIDKDTTGALLVCKNDNAHRNLAEQLKE 164
Query: 245 HTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEI 304
H+I R Y ++ +GV + G IE PI R P +R +MA + + A + YKV+E
Sbjct: 165 HSIRRRYRAIVAGVLKEDEGTIEGPIGRHPIDRKKMAV-----NYKNGKDAVTHYKVLER 219
Query: 305 LAGGGSALVEWRLETGRTHQV 325
+ VE RLETGRTHQ+
Sbjct: 220 FK--NATYVECRLETGRTHQI 238
>gi|225011533|ref|ZP_03701971.1| pseudouridine synthase, RluA family [Flavobacteria bacterium
MS024-2A]
gi|225004036|gb|EEG42008.1| pseudouridine synthase, RluA family [Flavobacteria bacterium
MS024-2A]
Length = 346
Score = 179 bits (455), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 105/269 (39%), Positives = 152/269 (56%), Gaps = 42/269 (15%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
T D LR+D ++ +R++ ++R+++Q + ++G + ++G V K ++ VKGGD V
Sbjct: 25 TADPGQSPLRVDKFLMARVENVTRSKIQQAAKAGSIFVDGNEV-KSNYKVKGGDKVKVLF 83
Query: 123 SE------LQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC 176
S L P ED+PLDIV+EDD ++VVNKP MVVHP GN +GTL+NG+L+H
Sbjct: 84 SHPPYENLLVP-----EDMPLDIVFEDDILVVVNKPPGMVVHPGHGNYSGTLLNGLLYH- 137
Query: 177 SLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHA 236
F ++ RPG+VHR+DK TSGLLV+AK E +
Sbjct: 138 ------------------------FDQLPKNSNERPGLVHRIDKDTSGLLVIAKTEQAMT 173
Query: 237 HLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAA 296
HL++QF T ER Y +L G + G IE I R P NR++MA ++ Q + A
Sbjct: 174 HLAKQFFDKTSERKYSALVWGDVKEEEGTIEGAIGRHPKNRLQMAVFEDNS---QGKEAK 230
Query: 297 SRYKVIEILAGGGSALVEWRLETGRTHQV 325
+ +KVIE G L+E +LETGRTHQ+
Sbjct: 231 THFKVIERF--GYVTLIECQLETGRTHQI 257
>gi|414175172|ref|ZP_11429576.1| RluA family pseudouridine synthase [Afipia broomeae ATCC 49717]
gi|410889001|gb|EKS36804.1| RluA family pseudouridine synthase [Afipia broomeae ATCC 49717]
Length = 335
Score = 179 bits (455), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 107/273 (39%), Positives = 153/273 (56%), Gaps = 37/273 (13%)
Query: 61 EETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNC 120
E TV+ G RLD ++ R +SR+R+++ I +G VS+ V +++VK GD +
Sbjct: 11 EVTVEGDEGSQRLDRVLAVRSPDLSRSRLKALILAGQVSVGPAPVRDPAYHVKAGDTITI 70
Query: 121 TISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPT 180
+ P E EDIPLDIV+EDD+++V++KP ++VVHPA G+ TGTLVN ++ HC
Sbjct: 71 DVPPAAPAEPEGEDIPLDIVFEDDDIIVIDKPKNLVVHPAAGHETGTLVNALIAHCG--- 127
Query: 181 LASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSE 240
S S G RPGIVHRLDK T+GL+V AK++ +H LS
Sbjct: 128 --------------------ASLSGIGGVRRPGIVHRLDKDTTGLMVAAKNDRAHQSLSA 167
Query: 241 QFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAA 296
QF H + R Y++ GVP++ SG I+ PI R P+ R +MA G R A
Sbjct: 168 QFADHGRTGEMRRGYMAFVWGVPNRKSGTIDQPIDRHPHTREKMAVRQG------GRDAV 221
Query: 297 SRYKVIEILAGGG----SALVEWRLETGRTHQV 325
+ ++VIE G +AL+ +LETGRTHQ+
Sbjct: 222 THWEVIESFTGKDGKPVAALLACQLETGRTHQI 254
>gi|399052196|ref|ZP_10741761.1| pseudouridine synthase, RluA family [Brevibacillus sp. CF112]
gi|433545647|ref|ZP_20501997.1| pseudouridine synthase [Brevibacillus agri BAB-2500]
gi|398050062|gb|EJL42452.1| pseudouridine synthase, RluA family [Brevibacillus sp. CF112]
gi|432183045|gb|ELK40596.1| pseudouridine synthase [Brevibacillus agri BAB-2500]
Length = 309
Score = 179 bits (455), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 104/272 (38%), Positives = 161/272 (59%), Gaps = 32/272 (11%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
V+ + R+D +I+ + + SR++VQ+ I+ G V++NG+ + K ++ ++ D V +
Sbjct: 14 VEPEDANERIDKFITLQNEDWSRSQVQAWIKEGRVTVNGEPI-KSNYKLQAEDEVTLRVP 72
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
+ + + E +PL+IVYED +V+VVNKP +VVHPAPG+ +GTLVNG+L HC
Sbjct: 73 PPKEMAIKPEPMPLEIVYEDSDVVVVNKPRGLVVHPAPGHYSGTLVNGLLAHC------- 125
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
+D+S I+G +RPGIVHR+DK TSGLL+VAK++ +H L+EQ K
Sbjct: 126 ---------KDLS-------GINGV-LRPGIVHRIDKDTSGLLMVAKNDKAHVGLAEQLK 168
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
H++ R Y+++ GV G I+ PI RDP NR +MA + ++ A + + V+E
Sbjct: 169 EHSVTRTYVAIVHGVIPHEMGTIDAPIGRDPKNRQQMAVV-----FENSKPAVTHFIVLE 223
Query: 304 ILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
LVE +LETGRTHQ+ + K P
Sbjct: 224 RFK--EYTLVELKLETGRTHQIRVHMKYIGYP 253
>gi|339443316|ref|YP_004709321.1| hypothetical protein CXIVA_22520 [Clostridium sp. SY8519]
gi|338902717|dbj|BAK48219.1| hypothetical protein CXIVA_22520 [Clostridium sp. SY8519]
Length = 309
Score = 179 bits (455), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 104/265 (39%), Positives = 155/265 (58%), Gaps = 31/265 (11%)
Query: 62 ETVDT-KAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNC 120
+T +T A +R+D +++ + SRA +Q IRSG V++NG+ V+KVS + G V
Sbjct: 6 QTFETGTADNIRIDRYLAEQFPDRSRAFLQKLIRSGEVTVNGRPVTKVSTLLAPGAQVTV 65
Query: 121 TISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPT 180
I E +P EDIPL I+YED+++LV++KP MVVHP+ G+A GTLVN +L+HC
Sbjct: 66 CIPEARPAEILPEDIPLSILYEDEDLLVIDKPKGMVVHPSAGHAGGTLVNAVLYHCR-GQ 124
Query: 181 LASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSE 240
L+ N E IRPGIVHR+DK T+G L+V K++ +H ++E
Sbjct: 125 LSGINGE----------------------IRPGIVHRIDKDTTGALIVCKNDSAHRKIAE 162
Query: 241 QFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYK 300
Q K H++ R Y+ + G S ++G +E PI R P +R +MA P + K A + Y
Sbjct: 163 QIKAHSVTRRYVGIVYGNFSDTTGTVEGPIGRHPVHRQKMAVNPKNGK-----PAVTHYT 217
Query: 301 VIEILAGGGSALVEWRLETGRTHQV 325
V+E G + +++ LETGRTHQ+
Sbjct: 218 VLEQFR--GYSYLQFELETGRTHQI 240
>gi|253576153|ref|ZP_04853485.1| pseudouridine synthase [Paenibacillus sp. oral taxon 786 str. D14]
gi|251844496|gb|EES72512.1| pseudouridine synthase [Paenibacillus sp. oral taxon 786 str. D14]
Length = 315
Score = 179 bits (455), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 106/285 (37%), Positives = 163/285 (57%), Gaps = 33/285 (11%)
Query: 52 IANYAGVQLEETVDTKAGKLRLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKVSH 110
+ ++ +LE K R+D + +++ + SR+++Q I +G + +NG V K ++
Sbjct: 7 LEDFEEEKLEWVAGPADAKERIDKYAKTQLGEEFSRSQIQLWIEAGNLVVNGAPV-KANY 65
Query: 111 NVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVN 170
+ GD + I E +P EDIPL+I YED +V+VVNKP MVVHPAPG+ +GTLVN
Sbjct: 66 KLAEGDRIVLVIPEAEPTEIVPEDIPLEIYYEDSDVIVVNKPRGMVVHPAPGHTSGTLVN 125
Query: 171 GILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAK 230
++ HC +D+S I+G +RPGIVHR+DK TSGL++ AK
Sbjct: 126 ALMFHC----------------KDLS-------GING-ELRPGIVHRIDKDTSGLIMAAK 161
Query: 231 DEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHG 290
++ +HA L+ Q K HT+ R Y +L G S G ++ PI RDP++R +M + N
Sbjct: 162 NDKAHASLAAQLKAHTVTRKYYALVHGNVSHDQGTVDAPIGRDPHDR-KMYTVIERN--- 217
Query: 291 QARHAASRYKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
++HA + ++V+E G L+E +LETGRTHQ+ + K P
Sbjct: 218 -SKHAVTHFQVVERF--GDYTLLELKLETGRTHQIRVHMKFIGHP 259
>gi|124006632|ref|ZP_01691464.1| pseudouridine synthase, RluD [Microscilla marina ATCC 23134]
gi|123987787|gb|EAY27478.1| pseudouridine synthase, RluD [Microscilla marina ATCC 23134]
Length = 360
Score = 179 bits (455), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 109/264 (41%), Positives = 152/264 (57%), Gaps = 34/264 (12%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
VD +R+D ++ R+ I+R + Q++IR G V +N Q V K ++ V+ D++ ++
Sbjct: 42 VDKGQEPVRIDKFLMDRVPNITRNKTQNAIREGFVKVNDQEV-KPNYKVRPEDIIIISLP 100
Query: 124 ELQPLRAEA--EDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTL 181
E P +E EDIP++IVYEDD++LVV+K A MVVHPA N TGTLVN + +H
Sbjct: 101 E-PPRESEVVPEDIPINIVYEDDDLLVVHKEAGMVVHPAYNNWTGTLVNALAYH------ 153
Query: 182 ASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQ 241
F + RPG+VHR+DK TSGLLVVAK EH+ HL++Q
Sbjct: 154 -------------------FKNLPENRDGRPGLVHRIDKDTSGLLVVAKSEHALQHLAKQ 194
Query: 242 FKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKV 301
F HTIER Y +L G P Q +G I+V + R +R AA P + RHA + YKV
Sbjct: 195 FFDHTIERTYYALVWGEPKQEAGTIDVNLGRSLKDRRVTAAFPEGDF---GRHAVTHYKV 251
Query: 302 IEILAGGGSALVEWRLETGRTHQV 325
++ L +LV+ LETGRTHQ+
Sbjct: 252 LKNLR--YVSLVQCNLETGRTHQI 273
>gi|374340589|ref|YP_005097325.1| RluA family pseudouridine synthase [Marinitoga piezophila KA3]
gi|372102123|gb|AEX86027.1| pseudouridine synthase, RluA family [Marinitoga piezophila KA3]
Length = 307
Score = 179 bits (455), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 101/262 (38%), Positives = 152/262 (58%), Gaps = 36/262 (13%)
Query: 72 RLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQP-LR 129
RLD ++ ++ D ISR VQ +I+ G + +NG++ K S+ VK G++V+ + + P +
Sbjct: 15 RLDKFVVEKVPDWISRTYVQKAIKQGQIIVNGEL-KKPSYKVKNGEVVSIEVPDKPPTIE 73
Query: 130 AEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAF 189
E+IPL+I+YED +++V+NKP M+VHP +GTLVN IL+HC
Sbjct: 74 VLPENIPLNIIYEDKDIIVINKPPSMIVHPVANKVSGTLVNAILYHCK------------ 121
Query: 190 SDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIER 249
D + I G IRPGIVHRLDK TSG +VVAK++ +H LS QFK ++
Sbjct: 122 -DLQGI-----------GGEIRPGIVHRLDKDTSGAIVVAKNDRAHQSLSAQFKDRKTKK 169
Query: 250 VYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGG 309
YI+L G+ + G I P++R P RI+MA +PG + + + YK+I+ G
Sbjct: 170 TYIALVKGILKKKQGEINQPLARHPQIRIKMAVVPG------GKESITVYKIIKEF--GD 221
Query: 310 SALVEW-RLETGRTHQVLMLYK 330
A + W L+TGRTHQ+ + +K
Sbjct: 222 KASLAWIHLKTGRTHQIRVHFK 243
>gi|374324826|ref|YP_005077955.1| RNA pseudouridine synthase ylyb [Paenibacillus terrae HPL-003]
gi|357203835|gb|AET61732.1| RNA pseudouridine synthase ylyb [Paenibacillus terrae HPL-003]
Length = 323
Score = 179 bits (455), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 105/279 (37%), Positives = 165/279 (59%), Gaps = 32/279 (11%)
Query: 57 GVQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGD 116
G LE T ++ K R+D +I+ + +SR+++Q I +G V +NG + K ++ + GD
Sbjct: 21 GEFLEWTAESGDAKTRIDKYIAEEMKDVSRSQIQLWIVNGRVLVNGTAI-KANYKLAEGD 79
Query: 117 MVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC 176
++ ++ E + + E+IPLD+VYED +V+V+NK +VVHPAPG+++GTLVN +++HC
Sbjct: 80 RISLSVPEPESVDIVPENIPLDVVYEDSDVIVINKQRGLVVHPAPGHSSGTLVNALMYHC 139
Query: 177 SLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHA 236
D+ S I+G +RPGIVHR+DK TSGLL+ AK++ +HA
Sbjct: 140 ----------------HDL-------SGING-ELRPGIVHRIDKDTSGLLMAAKNDQAHA 175
Query: 237 HLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAA 296
L+ Q K H++ R YI+L G S G ++ PI RD +R ++ + N ++HA
Sbjct: 176 SLAAQLKDHSVTRKYIALVHGHLSHDQGTVDAPIGRDSGDR-KLFTVTERN----SKHAV 230
Query: 297 SRYKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ + VIE L G L+E +LETGRTHQ+ + K P
Sbjct: 231 THFLVIERL--GDYTLLELQLETGRTHQIRVHMKFIGHP 267
>gi|150016471|ref|YP_001308725.1| RluA family pseudouridine synthase [Clostridium beijerinckii NCIMB
8052]
gi|149902936|gb|ABR33769.1| pseudouridine synthase, RluA family [Clostridium beijerinckii NCIMB
8052]
Length = 305
Score = 179 bits (455), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 102/262 (38%), Positives = 154/262 (58%), Gaps = 33/262 (12%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
VD K R+D +++ SR+ +Q I + +N + K ++ ++ D + T S
Sbjct: 8 VDEKDRGERIDKYLAEIFVDKSRSFIQGLIEKDDIKVNNKT-PKSNYKLRALDEIEVTFS 66
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
E + LR EAE+IP++I+YED +V+VVNKP MVVHPAPGN GTLVN +L+HC
Sbjct: 67 EPEVLRVEAEEIPINILYEDKDVVVVNKPQGMVVHPAPGNYNGTLVNALLYHC------- 119
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
+D+ SSI+G IRPGIVHR+DK TSG+LVVAK++ +H LS+Q K
Sbjct: 120 ---------KDL-------SSINGI-IRPGIVHRIDKDTSGVLVVAKNDEAHNKLSDQLK 162
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
H+++R Y +L G G I+ P++R+ +R+++ + G + A + Y+V+E
Sbjct: 163 DHSMKREYYALVEGRLKNDKGIIDKPLARNKRDRLKIGIVEG------GKRAVTHYEVLE 216
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
G L++ LETGRTHQ+
Sbjct: 217 RF--NGYTLIKCILETGRTHQI 236
>gi|404482194|ref|ZP_11017421.1| RluA family pseudouridine synthase [Clostridiales bacterium
OBRC5-5]
gi|404344355|gb|EJZ70712.1| RluA family pseudouridine synthase [Clostridiales bacterium
OBRC5-5]
Length = 304
Score = 179 bits (455), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 95/254 (37%), Positives = 154/254 (60%), Gaps = 32/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D +++ ++ SR+ +Q I+ G +NG+ V K ++ ++ GD+VN I + +PL
Sbjct: 16 RIDVFLAMNLESFSRSYIQDLIKKGKACVNGKDV-KSNYRLRDGDIVNLAIPKPEPLEIL 74
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E+IPLDIVYEDD+V+++NKP MVVHPA G+ +GTLVN +L+HC
Sbjct: 75 PENIPLDIVYEDDDVILINKPKGMVVHPAAGHYSGTLVNALLYHC--------------- 119
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
++ S I+G +RPGIVHR+D T+G+++ K++++H H+++Q H+I R Y
Sbjct: 120 -------KDNLSGINGV-LRPGIVHRIDMDTTGIIIACKNDNAHQHIAKQLAEHSITRKY 171
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+++ +G G ++ PI+R N+R +MA +K G + A + YKV+E L
Sbjct: 172 VAIATGNIKDDEGTVDAPIARSKNDRKKMAV----DKDG--KRAVTHYKVLERL--NNYT 223
Query: 312 LVEWRLETGRTHQV 325
+E LETGRTHQ+
Sbjct: 224 YIECVLETGRTHQI 237
>gi|395791384|ref|ZP_10470842.1| RluA family pseudouridine synthase [Bartonella alsatica IBS 382]
gi|395408747|gb|EJF75357.1| RluA family pseudouridine synthase [Bartonella alsatica IBS 382]
Length = 334
Score = 179 bits (455), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 106/275 (38%), Positives = 158/275 (57%), Gaps = 35/275 (12%)
Query: 61 EETVDTKAGKLRLDAWISSRIDGI-SRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
++ D A RLD W++ + + SR+R+Q+ IR G + ++GQ++ + +K ++
Sbjct: 4 QQITDEGALGQRLDQWLAKQYHNVLSRSRLQTLIREGYLKVDGQLIKEPKTKLKPNQIIE 63
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
T+ L+ L E I LDI++EDD+V+V+NKPA +VVHP GN TGTLVN +++HC
Sbjct: 64 LTMPVLRDLAPSGEAIVLDILFEDDHVIVINKPAGLVVHPGNGNWTGTLVNALIYHCG-- 121
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
+ S I G RPGIVHRLDK TSG+++VAK++ +H LS
Sbjct: 122 --------------------KSLSGIGGVR-RPGIVHRLDKNTSGVMIVAKNDFAHKSLS 160
Query: 240 EQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHA 295
QF H ++R Y +L G PS + I + R P+NRI+ A + N+H ARHA
Sbjct: 161 AQFSDHGRTSALDRRYHALIWGSPSHNVWTINASLGRSPHNRIKQAVV--HNQHPHARHA 218
Query: 296 ASRYKVIE---ILAGGGS--ALVEWRLETGRTHQV 325
+ + ++E I A S +L+E RLETGRTHQ+
Sbjct: 219 VTHFSLLEKYGIYADTTSVASLLECRLETGRTHQI 253
>gi|307944601|ref|ZP_07659941.1| ribosomal large subunit pseudouridine synthase D [Roseibium sp.
TrichSKD4]
gi|307772350|gb|EFO31571.1| ribosomal large subunit pseudouridine synthase D [Roseibium sp.
TrichSKD4]
Length = 341
Score = 179 bits (455), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 107/270 (39%), Positives = 152/270 (56%), Gaps = 36/270 (13%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
VD RLDA ++ +I +SR R+Q+ I+ G V+++G+ + + H V G + T+
Sbjct: 20 VDADDHGKRLDAVLAGQIASLSRNRIQTLIKGGEVTVDGRKIVEPKHRVNEGQTLTLTLP 79
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
E + + E+IPL I+YEDD+++VV+KPA +VVHP GN TGTLVN ++HHC
Sbjct: 80 EPEDPDPKGENIPLSIIYEDDHLIVVDKPAGLVVHPGAGNLTGTLVNALIHHCG------ 133
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
S S G+ RPGIVHR+DK TSGLLVVAK + +H LSEQF
Sbjct: 134 -----------------DSLSGIGSVKRPGIVHRIDKDTSGLLVVAKTDQAHQGLSEQFA 176
Query: 244 LH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRY 299
H +ER Y +L G PS G I ++R NR ++A + + RHA +R+
Sbjct: 177 DHGKTGPLERAYSALVWGAPSSLKGTINANLARSQANRQKIAVVKTA-----GRHAITRW 231
Query: 300 KVIEILAGGGS----ALVEWRLETGRTHQV 325
+V E + +L+E RLETGRTHQ+
Sbjct: 232 QVKERFGEKDTEALASLMECRLETGRTHQI 261
>gi|359412538|ref|ZP_09205003.1| pseudouridine synthase, RluA family [Clostridium sp. DL-VIII]
gi|357171422|gb|EHI99596.1| pseudouridine synthase, RluA family [Clostridium sp. DL-VIII]
Length = 305
Score = 179 bits (455), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 101/263 (38%), Positives = 150/263 (57%), Gaps = 33/263 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
VD K +R+D ++S + SR+ +Q I + +N ++ K ++ +K D + I
Sbjct: 7 VVDEKDQGIRIDKYLSEVFNDKSRSFIQGLIEKENIKVNNKI-PKSNYKIKSSDEIEVII 65
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E + L + EDIP+ I+YED +++VVNK MVVHPAPGN GTLVN +L HC+
Sbjct: 66 DEPEILNVDPEDIPIGILYEDKDIIVVNKEQGMVVHPAPGNYNGTLVNALLFHCT----- 120
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
D+ SSI+G +RPGIVHR+DK TSG+LVVAK++ SH LSEQ
Sbjct: 121 -----------DL-------SSINGV-VRPGIVHRIDKDTSGVLVVAKNDESHNKLSEQL 161
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
K H+++R Y +L G G I+ P++R +R+++ + G + A + Y+VI
Sbjct: 162 KDHSMKREYYALVEGRIKNDKGTIDKPLARSKKDRLKIGIVEG------GKRAVTHYQVI 215
Query: 303 EILAGGGSALVEWRLETGRTHQV 325
E G L++ LETGRTHQ+
Sbjct: 216 E--RYNGYTLIKCVLETGRTHQI 236
>gi|85860531|ref|YP_462733.1| ribosomal large subunit pseudouridine synthase D [Syntrophus
aciditrophicus SB]
gi|85723622|gb|ABC78565.1| ribosomal large subunit pseudouridine synthase D [Syntrophus
aciditrophicus SB]
Length = 333
Score = 179 bits (455), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 105/265 (39%), Positives = 150/265 (56%), Gaps = 31/265 (11%)
Query: 61 EETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNC 120
E V LRLD +++S G SRAR+Q I SG V+I+G+ + S ++ GD+V
Sbjct: 9 EYRVTATESGLRLDLFLASHESGFSRARLQRLIESGRVTISGKAAIRASQKLRTGDIVML 68
Query: 121 TISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPT 180
PL +DIPL I+YED ++LV++KPA +VVHPA G+ +GTLVN +L HC
Sbjct: 69 EEPPATPLELIPQDIPLSILYEDHDLLVLDKPAGLVVHPAAGHVSGTLVNALLFHC---- 124
Query: 181 LASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSE 240
D I G +RPGIVHRLDK TSGLLVVAK + +H L+
Sbjct: 125 ---------RDLAGI-----------GGVMRPGIVHRLDKDTSGLLVVAKTDAAHQGLAL 164
Query: 241 QFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYK 300
QFK H + + Y +L G P + +G+I++P+ R P R +M S K + + AA+R++
Sbjct: 165 QFKKHQVGKTYQALVYGDPREKTGQIDLPVGRHPVERKKM-----STKSRRGKEAATRWR 219
Query: 301 VIEILAGGGSALVEWRLETGRTHQV 325
+ E G + L+ + TGRTHQ+
Sbjct: 220 IAERF--GVATLLNVDIVTGRTHQI 242
>gi|389573333|ref|ZP_10163408.1| pseudouridylate synthase [Bacillus sp. M 2-6]
gi|388427030|gb|EIL84840.1| pseudouridylate synthase [Bacillus sp. M 2-6]
Length = 304
Score = 179 bits (455), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 105/264 (39%), Positives = 150/264 (56%), Gaps = 32/264 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++S+ SR +VQ ++ GL+ +NG+ V K ++ V+ GD + I + + L E
Sbjct: 16 RLDKFLSTTEPEWSRTQVQQWVKDGLIEVNGKQV-KANYKVQAGDQIKVEIPDPEALDVE 74
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AE + LDI YED++VLVVNKP MVVHPAPG+ TGTLVNG++ HC+
Sbjct: 75 AESMDLDIYYEDEDVLVVNKPRGMVVHPAPGHVTGTLVNGLMAHCN-------------- 120
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q T+ R Y
Sbjct: 121 --DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRKY 170
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++ G+ +G I+ PI RD +R M + A+ A + + V+E
Sbjct: 171 TAVVHGIIQHDTGTIDAPIGRDKKDRQSMTVTKEN-----AKQAVTHFDVMERFK--DFT 223
Query: 312 LVEWRLETGRTHQVLMLYKLFYIP 335
+VE RLETGRTHQ+ + K P
Sbjct: 224 VVECRLETGRTHQIRVHMKYIGYP 247
>gi|194015066|ref|ZP_03053683.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus pumilus ATCC 7061]
gi|194014092|gb|EDW23657.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus pumilus ATCC 7061]
Length = 304
Score = 179 bits (455), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 107/264 (40%), Positives = 149/264 (56%), Gaps = 32/264 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++S+ SR +VQ ++ GL+ +NG+ V K ++ V+ GD + I E + L E
Sbjct: 16 RLDKFLSTTEPEWSRTQVQQWVKDGLIEVNGKQV-KANYKVQAGDQIKVEIPEPEVLDVE 74
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AE + LDI YED +VLVVNKP MVVHPAPG+ +GTLVNG++ HC+
Sbjct: 75 AEPMDLDIYYEDADVLVVNKPRGMVVHPAPGHVSGTLVNGLMAHCT-------------- 120
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q T+ R Y
Sbjct: 121 --DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRKY 170
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++ G+ +G I+ PI RD +R M S A+ A + + VIE
Sbjct: 171 TAVVHGIIQHDTGTIDAPIGRDKKDRQSMTVTKES-----AKQAVTHFDVIERFQ--DFT 223
Query: 312 LVEWRLETGRTHQVLMLYKLFYIP 335
+VE RLETGRTHQ+ + K P
Sbjct: 224 VVECRLETGRTHQIRVHMKYIGYP 247
>gi|315038468|ref|YP_004032036.1| pseudouridine synthase [Lactobacillus amylovorus GRL 1112]
gi|325956884|ref|YP_004292296.1| pseudouridine synthase [Lactobacillus acidophilus 30SC]
gi|385817725|ref|YP_005854115.1| pseudouridine synthase [Lactobacillus amylovorus GRL1118]
gi|312276601|gb|ADQ59241.1| pseudouridine synthase [Lactobacillus amylovorus GRL 1112]
gi|325333449|gb|ADZ07357.1| pseudouridine synthase [Lactobacillus acidophilus 30SC]
gi|327183663|gb|AEA32110.1| pseudouridine synthase [Lactobacillus amylovorus GRL1118]
Length = 302
Score = 179 bits (455), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 104/254 (40%), Positives = 149/254 (58%), Gaps = 33/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++S +I +SR RV+ I+ + +N Q KVS+ V+ GD + + ++PL
Sbjct: 15 RLDKFVSEQIPDLSRTRVKELIQDDNILVN-QKKEKVSYKVQAGDQIEVNVPAVKPLDVV 73
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
EDIPLDIVYEDD+V+VVNKP MVVHPAPG++ TLVN +L+H LA S E F
Sbjct: 74 PEDIPLDIVYEDDDVIVVNKPQGMVVHPAPGHSDHTLVNALLYHTK--DLAKS-PEGF-- 128
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
RPGIVHR+DK TSGLL++AK+ + L +Q T +R+Y
Sbjct: 129 -------------------RPGIVHRIDKDTSGLLMIAKNAKARESLEDQLAHKTNKRIY 169
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++ G S+ +G I+ PI R+P +R +MA + K A + +KV++ G +
Sbjct: 170 WAIVHGNFSEENGTIDAPIGRNPYDRKKMAVVERGKK------AITHFKVLKQFK--GYS 221
Query: 312 LVEWRLETGRTHQV 325
L+E +LETGRTHQ+
Sbjct: 222 LIECQLETGRTHQI 235
>gi|227878615|ref|ZP_03996537.1| pseudouridylate synthase [Lactobacillus crispatus JV-V01]
gi|256843219|ref|ZP_05548707.1| pseudouridine synthase [Lactobacillus crispatus 125-2-CHN]
gi|256850423|ref|ZP_05555851.1| pseudouridine synthase [Lactobacillus crispatus MV-1A-US]
gi|293380626|ref|ZP_06626679.1| pseudouridine synthase, RluA family [Lactobacillus crispatus 214-1]
gi|295692991|ref|YP_003601601.1| pseudouridine synthase [Lactobacillus crispatus ST1]
gi|312977447|ref|ZP_07789195.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
crispatus CTV-05]
gi|423318686|ref|ZP_17296563.1| RluA family pseudouridine synthase [Lactobacillus crispatus
FB049-03]
gi|227861792|gb|EEJ69389.1| pseudouridylate synthase [Lactobacillus crispatus JV-V01]
gi|256614639|gb|EEU19840.1| pseudouridine synthase [Lactobacillus crispatus 125-2-CHN]
gi|256712820|gb|EEU27813.1| pseudouridine synthase [Lactobacillus crispatus MV-1A-US]
gi|290922813|gb|EFD99762.1| pseudouridine synthase, RluA family [Lactobacillus crispatus 214-1]
gi|295031097|emb|CBL50576.1| Pseudouridine synthase [Lactobacillus crispatus ST1]
gi|310895878|gb|EFQ44944.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
crispatus CTV-05]
gi|405593417|gb|EKB66865.1| RluA family pseudouridine synthase [Lactobacillus crispatus
FB049-03]
Length = 303
Score = 179 bits (454), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 103/265 (38%), Positives = 153/265 (57%), Gaps = 33/265 (12%)
Query: 61 EETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNC 120
E +++ K K RLD ++S +I +SR RV+ ++ + +NG+V KVS+ ++ GD +
Sbjct: 4 EYSLEVKNEKGRLDKFVSEQIPDLSRTRVKELVKDQNILVNGKV-EKVSYKIQAGDKIEV 62
Query: 121 TISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPT 180
I ++PL E+IPLDIVYEDD+V+VVNKP MVVHPAPG+ TLVN +L+H
Sbjct: 63 NIPAVKPLDVIPENIPLDIVYEDDDVIVVNKPQGMVVHPAPGHPDHTLVNALLYHTK--A 120
Query: 181 LASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSE 240
LA S + RPGIVHR+DK TSGLL++AK + L +
Sbjct: 121 LAQSPE----------------------GFRPGIVHRIDKDTSGLLMIAKTAKARESLED 158
Query: 241 QFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYK 300
Q T +R+Y ++ G ++ +G I+ PI R+P +R +MA + K A + +K
Sbjct: 159 QLAHKTNKRLYWAIVHGNFAEENGVIDAPIGRNPYDRKKMAVVETGKK------AITHFK 212
Query: 301 VIEILAGGGSALVEWRLETGRTHQV 325
V+E +L+E +LETGRTHQ+
Sbjct: 213 VLEQFK--DYSLIECQLETGRTHQI 235
>gi|427718924|ref|YP_007066918.1| ribosomal large subunit pseudouridine synthase D [Calothrix sp. PCC
7507]
gi|427351360|gb|AFY34084.1| ribosomal large subunit pseudouridine synthase D [Calothrix sp. PCC
7507]
Length = 312
Score = 179 bits (454), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 102/255 (40%), Positives = 146/255 (57%), Gaps = 31/255 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +++ + +SR+R+Q I G V +N QV + NVK GD + I +QPL +
Sbjct: 15 RLDRYLAEELSDLSRSRIQQLIEQGNVHLNDQVCTSKKINVKVGDRIFVEIPAVQPLELQ 74
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC-SLPTLASSNQEAFS 190
AEDIPLDI+YEDD +L++NKPA +VVHPAPG+ GTLVN +L HC +LP +
Sbjct: 75 AEDIPLDILYEDDQLLILNKPAGLVVHPAPGHPGGTLVNALLAHCPNLPGI--------- 125
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
G RPGIVHRLDK T+G + +AK + ++ L Q + T R
Sbjct: 126 ----------------GGVQRPGIVHRLDKDTTGAIAIAKTDIAYQQLQAQLQAKTARRE 169
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y+ + G SG I++PI R+P +R +MA +P R A + +++ E L G
Sbjct: 170 YLGVVYGTTKTESGTIDLPIGRNPQDRKKMAIVPIEEG---GRSAVTHWQIQERL--GNY 224
Query: 311 ALVEWRLETGRTHQV 325
L+ ++LETGRTHQ+
Sbjct: 225 TLIHFQLETGRTHQI 239
>gi|323691964|ref|ZP_08106213.1| pseudouridine synthase [Clostridium symbiosum WAL-14673]
gi|355628019|ref|ZP_09049548.1| hypothetical protein HMPREF1020_03627 [Clostridium sp. 7_3_54FAA]
gi|323503973|gb|EGB19786.1| pseudouridine synthase [Clostridium symbiosum WAL-14673]
gi|354819987|gb|EHF04418.1| hypothetical protein HMPREF1020_03627 [Clostridium sp. 7_3_54FAA]
Length = 305
Score = 179 bits (454), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 103/265 (38%), Positives = 154/265 (58%), Gaps = 31/265 (11%)
Query: 61 EETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNC 120
E V K+ LR+D +++ +R+ +Q ++S LV +NG+ V K S+ GD V
Sbjct: 4 EYIVPEKSSGLRIDKFLTEICPDYTRSFLQKLLKSELVEVNGKPV-KSSYKTAAGDTVTF 62
Query: 121 TISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPT 180
+ E A+++PLDI+YED++V+++NKP MVVHPA G+ GTLVNG++HHC
Sbjct: 63 EVPEAVEAEITAQEMPLDILYEDEDVILINKPKGMVVHPAAGHYEGTLVNGLMHHC---- 118
Query: 181 LASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSE 240
E S I+G +RPGIVHR+D T+G+L+V K++ +H ++E
Sbjct: 119 ------------------REQLSGINGV-MRPGIVHRIDMDTTGVLIVCKNDLAHNSIAE 159
Query: 241 QFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYK 300
Q K+H+I R Y ++ G G I PI R PN+R +M+ ++K+G + A + YK
Sbjct: 160 QLKVHSITRKYYAVVFGSLKDDEGTIHAPIGRHPNDRKKMSI---NSKNG--KDAVTHYK 214
Query: 301 VIEILAGGGSALVEWRLETGRTHQV 325
V+E G LVE RLETGRTHQ+
Sbjct: 215 VLERFH--GYTLVECRLETGRTHQI 237
>gi|254780610|ref|YP_003065023.1| RNA-pseudouridylate synthase protein, ribosomal large subunit D
[Candidatus Liberibacter asiaticus str. psy62]
gi|254040287|gb|ACT57083.1| RNA-pseudouridylate synthase protein, ribosomal large subunit D
[Candidatus Liberibacter asiaticus str. psy62]
Length = 340
Score = 179 bits (454), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 110/285 (38%), Positives = 163/285 (57%), Gaps = 34/285 (11%)
Query: 49 REPIANYAGVQLEETVDTKAGKLRLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSK 107
++ + N + +++ D+ A + R+D W+++ + + SR+ V+ I +G +SING V
Sbjct: 2 QQTLDNCSSIKISLLSDSTA-EGRIDRWLATSLKEQFSRSYVKILILNGFISINGMVSKN 60
Query: 108 VSHNVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGT 167
+ V GD T+ Q L E+IPLDI+YEDD+++V+NKPA +VVHPAPGN TGT
Sbjct: 61 PNRKVVPGDSFLITVPAAQKLNIAQENIPLDILYEDDDIIVINKPAGLVVHPAPGNWTGT 120
Query: 168 LVNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLV 227
LVN +L+HC SSI+G RPGIVHRLDK T+G++V
Sbjct: 121 LVNALLYHC----------------------HNNLSSINGVK-RPGIVHRLDKDTTGVMV 157
Query: 228 VAKDEHSHAHLSEQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAI 283
VAK++ +H LSEQF H ++R Y ++ G+P SG I P+ R +NR+R A
Sbjct: 158 VAKNDLAHQKLSEQFVDHGKSTRLKRAYYAMVWGIPLPDSGIINAPLGRCKSNRLRRAVK 217
Query: 284 PGSNKHGQARHAASRYKVIEILAGGGS---ALVEWRLETGRTHQV 325
+K A A + Y+ IEI + +L++ LETGRTHQ+
Sbjct: 218 GIDDK--TADSAITHYQTIEIYNKNSNFAVSLLKCHLETGRTHQI 260
>gi|120437019|ref|YP_862705.1| ribosomal large subunit pseudouridine synthase D [Gramella forsetii
KT0803]
gi|117579169|emb|CAL67638.1| ribosomal large subunit pseudouridine synthase D [Gramella forsetii
KT0803]
Length = 354
Score = 179 bits (454), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 109/258 (42%), Positives = 152/258 (58%), Gaps = 34/258 (13%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
LR+D ++ + I+ +R ++Q + +SG + +NG V K ++ VKGGD V E P
Sbjct: 35 LRVDKYLMNFIENATRNKIQKAAKSGNIYVNGDTV-KQNYKVKGGDTVQVMF-EHPPYEY 92
Query: 131 --EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEA 188
EDIPLDIVYEDD +LVVNK A MVVHP GN +GTL+N ++HH
Sbjct: 93 LLVPEDIPLDIVYEDDTLLVVNKQAGMVVHPGHGNYSGTLINALVHH------------- 139
Query: 189 FSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIE 248
F + + +S RPG+VHR+DK TSGLLVVAK E + AHLS+QF + E
Sbjct: 140 ------------FDNLPNNSSDRPGLVHRIDKDTSGLLVVAKTEEAMAHLSKQFFDKSSE 187
Query: 249 RVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSN-KHGQARHAASRYKVIEILAG 307
R Y+++ G ++ G IE I R+P NR++ G + ++G+A A + YKV+E L
Sbjct: 188 REYVAIVWGNLAEEEGTIEGNIGRNPRNRLQNIVFEGDDVENGKA--AVTHYKVLERL-- 243
Query: 308 GGSALVEWRLETGRTHQV 325
G LV +LETGRTHQ+
Sbjct: 244 GYVTLVACKLETGRTHQI 261
>gi|381199618|ref|ZP_09906765.1| ribosomal large subunit pseudouridine synthase D [Sphingobium
yanoikuyae XLDN2-5]
Length = 298
Score = 179 bits (454), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 106/255 (41%), Positives = 153/255 (60%), Gaps = 30/255 (11%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
+RLD ++ + +SR R+++ I G + G+ ++ S V G + T+ L A
Sbjct: 1 MRLDRALAELLPDLSRERIKALIVEGQIVSGGRSLNP-SMKVAVGQDYSITLPAPVALDA 59
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
A+DIPLDIV+ED +++VV+KPA +VVHPA GN GTLVN +LHHC
Sbjct: 60 VAQDIPLDIVHEDADLIVVDKPAGLVVHPAAGNLDGTLVNALLHHC-------------- 105
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
D + S G RPGIVHR+DK TSGLLVVAK + +H L+ QFK H+I+R+
Sbjct: 106 -------DGQLSGI--GGVARPGIVHRIDKDTSGLLVVAKSDKAHEGLARQFKDHSIDRL 156
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y ++ G+P+ SG ++ I R +R +MA ++ G+ +HA + Y+V+E L G+
Sbjct: 157 YAAIVYGIPTPGSGTVDAWIGRSDADRKKMAV----HREGRGKHAVTHYRVMERLR--GA 210
Query: 311 ALVEWRLETGRTHQV 325
A+VE RLETGRTHQV
Sbjct: 211 AMVECRLETGRTHQV 225
>gi|313901079|ref|ZP_07834567.1| pseudouridine synthase, RluA family [Clostridium sp. HGF2]
gi|373121536|ref|ZP_09535404.1| RluA family pseudouridine synthase [Erysipelotrichaceae bacterium
21_3]
gi|312954037|gb|EFR35717.1| pseudouridine synthase, RluA family [Clostridium sp. HGF2]
gi|371665554|gb|EHO30719.1| RluA family pseudouridine synthase [Erysipelotrichaceae bacterium
21_3]
Length = 304
Score = 179 bits (454), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 101/254 (39%), Positives = 153/254 (60%), Gaps = 33/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D +IS + D +SR+RVQ+ + G + +N V K ++ VK D + ++ + A
Sbjct: 16 RIDKYISEQED-LSRSRVQALLAEGSILVNQNAV-KANYKVKADDCITAVFNDEMEMEAR 73
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E + LD+ YED++V+V+NKP ++VVHPA GN +GTLVNG+L+HC
Sbjct: 74 PEKMELDVRYEDEDVIVINKPKNIVVHPAAGNQSGTLVNGLLYHC--------------- 118
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+D+S I+G ++RPGIVHR+DK T+GLL++AK++ +HA LS+Q + T+ R+Y
Sbjct: 119 -KDLS-------GING-TLRPGIVHRIDKDTTGLLIIAKNDLAHASLSKQLQSKTVNRLY 169
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+L GV G I+ PI RD +R +MA ++K A + ++VIE
Sbjct: 170 YALVHGVIQHDFGTIDAPIGRDVKDRQKMAVTATNSK-----DARTHFQVIERFE--NYT 222
Query: 312 LVEWRLETGRTHQV 325
LVE RLETGRTHQ+
Sbjct: 223 LVECRLETGRTHQI 236
>gi|433463302|ref|ZP_20420861.1| pseudouridine synthase [Halobacillus sp. BAB-2008]
gi|432187812|gb|ELK45069.1| pseudouridine synthase [Halobacillus sp. BAB-2008]
Length = 303
Score = 179 bits (454), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 101/254 (39%), Positives = 152/254 (59%), Gaps = 33/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D ++ I+ SR+++Q ++ G+V ++ Q V K ++ V+ G+++ I E +P+
Sbjct: 15 RIDKLLAELIEDASRSQIQGWLKDGVVKVDDQPV-KSNYKVQEGNVITWYIPEPEPMDIL 73
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
EDIPLD+VYED++V+VVNKP+ MV+HP+ G+ +GTLVN +LHHC
Sbjct: 74 PEDIPLDVVYEDEDVIVVNKPSGMVIHPSAGHYSGTLVNALLHHC--------------- 118
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
DD S I+G RPGIVHR+DK TSGLL+VAK++ +H L+ Q T+ER Y
Sbjct: 119 -----DD---LSGINGVE-RPGIVHRIDKDTSGLLMVAKNDVAHQSLARQLSEKTVERKY 169
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+++ G + G I+ PI RD +R RMA + R A + ++V++
Sbjct: 170 VAIVHGDITHEYGTIDAPIGRDTRDRQRMAVV------DNGRDAVTHFRVLQHFE--DYT 221
Query: 312 LVEWRLETGRTHQV 325
LVE RLETGRTHQ+
Sbjct: 222 LVECRLETGRTHQI 235
>gi|134299530|ref|YP_001113026.1| RluA family pseudouridine synthase [Desulfotomaculum reducens MI-1]
gi|134052230|gb|ABO50201.1| ribosomal large subunit pseudouridine synthase D [Desulfotomaculum
reducens MI-1]
Length = 306
Score = 179 bits (454), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 104/262 (39%), Positives = 153/262 (58%), Gaps = 32/262 (12%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
VD + K RLD +++++ ISR+ +Q I GLV+++G+ ++ +H ++ + ++ I
Sbjct: 8 VDGENAKCRLDVFLANQCQDISRSYIQKLIEDGLVTVDGKP-ARANHKLRVEETIHMQIP 66
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
+ L+ E E+IPLDI YED +V+VVNKP MVVHPA GN GTLVN +L+HC
Sbjct: 67 PAEELKVEPENIPLDIYYEDSHVIVVNKPRGMVVHPAEGNIAGTLVNALLYHC------- 119
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
D+ S I+G +RPGIVHRLDK TSGL++ AK + +H L+ Q K
Sbjct: 120 ---------HDL-------SGINGI-MRPGIVHRLDKDTSGLIMAAKHDQAHQSLARQLK 162
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
T+ R Y +L G I PI RDP +R +MA + ++K +A + ++V+E
Sbjct: 163 DRTVTRRYQALVHHNIKGDFGTINAPIGRDPRDRQKMAVVERNSK-----NAVTHFQVLE 217
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
G L+E RLETGRTHQ+
Sbjct: 218 RF--GDYTLIECRLETGRTHQI 237
>gi|403069260|ref|ZP_10910592.1| hypothetical protein ONdio_06665 [Oceanobacillus sp. Ndiop]
Length = 302
Score = 179 bits (454), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 109/278 (39%), Positives = 156/278 (56%), Gaps = 33/278 (11%)
Query: 58 VQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDM 117
+ + V + K+RLD +S SR+++Q+ I V +NG+ +K ++ + GD
Sbjct: 1 MNFQHEVTEEQNKMRLDKVLSEINPDRSRSQIQNWISKDHVLVNGEP-AKANYKCQAGDE 59
Query: 118 VNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCS 177
+ +I E+ L +AEDIPL IVYED ++LVVNKP MVVHP+ G+ +GTLVN +L+HC
Sbjct: 60 LKWSIPEVVELNIQAEDIPLSIVYEDSDLLVVNKPKGMVVHPSAGHQSGTLVNALLYHC- 118
Query: 178 LPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAH 237
+D+S I+G RPGIVHR+DK TSGLLVVAK++H+H H
Sbjct: 119 ---------------QDLS-------GINGVE-RPGIVHRIDKDTSGLLVVAKNDHTHTH 155
Query: 238 LSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAAS 297
LSEQ I+R Y ++ G S SG I+ PI RDP +R +M + + A +
Sbjct: 156 LSEQLSNKDIKRKYEAIVHGEISHESGLIDAPIGRDPKDRQKMGVV------DNGKPAVT 209
Query: 298 RYKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ VIE VE +LETGRTHQ+ + + P
Sbjct: 210 HFNVIEHFP--DFTHVECQLETGRTHQIRVHMRYIGFP 245
>gi|420245965|ref|ZP_14749488.1| pseudouridine synthase, RluA family [Rhizobium sp. CF080]
gi|398044520|gb|EJL37336.1| pseudouridine synthase, RluA family [Rhizobium sp. CF080]
Length = 340
Score = 179 bits (454), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 104/264 (39%), Positives = 149/264 (56%), Gaps = 36/264 (13%)
Query: 72 RLDAWISSRIDG-ISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
RLDAW++S +DG SR R+++ I G V +NG+V+++ + GD V + E +
Sbjct: 24 RLDAWLTSVLDGEFSRNRIKALIEQGAVRLNGKVITEPKKKITAGDAVEIDLPEPEDPEP 83
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
+ EDIPL+++YEDD+++V+ KPA +VVHP GN TGTLVN +++HC
Sbjct: 84 KGEDIPLEVLYEDDDLIVIAKPAGLVVHPGAGNWTGTLVNALIYHCGA------------ 131
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLH----T 246
S S G RPGIVHRLDK TSG++V AK++ +H HL++QF H
Sbjct: 132 -----------SLSGIGGVKRPGIVHRLDKDTSGVMVAAKNDIAHRHLADQFADHGRSGP 180
Query: 247 IERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEIL- 305
+ER Y ++ G P G I+ P+ R + R S+ AR A + Y+VIE
Sbjct: 181 LERAYQAVVWGRPRGLKGTIDAPLGRAGDRTKRAVQKEDSS---DAREAITHYQVIERFH 237
Query: 306 ----AGGGSALVEWRLETGRTHQV 325
A +AL+E RLETGRTHQ+
Sbjct: 238 EKPDATALAALIECRLETGRTHQI 261
>gi|422327552|ref|ZP_16408579.1| RluA family pseudouridine synthase [Erysipelotrichaceae bacterium
6_1_45]
gi|371663392|gb|EHO28582.1| RluA family pseudouridine synthase [Erysipelotrichaceae bacterium
6_1_45]
Length = 304
Score = 179 bits (454), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 101/254 (39%), Positives = 153/254 (60%), Gaps = 33/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D +IS + D +SR+RVQ+ + G + +N V K ++ VK D + ++ + A
Sbjct: 16 RIDKYISEQED-LSRSRVQALLAEGSILVNQNAV-KANYKVKADDCITAVFNDEMEMEAR 73
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E + LD+ YED++V+V+NKP ++VVHPA GN +GTLVNG+L+HC
Sbjct: 74 PEKMELDVRYEDEDVIVINKPKNIVVHPAAGNQSGTLVNGLLYHC--------------- 118
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+D+S I+G ++RPGIVHR+DK T+GLL++AK++ +HA LS+Q + T+ R+Y
Sbjct: 119 -KDLS-------GING-TLRPGIVHRIDKDTTGLLIIAKNDLAHASLSKQLQSKTVNRLY 169
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+L GV G I+ PI RD +R +MA ++K A + ++VIE
Sbjct: 170 YALVHGVIQHDFGTIDAPIGRDVKDRQKMAVTATNSK-----DARTHFQVIERFE--NYT 222
Query: 312 LVEWRLETGRTHQV 325
LVE RLETGRTHQ+
Sbjct: 223 LVECRLETGRTHQI 236
>gi|440227628|ref|YP_007334719.1| ribosomal large subunit pseudouridine synthase D [Rhizobium tropici
CIAT 899]
gi|440039139|gb|AGB72173.1| ribosomal large subunit pseudouridine synthase D [Rhizobium tropici
CIAT 899]
Length = 341
Score = 179 bits (454), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 106/265 (40%), Positives = 152/265 (57%), Gaps = 37/265 (13%)
Query: 72 RLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
RLD+W+++ I + SR+RVQ I+ G V++ G V+ V+ GD+ T+ E +
Sbjct: 24 RLDSWLTAEIGEEFSRSRVQGLIKEGAVTLEGAAVTDAKRKVRPGDVYEITLPEPEDPTP 83
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
+ EDIPLD++YEDD+V+V++KPA +VVHP GN +GTLVN ++HHC
Sbjct: 84 QGEDIPLDVLYEDDDVIVISKPAGLVVHPGAGNWSGTLVNALIHHCG------------- 130
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLH----T 246
S S G RPGIVHRLDK T+G++VVAK++ +H HLS QF H +
Sbjct: 131 ----------NSLSGIGGVRRPGIVHRLDKDTTGVMVVAKNDVAHRHLSLQFADHGRTTS 180
Query: 247 IERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAI-PGSNKHGQARHAASRYKVIEIL 305
+ER Y ++ G P Q G I+ P+ R ++R R A P S A A + Y+V+E
Sbjct: 181 LERAYQAIVWGRPRQLVGTIDAPLGRSSSDRTRRAVKRPDSQ---DADEAITHYEVLERF 237
Query: 306 -----AGGGSALVEWRLETGRTHQV 325
A ++L+E LETGRTHQ+
Sbjct: 238 HETPDATALASLIECHLETGRTHQI 262
>gi|241206033|ref|YP_002977129.1| RluA family pseudouridine synthase [Rhizobium leguminosarum bv.
trifolii WSM1325]
gi|240859923|gb|ACS57590.1| pseudouridine synthase, RluA family [Rhizobium leguminosarum bv.
trifolii WSM1325]
Length = 341
Score = 179 bits (454), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 114/287 (39%), Positives = 164/287 (57%), Gaps = 38/287 (13%)
Query: 50 EPIANYAGVQLEETVDTKAGKLRLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKV 108
+P AG + T D A + RLDAW+++++ + SR+R+++ I+ G V + G+ V+
Sbjct: 3 DPFKQAAGNRKVLTADESA-EGRLDAWLTAQVGEEFSRSRIKALIKDGQVFLRGEPVTDP 61
Query: 109 SHNVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTL 168
V+ GD T+ E + + EDIPLDI++EDD+V+V++KP+ +VVHP GN TGTL
Sbjct: 62 QRKVRTGDSFELTLPEPEDPTPQGEDIPLDILHEDDDVIVISKPSGLVVHPGAGNWTGTL 121
Query: 169 VNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVV 228
VN ++HHCS TL S I G RPGIVHRLDK T+G++VV
Sbjct: 122 VNALIHHCS-NTL---------------------SGIGGVR-RPGIVHRLDKDTTGVMVV 158
Query: 229 AKDEHSHAHLSEQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAI- 283
AK++ +H HLS QF H +ER Y ++ G P SG ++ P+ R +R R A
Sbjct: 159 AKNDIAHRHLSLQFADHGRTMPLERAYQAVVWGRPRSLSGMVDAPLGRATGDRTRRAVKR 218
Query: 284 PGSNKHGQARHAASRYKVIEIL-----AGGGSALVEWRLETGRTHQV 325
P S A A + Y+V+E A ++LVE RLETGRTHQ+
Sbjct: 219 PDSQ---DADEAITHYQVVERFHEKPDATAFASLVECRLETGRTHQI 262
>gi|402836105|ref|ZP_10884655.1| pseudouridine synthase, RluA family [Mogibacterium sp. CM50]
gi|402272117|gb|EJU21340.1| pseudouridine synthase, RluA family [Mogibacterium sp. CM50]
Length = 351
Score = 179 bits (453), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 111/258 (43%), Positives = 154/258 (59%), Gaps = 33/258 (12%)
Query: 68 AGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQP 127
AGK RLD++I D +SR+ Q+ I G VS++G+ V+K + VK G+ + I E +
Sbjct: 61 AGK-RLDSYIGEATD-LSRSYAQNLIEDGQVSVSGRQVAK-KYKVKAGESITINIPEAKS 117
Query: 128 LRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQE 187
+ A E+IP+DIVYEDD+V+VV KP MVVHPA GN GTLVN I++HC
Sbjct: 118 IDAAPENIPIDIVYEDDDVIVVEKPRGMVVHPAAGNPDGTLVNAIMYHCG---------- 167
Query: 188 AFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTI 247
+ SSI+GA IRPGIVHR+DK TSGLL++AK++ +H L+ Q K+H++
Sbjct: 168 ------------DSLSSINGA-IRPGIVHRIDKDTSGLLMIAKNDKAHESLTAQLKVHSV 214
Query: 248 ERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAG 307
R YI+L + I+ PI RD NR+R A N G +R A + +V++
Sbjct: 215 TREYIALVFDNIRKDKLTIDAPIGRDDINRLRRAV----NGAG-SRDAVTHIRVLKRY-- 267
Query: 308 GGSALVEWRLETGRTHQV 325
G L+ RLETGRTHQ+
Sbjct: 268 GRYTLIAARLETGRTHQI 285
>gi|262046428|ref|ZP_06019390.1| pseudouridine synthase [Lactobacillus crispatus MV-3A-US]
gi|260573299|gb|EEX29857.1| pseudouridine synthase [Lactobacillus crispatus MV-3A-US]
Length = 303
Score = 179 bits (453), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 103/265 (38%), Positives = 153/265 (57%), Gaps = 33/265 (12%)
Query: 61 EETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNC 120
E +++ K K RLD ++S +I +SR RV+ ++ + +NG+V KVS+ ++ GD +
Sbjct: 4 EYSLEVKNEKGRLDKFVSEQIPDLSRTRVKELVKDQNILVNGKV-EKVSYKIQAGDKIEV 62
Query: 121 TISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPT 180
I ++PL E+IPLDIVYEDD+V+VVNKP MVVHPAPG+ TLVN +L+H
Sbjct: 63 NIPAVKPLDVIPENIPLDIVYEDDDVIVVNKPQGMVVHPAPGHPDHTLVNALLYHSK--A 120
Query: 181 LASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSE 240
LA S + RPGIVHR+DK TSGLL++AK + L +
Sbjct: 121 LAQSPE----------------------GFRPGIVHRIDKDTSGLLMIAKTAKARESLED 158
Query: 241 QFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYK 300
Q T +R+Y ++ G ++ +G I+ PI R+P +R +MA + K A + +K
Sbjct: 159 QLAHKTNKRLYWAIVHGNFAEENGVIDAPIGRNPYDRKKMAVVETGKK------AITHFK 212
Query: 301 VIEILAGGGSALVEWRLETGRTHQV 325
V+E +L+E +LETGRTHQ+
Sbjct: 213 VLEQFK--DYSLIECQLETGRTHQI 235
>gi|157692226|ref|YP_001486688.1| pseudouridylate synthase [Bacillus pumilus SAFR-032]
gi|157680984|gb|ABV62128.1| pseudouridylate synthase [Bacillus pumilus SAFR-032]
Length = 304
Score = 179 bits (453), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 107/264 (40%), Positives = 149/264 (56%), Gaps = 32/264 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++S+ SR +VQ ++ GL+ +NG+ V K ++ V+ GD + I E + L E
Sbjct: 16 RLDKFLSTSEPEWSRTQVQQWVKDGLIEVNGKQV-KANYKVQAGDQIKVEIPEPEALDVE 74
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AE + LDI YED +VLVVNKP MVVHPAPG+ +GTLVNG++ HC+
Sbjct: 75 AEAMDLDIYYEDADVLVVNKPRGMVVHPAPGHVSGTLVNGLMAHCT-------------- 120
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q T+ R Y
Sbjct: 121 --DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRKY 170
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++ G+ +G I+ PI RD +R M S+K A + + VIE
Sbjct: 171 TAVVHGIIQHDTGTIDAPIGRDKKDRQSMTVTKESSK-----QAVTHFDVIERF--DDFT 223
Query: 312 LVEWRLETGRTHQVLMLYKLFYIP 335
+VE RLETGRTHQ+ + K P
Sbjct: 224 VVECRLETGRTHQIRVHMKYIGYP 247
>gi|299535889|ref|ZP_07049209.1| putative RNA pseudouridine synthase ylyB [Lysinibacillus fusiformis
ZC1]
gi|424738829|ref|ZP_18167258.1| putative RNA pseudouridine synthase ylyB [Lysinibacillus fusiformis
ZB2]
gi|298728641|gb|EFI69196.1| putative RNA pseudouridine synthase ylyB [Lysinibacillus fusiformis
ZC1]
gi|422947313|gb|EKU41710.1| putative RNA pseudouridine synthase ylyB [Lysinibacillus fusiformis
ZB2]
Length = 303
Score = 179 bits (453), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 106/267 (39%), Positives = 153/267 (57%), Gaps = 33/267 (12%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q+ T++ + R+D +SS SR ++ + I G++ +NG V K + VK GD++
Sbjct: 3 QVTYTIEEQQQGERIDKALSSLQSEWSRTQIGNWISDGVIKVNGDAV-KAKYKVKAGDII 61
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
+ E++ L E++ LDIVYED +VLVVNKP MVVHPAPG+ GTLVNG+++HC
Sbjct: 62 AIDVPEVEELDVVPENLDLDIVYEDADVLVVNKPKGMVVHPAPGHMGGTLVNGLMYHC-- 119
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 120 --------------KDL-------SGINGV-LRPGIVHRIDKDTSGLLMVAKNDTAHESL 157
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
Q T+ R YI+L G + G I+ PI RD +R + A + +HA +
Sbjct: 158 VNQLVNKTVTRKYIALVHGHIAHDKGTIDAPIGRDQKDRQKQAVV------DNGKHAVTH 211
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQV 325
++V+E G LVE RLETGRTHQ+
Sbjct: 212 FQVVERF--GDYTLVECRLETGRTHQI 236
>gi|390453155|ref|ZP_10238683.1| RNA pseudouridine synthase ylyb [Paenibacillus peoriae KCTC 3763]
Length = 323
Score = 179 bits (453), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 101/266 (37%), Positives = 160/266 (60%), Gaps = 32/266 (12%)
Query: 70 KLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLR 129
K R+D +I+ +++ +SR+++Q I +GLV +NG + K ++ + GD + ++ E + +
Sbjct: 34 KTRIDKYIAEKMEDVSRSQIQLWIGNGLVLVNGSAI-KANYKLAEGDRIELSVPEPESVD 92
Query: 130 AEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAF 189
E+IPLD+VYED +V+V+NK +VVHPAPG+ +GTLVN +++HC
Sbjct: 93 IVPENIPLDVVYEDSDVIVINKQRGLVVHPAPGHTSGTLVNALMYHC------------- 139
Query: 190 SDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIER 249
D+S I+G +RPGIVHR+DK TSGL++ AK++ +HA L+ Q K H++ R
Sbjct: 140 ---HDLS-------GING-ELRPGIVHRIDKDTSGLIMAAKNDQAHASLAAQLKEHSVTR 188
Query: 250 VYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGG 309
YI+L G S G ++ PI RD +R ++ + N ++HA + + VIE L G
Sbjct: 189 KYIALVHGHLSHDQGTVDAPIGRDSGDR-KLFTVTERN----SKHAVTHFLVIERL--GD 241
Query: 310 SALVEWRLETGRTHQVLMLYKLFYIP 335
L+E +LETGRTHQ+ + K P
Sbjct: 242 YTLLELQLETGRTHQIRVHMKFIGHP 267
>gi|428776662|ref|YP_007168449.1| ribosomal large subunit pseudouridine synthase D [Halothece sp. PCC
7418]
gi|428690941|gb|AFZ44235.1| ribosomal large subunit pseudouridine synthase D [Halothece sp. PCC
7418]
Length = 309
Score = 179 bits (453), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 103/264 (39%), Positives = 151/264 (57%), Gaps = 29/264 (10%)
Query: 62 ETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCT 121
+ V GK RLD ++ SR+R+Q I G V +N + + ++ GD + +
Sbjct: 5 QKVAIAQGKQRLDRALAQAFPDFSRSRLQKLIEQGNVQVNEDICTNKKQGIEAGDRLILS 64
Query: 122 ISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTL 181
+ LQPL E E IPLDI+YED+++++VNKPA +VVHPAPG+ +GTLVN +L HC
Sbjct: 65 VPPLQPLSVEPEAIPLDILYEDEHLIIVNKPAGLVVHPAPGHESGTLVNALLAHC----- 119
Query: 182 ASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQ 241
+ + I G RPGIVHRLDK T+G +VVAK++ +H HL +Q
Sbjct: 120 ------------------DHLAGIGGVE-RPGIVHRLDKDTTGAIVVAKNDFAHQHLQKQ 160
Query: 242 FKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKV 301
++ T +R Y+ L GVP G I+ PI R +R +MA + K G R A + +++
Sbjct: 161 IQVKTAKREYLGLIYGVPKGVEGIIDRPIGRHRVDRKKMAVV-AVEKGG--RTAITHWQL 217
Query: 302 IEILAGGGSALVEWRLETGRTHQV 325
E L G +L+ ++LETGRTHQ+
Sbjct: 218 EERL--GNYSLLAFQLETGRTHQI 239
>gi|15615105|ref|NP_243408.1| hypothetical protein BH2542 [Bacillus halodurans C-125]
gi|10175162|dbj|BAB06261.1| BH2542 [Bacillus halodurans C-125]
Length = 305
Score = 179 bits (453), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 106/277 (38%), Positives = 158/277 (57%), Gaps = 32/277 (11%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
QL T+ + R+D +++++ + SR +VQ I+ G V ING+ + K ++ V+ GD +
Sbjct: 4 QLTWTISEQQQGERIDKFLTAQGEEWSRTQVQQWIKDGHVLINGRTI-KSNYKVETGDTL 62
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
+ E + L E+IP++I+YED++V VVNKP MVVHPAPG+ TGTLVN +++HC+
Sbjct: 63 ELFVPEPEVLEVVPENIPIEIIYEDEDVAVVNKPRGMVVHPAPGHTTGTLVNALMYHCN- 121
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
D+ SSI+G +RPGIVHR+DK TSGLL++AK++ +H L
Sbjct: 122 ---------------DL-------SSINGV-VRPGIVHRIDKDTSGLLMIAKNDRAHESL 158
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
Q K T ERVY ++ G G I+ PI RD +R M + +R A +
Sbjct: 159 VNQLKAKTTERVYQAIVHGNIPHDHGTIDAPIGRDKVDRQSMTVTEEN-----SRDAVTH 213
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ V+E G VE +LETGRTHQ+ + +K P
Sbjct: 214 FTVLERF--GDFTFVECQLETGRTHQIRVHFKYIGFP 248
>gi|336419601|ref|ZP_08599859.1| ribosomal large subunit pseudouridine synthase, RluA family
[Fusobacterium sp. 11_3_2]
gi|336163475|gb|EGN66399.1| ribosomal large subunit pseudouridine synthase, RluA family
[Fusobacterium sp. 11_3_2]
Length = 314
Score = 179 bits (453), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 105/269 (39%), Positives = 159/269 (59%), Gaps = 33/269 (12%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
+ E V+++ +RLD ++S +I+ +R+ ++ I + V IN ++++K +K G+ +
Sbjct: 7 KFEFEVNSEYEGMRLDKYLSEQIEEATRSYLEKLIDNNYVKINSKIINKNGRKLKLGEKI 66
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
+I E + + E E+IPLDIVYE+++ +V+NK MVVHPA GN TGTLVN +L++ +
Sbjct: 67 EVSIPEEENIDIEPENIPLDIVYENNDFIVINKNYGMVVHPAYGNYTGTLVNALLYYTNN 126
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
SSI+G +IRPGIVHRLDK TSGL++VAK ++HA L
Sbjct: 127 L-----------------------SSING-NIRPGIVHRLDKDTSGLILVAKSNYAHAKL 162
Query: 239 SEQFKLHTIERVYISLTSGVPSQS--SGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAA 296
+ F TI + Y+ + G S+ SGRIE I RD +R +MA + + + A
Sbjct: 163 ASMFIDKTIHKTYLCIVKGNFSEENLSGRIENLIGRDSKDRKKMAVVKEN-----GKIAI 217
Query: 297 SRYKVIEILAGGGSALVEWRLETGRTHQV 325
S YKVIE + G +LVE +ETGRTHQ+
Sbjct: 218 SNYKVIEQV--DGYSLVEVAIETGRTHQI 244
>gi|289766191|ref|ZP_06525569.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium sp.
D11]
gi|289717746|gb|EFD81758.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium sp.
D11]
Length = 328
Score = 179 bits (453), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 104/269 (38%), Positives = 158/269 (58%), Gaps = 33/269 (12%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
+ E V++K +RLD ++S +I+ +R+ ++ I + V IN ++++K +K G+ +
Sbjct: 7 KFEFEVNSKYEGMRLDKYLSEQIEEATRSYLEKLIDNNYVKINSKIINKNGRKLKLGEKI 66
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
I E + + E E+IPLDIVYE+++ +V+NK MVVHPA GN TGTLVN +L++ +
Sbjct: 67 EVLIPEEENIDIEPENIPLDIVYENNDFIVINKNYGMVVHPAYGNYTGTLVNALLYYTNN 126
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
SSI+G +IRPGI+HRLDK TSGL++VAK ++HA L
Sbjct: 127 L-----------------------SSING-NIRPGIIHRLDKDTSGLILVAKSNYAHAKL 162
Query: 239 SEQFKLHTIERVYISLTSGVPSQS--SGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAA 296
+ F TI + Y+ + G S+ SGRIE I RD +R +MA + + + A
Sbjct: 163 ASMFIDKTIHKTYLCIVKGNFSEENLSGRIENLIGRDSKDRKKMAVVKEN-----GKIAI 217
Query: 297 SRYKVIEILAGGGSALVEWRLETGRTHQV 325
S YKV+E + G +LVE +ETGRTHQ+
Sbjct: 218 SNYKVVEQVE--GYSLVEVAIETGRTHQI 244
>gi|357974156|ref|ZP_09138127.1| ribosomal large subunit pseudouridine synthase D [Sphingomonas sp.
KC8]
Length = 318
Score = 179 bits (453), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 103/267 (38%), Positives = 154/267 (57%), Gaps = 30/267 (11%)
Query: 60 LEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLV-SINGQVVSKVSHNVKGGDMV 118
L V +AG RLD +++ + SR R+++ I G V +G + S V G
Sbjct: 8 LRAIVPAEAGGWRLDKALAAALPEFSRERLKALISDGRVHRADGAPANDPSAKVASGSAF 67
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
+ ++ PL EA+DIPL I YED++++V++KPA +VVHPA GN GTLVN +LHHC
Sbjct: 68 DVSVPPPAPLENEAQDIPLVIAYEDEHLIVIDKPAGLVVHPAAGNLDGTLVNALLHHC-- 125
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+ S S G RPGIVHR+DK TSGL+V AK + +H L
Sbjct: 126 ---------------------QGSLSGIGGVARPGIVHRIDKDTSGLMVAAKTDLAHEGL 164
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
+ QF H+I+R Y ++ +G+P+ ++G I+ P++R NR ++A + G+ + A +
Sbjct: 165 ARQFAAHSIDRRYRAIVAGLPNPTTGTIDAPLARSTTNRKKIAIV----SDGRGKRAVTH 220
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQV 325
Y++I L G+++VE RLETGRTHQV
Sbjct: 221 YRLIAALK--GASVVECRLETGRTHQV 245
>gi|256263395|ref|ZP_05465927.1| ribosomal large subunit pseudouridine synthase [Brucella melitensis
bv. 2 str. 63/9]
gi|260565840|ref|ZP_05836323.1| ribosomal large subunit pseudouridine synthase [Brucella melitensis
bv. 1 str. 16M]
gi|265991692|ref|ZP_06104249.1| pseudouridine synthase [Brucella melitensis bv. 1 str. Rev.1]
gi|265995529|ref|ZP_06108086.1| pseudouridine synthase [Brucella melitensis bv. 3 str. Ether]
gi|384212006|ref|YP_005601089.1| RluA family pseudouridine synthase [Brucella melitensis M5-90]
gi|384409116|ref|YP_005597737.1| pseudouridine synthase [Brucella melitensis M28]
gi|260151213|gb|EEW86308.1| ribosomal large subunit pseudouridine synthase [Brucella melitensis
bv. 1 str. 16M]
gi|262766813|gb|EEZ12431.1| pseudouridine synthase [Brucella melitensis bv. 3 str. Ether]
gi|263002648|gb|EEZ15051.1| pseudouridine synthase [Brucella melitensis bv. 1 str. Rev.1]
gi|263093392|gb|EEZ17461.1| ribosomal large subunit pseudouridine synthase [Brucella melitensis
bv. 2 str. 63/9]
gi|326409663|gb|ADZ66728.1| pseudouridine synthase [Brucella melitensis M28]
gi|326539370|gb|ADZ87585.1| pseudouridine synthase, RluA family protein [Brucella melitensis
M5-90]
Length = 334
Score = 179 bits (453), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 105/275 (38%), Positives = 154/275 (56%), Gaps = 35/275 (12%)
Query: 61 EETVDTKAGKLRLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
E D+ A RLD W+++ + +SR+RVQS I G V+I+G + ++ G +
Sbjct: 3 ELIADSDAAGKRLDQWLAAALGPELSRSRVQSLIADGHVTIDGAPARETKQKLREGMNIA 62
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
+ E +P + E+IPLDI+YEDD+++V+NKPA +VVHP GN TGTLVN +++ C
Sbjct: 63 IVLPEPEPAEPQGENIPLDILYEDDDLIVINKPAGLVVHPGNGNWTGTLVNALIYQCG-- 120
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
+ S I G RPGIVHRLDK TSG++VVAK++ +H HLS
Sbjct: 121 --------------------DSLSGIGGIR-RPGIVHRLDKDTSGVMVVAKNDRAHRHLS 159
Query: 240 EQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHA 295
EQF H +ER Y++L G+ + G ++ + R +R + A + + ARHA
Sbjct: 160 EQFADHGRTGDLERAYLALVWGMTERPQGTVDAYLGRSHRDRTKQAVV--HEEREDARHA 217
Query: 296 ASRYKVIEIL-----AGGGSALVEWRLETGRTHQV 325
+ Y +E A ++LVE RLETGRTHQ+
Sbjct: 218 ITHYATVEKFSPREDATALASLVECRLETGRTHQI 252
>gi|222086840|ref|YP_002545374.1| pseudouridylate synthase [Agrobacterium radiobacter K84]
gi|221724288|gb|ACM27444.1| pseudouridylate synthase [Agrobacterium radiobacter K84]
Length = 343
Score = 179 bits (453), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 111/287 (38%), Positives = 163/287 (56%), Gaps = 38/287 (13%)
Query: 50 EPIANYAGVQLEETVDTKAGKLRLDAWISSRIDG-ISRARVQSSIRSGLVSINGQVVSKV 108
+P AG + T D A + RLDAW+++++D +SR+RVQ+ I++ V +NG V+
Sbjct: 5 DPFKEAAGNRKVLTADETA-EGRLDAWLTAQMDEELSRSRVQALIKANAVLLNGTPVTDA 63
Query: 109 SHNVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTL 168
V+ GD+ ++ E + + EDIPLD+++EDD+V+V++KPA +VVHP GN TGTL
Sbjct: 64 KRKVRPGDIYEISMPEPEDPTPQGEDIPLDVLFEDDDVIVISKPAGLVVHPGAGNWTGTL 123
Query: 169 VNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVV 228
VN ++HHC + S I G RPGIVHRLDK T+G++VV
Sbjct: 124 VNALIHHCG----------------------DSLSGIGGVR-RPGIVHRLDKDTTGVMVV 160
Query: 229 AKDEHSHAHLSEQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAI- 283
AK++ +H HLS QF H +ER Y ++ G P Q G + P+ R +R R +
Sbjct: 161 AKNDIAHRHLSLQFADHGRTTPLERAYQAIVWGRPRQLVGTVNAPLGRATGDRTRRSVKR 220
Query: 284 PGSNKHGQARHAASRYKVIEIL-----AGGGSALVEWRLETGRTHQV 325
PGS A A + Y+VIE A ++L++ LETGRTHQ+
Sbjct: 221 PGSP---DADEAITHYEVIERFHEAPDATALASLIDCHLETGRTHQI 264
>gi|336054036|ref|YP_004562323.1| pseudouridine synthase [Lactobacillus kefiranofaciens ZW3]
gi|333957413|gb|AEG40221.1| Pseudouridine synthase [Lactobacillus kefiranofaciens ZW3]
Length = 302
Score = 179 bits (453), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 102/254 (40%), Positives = 147/254 (57%), Gaps = 33/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +IS RI +SR R++ I+ + +N Q KVS+ ++ GD + + ++PL
Sbjct: 15 RLDKYISERISDLSRTRIKELIKDKNILVN-QKSEKVSYKIQAGDKIEINVPAVKPLDVV 73
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E+IPLDI+YED++V+VVNKP MVVHPAPG+ TLVN +L+H LA S E F
Sbjct: 74 PENIPLDIIYEDNDVIVVNKPQGMVVHPAPGHPDHTLVNALLYHTK--DLAQS-PEGF-- 128
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
RPGIVHR+DK TSGLL++AK+ + L +Q T +R+Y
Sbjct: 129 -------------------RPGIVHRIDKDTSGLLMIAKNAKARESLEDQLAHKTNKRIY 169
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++ G ++ +G I+ PI RDP NR +MA + K A + +KV+E +
Sbjct: 170 WAIVHGNFNEENGTIDAPIGRDPYNRKKMAVVENGKK------AITHFKVLEQFK--NYS 221
Query: 312 LVEWRLETGRTHQV 325
L+E +LETGRTHQ+
Sbjct: 222 LIECQLETGRTHQI 235
>gi|297544813|ref|YP_003677115.1| RluA family pseudouridine synthase [Thermoanaerobacter mathranii
subsp. mathranii str. A3]
gi|296842588|gb|ADH61104.1| pseudouridine synthase, RluA family [Thermoanaerobacter mathranii
subsp. mathranii str. A3]
Length = 305
Score = 179 bits (453), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 101/254 (39%), Positives = 150/254 (59%), Gaps = 34/254 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D ++++ +D +R+ ++ I GL +NG+ V K S+ VK D V I E + +
Sbjct: 19 RIDVFLAAELD-YTRSYIKKLIVDGLAFVNGKTV-KPSYKVKENDKVVVNIPEAEKIDVL 76
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E+IPLDI+YEDD+++V+NKP MVVHPAPGN +GTLVN +L+HC
Sbjct: 77 PENIPLDILYEDDDIIVINKPQGMVVHPAPGNYSGTLVNALLYHC--------------- 121
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+ S I+G +RPGIVHRLDK TSG++VVAK++ +H LS Q K ++ + Y
Sbjct: 122 --------KNLSGINGI-LRPGIVHRLDKDTSGVMVVAKNDKAHISLSNQIKERSVFKKY 172
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+++ GV +IE PI R P +R +MA I R+A + YKV+E +
Sbjct: 173 VAIVEGVIKNEEEKIEAPIGRHPVDRKKMAVIE------DGRYALTLYKVLERFK--ENT 224
Query: 312 LVEWRLETGRTHQV 325
L+E ++TGRTHQ+
Sbjct: 225 LIEAVIKTGRTHQI 238
>gi|354604250|ref|ZP_09022241.1| hypothetical protein HMPREF9450_01156 [Alistipes indistinctus YIT
12060]
gi|353348017|gb|EHB92291.1| hypothetical protein HMPREF9450_01156 [Alistipes indistinctus YIT
12060]
Length = 363
Score = 179 bits (453), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 104/265 (39%), Positives = 155/265 (58%), Gaps = 32/265 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TVD LR+D ++++R++G SR R+Q++ +G + +NG V K S+ VK D ++ +
Sbjct: 35 TVDKGQALLRIDKFLTNRMEGASRNRIQTAADAGTILVNGTPV-KSSYKVKPLDRISIVM 93
Query: 123 S-ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC-SLPT 180
++ + E+IPLDI YEDD++++VNK A MVVHP GN +GTLVN + +H LP
Sbjct: 94 PYPVREIEIIPENIPLDIRYEDDDLIIVNKAAGMVVHPGHGNYSGTLVNALTYHLKDLPL 153
Query: 181 LASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSE 240
+ + +R G+VHR+DK TSG+LV+AK+E +HA L++
Sbjct: 154 FQNGD------------------------MRAGLVHRIDKNTSGILVIAKNERAHARLAK 189
Query: 241 QFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYK 300
QF HTI+RVY +L G G + + R +R++MA P Q +HA + YK
Sbjct: 190 QFYDHTIDRVYCALAWGNMESEEGTVTGNVGRSLKDRMKMAVFPDGT---QGKHAVTHYK 246
Query: 301 VIEILAGGGSALVEWRLETGRTHQV 325
V+E L G L+E RLETGRTHQ+
Sbjct: 247 VLERL--GYVNLLECRLETGRTHQI 269
>gi|229031524|ref|ZP_04187524.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
AH1271]
gi|228729813|gb|EEL80793.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
AH1271]
Length = 302
Score = 179 bits (453), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 110/273 (40%), Positives = 158/273 (57%), Gaps = 33/273 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV + R+D +++ SR++VQ I+ +V++NG+ V KV++ VK D + TI
Sbjct: 8 TVAEEQKSERIDKFVAEINSEWSRSQVQQWIKEDVVTVNGKSV-KVNYKVKENDEITVTI 66
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
+ + L +AED+ L+I YED +VLVVNKP MVVHPAPG+ +GTLVNG++HHC+
Sbjct: 67 PDPEELDIQAEDMNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCT----- 121
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q
Sbjct: 122 -----------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQL 162
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
T+ R Y ++ GV G I+ PI+RD R M +++G +HA + ++VI
Sbjct: 163 VAKTVTRRYKAIVHGVIPHDKGTIDAPIARDKKERQSMTV----DENG--KHAVTHFQVI 216
Query: 303 EILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
E LVE RLETGRTHQ+ + K P
Sbjct: 217 ERFK--DFTLVECRLETGRTHQIRVHMKYIGYP 247
>gi|421766135|ref|ZP_16202913.1| Ribosomal large subunit pseudouridine synthase D [Lactococcus
garvieae DCC43]
gi|407625505|gb|EKF52209.1| Ribosomal large subunit pseudouridine synthase D [Lactococcus
garvieae DCC43]
Length = 302
Score = 178 bits (452), Expect = 3e-42, Method: Compositional matrix adjust.
Identities = 107/262 (40%), Positives = 152/262 (58%), Gaps = 34/262 (12%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
+D LRLD +++ D +SR+ + +R G VS++G+ K + VK G+ V +
Sbjct: 6 IDEANAGLRLDKALANLSD-VSRSVLTELVREGKVSVDGET-KKAKYKVKAGESVTYELP 63
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
E++ L +AEDIPLDIVYED +V V+NKP MVVHP+ G+A+GTLVN I++H
Sbjct: 64 EVEVLDIQAEDIPLDIVYEDADVAVINKPQGMVVHPSAGHASGTLVNAIMYHI------- 116
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
+D+ SSI+G IRPGIVHR+DK TSGLL++AK++ +H L+ Q K
Sbjct: 117 ---------QDL-------SSINGV-IRPGIVHRIDKDTSGLLMIAKNDRAHESLAAQLK 159
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
T +R YI+L G G IE PI R+P R + A + G + A + + V+E
Sbjct: 160 AKTNKRRYIALVHGEIPNEKGTIEAPIGRNPKERKKQAVVSG------GKPAKTHFTVLE 213
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
A G L+ LETGRTHQ+
Sbjct: 214 RFA--GYTLLSLELETGRTHQI 233
>gi|398382437|ref|ZP_10540524.1| pseudouridine synthase, RluA family [Rhizobium sp. AP16]
gi|397717523|gb|EJK78140.1| pseudouridine synthase, RluA family [Rhizobium sp. AP16]
Length = 341
Score = 178 bits (452), Expect = 3e-42, Method: Compositional matrix adjust.
Identities = 111/287 (38%), Positives = 163/287 (56%), Gaps = 38/287 (13%)
Query: 50 EPIANYAGVQLEETVDTKAGKLRLDAWISSRIDG-ISRARVQSSIRSGLVSINGQVVSKV 108
+P AG + T D A + RLDAW+++++D +SR+RVQ+ I++ V +NG V+
Sbjct: 3 DPFKEAAGNRKVLTADETA-EGRLDAWLTAQMDEELSRSRVQTLIKANAVLLNGTPVTDA 61
Query: 109 SHNVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTL 168
V+ GD+ ++ E + + EDIPLD+++EDD+V+V++KPA +VVHP GN TGTL
Sbjct: 62 KRKVRPGDIYEISMPEPEDPTPQGEDIPLDVLFEDDDVIVISKPAGLVVHPGAGNWTGTL 121
Query: 169 VNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVV 228
VN ++HHC + S I G RPGIVHRLDK T+G++VV
Sbjct: 122 VNALIHHCG----------------------DSLSGIGGVR-RPGIVHRLDKDTTGVMVV 158
Query: 229 AKDEHSHAHLSEQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAI- 283
AK++ +H HLS QF H +ER Y ++ G P Q G + P+ R +R R +
Sbjct: 159 AKNDIAHRHLSLQFADHGRTTPLERAYQAIVWGRPRQLVGTVNAPLGRATGDRTRRSVKR 218
Query: 284 PGSNKHGQARHAASRYKVIEIL-----AGGGSALVEWRLETGRTHQV 325
PGS A A + Y+VIE A ++L++ LETGRTHQ+
Sbjct: 219 PGSP---DADEAITHYEVIERFHEAPDATALASLIDCHLETGRTHQI 262
>gi|402312056|ref|ZP_10830986.1| pseudouridine synthase, RluA family [Lachnospiraceae bacterium
ICM7]
gi|400370717|gb|EJP23699.1| pseudouridine synthase, RluA family [Lachnospiraceae bacterium
ICM7]
Length = 304
Score = 178 bits (452), Expect = 3e-42, Method: Compositional matrix adjust.
Identities = 93/254 (36%), Positives = 154/254 (60%), Gaps = 32/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D +++ ++ SR+ +Q I+ G +N + V K ++ ++ GD+V+ I + +PL
Sbjct: 16 RIDVFLAMNLESFSRSYIQDLIKKGKACVNKKAV-KANYRLRDGDIVDLAIPKPEPLEIL 74
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E+IPLDIVYEDD+V+++NKP MVVHPA G+ +GTLVN +L+HC
Sbjct: 75 PENIPLDIVYEDDDVILINKPKGMVVHPAAGHYSGTLVNALLYHC--------------- 119
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
++ S I+G +RPGIVHR+D T+G+++ K++++H H+++Q H+I R Y
Sbjct: 120 -------KDNLSGINGV-LRPGIVHRIDMDTTGIIIACKNDNAHQHIAKQLAEHSITRKY 171
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+++ +G G ++ PI+R N+R++MA +K G + A + YKV+E L
Sbjct: 172 VAIVTGNIKDDEGTVDAPIARSKNDRMKMAV----DKDG--KRAVTHYKVLERL--NNYT 223
Query: 312 LVEWRLETGRTHQV 325
+E LETGRTHQ+
Sbjct: 224 YIECVLETGRTHQI 237
>gi|339009228|ref|ZP_08641800.1| pseudouridine synthase [Brevibacillus laterosporus LMG 15441]
gi|338773706|gb|EGP33237.1| pseudouridine synthase [Brevibacillus laterosporus LMG 15441]
Length = 310
Score = 178 bits (452), Expect = 3e-42, Method: Compositional matrix adjust.
Identities = 106/273 (38%), Positives = 162/273 (59%), Gaps = 32/273 (11%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV+ + R+D +++ + SR++VQ+ ++ G V++N + K ++ V D ++ +
Sbjct: 12 TVEKEEAGERIDKFLTMQEGEWSRSQVQAWVKEGRVTVNDAPI-KNNYKVAMDDEISLRV 70
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
+ L+ EA+ + LDIVYED +V+VVNKP +VVHPA G+ TGTLVNG++HHC
Sbjct: 71 PPPKELKIEAQAMDLDIVYEDSDVVVVNKPRGLVVHPALGHYTGTLVNGLMHHC------ 124
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
+D+S I+G +RPGIVHR+DK TSGLL++AK++ +HA L+ Q
Sbjct: 125 ----------KDLS-------GINGV-MRPGIVHRIDKDTSGLLMIAKNDKAHASLAAQL 166
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
K HT+ R Y++L G G I+ PI RDP NR +MA + G++K A + + V+
Sbjct: 167 KEHTVNRKYVALVHGEIPHEMGTIDAPIGRDPKNRQQMAVVFGNSK-----PAVTHFVVL 221
Query: 303 EILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
E + LVE +LETGRTHQ+ + K P
Sbjct: 222 ERMK--DFTLVELKLETGRTHQIRVHMKYIGYP 252
>gi|340616685|ref|YP_004735138.1| ribosomal large subunit pseudouridine synthase D [Zobellia
galactanivorans]
gi|339731482|emb|CAZ94747.1| Ribosomal large subunit pseudouridine synthase D [Zobellia
galactanivorans]
Length = 342
Score = 178 bits (452), Expect = 3e-42, Method: Compositional matrix adjust.
Identities = 112/258 (43%), Positives = 151/258 (58%), Gaps = 36/258 (13%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQP--L 128
LR+D ++ + I+ +R ++Q + +SG + +NG +V K ++ VK GD V + E P
Sbjct: 29 LRVDKFLMNFIEYATRNKIQQAAKSGHIWVNGAIV-KQNYKVKPGDEVKV-LFEHPPHEF 86
Query: 129 RAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC-SLPTLASSNQE 187
AEDIP+DIVYEDD +LVVNKPA MVVHP GN +GTL+N +LHH LP +SN+
Sbjct: 87 LLVAEDIPIDIVYEDDVLLVVNKPAGMVVHPGHGNYSGTLINALLHHIKDLP--VNSNE- 143
Query: 188 AFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTI 247
RPG+VHR+DK TSGLLVVAK E + HL++QF T
Sbjct: 144 -----------------------RPGLVHRIDKDTSGLLVVAKTEAAMTHLAKQFFDKTS 180
Query: 248 ERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAG 307
ER YI+L G G IE I+R+P NR++M P + + + A + Y VIE L
Sbjct: 181 EREYIALVWGNVEDDHGTIEGNIARNPKNRLQMQVFPEGD---EGKEAVTHYSVIERL-- 235
Query: 308 GGSALVEWRLETGRTHQV 325
G LV +LETGRTHQ+
Sbjct: 236 GYVTLVSCKLETGRTHQI 253
>gi|326389927|ref|ZP_08211490.1| pseudouridine synthase, RluA family [Thermoanaerobacter ethanolicus
JW 200]
gi|325993987|gb|EGD52416.1| pseudouridine synthase, RluA family [Thermoanaerobacter ethanolicus
JW 200]
Length = 305
Score = 178 bits (452), Expect = 3e-42, Method: Compositional matrix adjust.
Identities = 102/254 (40%), Positives = 151/254 (59%), Gaps = 34/254 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D ++++ +D +R+ ++ I GLV +NG+ V K S+ VK D V I E + +
Sbjct: 19 RIDVFLAAELD-YTRSYIKKLIVDGLVFVNGKTV-KPSYKVKENDEVVVNIPEAEKIDVL 76
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E+IPLDI+YEDD+++V+NKP MVVHPAPGN +GTLVN +L+HC
Sbjct: 77 PENIPLDILYEDDDIIVINKPQGMVVHPAPGNYSGTLVNALLYHC--------------- 121
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+ S I+G +RPGIVHRLDK TSG++VVAK++ +H LS Q K ++ + Y
Sbjct: 122 --------KNLSGINGI-LRPGIVHRLDKDTSGVMVVAKNDKAHISLSNQIKERSVFKKY 172
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+++ GV G+IE I R P +R +MA I R+A + YKV+E +
Sbjct: 173 VAIVEGVIKHEEGKIEALIGRHPVDRKKMAVIE------DGRYALTLYKVLERFK--ENT 224
Query: 312 LVEWRLETGRTHQV 325
L+E ++TGRTHQ+
Sbjct: 225 LIEAVIKTGRTHQI 238
>gi|126733181|ref|ZP_01748928.1| ribosomal large subunit pseudouridine synthase D [Roseobacter sp.
CCS2]
gi|126716047|gb|EBA12911.1| ribosomal large subunit pseudouridine synthase D [Roseobacter sp.
CCS2]
Length = 341
Score = 178 bits (452), Expect = 3e-42, Method: Compositional matrix adjust.
Identities = 102/254 (40%), Positives = 148/254 (58%), Gaps = 35/254 (13%)
Query: 84 ISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAEAEDIPLDIVYED 143
+SR+R+ I G VS++G VV+ H + G +V T++ + EDIPLD+V+ED
Sbjct: 32 LSRSRLAKLIAEGAVSVDGAVVTDPRHRIAEGSVVEVTVAMAEESHIVGEDIPLDVVFED 91
Query: 144 DNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSS 203
D+++VVNKPA MVVHPAPG GTLVN ++HHC E S
Sbjct: 92 DDLIVVNKPAGMVVHPAPGTPNGTLVNALIHHCG----------------------ETLS 129
Query: 204 SISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSS 263
+ G RPGIVHR+DK T+GLLV AK + +H HL++QF HT+ER Y+++ G+P Q+
Sbjct: 130 GVGGMK-RPGIVHRIDKETTGLLVAAKSDRAHHHLADQFAAHTVERRYLAVCYGLPDQND 188
Query: 264 GRIE--VPISRDPNNRIRMAAIPG---SNKHGQA------RHAASRYKVIEILAG-GGSA 311
R+ S +P N +++ G +++ QA RHA +R +++E L +A
Sbjct: 189 PRLRGIKGTSFEPGNILKIQTFLGRHRTDRQRQAVSFTAGRHAVTRSRIVEGLGNPACAA 248
Query: 312 LVEWRLETGRTHQV 325
L+E LETGRTHQ+
Sbjct: 249 LIECWLETGRTHQI 262
>gi|423138224|ref|ZP_17125867.1| RluA family pseudouridine synthase [Fusobacterium nucleatum subsp.
animalis F0419]
gi|371958262|gb|EHO75981.1| RluA family pseudouridine synthase [Fusobacterium nucleatum subsp.
animalis F0419]
Length = 328
Score = 178 bits (452), Expect = 3e-42, Method: Compositional matrix adjust.
Identities = 103/269 (38%), Positives = 159/269 (59%), Gaps = 33/269 (12%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
+ E V+++ +RLD ++S +I+ +R+ ++ I + V IN ++++K +K G+ +
Sbjct: 7 KFEFEVNSEYEGMRLDKYLSEQIEEATRSYLEKLIDNNYVKINSKIINKNGRKLKLGEKI 66
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
+I E + + E E+IPLDIVYE+++ +V+NK MVVHPA GN TGTLVN +L++ +
Sbjct: 67 EVSIPEEENIDIEPENIPLDIVYENNDFIVINKNYGMVVHPAYGNYTGTLVNALLYYTNN 126
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
SSI+G +IRPGI+HRLDK TSGL++VAK ++HA L
Sbjct: 127 L-----------------------SSING-NIRPGIIHRLDKNTSGLILVAKSNYAHAKL 162
Query: 239 SEQFKLHTIERVYISLTSGVPSQS--SGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAA 296
+ F TI + Y+ + G S+ SGRIE I RD +R +MA + + + A
Sbjct: 163 ASMFIDKTIHKTYLCIVKGNFSEENLSGRIENLIGRDSKDRKKMAVVKEN-----GKIAI 217
Query: 297 SRYKVIEILAGGGSALVEWRLETGRTHQV 325
S YKV+E + G +LVE +ETGRTHQ+
Sbjct: 218 SNYKVVEQVE--GYSLVEVAIETGRTHQI 244
>gi|417081029|ref|ZP_11950621.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
rhamnosus MTCC 5462]
gi|328461874|gb|EGF34095.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
rhamnosus MTCC 5462]
Length = 260
Score = 178 bits (452), Expect = 3e-42, Method: Compositional matrix adjust.
Identities = 103/229 (44%), Positives = 135/229 (58%), Gaps = 34/229 (14%)
Query: 97 LVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMV 156
+V++NG+ V K + V GD+V TI E++PL+A AE IPL+IVYEDD V+VVNKP MV
Sbjct: 1 MVTVNGKPV-KANFKVTAGDVVTVTIPEVKPLKAVAEPIPLEIVYEDDQVIVVNKPQGMV 59
Query: 157 VHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVH 216
VHPAPG+ GTLVNG+L+H LP I+G IRPGIVH
Sbjct: 60 VHPAPGHPDGTLVNGLLYHTKLP------------------------GINGV-IRPGIVH 94
Query: 217 RLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNN 276
R+DK TSGLL+VAK E + LS Q K T R Y++L G + G I+ P+ RDP +
Sbjct: 95 RIDKDTSGLLMVAKTETAQLSLSAQLKAKTSIREYLALVHGTFKEDEGTIDAPLGRDPRD 154
Query: 277 RIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQV 325
R R A + RHA + ++V+E LV+ L+TGRTHQ+
Sbjct: 155 RKRQAVV------ADGRHAVTHFQVLERFT--NYTLVKCILDTGRTHQI 195
>gi|223939777|ref|ZP_03631648.1| pseudouridine synthase, RluA family [bacterium Ellin514]
gi|223891553|gb|EEF58043.1| pseudouridine synthase, RluA family [bacterium Ellin514]
Length = 318
Score = 178 bits (452), Expect = 3e-42, Method: Compositional matrix adjust.
Identities = 105/273 (38%), Positives = 150/273 (54%), Gaps = 31/273 (11%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV+ RLD ++ R +SR +Q I G + +NGQ + K +H+ + G+++
Sbjct: 10 TVEVSLPSERLDTFLRERFPAVSRGTIQRLIEQGHIKVNGQTI-KPTHHPRAGELIEVYW 68
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E +P A EDIPLDI++ED ++LV+NK +VVHPA G+ TLVN +LHHC
Sbjct: 69 PEARPAEARPEDIPLDIIFEDSDLLVLNKAPGLVVHPAAGHEEHTLVNALLHHC------ 122
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
E S I G + RPGIVHRLDK TSG LVVAK++ +H L+EQF
Sbjct: 123 ----------------EGQLSGIGGVA-RPGIVHRLDKETSGCLVVAKNDAAHMALAEQF 165
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
T+E+ Y+++ G ++SG I I+R P +R RM GS R A + YKV
Sbjct: 166 SGRTLEKTYLAIVCGEVVRNSGEIRASIARHPTHRKRMTVTDGS-----GREAWTSYKVR 220
Query: 303 EILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
E + G+ +E L TGRTHQ+ + ++ P
Sbjct: 221 ERFS--GATWLEALLHTGRTHQIRVHFQHLGYP 251
>gi|254500895|ref|ZP_05113046.1| pseudouridine synthase, RluA family [Labrenzia alexandrii DFL-11]
gi|222436966|gb|EEE43645.1| pseudouridine synthase, RluA family [Labrenzia alexandrii DFL-11]
Length = 341
Score = 178 bits (452), Expect = 3e-42, Method: Compositional matrix adjust.
Identities = 107/271 (39%), Positives = 152/271 (56%), Gaps = 36/271 (13%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TVD + R+DA ++S ++ +SR R+QS I++G VSI G + + + V GD + +
Sbjct: 19 TVDPEDAGKRIDAVLASHLETLSRNRIQSLIKAGDVSIGGAKIGEPKYRVNEGDEITLHL 78
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E + + EDIPL +V+ED +V+V++KPA +VVHP GN TGTLVN ++HHC
Sbjct: 79 PEPEDPDPKGEDIPLSVVFEDAHVIVIDKPAGLVVHPGAGNWTGTLVNALIHHCG----- 133
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
+ S I G RPGIVHR+DK TSGLLVVAK + +H L+ QF
Sbjct: 134 -----------------DSLSGIGGVK-RPGIVHRIDKDTSGLLVVAKTDQAHQGLAAQF 175
Query: 243 KLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
H +ER Y +L G PS G I+ ++R NR +MA + S RHA +
Sbjct: 176 ADHGRTGPLERAYSALVWGAPSSLKGTIDANLARSQANRQKMAVVKTS-----GRHAITH 230
Query: 299 YKVIEILAGGG----SALVEWRLETGRTHQV 325
++V E ++L+E RLETGRTHQ+
Sbjct: 231 WQVKERFGAADQPPLASLMECRLETGRTHQI 261
>gi|423321680|ref|ZP_17299551.1| RluA family pseudouridine synthase [Lactobacillus crispatus
FB077-07]
gi|405591797|gb|EKB65265.1| RluA family pseudouridine synthase [Lactobacillus crispatus
FB077-07]
Length = 303
Score = 178 bits (452), Expect = 3e-42, Method: Compositional matrix adjust.
Identities = 102/265 (38%), Positives = 153/265 (57%), Gaps = 33/265 (12%)
Query: 61 EETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNC 120
E +++ K K RLD +++ +I +SR RV+ ++ + +NG+V KVS+ ++ GD +
Sbjct: 4 EYSLEVKNEKGRLDKFVAEQIPDLSRTRVKELVKDQNILVNGKV-EKVSYKIQAGDKIEV 62
Query: 121 TISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPT 180
I ++PL E+IPLDIVYEDD+V+VVNKP MVVHPAPG+ TLVN +L+H
Sbjct: 63 NIPAVKPLDVIPENIPLDIVYEDDDVIVVNKPQGMVVHPAPGHPDHTLVNALLYHTK--A 120
Query: 181 LASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSE 240
LA S + RPGIVHR+DK TSGLL++AK + L +
Sbjct: 121 LAQSPE----------------------GFRPGIVHRIDKDTSGLLMIAKTAKARESLED 158
Query: 241 QFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYK 300
Q T +R+Y ++ G ++ +G I+ PI R+P +R +MA + K A + +K
Sbjct: 159 QLAHKTNKRLYWAIVHGNFAEENGVIDAPIGRNPYDRKKMAVVETGKK------AITHFK 212
Query: 301 VIEILAGGGSALVEWRLETGRTHQV 325
V+E +L+E +LETGRTHQ+
Sbjct: 213 VLEQFK--DYSLIECQLETGRTHQI 235
>gi|218509234|ref|ZP_03507112.1| RNA-pseudouridylate synthase protein, ribosomal large subunit D
[Rhizobium etli Brasil 5]
Length = 274
Score = 178 bits (452), Expect = 3e-42, Method: Compositional matrix adjust.
Identities = 109/265 (41%), Positives = 154/265 (58%), Gaps = 37/265 (13%)
Query: 72 RLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
RLDAW+++++ + SR+R++ I+ G VS+ GQ+++ V+ GD T+ E +
Sbjct: 5 RLDAWLTAQLGEEFSRSRIKVLIKDGQVSMRGQLITDPQRKVRVGDSFEITLPEPEDPTP 64
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
EDIPLDI+YEDD+++V++KPA +VVHP GN TGTLVN ++HHC TL
Sbjct: 65 RGEDIPLDILYEDDDLIVISKPAGLVVHPGSGNWTGTLVNALIHHCGA-TL--------- 114
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLH----T 246
S I G RPGIVHRLDK T+G++VVAK++ +H HLS QF H
Sbjct: 115 ------------SGIGGVR-RPGIVHRLDKDTTGVMVVAKNDVAHRHLSLQFADHGRTMP 161
Query: 247 IERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAI-PGSNKHGQARHAASRYKVIEIL 305
+ER Y ++ G P +G ++ P+ R +R R A P S A A + Y+VIE
Sbjct: 162 LERAYQAIVWGRPRSLTGTVDAPLGRATGDRTRRAVKRPDSQ---DADQAITHYEVIERF 218
Query: 306 -----AGGGSALVEWRLETGRTHQV 325
A ++LVE RLETGRTHQ+
Sbjct: 219 HETPDATALASLVECRLETGRTHQI 243
>gi|288553139|ref|YP_003425074.1| large ribosomal pseudouridine synthesis protein [Bacillus
pseudofirmus OF4]
gi|288544299|gb|ADC48182.1| large ribosomal pseudouridine synthesis protein [Bacillus
pseudofirmus OF4]
Length = 304
Score = 178 bits (451), Expect = 3e-42, Method: Compositional matrix adjust.
Identities = 107/264 (40%), Positives = 151/264 (57%), Gaps = 32/264 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D +++++ SR++VQ I+ G V +NG+ +K ++ ++ D V +I E + L
Sbjct: 16 RIDKFLTAQNGEWSRSQVQQWIKDGQVQVNGKA-TKSNYKMQVEDQVTLSIPEPEELDVI 74
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AEDIPLD+VYED +V+VVNKP MVVHPAPG+ TGTLVN +L+HC
Sbjct: 75 AEDIPLDVVYEDADVIVVNKPRGMVVHPAPGHYTGTLVNALLYHC--------------- 119
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+D+ S I+G IRPGIVHR+DK TSGLL+VAK++H+H L Q K T +R Y
Sbjct: 120 -KDL-------SGINGV-IRPGIVHRIDKDTSGLLMVAKNDHAHESLVSQLKAKTTKRHY 170
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++ GV G IE PI RD +R M + +R A + + V+E
Sbjct: 171 KAIVHGVIPHQHGTIEAPIGRDKKDRQSMTVTEDN-----SRDAVTHFTVLECFK--DFT 223
Query: 312 LVEWRLETGRTHQVLMLYKLFYIP 335
V+ LETGRTHQ+ + K P
Sbjct: 224 YVQCELETGRTHQIRVHMKYIGYP 247
>gi|254304341|ref|ZP_04971699.1| pseudouridylate synthase [Fusobacterium nucleatum subsp.
polymorphum ATCC 10953]
gi|148324533|gb|EDK89783.1| pseudouridylate synthase [Fusobacterium nucleatum subsp.
polymorphum ATCC 10953]
Length = 316
Score = 178 bits (451), Expect = 3e-42, Method: Compositional matrix adjust.
Identities = 100/257 (38%), Positives = 151/257 (58%), Gaps = 33/257 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
+RLD ++S +I+ +R+ ++ I + V +N +++ K +K G+ + I E + +
Sbjct: 19 MRLDKYLSEQIEEATRSYLEKLIDNNFVKVNSKIIKKNGRKLKSGEKIEVLIPEEENIDI 78
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
EAE+IPLD+VYE+D+ +V+NK MVVHPA GN TGTLVN +L++ + L+S N
Sbjct: 79 EAENIPLDVVYENDDFIVINKNYGMVVHPAYGNYTGTLVNALLYYTN--NLSSVN----- 131
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
+IRPGI+HRLDK TSGL+++AK+ +HA L+ F TI +
Sbjct: 132 -----------------GNIRPGIIHRLDKDTSGLILIAKNNFAHAKLASMFIDKTIHKT 174
Query: 251 YISLTSGVPSQS--SGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGG 308
Y+ + G S+ SGRIE I RD +R +MA + + K A S Y+VIE +
Sbjct: 175 YLCIVKGNFSEENLSGRIENLIGRDIKDRKKMAVVKENGK-----IAISNYRVIEQVE-- 227
Query: 309 GSALVEWRLETGRTHQV 325
G +LVE +ETGRTHQ+
Sbjct: 228 GYSLVEVAIETGRTHQI 244
>gi|147669825|ref|YP_001214643.1| ribosomal large subunit pseudouridine synthase D [Dehalococcoides
sp. BAV1]
gi|289433036|ref|YP_003462909.1| pseudouridine synthase [Dehalococcoides sp. GT]
gi|146270773|gb|ABQ17765.1| ribosomal large subunit pseudouridine synthase D [Dehalococcoides
sp. BAV1]
gi|288946756|gb|ADC74453.1| pseudouridine synthase, RluA family [Dehalococcoides sp. GT]
Length = 300
Score = 178 bits (451), Expect = 4e-42, Method: Compositional matrix adjust.
Identities = 100/254 (39%), Positives = 147/254 (57%), Gaps = 33/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +I+ + G+SR+ +Q + SG + +N Q +K S +K GD + I P +
Sbjct: 14 RLDKYITQKESGLSRSFIQELVSSGHILVNNQS-AKPSLRLKTGDTITIEIPPETPSELK 72
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AE+IPL+I+++D ++L++NKP + VHPAPG+ TLVNG+L +
Sbjct: 73 AENIPLEIIFQDKDLLLINKPPGLTVHPAPGHPDHTLVNGVL-------------ALEPE 119
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
ED D +RPGIVHRLDK TSGLL+VAK+ + A+LS QFK T+ + Y
Sbjct: 120 MEDFDD-----------PLRPGIVHRLDKDTSGLLLVAKNRQALANLSAQFKERTVRKYY 168
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++L G + G IE P+ RDP NR ++A + RHA + YKV+ + G +
Sbjct: 169 LALVKGELRPAEGFIEAPLGRDPQNRQKIAVV------SDGRHARTGYKVLRYIQ--GYS 220
Query: 312 LVEWRLETGRTHQV 325
L+E +LETGRTHQ+
Sbjct: 221 LLEVKLETGRTHQI 234
>gi|320160390|ref|YP_004173614.1| pseudouridine synthase [Anaerolinea thermophila UNI-1]
gi|319994243|dbj|BAJ63014.1| pseudouridine synthase [Anaerolinea thermophila UNI-1]
Length = 310
Score = 178 bits (451), Expect = 4e-42, Method: Compositional matrix adjust.
Identities = 100/254 (39%), Positives = 144/254 (56%), Gaps = 30/254 (11%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++ + +SR+++Q IR G V ++G+ V K V+ G V I QP E
Sbjct: 17 RLDKFLVAHFPELSRSQIQGLIRDGFVRVSGKTVQKTGFLVEAGKEVEIRIPPPQPTSLE 76
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E IPL++++E+ ++L+VNKPA MVVHP+ G+ GTLV+ L H +P L
Sbjct: 77 PEPIPLEVIFENQDLLLVNKPAGMVVHPSAGHDRGTLVHAALAH--IPEL---------- 124
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
E I +E RPG+VHRLDK TSGL+++AK++ +H L +QF+L +++ Y
Sbjct: 125 -EGIHGEE-----------RPGVVHRLDKDTSGLILLAKNDRAHRWLQDQFRLRKVQKTY 172
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++L G P +GRIE PI RDP NR RMA +P + R A S Y E+
Sbjct: 173 LALVDGRPPTPTGRIEAPIGRDPKNRQRMAVVPPE----KGREAVSEYFTREVFP--SHT 226
Query: 312 LVEWRLETGRTHQV 325
L+E TGRTHQ+
Sbjct: 227 LLEVHPLTGRTHQI 240
>gi|169827034|ref|YP_001697192.1| RNA pseudouridine synthase ylyB [Lysinibacillus sphaericus C3-41]
gi|168991522|gb|ACA39062.1| Hypothetical RNA pseudouridine synthase ylyB [Lysinibacillus
sphaericus C3-41]
Length = 303
Score = 178 bits (451), Expect = 4e-42, Method: Compositional matrix adjust.
Identities = 107/263 (40%), Positives = 151/263 (57%), Gaps = 33/263 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
T++ + R+D +SS SR ++ + I G + +NG V K + VK GD++ +
Sbjct: 7 TIEEQQQGERIDKALSSLQSEWSRTQIGNWISDGNIKVNGDAV-KAKYKVKAGDVIAIDV 65
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E +PL AE++ LDIVYED +VLVVNKP MVVHPAPG+ TGTLVNG+++ C
Sbjct: 66 PEAEPLDVIAENLALDIVYEDADVLVVNKPKGMVVHPAPGHMTGTLVNGLMYQC------ 119
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
+D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L +Q
Sbjct: 120 ----------KDL-------SGINGI-MRPGIVHRIDKDTSGLLMVAKNDVAHESLVDQL 161
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
T+ R YI+L G + G I+ PI RD +R + A + +HA + + V+
Sbjct: 162 VNKTVTRKYIALVHGHIAHDKGTIDAPIGRDQKDRQKQAIV------DNGKHAVTHFHVV 215
Query: 303 EILAGGGSALVEWRLETGRTHQV 325
E G LVE RLETGRTHQ+
Sbjct: 216 ERF--GDYTLVECRLETGRTHQI 236
>gi|256851102|ref|ZP_05556491.1| pseudouridylate synthase [Lactobacillus jensenii 27-2-CHN]
gi|260660526|ref|ZP_05861441.1| pseudouridylate synthase [Lactobacillus jensenii 115-3-CHN]
gi|297205967|ref|ZP_06923362.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
jensenii JV-V16]
gi|256616164|gb|EEU21352.1| pseudouridylate synthase [Lactobacillus jensenii 27-2-CHN]
gi|260548248|gb|EEX24223.1| pseudouridylate synthase [Lactobacillus jensenii 115-3-CHN]
gi|297149093|gb|EFH29391.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
jensenii JV-V16]
Length = 301
Score = 178 bits (451), Expect = 4e-42, Method: Compositional matrix adjust.
Identities = 110/266 (41%), Positives = 155/266 (58%), Gaps = 36/266 (13%)
Query: 60 LEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
E V TKAG RLD +IS D +SR+RVQ + SG + +NG+ K S+ V D +
Sbjct: 4 FELIVATKAG--RLDKYISEHSD-LSRSRVQELLGSGDILVNGKQ-EKPSYKVANNDQIT 59
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
+ +L PL E EDIPLDIVYED++V+VVNKP MVVHP+ G+ TLVN +++H
Sbjct: 60 VHVPKLVPLNVEPEDIPLDIVYEDEDVIVVNKPQGMVVHPSAGHPNHTLVNALMNHTKF- 118
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
LA+S E F RPGIVHR+DK TSGLL++AK+ ++ L
Sbjct: 119 -LAAS-PEGF---------------------RPGIVHRIDKDTSGLLMIAKNANARTSLE 155
Query: 240 EQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRY 299
Q T +RVY+++ G +++G I+ PI+R+P +R +MA + G + A + +
Sbjct: 156 SQLAHKTNKRVYLAIVHGNFKEATGTIDAPIARNPKDRKKMAIVEG------GKEAVTHF 209
Query: 300 KVIEILAGGGSALVEWRLETGRTHQV 325
V+E G ALV +LETGRTHQ+
Sbjct: 210 HVLEQYP--GYALVSCQLETGRTHQI 233
>gi|336400257|ref|ZP_08581042.1| hypothetical protein HMPREF0404_00333 [Fusobacterium sp. 21_1A]
gi|336162907|gb|EGN65851.1| hypothetical protein HMPREF0404_00333 [Fusobacterium sp. 21_1A]
Length = 328
Score = 178 bits (451), Expect = 4e-42, Method: Compositional matrix adjust.
Identities = 103/269 (38%), Positives = 159/269 (59%), Gaps = 33/269 (12%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
+ E V+++ +RLD ++S +I+ +R+ ++ I + V IN ++++K +K G+ +
Sbjct: 7 KFEFEVNSEYEGMRLDKYLSEQIEEATRSYLEKLIDNNYVKINSKIINKNGRKLKLGEKI 66
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
+I E + + E E+IPLDIVYE+++ +V+NK MVVHPA GN TGTLVN +L++ +
Sbjct: 67 EVSIPEEENIDIEPENIPLDIVYENNDFIVINKNYGMVVHPAYGNYTGTLVNALLYYTNN 126
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
SSI+G +IRPGI+HRLDK TSGL++VAK ++HA L
Sbjct: 127 L-----------------------SSING-NIRPGIIHRLDKDTSGLILVAKSNYAHAKL 162
Query: 239 SEQFKLHTIERVYISLTSGVPSQS--SGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAA 296
+ F TI + Y+ + G S+ SGRIE I RD +R +MA + + + A
Sbjct: 163 ASMFIDKTIHKTYLCIVKGNFSEENLSGRIENLIGRDSKDRKKMAVVKEN-----GKIAI 217
Query: 297 SRYKVIEILAGGGSALVEWRLETGRTHQV 325
S YKV+E + G +LVE +ETGRTHQ+
Sbjct: 218 SNYKVVEQVE--GYSLVEVAIETGRTHQI 244
>gi|404329198|ref|ZP_10969646.1| pseudouridylate synthase [Sporolactobacillus vineae DSM 21990 =
SL153]
Length = 308
Score = 178 bits (451), Expect = 4e-42, Method: Compositional matrix adjust.
Identities = 108/267 (40%), Positives = 150/267 (56%), Gaps = 32/267 (11%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q+ T D R D W S SR+R+Q I++G ING+ + + S+ V+ GD
Sbjct: 5 QVTRTADLPDEGKRADKWASDLFPDESRSRLQQLIKNGEFQINGKKI-RPSYRVQTGDKA 63
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
+ +P E IPLDIVYED +VLVVNKP MVVHP+PG+ +GTLVN +LHHC+
Sbjct: 64 TLVLPAPEPAAVVPEAIPLDIVYEDHDVLVVNKPRGMVVHPSPGHMSGTLVNALLHHCT- 122
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
D+ S I+G +RPGIVHR+DK TSGLL+VAK + +H L
Sbjct: 123 ---------------DL-------SGINGV-LRPGIVHRIDKDTSGLLMVAKTDSAHRSL 159
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
+ Q K + +R Y+++ GV +++ G I+ PI RD +R +MA +K A +
Sbjct: 160 AAQLKDKSTKRQYLAIVHGVIAENEGIIDAPIGRDARDRKKMAVTADHSK-----QAVTH 214
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQV 325
+KV+E LV RLETGRTHQ+
Sbjct: 215 FKVLERFP--RYTLVACRLETGRTHQI 239
>gi|153810897|ref|ZP_01963565.1| hypothetical protein RUMOBE_01281 [Ruminococcus obeum ATCC 29174]
gi|149833293|gb|EDM88375.1| pseudouridine synthase, RluA family [Ruminococcus obeum ATCC 29174]
Length = 304
Score = 178 bits (451), Expect = 4e-42, Method: Compositional matrix adjust.
Identities = 99/267 (37%), Positives = 153/267 (57%), Gaps = 31/267 (11%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
+LE +D+ +R+D +++ +SR+ +Q ++ G VS+N ++V K ++ + GD V
Sbjct: 3 KLEFNIDSSEKNVRIDKYLAECCPDLSRSYLQKLLKDGAVSVNTRIV-KANYKTQPGDHV 61
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
I +LQ + E+IPLDI+YED ++VVNKP MVVHP+ G+ GTLVN ++ HC
Sbjct: 62 ILNIPDLQTPDIKPENIPLDILYEDQWLMVVNKPKDMVVHPSAGHMEGTLVNAVMAHCG- 120
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+ S I+G +RPGIVHR+DK T+G L++ KD+ H +L
Sbjct: 121 ---------------------DNLSGINGV-MRPGIVHRIDKDTTGALLICKDDMVHRNL 158
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
+EQ K H+I+R Y ++ G + G ++ PI R P +R +MA H + A +
Sbjct: 159 AEQLKEHSIKRRYRAIVQGNIKEDEGTVDAPIGRHPIDRKKMAI-----NHKNGKEAVTH 213
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQV 325
YKV+E G + +E RLETGRTHQ+
Sbjct: 214 YKVLERF--GQTTYIECRLETGRTHQI 238
>gi|289547904|ref|YP_003472892.1| pseudouridine synthase [Thermocrinis albus DSM 14484]
gi|289181521|gb|ADC88765.1| pseudouridine synthase, RluA family [Thermocrinis albus DSM 14484]
Length = 324
Score = 178 bits (451), Expect = 4e-42, Method: Compositional matrix adjust.
Identities = 102/262 (38%), Positives = 151/262 (57%), Gaps = 33/262 (12%)
Query: 65 DTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISE 124
+ +AGK RLD +++ SR+ ++ + G V ++GQVV K S VKGG++V + +
Sbjct: 16 EHQAGK-RLDQFLAEAYPDFSRSYIKELVEGGYVLVDGQVVYKPSRKVKGGEVVVLCVPK 74
Query: 125 LQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC-SLPTLAS 183
++PL AEDIPL+I+YEDD++ VV KP +VVHP+PG +GTLVN +L LPT+
Sbjct: 75 VEPLSLPAEDIPLEILYEDDDLAVVVKPCGLVVHPSPGYTSGTLVNALLFRWRDLPTV-- 132
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
G RPGIVHRLD+ T G++VVAK E +H L+EQF+
Sbjct: 133 -----------------------GEWYRPGIVHRLDRNTMGVMVVAKRELAHRRLAEQFE 169
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
+ +VY +L G+ + G + +P++RDP +R R S K R A + YKV++
Sbjct: 170 KRKVLKVYRALVKGLVERDEGTLSMPLARDPRHRKRFTV---SEK---GRDAITHYKVLK 223
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
+L+E R+ TGRTHQ+
Sbjct: 224 RYRSLSVSLLEIRIYTGRTHQI 245
>gi|229104455|ref|ZP_04235123.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
Rock3-28]
gi|229117388|ref|ZP_04246765.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
Rock1-3]
gi|407706351|ref|YP_006829936.1| formamidase [Bacillus thuringiensis MC28]
gi|423378255|ref|ZP_17355539.1| RluA family pseudouridine synthase [Bacillus cereus BAG1O-2]
gi|423448398|ref|ZP_17425277.1| RluA family pseudouridine synthase [Bacillus cereus BAG5O-1]
gi|423547190|ref|ZP_17523548.1| RluA family pseudouridine synthase [Bacillus cereus HuB5-5]
gi|423615844|ref|ZP_17591678.1| RluA family pseudouridine synthase [Bacillus cereus VD115]
gi|423623028|ref|ZP_17598806.1| RluA family pseudouridine synthase [Bacillus cereus VD148]
gi|228666088|gb|EEL21553.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
Rock1-3]
gi|228678977|gb|EEL33186.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
Rock3-28]
gi|401128992|gb|EJQ36675.1| RluA family pseudouridine synthase [Bacillus cereus BAG5O-1]
gi|401178911|gb|EJQ86084.1| RluA family pseudouridine synthase [Bacillus cereus HuB5-5]
gi|401259801|gb|EJR65975.1| RluA family pseudouridine synthase [Bacillus cereus VD148]
gi|401260381|gb|EJR66554.1| RluA family pseudouridine synthase [Bacillus cereus VD115]
gi|401636521|gb|EJS54275.1| RluA family pseudouridine synthase [Bacillus cereus BAG1O-2]
gi|407384036|gb|AFU14537.1| putative RNA pseudouridine synthase ylyB [Bacillus thuringiensis
MC28]
Length = 302
Score = 178 bits (451), Expect = 4e-42, Method: Compositional matrix adjust.
Identities = 109/273 (39%), Positives = 158/273 (57%), Gaps = 33/273 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV + R+D +++ SR++VQ I+ +V++NG+ V KV++ VK D + TI
Sbjct: 8 TVAEEQKSERIDKFVAEINSEWSRSQVQQWIKDDVVTVNGKSV-KVNYKVKENDEITVTI 66
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
+ + L +AED+ L+I YED +VLVVNKP MVVHPAPG+ +GTLVNG++HHC+
Sbjct: 67 PDPEELDIQAEDMNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCT----- 121
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q
Sbjct: 122 -----------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQL 162
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
T+ R Y ++ GV G I+ PI+RD R M +++G +HA + ++V+
Sbjct: 163 VAKTVTRRYKAIVHGVIPHDKGTIDAPIARDKKERQSMTV----DENG--KHAVTHFQVL 216
Query: 303 EILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
E LVE RLETGRTHQ+ + K P
Sbjct: 217 ERFK--DFTLVECRLETGRTHQIRVHMKYIGYP 247
>gi|229075650|ref|ZP_04208632.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
Rock4-18]
gi|228707426|gb|EEL59617.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
Rock4-18]
Length = 302
Score = 178 bits (451), Expect = 4e-42, Method: Compositional matrix adjust.
Identities = 109/273 (39%), Positives = 158/273 (57%), Gaps = 33/273 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV + R+D +++ SR++VQ I+ +V++NG+ V KV++ VK D + TI
Sbjct: 8 TVAEEQKSERIDKFVAEINSEWSRSQVQQWIKDDVVTVNGKSV-KVNYKVKENDEITVTI 66
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
+ + L +AED+ L+I YED +VLVVNKP MVVHPAPG+ +GTLVNG++HHC+
Sbjct: 67 PDPEELDIQAEDMNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCT----- 121
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q
Sbjct: 122 -----------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQL 162
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
T+ R Y ++ GV G I+ PI+RD R M +++G +HA + ++V+
Sbjct: 163 VAKTVTRRYKAIVHGVIPHDKGTIDAPIARDKKERQSMTV----DENG--KHAVTHFQVL 216
Query: 303 EILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
E LVE RLETGRTHQ+ + K P
Sbjct: 217 ERFK--DFTLVECRLETGRTHQIRVHMKYIGYP 247
>gi|260495646|ref|ZP_05815770.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium sp.
3_1_33]
gi|260196829|gb|EEW94352.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium sp.
3_1_33]
Length = 328
Score = 178 bits (451), Expect = 4e-42, Method: Compositional matrix adjust.
Identities = 103/269 (38%), Positives = 159/269 (59%), Gaps = 33/269 (12%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
+ E V+++ +RLD ++S +I+ +R+ ++ I + V IN ++++K +K G+ +
Sbjct: 7 KFEFEVNSEYEGMRLDKYLSEQIEEATRSYLEKLIDNNYVKINSKIINKNGRKLKLGEKI 66
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
+I E + + E E+IPLDIVYE+++ +V+NK MVVHPA GN TGTLVN +L++ +
Sbjct: 67 EVSIPEEENIDIEPENIPLDIVYENNDFIVINKNYGMVVHPAYGNYTGTLVNALLYYTNN 126
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
SSI+G +IRPGI+HRLDK TSGL++VAK ++HA L
Sbjct: 127 L-----------------------SSING-NIRPGIIHRLDKDTSGLILVAKSNYAHAKL 162
Query: 239 SEQFKLHTIERVYISLTSGVPSQS--SGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAA 296
+ F TI + Y+ + G S+ SGRIE I RD +R +MA + + + A
Sbjct: 163 ASMFIDKTIHKTYLCIVKGNFSEENLSGRIENLIGRDSKDRKKMAVVKEN-----GKIAI 217
Query: 297 SRYKVIEILAGGGSALVEWRLETGRTHQV 325
S YKV+E + G +LVE +ETGRTHQ+
Sbjct: 218 SNYKVVEQVE--GYSLVEVAIETGRTHQI 244
>gi|430004492|emb|CCF20287.1| pseudouridine synthase (pseudouridines 1911, 1915, 1917 in 23S RNA)
[Rhizobium sp.]
Length = 328
Score = 177 bits (450), Expect = 4e-42, Method: Compositional matrix adjust.
Identities = 105/264 (39%), Positives = 146/264 (55%), Gaps = 35/264 (13%)
Query: 72 RLDAWISSRIDG-ISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
RLDAW+++ ++G SR+R+++ I G VS+ G V ++ + GD V + E +
Sbjct: 11 RLDAWLTTALEGEFSRSRIKALIEQGAVSLKGTVCTEPKRKIAPGDAVEIVLPEPEDAEP 70
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
EDIPLD++YED +V+V+ KP +VVHP GN TGTLVN ++HHC
Sbjct: 71 RGEDIPLDVLYEDADVIVILKPPGLVVHPGAGNWTGTLVNALIHHCG------------- 117
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLH----T 246
E S I G RPGIVHRLDK TSG+LV AK++ +H HL+ QF H
Sbjct: 118 ---------ESLSGIGGVR-RPGIVHRLDKDTSGVLVAAKNDIAHRHLAAQFADHGRTGP 167
Query: 247 IERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEIL- 305
+ER Y ++ G P Q G I+ P+ R +R + A AR A + Y+V+E
Sbjct: 168 LERAYQAVVWGRPKQLKGTIDAPLGRGGGDRTKRAV--KREDSDDAREAITHYEVVERFH 225
Query: 306 ----AGGGSALVEWRLETGRTHQV 325
A ++LVE RLETGRTHQ+
Sbjct: 226 EKPDATALASLVECRLETGRTHQI 249
>gi|452205541|ref|YP_007485670.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Dehalococcoides mccartyi BTF08]
gi|452112597|gb|AGG08328.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Dehalococcoides mccartyi BTF08]
Length = 300
Score = 177 bits (450), Expect = 4e-42, Method: Compositional matrix adjust.
Identities = 100/254 (39%), Positives = 147/254 (57%), Gaps = 33/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +I+ + G+SR+ +Q + SG + +N Q +K S +K GD + I P +
Sbjct: 14 RLDKYITQKESGLSRSFIQELVSSGHILVNNQS-AKPSLRLKTGDTITIEIPPETPSELK 72
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AE+IPL+I+++D ++L++NKP + VHPAPG+ TLVNG+L +
Sbjct: 73 AENIPLEIIFQDKDLLLINKPPGLTVHPAPGHPDHTLVNGVL-------------ALEPE 119
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
ED D +RPGIVHRLDK TSGLL+VAK+ + A+LS QFK T+ + Y
Sbjct: 120 MEDFDD-----------PLRPGIVHRLDKDTSGLLLVAKNRQALANLSAQFKERTVRKYY 168
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++L G + G IE P+ RDP NR ++A + RHA + YKV+ + G +
Sbjct: 169 LALVKGELRPAEGFIEAPLGRDPQNRQKIAVV------SDGRHARTGYKVLRYIQ--GYS 220
Query: 312 LVEWRLETGRTHQV 325
L+E +LETGRTHQ+
Sbjct: 221 LLEVKLETGRTHQI 234
>gi|422340105|ref|ZP_16421060.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium
nucleatum subsp. polymorphum F0401]
gi|355370350|gb|EHG17735.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium
nucleatum subsp. polymorphum F0401]
Length = 316
Score = 177 bits (450), Expect = 4e-42, Method: Compositional matrix adjust.
Identities = 99/257 (38%), Positives = 150/257 (58%), Gaps = 33/257 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
+RLD ++S +I+ +R+ ++ I + V +N +++ K +K G+ + I E + +
Sbjct: 19 MRLDKYLSEQIEEATRSYLEKLIDNNFVKVNSKIIKKNGRKLKSGEKIEVLIPEEENIDI 78
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
EAE+IPLD+VYE+D+ +V+NK MVVHPA GN TGTLVN +L++ + L+S N
Sbjct: 79 EAENIPLDVVYENDDFIVINKNYGMVVHPAYGNYTGTLVNALLYYTN--NLSSVN----- 131
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
+IRPGI+HRLDK TSGL+++AK+ HA L+ F TI +
Sbjct: 132 -----------------GNIRPGIIHRLDKDTSGLILIAKNNFVHAKLASMFIDKTIHKT 174
Query: 251 YISLTSGVPSQS--SGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGG 308
Y+ + G S+ SGRIE I RD +R +MA + + + A S YKV+E +
Sbjct: 175 YLCIVKGNFSEENLSGRIENLIGRDIKDRKKMAVVKEN-----GKIAISNYKVVEQVE-- 227
Query: 309 GSALVEWRLETGRTHQV 325
G +LVE +ETGRTHQ+
Sbjct: 228 GYSLVEVAIETGRTHQI 244
>gi|260434078|ref|ZP_05788049.1| ribosomal large subunit pseudouridine synthase D [Silicibacter
lacuscaerulensis ITI-1157]
gi|260417906|gb|EEX11165.1| ribosomal large subunit pseudouridine synthase D [Silicibacter
lacuscaerulensis ITI-1157]
Length = 347
Score = 177 bits (450), Expect = 5e-42, Method: Compositional matrix adjust.
Identities = 110/284 (38%), Positives = 159/284 (55%), Gaps = 38/284 (13%)
Query: 57 GVQLEETVDTKAGKLRLDAWISSRI---DGISRARVQSSIRSGLVSINGQVVSKVSHNVK 113
G + E V +A RLD +S + + +SR R+ I G V+++G++V+ V
Sbjct: 2 GTRTIEFVIAEAPPPRLDKALSRDVPADESLSRTRLARLIEEGAVAVDGKLVTDAKAKVA 61
Query: 114 GGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGIL 173
G V T+SE EDIPLDIV+ED +++V+NKPA +VVHPAPG+ +GTLVN +L
Sbjct: 62 EGAAVCITVSEADESHIGPEDIPLDIVHEDADLIVINKPAGLVVHPAPGSPSGTLVNALL 121
Query: 174 HHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEH 233
HHC +D+S G RPGIVHR+DK TSGLLVVAK +
Sbjct: 122 HHC---------------GDDLSG--------VGGVKRPGIVHRIDKDTSGLLVVAKSDA 158
Query: 234 SHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIE--VPISRDPNNRIRMAAIPGSNKHGQ 291
+H L+ QF+ H++ER Y +L GVP + R+ +S +P N +R+ +KH +
Sbjct: 159 AHQGLAAQFEAHSVERYYRALCYGVPDANDPRLRGIKGVSFEPGNVMRITTQLARHKHDR 218
Query: 292 ---------ARHAASRYKVIEILAGGGS-ALVEWRLETGRTHQV 325
RHA +R +V+E+ G+ +L+E LETGRTHQ+
Sbjct: 219 QKQAVLFHGGRHAVTRARVVEVFGQPGAVSLIECWLETGRTHQI 262
>gi|393201806|ref|YP_006463648.1| pseudouridylate synthase, 23S RNA-specific [Solibacillus silvestris
StLB046]
gi|406664680|ref|ZP_11072455.1| Ribosomal large subunit pseudouridine synthase D [Bacillus
isronensis B3W22]
gi|327441137|dbj|BAK17502.1| pseudouridylate synthase, 23S RNA-specific [Solibacillus silvestris
StLB046]
gi|405387528|gb|EKB46952.1| Ribosomal large subunit pseudouridine synthase D [Bacillus
isronensis B3W22]
Length = 300
Score = 177 bits (450), Expect = 5e-42, Method: Compositional matrix adjust.
Identities = 107/263 (40%), Positives = 155/263 (58%), Gaps = 34/263 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
T++ AG+ R+D +S + SR+++ + + + +NG V K + VK GD++ T+
Sbjct: 7 TIEEFAGE-RIDKALSQMEESWSRSQISNWLDEERILVNGAAV-KAKYKVKQGDVIEVTV 64
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E++ L ED+ L+IVYED +VLVVNKP MVVHPAPG+ATGTLVNG++HHC
Sbjct: 65 PEVEDLEIIPEDLNLEIVYEDADVLVVNKPRGMVVHPAPGHATGTLVNGLMHHC------ 118
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
+D+ S I+G + RPGIVHR+DK TSGLL+VAK++ +H L Q
Sbjct: 119 ----------KDL-------SGINGVA-RPGIVHRIDKDTSGLLMVAKNDVAHESLVNQL 160
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
++ R Y +L G + G I+ PI RD +R + A + + +HA + ++VI
Sbjct: 161 VEKSVTRKYTALVHGHIAHEKGTIDAPIGRDQKDRQKQAVV------DKGKHAVTHFQVI 214
Query: 303 EILAGGGSALVEWRLETGRTHQV 325
E G LVE RLETGRTHQ+
Sbjct: 215 ERF--GEFTLVECRLETGRTHQI 235
>gi|237745359|ref|ZP_04575840.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium sp.
7_1]
gi|229432588|gb|EEO42800.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium sp.
7_1]
Length = 314
Score = 177 bits (450), Expect = 5e-42, Method: Compositional matrix adjust.
Identities = 103/269 (38%), Positives = 159/269 (59%), Gaps = 33/269 (12%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
+ E V+++ +RLD ++S +I+ +R+ ++ I + V IN ++++K +K G+ +
Sbjct: 7 KFEFEVNSEYKGMRLDKYLSEQIEEATRSYLEKLIDNNYVKINSKIINKNGRKLKLGEKI 66
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
+I E + + E E+IPLDIVYE+++ +V+NK MVVHPA GN TGTLVN +L++ +
Sbjct: 67 EVSIPEEENIDIEPENIPLDIVYENNDFIVINKNYGMVVHPAYGNYTGTLVNALLYYTNN 126
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
SSI+G +IRPGI+HRLDK TSGL++VAK ++HA L
Sbjct: 127 L-----------------------SSING-NIRPGIIHRLDKDTSGLILVAKSNYAHAKL 162
Query: 239 SEQFKLHTIERVYISLTSGVPSQS--SGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAA 296
+ F TI + Y+ + G S+ SGRIE I RD +R +MA + + + A
Sbjct: 163 ASMFIDKTIHKTYLCIVKGNFSEENISGRIENLIGRDSKDRKKMAVVKEN-----GKIAI 217
Query: 297 SRYKVIEILAGGGSALVEWRLETGRTHQV 325
S YKV+E + G +LVE +ETGRTHQ+
Sbjct: 218 SNYKVVEQVE--GYSLVEVAIETGRTHQI 244
>gi|126649705|ref|ZP_01721941.1| YlyB [Bacillus sp. B14905]
gi|126593424|gb|EAZ87369.1| YlyB [Bacillus sp. B14905]
Length = 303
Score = 177 bits (450), Expect = 5e-42, Method: Compositional matrix adjust.
Identities = 107/267 (40%), Positives = 153/267 (57%), Gaps = 33/267 (12%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q+ T++ + R+D +SS SR ++ + + G + +NG V K + VK GD++
Sbjct: 3 QVTYTIEEQQQGERIDKALSSLQSEWSRTQIGNWVSDGNIKVNGDAV-KPKYKVKAGDVI 61
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
+ E +PL AE++ LDIVYED +VLVVNKP MVVHPAPG+ TGTLVNG+++ C
Sbjct: 62 AIDVPEAEPLDVIAENLALDIVYEDADVLVVNKPKGMVVHPAPGHLTGTLVNGLMYQC-- 119
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 120 --------------KDL-------SGINGI-MRPGIVHRIDKDTSGLLMVAKNDVAHESL 157
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
+Q T+ R YI+L G + G I+ PI RD +R + A + +HA +
Sbjct: 158 VDQLVNKTVTRKYIALVHGHIAHDKGTIDAPIGRDQKDRQKQAIV------DNGKHAVTH 211
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQV 325
+ V+E G LVE RLETGRTHQ+
Sbjct: 212 FHVVERF--GDYTLVECRLETGRTHQI 236
>gi|428216631|ref|YP_007101096.1| ribosomal large subunit pseudouridine synthase D [Pseudanabaena sp.
PCC 7367]
gi|427988413|gb|AFY68668.1| ribosomal large subunit pseudouridine synthase D [Pseudanabaena sp.
PCC 7367]
Length = 316
Score = 177 bits (450), Expect = 5e-42, Method: Compositional matrix adjust.
Identities = 102/255 (40%), Positives = 147/255 (57%), Gaps = 32/255 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
+RLD+++++ + SR+R+Q I G+V N Q + VK GD + I EL+ L
Sbjct: 28 VRLDSYLATCLTEFSRSRIQKLIEQGMVQQNQQTCTSKKAIVKDGDYLTIEIPELERLTI 87
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
E + I LDI+YED+++L +NKP MVVHPAPG++ GTLVN +L HC
Sbjct: 88 EPQAIDLDILYEDEHLLAINKPVGMVVHPAPGHSEGTLVNALLAHC-------------- 133
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
+ S I+G RPGIVHRLDK TSG +VVAK++ +H L Q + T R
Sbjct: 134 ---------QHLSGINGVQ-RPGIVHRLDKDTSGAIVVAKNDFAHHSLQAQIQAKTARRC 183
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y+ L GVP+ SSG I PI+R +R +MA + R A + ++++E L G
Sbjct: 184 YLGLVFGVPNASSGIINAPIARHQRDRKKMAVVE------TGRSAITHWRLLERL--GHF 235
Query: 311 ALVEWRLETGRTHQV 325
+L+++ LETGRTHQ+
Sbjct: 236 SLLQFDLETGRTHQI 250
>gi|89055892|ref|YP_511343.1| ribosomal large subunit pseudouridine synthase D [Jannaschia sp.
CCS1]
gi|88865441|gb|ABD56318.1| ribosomal large subunit pseudouridine synthase D [Jannaschia sp.
CCS1]
Length = 310
Score = 177 bits (450), Expect = 5e-42, Method: Compositional matrix adjust.
Identities = 111/261 (42%), Positives = 144/261 (55%), Gaps = 49/261 (18%)
Query: 82 DGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAEAEDIPLDIVY 141
+ ISR R+ I +G V+ING+VV+ V GD V T+ + + AEDIPLDIV+
Sbjct: 5 EAISRTRLARLIPAGAVAINGRVVTDPKARVAEGDGVEITVEDAAEVETVAEDIPLDIVH 64
Query: 142 EDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSDAEDISDDEEF 201
EDD+++VVNKPA MVVHPAPG+ +GTLVN +LHH F
Sbjct: 65 EDDDLIVVNKPAGMVVHPAPGSPSGTLVNALLHH-------------------------F 99
Query: 202 SSSIS--GASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVYISLTSGVP 259
+S G RPGIVHR+DK TSGLLVVAK + +H L+ QF H++ER Y++L GVP
Sbjct: 100 GGKLSGVGGEKRPGIVHRIDKDTSGLLVVAKSDRAHHGLAAQFADHSMEREYLALCHGVP 159
Query: 260 SQSSGR---------------IEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEI 304
S R I ++R +R R A + RHA +R +V+E
Sbjct: 160 DGSDPRLRGVKGVSFEGSTVKITTQLARHKTDRQRQAVL-----FSGGRHAVTRVRVLE- 213
Query: 305 LAGGGSALVEWRLETGRTHQV 325
A G ALV RLETGRTHQ+
Sbjct: 214 -AHGPVALVSCRLETGRTHQI 233
>gi|393718553|ref|ZP_10338480.1| ribosomal large subunit pseudouridine synthase D [Sphingomonas
echinoides ATCC 14820]
Length = 316
Score = 177 bits (450), Expect = 5e-42, Method: Compositional matrix adjust.
Identities = 106/267 (39%), Positives = 153/267 (57%), Gaps = 32/267 (11%)
Query: 60 LEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVS-INGQVVSKVSHNVKGGDMV 118
LE V A LRLD ++ + +SR R+++ I SG V+ G V + S G +
Sbjct: 8 LEARVSATAQGLRLDRALADALPDVSRERLKALIASGAVTDPRGHVANDPSGKAIAGGLY 67
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
+ P A+DI L++V+EDD ++V++K A +VVHPA GNA GTLVN +LHHC+
Sbjct: 68 LVAVPAPTPSHNAAQDIALNVVFEDDELIVIDKQAGLVVHPAAGNADGTLVNALLHHCA- 126
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
N S I G + RPGIVHR+DK TSGL+V AK + +H L
Sbjct: 127 -----GNL----------------SGIGGVA-RPGIVHRIDKDTSGLMVAAKTDRAHEGL 164
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
++QF H+I+R Y ++ SG P+ +G ++ P++R P+NR ++A +PG + A +
Sbjct: 165 AKQFHDHSIDRRYKAIVSGQPAPPTGTVDAPLARSPSNRKKIAIVPGGKR------AVTH 218
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQV 325
+ IE L +ALVE RLETGRTHQV
Sbjct: 219 FTTIERLQ--DAALVECRLETGRTHQV 243
>gi|56419681|ref|YP_146999.1| hypothetical protein GK1146 [Geobacillus kaustophilus HTA426]
gi|261419335|ref|YP_003253017.1| pseudouridine synthase [Geobacillus sp. Y412MC61]
gi|297530695|ref|YP_003671970.1| pseudouridine synthase [Geobacillus sp. C56-T3]
gi|319766151|ref|YP_004131652.1| pseudouridine synthase [Geobacillus sp. Y412MC52]
gi|56379523|dbj|BAD75431.1| hypothetical conserved protein [Geobacillus kaustophilus HTA426]
gi|261375792|gb|ACX78535.1| pseudouridine synthase, RluA family [Geobacillus sp. Y412MC61]
gi|297253947|gb|ADI27393.1| pseudouridine synthase, RluA family [Geobacillus sp. C56-T3]
gi|317111017|gb|ADU93509.1| pseudouridine synthase, RluA family [Geobacillus sp. Y412MC52]
Length = 304
Score = 177 bits (450), Expect = 5e-42, Method: Compositional matrix adjust.
Identities = 110/264 (41%), Positives = 151/264 (57%), Gaps = 32/264 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D I++ + SR++VQ I++GLV++NGQ V K ++ + GD V + E +PL E
Sbjct: 16 RIDKVIAALNEEWSRSQVQQWIKNGLVTVNGQTV-KANYKCEAGDSVAVSPPEPEPLHVE 74
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E IPLDI YED++VLVVNKP MVVHPAPG+ GTLVN +L HC
Sbjct: 75 PEPIPLDIYYEDEDVLVVNKPRGMVVHPAPGHMRGTLVNALLAHCR-------------- 120
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L EQ T+ R Y
Sbjct: 121 --DL-------SGINGV-LRPGIVHRIDKDTSGLLMVAKNDAAHRSLVEQLVNKTVTRRY 170
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++ GV G I+ PI RD +R +MA + K A + ++V+E
Sbjct: 171 KAIVHGVIPHDYGTIDAPIGRDKRDRKKMAVTEENGK-----EAVTHFRVLERFR--HYT 223
Query: 312 LVEWRLETGRTHQVLMLYKLFYIP 335
VE +LETGRTHQ+ + K P
Sbjct: 224 YVECQLETGRTHQIRVHMKYIGYP 247
>gi|152976253|ref|YP_001375770.1| RluA family pseudouridine synthase [Bacillus cytotoxicus NVH
391-98]
gi|152025005|gb|ABS22775.1| pseudouridine synthase, RluA family [Bacillus cytotoxicus NVH
391-98]
Length = 302
Score = 177 bits (450), Expect = 5e-42, Method: Compositional matrix adjust.
Identities = 107/264 (40%), Positives = 156/264 (59%), Gaps = 33/264 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D +++S SR +VQ I+ G++++NG+ V K ++ VK D + T+ E + L
Sbjct: 17 RIDKFVASVNHEWSRTQVQQWIKDGVITVNGKTV-KGNYKVKENDEITVTVPEPEELDIR 75
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AED+ L+I YED +VLVVNKP MVVHPAPG+ +GTLVNG+++HC+
Sbjct: 76 AEDMNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMYHCT-------------- 121
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q T+ R Y
Sbjct: 122 --DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVEKTVTRRY 171
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++ GV G I+ PI+RD +R MA +++G +HA + ++V+E
Sbjct: 172 QAIVHGVIPHDKGTIDAPIARDKKDRQSMAV----DENG--KHAVTHFQVLERFK--DFT 223
Query: 312 LVEWRLETGRTHQVLMLYKLFYIP 335
LVE RLETGRTHQ+ + K P
Sbjct: 224 LVECRLETGRTHQIRVHMKYIGYP 247
>gi|347534401|ref|YP_004841071.1| RNA pseudouridine synthase ylyB [Lactobacillus sanfranciscensis TMW
1.1304]
gi|345504457|gb|AEN99139.1| Uncharacterized RNA pseudouridine synthase ylyB [Lactobacillus
sanfranciscensis TMW 1.1304]
Length = 306
Score = 177 bits (450), Expect = 5e-42, Method: Compositional matrix adjust.
Identities = 104/264 (39%), Positives = 141/264 (53%), Gaps = 33/264 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD IS I ISR+ I+ V +NG+ K + VK GD + + Q L E
Sbjct: 14 RLDKSISETISDISRSHANELIKQNFVKVNGES-QKAKYKVKKGDEITVEVPAPQKLDLE 72
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E+I LDI+YED +VLVVNKP MVVHPAPG+ TLVN +L+H +LP +
Sbjct: 73 PENIKLDIIYEDKDVLVVNKPQGMVVHPAPGHPNHTLVNALLYHTNLPNI---------- 122
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+ RPGIVHR+DK TSGLL+VAK E + LS+Q K T R Y
Sbjct: 123 ---------------NGTFRPGIVHRIDKDTSGLLMVAKSEVALKSLSQQLKNKTSRRKY 167
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
I+L G + +G I+ P+ R P +R + A + R+A + +KV+E G
Sbjct: 168 IALVHGSIKEDTGTIDAPLGRSPKDRKKQAIV------SDGRNAVTHFKVLERF-GNDYT 220
Query: 312 LVEWRLETGRTHQVLMLYKLFYIP 335
L++ +LETGRTHQ+ + K P
Sbjct: 221 LIQCQLETGRTHQIRVHMKYINHP 244
>gi|95929105|ref|ZP_01311850.1| Pseudouridine synthase, RluD [Desulfuromonas acetoxidans DSM 684]
gi|95135006|gb|EAT16660.1| Pseudouridine synthase, RluD [Desulfuromonas acetoxidans DSM 684]
Length = 350
Score = 177 bits (450), Expect = 5e-42, Method: Compositional matrix adjust.
Identities = 96/254 (37%), Positives = 151/254 (59%), Gaps = 30/254 (11%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +++ ++ ++R++++ + GLV +N Q V K ++GG+ V T+ + Q +
Sbjct: 17 RLDRFLTRQLPELTRSQLKKLVDDGLVRVNDQTV-KAGAKLRGGETVCVTLPQAQSVETL 75
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
ED+PL ++YED +++V+NK A MVVHPA G+++GTLVN +L+HC
Sbjct: 76 PEDLPLTVLYEDSDLIVINKAAGMVVHPAAGHSSGTLVNALLYHC--------------- 120
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
D+S G +RPGIVHRLDK TSG++V K++ +H HL+ QFK H+I+R Y
Sbjct: 121 -HDLSG--------VGGELRPGIVHRLDKDTSGVMVATKNDVTHNHLAAQFKDHSIQRRY 171
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++L G + G I+ PI R P +R +M ++K R A + +KV+ +
Sbjct: 172 VALVHGQVQNARGTIDAPIGRHPTHRKKM-----TSKGRGGRRAVTHWKVLRRYDADRLS 226
Query: 312 LVEWRLETGRTHQV 325
L+E RLETGRTHQ+
Sbjct: 227 LLEMRLETGRTHQI 240
>gi|256846833|ref|ZP_05552288.1| pseudouridylate synthase [Fusobacterium sp. 3_1_36A2]
gi|256717799|gb|EEU31357.1| pseudouridylate synthase [Fusobacterium sp. 3_1_36A2]
Length = 316
Score = 177 bits (450), Expect = 5e-42, Method: Compositional matrix adjust.
Identities = 103/269 (38%), Positives = 159/269 (59%), Gaps = 33/269 (12%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
+ E V ++ +RLD ++S +I+ +R+ ++ I + V IN +V++K +K G+ +
Sbjct: 7 KFEFEVSSEYEGMRLDKYLSKQIEEATRSYLEKLIDNNYVKINSKVINKNGRKLKLGEKI 66
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
+I + + + EAE+I LDIVYE+D+ +V+NK MVVHPA GN +GTLVN +L++ +
Sbjct: 67 EVSIPKEENIDIEAENISLDIVYENDDFIVINKSYGMVVHPAYGNYSGTLVNALLYYTNN 126
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
SSI+G +IRPGI+HRLDK TSGL++VAK+ ++HA L
Sbjct: 127 L-----------------------SSING-NIRPGIIHRLDKDTSGLILVAKNNYAHAKL 162
Query: 239 SEQFKLHTIERVYISLTSGVPSQS--SGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAA 296
+ F TI + Y+ + G S+ +GRIE I RD +R +MA + + + A
Sbjct: 163 ASMFTDKTIHKTYLCIVKGNFSEENLNGRIENLIGRDSKDRKKMAVVKEN-----GKTAI 217
Query: 297 SRYKVIEILAGGGSALVEWRLETGRTHQV 325
S YKVIE + G +LVE +ETGRTHQ+
Sbjct: 218 SNYKVIEQV--DGYSLVEIAIETGRTHQI 244
>gi|295109999|emb|CBL23952.1| ribosomal large subunit pseudouridine synthase D [Ruminococcus
obeum A2-162]
Length = 304
Score = 177 bits (450), Expect = 6e-42, Method: Compositional matrix adjust.
Identities = 100/266 (37%), Positives = 149/266 (56%), Gaps = 31/266 (11%)
Query: 60 LEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
LE VD A +R+D +++ + SR+ +Q ++ V +NG+V+ K ++ + GD +
Sbjct: 4 LEFNVDASANNIRIDRYLADQCPEHSRSYIQKLLKEEQVLVNGRVI-KANYKTQSGDYIE 62
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
I + + E+IPLDI+YEDD VLVVNKP MVVHP+ G+ +GTLVN ++ HC
Sbjct: 63 FHIPDPEVPDILPENIPLDILYEDDYVLVVNKPKDMVVHPSAGHTSGTLVNAVMAHCG-- 120
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
E S I+G +RPGIVHR+DK T+G L++ KD+ H L+
Sbjct: 121 --------------------EHLSGINGV-LRPGIVHRIDKDTTGALLICKDDVVHRDLA 159
Query: 240 EQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRY 299
EQ K H+I+R Y ++ G + G + P+ R P +R +MA H + A + Y
Sbjct: 160 EQLKEHSIKRRYRAVVQGNLKEDEGTVNAPVGRHPTDRKKMAI-----NHKNGKEAITHY 214
Query: 300 KVIEILAGGGSALVEWRLETGRTHQV 325
KV+E G + +E RLETGRTHQ+
Sbjct: 215 KVLERF--GQATYIECRLETGRTHQI 238
>gi|319937281|ref|ZP_08011688.1| pseudouridine synthase [Coprobacillus sp. 29_1]
gi|319807647|gb|EFW04240.1| pseudouridine synthase [Coprobacillus sp. 29_1]
Length = 305
Score = 177 bits (449), Expect = 6e-42, Method: Compositional matrix adjust.
Identities = 107/262 (40%), Positives = 159/262 (60%), Gaps = 33/262 (12%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
V+ + G+ R+D ++ + SR ++QS I++G V I+ + + K S+ V+ G+ V I
Sbjct: 9 VEEQKGQ-RIDKILAKELADFSRTQIQSLIQNGYVVIDEKPI-KASYKVETGEDVIVYIP 66
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
+ + EDIPLD+VYED +V+V+NKP M+VHP+ G +GTLVN +L+HC
Sbjct: 67 KPESTDILPEDIPLDVVYEDQDVIVINKPTGMIVHPSIGIYSGTLVNALLYHCH------ 120
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
D+S I+G + RPGIVHR+DK TSGLL+VAK++ +H LS+Q +
Sbjct: 121 ----------DLS-------GINGVT-RPGIVHRIDKETSGLLMVAKNDKAHQSLSKQLQ 162
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
HT+ R Y++L G+ GRIE PI RD N+R +M ++K+ A+ A + +KVIE
Sbjct: 163 EHTVTRRYLALVHGLIPHEFGRIEAPIGRDKNDRQKMTC---TDKN--AKDAITNFKVIE 217
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
+LVE RLETGRTHQ+
Sbjct: 218 RFR--DMSLVECRLETGRTHQI 237
>gi|421597794|ref|ZP_16041336.1| pseudouridine synthase-like protein [Bradyrhizobium sp. CCGE-LA001]
gi|404270096|gb|EJZ34234.1| pseudouridine synthase-like protein [Bradyrhizobium sp. CCGE-LA001]
Length = 326
Score = 177 bits (449), Expect = 6e-42, Method: Compositional matrix adjust.
Identities = 104/274 (37%), Positives = 152/274 (55%), Gaps = 37/274 (13%)
Query: 60 LEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
+E V G RLD +++ + +SR+R+++ I +G VS+ V +++V GD +
Sbjct: 1 MEVVVGGDEGSARLDRVLAAHLTDLSRSRLKALILAGAVSLRASAVRDPAYHVASGDTIT 60
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
+ E P + EDI LDIV+EDD+++V+NKP +VVHPA G+ TGTLVN ++ HC
Sbjct: 61 IDVPEASPAEPQGEDIALDIVFEDDDIIVINKPKGLVVHPAAGHETGTLVNALIAHCG-- 118
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
S S G RPGIVHRLDK T+GL+VVAK++ +HA LS
Sbjct: 119 ---------------------ASLSGIGGVRRPGIVHRLDKDTTGLMVVAKNDLAHASLS 157
Query: 240 EQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHA 295
QF H + R Y++ GVP + G ++ PI R P+ R +MA G R A
Sbjct: 158 AQFADHGRTGEMRRGYMAFAWGVPHRHRGTVDAPIDRHPHAREKMAVRQGG------REA 211
Query: 296 ASRYKVIEILAG----GGSALVEWRLETGRTHQV 325
+ ++++E AG G +AL+ LETGRTHQ+
Sbjct: 212 VTHWEILESFAGPDGKGVAALLACELETGRTHQI 245
>gi|309792569|ref|ZP_07687031.1| RluA family pseudouridine synthase [Oscillochloris trichoides DG-6]
gi|308225383|gb|EFO79149.1| RluA family pseudouridine synthase [Oscillochloris trichoides DG6]
Length = 299
Score = 177 bits (449), Expect = 6e-42, Method: Compositional matrix adjust.
Identities = 102/262 (38%), Positives = 147/262 (56%), Gaps = 34/262 (12%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
++ +A RLD +++ + +SR+ VQ I +G V +N Q V + SH ++ GD+V+ T+
Sbjct: 1 MEAQAAGHRLDRFVAQALPDLSRSFVQHLIAAGQVLVNAQAV-RPSHALRHGDLVSVTVP 59
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
QP+ E IPL +VYED +V+VV KPA MVVHPAPG+ GTLVN +L
Sbjct: 60 PAQPVALVPEAIPLHVVYEDADVVVVEKPAGMVVHPAPGHPNGTLVNALL---------- 109
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
+ G +RPGIVHRLD GTSGLLVVA+ + + HL+
Sbjct: 110 ---------------ARYPDMQVGGDLRPGIVHRLDAGTSGLLVVARHDQALRHLTALQH 154
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
+ ++Y+++ G Q+ G I+ P+ R P++R+RMA P R A + Y+V E
Sbjct: 155 ARQMRKIYLAVAEGRFKQAEGLIDAPVGRHPHDRLRMAVTP------TGREARTHYRVCE 208
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
L G L+E RLETGRTHQ+
Sbjct: 209 EL--GNYTLLELRLETGRTHQI 228
>gi|404498283|ref|YP_006722389.1| 23S rRNA pseudouridines 1911, 1915, 1917 synthase [Geobacter
metallireducens GS-15]
gi|418068066|ref|ZP_12705386.1| pseudouridine synthase, RluA family [Geobacter metallireducens
RCH3]
gi|78195880|gb|ABB33647.1| 23S rRNA pseudouridines 1911, 1915, 1917 synthase [Geobacter
metallireducens GS-15]
gi|373557678|gb|EHP84072.1| pseudouridine synthase, RluA family [Geobacter metallireducens
RCH3]
Length = 319
Score = 177 bits (449), Expect = 6e-42, Method: Compositional matrix adjust.
Identities = 107/254 (42%), Positives = 154/254 (60%), Gaps = 32/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +++ ++G++R+ VQ I G V+++G+V K S ++GG+ + + P E
Sbjct: 17 RLDQFVARSVEGMTRSTVQRLIDEGRVTVDGKV-EKPSLKLRGGERIVVAVPPPAPAVPE 75
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AE+IPL I++ED +++VVNK A MVVHP G GTLVN +L HC+
Sbjct: 76 AEEIPLVILHEDSDLVVVNKSAGMVVHPGAGTPGGTLVNALLAHCT-------------- 121
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
D+S G IRPGIVHR+DK T+G+LVVAK++ SH L+ QF+ HTI+R+Y
Sbjct: 122 --DLSG--------IGGEIRPGIVHRIDKDTTGVLVVAKNDRSHEGLARQFREHTIKRIY 171
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++L G P +GRIE I R P +R+RM+ G KHG +HA + +KV+ G
Sbjct: 172 LALVFGSPKTDTGRIEGAIGRHPTDRLRMS---GKAKHG--KHAVTHWKVLARYP--GMT 224
Query: 312 LVEWRLETGRTHQV 325
L+ RLETGRTHQ+
Sbjct: 225 LLRLRLETGRTHQI 238
>gi|237740892|ref|ZP_04571373.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium sp.
4_1_13]
gi|229431189|gb|EEO41401.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium sp.
4_1_13]
Length = 314
Score = 177 bits (449), Expect = 6e-42, Method: Compositional matrix adjust.
Identities = 103/269 (38%), Positives = 159/269 (59%), Gaps = 33/269 (12%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
+ E V ++ +RLD ++S +I+ +R+ ++ I + V IN +V++K +K G+ +
Sbjct: 7 KFEFEVSSEYEGMRLDKYLSKQIEEATRSYLEKLIDNNYVKINSKVINKNGRKLKLGEKI 66
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
+I + + + EAE+I LDIVYE+D+ +V+NK MVVHPA GN +GTLVN +L++ +
Sbjct: 67 EVSIPKEENIDIEAENISLDIVYENDDFIVINKSYGMVVHPAYGNYSGTLVNALLYYTNN 126
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
SSI+G +IRPGI+HRLDK TSGL++VAK+ ++HA L
Sbjct: 127 L-----------------------SSING-NIRPGIIHRLDKDTSGLILVAKNNYAHAKL 162
Query: 239 SEQFKLHTIERVYISLTSGVPSQS--SGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAA 296
+ F TI + Y+ + G S+ +GRIE I RD +R +MA + + + A
Sbjct: 163 ASMFTDKTIHKTYLCIVKGNFSEENLNGRIENLIGRDSKDRKKMAVVKEN-----GKTAI 217
Query: 297 SRYKVIEILAGGGSALVEWRLETGRTHQV 325
S YKVIE + G +LVE +ETGRTHQ+
Sbjct: 218 SNYKVIEQV--DGYSLVEIAIETGRTHQI 244
>gi|94497522|ref|ZP_01304091.1| Pseudouridine synthase, RluD [Sphingomonas sp. SKA58]
gi|94422939|gb|EAT07971.1| Pseudouridine synthase, RluD [Sphingomonas sp. SKA58]
Length = 317
Score = 177 bits (449), Expect = 6e-42, Method: Compositional matrix adjust.
Identities = 109/268 (40%), Positives = 156/268 (58%), Gaps = 33/268 (12%)
Query: 60 LEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVK--GGDM 117
+E T+ LRLD ++ + +SR R+++ I G ++ V ++S ++K G
Sbjct: 8 IEATIGPAQHGLRLDRALADLLPDLSRERLKTLIGDG--QVHSAPVGRISGSMKVAEGQR 65
Query: 118 VNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCS 177
T+ PL A+DIPL IV+ED ++LVV+KPA +VVHPA GN GTLVN +LHHC+
Sbjct: 66 FTITLPPPVPLDTVAQDIPLTIVHEDADLLVVDKPAGLVVHPAAGNLDGTLVNALLHHCA 125
Query: 178 LPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAH 237
S I G + RPGIVHR+DK TSGLLVVAK + +H
Sbjct: 126 ----------------------GQLSGIGGVA-RPGIVHRIDKDTSGLLVVAKTDRAHEG 162
Query: 238 LSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAAS 297
L+ QFK H+IER Y ++T G+P +G ++ I R +R +MA ++ G+ +HA +
Sbjct: 163 LARQFKDHSIERAYAAITYGIPVPPAGTVDSWIGRSDADRKKMAV----HREGRGKHAVT 218
Query: 298 RYKVIEILAGGGSALVEWRLETGRTHQV 325
Y+ ++ L G+ALVE RLETGRTHQV
Sbjct: 219 HYRTLDRLR--GAALVECRLETGRTHQV 244
>gi|47570307|ref|ZP_00240954.1| ribosomal large subunit pseudouridine synthase D [Bacillus cereus
G9241]
gi|47553016|gb|EAL11420.1| ribosomal large subunit pseudouridine synthase D [Bacillus cereus
G9241]
Length = 302
Score = 177 bits (449), Expect = 6e-42, Method: Compositional matrix adjust.
Identities = 109/273 (39%), Positives = 158/273 (57%), Gaps = 33/273 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV + R+D +++ SR++VQ I+ +V++NG+ V KV++ VK D + TI
Sbjct: 8 TVAEEQKSERIDKFVAEINGEWSRSQVQQWIKDDVVTVNGKSV-KVNYKVKENDEITVTI 66
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
+ + L +AED+ L+I YED +VLVVNKP MVVHPAPG+ +GTLVNG++HHC+
Sbjct: 67 PDPEELDIQAEDMNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCT----- 121
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q
Sbjct: 122 -----------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQL 162
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
T+ R Y ++ GV G I+ PI+RD R M +++G +HA + ++V+
Sbjct: 163 VAKTVTRRYKAIVHGVIPHDKGTIDAPIARDKKERQSMTV----DENG--KHAVTHFQVL 216
Query: 303 EILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
E LVE RLETGRTHQ+ + K P
Sbjct: 217 ERFK--DFTLVECRLETGRTHQIRVHMKYIGYP 247
>gi|421144716|ref|ZP_15604623.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium
nucleatum subsp. fusiforme ATCC 51190]
gi|395488855|gb|EJG09703.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium
nucleatum subsp. fusiforme ATCC 51190]
Length = 314
Score = 177 bits (449), Expect = 6e-42, Method: Compositional matrix adjust.
Identities = 103/269 (38%), Positives = 159/269 (59%), Gaps = 33/269 (12%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
+ E V ++ +RLD ++S +I+ +R+ ++ I + V IN +V++K +K G+ +
Sbjct: 7 KFEFEVSSEYEGMRLDKYLSKQIEEATRSYLEKLIDNNYVKINSKVINKNGKKLKLGEKI 66
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
+I + + + EAE+I LDIVYE+D+ +V+NK MVVHPA GN +GTLVN +L++ +
Sbjct: 67 EVSIPKEENIDIEAENISLDIVYENDDFIVINKSYGMVVHPAYGNYSGTLVNALLYYTNN 126
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
SSI+G +IRPGI+HRLDK TSGL++VAK+ ++HA L
Sbjct: 127 L-----------------------SSING-NIRPGIIHRLDKDTSGLILVAKNNYAHAKL 162
Query: 239 SEQFKLHTIERVYISLTSGVPSQS--SGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAA 296
+ F TI + Y+ + G S+ +GRIE I RD +R +MA + + + A
Sbjct: 163 ASMFTDKTIHKTYLCIVKGNFSEENLNGRIENLIGRDSKDRKKMAVVKEN-----GKTAI 217
Query: 297 SRYKVIEILAGGGSALVEWRLETGRTHQV 325
S YKVIE + G +LVE +ETGRTHQ+
Sbjct: 218 SNYKVIEQV--DGYSLVEIAIETGRTHQI 244
>gi|363897267|ref|ZP_09323806.1| hypothetical protein HMPREF9624_00368 [Oribacterium sp. ACB7]
gi|361958764|gb|EHL12061.1| hypothetical protein HMPREF9624_00368 [Oribacterium sp. ACB7]
Length = 304
Score = 177 bits (449), Expect = 6e-42, Method: Compositional matrix adjust.
Identities = 107/262 (40%), Positives = 155/262 (59%), Gaps = 33/262 (12%)
Query: 65 DTKAGKLRLDAWISSR-IDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
D AGK RLD++++ + +R+ + I LV NG+ SK S +K GD +
Sbjct: 7 DVDAGK-RLDSFLAEKNTANYTRSFIGKMIEENLVLYNGKP-SKASTKIKTGDRIELFEK 64
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
E +PL + E+IPL+IVYEDD+++V+NKP MVVHPAPG+ +GTLVN +L H
Sbjct: 65 EPEPLAVKGEEIPLEIVYEDDDLMVINKPRGMVVHPAPGHTSGTLVNAVLSHAG------ 118
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
E SSI+G +RPGIVHR+DK TSGL++V K++ SH L++Q +
Sbjct: 119 ----------------ESLSSINGV-LRPGIVHRIDKDTSGLILVCKNDFSHKALAKQLE 161
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
H+I R Y ++ SG + G + PI RD NR + A + KHG + A + Y+++E
Sbjct: 162 EHSITRRYHAICSGRLKEEQGTVSAPIGRDEKNRKQQAI---NYKHG--KEAITHYRLLE 216
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
L ++L+E RLETGRTHQ+
Sbjct: 217 NLQ--NASLLECRLETGRTHQI 236
>gi|392960490|ref|ZP_10325958.1| pseudouridine synthase, RluA family [Pelosinus fermentans DSM
17108]
gi|421054753|ref|ZP_15517718.1| pseudouridine synthase, RluA family [Pelosinus fermentans B4]
gi|421061524|ref|ZP_15523839.1| pseudouridine synthase, RluA family [Pelosinus fermentans B3]
gi|421066823|ref|ZP_15528377.1| pseudouridine synthase, RluA family [Pelosinus fermentans A12]
gi|421071616|ref|ZP_15532732.1| pseudouridine synthase, RluA family [Pelosinus fermentans A11]
gi|392440434|gb|EIW18114.1| pseudouridine synthase, RluA family [Pelosinus fermentans B4]
gi|392446881|gb|EIW24152.1| pseudouridine synthase, RluA family [Pelosinus fermentans A11]
gi|392449275|gb|EIW26404.1| pseudouridine synthase, RluA family [Pelosinus fermentans B3]
gi|392453103|gb|EIW30007.1| pseudouridine synthase, RluA family [Pelosinus fermentans A12]
gi|392455067|gb|EIW31874.1| pseudouridine synthase, RluA family [Pelosinus fermentans DSM
17108]
Length = 308
Score = 177 bits (449), Expect = 6e-42, Method: Compositional matrix adjust.
Identities = 103/261 (39%), Positives = 159/261 (60%), Gaps = 33/261 (12%)
Query: 65 DTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISE 124
+++AG+ RLD +++ ++ GISR+ VQ I SG V++N ++ +K ++ V+ D + +I E
Sbjct: 11 ESQAGE-RLDIFLTKQMPGISRSAVQRLISSGDVTVNKKI-AKANYKVQELDDIQVSIPE 68
Query: 125 LQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASS 184
++ L AE+IPL I+YED++++++NK MVVHPAPGN GTLVN +L HC
Sbjct: 69 IKTLELTAEEIPLAILYEDNDIIIINKSRGMVVHPAPGNYNGTLVNALLEHC-------- 120
Query: 185 NQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKL 244
ED+ S I+G + RPGIVHRLDK TSG++ VAK + +H L++Q K
Sbjct: 121 --------EDL-------SGINGVA-RPGIVHRLDKDTSGVMAVAKSDRAHVSLAKQIKE 164
Query: 245 HTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEI 304
T R Y+++ G + G I+ PI R P+ R +MA ++K A ++++V+E
Sbjct: 165 RTASRRYLAIVYGNIKEDHGVIKAPIGRHPSERKKMAVTFTNSK-----EATTKFRVMER 219
Query: 305 LAGGGSALVEWRLETGRTHQV 325
G LVE +L TGRTHQ+
Sbjct: 220 F--GDYTLVECKLLTGRTHQI 238
>gi|395782121|ref|ZP_10462526.1| RluA family pseudouridine synthase [Bartonella rattimassiliensis
15908]
gi|395419611|gb|EJF85909.1| RluA family pseudouridine synthase [Bartonella rattimassiliensis
15908]
Length = 332
Score = 177 bits (449), Expect = 7e-42, Method: Compositional matrix adjust.
Identities = 103/276 (37%), Positives = 157/276 (56%), Gaps = 35/276 (12%)
Query: 60 LEETVDTKAGKLRLDAWISSRIDGI-SRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
+++ + A RLD W++ + + SR+R+Q IR G + I+GQ + + +K ++
Sbjct: 3 IQKITNESALGQRLDQWLAKQYRNVLSRSRLQILIREGYLKIDGQFIKEAKTKLKPNQII 62
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
+ +L+ + AEDI LDI++EDD+V+V+NKPA +VVHP GN TGTLVN +++HC
Sbjct: 63 ELIMPDLRNAKPSAEDIALDILFEDDHVIVINKPAGLVVHPGNGNWTGTLVNALIYHCG- 121
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
S S G RPGIVHRLDK TSG++VVAK++ +H L
Sbjct: 122 ----------------------NSLSGIGGVKRPGIVHRLDKNTSGVMVVAKNDLAHKSL 159
Query: 239 SEQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARH 294
S QF H ++R Y +L G P ++ I+ + R P+NR + A I NK+ ARH
Sbjct: 160 SAQFSDHGRTCALDRRYHALIWGTPHRNIWTIDASLGRSPHNRTKQAVI--HNKNSYARH 217
Query: 295 AASRYKVIEIL-----AGGGSALVEWRLETGRTHQV 325
A + + ++E + ++L+E RLETGRTHQ+
Sbjct: 218 AVTHFSLLEKYGTHTDSTSFASLLECRLETGRTHQI 253
>gi|340355065|ref|ZP_08677758.1| ribosomal large subunit pseudouridine synthase D [Sporosarcina
newyorkensis 2681]
gi|339622746|gb|EGQ27260.1| ribosomal large subunit pseudouridine synthase D [Sporosarcina
newyorkensis 2681]
Length = 302
Score = 177 bits (449), Expect = 7e-42, Method: Compositional matrix adjust.
Identities = 107/274 (39%), Positives = 156/274 (56%), Gaps = 34/274 (12%)
Query: 62 ETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCT 121
E + AG R+D ++ SR ++Q ++ + +NG + K ++ VK GD+V+
Sbjct: 7 EITEETAGN-RIDKALALLQPDWSRTQIQQWVKDERIQVNGSFI-KSNYKVKTGDVVSVE 64
Query: 122 ISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTL 181
E + EAED+ L+IVYED +VLVVNKP MVVHP+PG+ +GTLVNG++H C+
Sbjct: 65 QPEPEAYDIEAEDLNLEIVYEDQDVLVVNKPVGMVVHPSPGHLSGTLVNGLMHQCT---- 120
Query: 182 ASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQ 241
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L +Q
Sbjct: 121 ------------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDKAHVSLVDQ 160
Query: 242 FKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKV 301
++ RVY +L G +G I+ PI RDP +R +MA + ++A + +KV
Sbjct: 161 LVEKSVNRVYTALVHGHIPHDNGTIDAPIGRDPRDRQKMAVV------DNGKNAVTHFKV 214
Query: 302 IEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+E G LVE RLETGRTHQ+ + K P
Sbjct: 215 LERF--GDYTLVECRLETGRTHQIRVHMKYIGYP 246
>gi|406884880|gb|EKD32204.1| hypothetical protein ACD_77C00153G0003, partial [uncultured
bacterium]
Length = 318
Score = 177 bits (449), Expect = 7e-42, Method: Compositional matrix adjust.
Identities = 109/263 (41%), Positives = 156/263 (59%), Gaps = 31/263 (11%)
Query: 65 DTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI-S 123
D LR+D +I+S ++ SR R+Q +I +G V +N +VV K ++ VK D++ +
Sbjct: 32 DKGQSSLRVDKYITSHMEKTSRHRIQLAIGAGYVFVNDKVV-KANYMVKPFDVITIVLPY 90
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
+ + E+IPL+IV+ED ++LV+NKPA +VVHP G+ +GTLVN + H L
Sbjct: 91 KRRGFEVGPENIPLEIVFEDKDLLVINKPAGLVVHPGHGHFSGTLVNALAFHLGL----- 145
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGI-VHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
S ED +D+ R GI VHR+DK TSGLL+VAK++ S L++QF
Sbjct: 146 ------SQGEDATDE------------RMGILVHRIDKNTSGLLLVAKNDESQLFLAKQF 187
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
HTIER YI+L G ++SG IE I+RDP+NR+R P + G + A + YKV+
Sbjct: 188 FDHTIERKYIALVWGNLKENSGTIEGNIARDPSNRLRFKVFP---EGGVGKSAITHYKVL 244
Query: 303 EILAGGGSALVEWRLETGRTHQV 325
E G + LVE LETGRTHQ+
Sbjct: 245 ERF--GYTTLVECTLETGRTHQI 265
>gi|335045072|ref|ZP_08538095.1| pseudouridine synthase, RluA family [Oribacterium sp. oral taxon
108 str. F0425]
gi|333758858|gb|EGL36415.1| pseudouridine synthase, RluA family [Oribacterium sp. oral taxon
108 str. F0425]
Length = 304
Score = 177 bits (448), Expect = 7e-42, Method: Compositional matrix adjust.
Identities = 107/262 (40%), Positives = 155/262 (59%), Gaps = 33/262 (12%)
Query: 65 DTKAGKLRLDAWISSR-IDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
D AGK RLD++++ + +R+ + I LV NG+ SK S +K GD +
Sbjct: 7 DVDAGK-RLDSFLAEKNTAKYTRSFIGKMIEENLVLYNGKP-SKASTKIKTGDRIELFEK 64
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
E +PL + E+IPL+IVYEDD+++V+NKP MVVHPAPG+ +GTLVN +L H
Sbjct: 65 EPEPLAVKGEEIPLEIVYEDDDLMVINKPRGMVVHPAPGHTSGTLVNAVLSHAG------ 118
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
E SSI+G +RPGIVHR+DK TSGL++V K++ SH L++Q +
Sbjct: 119 ----------------ESLSSINGV-LRPGIVHRIDKDTSGLILVCKNDFSHKALAKQLE 161
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
H+I R Y ++ SG + G + PI RD NR + A + KHG + A + Y+++E
Sbjct: 162 EHSITRRYHAICSGRLKEEQGTVSAPIGRDEKNRKQQAI---NYKHG--KEAITHYRLLE 216
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
L ++L+E RLETGRTHQ+
Sbjct: 217 NLQ--NASLLECRLETGRTHQI 236
>gi|160933118|ref|ZP_02080507.1| hypothetical protein CLOLEP_01961 [Clostridium leptum DSM 753]
gi|156868192|gb|EDO61564.1| pseudouridine synthase, RluA family [Clostridium leptum DSM 753]
Length = 306
Score = 177 bits (448), Expect = 7e-42, Method: Compositional matrix adjust.
Identities = 107/259 (41%), Positives = 148/259 (57%), Gaps = 39/259 (15%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKG--GDMVNCTISELQPL 128
+RLD ++ R+ ++R +Q + V ING+ +K N KG GD V I + +PL
Sbjct: 16 IRLDKVLAERLPDLTRTAIQRLLEEEQVLINGKPAAK---NRKGRAGDSVALRIPDPEPL 72
Query: 129 RAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEA 188
+AE++PLDIVYEDD++LVVNKP MVVHPAPGN GTLVN +L HC
Sbjct: 73 CLQAENVPLDIVYEDDDLLVVNKPQGMVVHPAPGNYQGTLVNALLAHC------------ 120
Query: 189 FSDAEDISDDEEFSSSISGAS--IRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHT 246
+S+SG + IRPGIVHR+DK TSGLL+VAK++ +H L+ Q K H+
Sbjct: 121 -------------GNSLSGINGVIRPGIVHRIDKDTSGLLMVAKNDFAHQGLARQIKEHS 167
Query: 247 IERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILA 306
R Y ++ +G Q SG + PI R P +R +MA ++K A + ++VI
Sbjct: 168 FRREYEAVVAGRMKQESGVVNAPIGRHPIDRKKMAVTEKNSK-----EAVTYFRVIAEYP 222
Query: 307 GGGSALVEWRLETGRTHQV 325
G + RLETGRTHQ+
Sbjct: 223 --GYTHIRLRLETGRTHQI 239
>gi|403379002|ref|ZP_10921059.1| hypothetical protein PJC66_04140 [Paenibacillus sp. JC66]
Length = 317
Score = 177 bits (448), Expect = 7e-42, Method: Compositional matrix adjust.
Identities = 110/271 (40%), Positives = 164/271 (60%), Gaps = 34/271 (12%)
Query: 66 TKAGKLRLDAWISSRID-GISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISE 124
++AG+ R+D WIS ++ +SR ++Q IRSG V +N + V K ++ ++ D + I E
Sbjct: 24 SEAGE-RIDKWISGFMEEDVSRTQIQDWIRSGHVLVNEKQV-KPNYKLQLDDRLLLQIPE 81
Query: 125 LQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASS 184
+ L E EDI LD+VYED +V+VVNKP MVVHPAPG+A+GTLVN +L+HC
Sbjct: 82 PEELSIEPEDIALDVVYEDSDVIVVNKPRGMVVHPAPGHASGTLVNALLYHC-------- 133
Query: 185 NQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKL 244
+D+ S I+G +RPGIVHR+DK TSGLL+ AK++ +HA L+ Q K
Sbjct: 134 --------KDL-------SGINGV-LRPGIVHRIDKDTSGLLMAAKNDKAHASLAAQLKE 177
Query: 245 HTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEI 304
H++ R Y ++ G S G IE PI RDP++R ++ + N ++HA + + ++E
Sbjct: 178 HSVNRKYKAIVHGTVSHEQGTIEAPIGRDPSDR-KLFTVTDRN----SKHAVTHFVLLEQ 232
Query: 305 LAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ L+E +LETGRTHQ+ + K P
Sbjct: 233 MK--NHCLLELKLETGRTHQIRVHMKYIGHP 261
>gi|49475182|ref|YP_033223.1| ribosomal large subunit pseudouridine synthase D [Bartonella
henselae str. Houston-1]
gi|49237987|emb|CAF27192.1| Ribosomal large subunit pseudouridine synthase D [Bartonella
henselae str. Houston-1]
Length = 334
Score = 177 bits (448), Expect = 8e-42, Method: Compositional matrix adjust.
Identities = 102/275 (37%), Positives = 154/275 (56%), Gaps = 35/275 (12%)
Query: 61 EETVDTKAGKLRLDAWISSRIDGI-SRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
+ D A RLD W++ + + SR+R+Q+ IR G + ++GQ++ + +K ++
Sbjct: 4 QRITDENALGQRLDQWLAKQYHNVLSRSRLQALIREGYLKVDGQLIKEPKTKLKSNQIIE 63
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
T+ L+ E I LDI++EDD+V+V+NKPA +VVHP GN TGTLVN ++HHC
Sbjct: 64 LTMPALRDAEPSGEAIALDILFEDDHVIVINKPAGLVVHPGNGNWTGTLVNALIHHCG-- 121
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
+ S I G RPGIVHRLDK TSG++VVAK++ +H LS
Sbjct: 122 --------------------KSLSGIGGVK-RPGIVHRLDKNTSGVMVVAKNDLAHKSLS 160
Query: 240 EQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHA 295
QF H ++R Y +L G P+++ I+ P+ R P+NR + A + H ARHA
Sbjct: 161 AQFFDHGRTSALDRRYHALIWGSPNRNVWTIDAPVGRSPHNRTKQAVVYNQCLH--ARHA 218
Query: 296 ASRYKVIEILAGGG-----SALVEWRLETGRTHQV 325
+ + ++E ++L+E RLETGRTHQ+
Sbjct: 219 VTHFSLLEQYGTCADKTPFASLLECRLETGRTHQI 253
>gi|325285479|ref|YP_004261269.1| RluA family pseudouridine synthase [Cellulophaga lytica DSM 7489]
gi|324320933|gb|ADY28398.1| pseudouridine synthase, RluA family [Cellulophaga lytica DSM 7489]
Length = 344
Score = 177 bits (448), Expect = 8e-42, Method: Compositional matrix adjust.
Identities = 106/261 (40%), Positives = 150/261 (57%), Gaps = 41/261 (15%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISE------ 124
LR+D ++ + I+ +R+++Q + + G + +N V+ K ++ VK GD + S
Sbjct: 29 LRIDKFLMNFIENATRSQIQKAAKDGHIWVNN-VLVKQNYKVKAGDDIRVMFSHPPYEFL 87
Query: 125 LQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASS 184
LQP EDIPLDIVYEDD +LVVNKPA MVVHP GN +GTL+N +LHHC +
Sbjct: 88 LQP-----EDIPLDIVYEDDVLLVVNKPAGMVVHPGHGNYSGTLINALLHHCKV------ 136
Query: 185 NQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKL 244
D+ ++ +S RPG+VHR+DK TSGLLVVAK E + LS+QF
Sbjct: 137 ---------DLPNN---------SSDRPGLVHRIDKDTSGLLVVAKTEAAMTFLSKQFFD 178
Query: 245 HTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEI 304
T ER Y+++ G G IE + R P NR++M P + Q + A + YKV+E
Sbjct: 179 KTSEREYVAIVWGNVEADEGTIEGHLGRHPKNRLQMHVFPEGD---QGKEAITHYKVLER 235
Query: 305 LAGGGSALVEWRLETGRTHQV 325
L G ++ +LETGRTHQ+
Sbjct: 236 L--GYVTVISCKLETGRTHQI 254
>gi|336172856|ref|YP_004579994.1| RluA family pseudouridine synthase [Lacinutrix sp. 5H-3-7-4]
gi|334727428|gb|AEH01566.1| pseudouridine synthase, RluA family [Lacinutrix sp. 5H-3-7-4]
Length = 345
Score = 177 bits (448), Expect = 8e-42, Method: Compositional matrix adjust.
Identities = 104/263 (39%), Positives = 150/263 (57%), Gaps = 32/263 (12%)
Query: 65 DTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISE 124
D LR+D W+ ++++ +R ++Q++ + G + +N Q V K ++ VK D++ + E
Sbjct: 24 DKGQAPLRIDKWLMNKVENATRNKIQAAAKEGNIYVNDQPV-KSNYKVKPLDVIKV-LFE 81
Query: 125 LQPLR--AEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
P ED+PLDIVYEDD +LVVNKPA MVVHP GN +GTL+N +++H
Sbjct: 82 HPPFENLLVGEDLPLDIVYEDDTLLVVNKPAGMVVHPGHGNYSGTLINALIYH------- 134
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
F + +S RPG+VHR+DK TSGLLVVAK EH+ AHLS+QF
Sbjct: 135 ------------------FDNLPKNSSDRPGLVHRIDKDTSGLLVVAKTEHAMAHLSKQF 176
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
K T ER Y+++ G + G IE I R P NR++ + + + + A + YKV+
Sbjct: 177 KDKTSEREYVAIVWGNMEEDEGTIEGNIGRHPKNRLQ-NTVYMDDDADKGKPAVTHYKVL 235
Query: 303 EILAGGGSALVEWRLETGRTHQV 325
E L LV +LETGRTHQ+
Sbjct: 236 ERLT--YVTLVSCKLETGRTHQI 256
>gi|407977667|ref|ZP_11158504.1| pseudouridylate synthase [Bacillus sp. HYC-10]
gi|407415920|gb|EKF37501.1| pseudouridylate synthase [Bacillus sp. HYC-10]
Length = 304
Score = 177 bits (448), Expect = 8e-42, Method: Compositional matrix adjust.
Identities = 105/264 (39%), Positives = 150/264 (56%), Gaps = 32/264 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++S+ SR++VQ ++ GL+ +NG+ V K ++ V+ GD + I + + L E
Sbjct: 16 RLDKFLSTTEPEWSRSQVQQWVKDGLIEVNGKHV-KANYKVQAGDQIKVEIPDPEALNVE 74
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AE + LDI YED +VLVVNKP MVVHPAPG+ +GTLVNG++ HC+
Sbjct: 75 AESMDLDIYYEDADVLVVNKPRGMVVHPAPGHVSGTLVNGLMAHCN-------------- 120
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q T+ R Y
Sbjct: 121 --DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDLAHESLVNQLVAKTVTRKY 170
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++ G+ +G I+ PI RD +R M + A+ A + + VIE
Sbjct: 171 TAVVHGIIQHDTGTIDAPIGRDKKDRQSMTVTKEN-----AKQAVTHFDVIERFK--DFT 223
Query: 312 LVEWRLETGRTHQVLMLYKLFYIP 335
+VE RLETGRTHQ+ + K P
Sbjct: 224 VVECRLETGRTHQIRVHMKYIGYP 247
>gi|440750371|ref|ZP_20929615.1| Ribosomal large subunit pseudouridine synthase D [Mariniradius
saccharolyticus AK6]
gi|436481412|gb|ELP37593.1| Ribosomal large subunit pseudouridine synthase D [Mariniradius
saccharolyticus AK6]
Length = 347
Score = 177 bits (448), Expect = 8e-42, Method: Compositional matrix adjust.
Identities = 107/265 (40%), Positives = 154/265 (58%), Gaps = 34/265 (12%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
VD G R+D +++ ++ +R +VQ++I +G V +NGQ +K ++ VK D + I
Sbjct: 26 VDKGQGLTRIDKFLTEKVAHATRNKVQTAIDAGNVLVNGQP-TKANYRVKPFDEIKVFID 84
Query: 124 ELQPLRAEA--EDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCS-LPT 180
P E E IPLDIV+EDD +L++NKPA MVVHPA GN TGTLVNG++++ + LPT
Sbjct: 85 R-PPRDTEVLPEPIPLDIVFEDDYLLIINKPAGMVVHPAHGNWTGTLVNGLVYYFNQLPT 143
Query: 181 LASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSE 240
L G + RPG+VHR+DK TSGLLV+AK E + L++
Sbjct: 144 L------------------------PGNTGRPGLVHRIDKDTSGLLVIAKSEAAMTDLAK 179
Query: 241 QFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYK 300
QF H I+R YI+L G P SG + + R P +R M + P + Q +HA + +K
Sbjct: 180 QFFHHHIDRTYIALVWGEPEADSGTVRAHVGRSPKDRKVMESYPDGS---QGKHAVTHWK 236
Query: 301 VIEILAGGGSALVEWRLETGRTHQV 325
V++ L L+E +LETGRTHQ+
Sbjct: 237 VLKRLR--YVTLLECKLETGRTHQI 259
>gi|315917437|ref|ZP_07913677.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium
gonidiaformans ATCC 25563]
gi|313691312|gb|EFS28147.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium
gonidiaformans ATCC 25563]
Length = 318
Score = 177 bits (448), Expect = 9e-42, Method: Compositional matrix adjust.
Identities = 100/256 (39%), Positives = 151/256 (58%), Gaps = 32/256 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++ ++ +R+ ++ I G V N +V++K +KG +++ I E + +
Sbjct: 20 RLDLFLKEQLPEATRSYLEKLITEGYVLCNEKVITKNGRKLKGKEVIQLAIPEEEKMEIV 79
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AE+IPLDIVYED +LVVNK A+MVVHPA GN +GTLVN +L++C
Sbjct: 80 AENIPLDIVYEDKYLLVVNKQANMVVHPALGNYSGTLVNALLYYCK-------------- 125
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
E++SD ++G IRPGIVHRLDK T+GL++VAK+ H+ L+ F+ TI + Y
Sbjct: 126 -ENLSD-------MNGV-IRPGIVHRLDKDTTGLIIVAKNNQVHSKLALMFQEKTIRKTY 176
Query: 252 ISLTSGVPSQS--SGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGG 309
+++ G S+ GR+E I+RD +R +M Q + A S Y+V +L G
Sbjct: 177 VAIVKGRFSEEKKEGRLETLITRDSKDRKKMTV-----SQIQGKKAISNYRV--LLDGDK 229
Query: 310 SALVEWRLETGRTHQV 325
+LVE ++ETGRTHQ+
Sbjct: 230 HSLVEVKIETGRTHQI 245
>gi|390942944|ref|YP_006406705.1| RluA family pseudouridine synthase [Belliella baltica DSM 15883]
gi|390416372|gb|AFL83950.1| pseudouridine synthase, RluA family [Belliella baltica DSM 15883]
Length = 346
Score = 177 bits (448), Expect = 9e-42, Method: Compositional matrix adjust.
Identities = 108/270 (40%), Positives = 155/270 (57%), Gaps = 42/270 (15%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
+D K LR+D +++ RI +R +VQ +I +G V +NG+ V K ++ +K D + +
Sbjct: 24 NIDKKQSLLRIDKFLTDRIANSTRNKVQVAIDNGHVLVNGKTV-KSNYKIKPLDEIKVYL 82
Query: 123 ------SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC 176
SE+ P E+IPLDI++ED+ +L++NKPA MVVHPA GN TGTLVNG++H+
Sbjct: 83 EKPVMHSEVIP-----EEIPLDIIFEDEYLLIINKPAGMVVHPAHGNWTGTLVNGLVHYF 137
Query: 177 S-LPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSH 235
+ LP L G S RPG+VHR+DK TSGLLV+AK E +
Sbjct: 138 NQLPELP------------------------GNSGRPGLVHRIDKDTSGLLVIAKSEVAM 173
Query: 236 AHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHA 295
L+ QF HTI+R YI+L G P + G I + R +R MAA P + + +HA
Sbjct: 174 TDLANQFFHHTIDRTYIALVWGEPQEDEGTINAHVGRSAKDRKVMAAFPDGS---EGKHA 230
Query: 296 ASRYKVIEILAGGGSALVEWRLETGRTHQV 325
+ Y VI+ L +L++ LETGRTHQ+
Sbjct: 231 ITHYAVIKRLR--YVSLIQCNLETGRTHQI 258
>gi|407774742|ref|ZP_11122039.1| pseudouridylate synthase, 23S RNA-specific [Thalassospira
profundimaris WP0211]
gi|407282224|gb|EKF07783.1| pseudouridylate synthase, 23S RNA-specific [Thalassospira
profundimaris WP0211]
Length = 323
Score = 177 bits (448), Expect = 9e-42, Method: Compositional matrix adjust.
Identities = 104/256 (40%), Positives = 147/256 (57%), Gaps = 30/256 (11%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +++ SR+R+++ I G + +NG +K+S VK GD+ + ++ E +
Sbjct: 17 RLDKVLATAWPNQSRSRIKALIEDGQLCVNGTPATKMSAKVKAGDVFDLSVPEPEMAEPT 76
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
EDI LD+++ED+++LV+NKPA MVVHPA GN +GTLVN +L HC
Sbjct: 77 PEDIKLDVLFEDEDLLVINKPAGMVVHPAAGNESGTLVNALLAHCG-------------- 122
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF--KLHTIER 249
+ S I G RPGIVHRLDK TSG +VVAK++ +H LS F IER
Sbjct: 123 --------DSLSGIGGVK-RPGIVHRLDKDTSGAMVVAKNDAAHRALSNLFAEDKENIER 173
Query: 250 VYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGG 309
Y+++ GVP SG IE I R P NR +MA + K G ++A + YK ++
Sbjct: 174 AYLAVVWGVPRPRSGDIEGNIGRSPRNRKKMAVV----KKG-GKYALTHYKTLQTRDDSL 228
Query: 310 SALVEWRLETGRTHQV 325
++LVE RL TGRTHQ+
Sbjct: 229 ASLVECRLATGRTHQI 244
>gi|325288855|ref|YP_004265036.1| ribosomal large subunit pseudouridine synthase D [Syntrophobotulus
glycolicus DSM 8271]
gi|324964256|gb|ADY55035.1| ribosomal large subunit pseudouridine synthase D [Syntrophobotulus
glycolicus DSM 8271]
Length = 312
Score = 177 bits (448), Expect = 9e-42, Method: Compositional matrix adjust.
Identities = 105/256 (41%), Positives = 154/256 (60%), Gaps = 33/256 (12%)
Query: 70 KLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLR 129
++RLD ++ + G SR+ +++ I G V +NG+ K ++ ++ D + + + + L+
Sbjct: 22 EVRLDVCLTEKT-GTSRSFIRNMIEEGRVLVNGET-KKANYRIRAEDKIGINLPKPRELK 79
Query: 130 AEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAF 189
+ IPL+I+YEDD++LVVNKP MVVHPAPG GTLVN +L+HC
Sbjct: 80 VVPQQIPLEIIYEDDDLLVVNKPQGMVVHPAPGVWEGTLVNALLYHCR------------ 127
Query: 190 SDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIER 249
D+S I+G IRPGIVHR+DK TSGLLVVAK++ SH L+ Q K H ++R
Sbjct: 128 ----DLS-------GINGI-IRPGIVHRIDKDTSGLLVVAKNDESHNQLAGQLKEHKMQR 175
Query: 250 VYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGG 309
Y+++ GV S+ SG I+ PI RDP +R +MA + KH +R A + Y+V E G
Sbjct: 176 KYLAVVHGVLSEPSGTIDAPIGRDPKDRKKMAVV---FKH--SRPAVTHYEVEERFI--G 228
Query: 310 SALVEWRLETGRTHQV 325
++ LETGRTHQ+
Sbjct: 229 YTKIKAVLETGRTHQI 244
>gi|81428560|ref|YP_395560.1| pseudouridylate synthase [Lactobacillus sakei subsp. sakei 23K]
gi|78610202|emb|CAI55251.1| Pseudouridylate synthase, 23S rRNA-specific [Lactobacillus sakei
subsp. sakei 23K]
Length = 301
Score = 177 bits (448), Expect = 9e-42, Method: Compositional matrix adjust.
Identities = 113/278 (40%), Positives = 152/278 (54%), Gaps = 38/278 (13%)
Query: 61 EETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNC 120
E T+ T+ G R+D +S + SR+++Q ++ LV INGQ SK +H V + ++
Sbjct: 6 EFTITTETG--RIDKVLSQLLPDYSRSQIQQWLKKDLVEINGQT-SKGNHKVVADEKISV 62
Query: 121 TISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPT 180
TI + L EDIPLDIVYEDD VLVVNKP MVVHP+PG+ GTLVN +L H L
Sbjct: 63 TIPDPVSLDLVPEDIPLDIVYEDDQVLVVNKPQGMVVHPSPGHPNGTLVNALLAHTPL-- 120
Query: 181 LASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSE 240
S I+G RPGIVHR+DK TSGLL+VAK +H LSE
Sbjct: 121 ----------------------SEINGV-FRPGIVHRIDKDTSGLLMVAKTNEAHESLSE 157
Query: 241 QFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYK 300
Q K + R Y++L G + G I+ PI R +R++ A +P R A + ++
Sbjct: 158 QLKAKSNLREYLALVHGNIEEDEGTIDAPIGRSKLDRMKQAIVP------DGRPAVTHFE 211
Query: 301 VIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIPRMI 338
V+E L+ RLETGRTHQ+ + L YI R +
Sbjct: 212 VVERFT--DYTLIRCRLETGRTHQIRV--HLAYINRPV 245
>gi|372223509|ref|ZP_09501930.1| RluA family pseudouridine synthase [Mesoflavibacter
zeaxanthinifaciens S86]
Length = 342
Score = 177 bits (448), Expect = 9e-42, Method: Compositional matrix adjust.
Identities = 104/257 (40%), Positives = 149/257 (57%), Gaps = 34/257 (13%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
LR+D ++ + I+ +R ++Q + + G + +NG V K ++ VK GD+V + E P
Sbjct: 29 LRVDKFLMNFIENATRNKIQQAAKDGHIWVNGATV-KQNYKVKAGDVVKV-LFEHPPYEY 86
Query: 131 --EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEA 188
E IPLDIVYEDD+++VVNKPA MVVHP GN +GTLVN +++H
Sbjct: 87 LLTPEAIPLDIVYEDDHLMVVNKPAGMVVHPGHGNYSGTLVNALVYH------------- 133
Query: 189 FSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIE 248
F S + +S RPG+VHR+DK TSGLLV+AK E + HL+ QF T +
Sbjct: 134 ------------FESLPNNSSGRPGLVHRIDKDTSGLLVIAKTEEAMTHLANQFFEKTSK 181
Query: 249 RVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGG 308
R YI+L G + G IE ++R+P NR++M P + Q + A + +KV+E L G
Sbjct: 182 REYIALVWGNIEEDEGTIEGHLARNPKNRLQMMVFPDGD---QGKEAVTHFKVLERL--G 236
Query: 309 GSALVEWRLETGRTHQV 325
LV +LETGRTHQ+
Sbjct: 237 YVTLVSCKLETGRTHQI 253
>gi|138894673|ref|YP_001125126.1| ribosomal large subunit pseudouridine synthase D-like protein
[Geobacillus thermodenitrificans NG80-2]
gi|196247711|ref|ZP_03146413.1| pseudouridine synthase, RluA family [Geobacillus sp. G11MC16]
gi|134266186|gb|ABO66381.1| ribosomal large subunit pseudouridine synthase D-like protein
[Geobacillus thermodenitrificans NG80-2]
gi|196212495|gb|EDY07252.1| pseudouridine synthase, RluA family [Geobacillus sp. G11MC16]
Length = 304
Score = 177 bits (448), Expect = 9e-42, Method: Compositional matrix adjust.
Identities = 113/277 (40%), Positives = 160/277 (57%), Gaps = 36/277 (12%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
+EE D + R+D I++ D SR++VQ I++GLV++NG+ V K ++ + GD V
Sbjct: 7 HIEEEYDGE----RIDKVIAALNDEWSRSQVQQWIKNGLVTVNGRTV-KANYKSELGDTV 61
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
+ E +PL E E IPLDI YED++VLVVNKP MVVHPAPG+ GTLVN +L HC
Sbjct: 62 AISPPEPEPLHVEPEPIPLDIYYEDEDVLVVNKPRGMVVHPAPGHMRGTLVNALLAHCR- 120
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 121 ---------------DL-------SGINGV-LRPGIVHRIDKDTSGLLMVAKNDAAHRSL 157
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
EQ T+ R Y ++ GV G I+ PI RD +R +MA ++++G + A +
Sbjct: 158 VEQLVNKTVTRRYKAIVHGVIPHDYGTIDAPIGRDKRDRKKMAV---TDENG--KEAVTH 212
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
++V+E VE +LETGRTHQ+ + K P
Sbjct: 213 FRVLERFR--QYTYVECQLETGRTHQIRVHMKYIGYP 247
>gi|428220400|ref|YP_007104570.1| RluA family pseudouridine synthase [Synechococcus sp. PCC 7502]
gi|427993740|gb|AFY72435.1| pseudouridine synthase, RluA family [Synechococcus sp. PCC 7502]
Length = 301
Score = 176 bits (447), Expect = 1e-41, Method: Compositional matrix adjust.
Identities = 100/254 (39%), Positives = 150/254 (59%), Gaps = 32/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD++++ +++ ISR+++Q I+ G V IN V ++ +K GD + + E+QPL +
Sbjct: 14 RLDSYLAQKLEEISRSQIQKLIQQGFVQINESVCTEKKTLLKVGDRLILEVPEVQPLDLQ 73
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
+ IPL+I+YED+++LV+NKP +VVHPAPG++ TLVN +L HC P L
Sbjct: 74 PQSIPLEILYEDEHLLVINKPVGLVVHPAPGHSDLTLVNALLAHC--PNL---------- 121
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
S I+G RPGIVHRLDK TSG +VVAK + +H L Q + T +R Y
Sbjct: 122 -----------SGINGVQ-RPGIVHRLDKDTSGAIVVAKTDQAHQSLQAQIQAKTAKREY 169
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+ + +G P SG + PI R ++R +MA + R A + ++V E L G +
Sbjct: 170 LGIVNGAPKTLSGTVNAPIGRHKSDRKKMAVVEN------GRSAITHWEVQERL--GNYS 221
Query: 312 LVEWRLETGRTHQV 325
LV++ LETGRTHQ+
Sbjct: 222 LVKFDLETGRTHQI 235
>gi|167630173|ref|YP_001680672.1| pseudouridine synthase [Heliobacterium modesticaldum Ice1]
gi|167592913|gb|ABZ84661.1| pseudouridine synthase, rlua family [Heliobacterium modesticaldum
Ice1]
Length = 369
Score = 176 bits (447), Expect = 1e-41, Method: Compositional matrix adjust.
Identities = 101/263 (38%), Positives = 155/263 (58%), Gaps = 31/263 (11%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV R+D W+ + SR+ Q+ I+ GLV+++G + K ++ ++ GD++
Sbjct: 39 TVTPAEADSRVDVWLVQKGLVPSRSHGQNWIKEGLVTLDGGPL-KANYRLRPGDVIEVAP 97
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
+ + EDIPL+I+++D ++ V+NKPA +VVHPA G+ +GTLVN +L+H
Sbjct: 98 PAPEAVEILPEDIPLEIIFQDADIAVINKPAGLVVHPAEGHWSGTLVNALLYHI------ 151
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
+D+S I+G +RPGIVHR+DK TSGLLVVAK++ +H HL+EQ
Sbjct: 152 ----------KDLS-------GING-ELRPGIVHRIDKDTSGLLVVAKNDRAHIHLTEQV 193
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
K H + R Y+++ GV +GR+E PI RDP +R RMA I G + A + ++V+
Sbjct: 194 KDHRVRREYLAVVHGVIGAETGRVEAPIGRDPKDRQRMAVIAG------GKSAITHFRVL 247
Query: 303 EILAGGGSALVEWRLETGRTHQV 325
G +L+ RLETGRTHQ+
Sbjct: 248 ARYPEQGFSLLHCRLETGRTHQI 270
>gi|410667646|ref|YP_006920017.1| pseudouridylate synthase RluA [Thermacetogenium phaeum DSM 12270]
gi|409105393|gb|AFV11518.1| pseudouridylate synthase RluA [Thermacetogenium phaeum DSM 12270]
Length = 313
Score = 176 bits (447), Expect = 1e-41, Method: Compositional matrix adjust.
Identities = 103/266 (38%), Positives = 155/266 (58%), Gaps = 30/266 (11%)
Query: 60 LEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
L E AGK RLD +++++ +SR+++Q I G V +N ++ S+ V+ GD+V
Sbjct: 8 LYEVTPDAAGK-RLDHFLAAQPPLLSRSQIQRLIERGFVLVNSSR-TRSSYKVRCGDVVT 65
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
+ + + + E+IPLDI+YED+++LV+NKP +VVHPA G+ +GTLVN +L+HC P
Sbjct: 66 MRVPPPEEITLKPEEIPLDIIYEDEDLLVINKPQGLVVHPAAGHKSGTLVNAVLNHC--P 123
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
L+ G +RPGIVHRLDK TSGL++V+K + +H L+
Sbjct: 124 KLSGI----------------------GGYLRPGIVHRLDKDTSGLILVSKSDLAHQELT 161
Query: 240 EQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRY 299
Q K +I+R Y++L G + G I+ P+ RDP NR +MA +P A+ A + Y
Sbjct: 162 RQLKERSIKREYLALVHGEVKEDKGVIDAPVGRDPRNRKKMAVLPEGAP--GAKSARTSY 219
Query: 300 KVIEILAGGGSALVEWRLETGRTHQV 325
+V E A G L+ LETGRTHQ+
Sbjct: 220 RVRERFA--GYTLLGVSLETGRTHQI 243
>gi|104774018|ref|YP_618998.1| pseudouridylate synthase [Lactobacillus delbrueckii subsp.
bulgaricus ATCC 11842]
gi|103423099|emb|CAI97824.1| Pseudouridylate synthase [Lactobacillus delbrueckii subsp.
bulgaricus ATCC 11842]
Length = 303
Score = 176 bits (447), Expect = 1e-41, Method: Compositional matrix adjust.
Identities = 99/254 (38%), Positives = 154/254 (60%), Gaps = 34/254 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +++ + +SR+R++ +++G + +NG+ SKVS+ V+ D++ + L+PL+ E
Sbjct: 15 RLDKYLAGEMTDLSRSRIKELVQAGEILVNGKK-SKVSYKVQKDDLIQVIVLPLEPLKLE 73
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AE+IPLDIVYED +V+VVNKP MVVHPA G+ + TLVN +L+H
Sbjct: 74 AENIPLDIVYEDKDVIVVNKPQGMVVHPAAGHPSHTLVNALLYHTR-------------- 119
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
D++D E RPGIVHR+DK TSGLL+VAK+ + L +Q + +R Y
Sbjct: 120 --DLADSPE--------GFRPGIVHRIDKDTSGLLMVAKNAAARESLEKQLAAKSNKRQY 169
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+++ G ++ G I+ PI R+P +R +MA + + + A + +KV+E G +
Sbjct: 170 LAIVHGNFAE-EGTIDAPIGRNPKDRKQMAVVE------KGKSAVTHFKVLEQYQ--GYS 220
Query: 312 LVEWRLETGRTHQV 325
LVE +LETGRTHQ+
Sbjct: 221 LVECQLETGRTHQI 234
>gi|312143925|ref|YP_003995371.1| RluA family pseudouridine synthase [Halanaerobium hydrogeniformans]
gi|311904576|gb|ADQ15017.1| pseudouridine synthase, RluA family [Halanaerobium
hydrogeniformans]
Length = 304
Score = 176 bits (447), Expect = 1e-41, Method: Compositional matrix adjust.
Identities = 98/260 (37%), Positives = 152/260 (58%), Gaps = 33/260 (12%)
Query: 66 TKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISEL 125
++AGK R+D +++S+ D SR +Q I + +N V S+ +K D + I +
Sbjct: 11 SEAGK-RVDKFLASQFDDFSRNYIQKLIEDSKIKVNSNPVQN-SYLIKEADEIKVIIDKA 68
Query: 126 QPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSN 185
+ +A DI LDI+YED +++++NK A MVVHPAPG+ T+VN +L + +
Sbjct: 69 KKSSIKAVDIELDIIYEDQDIIIINKDADMVVHPAPGHYDDTIVNALLAYTN-------- 120
Query: 186 QEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLH 245
D+S +I+G RPGIVHRLDK TSGLL+VAK++ SH LS QFK
Sbjct: 121 --------DLS-------AINGVK-RPGIVHRLDKDTSGLLLVAKNDKSHKELSRQFKKR 164
Query: 246 TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEIL 305
+++ Y++L G+ +G+I+ PI R PN R +MA + +++ A SR+K++E
Sbjct: 165 EVDKYYLALLKGILPYKTGKIDAPIGRHPNQRKKMAV-----RKRKSKKAVSRFKILE-- 217
Query: 306 AGGGSALVEWRLETGRTHQV 325
+ LVE ++ETGRTHQ+
Sbjct: 218 SFKNHTLVEVKIETGRTHQI 237
>gi|435853644|ref|YP_007314963.1| pseudouridine synthase, RluA family [Halobacteroides halobius DSM
5150]
gi|433670055|gb|AGB40870.1| pseudouridine synthase, RluA family [Halobacteroides halobius DSM
5150]
Length = 305
Score = 176 bits (447), Expect = 1e-41, Method: Compositional matrix adjust.
Identities = 100/265 (37%), Positives = 155/265 (58%), Gaps = 32/265 (12%)
Query: 61 EETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNC 120
E + K + R+D +++++ D +SR +Q I+S V +NGQ + K S+ + GD V
Sbjct: 6 EFRISDKDNEQRIDKFLANKNDDLSRNYIQKLIKSNQVVVNGQRIKK-SYELVAGDNVKL 64
Query: 121 TISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPT 180
I E + L E +DIPL+I+Y+D++++V+NK +VVHPAPG+ +GTLVN +L+HC
Sbjct: 65 IIPEPKELDLEPQDIPLNILYDDNDIIVINKQPDLVVHPAPGHESGTLVNALLYHC---- 120
Query: 181 LASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSE 240
+ S I+G IRPGIVHRLDK TSG +VVAK++ +H L+
Sbjct: 121 -------------------DNLSGINGV-IRPGIVHRLDKDTSGAMVVAKNDEAHIELAR 160
Query: 241 QFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYK 300
QFK +++Y +L G + G+++ I RDP +R +MA ++K A S ++
Sbjct: 161 QFKERETKKIYTTLVYGRVRYNKGQVDAAIGRDPYDRKKMAVTSKNSK-----KAISYFE 215
Query: 301 VIEILAGGGSALVEWRLETGRTHQV 325
V + + LVE +LETGRTHQ+
Sbjct: 216 VKKRYS--DYTLVEVKLETGRTHQI 238
>gi|85816530|gb|EAQ37717.1| pseudouridine synthase, RluA family [Dokdonia donghaensis MED134]
Length = 347
Score = 176 bits (447), Expect = 1e-41, Method: Compositional matrix adjust.
Identities = 103/257 (40%), Positives = 147/257 (57%), Gaps = 32/257 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISEL-QPLR 129
LR+D ++ + ++ +R ++Q + ++G + +N +VV K ++ VK GD+V
Sbjct: 31 LRVDKFLMNFVENATRNKIQKAAKNGSIQVNNKVV-KQNYKVKAGDVVRAMFEHPPHEFL 89
Query: 130 AEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC-SLPTLASSNQEA 188
EDIPLDI+YEDD++LVVNKPA MVVHP GN +GTL+N ++HH +LP
Sbjct: 90 LTPEDIPLDIIYEDDDLLVVNKPAGMVVHPGHGNYSGTLINALIHHIDNLP--------- 140
Query: 189 FSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIE 248
+ +S RPG+VHR+DK TSGLLVVAK EH+ HLS+QF T E
Sbjct: 141 -----------------NNSSERPGLVHRIDKDTSGLLVVAKTEHAMTHLSKQFFNKTTE 183
Query: 249 RVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGG 308
R Y+++ G G IE I R P NR++ ++ Q + A + YKV+E L G
Sbjct: 184 REYVAIVWGNVVDDEGTIEGNIGRHPKNRLQNTVF-KDDEEEQGKPAVTHYKVLERL--G 240
Query: 309 GSALVEWRLETGRTHQV 325
V +LETGRTHQ+
Sbjct: 241 YVTQVACKLETGRTHQI 257
>gi|229098363|ref|ZP_04229309.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
Rock3-29]
gi|423441376|ref|ZP_17418282.1| RluA family pseudouridine synthase [Bacillus cereus BAG4X2-1]
gi|423464450|ref|ZP_17441218.1| RluA family pseudouridine synthase [Bacillus cereus BAG6O-1]
gi|423533792|ref|ZP_17510210.1| RluA family pseudouridine synthase [Bacillus cereus HuB2-9]
gi|423540952|ref|ZP_17517343.1| RluA family pseudouridine synthase [Bacillus cereus HuB4-10]
gi|228685068|gb|EEL39000.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
Rock3-29]
gi|401172140|gb|EJQ79361.1| RluA family pseudouridine synthase [Bacillus cereus HuB4-10]
gi|402418037|gb|EJV50337.1| RluA family pseudouridine synthase [Bacillus cereus BAG4X2-1]
gi|402420717|gb|EJV52988.1| RluA family pseudouridine synthase [Bacillus cereus BAG6O-1]
gi|402464011|gb|EJV95711.1| RluA family pseudouridine synthase [Bacillus cereus HuB2-9]
Length = 302
Score = 176 bits (447), Expect = 1e-41, Method: Compositional matrix adjust.
Identities = 108/273 (39%), Positives = 158/273 (57%), Gaps = 33/273 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV + R+D +++ SR++VQ I+ +V++NG+ V KV++ VK D + TI
Sbjct: 8 TVAEEQKSERIDKFVAEINSEWSRSQVQQWIKDDVVTVNGKSV-KVNYKVKENDEITVTI 66
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
+ + L +AED+ L+I YED +VLVVNKP MVVHPAPG+ +GTLVNG++HHC+
Sbjct: 67 PDPEELDIQAEDMNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCT----- 121
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q
Sbjct: 122 -----------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQL 162
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
T+ R Y ++ GV G I+ PI+RD R M +++G +HA + ++V+
Sbjct: 163 VAKTVTRRYKAIVHGVIPHDKGTIDAPIARDKKERQSMTV----DENG--KHAVTHFQVL 216
Query: 303 EILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ LVE RLETGRTHQ+ + K P
Sbjct: 217 DRFK--DFTLVECRLETGRTHQIRVHMKYIGYP 247
>gi|148257971|ref|YP_001242556.1| ribosomal large subunit pseudouridine synthase D [Bradyrhizobium
sp. BTAi1]
gi|146410144|gb|ABQ38650.1| ribosomal large subunit pseudouridine synthase D [Bradyrhizobium
sp. BTAi1]
Length = 326
Score = 176 bits (447), Expect = 1e-41, Method: Compositional matrix adjust.
Identities = 103/265 (38%), Positives = 152/265 (57%), Gaps = 37/265 (13%)
Query: 69 GKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPL 128
G RLD +++R+ +SR+R+++ I +G VS++ V +++V GD + + E P
Sbjct: 10 GSPRLDRVLAARLPELSRSRLKALILAGQVSLSTGAVRDPAYHVASGDTITIDVPEAAPP 69
Query: 129 RAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEA 188
+AE IPL +VYEDD+++V++KPA +VVHPA G+ TGTLVN ++ HC
Sbjct: 70 EPKAEAIPLHVVYEDDDIVVLDKPAGLVVHPAAGHETGTLVNALIAHCG----------- 118
Query: 189 FSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLH--- 245
S S G RPGIVHRLDK T+GL+VVAK++H+HA LS QF H
Sbjct: 119 ------------ASLSGIGGVKRPGIVHRLDKDTTGLMVVAKNDHAHASLSAQFADHGRT 166
Query: 246 -TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEI 304
+ER Y++ + G+P + G I P+ R P+ R +MA P + R A + Y+V E
Sbjct: 167 GAMERGYLAFSWGLPHRPHGTINAPLDRHPHARDKMAVRP------RGREAITHYEVQES 220
Query: 305 LAGGG----SALVEWRLETGRTHQV 325
G ++L+ LETGRTHQ+
Sbjct: 221 FVGRDGKPVASLIACHLETGRTHQI 245
>gi|405377633|ref|ZP_11031573.1| pseudouridine synthase, RluA family [Rhizobium sp. CF142]
gi|397325899|gb|EJJ30224.1| pseudouridine synthase, RluA family [Rhizobium sp. CF142]
Length = 341
Score = 176 bits (447), Expect = 1e-41, Method: Compositional matrix adjust.
Identities = 103/264 (39%), Positives = 151/264 (57%), Gaps = 35/264 (13%)
Query: 72 RLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
RLDAW+++++ + SR+R+++ I+ G V + G ++ V+ GD + E +
Sbjct: 24 RLDAWLTAQVGEEFSRSRIKALIKDGQVFLKGAPITDPQKKVRAGDSYEIILPEPEDPAP 83
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
+ EDIPLDI+YED++V+V++KPA +VVHP PGN TGTLVN +++HC
Sbjct: 84 KGEDIPLDILYEDEDVIVISKPAGLVVHPGPGNWTGTLVNALIYHCG------------- 130
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLH----T 246
+ S I G RPGIVHRLDK T+G++VVAK++ +H HLS QF H
Sbjct: 131 ---------DTLSGIGGVR-RPGIVHRLDKDTTGVMVVAKNDMAHRHLSLQFADHGRTMP 180
Query: 247 IERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEIL- 305
+ER Y ++ G P SG I+ P+ R +R R A N+ A A + Y+V+E
Sbjct: 181 LERAYQAIVWGRPRSLSGTIDAPLGRATGDRTRRAVKRPENE--SADEAITHYEVLERFH 238
Query: 306 ----AGGGSALVEWRLETGRTHQV 325
A ++LVE LETGRTHQ+
Sbjct: 239 ESPDASALASLVECHLETGRTHQI 262
>gi|308069860|ref|YP_003871465.1| RNA pseudouridine synthase (RNA-uridine isomerase) [Paenibacillus
polymyxa E681]
gi|305859139|gb|ADM70927.1| Hypothetical RNA pseudouridine synthase (RNA-uridine isomerase)
[Paenibacillus polymyxa E681]
Length = 334
Score = 176 bits (446), Expect = 1e-41, Method: Compositional matrix adjust.
Identities = 102/273 (37%), Positives = 162/273 (59%), Gaps = 32/273 (11%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
T ++ K+R+D +I+ + +SR+++Q I +G V +NG + K ++ + GD + ++
Sbjct: 38 TANSVDAKIRIDKYIAEEMKEVSRSQIQMWIGNGRVLVNGTAI-KANYKLAEGDRIVLSV 96
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E + + E+IPLD+VYED +V+V+NK +VVHPAPG+++GTLVN +++HC
Sbjct: 97 PEPESVDIVPENIPLDVVYEDSDVIVINKQRGLVVHPAPGHSSGTLVNALMYHC------ 150
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
D+S I+G +RPGIVHR+DK TSGLL+ AK++ +HA L+ Q
Sbjct: 151 ----------HDLS-------GING-ELRPGIVHRIDKDTSGLLMAAKNDQAHASLAAQL 192
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
K H++ R YI+L G S G ++ PI RD +R ++ + N ++HA + + VI
Sbjct: 193 KDHSVTRKYIALVHGHLSHDQGTVDAPIGRDSGDR-KLFTVTERN----SKHAVTHFLVI 247
Query: 303 EILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
E L G L+E +LETGRTHQ+ + K P
Sbjct: 248 ERL--GDYTLLELQLETGRTHQIRVHMKFIGHP 278
>gi|83592447|ref|YP_426199.1| ribosomal large subunit pseudouridine synthase D [Rhodospirillum
rubrum ATCC 11170]
gi|386349164|ref|YP_006047412.1| ribosomal large subunit pseudouridine synthase D [Rhodospirillum
rubrum F11]
gi|83575361|gb|ABC21912.1| ribosomal large subunit pseudouridine synthase D [Rhodospirillum
rubrum ATCC 11170]
gi|346717600|gb|AEO47615.1| ribosomal large subunit pseudouridine synthase D [Rhodospirillum
rubrum F11]
Length = 343
Score = 176 bits (446), Expect = 1e-41, Method: Compositional matrix adjust.
Identities = 111/275 (40%), Positives = 152/275 (55%), Gaps = 33/275 (12%)
Query: 53 ANYAGVQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNV 112
A A + E VD +A RLD W+++ I +SRAR+Q I VS+NGQ + + S V
Sbjct: 18 AAAAPIVYERAVDAEAAGQRLDKWLATVIPTLSRARLQQLIGEKRVSVNGQTIGEGSRRV 77
Query: 113 KGGDMVNCTISELQPLRA--EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVN 170
K G V + E P+ A + E I L +VYEDD+++V++K A MVVHP PGN TLVN
Sbjct: 78 KPGQTVR--VEEPPPIAATPQPEAIALTVVYEDDDLIVIDKAAGMVVHPGPGNPDHTLVN 135
Query: 171 GILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAK 230
+L HC P+L S I G RPGIVHRLDK TSGL++ AK
Sbjct: 136 ALLAHCG-PSL---------------------SGIGGER-RPGIVHRLDKDTSGLMIAAK 172
Query: 231 DEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHG 290
+ +H L+EQF H++ R Y+ L G P ++G I+ P+ R P R +MA + K
Sbjct: 173 TDLAHHGLAEQFACHSLTREYLCLVWGRPRPAAGSIDAPLGRHPTQRKKMAVVSRGGK-- 230
Query: 291 QARHAASRYKVIEILAGGGSALVEWRLETGRTHQV 325
A + Y+V+ + G S +V+ L TGRTHQV
Sbjct: 231 ---RALTHYRVVGDVEGIAS-IVKCTLSTGRTHQV 261
>gi|227529323|ref|ZP_03959372.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
vaginalis ATCC 49540]
gi|227350751|gb|EEJ41042.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
vaginalis ATCC 49540]
Length = 305
Score = 176 bits (446), Expect = 1e-41, Method: Compositional matrix adjust.
Identities = 107/267 (40%), Positives = 153/267 (57%), Gaps = 35/267 (13%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
+L+ T+D+ A R+D ++ + ISR+++Q I G V++NG+ V K + + GD V
Sbjct: 4 ELKLTIDS-AMTGRIDKELAHHLTDISRSQLQKWIEDGNVTVNGEKV-KPKYKLVVGDRV 61
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
+ Q + E E+IPLDIVYEDD+V+VVNKP MVVHPAPG+ TLVN +L+H L
Sbjct: 62 VVQPKKPQKIDLEPENIPLDIVYEDDDVIVVNKPQGMVVHPAPGHPNHTLVNALLYHSPL 121
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
S+I+G RPGIVHR+DK TSGLL++AK++ +H L
Sbjct: 122 ------------------------STING-EFRPGIVHRIDKDTSGLLMIAKNDLAHRSL 156
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
+ Q K T ER Y++L GV + G I+ P+ R +R + A + RHA +
Sbjct: 157 AAQLKAKTNEREYVALVHGVIKEERGTIDAPLGRSKKDRKKQAVV------EDGRHAVTH 210
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQV 325
+KV+E+ LV RLETGRTHQ+
Sbjct: 211 FKVLELFQ--HYTLVSCRLETGRTHQI 235
>gi|28211276|ref|NP_782220.1| ribosomal large subunit pseudouridine synthase D [Clostridium
tetani E88]
gi|28203716|gb|AAO36157.1| ribosomal large subunit pseudouridine synthase D [Clostridium
tetani E88]
Length = 307
Score = 176 bits (446), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 96/254 (37%), Positives = 149/254 (58%), Gaps = 33/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +I + SR+ ++ + +N ++ KV++ VK GD+V + + + + E
Sbjct: 18 RLDLFIVENLKDKSRSFIKKLSDDKGIMVNDEI-KKVNYKVKCGDIVKVLLPKEEGIYLE 76
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E++ L+I+YED++++V+NKP MVVHP GN GTLVNG+L HC +L++ N E
Sbjct: 77 KENMDLNILYEDEDIIVINKPQGMVVHPGVGNTKGTLVNGLLAHCK--SLSNINGEE--- 131
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
RPGIVHR+DK TSG+LV+AK +H HL+ Q K H++ RVY
Sbjct: 132 -------------------RPGIVHRIDKDTSGILVIAKTNRAHEHLANQLKDHSMLRVY 172
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++LT GV + G I+ + R+P++RI+ A + + + A + YKVI ++
Sbjct: 173 MALTEGVIKEDMGTIDKDLGRNPSDRIKFAVVD------EGKRAVTHYKVIN--RYNNNS 224
Query: 312 LVEWRLETGRTHQV 325
L+E RLETGRTHQ+
Sbjct: 225 LIECRLETGRTHQI 238
>gi|229918562|ref|YP_002887208.1| RluA family pseudouridine synthase [Exiguobacterium sp. AT1b]
gi|229469991|gb|ACQ71763.1| pseudouridine synthase, RluA family [Exiguobacterium sp. AT1b]
Length = 303
Score = 176 bits (446), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 107/256 (41%), Positives = 150/256 (58%), Gaps = 33/256 (12%)
Query: 70 KLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLR 129
K R+D W+S R + SR++VQ I++G + +NG V K ++ ++ GD V + E L
Sbjct: 11 KARIDKWVSDRGEW-SRSQVQEWIKTGALLVNGSAV-KANYKLQVGDEVEVNVPEAVELE 68
Query: 130 AEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAF 189
EDIPL+IV+ED++V+VVNK MVVHPA G+ +GTLVN +L+HC
Sbjct: 69 VLPEDIPLEIVFEDEDVIVVNKARGMVVHPAAGHTSGTLVNALLYHC------------- 115
Query: 190 SDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIER 249
DD S I+G RPGIVHR+DK T+GLL+VAK++ +H L+ Q K TI+R
Sbjct: 116 -------DD---LSGINGVK-RPGIVHRIDKDTTGLLMVAKNDLAHESLASQLKDKTIKR 164
Query: 250 VYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGG 309
YI+L G G IE PI RD N+R RM + A+ A + ++++E
Sbjct: 165 EYIALVHGELVHELGTIEAPIGRDTNDRQRMTVTDRN-----AKEAVTHFRLLERYK--D 217
Query: 310 SALVEWRLETGRTHQV 325
LVE +LETGRTHQ+
Sbjct: 218 FTLVECKLETGRTHQI 233
>gi|22299081|ref|NP_682328.1| ribosomal large subunit pseudouridine synthase D
[Thermosynechococcus elongatus BP-1]
gi|22295263|dbj|BAC09090.1| ribosomal large subunit pseudouridine synthase D
[Thermosynechococcus elongatus BP-1]
Length = 308
Score = 176 bits (446), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 101/263 (38%), Positives = 148/263 (56%), Gaps = 30/263 (11%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
T + G RLD +++ + SR+R Q I+ G V +NGQV + + + GG+++ +
Sbjct: 6 TFKVEKGGNRLDTFLAQQHPEFSRSRWQQLIQQGHVRLNGQVCDRKNQPLSGGEVLEVVL 65
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
+PL E +PL I+YED+ +L++NKP +VVHPAPG++ GTLV+G+L HC P L
Sbjct: 66 PTPEPLDLVPEPLPLSILYEDEELLILNKPVDLVVHPAPGHSHGTLVHGLLAHC--PDL- 122
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
+ I G RPGIVHRLDK TSG++VVAK E + HL +Q
Sbjct: 123 --------------------TGIGGVQ-RPGIVHRLDKDTSGVMVVAKTEFALHHLQQQL 161
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
K ++R Y+ + G P + G + P+ R P +R +MA +P + R A + + V
Sbjct: 162 KTRQMQRHYLGVVYGQPREDRGTVITPLGRHPVDRKKMAVVPPE----KGRTAITHWYVK 217
Query: 303 EILAGGGSALVEWRLETGRTHQV 325
E ALVE+RLETGRTHQ+
Sbjct: 218 ERFR--HCALVEFRLETGRTHQI 238
>gi|304393319|ref|ZP_07375247.1| ribosomal large subunit pseudouridine synthase D [Ahrensia sp.
R2A130]
gi|303294326|gb|EFL88698.1| ribosomal large subunit pseudouridine synthase D [Ahrensia sp.
R2A130]
Length = 365
Score = 176 bits (446), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 104/265 (39%), Positives = 151/265 (56%), Gaps = 36/265 (13%)
Query: 72 RLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
R+D +IS+ D +SRARVQ+ +R G V+ING++ S + GD+V + +
Sbjct: 48 RVDKFISANAPDDLSRARVQALVRQGNVTINGELPRGTSTKISNGDVVRFLMPPPEDAIP 107
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
+ E+IPLDI++EDD+++V+ KPA MVVHPAPGN +GTLVN +LHHC
Sbjct: 108 QPENIPLDILHEDDDLIVLIKPAGMVVHPAPGNWSGTLVNALLHHC-------------- 153
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLH----T 246
+ + S G RPGIVHRLDK TSG++VVAK +H L EQF H
Sbjct: 154 ---------DGNLSGIGGVKRPGIVHRLDKDTSGVMVVAKSYRAHIDLQEQFADHGRTGP 204
Query: 247 IERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILA 306
+ER Y +L G P + G+++ I R P R++ A + A+HA + Y+V++
Sbjct: 205 LERAYWALAWGAPPRMKGKVDTLIGRHPTRRVQRAVV--EEGAPDAKHAITHYEVVKRFE 262
Query: 307 GGG------SALVEWRLETGRTHQV 325
++L+E +LETGRTHQ+
Sbjct: 263 DAERSGEAMASLIECKLETGRTHQI 287
>gi|398310646|ref|ZP_10514120.1| pseudouridylate synthase [Bacillus mojavensis RO-H-1]
Length = 303
Score = 176 bits (446), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 107/277 (38%), Positives = 149/277 (53%), Gaps = 33/277 (11%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q + T + R+D +++S +G SR +VQ ++ G V +NG V K ++ ++ GD V
Sbjct: 3 QFDITASEEQKSERIDKFLASTENGWSRTQVQQWVKDGQVVVNGSPV-KANYKIQPGDQV 61
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
T+ E + L AE + LDI YED +VLVVNKP MVVHPAPG+ TGTLVNG++ HC+
Sbjct: 62 TVTVPEPEALDVLAEPMDLDIYYEDQDVLVVNKPRGMVVHPAPGHLTGTLVNGLMAHCT- 120
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 121 ---------------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESL 157
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
Q T+ RVY ++ G+ S G I+ PI RD +R M H R
Sbjct: 158 VNQLVNKTVTRVYTAVVHGIISHDDGTIDAPIGRDKKDRQSMTVTRDGKNAVTHFHVLDR 217
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
++ LVE +LETGRTHQ+ + K P
Sbjct: 218 FQEF--------TLVECQLETGRTHQIRVHMKYIGFP 246
>gi|374333001|ref|YP_005083185.1| RluA family pseudouridine synthase [Pseudovibrio sp. FO-BEG1]
gi|359345788|gb|AEV39162.1| pseudouridine synthase, RluA family [Pseudovibrio sp. FO-BEG1]
Length = 349
Score = 176 bits (446), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 104/264 (39%), Positives = 150/264 (56%), Gaps = 40/264 (15%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLDA +++ ID SR R+Q+ IR+G V I + V + + V GD + + E + +
Sbjct: 36 RLDAVLAAHIDDFSRNRLQALIRAGQVQIGQRTVLEPKYRVCAGDTITLIVPEPEAAEPQ 95
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
EDIPL IVYED++++V++KPA +VVHP GN TGTLVN ++HHC
Sbjct: 96 PEDIPLTIVYEDEDLIVIDKPAGLVVHPGAGNPTGTLVNALIHHC--------------- 140
Query: 192 AEDISDDEEFSSSIS--GASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLH---- 245
SS+S G RPGIVHR+DK T+GLLVVAK++ +H L+ QF H
Sbjct: 141 ----------GSSLSGIGGVKRPGIVHRIDKDTTGLLVVAKNDMAHQGLAAQFADHGRTG 190
Query: 246 TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEIL 305
+ER Y +L G P+ + G ++ ++R NR +++ + K G RHA + ++V E
Sbjct: 191 PLERAYKALVWGAPTAAKGTVDANLARSTANRQKISVL----KTG-GRHAITHWQVQERF 245
Query: 306 AGGGSA----LVEWRLETGRTHQV 325
A L+E RLETGRTHQ+
Sbjct: 246 GPQDEAAVASLIECRLETGRTHQI 269
>gi|345017841|ref|YP_004820194.1| RluA family pseudouridine synthase [Thermoanaerobacter wiegelii
Rt8.B1]
gi|344033184|gb|AEM78910.1| pseudouridine synthase, RluA family [Thermoanaerobacter wiegelii
Rt8.B1]
Length = 305
Score = 176 bits (446), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 102/254 (40%), Positives = 150/254 (59%), Gaps = 34/254 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D ++++ +D +R+ ++ I LV +NG+ V K S+ VK D V I E + +
Sbjct: 19 RIDVFLAAELD-YTRSYIKKLIVDELVFVNGKTV-KPSYKVKENDEVVVNIPEAEKIDVL 76
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E+IPLDI+YEDD+++V+NKP MVVHPAPGN +GTLVN +L+HC
Sbjct: 77 PENIPLDILYEDDDIIVINKPQGMVVHPAPGNYSGTLVNALLYHC--------------- 121
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+ S I+G +RPGIVHRLDK TSG++VVAK++ +H LS Q K ++ + Y
Sbjct: 122 --------KNLSGINGI-LRPGIVHRLDKDTSGVMVVAKNDKAHISLSNQIKERSVFKKY 172
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+++ GV G+IE I R P +R +MA I R+A + YKV+E +
Sbjct: 173 VAIVEGVIKHEEGKIEALIGRHPVDRKKMAVIE------DGRYALTLYKVLERFK--ENT 224
Query: 312 LVEWRLETGRTHQV 325
LVE ++TGRTHQ+
Sbjct: 225 LVEAVIKTGRTHQI 238
>gi|289435186|ref|YP_003465058.1| RluD subfamily ribosomal large subunit pseudouridine synthase
[Listeria seeligeri serovar 1/2b str. SLCC3954]
gi|422419459|ref|ZP_16496414.1| ribosomal large subunit pseudouridine synthase D [Listeria
seeligeri FSL N1-067]
gi|422422550|ref|ZP_16499503.1| ribosomal large subunit pseudouridine synthase D [Listeria
seeligeri FSL S4-171]
gi|289171430|emb|CBH27974.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria seeligeri serovar 1/2b str. SLCC3954]
gi|313632720|gb|EFR99690.1| ribosomal large subunit pseudouridine synthase D [Listeria
seeligeri FSL N1-067]
gi|313637301|gb|EFS02795.1| ribosomal large subunit pseudouridine synthase D [Listeria
seeligeri FSL S4-171]
Length = 303
Score = 176 bits (445), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 104/254 (40%), Positives = 152/254 (59%), Gaps = 34/254 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D ++ + G SR+ +Q ++SG +++NG++ +K ++ V+ GD + + E + L
Sbjct: 16 RIDKAVAE-LTGKSRSAIQIMLKSGDITVNGEI-AKPNYKVQVGDEIYLEVREPEELEVL 73
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AEDIPLDI +ED ++LVVNKP MVVHP+ G+A+GTLVN +L HC
Sbjct: 74 AEDIPLDIYFEDKDMLVVNKPEGMVVHPSAGHASGTLVNALLFHC--------------- 118
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
DD S I+G IRPGIVHR+DK TSGLL+VAK++H+H L++Q K T +R Y
Sbjct: 119 -----DD---LSGING-KIRPGIVHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSDREY 169
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
I+L G G IE PI R +R +MA + + A + ++VIE L G
Sbjct: 170 IALVHGDIVHQKGTIEAPIGRAKEDRQKMAVV------RDGKEARTHFEVIERLP--GYT 221
Query: 312 LVEWRLETGRTHQV 325
L+ +L+TGRTHQ+
Sbjct: 222 LINCKLDTGRTHQI 235
>gi|395784617|ref|ZP_10464444.1| RluA family pseudouridine synthase [Bartonella melophagi K-2C]
gi|395422191|gb|EJF88402.1| RluA family pseudouridine synthase [Bartonella melophagi K-2C]
Length = 341
Score = 176 bits (445), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 100/276 (36%), Positives = 156/276 (56%), Gaps = 35/276 (12%)
Query: 60 LEETVDTKAGKLRLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
+++ D A R+D W++ + + +SR+R+Q+ IR G + ++GQ++ + + +
Sbjct: 3 IQQITDENALGQRIDQWLAKKYHNELSRSRLQTLIREGYLKVDGQLIKEPKTKLHPNQTI 62
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
I L+ + E E I LDI++EDD+++V+NKPA +VVHP GN TGTLVN ++HHC
Sbjct: 63 ELIIPPLKNIHLEGEAIVLDILFEDDHIIVINKPAGLVVHPGNGNWTGTLVNALIHHCG- 121
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+S S G RPGIVHRLDK TSG++VVAK++ +H L
Sbjct: 122 ----------------------YSLSGIGGVKRPGIVHRLDKNTSGVMVVAKNDFAHKSL 159
Query: 239 SEQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARH 294
S QF H ++R Y +L P ++ G I+V + R P+NRI+ + N H AR
Sbjct: 160 SAQFSDHGRTCALDRRYHALIWNAPRRNIGTIDVSLGRSPHNRIKQTVVRHQNVH--ARR 217
Query: 295 AASRYKVIE-----ILAGGGSALVEWRLETGRTHQV 325
A + + ++E + A ++L+E LETGRTHQ+
Sbjct: 218 AITHFSLLEKYKTCVDAEPFASLLECHLETGRTHQI 253
>gi|305664420|ref|YP_003860707.1| ribosomal large subunit pseudouridine synthase D [Maribacter sp.
HTCC2170]
gi|88708437|gb|EAR00673.1| ribosomal large subunit pseudouridine synthase D [Maribacter sp.
HTCC2170]
Length = 341
Score = 176 bits (445), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 110/258 (42%), Positives = 149/258 (57%), Gaps = 36/258 (13%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQP--L 128
LR+D ++ + I+ +R ++Q + + G + +N ++V K ++ VK GD V + E P L
Sbjct: 29 LRVDKFLMNFIENATRNKIQQAAKDGHIWVNEKIV-KQNYKVKAGDEVKV-LFEHPPYEL 86
Query: 129 RAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC-SLPTLASSNQE 187
E+IPLDIVYEDD +LVVNKPA MVVHP GN TGTL+N +L+H LP +SN
Sbjct: 87 LLTPENIPLDIVYEDDVLLVVNKPAGMVVHPGHGNYTGTLINALLYHSKDLP--VNSND- 143
Query: 188 AFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTI 247
RPG+VHR+DK TSGLLVVAK E + HL++QF T
Sbjct: 144 -----------------------RPGLVHRIDKDTSGLLVVAKTEAAMTHLAKQFFDKTS 180
Query: 248 ERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAG 307
ER Y++L G SG IE I+R+P NR++M P Q + A + Y V+E L
Sbjct: 181 EREYVALVWGNVEDESGTIEGNIARNPKNRLQMQVFPEGE---QGKEAVTHYGVLERL-- 235
Query: 308 GGSALVEWRLETGRTHQV 325
G LV +LETGRTHQ+
Sbjct: 236 GYVTLVSCKLETGRTHQI 253
>gi|395778620|ref|ZP_10459132.1| RluA family pseudouridine synthase [Bartonella elizabethae
Re6043vi]
gi|423715067|ref|ZP_17689291.1| RluA family pseudouridine synthase [Bartonella elizabethae F9251]
gi|395417828|gb|EJF84165.1| RluA family pseudouridine synthase [Bartonella elizabethae
Re6043vi]
gi|395430551|gb|EJF96593.1| RluA family pseudouridine synthase [Bartonella elizabethae F9251]
Length = 334
Score = 176 bits (445), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 102/276 (36%), Positives = 155/276 (56%), Gaps = 35/276 (12%)
Query: 60 LEETVDTKAGKLRLDAWISSRIDGI-SRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
+++ D A RLD W++ + + SR+R+Q+ IR G + I+GQ + + +K ++
Sbjct: 3 IQKITDEGALGQRLDQWLAKQYHTVLSRSRLQTLIREGCLKIDGQFIKEPKTKLKSNQII 62
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
+ +L+ AE I LDI++EDD+V+V+NKPA +VVHP GN TGTLVN +++HC
Sbjct: 63 ELAMPDLRDAEPSAEAIALDILFEDDHVIVINKPAGLVVHPGNGNWTGTLVNALIYHCG- 121
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
S S G RPGIVHRLDK TSG++VVAK++ +H L
Sbjct: 122 ----------------------NSLSGIGGVKRPGIVHRLDKNTSGVMVVAKNDLAHKSL 159
Query: 239 SEQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARH 294
S QF H ++R Y +L G P ++ I+ +SR P+NR + A + H ARH
Sbjct: 160 SSQFSDHGRTCALDRRYHALIWGTPHRNVWTIDASLSRSPHNRTKQAVVHNQTPH--ARH 217
Query: 295 AASRYKVIEIL-----AGGGSALVEWRLETGRTHQV 325
A + + ++E + ++L+E RLETGRTHQ+
Sbjct: 218 AVTHFSLLEKYGTREDSTSFASLLECRLETGRTHQI 253
>gi|344203445|ref|YP_004788588.1| RluA family pseudouridine synthase [Muricauda ruestringensis DSM
13258]
gi|343955367|gb|AEM71166.1| pseudouridine synthase, RluA family [Muricauda ruestringensis DSM
13258]
Length = 343
Score = 176 bits (445), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 101/257 (39%), Positives = 148/257 (57%), Gaps = 34/257 (13%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLR- 129
LR+D ++ + I+ +R ++Q + + G + +NG +V K ++ VK GD V E P
Sbjct: 30 LRVDKFLMNFIENATRNKIQQAAKKGHIWVNGTIV-KQNYKVKAGDEVKVMF-EHPPYEF 87
Query: 130 -AEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEA 188
EDIPLDIVYEDD +LVVNKPA MVVHP GN +GTL+N +++H
Sbjct: 88 LLTPEDIPLDIVYEDDVLLVVNKPAGMVVHPGHGNYSGTLINALVYH------------- 134
Query: 189 FSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIE 248
F + + +S RPG+VHR+DK TSGLLV+AK E + HL++QF + E
Sbjct: 135 ------------FENLPNNSSDRPGLVHRIDKDTSGLLVIAKTESAMTHLAQQFFDKSSE 182
Query: 249 RVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGG 308
R Y++L G + G +E I+R+P NR++M P + + + A + YKV+E G
Sbjct: 183 REYVALVWGNVEEDEGTVEGHIARNPKNRLQMMVFPEGD---EGKDAVTHYKVLERF--G 237
Query: 309 GSALVEWRLETGRTHQV 325
L+ +LETGRTHQ+
Sbjct: 238 YVTLISCKLETGRTHQI 254
>gi|149202314|ref|ZP_01879287.1| Pseudouridine synthase, RluD [Roseovarius sp. TM1035]
gi|149144412|gb|EDM32443.1| Pseudouridine synthase, RluD [Roseovarius sp. TM1035]
Length = 342
Score = 176 bits (445), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 107/254 (42%), Positives = 147/254 (57%), Gaps = 35/254 (13%)
Query: 84 ISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAEAEDIPLDIVYED 143
+SR R+ + G V +NG VVS+ V+ GD++ + E + E I L++VYED
Sbjct: 32 LSRTRLARLLEEGAVRVNGAVVSEAKARVQAGDLIEIVVPEARESHMAPEAIALEVVYED 91
Query: 144 DNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSS 203
D+++VVNKPA MVVHPAPG+ GTLVN +LHHC + S
Sbjct: 92 DDLIVVNKPAGMVVHPAPGSPEGTLVNALLHHCG----------------------DSLS 129
Query: 204 SISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSS 263
+ GA RPGIVHR+DK TSGLLVVAK + +H L+ QF+ H++ER Y ++ GVP S
Sbjct: 130 GVGGAK-RPGIVHRIDKETSGLLVVAKSDAAHQGLAAQFEAHSVERQYRAVVYGVPEASD 188
Query: 264 GRIE--VPISRDPNNRIRMA---AIPGSNKHGQA------RHAASRYKVIEILAGGG-SA 311
R+ IS +P N +R+A A +++ QA RHA +R +VIE G +A
Sbjct: 189 PRLRGLRGISFEPGNILRIATRLARHKTDRQRQAVLFEGGRHAVTRARVIESFGTPGVAA 248
Query: 312 LVEWRLETGRTHQV 325
L+E LETGRTHQ+
Sbjct: 249 LMECWLETGRTHQI 262
>gi|261405686|ref|YP_003241927.1| RluA family pseudouridine synthase [Paenibacillus sp. Y412MC10]
gi|261282149|gb|ACX64120.1| pseudouridine synthase, RluA family [Paenibacillus sp. Y412MC10]
Length = 324
Score = 176 bits (445), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 105/276 (38%), Positives = 161/276 (58%), Gaps = 33/276 (11%)
Query: 61 EETVDTKAGKLRLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
E TVD A K R+D +++ + + +SR++VQ I G VS+N + K ++ V GD +
Sbjct: 25 EWTVDADAAKTRIDKYLTENLGEDVSRSQVQLWIADGHVSVNDGPI-KSNYKVSQGDRIV 83
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
+ E + EDIPL+I +ED +V+VVNKP MVVHPAPG+++GTLVN ++ HC
Sbjct: 84 LKVPEPSAVEIIPEDIPLEIAFEDGDVIVVNKPRGMVVHPAPGHSSGTLVNALMFHC--- 140
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
+D+ S I+G +RPGIVHR+DK T+GL++ AK++ +HA L+
Sbjct: 141 -------------KDL-------SGING-ELRPGIVHRIDKDTTGLIMAAKNDKAHASLA 179
Query: 240 EQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRY 299
Q K H++ R Y++L G S G I+ PI RD +R ++ + N ++HA + +
Sbjct: 180 AQLKEHSVNRRYLALVHGNISHDQGTIDAPIGRDAQDR-KLYTVTDRN----SKHAVTHF 234
Query: 300 KVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
V+E G +L+E +LETGRTHQ+ + K P
Sbjct: 235 TVVERF--GDYSLLELKLETGRTHQIRVHMKYIGHP 268
>gi|427427997|ref|ZP_18918039.1| Ribosomal large subunit pseudouridine synthase D [Caenispirillum
salinarum AK4]
gi|425882698|gb|EKV31377.1| Ribosomal large subunit pseudouridine synthase D [Caenispirillum
salinarum AK4]
Length = 352
Score = 176 bits (445), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 111/273 (40%), Positives = 150/273 (54%), Gaps = 33/273 (12%)
Query: 57 GVQLEETVDTKAGKLRLDAWISSRID--GISRARVQSSIRSGLVSINGQVVS--KVSHNV 112
G L +A LRLD W++ + G++R+R++ I G VS++G+ ++ S V
Sbjct: 29 GALLTAEAGPEAAGLRLDKWLAEALGDPGLTRSRLKQLIDEGRVSLDGRTLTAADASRKV 88
Query: 113 KGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGI 172
+ G T+ +P E +DIPL +V+ED +++VV+KPA MVVHPA GNA GTLVN +
Sbjct: 89 RAGQTAAVTVPPPEPAVPEPQDIPLSVVFEDAHLIVVDKPAGMVVHPAAGNADGTLVNAL 148
Query: 173 LHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDE 232
LHHC S S G RPGIVHR+DK TSGLLV AK +
Sbjct: 149 LHHCG-----------------------ASLSGIGGVRRPGIVHRIDKDTSGLLVAAKTD 185
Query: 233 HSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQA 292
+H L+ F H IERVY ++ GVP G I I+R NR +MA + K
Sbjct: 186 AAHQGLAALFARHDIERVYTAVVWGVPMPRRGTITGNIARSTANRQKMAVVKSGGK---- 241
Query: 293 RHAASRYKVIEILAGGGSALVEWRLETGRTHQV 325
A + Y+V+ LA G +ALV RLETGRTHQ+
Sbjct: 242 -PAVTHYQVVTPLA-GDTALVTCRLETGRTHQI 272
>gi|395786921|ref|ZP_10466648.1| RluA family pseudouridine synthase [Bartonella tamiae Th239]
gi|423718160|ref|ZP_17692350.1| RluA family pseudouridine synthase [Bartonella tamiae Th307]
gi|395423219|gb|EJF89415.1| RluA family pseudouridine synthase [Bartonella tamiae Th239]
gi|395426593|gb|EJF92720.1| RluA family pseudouridine synthase [Bartonella tamiae Th307]
Length = 341
Score = 176 bits (445), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 103/271 (38%), Positives = 154/271 (56%), Gaps = 35/271 (12%)
Query: 65 DTKAGKLRLDAWISSRIDG-ISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
D A R+D W+S ++ SR+R+Q+ IR G + I+ VV + ++GG+ + +
Sbjct: 15 DESAKGQRIDQWLSKQLQADYSRSRLQALIRQGQIKIDNVVVLEPKIKLRGGENIQLNLP 74
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
L + E+IPLDI+YED++++VVNKPA +VVHP GN TGT+VN ++ HC
Sbjct: 75 PLLDAEPQGENIPLDILYEDNDIIVVNKPAGLVVHPGNGNTTGTMVNALIFHCG------ 128
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
S S G RPGIVHRLDK TSG++VVAK++++H +LSEQF
Sbjct: 129 -----------------HSLSGIGGVKRPGIVHRLDKDTSGVMVVAKNDNAHKNLSEQFA 171
Query: 244 LH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRY 299
H ++R Y +L G + GRIE + R ++R R A + S+ AR+A + +
Sbjct: 172 DHGRSGALKRQYHALIWGTLERGRGRIETHLGRSQSDRTRQAVV--SSTRSDARYAVTHF 229
Query: 300 KVIEIL-----AGGGSALVEWRLETGRTHQV 325
++E A ++LVE +LETGRTHQ+
Sbjct: 230 HILEKFGTKNDATAVASLVECQLETGRTHQI 260
>gi|320528439|ref|ZP_08029601.1| pseudouridine synthase, RluA family [Solobacterium moorei F0204]
gi|320131353|gb|EFW23921.1| pseudouridine synthase, RluA family [Solobacterium moorei F0204]
Length = 304
Score = 175 bits (444), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 102/269 (37%), Positives = 152/269 (56%), Gaps = 35/269 (13%)
Query: 70 KLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLR 129
K RLD ++SS + +SR RVQ G++ +NG+V +K S V GD ++C + E +P+
Sbjct: 13 KERLDKYLSSNTE-LSRTRVQQLADDGMIFVNGKV-AKSSSKVVTGDEISCDVPEDRPVD 70
Query: 130 AEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAF 189
E+IPLDI+YED +++V+NKP MVVHPAPGN + T+VN +L+HC
Sbjct: 71 ILPENIPLDILYEDHDIIVINKPKGMVVHPAPGNYSNTMVNALLYHC------------- 117
Query: 190 SDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIER 249
+D+ S I+G IRPGIVHR+DK T+G +V K++ +H +++Q + T R
Sbjct: 118 ---KDL-------SGINGV-IRPGIVHRIDKDTTGCIVACKNDKAHEAIAKQLENKTCHR 166
Query: 250 VYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQAR-HAASRYKVIEILAGG 308
VY ++ G + G I+ PI RDP +R RM +++ + H R+ V
Sbjct: 167 VYKTIVVGNITHDDGLIDAPIGRDPRDRQRMKVTEENSRDARTHFHVLERFNV------- 219
Query: 309 GSALVEWRLETGRTHQVLMLYKLFYIPRM 337
+ +E RLETGRTHQ+ K P M
Sbjct: 220 -ATYLECRLETGRTHQIRAHMKYINHPVM 247
>gi|428774431|ref|YP_007166219.1| ribosomal large subunit pseudouridine synthase D [Cyanobacterium
stanieri PCC 7202]
gi|428688710|gb|AFZ48570.1| ribosomal large subunit pseudouridine synthase D [Cyanobacterium
stanieri PCC 7202]
Length = 315
Score = 175 bits (444), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 100/258 (38%), Positives = 147/258 (56%), Gaps = 29/258 (11%)
Query: 68 AGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQP 127
A K+R+D W++ + +SR+RVQ I G V +N ++ ++ +K GD ++ I P
Sbjct: 18 ANKIRIDLWLAENLTDLSRSRVQKLIEDGQVYLNDRLCTQKKETLKQGDKIHVHIPAAVP 77
Query: 128 LRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQE 187
EA++IPLDI+YED+ ++++NKPA+ VVHPAPG++ GTLVN +L HC P L
Sbjct: 78 SHIEAQEIPLDILYEDEFLIIINKPANFVVHPAPGHSKGTLVNALLAHC--PDL------ 129
Query: 188 AFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTI 247
I G RPGIVHRLDK T+G +VVAK E L Q + T
Sbjct: 130 ---------------KGIGGVE-RPGIVHRLDKDTTGAMVVAKTEPVLHDLQGQIRAKTA 173
Query: 248 ERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAG 307
R Y+++ G S+ +G I++PI R P R +MA +P + A + ++V E L
Sbjct: 174 RREYLAVVYGSFSEDNGTIDLPIGRHPTQRKKMAVVPLEKG---GKKALTHWQVRERL-- 228
Query: 308 GGSALVEWRLETGRTHQV 325
G + + +RLETGRTHQ+
Sbjct: 229 GNYSWLHFRLETGRTHQI 246
>gi|365839179|ref|ZP_09380425.1| pseudouridine synthase, RluA family [Anaeroglobus geminatus F0357]
gi|364565366|gb|EHM43093.1| pseudouridine synthase, RluA family [Anaeroglobus geminatus F0357]
Length = 303
Score = 175 bits (444), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 109/255 (42%), Positives = 145/255 (56%), Gaps = 32/255 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
LR D +IS +D ISR+ S I+ G V++ + V K ++ V GD +
Sbjct: 15 LRADVYISRALD-ISRSYGGSLIKGGKVTVGDKAV-KANYKVAAGDKFAVVVEAATAFSV 72
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
E E+IPLDIVYED +++V+NK MVVHPA GN GTLVN +L+HC
Sbjct: 73 EPENIPLDIVYEDRHIIVINKARGMVVHPAAGNPDGTLVNALLYHCG------------- 119
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
+E S I+G IRPGIVHRLDK TSG++V AK + +H L+EQ K H+ R
Sbjct: 120 --------KELSG-INGV-IRPGIVHRLDKDTSGIMVAAKTDMAHKALAEQIKAHSARRT 169
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y +L G ++ GRIE PI R P +RI+MA + K G R A + + V+E G
Sbjct: 170 YKALVHGNIVEAKGRIEAPIGRHPKDRIKMAV---NLKDG--REAVTHFTVLERY--GDY 222
Query: 311 ALVEWRLETGRTHQV 325
L+E RLETGRTHQ+
Sbjct: 223 TLIECRLETGRTHQI 237
>gi|402821994|ref|ZP_10871503.1| ribosomal large subunit pseudouridine synthase D [Sphingomonas sp.
LH128]
gi|402264475|gb|EJU14329.1| ribosomal large subunit pseudouridine synthase D [Sphingomonas sp.
LH128]
Length = 313
Score = 175 bits (444), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 102/254 (40%), Positives = 149/254 (58%), Gaps = 30/254 (11%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D ++ + G+SR R+++ + G VS+ G+ V++ S V G + E P A
Sbjct: 17 RIDKALAE-VSGLSRERIKALMGEGRVSLAGKPVAQASLKVDAGTPFAIDVPEATPAEAV 75
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
A+DIPL +VYED+++++V+KPA +VVHPA GN GTLVN +LHHC
Sbjct: 76 AQDIPLAVVYEDEHLIIVDKPAGLVVHPAAGNLDGTLVNALLHHC--------------- 120
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
S I G + RPGIVHR+DK TSGLLVVAK + +H L+ QF H+IER Y
Sbjct: 121 -------RGQLSGIGGVA-RPGIVHRIDKDTSGLLVVAKTDKAHEGLAVQFADHSIERAY 172
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++ G P +G + I+R ++R +MA + + G+ +HA + ++ + L G+
Sbjct: 173 HAVVGGRPVPVAGTVRGAIARSSHDRKKMALV----EDGRGKHAVTHFRTLAALR--GAT 226
Query: 312 LVEWRLETGRTHQV 325
LVE RLETGRTHQV
Sbjct: 227 LVECRLETGRTHQV 240
>gi|421527424|ref|ZP_15974026.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium
nucleatum ChDC F128]
gi|402256459|gb|EJU06939.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium
nucleatum ChDC F128]
Length = 314
Score = 175 bits (444), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 102/269 (37%), Positives = 157/269 (58%), Gaps = 33/269 (12%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
+LE V ++ +RLD ++S +I+ +R+ ++ I + V +N +V++K +K G+ +
Sbjct: 7 KLEFEVSSEYEGMRLDKYLSEQIEEATRSYLEKLIDNNFVKVNSKVITKNGRKLKLGEKI 66
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
I E + + E E+IPLD++YE+++ +V+NK MVVHPA GN +GTLVN +L++ +
Sbjct: 67 EVFIPEEENIDIEPENIPLDVIYENEDFIVINKSYGMVVHPAYGNYSGTLVNALLYYTN- 125
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
L+S N +IRPGI+HRLDK TSGL++VAK+ +HA L
Sbjct: 126 -NLSSVN----------------------GNIRPGIIHRLDKDTSGLILVAKNNFAHAKL 162
Query: 239 SEQFKLHTIERVYISLTSGVPSQS--SGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAA 296
+ F TI + Y+ + G S+ SGRIE I RD +R +MA + + K A
Sbjct: 163 ASMFIDKTIHKTYLCIVKGNFSEENLSGRIENLIGRDIKDRKKMAVVKENGK-----VAI 217
Query: 297 SRYKVIEILAGGGSALVEWRLETGRTHQV 325
S YKVIE + G +LVE +ETGRTHQ+
Sbjct: 218 SNYKVIEQVE--GYSLVEVAIETGRTHQI 244
>gi|229019095|ref|ZP_04175930.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
AH1273]
gi|229025339|ref|ZP_04181757.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
AH1272]
gi|423389798|ref|ZP_17367024.1| RluA family pseudouridine synthase [Bacillus cereus BAG1X1-3]
gi|423418199|ref|ZP_17395288.1| RluA family pseudouridine synthase [Bacillus cereus BAG3X2-1]
gi|228735924|gb|EEL86501.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
AH1272]
gi|228742195|gb|EEL92360.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
AH1273]
gi|401106472|gb|EJQ14433.1| RluA family pseudouridine synthase [Bacillus cereus BAG3X2-1]
gi|401641889|gb|EJS59606.1| RluA family pseudouridine synthase [Bacillus cereus BAG1X1-3]
Length = 302
Score = 175 bits (444), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 108/273 (39%), Positives = 157/273 (57%), Gaps = 33/273 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV + R+D +++ SR++VQ I+ +V++NG+ V KV++ VKG D + TI
Sbjct: 8 TVAEEQKSERIDKFVAEINSEWSRSQVQQWIKDDVVTVNGKSV-KVNYKVKGNDEITVTI 66
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
+ + L + ED+ L+I YED +VLVVNKP MVVHPAPG+ +GTLVNG++HHC+
Sbjct: 67 PDPEELDIQPEDMNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCT----- 121
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q
Sbjct: 122 -----------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQL 162
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
T+ R Y ++ GV G I+ PI RD R M +++G ++A + ++V+
Sbjct: 163 VAKTVTRRYKAIVHGVIPHDKGTIDAPIGRDKKERQSMTV----DENG--KNAVTHFQVL 216
Query: 303 EILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
E LVE RLETGRTHQ+ + K P
Sbjct: 217 ERFK--DFTLVECRLETGRTHQIRVHMKYIGYP 247
>gi|339448356|ref|ZP_08651912.1| pseudouridylate synthase, 23S RNA-specific [Lactobacillus
fructivorans KCTC 3543]
Length = 305
Score = 175 bits (444), Expect = 3e-41, Method: Compositional matrix adjust.
Identities = 107/254 (42%), Positives = 144/254 (56%), Gaps = 33/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++ + +SR+R I+ L+ +N + K + K GD++ I E +PL
Sbjct: 14 RLDKLVADHYEDLSRSRANELIKEHLILVN-EKKEKPKYKSKIGDLIQIAIPEPKPLDLT 72
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
+DIPLDIVYEDD V+VVNKP MVVHPAPG+ TLVN +L+H L
Sbjct: 73 PQDIPLDIVYEDDQVIVVNKPQGMVVHPAPGHPDHTLVNALLYHTKL------------- 119
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
SSI+G ++RPGIVHR+DK TSGLL+VAK + +H LS+Q K T R Y
Sbjct: 120 -----------SSING-TVRPGIVHRIDKDTSGLLMVAKTDVAHKSLSKQLKEKTNRRKY 167
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++L G +S G I+ PI R +R + A I G R A + + V+E GG
Sbjct: 168 LALVHGNIKESYGTIDAPIGRSTKDRKKQAVITG------GRPAITHFHVLERF-GGKYT 220
Query: 312 LVEWRLETGRTHQV 325
LVE +LETGRTHQ+
Sbjct: 221 LVECQLETGRTHQI 234
>gi|254473085|ref|ZP_05086483.1| ribosomal large subunit pseudouridine synthase D [Pseudovibrio sp.
JE062]
gi|211957806|gb|EEA93008.1| ribosomal large subunit pseudouridine synthase D [Pseudovibrio sp.
JE062]
Length = 349
Score = 175 bits (444), Expect = 3e-41, Method: Compositional matrix adjust.
Identities = 103/264 (39%), Positives = 150/264 (56%), Gaps = 40/264 (15%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLDA +++ ID SR R+Q+ IR+G V I + V + + V GD + + E + +
Sbjct: 36 RLDAVLAAHIDDFSRNRLQALIRAGQVQIGQRTVLEPKYRVCAGDTITLIVPEPEAAEPQ 95
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
EDIPL IVYED++++V++KPA +VVHP GN TGTLVN ++HHC
Sbjct: 96 PEDIPLTIVYEDEDLIVIDKPAGLVVHPGAGNPTGTLVNALIHHC--------------- 140
Query: 192 AEDISDDEEFSSSIS--GASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLH---- 245
SS+S G RPGIVHR+DK T+GLLV+AK++ +H L+ QF H
Sbjct: 141 ----------GSSLSGIGGVKRPGIVHRIDKDTTGLLVIAKNDMAHQGLAAQFADHGRTG 190
Query: 246 TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEIL 305
+ER Y +L G P+ + G ++ ++R NR +++ + K G RHA + ++V E
Sbjct: 191 PLERAYKALVWGAPTAAKGTVDANLARSTANRQKISVL----KTG-GRHAITHWQVQERF 245
Query: 306 AGGGSA----LVEWRLETGRTHQV 325
A L+E RLETGRTHQ+
Sbjct: 246 GPQDEAAVASLIECRLETGRTHQI 269
>gi|312898193|ref|ZP_07757584.1| pseudouridine synthase, RluA family [Megasphaera micronuciformis
F0359]
gi|310620690|gb|EFQ04259.1| pseudouridine synthase, RluA family [Megasphaera micronuciformis
F0359]
Length = 306
Score = 175 bits (444), Expect = 3e-41, Method: Compositional matrix adjust.
Identities = 107/266 (40%), Positives = 153/266 (57%), Gaps = 32/266 (12%)
Query: 60 LEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
+ V K +R+D +++ +D ISR+ + I++G VS+ +++ K ++ V GD +
Sbjct: 4 ITSVVTDKDTGIRVDIYVARALD-ISRSYAGNLIKNGKVSMRNRIL-KANYRVAEGDEIV 61
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
E + L EAE+IPLDIVYED ++++VNK MVVHPA GN GTLVN +L HC
Sbjct: 62 IEKDEAEDLTVEAENIPLDIVYEDKDIIIVNKARGMVVHPAAGNPNGTLVNALLWHCGGE 121
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
S I+G IRPGIVHRLDK TSGL+V AK + +H L+
Sbjct: 122 L----------------------SGINGV-IRPGIVHRLDKDTSGLMVAAKTDAAHKSLA 158
Query: 240 EQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRY 299
EQ K HT R Y++L G ++ GRI+ P+ R P +R++MA + K G + A + +
Sbjct: 159 EQIKSHTARRTYVALVHGNIVEAKGRIDAPLGRHPKDRVKMAV---NMKDG--KDAITHF 213
Query: 300 KVIEILAGGGSALVEWRLETGRTHQV 325
V+E G LV+ RLETGRTHQ+
Sbjct: 214 TVLERF--GNYTLVQCRLETGRTHQI 237
>gi|160892655|ref|ZP_02073445.1| hypothetical protein CLOL250_00185 [Clostridium sp. L2-50]
gi|156865696|gb|EDO59127.1| pseudouridine synthase, RluA family [Clostridium sp. L2-50]
Length = 305
Score = 175 bits (444), Expect = 3e-41, Method: Compositional matrix adjust.
Identities = 95/256 (37%), Positives = 148/256 (57%), Gaps = 34/256 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D ++ D SR+ ++ + G + +N + +K S + GD ++ TI + + E
Sbjct: 16 RVDKGLADYFDNYSRSFLKKLLDDGNILVNDKK-AKPSLKIASGDRIDITIPSIASVEIE 74
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E+IPLDIVYED+++++VNKP MVVHPAPG+ +GTLVNG+++H
Sbjct: 75 PENIPLDIVYEDEDIIIVNKPKGMVVHPAPGHYSGTLVNGLMYH---------------- 118
Query: 192 AEDISDDEEFSSSISG--ASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIER 249
F S+SG +RPGIVHR+D T+GLLVV K++ +H LSEQ +H+I R
Sbjct: 119 ---------FKDSLSGINGELRPGIVHRIDMDTTGLLVVCKNDAAHNFLSEQLAVHSITR 169
Query: 250 VYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGG 309
Y ++ ++ G +++PI R P +R +MA + R+A + YKV++ L
Sbjct: 170 KYYAICFNYFTEDEGIVDLPIGRHPTDRKKMAV-----NYKNGRNAVTHYKVLKKLK-NN 223
Query: 310 SALVEWRLETGRTHQV 325
L+E +LETGRTHQ+
Sbjct: 224 FCLIECQLETGRTHQI 239
>gi|225018395|ref|ZP_03707587.1| hypothetical protein CLOSTMETH_02342 [Clostridium methylpentosum
DSM 5476]
gi|224948813|gb|EEG30022.1| hypothetical protein CLOSTMETH_02342 [Clostridium methylpentosum
DSM 5476]
Length = 308
Score = 175 bits (444), Expect = 3e-41, Method: Compositional matrix adjust.
Identities = 100/256 (39%), Positives = 147/256 (57%), Gaps = 35/256 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++ + + G +R+ +Q I V G+ ++K H ++ G+ ++ TI + +PL
Sbjct: 17 RLDKFLPTVLPGYTRSALQKLIEGEQVRCEGEPLNK-KHKLRAGETISVTIPDPEPLDVL 75
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E+IPLDI+YED ++LVVNKP HMVVHPA GN TGTLVN +LHHC
Sbjct: 76 PEEIPLDILYEDSDLLVVNKPKHMVVHPAAGNYTGTLVNALLHHC--------------- 120
Query: 192 AEDISDDEEFSSSISGAS--IRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIER 249
S+SG + IRPGIVHR+DK TSGLL+VAK++ +H L+ Q K H+ +R
Sbjct: 121 ----------RGSLSGINGVIRPGIVHRIDKDTSGLLIVAKNDQAHVGLAAQIKEHSFDR 170
Query: 250 VYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGG 309
Y ++ G +S+G ++ PI R +R +M ++K A + Y+V+ G
Sbjct: 171 TYEAVVYGKFVESTGTVDKPIGRSEKDRKKMCVTTKNSK-----PAVTHYEVLG--EYGQ 223
Query: 310 SALVEWRLETGRTHQV 325
+ RLETGRTHQ+
Sbjct: 224 FTHLRLRLETGRTHQI 239
>gi|424896721|ref|ZP_18320295.1| pseudouridine synthase, RluA family [Rhizobium leguminosarum bv.
trifolii WSM2297]
gi|393180948|gb|EJC80987.1| pseudouridine synthase, RluA family [Rhizobium leguminosarum bv.
trifolii WSM2297]
Length = 341
Score = 175 bits (443), Expect = 3e-41, Method: Compositional matrix adjust.
Identities = 108/286 (37%), Positives = 163/286 (56%), Gaps = 36/286 (12%)
Query: 50 EPIANYAGVQLEETVDTKAGKLRLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKV 108
+P AG + T D A + RLDAW+++++ + SR+R+++ I+ G V + G+ V+
Sbjct: 3 DPFKQAAGNRKVLTADETA-EGRLDAWLTAQVGEEFSRSRIKALIKDGQVFLRGEPVTDP 61
Query: 109 SHNVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTL 168
V+ GD T+ E + + EDIPLDI++ED++V+V++KP+ +VVHP GN TGTL
Sbjct: 62 QRKVRNGDSFEITLPEPEDPTPQGEDIPLDILHEDEDVIVISKPSGLVVHPGAGNWTGTL 121
Query: 169 VNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVV 228
VN +++HC + S I G RPGIVHRLDK T+G++VV
Sbjct: 122 VNALIYHCG----------------------DTLSGIGGVR-RPGIVHRLDKDTTGVMVV 158
Query: 229 AKDEHSHAHLSEQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIP 284
AK++ +H HLS QF H +ER Y ++ G P +G ++ P+ RD +R R A+
Sbjct: 159 AKNDIAHRHLSLQFADHGRTMPLERAYQAVVWGRPRSLTGTVDAPLGRDTGDRTRR-AVK 217
Query: 285 GSNKHGQARHAASRYKVIEIL-----AGGGSALVEWRLETGRTHQV 325
+ H A A + Y+VIE A ++LVE LETGRTHQ+
Sbjct: 218 RPDSH-DADEAITHYQVIERFQEKPDATALASLVECHLETGRTHQI 262
>gi|91762258|ref|ZP_01264223.1| pseudouridylate synthase [Candidatus Pelagibacter ubique HTCC1002]
gi|91718060|gb|EAS84710.1| pseudouridylate synthase [Candidatus Pelagibacter ubique HTCC1002]
Length = 326
Score = 175 bits (443), Expect = 3e-41, Method: Compositional matrix adjust.
Identities = 103/258 (39%), Positives = 147/258 (56%), Gaps = 31/258 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
LRLD +I+ R + ISR+R+++ I + IN Q+++ S V GD +N I E +
Sbjct: 16 LRLDVFINKRENLISRSRIKNLILKEKLKINDQIINSPSKKVLSGDEINLQIPEPKEASL 75
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
+ + L IVYEDD++L++NKPA +++HP GN T+VN ++H+ N+++ S
Sbjct: 76 KPYNFKLQIVYEDDDLLIINKPAGIIMHPGAGNYDETIVNALMHY---------NKDSLS 126
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
G +RPGIVHR+DK TSGL+V+AK+ +H +LS QF HTI RV
Sbjct: 127 TI--------------GDELRPGIVHRIDKDTSGLIVIAKNNETHENLSHQFSEHTITRV 172
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y L G SSG+I+ I+R NR M SN G + A + YK IEI +
Sbjct: 173 YQLLIWGKLRPSSGKIDTFITRSSKNRQMMEV---SNSKG--KRAITNYKTIEIFENDKT 227
Query: 311 ---ALVEWRLETGRTHQV 325
+LVE RLETGRTHQ+
Sbjct: 228 PTLSLVECRLETGRTHQI 245
>gi|52141596|ref|YP_085233.1| pseudouridylate synthase [Bacillus cereus E33L]
gi|228987037|ref|ZP_04147162.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis serovar tochigiensis BGSC 4Y1]
gi|229157471|ref|ZP_04285548.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
ATCC 4342]
gi|51975065|gb|AAU16615.1| pseudouridylate synthase (pseudouridine synthase) [Bacillus cereus
E33L]
gi|228625921|gb|EEK82671.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
ATCC 4342]
gi|228772631|gb|EEM21072.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis serovar tochigiensis BGSC 4Y1]
Length = 302
Score = 175 bits (443), Expect = 3e-41, Method: Compositional matrix adjust.
Identities = 108/273 (39%), Positives = 156/273 (57%), Gaps = 33/273 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV + R+D +++ + SR +VQ I+ +V++NG+ V K ++ VK D + TI
Sbjct: 8 TVAEEQKNERIDKFVAGINNEWSRTQVQQWIKDDVVTVNGKAV-KGNYKVKENDEITVTI 66
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E + L + ED+ L+I YED +VLVVNKP MVVHPAPG+ +GTLVNG++HHC+
Sbjct: 67 PEPEELDIQPEDMNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCT----- 121
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q
Sbjct: 122 -----------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQL 162
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
T+ R Y ++ GV G I+ PI+RD R M +++G +HA + ++V+
Sbjct: 163 VAKTVTRRYKAIVHGVIPHDKGTIDAPIARDKKERQSMTV----DENG--KHAVTHFQVL 216
Query: 303 EILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
E LVE RLETGRTHQ+ + K P
Sbjct: 217 ERFK--DFTLVECRLETGRTHQIRVHMKYIGYP 247
>gi|114570956|ref|YP_757636.1| ribosomal large subunit pseudouridine synthase D [Maricaulis maris
MCS10]
gi|114341418|gb|ABI66698.1| ribosomal large subunit pseudouridine synthase D [Maricaulis maris
MCS10]
Length = 335
Score = 175 bits (443), Expect = 3e-41, Method: Compositional matrix adjust.
Identities = 104/282 (36%), Positives = 156/282 (55%), Gaps = 33/282 (11%)
Query: 52 IANYAGVQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHN 111
+ + A + E + AG+ RLD W+++ ++ +SR+R+++ I +G V+++G V+ S
Sbjct: 1 MTDIAETRTLEATEEDAGQ-RLDRWLAASVESLSRSRLKALIEAGQVAVDGVAVTDPSAK 59
Query: 112 VKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNG 171
V G I E + E + LD+++EDD+++V+NKPA + VHPA GN TGTLV+G
Sbjct: 60 VLAGSEYTVGIPEPRADTPTPEPMDLDVLHEDDHLIVINKPAGLSVHPAAGNWTGTLVHG 119
Query: 172 ILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKD 231
+LHHC+ S S G RPGIVHRLDK TSG++VVAK
Sbjct: 120 LLHHCA-----------------------GSLSGIGGVERPGIVHRLDKETSGVMVVAKS 156
Query: 232 EHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQ 291
+ +H LS QF HT+ER YI+ T PS +GRI ++R +R + +P
Sbjct: 157 DVAHKGLSIQFARHTVERAYIAFTRNAPSPKAGRIATQLARSSRDRKKF-EVPHDPNSEA 215
Query: 292 ARHAASRYKVIE--------ILAGGGSALVEWRLETGRTHQV 325
+HA + Y ++ + G +A VE RLETGRTHQ+
Sbjct: 216 GKHAITNYTTLKRFGQAEGAAIGTGMAAKVECRLETGRTHQI 257
>gi|262038336|ref|ZP_06011717.1| ribosomal large subunit pseudouridine synthase D [Leptotrichia
goodfellowii F0264]
gi|261747640|gb|EEY35098.1| ribosomal large subunit pseudouridine synthase D [Leptotrichia
goodfellowii F0264]
Length = 346
Score = 175 bits (443), Expect = 3e-41, Method: Compositional matrix adjust.
Identities = 103/273 (37%), Positives = 162/273 (59%), Gaps = 31/273 (11%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV T+ R+D+++S + D ++R+R+Q I+ G VS+N + V K S+ V+ D + I
Sbjct: 43 TVSTEKTNKRVDSFLSEKTD-LTRSRIQQLIKDGNVSVNNKSV-KSSYKVEENDRIEIII 100
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E + + AE+I ++I+YED ++ V+NK A MVVHPA GN + TLVN IL+H
Sbjct: 101 PEAEKVEIIAENIDINIIYEDKDIAVINKKAGMVVHPAHGNYSRTLVNAILYHI------ 154
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
+D+S I+G IRPGIVHRLDK TSGL+VVAK++ +H L+E F
Sbjct: 155 ----------KDLS-------GING-EIRPGIVHRLDKDTSGLIVVAKNDKAHIKLAEMF 196
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
+ +++ Y+++ G ++ SGR+E I RD ++R +M+ + ++K + A + Y V
Sbjct: 197 QKKEVKKTYLAILKGKLNRESGRLETQIGRDADDRKKMSVLKENDK---GKKAITNYNV- 252
Query: 303 EILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
IL+ LV+ +ETGRTHQ+ + K P
Sbjct: 253 -ILSNELFTLVKVYIETGRTHQIRVHMKYLGYP 284
>gi|163867809|ref|YP_001609013.1| ribosomal large subunit pseudouridine synthase D [Bartonella
tribocorum CIP 105476]
gi|161017460|emb|CAK01018.1| ribosomal large subunit pseudouridine synthase D [Bartonella
tribocorum CIP 105476]
Length = 334
Score = 175 bits (443), Expect = 3e-41, Method: Compositional matrix adjust.
Identities = 102/276 (36%), Positives = 153/276 (55%), Gaps = 35/276 (12%)
Query: 60 LEETVDTKAGKLRLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
+++ D A RLD W++ + D +SR+R+Q+ IR G + I+GQ + + +K ++
Sbjct: 3 IQKVTDEGALDQRLDQWLAKQYHDVLSRSRLQTLIREGCLKIDGQFIKEPKTKLKPNQII 62
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
+ L+ AE I LDI+YEDD+V+V+NKPA +VVHP GN TGTLVN +++HC
Sbjct: 63 ELEMPNLRDAEPSAEAIALDILYEDDHVIVINKPAGLVVHPGNGNWTGTLVNALIYHCG- 121
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
S S G RPG+VHRLDK TSG++VVAK++ +H L
Sbjct: 122 ----------------------NSLSGIGGVKRPGVVHRLDKNTSGVMVVAKNDLAHKSL 159
Query: 239 SEQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARH 294
S QF H ++R Y +L G P ++ I+ + R P+NR + A + H ARH
Sbjct: 160 SAQFSDHGRTCALDRRYHALIWGTPHRNVWTIDASLGRSPHNRTKQAVVHKQTPH--ARH 217
Query: 295 AASRYKVIEILAGGG-----SALVEWRLETGRTHQV 325
A + + ++E ++L+E RLETGRTHQ+
Sbjct: 218 AVTHFSLLEKYGTHADSTSFASLLECRLETGRTHQI 253
>gi|262067278|ref|ZP_06026890.1| pseudouridine synthase, RluA family [Fusobacterium periodonticum
ATCC 33693]
gi|291379004|gb|EFE86522.1| pseudouridine synthase, RluA family [Fusobacterium periodonticum
ATCC 33693]
Length = 315
Score = 175 bits (443), Expect = 3e-41, Method: Compositional matrix adjust.
Identities = 100/269 (37%), Positives = 157/269 (58%), Gaps = 33/269 (12%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
+ E V+ + +RLD +++ +I+ +R+ ++ I + V IN ++++K +K G+ V
Sbjct: 7 KFEFEVNPEYEGMRLDKYLAEQIEEATRSYLEKLIDNSYVKINSKIINKNGRKLKSGEKV 66
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
+I E + + EAE+IPLDIV+E+D+ ++VNK +MVVHPA GN TGTLVN +L++ +
Sbjct: 67 EISIPEEENIDIEAENIPLDIVFENDDFILVNKKYNMVVHPAYGNYTGTLVNALLYYTN- 125
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
L+S N +IRPGI+HRLDK TSGL++VAK+ +HA L
Sbjct: 126 -NLSSVN----------------------GNIRPGIIHRLDKDTSGLILVAKNNFAHAKL 162
Query: 239 SEQFKLHTIERVYISLTSGVPSQSS--GRIEVPISRDPNNRIRMAAIPGSNKHGQARHAA 296
+ F TI + Y+ + G S + GRIE I RD +R +MA + + + A
Sbjct: 163 ASMFTDKTIHKTYLCIVKGNFSDENLEGRIENLIGRDTKDRKKMAIVKEN-----GKLAI 217
Query: 297 SRYKVIEILAGGGSALVEWRLETGRTHQV 325
S Y+V+E + +LVE +ETGRTHQ+
Sbjct: 218 SNYRVVEQVK--DYSLVEVLIETGRTHQI 244
>gi|374602422|ref|ZP_09675415.1| RluA family pseudouridine synthase [Paenibacillus dendritiformis
C454]
gi|374392024|gb|EHQ63353.1| RluA family pseudouridine synthase [Paenibacillus dendritiformis
C454]
Length = 323
Score = 175 bits (443), Expect = 3e-41, Method: Compositional matrix adjust.
Identities = 114/296 (38%), Positives = 169/296 (57%), Gaps = 36/296 (12%)
Query: 41 SSSSGGNNREPIANYAGVQLEETVDTKAGKLRLDAWISSRIDG-ISRARVQSSIRSGLVS 99
++SS +N+E + + V L D +AG+ R+D +I+ ++ +SR++VQ IR V
Sbjct: 6 TTSSEEDNQEAVEH--DVLLWTVTDAEAGE-RIDKYITESLEEPVSRSQVQLWIRDAHVL 62
Query: 100 INGQVVSKVSHNVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHP 159
+NG+ V K ++ V GD + I + E IPLDI YED +V+V+NKP MVVHP
Sbjct: 63 VNGRSV-KPNYKVGAGDEIELRIPDPASTDIVPEAIPLDIYYEDADVIVINKPRGMVVHP 121
Query: 160 APGNATGTLVNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLD 219
APG+ +GT+VN ++HHC D+S I+G +RPGIVHR+D
Sbjct: 122 APGHLSGTVVNALMHHC----------------RDLS-------GING-ELRPGIVHRID 157
Query: 220 KGTSGLLVVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIR 279
K TSGLL+ AK++ +H L+ Q K HT+ R Y +L G + G I+ PI RDP++R +
Sbjct: 158 KDTSGLLMAAKNDRAHTELAAQLKAHTVLRKYKALVHGNLAHDQGTIDAPIGRDPHDR-K 216
Query: 280 MAAIPGSNKHGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
M A+ N ++ A + ++V E G LVE +LETGRTHQ+ + K P
Sbjct: 217 MFAVTDRN----SKRAVTHFQVAERF--GDVTLVELQLETGRTHQIRVHMKYIGHP 266
>gi|313884116|ref|ZP_07817882.1| pseudouridine synthase, RluA family [Eremococcus coleocola
ACS-139-V-Col8]
gi|312620563|gb|EFR31986.1| pseudouridine synthase, RluA family [Eremococcus coleocola
ACS-139-V-Col8]
Length = 314
Score = 175 bits (443), Expect = 3e-41, Method: Compositional matrix adjust.
Identities = 105/278 (37%), Positives = 161/278 (57%), Gaps = 39/278 (14%)
Query: 48 NREPIANYAGVQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSK 107
+R+ I QLE+ ++G RLD + + +SR ++QS I+ GLV++NGQV K
Sbjct: 4 DRKKIKEIIYFQLED----QSG--RLDKVLVEESE-LSRTQIQSLIKQGLVTVNGQV-EK 55
Query: 108 VSHNVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGT 167
++ + G +++ + E + L EA+ IPLDI+YEDD++LV+NK A MVVHP+ G+ T
Sbjct: 56 ANYKLSGQELIEMQVPEEEVLEIEAQAIPLDIIYEDDDLLVINKEAGMVVHPSKGHPRDT 115
Query: 168 LVNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLV 227
LVN +++H A S+ S RPG+VHR+DK TSGLLV
Sbjct: 116 LVNALVYHFGNHLAAGSD-----------------------SYRPGLVHRIDKDTSGLLV 152
Query: 228 VAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSN 287
VAK+ SH +LS+Q HT+ R+Y L G G IE+P++RDP NR++ A
Sbjct: 153 VAKNNESHRYLSQQLMDHTLGRIYYCLVEGQMEVKQGSIEIPLARDPKNRLKYHA----- 207
Query: 288 KHGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQV 325
Q + A + ++V+E + ++L++ L+TGRTHQ+
Sbjct: 208 -DAQGKPAWTDFEVLE--SYPSASLIQAELKTGRTHQI 242
>gi|217964005|ref|YP_002349683.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes HCC23]
gi|290893028|ref|ZP_06556017.1| ribosomal large subunit pseudouridine synthase [Listeria
monocytogenes FSL J2-071]
gi|386008615|ref|YP_005926893.1| RluD subfamily ribosomal large subunit pseudouridine synthase
[Listeria monocytogenes L99]
gi|386027223|ref|YP_005947999.1| putative 23S RNA-specific pseudouridine synthase D [Listeria
monocytogenes M7]
gi|404408287|ref|YP_006691002.1| RluD subfamily ribosomal large subunit pseudouridine synthase
[Listeria monocytogenes SLCC2376]
gi|422410090|ref|ZP_16487051.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes FSL F2-208]
gi|217333275|gb|ACK39069.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes HCC23]
gi|290557388|gb|EFD90913.1| ribosomal large subunit pseudouridine synthase [Listeria
monocytogenes FSL J2-071]
gi|307571425|emb|CAR84604.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes L99]
gi|313608111|gb|EFR84172.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes FSL F2-208]
gi|336023804|gb|AEH92941.1| putative 23S RNA-specific pseudouridine synthase D [Listeria
monocytogenes M7]
gi|404242436|emb|CBY63836.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes SLCC2376]
Length = 302
Score = 175 bits (443), Expect = 3e-41, Method: Compositional matrix adjust.
Identities = 104/254 (40%), Positives = 153/254 (60%), Gaps = 34/254 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D I+ + G SR+ +Q ++SG +++NG++ +K ++ V+ GD ++ + E + L
Sbjct: 16 RVDKVIAEMM-GKSRSAIQLMLKSGDITVNGEL-AKPNYKVQVGDEIHYEVREPEELEVL 73
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AEDIPLDI +ED ++LVVNKP MVVHP+ G+A+GTLVN +L HC
Sbjct: 74 AEDIPLDIYFEDKDMLVVNKPEGMVVHPSAGHASGTLVNALLFHC--------------- 118
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
DD S I+G IRPGIVHR+DK TSGLL+VAK++H+H L++Q K T +R Y
Sbjct: 119 -----DD---LSGING-KIRPGIVHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSDREY 169
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
I+L G G IE PI R +R +MA + + A + ++V+E L G
Sbjct: 170 IALVHGDIVHQKGTIEAPIGRAKEDRQKMAVV------RDGKEARTHFEVLERLP--GYT 221
Query: 312 LVEWRLETGRTHQV 325
L+ +L+TGRTHQ+
Sbjct: 222 LINCKLDTGRTHQI 235
>gi|57233860|ref|YP_182086.1| ribosomal large subunit pseudouridine synthase D [Dehalococcoides
ethenogenes 195]
gi|57224308|gb|AAW39365.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Dehalococcoides ethenogenes 195]
Length = 300
Score = 175 bits (443), Expect = 3e-41, Method: Compositional matrix adjust.
Identities = 97/254 (38%), Positives = 145/254 (57%), Gaps = 33/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +I+ + +SR+ +Q + +G + +NG+ +K S +K GD + I P +
Sbjct: 14 RLDKYITQKETDLSRSFIQELVEAGHIQVNGKN-AKPSLKLKNGDTITIEIPPETPPELK 72
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AEDIPL+I+++D ++L++NKP + VHPAPG+ TL+NG+L E F D
Sbjct: 73 AEDIPLEIIFQDKDLLLINKPPGLTVHPAPGHPDHTLINGVL-------ALEPEMEDFDD 125
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+RPGIVHRLDK TSGLL+VAK+ + A+LS QFK T+ + Y
Sbjct: 126 P-----------------LRPGIVHRLDKDTSGLLLVAKNREALANLSAQFKERTVRKYY 168
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++L G + G IE P+ RDP NR ++A + R A + YKV+ + G +
Sbjct: 169 LTLVQGELHPAEGFIEAPLGRDPQNRQKIAVV------SNGRPARTGYKVLRYIQ--GYS 220
Query: 312 LVEWRLETGRTHQV 325
L+E +LETGRTHQ+
Sbjct: 221 LLEVKLETGRTHQI 234
>gi|71083312|ref|YP_266031.1| pseudouridylate synthase [Candidatus Pelagibacter ubique HTCC1062]
gi|71062425|gb|AAZ21428.1| pseudouridylate synthase [Candidatus Pelagibacter ubique HTCC1062]
Length = 326
Score = 175 bits (443), Expect = 3e-41, Method: Compositional matrix adjust.
Identities = 103/258 (39%), Positives = 146/258 (56%), Gaps = 31/258 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
LRLD +I+ R + ISR R+++ I + IN Q+++ S V GD +N I E +
Sbjct: 16 LRLDVFINKRENLISRTRIKNLILKEKLKINDQIINSPSKKVLSGDEINLQIPEPKEASL 75
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
+ + L IVYEDD++L++NKPA +++HP GN T+VN ++H+ N+++ S
Sbjct: 76 KPYNFKLQIVYEDDDLLIINKPAGIIMHPGAGNYDETIVNALMHY---------NKDSLS 126
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
G +RPGIVHR+DK TSGL+V+AK+ +H +LS QF HTI RV
Sbjct: 127 TI--------------GDELRPGIVHRIDKDTSGLIVIAKNNETHENLSHQFSEHTITRV 172
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y L G SSG+I+ I+R NR M SN G + A + YK IEI +
Sbjct: 173 YQLLIWGKLRPSSGKIDTFITRSSKNRQMMEV---SNSKG--KRAITNYKTIEIFENDKT 227
Query: 311 ---ALVEWRLETGRTHQV 325
+LVE RLETGRTHQ+
Sbjct: 228 PTLSLVECRLETGRTHQI 245
>gi|228940981|ref|ZP_04103539.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis serovar berliner ATCC 10792]
gi|228973912|ref|ZP_04134487.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis serovar thuringiensis str. T01001]
gi|228980501|ref|ZP_04140811.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis Bt407]
gi|384187953|ref|YP_005573849.1| ribosomal large subunit pseudouridine synthase D [Bacillus
thuringiensis serovar chinensis CT-43]
gi|410676268|ref|YP_006928639.1| pseudouridine synthase, RluA family [Bacillus thuringiensis Bt407]
gi|423385394|ref|ZP_17362650.1| RluA family pseudouridine synthase [Bacillus cereus BAG1X1-2]
gi|423528248|ref|ZP_17504693.1| RluA family pseudouridine synthase [Bacillus cereus HuB1-1]
gi|452200334|ref|YP_007480415.1| Ribosomal large subunit pseudouridine synthase D [Bacillus
thuringiensis serovar thuringiensis str. IS5056]
gi|228779321|gb|EEM27578.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis Bt407]
gi|228785778|gb|EEM33782.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis serovar thuringiensis str. T01001]
gi|228818660|gb|EEM64727.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis serovar berliner ATCC 10792]
gi|326941662|gb|AEA17558.1| ribosomal large subunit pseudouridine synthase D [Bacillus
thuringiensis serovar chinensis CT-43]
gi|401635450|gb|EJS53205.1| RluA family pseudouridine synthase [Bacillus cereus BAG1X1-2]
gi|402451911|gb|EJV83730.1| RluA family pseudouridine synthase [Bacillus cereus HuB1-1]
gi|409175397|gb|AFV19702.1| pseudouridine synthase, RluA family [Bacillus thuringiensis Bt407]
gi|452105727|gb|AGG02667.1| Ribosomal large subunit pseudouridine synthase D [Bacillus
thuringiensis serovar thuringiensis str. IS5056]
Length = 302
Score = 175 bits (443), Expect = 3e-41, Method: Compositional matrix adjust.
Identities = 108/273 (39%), Positives = 157/273 (57%), Gaps = 33/273 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV + R+D +++ + SR++VQ I+ +V++NG+ V KV++ VK D + TI
Sbjct: 8 TVAAEQKNERIDKFVTGINNEWSRSQVQQWIKDDVVTVNGKAV-KVNYKVKEEDEITVTI 66
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E + L + ED+ L+I YED +VLVVNKP MVVHPAPG+ +GTLVNG++HHC+
Sbjct: 67 PEPEALDIQPEDLNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCT----- 121
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q
Sbjct: 122 -----------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQL 162
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
T+ R Y ++ GV G I+ PI RD R M +++G ++A + ++V+
Sbjct: 163 VAKTVTRRYKAIVHGVIPHDKGTIDAPIGRDKKERQSMTV----DENG--KNAVTHFQVL 216
Query: 303 EILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
E LVE RLETGRTHQ+ + K P
Sbjct: 217 ERFK--DFTLVECRLETGRTHQIRVHMKYIGYP 247
>gi|293376242|ref|ZP_06622485.1| pseudouridine synthase, RluA family [Turicibacter sanguinis PC909]
gi|325845167|ref|ZP_08168476.1| pseudouridine synthase, RluA family [Turicibacter sp. HGF1]
gi|292645134|gb|EFF63201.1| pseudouridine synthase, RluA family [Turicibacter sanguinis PC909]
gi|325488832|gb|EGC91232.1| pseudouridine synthase, RluA family [Turicibacter sp. HGF1]
Length = 302
Score = 175 bits (443), Expect = 3e-41, Method: Compositional matrix adjust.
Identities = 102/255 (40%), Positives = 148/255 (58%), Gaps = 33/255 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
+RLD ++ + SR+ +Q I+ G V INGQV +K ++ + D + I E + L
Sbjct: 15 VRLDKVLNESFEDYSRSYLQQLIKEGRVLINGQV-AKANYKCRLNDQIEINIPEPEVLDV 73
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
E++ LDIVY+DD V+VVNKP +MVVHPAPG+ +GTLVNG++ +
Sbjct: 74 IPEEMDLDIVYQDDYVIVVNKPENMVVHPAPGSMSGTLVNGLMAQVT------------- 120
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
D+S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q T+ R
Sbjct: 121 ---DLS-------GINGV-LRPGIVHRIDKDTSGLLMVAKNDVAHESLVNQLVEKTVTRR 169
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y++L GV +G I+ PI RDP +R +MA + +HA + +KV++
Sbjct: 170 YVALVHGVIPHDNGTIDAPIGRDPKDRKKMAVVES------GKHAVTHFKVLQRFK--EF 221
Query: 311 ALVEWRLETGRTHQV 325
L+E RLETGRTHQ+
Sbjct: 222 TLIECRLETGRTHQI 236
>gi|329114084|ref|ZP_08242848.1| Ribosomal large subunit pseudouridine synthase D [Acetobacter
pomorum DM001]
gi|326696623|gb|EGE48300.1| Ribosomal large subunit pseudouridine synthase D [Acetobacter
pomorum DM001]
Length = 337
Score = 175 bits (443), Expect = 3e-41, Method: Compositional matrix adjust.
Identities = 99/263 (37%), Positives = 145/263 (55%), Gaps = 29/263 (11%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV + R+D ++++ ++ +SR+R++S I G + +G + + + + G V TI
Sbjct: 22 TVTPEQAGERIDRFLAAIMETLSRSRIKSLIEEGHLKCDGVCIREPAAIARAGMKVELTI 81
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
P + EDI ++YEDD+++V++KPA +VVHPAPGN TGTLVNG++ HC
Sbjct: 82 PPAAPAVPQGEDISFTVLYEDDDLIVLDKPAGLVVHPAPGNETGTLVNGLIAHCG----- 136
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
E I G RPGIVHRLDK TSG++V AK E +H LSE F
Sbjct: 137 -----------------ESLKGIGGER-RPGIVHRLDKDTSGVMVAAKTEMAHQALSEDF 178
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
I+R Y++ G+P+ + G E I RD +R RMA P K A + Y+ +
Sbjct: 179 AARRIDRTYLAFCWGLPNPAEGDFEGAIGRDKRDRKRMALTPKGGK-----WALTHYRTL 233
Query: 303 EILAGGGSALVEWRLETGRTHQV 325
+ G G+ALV +L TGRTHQ+
Sbjct: 234 QAF-GTGAALVACKLATGRTHQI 255
>gi|390443530|ref|ZP_10231320.1| RluA family pseudouridine synthase [Nitritalea halalkaliphila LW7]
gi|389666411|gb|EIM77860.1| RluA family pseudouridine synthase [Nitritalea halalkaliphila LW7]
Length = 349
Score = 175 bits (443), Expect = 3e-41, Method: Compositional matrix adjust.
Identities = 108/266 (40%), Positives = 152/266 (57%), Gaps = 36/266 (13%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
VD R+D +++ ++ +R++VQ +I SG V +NGQ +K ++ +K D + +
Sbjct: 27 VDKGQQPTRIDRFLTDKVANATRSKVQQAIDSGQVLVNGQP-TKANYKIKPEDHIQVLLE 85
Query: 124 ELQPLRAEA---EDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCS-LP 179
E P R EDIPLDIV+ED+ +LVVNKPA MVVHPA GN +GTLVN ++HH LP
Sbjct: 86 E--PPRDSTVYPEDIPLDIVFEDETLLVVNKPAGMVVHPAHGNWSGTLVNALVHHFQQLP 143
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
TL G S RPG+VHR+DK TSGLLV+AK E + L+
Sbjct: 144 TLP------------------------GNSGRPGLVHRIDKDTSGLLVIAKTEDAMTSLA 179
Query: 240 EQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRY 299
QF H+IER Y +L G P +G I+ I R +R M A P ++ Q + A + +
Sbjct: 180 RQFFDHSIEREYYALVWGEPQSETGTIDAAIGRSAKDRKVMEAFPDNS---QGKPARTHW 236
Query: 300 KVIEILAGGGSALVEWRLETGRTHQV 325
KV++ L +L+ +LETGRTHQ+
Sbjct: 237 KVLQNLR--YVSLIACQLETGRTHQI 260
>gi|408356929|ref|YP_006845460.1| pseudouridine synthase RluD [Amphibacillus xylanus NBRC 15112]
gi|407727700|dbj|BAM47698.1| pseudouridine synthase RluD [Amphibacillus xylanus NBRC 15112]
Length = 304
Score = 175 bits (443), Expect = 3e-41, Method: Compositional matrix adjust.
Identities = 101/272 (37%), Positives = 153/272 (56%), Gaps = 32/272 (11%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
VD + R+D +S I+ SRA++Q+ I+SG V++NG V K ++ V+ D V +
Sbjct: 8 VDLEQANTRIDKLLSDIINDTSRAQIQNWIKSGHVTVNGSEV-KANYRVQENDQVVWELP 66
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
E + ++ E E IPLDI+YEDD++L+VNKP MVVHP+ G+ +GTLVN +LHH T
Sbjct: 67 EQESIKIEPEAIPLDIIYEDDDILIVNKPKGMVVHPSVGHHSGTLVNALLHHTKQLT--- 123
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
+I+G RPGIVHR+D+ TSGLL++AK + ++ L++Q K
Sbjct: 124 --------------------TINGED-RPGIVHRIDRDTSGLLIIAKTDQAYESLAQQLK 162
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
+R Y++L G G IE PI R+P +R MA + + A + ++VIE
Sbjct: 163 DREAQRTYLALVHGAIPHEYGTIEAPIGRNPKDRQSMAVV------NNGKEAITYFEVIE 216
Query: 304 ILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ L++ L+TGRTHQ+ + K P
Sbjct: 217 RI-NQKYTLIKCSLKTGRTHQIRVHLKYIGFP 247
>gi|340754453|ref|ZP_08691207.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium sp.
2_1_31]
gi|229423963|gb|EEO39010.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium sp.
2_1_31]
Length = 315
Score = 175 bits (443), Expect = 3e-41, Method: Compositional matrix adjust.
Identities = 99/257 (38%), Positives = 152/257 (59%), Gaps = 33/257 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
+RLD +++ +I+ +R+ ++ I + V IN +V++K +K G+ + +I E + +
Sbjct: 19 MRLDKYLAEQIEEATRSYLEKLIDNSYVKINSKVINKNGRKLKSGEKIEISIPEEENIDI 78
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
EAE+IPLDIV+E+D+ ++VNK +MVVHPA GN TGTLVN +L++ + L+S N
Sbjct: 79 EAENIPLDIVFENDDFILVNKKYNMVVHPAYGNYTGTLVNALLYYTN--NLSSVN----- 131
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
+IRPGI+HRLDK TSGL++VAK+ +HA L+ F TI +
Sbjct: 132 -----------------GNIRPGIIHRLDKDTSGLILVAKNNFAHAKLASMFTDKTIHKT 174
Query: 251 YISLTSGVPSQSS--GRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGG 308
Y+ + G S + GRIE I RD +R +MA + + K A S Y+V+E +
Sbjct: 175 YLCIVKGNFSDENLEGRIENLIGRDTKDRKKMAVVKENGK-----LAISNYRVVEQVK-- 227
Query: 309 GSALVEWRLETGRTHQV 325
+LVE +ETGRTHQ+
Sbjct: 228 DYSLVEVLIETGRTHQI 244
>gi|385809060|ref|YP_005845456.1| ribosomal large subunit pseudouridine synthase D [Ignavibacterium
album JCM 16511]
gi|383801108|gb|AFH48188.1| Ribosomal large subunit pseudouridine synthase D [Ignavibacterium
album JCM 16511]
Length = 326
Score = 175 bits (443), Expect = 4e-41, Method: Compositional matrix adjust.
Identities = 105/260 (40%), Positives = 154/260 (59%), Gaps = 39/260 (15%)
Query: 70 KLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISEL--QP 127
K RLD ++ ++I+ +R+++Q SI +GLV++NG +K +++VK GD++ I + +P
Sbjct: 20 KERLDTFLVNQIENATRSKIQKSIEAGLVTVNGNP-AKANYSVKPGDVI-IAIQPISPRP 77
Query: 128 LRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQE 187
E E+IPLDIVYEDD ++VVNKPA MV HPA N TGTLVN +LHH
Sbjct: 78 EDVEPEEIPLDIVYEDDYLMVVNKPAGMVAHPAYANYTGTLVNALLHH------------ 125
Query: 188 AFSDAEDISDDEEFSSSISGASI--RPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLH 245
+ S+SG + RPGIVHR+DK TSGLLVVAKD+ +HA L+EQF H
Sbjct: 126 --------------TKSLSGLNDAGRPGIVHRIDKDTSGLLVVAKDDFTHAKLAEQFSKH 171
Query: 246 TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEIL 305
+IER Y ++ G G I+ I+R ++R + + + A + Y+VIE
Sbjct: 172 SIEREYHAVCWGKLPDKKGEIKTNIARSKSDRKKFTI-----SQSEGKLAITYYEVIEEF 226
Query: 306 AGGGSALVEWRLETGRTHQV 325
++ ++ L+TGRTHQ+
Sbjct: 227 E--FTSYLKLNLKTGRTHQI 244
>gi|291546177|emb|CBL19285.1| ribosomal large subunit pseudouridine synthase D [Ruminococcus sp.
SR1/5]
Length = 304
Score = 174 bits (442), Expect = 4e-41, Method: Compositional matrix adjust.
Identities = 99/265 (37%), Positives = 151/265 (56%), Gaps = 35/265 (13%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV+ + +R+D +++ + G+SR+ +Q ++ G +++ G+ +K ++ V+ D ++ I
Sbjct: 7 TVEKEESGIRIDRYLAEKDSGLSRSFLQKLLKEGQITV-GEKAAKSNYKVRENDRIHLEI 65
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
+ EDIPLDI+YED++VL+VNKP MVVHPA G+ GTLVN ++ HC
Sbjct: 66 PDSSEPDIVPEDIPLDILYEDEDVLIVNKPKGMVVHPAAGHYQGTLVNAVMAHC------ 119
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGAS--IRPGIVHRLDKGTSGLLVVAKDEHSHAHLSE 240
S+SG + +RPGIVHR+DK T+G L+V K++ +H L+E
Sbjct: 120 -------------------GDSLSGINGVMRPGIVHRIDKDTTGALLVCKNDIAHRDLAE 160
Query: 241 QFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYK 300
Q K H+I R Y ++ G + G IE PI R P +R +MA H + A + YK
Sbjct: 161 QLKCHSIRRRYRAVVQGNLKEDEGTIEGPIGRHPTDRKKMAI-----NHKNGKDAITHYK 215
Query: 301 VIEILAGGGSALVEWRLETGRTHQV 325
V+E G + VE RLETGRTHQ+
Sbjct: 216 VLERF--GEATYVECRLETGRTHQI 238
>gi|317058953|ref|ZP_07923438.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium sp.
3_1_5R]
gi|313684629|gb|EFS21464.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium sp.
3_1_5R]
Length = 318
Score = 174 bits (442), Expect = 4e-41, Method: Compositional matrix adjust.
Identities = 100/256 (39%), Positives = 149/256 (58%), Gaps = 32/256 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++ ++ +R+ ++ I G V N +V++K +KG +++ I E + +
Sbjct: 20 RLDLFLKEQLPEATRSYLEKLITEGYVLCNEKVITKNGKKLKGKEVIQLAIPEEEEMEIV 79
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AE+IPLDIVYED +LVVNK A+MVVHPA GN +GTLVN +L++C
Sbjct: 80 AENIPLDIVYEDKYLLVVNKQANMVVHPALGNYSGTLVNALLYYCK-------------- 125
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
E++SD IRPGIVHRLDK T+GL++VAK+ H+ L+ F+ TI + Y
Sbjct: 126 -ENLSD--------MNGVIRPGIVHRLDKDTTGLIIVAKNNQVHSKLALMFQEKTIRKTY 176
Query: 252 ISLTSGVPSQ--SSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGG 309
+++ G S+ GR+E I+RDP +R +M Q + A S Y+V +L G
Sbjct: 177 VAIVKGRFSEERKEGRLETLITRDPKDRKKMTV-----SQIQGKKAISNYRV--LLDGDK 229
Query: 310 SALVEWRLETGRTHQV 325
+LVE ++ETGRTHQ+
Sbjct: 230 HSLVEVKIETGRTHQI 245
>gi|331269364|ref|YP_004395856.1| RluA family pseudouridine synthase [Clostridium botulinum
BKT015925]
gi|329125914|gb|AEB75859.1| pseudouridine synthase, RluA family [Clostridium botulinum
BKT015925]
Length = 304
Score = 174 bits (442), Expect = 4e-41, Method: Compositional matrix adjust.
Identities = 96/254 (37%), Positives = 153/254 (60%), Gaps = 33/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +IS+ ++G SR+ +Q I+ G V +NG+ K ++ +K D V E + +
Sbjct: 16 RLDLFISNSLEGKSRSYIQKLIQEGHVKVNGKD-KKSNYKLKLHDSVVVNNIEKEDKKIN 74
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E+I +DI+YED++++V+NK MVVHPA N +GTLVN +L+HC TL++ N +
Sbjct: 75 PENIEMDILYEDNDIIVINKSQGMVVHPATSNYSGTLVNALLYHCD--TLSTLNDDT--- 129
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
RPGIVHR+DK TSG+LVVAK+ +H L+EQ K H+++R Y
Sbjct: 130 -------------------RPGIVHRIDKDTSGVLVVAKNNKAHEILAEQLKEHSMKREY 170
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
I++ G+ + +G ++ P+ R+P +RI+MA + G ++A + Y+V++ +
Sbjct: 171 IAVVEGIVKEENGLVDEPLGRNPKDRIKMAVVEG------GKNAVTHYEVLKRFK--KNT 222
Query: 312 LVEWRLETGRTHQV 325
LV+ LETGRTHQ+
Sbjct: 223 LVKCILETGRTHQI 236
>gi|116626305|ref|YP_828461.1| ribosomal large subunit pseudouridine synthase D [Candidatus
Solibacter usitatus Ellin6076]
gi|116229467|gb|ABJ88176.1| ribosomal large subunit pseudouridine synthase D [Candidatus
Solibacter usitatus Ellin6076]
Length = 296
Score = 174 bits (442), Expect = 4e-41, Method: Compositional matrix adjust.
Identities = 103/263 (39%), Positives = 146/263 (55%), Gaps = 32/263 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
T D R+D W+ + + SR+R+Q I+S V +NG V K S+ ++ D V
Sbjct: 4 TADPADTGQRIDQWLHAHLPDFSRSRIQEWIKSARVRVNGAAV-KTSYTLRAADAVEVEP 62
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
++ PL A AEDIPL I+YED +V+ ++KPA MVVH G +GTLVN +LH +
Sbjct: 63 ADPPPLNATAEDIPLRILYEDADVVAIDKPAGMVVHAGAGVHSGTLVNALLHRFA----- 117
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
+ S G +RPGIVHRLD+ TSG+L+VAK++ +H L+ QF
Sbjct: 118 -------------------TLSGVGGPLRPGIVHRLDRFTSGVLLVAKNDAAHQKLAAQF 158
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
IE+VY++L G +GRIE PI+RDP +R RM A + + R A S Y+V+
Sbjct: 159 SGREIEKVYLALVHGTVKPETGRIERPIARDPVHRARMTA-----RLAEGRAAWSEYRVL 213
Query: 303 EILAGGGSALVEWRLETGRTHQV 325
L+E R+ TGRTHQ+
Sbjct: 214 RRFP--DFTLLEVRIGTGRTHQI 234
>gi|422314881|ref|ZP_16396332.1| RluA family pseudouridine synthase [Fusobacterium periodonticum
D10]
gi|404593241|gb|EKA94816.1| RluA family pseudouridine synthase [Fusobacterium periodonticum
D10]
Length = 318
Score = 174 bits (442), Expect = 4e-41, Method: Compositional matrix adjust.
Identities = 101/269 (37%), Positives = 156/269 (57%), Gaps = 33/269 (12%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
+ E V + +RLD +++ +I+ +R+ ++ I + V IN +V++K +K G+ +
Sbjct: 7 KFEFEVSPEYKGMRLDKYLAEQIEEATRSYLEKLIDNSYVKINSKVINKNGRKLKSGEKI 66
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
+I E + + EAE+IPLDIV+E+D+ ++VNK +MVVHPA GN TGTLVN +L++ +
Sbjct: 67 EISIPEEENIDIEAENIPLDIVFENDDFILVNKKYNMVVHPAYGNYTGTLVNALLYYTN- 125
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
L+S N +IRPGI+HRLDK TSGL++VAK+ +HA L
Sbjct: 126 -NLSSVN----------------------GNIRPGIIHRLDKDTSGLILVAKNNFAHAKL 162
Query: 239 SEQFKLHTIERVYISLTSGVPSQSS--GRIEVPISRDPNNRIRMAAIPGSNKHGQARHAA 296
+ F TI + Y+ + G S + GRIE I RD +R +MA + + K A
Sbjct: 163 ASMFTDKTIHKTYLCIVKGNFSDENLEGRIENLIGRDTKDRKKMAVVKENGK-----LAI 217
Query: 297 SRYKVIEILAGGGSALVEWRLETGRTHQV 325
S Y+V+E + +LVE +ETGRTHQ+
Sbjct: 218 SNYRVVEQVK--DYSLVEVLIETGRTHQI 244
>gi|423395807|ref|ZP_17373008.1| RluA family pseudouridine synthase [Bacillus cereus BAG2X1-1]
gi|423406683|ref|ZP_17383832.1| RluA family pseudouridine synthase [Bacillus cereus BAG2X1-3]
gi|401653549|gb|EJS71093.1| RluA family pseudouridine synthase [Bacillus cereus BAG2X1-1]
gi|401659973|gb|EJS77456.1| RluA family pseudouridine synthase [Bacillus cereus BAG2X1-3]
Length = 302
Score = 174 bits (442), Expect = 4e-41, Method: Compositional matrix adjust.
Identities = 108/273 (39%), Positives = 156/273 (57%), Gaps = 33/273 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV + R+D +++ SR++VQ I+ +V++NG+ V K ++ VKG D + TI
Sbjct: 8 TVAEEQKSERIDKFVAEINSEWSRSQVQQWIKDAVVTVNGKAV-KGNYKVKGNDEITVTI 66
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E + L + ED+ L+I YED +VLVVNKP MVVHPAPG+ +GTLVNG++HHC+
Sbjct: 67 PEPEALDIQPEDMNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCT----- 121
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q
Sbjct: 122 -----------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQL 162
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
T+ R Y ++ GV G I+ PI RD R M +++G ++A + ++V+
Sbjct: 163 VAKTVTRRYKAIVHGVIPHDKGTIDAPIGRDKKERQSMTV----DENG--KNAVTHFQVL 216
Query: 303 EILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
E LVE RLETGRTHQ+ + K P
Sbjct: 217 ERFK--DFTLVECRLETGRTHQIRVHMKYIGYP 247
>gi|421849802|ref|ZP_16282776.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase D
[Acetobacter pasteurianus NBRC 101655]
gi|421852654|ref|ZP_16285340.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase D
[Acetobacter pasteurianus subsp. pasteurianus LMG 1262 =
NBRC 106471]
gi|371459419|dbj|GAB27979.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase D
[Acetobacter pasteurianus NBRC 101655]
gi|371479158|dbj|GAB30543.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase D
[Acetobacter pasteurianus subsp. pasteurianus LMG 1262 =
NBRC 106471]
Length = 334
Score = 174 bits (442), Expect = 4e-41, Method: Compositional matrix adjust.
Identities = 99/263 (37%), Positives = 146/263 (55%), Gaps = 29/263 (11%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV + R+D ++++ ++ +SR+R++S I G ++ +G + + + + G V TI
Sbjct: 19 TVTPEQAGERIDRFLAATMETLSRSRIKSLIEEGHLACDGVCIREPAAIARAGMEVVLTI 78
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
P + EDI ++YEDD+++V++KPA +VVHPAPGN TGTLVNG++ HC
Sbjct: 79 PPAAPAVPQGEDISFTVLYEDDDLIVLDKPAGLVVHPAPGNETGTLVNGLIAHCG----- 133
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
E I G RPGIVHRLDK TSG++V AK E +H LSE F
Sbjct: 134 -----------------ESLKGIGGER-RPGIVHRLDKDTSGVMVAAKTEMAHQALSEDF 175
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
I+R Y++ G+P+ + G E I RD +R RMA P K A + Y+ +
Sbjct: 176 AARRIDRAYLAFCWGLPNPAEGDFEGAIGRDKRDRKRMALTPKGGK-----WALTHYRTL 230
Query: 303 EILAGGGSALVEWRLETGRTHQV 325
+ G G+ALV +L TGRTHQ+
Sbjct: 231 QAF-GTGAALVACKLATGRTHQI 252
>gi|395790169|ref|ZP_10469663.1| RluA family pseudouridine synthase [Bartonella taylorii 8TBB]
gi|395426820|gb|EJF92938.1| RluA family pseudouridine synthase [Bartonella taylorii 8TBB]
Length = 334
Score = 174 bits (442), Expect = 4e-41, Method: Compositional matrix adjust.
Identities = 103/275 (37%), Positives = 155/275 (56%), Gaps = 35/275 (12%)
Query: 61 EETVDTKAGKLRLDAWISSRIDGI-SRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
++ D A RLD W++ + + SR+R+Q+ IR G + I+GQ++ + +K ++
Sbjct: 4 QQITDEDALGQRLDQWLAKQYHNVLSRSRLQTLIREGYLKIDGQLIKEPKTKLKPNQIIE 63
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
TI L+ E I LDI++EDD+V+V+NKPA +VVHP GN +GTLVN +++HC
Sbjct: 64 LTIPVLRDAEPSGEAIALDILFEDDHVIVINKPAGLVVHPGNGNWSGTLVNALVYHCG-- 121
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
E S I G RPGIVHRLDK TSG++VVAK++ +H LS
Sbjct: 122 --------------------ESLSGIGGVK-RPGIVHRLDKNTSGVMVVAKNDLAHKSLS 160
Query: 240 EQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHA 295
QF H ++R Y +L G P+++ I+ + R P+NR + A + NK ARHA
Sbjct: 161 AQFSDHGRTSALDRRYHALIWGSPNRNVWTIDAALGRSPHNRTKQAVV--HNKSFHARHA 218
Query: 296 ASRYKVIEILA-----GGGSALVEWRLETGRTHQV 325
+ + ++E ++L+E RLETGRTHQ+
Sbjct: 219 ITHFSLLEKYGISTDTTSFASLLECRLETGRTHQI 253
>gi|302874641|ref|YP_003843274.1| RluA family pseudouridine synthase [Clostridium cellulovorans 743B]
gi|307690747|ref|ZP_07633193.1| pseudouridine synthase, RluA family protein [Clostridium
cellulovorans 743B]
gi|302577498|gb|ADL51510.1| pseudouridine synthase, RluA family [Clostridium cellulovorans
743B]
Length = 313
Score = 174 bits (442), Expect = 4e-41, Method: Compositional matrix adjust.
Identities = 100/254 (39%), Positives = 149/254 (58%), Gaps = 33/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D +++ ++DG SR+ +Q+ I V +NG+ K + +K D + I E Q +
Sbjct: 15 RIDKFLAEQLDGYSRSFIQNIIDGNNVLVNGKP-CKSNLKLKMQDEITVIIPEPQEMNVV 73
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E+I L+I+YED++++V+NKP MVVHPA G TLVN +L+HC
Sbjct: 74 PENISLNILYEDEDLIVINKPQGMVVHPASGVYNNTLVNALLYHC--------------- 118
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+D+S I+G +RPGIVHR+DK TSG++VVAK++ SH L+ Q K H+++R Y
Sbjct: 119 -KDLS-------GING-KLRPGIVHRIDKDTSGVIVVAKNDKSHNFLAAQLKEHSMKREY 169
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
I+L G+ + G I P++RDP RI++A + G R A + YKVIE +
Sbjct: 170 IALVEGIIKEEEGTINQPLARDPKERIKIAVVKG------GREAITHYKVIERFK--ENT 221
Query: 312 LVEWRLETGRTHQV 325
LV LETGRTHQ+
Sbjct: 222 LVRCILETGRTHQI 235
>gi|154504404|ref|ZP_02041142.1| hypothetical protein RUMGNA_01908 [Ruminococcus gnavus ATCC 29149]
gi|336432355|ref|ZP_08612190.1| hypothetical protein HMPREF0991_01309 [Lachnospiraceae bacterium
2_1_58FAA]
gi|153795333|gb|EDN77753.1| pseudouridine synthase, RluA family [Ruminococcus gnavus ATCC
29149]
gi|336018692|gb|EGN48429.1| hypothetical protein HMPREF0991_01309 [Lachnospiraceae bacterium
2_1_58FAA]
Length = 309
Score = 174 bits (442), Expect = 4e-41, Method: Compositional matrix adjust.
Identities = 106/265 (40%), Positives = 152/265 (57%), Gaps = 35/265 (13%)
Query: 61 EETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNC 120
EETV + R+D ++S+++ SR+ +Q I+ GLV +NG+ V K ++ + D V
Sbjct: 10 EETVTNE----RIDKFLSAQMPDRSRSYIQKLIKDGLVEVNGKQV-KTNYKLGSEDEVKL 64
Query: 121 TISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPT 180
I EL+ E+IPLDI+YED ++LVVNKP MVVHPAPG+ TGTLVN +++HC
Sbjct: 65 QIPELEVPDILPEEIPLDILYEDTDLLVVNKPKGMVVHPAPGHYTGTLVNALMYHCR--- 121
Query: 181 LASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSE 240
E S I+G +RPGIVHR+D T+G L+V K++ +H L+E
Sbjct: 122 -------------------ENLSGINGV-MRPGIVHRIDMDTTGSLLVCKNDRAHQILAE 161
Query: 241 QFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYK 300
Q K H+I R Y ++ G + SG + PI R P +R +M+ HG R A + Y+
Sbjct: 162 QLKDHSITRRYEAIVHGNLKEDSGTVNAPIGRHPTDRKKMSV---HAPHG--REAVTHYR 216
Query: 301 VIEILAGGGSALVEWRLETGRTHQV 325
V+E G +E LETGRTHQ+
Sbjct: 217 VLERF--GNYTHIECELETGRTHQI 239
>gi|402831096|ref|ZP_10879789.1| pseudouridine synthase, RluA family [Capnocytophaga sp. CM59]
gi|402283145|gb|EJU31667.1| pseudouridine synthase, RluA family [Capnocytophaga sp. CM59]
Length = 342
Score = 174 bits (442), Expect = 4e-41, Method: Compositional matrix adjust.
Identities = 109/277 (39%), Positives = 151/277 (54%), Gaps = 46/277 (16%)
Query: 59 QLEETVDTKAGK----LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKG 114
+L E KAGK LR+D ++ + ++ SR +VQ + + G + +NG V K +H VK
Sbjct: 11 ELYEHYSFKAGKGQEPLRVDKFLMNFVENASRNKVQQAAKDGNIFVNG-VAVKANHRVKA 69
Query: 115 GDMVNCTISE------LQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTL 168
D V + L P E IPLDIVYED+ ++++NKPA +VVHP GN GTL
Sbjct: 70 NDEVKVMFAHPPHEYLLVP-----EPIPLDIVYEDEELIIINKPAGLVVHPGHGNYQGTL 124
Query: 169 VNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVV 228
+NG+++H + SS+ RPG+VHR+DK TSGLLVV
Sbjct: 125 INGLIYHFQHLPMNSSD-------------------------RPGLVHRIDKDTSGLLVV 159
Query: 229 AKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNK 288
AK E + HL++QF T ER Y++L G ++ G I I R P NR++MA P +
Sbjct: 160 AKTEEAMNHLAKQFFNKTSEREYVALVWGNLTEDEGTITGHIGRHPKNRLQMAVFPDGS- 218
Query: 289 HGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQV 325
Q + A + YKV+E G LV RLETGRTHQ+
Sbjct: 219 --QGKEAITHYKVLERF--GYVTLVSCRLETGRTHQI 251
>gi|294786018|ref|ZP_06751305.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium sp.
3_1_27]
gi|294486355|gb|EFG33718.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium sp.
3_1_27]
Length = 316
Score = 174 bits (442), Expect = 4e-41, Method: Compositional matrix adjust.
Identities = 102/269 (37%), Positives = 157/269 (58%), Gaps = 33/269 (12%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
E V ++ +RLD ++S +I+ +R+ ++ I + V IN ++++K +K G+ +
Sbjct: 7 NFEFEVSSEYEGMRLDKYLSEQIEEATRSYLEKLIDNNYVKINSKIINKNGRKLKLGEKI 66
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
+I E + + EAE+I LDIVYE+D+ +V+NK MVVHPA GN +GTLVN +L++ +
Sbjct: 67 EISIPEEENIDIEAENISLDIVYENDDFIVINKSYGMVVHPAYGNYSGTLVNALLYYTNN 126
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
SSI+G +IRPGI+HRLDK TSGL++VAK+ ++HA L
Sbjct: 127 L-----------------------SSING-NIRPGIIHRLDKDTSGLILVAKNNYAHAKL 162
Query: 239 SEQFKLHTIERVYISLTSGVPSQS--SGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAA 296
+ F TI + Y+ + G S+ +GRIE I R +R +MA + + + A
Sbjct: 163 ASMFTDKTIHKTYLCIVKGNFSEENLNGRIENLIGRGSKDRKKMAVVKEN-----GKTAI 217
Query: 297 SRYKVIEILAGGGSALVEWRLETGRTHQV 325
S YKVIE + G +LVE +ETGRTHQ+
Sbjct: 218 SNYKVIEQV--DGYSLVEIAIETGRTHQI 244
>gi|19704707|ref|NP_604269.1| ribosomal large subunit pseudouridine synthase D [Fusobacterium
nucleatum subsp. nucleatum ATCC 25586]
gi|296327673|ref|ZP_06870215.1| RluA family pseudouridine synthase [Fusobacterium nucleatum subsp.
nucleatum ATCC 23726]
gi|19715021|gb|AAL95568.1| Ribosomal large subunit pseudouridine synthase D [Fusobacterium
nucleatum subsp. nucleatum ATCC 25586]
gi|296155204|gb|EFG95979.1| RluA family pseudouridine synthase [Fusobacterium nucleatum subsp.
nucleatum ATCC 23726]
Length = 319
Score = 174 bits (442), Expect = 4e-41, Method: Compositional matrix adjust.
Identities = 99/269 (36%), Positives = 157/269 (58%), Gaps = 33/269 (12%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
+ E V+++ +RLD ++S +I+ +R+ ++ I + V +N ++++K +K G+ +
Sbjct: 12 KFEFEVNSEYEGMRLDKYLSEQIEEATRSYLEKLIDNNFVKVNSKIINKNGRKLKLGEKI 71
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
I E + + E E+IPL+IVYE+D+ +++NK MVVHPA GN TGTLVN +L++ +
Sbjct: 72 EVLIPEEENIDIEPENIPLNIVYENDDFILINKSYGMVVHPAYGNYTGTLVNALLYYTN- 130
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
L+S N +IRPGI+HRLDK TSGL++VAK+ ++HA L
Sbjct: 131 -NLSSVN----------------------GNIRPGIIHRLDKDTSGLILVAKNNYAHAKL 167
Query: 239 SEQFKLHTIERVYISLTSGVPSQS--SGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAA 296
+ F TI + Y+ + G S+ SGRIE I RD +R +M + + + A
Sbjct: 168 ASMFIDKTIHKTYLCIVKGNFSEENLSGRIENLIGRDSKDRKKMTIVKEN-----GKIAI 222
Query: 297 SRYKVIEILAGGGSALVEWRLETGRTHQV 325
S YKV+E + G +LVE +ETGRTHQ+
Sbjct: 223 SNYKVVEQVE--GYSLVEVAIETGRTHQI 249
>gi|421873629|ref|ZP_16305241.1| pseudouridine synthase, RluA family protein [Brevibacillus
laterosporus GI-9]
gi|372457416|emb|CCF14790.1| pseudouridine synthase, RluA family protein [Brevibacillus
laterosporus GI-9]
Length = 298
Score = 174 bits (442), Expect = 4e-41, Method: Compositional matrix adjust.
Identities = 103/264 (39%), Positives = 158/264 (59%), Gaps = 32/264 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D +++ + SR++VQ+ ++ G V++N + K ++ V D ++ + + L+ E
Sbjct: 9 RIDKFLTMQEGEWSRSQVQAWVKEGRVTVNDAPI-KNNYKVAMDDEISLRVPPPKELKIE 67
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
A+ + LDIVYED +V+VVNKP +VVHPA G+ TGTLVNG+++HC
Sbjct: 68 AQAMDLDIVYEDSDVVVVNKPRGLVVHPALGHYTGTLVNGLMYHC--------------- 112
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+D+S I+G +RPGIVHR+DK TSGLL++AK++ +HA L+ Q K HT+ R Y
Sbjct: 113 -KDLS-------GINGV-MRPGIVHRIDKDTSGLLMIAKNDKAHASLAAQLKEHTVNRKY 163
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++L G G I+ PI RDP NR +MA + G++K A + + V+E +
Sbjct: 164 VALVHGEIPHEMGTIDAPIGRDPKNRQQMAVVFGNSK-----PAVTHFVVLERMK--DFT 216
Query: 312 LVEWRLETGRTHQVLMLYKLFYIP 335
LVE +LETGRTHQ+ + K P
Sbjct: 217 LVELKLETGRTHQIRVHMKYIGYP 240
>gi|65321221|ref|ZP_00394180.1| COG0564: Pseudouridylate synthases, 23S RNA-specific [Bacillus
anthracis str. A2012]
gi|229600532|ref|YP_002868128.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus anthracis str. A0248]
gi|270000606|ref|YP_003329045.1| ribosomal large subunit pseudouridine synthase [Bacillus anthracis
str. Ames]
gi|291612221|ref|YP_003541035.1| ribosomal large subunit pseudouridine synthase [Bacillus anthracis
str. 'Ames Ancestor']
gi|224552855|gb|ACN55066.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus anthracis str. 'Ames Ancestor']
gi|229264940|gb|ACQ46577.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus anthracis str. A0248]
gi|269850243|gb|ACZ49983.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus anthracis str. Ames]
Length = 302
Score = 174 bits (442), Expect = 4e-41, Method: Compositional matrix adjust.
Identities = 107/273 (39%), Positives = 156/273 (57%), Gaps = 33/273 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV + R+D +++ + SR +VQ I+ +V++NG+ V K ++ V+ D + TI
Sbjct: 8 TVAEEQKNERIDKFVAGINNEWSRTQVQQWIKDDVVTVNGKAV-KGNYKVRENDEITVTI 66
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E + L + ED+ L+I YED +VLVVNKP MVVHPAPG+ +GTLVNG++HHC+
Sbjct: 67 PEPEELDIQPEDMNLEIYYEDADVLVVNKPRSMVVHPAPGHTSGTLVNGLMHHCT----- 121
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q
Sbjct: 122 -----------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQL 162
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
T+ R Y ++ GV G I+ PI+RD R M +++G +HA + ++V+
Sbjct: 163 VAKTVTRRYKAIVHGVIPHDKGTIDAPIARDKKERQSMTV----DENG--KHAVTHFQVL 216
Query: 303 EILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
E LVE RLETGRTHQ+ + K P
Sbjct: 217 ERFK--DFTLVECRLETGRTHQIRVHMKYIGYP 247
>gi|209550662|ref|YP_002282579.1| pseudouridine synthase [Rhizobium leguminosarum bv. trifolii
WSM2304]
gi|424917077|ref|ZP_18340441.1| pseudouridine synthase, RluA family [Rhizobium leguminosarum bv.
trifolii WSM597]
gi|209536418|gb|ACI56353.1| pseudouridine synthase, RluA family [Rhizobium leguminosarum bv.
trifolii WSM2304]
gi|392853253|gb|EJB05774.1| pseudouridine synthase, RluA family [Rhizobium leguminosarum bv.
trifolii WSM597]
Length = 341
Score = 174 bits (442), Expect = 4e-41, Method: Compositional matrix adjust.
Identities = 108/286 (37%), Positives = 163/286 (56%), Gaps = 36/286 (12%)
Query: 50 EPIANYAGVQLEETVDTKAGKLRLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKV 108
+P AG + T D A + RLDAW+++++ + SR+R+++ I+ G VS+ G+ V+
Sbjct: 3 DPFKQAAGNRKVLTADETA-EGRLDAWLTAQVGEEFSRSRIKALIKDGQVSLRGEPVTDP 61
Query: 109 SHNVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTL 168
V+ GD T+ E + + EDIPLDI++ED++++V++KP+ +VVHP GN TGTL
Sbjct: 62 QRKVRNGDSFEITLPEPEDPTPQGEDIPLDILHEDEDLIVISKPSGLVVHPGSGNWTGTL 121
Query: 169 VNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVV 228
VN ++HHC + S I G RPGIVHRLDK T+G++VV
Sbjct: 122 VNALIHHCG----------------------DTLSGIGGVR-RPGIVHRLDKDTTGVMVV 158
Query: 229 AKDEHSHAHLSEQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIP 284
AK++ +H HLS QF H +ER Y ++ G P +G ++ P+ R +R R A+
Sbjct: 159 AKNDIAHRHLSLQFADHGRTMPLERAYQAVVWGRPRSLTGTVDAPLGRATGDRTRR-AVK 217
Query: 285 GSNKHGQARHAASRYKVIEIL-----AGGGSALVEWRLETGRTHQV 325
+ H A A + Y+VIE A ++LVE LETGRTHQ+
Sbjct: 218 RPDSH-DADEAITHYEVIERFQENPDATALASLVECHLETGRTHQI 262
>gi|375256746|ref|YP_005015913.1| RluA family pseudouridine synthase [Tannerella forsythia ATCC
43037]
gi|363408630|gb|AEW22316.1| pseudouridine synthase, RluA family [Tannerella forsythia ATCC
43037]
Length = 362
Score = 174 bits (442), Expect = 4e-41, Method: Compositional matrix adjust.
Identities = 106/269 (39%), Positives = 150/269 (55%), Gaps = 40/269 (14%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
T D K +R+D +++ R+ SR R+Q + +G + I+GQ V K ++ VK D+++ +
Sbjct: 40 TADKKQTPIRIDKFLTDRLPHTSRNRIQQAAEAGCILIDGQPV-KSNYRVKPSDVISIVM 98
Query: 123 ------SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC 176
+E+ P EDIPLDIVYED+++L+VNKPA +VVHP GN TGTLVN + H
Sbjct: 99 AYPRHETEIVP-----EDIPLDIVYEDEDLLIVNKPAGLVVHPGHGNYTGTLVNALAFHF 153
Query: 177 SLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHA 236
+ D D R G+VHR+DK TSGLLV+AK +
Sbjct: 154 K--------DHPYYDPSDP---------------RLGLVHRIDKDTSGLLVIAKKPEAKT 190
Query: 237 HLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAA 296
L QF T +R Y++LT G+ + GRIE I RD +R++M P Q + A
Sbjct: 191 DLGRQFFNKTTQRNYVALTWGILKEDEGRIEGNIGRDVRDRLKMCVFPDGE---QGKPAV 247
Query: 297 SRYKVIEILAGGGSALVEWRLETGRTHQV 325
+ Y+V+E L G +LVE RLETGRTHQ+
Sbjct: 248 THYRVLERL--GYVSLVECRLETGRTHQI 274
>gi|299821727|ref|ZP_07053615.1| ribosomal large subunit pseudouridine synthase [Listeria grayi DSM
20601]
gi|299817392|gb|EFI84628.1| ribosomal large subunit pseudouridine synthase [Listeria grayi DSM
20601]
Length = 302
Score = 174 bits (442), Expect = 4e-41, Method: Compositional matrix adjust.
Identities = 104/264 (39%), Positives = 157/264 (59%), Gaps = 35/264 (13%)
Query: 62 ETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCT 121
E +T+ G +R+D +++ + SR+ VQ ++ G V+++G+VV K ++ + GD+V
Sbjct: 7 EVKETEKG-MRIDKFLAEKASK-SRSSVQQLLKDGQVTVDGEVV-KPNYKCQLGDIVEME 63
Query: 122 ISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTL 181
+ + EAEDIPLDI YED+++LVVNKP MVVHP+ G+ TGTLVN +L+HC
Sbjct: 64 ERAPEVIEIEAEDIPLDIYYEDEDLLVVNKPEGMVVHPSAGHYTGTLVNALLYHC----- 118
Query: 182 ASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQ 241
+D+ S I+G IRPGIVHR+DK TSGLL+VAK++ +H L+ Q
Sbjct: 119 -----------KDL-------SGING-KIRPGIVHRIDKDTSGLLMVAKNDAAHESLASQ 159
Query: 242 FKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKV 301
K T R Y++L G + G IE PI R ++R +MA + G + A + ++V
Sbjct: 160 LKAKTSHREYVALVHGDIAHQKGTIEAPIGRAKDDRQKMAVV------GDGKEARTHFEV 213
Query: 302 IEILAGGGSALVEWRLETGRTHQV 325
+E G L+ +L+TGRTHQ+
Sbjct: 214 LERF--GDFTLITCQLDTGRTHQI 235
>gi|258543199|ref|YP_003188632.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase D
[Acetobacter pasteurianus IFO 3283-01]
gi|384043121|ref|YP_005481865.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase D
[Acetobacter pasteurianus IFO 3283-12]
gi|384051638|ref|YP_005478701.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase D
[Acetobacter pasteurianus IFO 3283-03]
gi|384054745|ref|YP_005487839.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase D
[Acetobacter pasteurianus IFO 3283-07]
gi|384057980|ref|YP_005490647.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase D
[Acetobacter pasteurianus IFO 3283-22]
gi|384060621|ref|YP_005499749.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase D
[Acetobacter pasteurianus IFO 3283-26]
gi|384063913|ref|YP_005484555.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase D
[Acetobacter pasteurianus IFO 3283-32]
gi|384119922|ref|YP_005502546.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase D
[Acetobacter pasteurianus IFO 3283-01-42C]
gi|256634277|dbj|BAI00253.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase D
[Acetobacter pasteurianus IFO 3283-01]
gi|256637337|dbj|BAI03306.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase D
[Acetobacter pasteurianus IFO 3283-03]
gi|256640389|dbj|BAI06351.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase D
[Acetobacter pasteurianus IFO 3283-07]
gi|256643446|dbj|BAI09401.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase D
[Acetobacter pasteurianus IFO 3283-22]
gi|256646501|dbj|BAI12449.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase D
[Acetobacter pasteurianus IFO 3283-26]
gi|256649554|dbj|BAI15495.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase D
[Acetobacter pasteurianus IFO 3283-32]
gi|256652540|dbj|BAI18474.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase D
[Acetobacter pasteurianus IFO 3283-01-42C]
gi|256655598|dbj|BAI21525.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase D
[Acetobacter pasteurianus IFO 3283-12]
Length = 337
Score = 174 bits (442), Expect = 4e-41, Method: Compositional matrix adjust.
Identities = 99/263 (37%), Positives = 146/263 (55%), Gaps = 29/263 (11%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV + R+D ++++ ++ +SR+R++S I G ++ +G + + + + G V TI
Sbjct: 22 TVTPEQAGERIDRFLAATMETLSRSRIKSLIEEGHLACDGVCIREPAAIARAGMEVVLTI 81
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
P + EDI ++YEDD+++V++KPA +VVHPAPGN TGTLVNG++ HC
Sbjct: 82 PPAAPAVPQGEDISFTVLYEDDDLIVLDKPAGLVVHPAPGNETGTLVNGLIAHCG----- 136
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
E I G RPGIVHRLDK TSG++V AK E +H LSE F
Sbjct: 137 -----------------ESLKGIGGER-RPGIVHRLDKDTSGVMVAAKTEMAHQALSEDF 178
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
I+R Y++ G+P+ + G E I RD +R RMA P K A + Y+ +
Sbjct: 179 AARRIDRAYLAFCWGLPNPAEGDFEGAIGRDKRDRKRMALTPKGGK-----WALTHYRTL 233
Query: 303 EILAGGGSALVEWRLETGRTHQV 325
+ G G+ALV +L TGRTHQ+
Sbjct: 234 QAF-GTGAALVACKLATGRTHQI 255
>gi|395787283|ref|ZP_10466884.1| RluA family pseudouridine synthase [Bartonella birtlesii LL-WM9]
gi|395411707|gb|EJF78228.1| RluA family pseudouridine synthase [Bartonella birtlesii LL-WM9]
Length = 334
Score = 174 bits (442), Expect = 4e-41, Method: Compositional matrix adjust.
Identities = 101/275 (36%), Positives = 154/275 (56%), Gaps = 35/275 (12%)
Query: 61 EETVDTKAGKLRLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
+ D A RLD W++ + + +SR+R+Q+ IR G + ++GQ++ + +K ++
Sbjct: 4 RQITDEGALGKRLDQWLAKQYHNALSRSRLQNLIREGYLKVDGQLIREPKTKLKPNQIIE 63
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
+ L+ E I LDI++ED++V+V+NKPA +VVHP GN TGTLVN ++HHC
Sbjct: 64 LAMPILRDAEPCGEAIILDILFEDNDVIVINKPAGLVVHPGNGNWTGTLVNALIHHCG-- 121
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
S S G RPGIVHRLDK TSG++VVAK++ +H LS
Sbjct: 122 ---------------------NSLSGIGGVKRPGIVHRLDKNTSGVMVVAKNDFAHKSLS 160
Query: 240 EQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHA 295
QF H ++R Y +L G+P ++ I+ + R P NRI+ A + N+H ARHA
Sbjct: 161 AQFSDHGRTSALDRRYHALIWGIPHRNIWTIDASLGRSPYNRIKQAVV--HNQHAYARHA 218
Query: 296 ASRYKVIEILAGGG-----SALVEWRLETGRTHQV 325
+ + ++E ++L+E RLETGRTHQ+
Sbjct: 219 ITHFSLLEKYGTYADTTPVASLIECRLETGRTHQI 253
>gi|16331032|ref|NP_441760.1| hypothetical protein slr1629 [Synechocystis sp. PCC 6803]
gi|383322775|ref|YP_005383628.1| hypothetical protein SYNGTI_1866 [Synechocystis sp. PCC 6803
substr. GT-I]
gi|383325944|ref|YP_005386797.1| hypothetical protein SYNPCCP_1865 [Synechocystis sp. PCC 6803
substr. PCC-P]
gi|383491828|ref|YP_005409504.1| hypothetical protein SYNPCCN_1865 [Synechocystis sp. PCC 6803
substr. PCC-N]
gi|384437095|ref|YP_005651819.1| hypothetical protein SYNGTS_1866 [Synechocystis sp. PCC 6803]
gi|451815190|ref|YP_007451642.1| hypothetical protein MYO_118830 [Synechocystis sp. PCC 6803]
gi|3915482|sp|P74346.1|Y1629_SYNY3 RecName: Full=Uncharacterized RNA pseudouridine synthase slr1629;
AltName: Full=RNA pseudouridylate synthase; AltName:
Full=RNA-uridine isomerase
gi|1653527|dbj|BAA18440.1| slr1629 [Synechocystis sp. PCC 6803]
gi|339274127|dbj|BAK50614.1| hypothetical protein SYNGTS_1866 [Synechocystis sp. PCC 6803]
gi|359272094|dbj|BAL29613.1| hypothetical protein SYNGTI_1866 [Synechocystis sp. PCC 6803
substr. GT-I]
gi|359275264|dbj|BAL32782.1| hypothetical protein SYNPCCN_1865 [Synechocystis sp. PCC 6803
substr. PCC-N]
gi|359278434|dbj|BAL35951.1| hypothetical protein SYNPCCP_1865 [Synechocystis sp. PCC 6803
substr. PCC-P]
gi|407961601|dbj|BAM54841.1| hypothetical protein BEST7613_5910 [Bacillus subtilis BEST7613]
gi|451781159|gb|AGF52128.1| hypothetical protein MYO_118830 [Synechocystis sp. PCC 6803]
Length = 327
Score = 174 bits (442), Expect = 5e-41, Method: Compositional matrix adjust.
Identities = 100/255 (39%), Positives = 146/255 (57%), Gaps = 29/255 (11%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
+RLD W++ ++ +SR+R Q I SG V NG V + +K GD + I EL PL
Sbjct: 32 VRLDKWLAEQLPELSRSRCQKLIESGQVQRNGLVCQDKNLILKTGDRLVVNIPELIPLDV 91
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
A++IPLDI+YED+ ++++NKPA +VVHP PG+ GT+VN +L HC P LA
Sbjct: 92 VAQNIPLDILYEDEQLIIINKPAGLVVHPGPGHPDGTVVNALLAHC--PDLAG------- 142
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
G RPGIVHRLDK T+G +VVAK E + +L Q K T R+
Sbjct: 143 ---------------IGGVQRPGIVHRLDKDTTGAMVVAKTELALHNLQVQLKEKTARRL 187
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y + G P + G + +P+ R P +R +M +P K G R A + ++++E + G
Sbjct: 188 YWGIVYGSPKEIQGTVNLPVGRHPGDRQKMGIVP-VEKGG--REAVTHWRLLERI--GNH 242
Query: 311 ALVEWRLETGRTHQV 325
+ +E++LETGRTHQ+
Sbjct: 243 SWLEFQLETGRTHQI 257
>gi|163755786|ref|ZP_02162904.1| ribosomal large subunit pseudouridine synthase D [Kordia algicida
OT-1]
gi|161324307|gb|EDP95638.1| ribosomal large subunit pseudouridine synthase D [Kordia algicida
OT-1]
Length = 346
Score = 174 bits (442), Expect = 5e-41, Method: Compositional matrix adjust.
Identities = 101/257 (39%), Positives = 149/257 (57%), Gaps = 32/257 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISE--LQPL 128
LR+D ++ + I+G +R ++Q + + G + +NG+ V K ++ VKG D++ + + L
Sbjct: 31 LRVDKYLMNFIEGATRNKIQQAAKDGNIFVNGKPV-KSNYKVKGNDVIKVLFAHPPYENL 89
Query: 129 RAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEA 188
EDIP+DIVYEDD++LVVNKPA MVVHP GN +GTL+N +++H
Sbjct: 90 LV-GEDIPIDIVYEDDDLLVVNKPAGMVVHPGHGNYSGTLINALIYH------------- 135
Query: 189 FSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIE 248
F + ++ RPG+VHR+DK TSGLLVVAK E + HL++QF T E
Sbjct: 136 ------------FDNLPKNSNERPGLVHRIDKDTSGLLVVAKTEEAMTHLAKQFFDKTSE 183
Query: 249 RVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGG 308
R+Y +L G + G +E I R P NR++ G + + + A + YKV+E L G
Sbjct: 184 RIYYALVWGNVEEDEGTVEGNIGRHPKNRLQNTVFFGEDA-DKGKPAVTHYKVLERL--G 240
Query: 309 GSALVEWRLETGRTHQV 325
LV +LETGRTHQ+
Sbjct: 241 YVTLVSCQLETGRTHQI 257
>gi|347750588|ref|YP_004858153.1| RluA family pseudouridine synthase [Bacillus coagulans 36D1]
gi|347583106|gb|AEO99372.1| pseudouridine synthase, RluA family [Bacillus coagulans 36D1]
Length = 303
Score = 174 bits (442), Expect = 5e-41, Method: Compositional matrix adjust.
Identities = 103/267 (38%), Positives = 153/267 (57%), Gaps = 33/267 (12%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
+++ T+ RLD +SS + SR++VQ I+ G +++NG+ K ++ ++ GD+V
Sbjct: 3 KMDHTILEHEANERLDKMVSSIREEWSRSQVQQWIKDGDITVNGKK-EKANYRLQTGDLV 61
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
+ E + E ED+ LDI YED +VLVVNKP MVVHP+ G+ TGTLVNG+++HC
Sbjct: 62 EIEVPEPELPDIEPEDLHLDIYYEDADVLVVNKPKGMVVHPSNGHFTGTLVNGLMYHC-- 119
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+D+ S I+G +RPGIVHR+DK TSGLL+VAK++++H L
Sbjct: 120 --------------KDL-------SGINGV-LRPGIVHRIDKDTSGLLMVAKNDYAHEKL 157
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
+ Q T+ R Y +L G +G I+ PI RDP +R RMA + + A +
Sbjct: 158 AAQLSEKTVTRKYFALVHGNIPHEAGTIDAPIGRDPADRQRMAVV------DNGKDAVTH 211
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQV 325
+ V+E +E RLETGRTHQ+
Sbjct: 212 FHVLERF--DRYTFIECRLETGRTHQI 236
>gi|312135180|ref|YP_004002518.1| pseudouridine synthase, rlua family [Caldicellulosiruptor
owensensis OL]
gi|311775231|gb|ADQ04718.1| pseudouridine synthase, RluA family [Caldicellulosiruptor
owensensis OL]
Length = 300
Score = 174 bits (442), Expect = 5e-41, Method: Compositional matrix adjust.
Identities = 102/254 (40%), Positives = 144/254 (56%), Gaps = 32/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++S + +R+ +Q I G V +N V K ++ V+ GD++ I E + L
Sbjct: 9 RLDRYLSEALSK-TRSFIQKIIEEGNVWVNQTQVFKPAYKVRNGDIIKVVIPEPKQLSLV 67
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
A+DI +D+VYED+++ V+NKP MVVHP GN TLVN +LH S
Sbjct: 68 AQDIDIDVVYEDEHLAVINKPRGMVVHPGAGNFENTLVNALLHKFSGRL----------- 116
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
SSI+G IRPGIVHRLDK TSGLLVVAK + +H LSE K H I+R+Y
Sbjct: 117 -----------SSINGV-IRPGIVHRLDKDTSGLLVVAKTDEAHIKLSEALKSHQIKRIY 164
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++ GV + SG ++ PI R P NR++MA +P + A + ++V+E
Sbjct: 165 YAICEGVLKEDSGVVDAPIGRHPVNRLKMAVVP------NGKEAVTYFEVLERF--DKYT 216
Query: 312 LVEWRLETGRTHQV 325
V+ RL+TGRTHQ+
Sbjct: 217 FVKLRLKTGRTHQI 230
>gi|331091117|ref|ZP_08339959.1| hypothetical protein HMPREF9477_00602 [Lachnospiraceae bacterium
2_1_46FAA]
gi|330405339|gb|EGG84875.1| hypothetical protein HMPREF9477_00602 [Lachnospiraceae bacterium
2_1_46FAA]
Length = 307
Score = 174 bits (441), Expect = 5e-41, Method: Compositional matrix adjust.
Identities = 96/262 (36%), Positives = 156/262 (59%), Gaps = 31/262 (11%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
++ + +R+D ++S ++D +SR+ +Q I+ +S+NG V K ++ V D+V TI
Sbjct: 8 INQEENGMRIDVFLSKKMDNVSRSYIQKLIKEKEISVNGMAV-KANYKVSANDIVQLTIP 66
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
+L E+IPLDI+YED ++L+VNKP MVVHP+P + TGTLVN ++++C
Sbjct: 67 DLSEPDILPENIPLDILYEDADILIVNKPKGMVVHPSPSHYTGTLVNALMYYC------- 119
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
DD S I+G +RPGIVHR+D T+G L+V K++ +H L+E K
Sbjct: 120 ------------KDD---LSGINGV-MRPGIVHRIDMDTTGSLLVCKNDFAHQKLAEDLK 163
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
+H I+R+Y ++ GV + G +E PI R P +R +M+ + K+G+ A + Y+V++
Sbjct: 164 VHNIKRIYHAIVHGVIKEDEGTVEGPIGRHPIDRKKMSI---NYKNGKP--AVTHYRVLK 218
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
+ +E +LETGRTHQ+
Sbjct: 219 RFS--NYTYIECQLETGRTHQI 238
>gi|255022986|ref|ZP_05294972.1| hypothetical protein LmonocyFSL_05005 [Listeria monocytogenes FSL
J1-208]
gi|422809924|ref|ZP_16858335.1| Ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes FSL J1-208]
gi|378751588|gb|EHY62176.1| Ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes FSL J1-208]
Length = 302
Score = 174 bits (441), Expect = 5e-41, Method: Compositional matrix adjust.
Identities = 103/254 (40%), Positives = 154/254 (60%), Gaps = 34/254 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D I+ + G SR+ +Q +++G +++NG++ +K ++ V+ GD ++ + E + L
Sbjct: 16 RVDKVIAEMM-GKSRSAIQLMLKNGDITVNGEL-AKPNYKVQVGDEIHYEVREPEELEVL 73
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AEDIPLDI +ED ++LVVNKP MVVHP+ G+A+GTLVN +L HC
Sbjct: 74 AEDIPLDIYFEDKDMLVVNKPEGMVVHPSAGHASGTLVNALLFHC--------------- 118
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
DD S I+G IRPGIVHR+DK TSGLL+VAK++H+H L++Q K T +R Y
Sbjct: 119 -----DD---LSGING-KIRPGIVHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSDREY 169
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
I+L G G IE PI R +R +MA + + A + ++V+E L G
Sbjct: 170 IALVHGDIVHQKGTIEAPIGRAKEDRQKMAVV------RDGKEARTHFEVLERLP--GYT 221
Query: 312 LVEWRLETGRTHQV 325
L++ +L+TGRTHQ+
Sbjct: 222 LIKCKLDTGRTHQI 235
>gi|116873278|ref|YP_850059.1| ribosomal large subunit pseudouridine synthase [Listeria welshimeri
serovar 6b str. SLCC5334]
gi|116742156|emb|CAK21280.1| Ribosomal large subunit pseudouridine synthase [Listeria welshimeri
serovar 6b str. SLCC5334]
Length = 302
Score = 174 bits (441), Expect = 5e-41, Method: Compositional matrix adjust.
Identities = 104/254 (40%), Positives = 153/254 (60%), Gaps = 34/254 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D I+ + G SR+ +Q +++G +++NG++ +K ++ V+ GD ++ I E + L
Sbjct: 16 RVDKVIAEMM-GKSRSAIQLMLKNGDITVNGEL-AKPNYKVQVGDEIHYEIREPEELEVL 73
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AEDIPLDI +ED ++LVVNKP MVVHP+ G+A+GTLVN +L HC
Sbjct: 74 AEDIPLDIYFEDKDMLVVNKPEGMVVHPSAGHASGTLVNALLFHC--------------- 118
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
DD S I+G IRPGIVHR+DK TSGLL+VAK++H+H L++Q K T +R Y
Sbjct: 119 -----DD---LSGING-KIRPGIVHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSDREY 169
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
I+L G G IE PI R +R +MA + + A + ++V+E L G
Sbjct: 170 IALVHGDIVHQKGTIEAPIGRAKEDRQKMAVV------RDGKEARTHFEVLERLP--GYT 221
Query: 312 LVEWRLETGRTHQV 325
L+ +L+TGRTHQ+
Sbjct: 222 LINCKLDTGRTHQI 235
>gi|282900595|ref|ZP_06308537.1| Pseudouridine synthase, RluD [Cylindrospermopsis raciborskii
CS-505]
gi|281194395|gb|EFA69350.1| Pseudouridine synthase, RluD [Cylindrospermopsis raciborskii
CS-505]
Length = 326
Score = 174 bits (441), Expect = 5e-41, Method: Compositional matrix adjust.
Identities = 104/289 (35%), Positives = 156/289 (53%), Gaps = 35/289 (12%)
Query: 39 CSSSSSGGNNREPIAN-YAGVQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGL 97
C+ G N IAN Y+ + ++ + RLD ++SS I +SR+R+Q I G
Sbjct: 3 CTGCWQNGKN---IANHYSLIVVKIHLSITQKTQRLDRYLSSVIPDLSRSRIQDLIEQGY 59
Query: 98 VSINGQVVSKVSHNVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVV 157
V +NG+V + + GG+ + I +Q + A+DIPLDI+YED+ +L++NKPA +VV
Sbjct: 60 VQVNGKVCYSKNITLDGGEYLEVEIPPVQAAQLVAQDIPLDILYEDEQLLILNKPAGLVV 119
Query: 158 HPAPGNATGTLVNGILHHC-SLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVH 216
HPAPG+ GTLV+ +L HC +LP + G RPGIVH
Sbjct: 120 HPAPGHLEGTLVHALLAHCPNLPGI-------------------------GGVQRPGIVH 154
Query: 217 RLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNN 276
RLDK T+G + +AK + ++ L Q + R Y+ + G P SG I++PI R P
Sbjct: 155 RLDKDTTGAIAIAKTDIAYKQLQLQLQSKIARREYLGVVYGAPKSESGTIDLPIGRHPQQ 214
Query: 277 RIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQV 325
R +MA +P R+A + + + E L G L+ ++LETGRTHQ+
Sbjct: 215 RKKMAIVPVEQG---GRNAITNWHIKERL--GNYTLIHFQLETGRTHQI 258
>gi|395242328|ref|ZP_10419325.1| Pseudouridine synthase [Lactobacillus pasteurii CRBIP 24.76]
gi|394480060|emb|CCI85565.1| Pseudouridine synthase [Lactobacillus pasteurii CRBIP 24.76]
Length = 301
Score = 174 bits (441), Expect = 5e-41, Method: Compositional matrix adjust.
Identities = 101/256 (39%), Positives = 150/256 (58%), Gaps = 33/256 (12%)
Query: 70 KLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLR 129
K RLD I+ ++ +SR R++ I S + +N + K S+ V+ GD + + L+PL
Sbjct: 13 KGRLDKVIAEKLSDLSRTRIRELIDSQNILVNDKK-EKASYKVQAGDKIVVNVPALEPLN 71
Query: 130 AEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAF 189
EAEDIPLDIVYED +V+VVNKP MVVHP+ G+ TLVN +L+H LA+S E F
Sbjct: 72 VEAEDIPLDIVYEDQDVIVVNKPQGMVVHPSAGHPNYTLVNALLYHTK--DLAAS-PEGF 128
Query: 190 SDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIER 249
RPGIVHR+DK TSGLL++AK+ + L +Q +R
Sbjct: 129 ---------------------RPGIVHRIDKDTSGLLMIAKNPKARESLEDQLAHKLNKR 167
Query: 250 VYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGG 309
+Y+++ G +S+G+I+ PI R+P+NR +MA + + A + +KV+E G
Sbjct: 168 LYLAIVHGNFGESAGKIDAPIGRNPSNRKQMAVVEN------GKSAVTHFKVLEQFK--G 219
Query: 310 SALVEWRLETGRTHQV 325
+L++ +LETGRTHQ+
Sbjct: 220 YSLIQCQLETGRTHQI 235
>gi|302389579|ref|YP_003825400.1| ribosomal large subunit pseudouridine synthase D
[Thermosediminibacter oceani DSM 16646]
gi|302200207|gb|ADL07777.1| ribosomal large subunit pseudouridine synthase D
[Thermosediminibacter oceani DSM 16646]
Length = 307
Score = 174 bits (441), Expect = 5e-41, Method: Compositional matrix adjust.
Identities = 104/269 (38%), Positives = 156/269 (57%), Gaps = 32/269 (11%)
Query: 57 GVQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGD 116
G L+ V K RLD ++S I+ +SR+ +Q I G V +N ++V K + +K GD
Sbjct: 2 GKFLKILVQEDDAKKRLDVFLSGVINDLSRSYIQKGIEEGWVKVNERIV-KPHYKLKKGD 60
Query: 117 MVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC 176
++ I +PL E E+IPLDI++ED +++VVNKP MVV+PAPGN +GTLVN +L+H
Sbjct: 61 VIVADIPSPKPLSLEPENIPLDIIHEDRDIIVVNKPRGMVVYPAPGNYSGTLVNALLYHT 120
Query: 177 SLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHA 236
+D+ S I+G +RPGIVHRLDK TSG++VVAK++ +H
Sbjct: 121 ----------------KDL-------SGINGV-MRPGIVHRLDKDTSGVIVVAKNDMAHR 156
Query: 237 HLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAA 296
L+ QFK +++ Y+++ G + IE PI R P R+ MA + K+G + A
Sbjct: 157 ELAMQFKNKLVKKTYLAVVWGNIPEDRATIEAPIGRHPAKRVEMAV---TAKNG--KEAI 211
Query: 297 SRYKVIEILAGGGSALVEWRLETGRTHQV 325
+ +KV+E +E +ETGRTHQ+
Sbjct: 212 THFKVLERFE--DFTFIEVNIETGRTHQI 238
>gi|282850533|ref|ZP_06259912.1| pseudouridine synthase, RluA family [Veillonella parvula ATCC
17745]
gi|282580026|gb|EFB85430.1| pseudouridine synthase, RluA family [Veillonella parvula ATCC
17745]
Length = 307
Score = 174 bits (441), Expect = 5e-41, Method: Compositional matrix adjust.
Identities = 104/265 (39%), Positives = 156/265 (58%), Gaps = 33/265 (12%)
Query: 61 EETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNC 120
E V + +RLD +++ +++G SR+ +QS I+ G V++ G+V K + + ++
Sbjct: 3 EYIVSAEQEGMRLDVFLTEQMEG-SRSYIQSLIKGGHVTVGGKV-GKANLRLTPDTIIRV 60
Query: 121 TISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPT 180
I E + + + EDIPLD +YED ++++VNKP MVVHPA GN +GTLVN +L HC
Sbjct: 61 EIPEPESIEVKPEDIPLDYLYEDHDIVIVNKPRGMVVHPAVGNYSGTLVNALLFHC---- 116
Query: 181 LASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSE 240
+D+S I+G IRPGIVHRLDK TSG+++VAK++ +H L+E
Sbjct: 117 ------------KDLS-------GING-EIRPGIVHRLDKDTSGVMMVAKNDAAHIGLAE 156
Query: 241 QFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYK 300
Q K H+ R Y +L G + G I+ PI R P +R++MA + ++K A + +K
Sbjct: 157 QVKTHSARRTYWALVQGNIVEEKGTIKAPIGRHPKDRMKMAVVFENSK-----DAVTHFK 211
Query: 301 VIEILAGGGSALVEWRLETGRTHQV 325
V+E G LVE LETGRTHQ+
Sbjct: 212 VLERY--GHQTLVECNLETGRTHQI 234
>gi|417001126|ref|ZP_11941040.1| pseudouridine synthase, RluA family [Veillonella parvula
ACS-068-V-Sch12]
gi|333975609|gb|EGL76488.1| pseudouridine synthase, RluA family [Veillonella parvula
ACS-068-V-Sch12]
Length = 307
Score = 174 bits (441), Expect = 5e-41, Method: Compositional matrix adjust.
Identities = 104/265 (39%), Positives = 157/265 (59%), Gaps = 33/265 (12%)
Query: 61 EETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNC 120
E V + +RLD +++ +++G SR+ +QS I+ G V++ G+V K + + +++
Sbjct: 3 EYIVSAEQEGMRLDVFLTEQMEG-SRSYIQSLIKGGHVTVGGKV-GKANLRLTPDTVIHV 60
Query: 121 TISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPT 180
I E + + + EDIPLD +YED ++++VNKP MVVHPA GN +GTLVN +L HC
Sbjct: 61 EIPEPESIEVKPEDIPLDYLYEDHDIVIVNKPRGMVVHPAVGNYSGTLVNALLFHC---- 116
Query: 181 LASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSE 240
+D+S I+G IRPGIVHRLDK TSG+++VAK++ +H L+E
Sbjct: 117 ------------KDLS-------GING-EIRPGIVHRLDKDTSGVMMVAKNDAAHIGLAE 156
Query: 241 QFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYK 300
Q K H+ R Y +L G + G I+ PI R P +R++MA + ++K A + +K
Sbjct: 157 QVKAHSARRTYWALVQGNIVEEKGTIKAPIGRHPKDRMKMAVVFENSK-----DAVTHFK 211
Query: 301 VIEILAGGGSALVEWRLETGRTHQV 325
V+E G LVE LETGRTHQ+
Sbjct: 212 VLERY--GHQTLVECNLETGRTHQI 234
>gi|329922661|ref|ZP_08278213.1| pseudouridine synthase, RluA family [Paenibacillus sp. HGF5]
gi|328942003|gb|EGG38286.1| pseudouridine synthase, RluA family [Paenibacillus sp. HGF5]
Length = 322
Score = 174 bits (441), Expect = 5e-41, Method: Compositional matrix adjust.
Identities = 105/276 (38%), Positives = 161/276 (58%), Gaps = 33/276 (11%)
Query: 61 EETVDTKAGKLRLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
E TV+ A K R+D +I+ + + +SR++VQ I G VS+N + K ++ V GD +
Sbjct: 23 EWTVEADAAKTRIDKYITENLGEDVSRSQVQLWIADGHVSVNDGPI-KSNYKVSQGDRIV 81
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
+ E + EDIPL+I +ED +V+VVNKP MVVHPAPG+++GTLVN ++ HC
Sbjct: 82 LKVPEPSAVEIIPEDIPLEIAFEDGDVIVVNKPRGMVVHPAPGHSSGTLVNALMFHC--- 138
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
+D+ S I+G +RPGIVHR+DK T+GL++ AK++ +HA L+
Sbjct: 139 -------------KDL-------SGING-ELRPGIVHRIDKDTTGLIMAAKNDKAHASLA 177
Query: 240 EQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRY 299
Q K H++ R Y++L G S G I+ PI RD +R ++ + N ++HA + +
Sbjct: 178 AQLKEHSVNRRYLALVHGNISHDQGTIDAPIGRDAQDR-KLYTVTDRN----SKHAVTHF 232
Query: 300 KVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
V+E G +L+E +LETGRTHQ+ + K P
Sbjct: 233 TVVERF--GDYSLLELKLETGRTHQIRVHMKYIGHP 266
>gi|238854437|ref|ZP_04644777.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
jensenii 269-3]
gi|260664477|ref|ZP_05865329.1| pseudouridylate synthase [Lactobacillus jensenii SJ-7A-US]
gi|313472076|ref|ZP_07812568.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
jensenii 1153]
gi|238832930|gb|EEQ25227.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
jensenii 269-3]
gi|239530107|gb|EEQ69108.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
jensenii 1153]
gi|260561542|gb|EEX27514.1| pseudouridylate synthase [Lactobacillus jensenii SJ-7A-US]
Length = 301
Score = 174 bits (441), Expect = 5e-41, Method: Compositional matrix adjust.
Identities = 109/266 (40%), Positives = 155/266 (58%), Gaps = 36/266 (13%)
Query: 60 LEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
E V KAG RLD +IS D +SR+RVQ + SG + +N + K S+ V GD ++
Sbjct: 4 FELNVSAKAG--RLDKYISEHSD-LSRSRVQELLTSGDILVNSKQ-EKPSYKVAIGDKIS 59
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
+ +L PL E EDIPLDIVYED++V+VVNKP MVVHP+ G+ TLVN +++H
Sbjct: 60 VHVPKLVPLNVEPEDIPLDIVYEDNDVIVVNKPQGMVVHPSAGHPNHTLVNALMNHT--- 116
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
+E ++S G RPGIVHR+DK TSGLL++AK+ + L
Sbjct: 117 -------------------KELAASPEG--FRPGIVHRIDKDTSGLLMIAKNTQARESLE 155
Query: 240 EQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRY 299
Q T +RVY+++ G ++SG I+ PI+R+P R +MA + + G+A A + +
Sbjct: 156 SQLAHKTNKRVYLAIVHGNFKEASGTIDAPIARNPKERKKMAVV----ESGKA--AVTHF 209
Query: 300 KVIEILAGGGSALVEWRLETGRTHQV 325
KV+E ALV +LETGRTHQ+
Sbjct: 210 KVLEQYP--NYALVSCQLETGRTHQI 233
>gi|229162828|ref|ZP_04290785.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
R309803]
gi|228620710|gb|EEK77579.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
R309803]
Length = 302
Score = 174 bits (441), Expect = 5e-41, Method: Compositional matrix adjust.
Identities = 108/273 (39%), Positives = 156/273 (57%), Gaps = 33/273 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV + R+D +++ SR++VQ I+ +V++NG+VV K ++ VK D + TI
Sbjct: 8 TVAEEQKSERIDKFVAEINSEWSRSQVQQWIKDAVVTVNGKVV-KGNYKVKANDEITVTI 66
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E + L + ED+ L+I YED +VLVVNKP MVVHPAPG+ +GTLVNG++HHC+
Sbjct: 67 PEPEELDIQPEDMNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCT----- 121
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q
Sbjct: 122 -----------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQL 162
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
T+ R Y ++ GV G I+ PI RD R M +++G ++A + ++V+
Sbjct: 163 VAKTVTRRYKAIVHGVIPHDKGTIDAPIGRDKKERQSMTV----DENG--KNAVTHFQVL 216
Query: 303 EILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
E LVE RLETGRTHQ+ + K P
Sbjct: 217 ERFK--DFTLVECRLETGRTHQIRVHMKYIGYP 247
>gi|217961313|ref|YP_002339881.1| RluA family ribosomal large subunit pseudouridine synthase
[Bacillus cereus AH187]
gi|222097338|ref|YP_002531395.1| ribosomal large subunit pseudouridine synthase, rlud subfamily
[Bacillus cereus Q1]
gi|229140541|ref|ZP_04269096.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
BDRD-ST26]
gi|375285818|ref|YP_005106257.1| ribosomal large subunit pseudouridine synthase D [Bacillus cereus
NC7401]
gi|423353596|ref|ZP_17331223.1| RluA family pseudouridine synthase [Bacillus cereus IS075]
gi|423567211|ref|ZP_17543458.1| RluA family pseudouridine synthase [Bacillus cereus MSX-A12]
gi|217063169|gb|ACJ77419.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus cereus AH187]
gi|221241396|gb|ACM14106.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Bacillus cereus Q1]
gi|228643102|gb|EEK99378.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
BDRD-ST26]
gi|358354345|dbj|BAL19517.1| ribosomal large subunit pseudouridine synthase D [Bacillus cereus
NC7401]
gi|401089409|gb|EJP97580.1| RluA family pseudouridine synthase [Bacillus cereus IS075]
gi|401214299|gb|EJR21029.1| RluA family pseudouridine synthase [Bacillus cereus MSX-A12]
Length = 302
Score = 174 bits (441), Expect = 5e-41, Method: Compositional matrix adjust.
Identities = 107/273 (39%), Positives = 156/273 (57%), Gaps = 33/273 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV + R+D +++ + SR +VQ I+ +V++NG+ V K ++ V+ D + TI
Sbjct: 8 TVAEEQKNERIDKFVAGINNEWSRTQVQQWIKDNVVTVNGKAV-KGNYKVRENDEITVTI 66
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E + L + ED+ L+I YED +VLVVNKP MVVHPAPG+ +GTLVNG++HHC+
Sbjct: 67 PEPEELDIQPEDMNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCT----- 121
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q
Sbjct: 122 -----------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQL 162
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
T+ R Y ++ GV G I+ PI+RD R M +++G +HA + ++V+
Sbjct: 163 VAKTVTRRYKAIVHGVIPHDKGTIDAPIARDKKERQSMTV----DENG--KHAVTHFQVL 216
Query: 303 EILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
E LVE RLETGRTHQ+ + K P
Sbjct: 217 ERFK--DFTLVECRLETGRTHQIRVHMKYIGYP 247
>gi|206976765|ref|ZP_03237669.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus cereus H3081.97]
gi|423374310|ref|ZP_17351648.1| RluA family pseudouridine synthase [Bacillus cereus AND1407]
gi|206745075|gb|EDZ56478.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus cereus H3081.97]
gi|401094222|gb|EJQ02304.1| RluA family pseudouridine synthase [Bacillus cereus AND1407]
Length = 302
Score = 174 bits (441), Expect = 5e-41, Method: Compositional matrix adjust.
Identities = 107/273 (39%), Positives = 156/273 (57%), Gaps = 33/273 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV + R+D +++ + SR +VQ I+ +V++NG+ V K ++ V+ D + TI
Sbjct: 8 TVAEEQKNERIDKFVAGINNEWSRTQVQQWIKDNVVTVNGKAV-KGNYKVRENDEITVTI 66
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E + L + ED+ L+I YED +VLVVNKP MVVHPAPG+ +GTLVNG++HHC+
Sbjct: 67 PEPEELDIQPEDMNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCT----- 121
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q
Sbjct: 122 -----------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQL 162
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
T+ R Y ++ GV G I+ PI+RD R M +++G +HA + ++V+
Sbjct: 163 VAKTVTRRYKAIVHGVIPHDKGTIDAPIARDKKERQSMTV----DENG--KHAVTHFQVL 216
Query: 303 EILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
E LVE RLETGRTHQ+ + K P
Sbjct: 217 ERFK--DFTLVECRLETGRTHQIRVHMKYIGYP 247
>gi|407474149|ref|YP_006788549.1| RluA family pseudouridine synthase [Clostridium acidurici 9a]
gi|407050657|gb|AFS78702.1| pseudouridine synthase, RluA family [Clostridium acidurici 9a]
Length = 302
Score = 174 bits (441), Expect = 5e-41, Method: Compositional matrix adjust.
Identities = 98/254 (38%), Positives = 149/254 (58%), Gaps = 32/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+DA+++ +++ SRA +Q I+ LV +N + V K + V+ GD + ++ + Q L
Sbjct: 15 RIDAYLTQQLNETSRAHIQRLIKDELVKVNNKNV-KPRYIVRTGDHIVVSLPQEQELEII 73
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
+E+IP+D+VY D++V V+NKP MVVHPAPGN +GTLVN +L+H TL++ N +
Sbjct: 74 SENIPIDMVYNDEDVAVINKPQGMVVHPAPGNYSGTLVNALLYHFR--TLSNINNK---- 127
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+RPGIVHR+DK TSGLL++AK+ +H L++Q K H+ R Y
Sbjct: 128 ------------------MRPGIVHRIDKDTSGLLMIAKNNFAHEDLAQQLKEHSTTRKY 169
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+L G + SG I PI R P +R +M ++K A + +KV+E
Sbjct: 170 YALVEGNIKEDSGTINAPIGRHPIDRKKMTVTDKNSK-----EAITHFKVLERFE--KYT 222
Query: 312 LVEWRLETGRTHQV 325
L+E +LETGRTHQ+
Sbjct: 223 LIEAQLETGRTHQI 236
>gi|346992351|ref|ZP_08860423.1| ribosomal large subunit pseudouridine synthase D [Ruegeria sp.
TW15]
Length = 344
Score = 174 bits (441), Expect = 6e-41, Method: Compositional matrix adjust.
Identities = 108/284 (38%), Positives = 158/284 (55%), Gaps = 38/284 (13%)
Query: 57 GVQLEETVDTKAGKLRLDAWISSRI---DGISRARVQSSIRSGLVSINGQVVSKVSHNVK 113
G +L E A RLD ++ + + +SR R+ I G V+++G V+ +
Sbjct: 2 GTRLIEFQIAAAPPPRLDKALARDVPAEENLSRTRLTRLISEGAVTVDGAVIKDPKAKIS 61
Query: 114 GGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGIL 173
+ T++E + EDIPL++VYEDD+++V+NKPA MVVHPAPG+ GTLVN +L
Sbjct: 62 EDAQIGITVAEAEDSHIGPEDIPLEVVYEDDDLIVINKPAGMVVHPAPGSPNGTLVNALL 121
Query: 174 HHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEH 233
HHC ED+S G RPGIVHR+DK TSGLLVVAK +
Sbjct: 122 HHC---------------GEDLSG--------VGGVKRPGIVHRIDKETSGLLVVAKSDA 158
Query: 234 SHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIE--VPISRDPNNRIRMA---AIPGSNK 288
+H L+ QF+ H++ER Y ++ GVP + R+ +S +P N +R+ A +++
Sbjct: 159 AHHGLAAQFEAHSVERYYRAICYGVPDANDPRLRGIKGVSFEPGNIMRLTTQLARHKTDR 218
Query: 289 HGQA------RHAASRYKVIEILAGGGS-ALVEWRLETGRTHQV 325
QA RHA +R +++E+ GS +LVE LETGRTHQ+
Sbjct: 219 QKQAVLFHGGRHAVTRARIVEVFGSPGSLSLVECWLETGRTHQI 262
>gi|424714718|ref|YP_007015433.1| Uncharacterized RNA pseudouridine synthase YlyB [Listeria
monocytogenes serotype 4b str. LL195]
gi|424013902|emb|CCO64442.1| Uncharacterized RNA pseudouridine synthase YlyB [Listeria
monocytogenes serotype 4b str. LL195]
Length = 304
Score = 174 bits (441), Expect = 6e-41, Method: Compositional matrix adjust.
Identities = 103/254 (40%), Positives = 153/254 (60%), Gaps = 34/254 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D I+ + G SR+ +Q +++G +++NG++ +K ++ V+ GD ++ + E + L
Sbjct: 17 RVDKVIAEMM-GKSRSAIQLMLKNGDITVNGEL-AKPNYKVQVGDEIHYEVREPEELEVL 74
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AEDIPLDI +ED ++LVVNKP MVVHP+ G+A+GTLVN +L HC
Sbjct: 75 AEDIPLDIYFEDKDMLVVNKPEGMVVHPSAGHASGTLVNALLFHC--------------- 119
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
DD S I+G IRPGIVHR+DK TSGLL+VAK++H+H L++Q K T +R Y
Sbjct: 120 -----DD---LSGING-KIRPGIVHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSDREY 170
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
I+L G G IE PI R +R +MA + + A + ++V+E L G
Sbjct: 171 IALVHGDIVHQKGTIEAPIGRAKEDRQKMAVV------RDGKEARTHFEVLERLP--GYT 222
Query: 312 LVEWRLETGRTHQV 325
L+ +L+TGRTHQ+
Sbjct: 223 LINCKLDTGRTHQI 236
>gi|402555984|ref|YP_006597255.1| ribosomal large subunit pseudouridine synthase D [Bacillus cereus
FRI-35]
gi|401797194|gb|AFQ11053.1| ribosomal large subunit pseudouridine synthase D [Bacillus cereus
FRI-35]
Length = 302
Score = 174 bits (441), Expect = 6e-41, Method: Compositional matrix adjust.
Identities = 107/273 (39%), Positives = 156/273 (57%), Gaps = 33/273 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV + R+D +++ + SR +VQ I+ +V++NG+ V K ++ V+ D + TI
Sbjct: 8 TVAEEQKNERIDKFVAGINNEWSRTQVQQWIKDDIVTVNGKAV-KGNYKVRENDEITVTI 66
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E + L + ED+ L+I YED +VLVVNKP MVVHPAPG+ +GTLVNG++HHC+
Sbjct: 67 PEPEELDIQPEDMNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCT----- 121
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q
Sbjct: 122 -----------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQL 162
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
T+ R Y ++ GV G I+ PI+RD R M +++G +HA + ++V+
Sbjct: 163 VAKTVTRRYKAIVHGVIPHDKGTIDAPIARDKKERQSMTV----DENG--KHAVTHFQVL 216
Query: 303 EILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
E LVE RLETGRTHQ+ + K P
Sbjct: 217 ERFK--DFTLVECRLETGRTHQIRVHMKYIGYP 247
>gi|282896340|ref|ZP_06304362.1| Pseudouridine synthase, RluD [Raphidiopsis brookii D9]
gi|281198836|gb|EFA73715.1| Pseudouridine synthase, RluD [Raphidiopsis brookii D9]
Length = 323
Score = 174 bits (441), Expect = 6e-41, Method: Compositional matrix adjust.
Identities = 96/255 (37%), Positives = 144/255 (56%), Gaps = 31/255 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++SS I +SR+R+Q I G V +NG+V + + GG+ + + +Q +
Sbjct: 31 RLDRYLSSVIPDLSRSRIQDLIEQGYVQVNGKVCYSKNITLDGGEYLEVEVPPVQAAQLV 90
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC-SLPTLASSNQEAFS 190
A+DIPLDI+YED+ +L++NKPA +VVHPAPG+ GTLV+ +L HC +LP +
Sbjct: 91 AQDIPLDILYEDEQLLILNKPAGLVVHPAPGHLEGTLVHALLAHCPNLPGI--------- 141
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
G RPGIVHRLDK T+G + +AK + ++ L Q + T R
Sbjct: 142 ----------------GGVQRPGIVHRLDKDTTGAIAIAKTDIAYKQLQLQLQSKTARRE 185
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y+ + G P SG +++PI R P R +MA +P R+A + + + E L G
Sbjct: 186 YLGVVYGAPKSESGTMDLPIGRHPQQRKKMAIVPVEQG---GRNAITNWYIKERL--GNY 240
Query: 311 ALVEWRLETGRTHQV 325
L+ ++LETGRTHQ+
Sbjct: 241 TLIHFQLETGRTHQI 255
>gi|423604480|ref|ZP_17580373.1| RluA family pseudouridine synthase [Bacillus cereus VD102]
gi|401245100|gb|EJR51458.1| RluA family pseudouridine synthase [Bacillus cereus VD102]
Length = 302
Score = 174 bits (440), Expect = 6e-41, Method: Compositional matrix adjust.
Identities = 107/273 (39%), Positives = 156/273 (57%), Gaps = 33/273 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV + R+D +++ + SR +VQ I+ +V++NG+ V K ++ V+ D + TI
Sbjct: 8 TVAEEQKNERIDKFVAGINNEWSRTQVQQWIKDDVVTVNGKAV-KGNYKVRENDEITVTI 66
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E + L + ED+ L+I YED +VLVVNKP MVVHPAPG+ +GTLVNG++HHC+
Sbjct: 67 PEPEELDIQPEDMNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCT----- 121
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q
Sbjct: 122 -----------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQL 162
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
T+ R Y ++ GV G I+ PI+RD R M +++G +HA + ++V+
Sbjct: 163 VAKTVTRRYKAIVHGVIPHDKGTIDAPIARDKKERQSMTV----DENG--KHAVTHFQVL 216
Query: 303 EILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
E LVE RLETGRTHQ+ + K P
Sbjct: 217 ERFK--DFTLVECRLETGRTHQIRVHMKYIGYP 247
>gi|337287215|ref|YP_004626688.1| RluA family pseudouridine synthase [Thermodesulfatator indicus DSM
15286]
gi|335360043|gb|AEH45724.1| pseudouridine synthase, RluA family [Thermodesulfatator indicus DSM
15286]
Length = 312
Score = 174 bits (440), Expect = 6e-41, Method: Compositional matrix adjust.
Identities = 99/256 (38%), Positives = 152/256 (59%), Gaps = 34/256 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +++ I ++R++ + I +G V I+G+VVSK H +K G+++ + +PL +
Sbjct: 19 RLDVFLAENISELTRSQAKKIIENGHVKIDGKVVSKPRHKIKAGEIIEVFVPAPKPLEIK 78
Query: 132 AED-IPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
E+ +P +I+YED ++ V+NKP +VVHP G+ GTLV+G+L +
Sbjct: 79 PEEEVPFEILYEDKHLAVINKPPGVVVHPGAGHYEGTLVHGLL----------------A 122
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
+D+S G +RPGIVHRLDK TSGLLVVAKD+ +H L++ FK I+++
Sbjct: 123 RLKDLSG--------IGGELRPGIVHRLDKDTSGLLVVAKDDKTHQALTQMFKDREIKKI 174
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQ-ARHAASRYKVIEILAGGG 309
Y++L GVP S+G+IE PI R P NR +M+ H + R A + Y+V E
Sbjct: 175 YLALVHGVPRLSAGKIEKPIGRHPVNRQKMSV------HAKTGREALTFYRVRERFP--K 226
Query: 310 SALVEWRLETGRTHQV 325
+AL+E +TGRTHQ+
Sbjct: 227 AALLEVEPKTGRTHQI 242
>gi|315646052|ref|ZP_07899173.1| pseudouridine synthase, RluA family protein [Paenibacillus vortex
V453]
gi|315278813|gb|EFU42127.1| pseudouridine synthase, RluA family protein [Paenibacillus vortex
V453]
Length = 323
Score = 174 bits (440), Expect = 6e-41, Method: Compositional matrix adjust.
Identities = 107/281 (38%), Positives = 165/281 (58%), Gaps = 34/281 (12%)
Query: 57 GVQLEE-TVDTKAGKLRLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKVSHNVKG 114
G +L E TVD + K RLD +I+ + + +SR++VQ I G V +N + V K ++ V
Sbjct: 19 GQELHEWTVDADSSKTRLDKYITESLGEEVSRSQVQLWITDGHVKVNEEPV-KSNYKVSQ 77
Query: 115 GDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILH 174
GD + ++ + + EDIPL+I +ED +V+VVNKP MVVHPAPG+++GTLVN ++
Sbjct: 78 GDHIVLSVPQPSVVEIIPEDIPLEIAFEDRDVIVVNKPRGMVVHPAPGHSSGTLVNALMF 137
Query: 175 HCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHS 234
HC +D+ S I+G +RPGIVHR+DK T+GL++ AK++ +
Sbjct: 138 HC----------------KDL-------SGING-ELRPGIVHRIDKDTTGLIMAAKNDKA 173
Query: 235 HAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARH 294
HA L+ Q K H++ R Y++L G S G I+ PI RD +R ++ + N ++H
Sbjct: 174 HASLAAQLKDHSVNRRYLALVHGNISHDQGTIDAPIGRDAQDR-KLYTVTDRN----SKH 228
Query: 295 AASRYKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
A + + V+E G +L+E +LETGRTHQ+ + K P
Sbjct: 229 AVTHFTVVERF--GDYSLLELKLETGRTHQIRVHMKYIGHP 267
>gi|228909719|ref|ZP_04073542.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis IBL 200]
gi|228850008|gb|EEM94839.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis IBL 200]
Length = 302
Score = 174 bits (440), Expect = 6e-41, Method: Compositional matrix adjust.
Identities = 106/264 (40%), Positives = 154/264 (58%), Gaps = 33/264 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D +++ + SR++VQ I+ +V++NG+ V KV++ VK D + TI E + L +
Sbjct: 17 RIDKFVAGINNEWSRSQVQQWIKDDVVTVNGKTV-KVNYKVKEEDEITVTIPEPEALDIQ 75
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
ED+ L+I YED +VLVVNKP MVVHPAPG+ +GTLVNG++HHC+
Sbjct: 76 PEDMNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCT-------------- 121
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q T+ R Y
Sbjct: 122 --DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRY 171
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++ GV G I+ PI RD R M +++G ++A + ++V+E
Sbjct: 172 KAIVHGVIPHDKGTIDAPIGRDKKERQSMTV----DENG--KNAVTHFQVLERFK--DFT 223
Query: 312 LVEWRLETGRTHQVLMLYKLFYIP 335
LVE RLETGRTHQ+ + K P
Sbjct: 224 LVECRLETGRTHQIRVHMKYIGYP 247
>gi|375088639|ref|ZP_09734977.1| RluA family pseudouridine synthase [Dolosigranulum pigrum ATCC
51524]
gi|374561604|gb|EHR32943.1| RluA family pseudouridine synthase [Dolosigranulum pigrum ATCC
51524]
Length = 303
Score = 174 bits (440), Expect = 6e-41, Method: Compositional matrix adjust.
Identities = 107/277 (38%), Positives = 154/277 (55%), Gaps = 34/277 (12%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q+E T+D + G RLD +S+ I +SR ++Q I G V +NG+ + V GD V
Sbjct: 5 QIELTIDQERG--RLDKVLSNLIAEVSRNQIQQLIAEGAVLVNGEKQLN-KYKVASGDQV 61
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
TI E + + A+ ++IPL+IVYED+++ VVNKP MVVHPA G+ GTLVN +L+H
Sbjct: 62 KITIPEPEEIEAKPQNIPLEIVYEDEDIAVVNKPQGMVVHPALGHPDGTLVNALLYHL-- 119
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+ S I+G IRPGIVHR+DK TSGLL+VAK++ +H HL
Sbjct: 120 ---------------------DNLSGING-KIRPGIVHRIDKDTSGLLMVAKNDQAHHHL 157
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
S Q K T +R YI+L G I+ PI RDP++R + A + + A +
Sbjct: 158 SAQLKEKTSKREYIALVHGRIPHEKATIDAPIGRDPHDRKKYAVV------DDGKEAITH 211
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ V++ + L+ +LETGRTHQ+ + K P
Sbjct: 212 FNVLQRFKEDYT-LIACQLETGRTHQIRVHLKYINFP 247
>gi|16803883|ref|NP_465368.1| hypothetical protein lmo1843 [Listeria monocytogenes EGD-e]
gi|47097693|ref|ZP_00235203.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes str. 1/2a F6854]
gi|254829161|ref|ZP_05233848.1| ribosomal large subunit pseudouridine synthase [Listeria
monocytogenes FSL N3-165]
gi|254912401|ref|ZP_05262413.1| conserved hypothetical protein [Listeria monocytogenes J2818]
gi|254936728|ref|ZP_05268425.1| ribosomal large subunit pseudouridine synthase [Listeria
monocytogenes F6900]
gi|255027649|ref|ZP_05299635.1| hypothetical protein LmonocytFSL_17157 [Listeria monocytogenes FSL
J2-003]
gi|284802289|ref|YP_003414154.1| hypothetical protein LM5578_2045 [Listeria monocytogenes 08-5578]
gi|284995431|ref|YP_003417199.1| hypothetical protein LM5923_1996 [Listeria monocytogenes 08-5923]
gi|386044151|ref|YP_005962956.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes 10403S]
gi|386047496|ref|YP_005965828.1| ribosomal large subunit pseudouridine synthase [Listeria
monocytogenes J0161]
gi|386050820|ref|YP_005968811.1| ribosomal large subunit pseudouridine synthase [Listeria
monocytogenes FSL R2-561]
gi|386054098|ref|YP_005971656.1| ribosomal large subunit pseudouridine synthase [Listeria
monocytogenes Finland 1998]
gi|404284339|ref|YP_006685236.1| RluD subfamily ribosomal large subunit pseudouridine synthase
[Listeria monocytogenes SLCC2372]
gi|404411144|ref|YP_006696732.1| RluD subfamily ribosomal large subunit pseudouridine synthase
[Listeria monocytogenes SLCC5850]
gi|404413922|ref|YP_006699509.1| RluD subfamily ribosomal large subunit pseudouridine synthase
[Listeria monocytogenes SLCC7179]
gi|405758894|ref|YP_006688170.1| RluD subfamily ribosomal large subunit pseudouridine synthase
[Listeria monocytogenes SLCC2479]
gi|16411297|emb|CAC99921.1| lmo1843 [Listeria monocytogenes EGD-e]
gi|47013931|gb|EAL04954.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes str. 1/2a F6854]
gi|258601571|gb|EEW14896.1| ribosomal large subunit pseudouridine synthase [Listeria
monocytogenes FSL N3-165]
gi|258609325|gb|EEW21933.1| ribosomal large subunit pseudouridine synthase [Listeria
monocytogenes F6900]
gi|284057851|gb|ADB68792.1| hypothetical protein LM5578_2045 [Listeria monocytogenes 08-5578]
gi|284060898|gb|ADB71837.1| hypothetical protein LM5923_1996 [Listeria monocytogenes 08-5923]
gi|293590383|gb|EFF98717.1| conserved hypothetical protein [Listeria monocytogenes J2818]
gi|345534487|gb|AEO03928.1| ribosomal large subunit pseudouridine synthase [Listeria
monocytogenes J0161]
gi|345537385|gb|AEO06825.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes 10403S]
gi|346424666|gb|AEO26191.1| ribosomal large subunit pseudouridine synthase [Listeria
monocytogenes FSL R2-561]
gi|346646749|gb|AEO39374.1| ribosomal large subunit pseudouridine synthase [Listeria
monocytogenes Finland 1998]
gi|404230970|emb|CBY52374.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes SLCC5850]
gi|404233841|emb|CBY55244.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes SLCC2372]
gi|404236776|emb|CBY58178.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes SLCC2479]
gi|404239621|emb|CBY61022.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes SLCC7179]
Length = 303
Score = 174 bits (440), Expect = 6e-41, Method: Compositional matrix adjust.
Identities = 103/254 (40%), Positives = 153/254 (60%), Gaps = 34/254 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D I+ + G SR+ +Q +++G +++NG++ +K ++ V+ GD ++ + E + L
Sbjct: 16 RVDKVIAEMM-GKSRSAIQLMLKNGDITVNGEL-AKPNYKVQVGDEIHYEVREPEELEVL 73
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AEDIPLDI +ED ++LVVNKP MVVHP+ G+A+GTLVN +L HC
Sbjct: 74 AEDIPLDIYFEDKDMLVVNKPEGMVVHPSAGHASGTLVNALLFHC--------------- 118
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
DD S I+G IRPGIVHR+DK TSGLL+VAK++H+H L++Q K T +R Y
Sbjct: 119 -----DD---LSGING-KIRPGIVHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSDREY 169
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
I+L G G IE PI R +R +MA + + A + ++V+E L G
Sbjct: 170 IALVHGDIVHQKGTIEAPIGRAKEDRQKMAVV------RDGKEARTHFEVLERLP--GYT 221
Query: 312 LVEWRLETGRTHQV 325
L+ +L+TGRTHQ+
Sbjct: 222 LINCKLDTGRTHQI 235
>gi|403514918|ref|YP_006655738.1| pseudouridine synthase [Lactobacillus helveticus R0052]
gi|403080356|gb|AFR21934.1| Pseudouridine synthase [Lactobacillus helveticus R0052]
Length = 303
Score = 174 bits (440), Expect = 6e-41, Method: Compositional matrix adjust.
Identities = 97/254 (38%), Positives = 148/254 (58%), Gaps = 33/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++S +I +SR RV+ ++ + +N +V KVS+ ++ GD + + ++PL
Sbjct: 15 RLDKFVSEQIPDLSRTRVKELVKEKEILVNHKV-EKVSYKIQAGDKIEINVPAVKPLDVV 73
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E+IPLDIVYED++V+VVNKP MVVHPAPG+ TLVN +L+H LA S++
Sbjct: 74 PENIPLDIVYEDEDVIVVNKPQGMVVHPAPGHPDHTLVNTLLYHTQ--DLAQSSE----- 126
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
RPGIVHR+DK TSGLL++AK+ + L +Q T +R+Y
Sbjct: 127 -----------------GFRPGIVHRIDKDTSGLLMIAKNAKARESLEDQLAHKTNKRIY 169
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++ G + +G I+ PI R+P +R +MA + K A + +KV++ G +
Sbjct: 170 WAIVHGNFGEENGVIDAPIGRNPYDRKKMAVVENGKK------AVTHFKVLKQFK--GYS 221
Query: 312 LVEWRLETGRTHQV 325
L+E +LETGRTHQ+
Sbjct: 222 LIECQLETGRTHQI 235
>gi|395240816|ref|ZP_10417840.1| Pseudouridine synthase [Lactobacillus gigeriorum CRBIP 24.85]
gi|394475598|emb|CCI87817.1| Pseudouridine synthase [Lactobacillus gigeriorum CRBIP 24.85]
Length = 311
Score = 174 bits (440), Expect = 6e-41, Method: Compositional matrix adjust.
Identities = 103/263 (39%), Positives = 154/263 (58%), Gaps = 35/263 (13%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TVD KAG +RLD +I+ +I+ +SR RV I+ G +++N + K S+ V D V +
Sbjct: 17 TVD-KAG-IRLDKYIADQIEDLSRTRVGELIKDGEITVNNKK-EKASYKVILNDEVKVHV 73
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
L+PL E E+IPLDI+YEDD+V+VVNKP MVVHP+ G+ TLVN +L+H
Sbjct: 74 PALKPLSLEPENIPLDIIYEDDDVIVVNKPQGMVVHPSAGHPDHTLVNALLYHT------ 127
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
++ +SS G RPGIVHR+DK TSGLL++AK + L Q
Sbjct: 128 ----------------KDLASSPEG--FRPGIVHRIDKDTSGLLMIAKTPTARESLEYQL 169
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
+R+Y+++ G + +G+I+ PI R+P +R +MA + +HA + +KV+
Sbjct: 170 ANKINKRLYLAIVHGNFGEEAGKIDAPIGRNPLDRKKMAVVE------NGKHAVTHFKVL 223
Query: 303 EILAGGGSALVEWRLETGRTHQV 325
E G +L++ +LETGRTHQ+
Sbjct: 224 EQYQ--GFSLIQCQLETGRTHQI 244
>gi|336113719|ref|YP_004568486.1| RluA family pseudouridine synthase [Bacillus coagulans 2-6]
gi|335367149|gb|AEH53100.1| pseudouridine synthase, RluA family [Bacillus coagulans 2-6]
Length = 303
Score = 174 bits (440), Expect = 6e-41, Method: Compositional matrix adjust.
Identities = 103/267 (38%), Positives = 152/267 (56%), Gaps = 33/267 (12%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
+++ T+ RLD +SS + SR++VQ I+ G +++NG+ K ++ + GD+V
Sbjct: 3 KMDHTILEHEANERLDKIVSSIREEWSRSQVQQWIKEGDITVNGKK-EKANYRCQAGDLV 61
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
+ E + E ED+ LDI YED +VLVVNKP MVVHP+ G+ TGTLVNG+++HC
Sbjct: 62 EIEVPEPELPDIEPEDLHLDIYYEDADVLVVNKPKGMVVHPSNGHFTGTLVNGLMYHC-- 119
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+D+ S I+G +RPGIVHR+DK TSGLL+VAK++++H L
Sbjct: 120 --------------KDL-------SGINGV-LRPGIVHRIDKDTSGLLMVAKNDYAHEKL 157
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
+ Q T+ R Y +L G +G I+ PI RDP +R RMA + + A +
Sbjct: 158 AAQLSEKTVTRKYFALVHGNIPHEAGTIDAPIGRDPADRQRMAVV------DNGKDAVTH 211
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQV 325
+ V+E +E RLETGRTHQ+
Sbjct: 212 FHVLERF--DRYTFIECRLETGRTHQI 236
>gi|329769635|ref|ZP_08261039.1| hypothetical protein HMPREF0433_00803 [Gemella sanguinis M325]
gi|328838390|gb|EGF87999.1| hypothetical protein HMPREF0433_00803 [Gemella sanguinis M325]
Length = 299
Score = 174 bits (440), Expect = 6e-41, Method: Compositional matrix adjust.
Identities = 95/254 (37%), Positives = 144/254 (56%), Gaps = 34/254 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D ++ + + +SR +Q+ I G + ++G V K ++ +K +++ E + L
Sbjct: 15 RIDKFLQNELSDLSRTNIQNLISEGYIKVDGNTV-KTNYKLKESNVITIDYKEPEELDVV 73
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
+DIP+DIVYED+++L+VNKP MVVHP+ G+ GTLVN +L+HC L
Sbjct: 74 KQDIPVDIVYEDNDLLIVNKPKGMVVHPSAGHKDGTLVNALLYHCEL------------- 120
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
SSI+G +IRPGIVHR+DK TSGLL+VAK++ +H LSE ++R Y
Sbjct: 121 -----------SSING-TIRPGIVHRIDKDTSGLLIVAKNDKAHVKLSEMIANKEVKRKY 168
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+L G G I+ PI+R+P R MA I + + + + +KVI+
Sbjct: 169 YALVHGSIKHDYGTIDAPIARNPKERKEMAVI------DEGKPSITHFKVIDRFE--KYT 220
Query: 312 LVEWRLETGRTHQV 325
L+E LETGRTHQ+
Sbjct: 221 LIECELETGRTHQI 234
>gi|418939767|ref|ZP_13493154.1| pseudouridine synthase, RluA family [Rhizobium sp. PDO1-076]
gi|375053486|gb|EHS49878.1| pseudouridine synthase, RluA family [Rhizobium sp. PDO1-076]
Length = 341
Score = 174 bits (440), Expect = 7e-41, Method: Compositional matrix adjust.
Identities = 105/282 (37%), Positives = 156/282 (55%), Gaps = 36/282 (12%)
Query: 54 NYAGVQLEETVDTKAGKLRLDAWISSRIDG-ISRARVQSSIRSGLVSINGQVVSKVSHNV 112
N A ++E + + + RLDAW++++++G SR RV++ I G + INGQ V++ +
Sbjct: 6 NEAAAPMKELIAGEDAEGRLDAWLTAQLEGEFSRNRVKALIEQGAIKINGQAVTEPKRKI 65
Query: 113 KGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGI 172
K GD + + E + + E+IPLD++YED +++V+ KP +VVHP GN TGTLVN +
Sbjct: 66 KPGDTLTIELPEPEDPEPKGENIPLDVLYEDADLIVIAKPPGLVVHPGAGNWTGTLVNAL 125
Query: 173 LHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDE 232
++HC + S I G RPGIVHRLDK TSG++VVAK++
Sbjct: 126 IYHCG----------------------DSLSGIGGVK-RPGIVHRLDKDTSGVMVVAKND 162
Query: 233 HSHAHLSEQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNK 288
+H HL++QF H +ER Y ++ G P +G I+ P+ R + R ++
Sbjct: 163 LAHRHLADQFADHGRTGPLERAYRAIVWGRPRTLTGTIDAPLGRAGDRTKRTVKKEDTD- 221
Query: 289 HGQARHAASRYKVIEILAGGGSA-----LVEWRLETGRTHQV 325
AR A + Y VIE A LVE RLETGRTHQ+
Sbjct: 222 --DAREAITHYTVIERYGEKPDATCLASLVECRLETGRTHQI 261
>gi|46908075|ref|YP_014464.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes serotype 4b str. F2365]
gi|47094208|ref|ZP_00231922.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes str. 4b H7858]
gi|226224446|ref|YP_002758553.1| hypothetical protein Lm4b_01859 [Listeria monocytogenes serotype 4b
str. CLIP 80459]
gi|254826115|ref|ZP_05231116.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes FSL J1-194]
gi|254852749|ref|ZP_05242097.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes FSL R2-503]
gi|254931987|ref|ZP_05265346.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes HPB2262]
gi|300763844|ref|ZP_07073841.1| RluA family ribosomal large subunit pseudouridine synthase
[Listeria monocytogenes FSL N1-017]
gi|386732583|ref|YP_006206079.1| hypothetical protein MUO_09460 [Listeria monocytogenes 07PF0776]
gi|404281456|ref|YP_006682354.1| RluD subfamily ribosomal large subunit pseudouridine synthase
[Listeria monocytogenes SLCC2755]
gi|404287272|ref|YP_006693858.1| RluD subfamily ribosomal large subunit pseudouridine synthase
[Listeria monocytogenes serotype 7 str. SLCC2482]
gi|405750196|ref|YP_006673662.1| RluD subfamily ribosomal large subunit pseudouridine synthase
[Listeria monocytogenes ATCC 19117]
gi|405753070|ref|YP_006676535.1| RluD subfamily ribosomal large subunit pseudouridine synthase
[Listeria monocytogenes SLCC2378]
gi|405756004|ref|YP_006679468.1| RluD subfamily ribosomal large subunit pseudouridine synthase
[Listeria monocytogenes SLCC2540]
gi|406704627|ref|YP_006754981.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes L312]
gi|417315489|ref|ZP_12102165.1| hypothetical protein LM1816_11407 [Listeria monocytogenes J1816]
gi|417317939|ref|ZP_12104540.1| hypothetical protein LM220_09240 [Listeria monocytogenes J1-220]
gi|424823604|ref|ZP_18248617.1| Pseudouridylate synthase [Listeria monocytogenes str. Scott A]
gi|46881345|gb|AAT04641.1| ribosomal large subunit pseudouridine synthase, RluA family
[Listeria monocytogenes serotype 4b str. F2365]
gi|47017415|gb|EAL08234.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes str. 4b H7858]
gi|225876908|emb|CAS05617.1| unnamed protein product [Listeria monocytogenes serotype 4b str.
CLIP 80459]
gi|258606073|gb|EEW18681.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes FSL R2-503]
gi|293583538|gb|EFF95570.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes HPB2262]
gi|293595355|gb|EFG03116.1| ribosomal large subunit pseudouridine synthase D [Listeria
monocytogenes FSL J1-194]
gi|300515580|gb|EFK42630.1| RluA family ribosomal large subunit pseudouridine synthase
[Listeria monocytogenes FSL N1-017]
gi|328466193|gb|EGF37350.1| hypothetical protein LM1816_11407 [Listeria monocytogenes J1816]
gi|328473565|gb|EGF44402.1| hypothetical protein LM220_09240 [Listeria monocytogenes J1-220]
gi|332312284|gb|EGJ25379.1| Pseudouridylate synthase [Listeria monocytogenes str. Scott A]
gi|384391341|gb|AFH80411.1| hypothetical protein MUO_09460 [Listeria monocytogenes 07PF0776]
gi|404219396|emb|CBY70760.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes ATCC 19117]
gi|404222270|emb|CBY73633.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes SLCC2378]
gi|404225204|emb|CBY76566.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes SLCC2540]
gi|404228091|emb|CBY49496.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes SLCC2755]
gi|404246201|emb|CBY04426.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes serotype 7 str. SLCC2482]
gi|406361657|emb|CBY67930.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Listeria monocytogenes L312]
Length = 303
Score = 174 bits (440), Expect = 7e-41, Method: Compositional matrix adjust.
Identities = 103/254 (40%), Positives = 153/254 (60%), Gaps = 34/254 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D I+ + G SR+ +Q +++G +++NG++ +K ++ V+ GD ++ + E + L
Sbjct: 16 RVDKVIAEMM-GKSRSAIQLMLKNGDITVNGEL-AKPNYKVQVGDEIHYEVREPEELEVL 73
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AEDIPLDI +ED ++LVVNKP MVVHP+ G+A+GTLVN +L HC
Sbjct: 74 AEDIPLDIYFEDKDMLVVNKPEGMVVHPSAGHASGTLVNALLFHC--------------- 118
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
DD S I+G IRPGIVHR+DK TSGLL+VAK++H+H L++Q K T +R Y
Sbjct: 119 -----DD---LSGING-KIRPGIVHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSDREY 169
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
I+L G G IE PI R +R +MA + + A + ++V+E L G
Sbjct: 170 IALVHGDIVHQKGTIEAPIGRAKEDRQKMAVV------RDGKEARTHFEVLERLP--GYT 221
Query: 312 LVEWRLETGRTHQV 325
L+ +L+TGRTHQ+
Sbjct: 222 LINCKLDTGRTHQI 235
>gi|344996038|ref|YP_004798381.1| RluA family pseudouridine synthase [Caldicellulosiruptor
lactoaceticus 6A]
gi|343964257|gb|AEM73404.1| pseudouridine synthase, RluA family [Caldicellulosiruptor
lactoaceticus 6A]
Length = 300
Score = 174 bits (440), Expect = 7e-41, Method: Compositional matrix adjust.
Identities = 103/257 (40%), Positives = 145/257 (56%), Gaps = 38/257 (14%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++S + +R+ VQ I G V +N V K ++ VK GD++ I E + L
Sbjct: 9 RLDKYLSEALSK-TRSFVQKIIEEGNVWVNQTQVLKPAYKVKSGDIIKVVIPEPKQLSLV 67
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
A+DI +++VYED+++ V+NKP MVVHP GN TLVN +LH
Sbjct: 68 AQDIDIEVVYEDEHLAVINKPCGMVVHPGTGNFENTLVNALLH----------------- 110
Query: 192 AEDISDDEEFS---SSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIE 248
+FS SSI+G IRPGIVHRLDK TSGLL+VAK + +H LSE K H I+
Sbjct: 111 --------KFSGRLSSINGV-IRPGIVHRLDKDTSGLLIVAKTDEAHIKLSEALKSHQIK 161
Query: 249 RVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGG 308
R+Y ++ GV + SG I PI R P NR++MA +P + A + ++V+E
Sbjct: 162 RIYYAICEGVLKEDSGVINAPIGRHPVNRLKMAVVP------NGKEAVTYFEVLERF--D 213
Query: 309 GSALVEWRLETGRTHQV 325
++ RL+TGRTHQ+
Sbjct: 214 KYTFIKLRLKTGRTHQI 230
>gi|229198004|ref|ZP_04324718.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
m1293]
gi|423574501|ref|ZP_17550620.1| RluA family pseudouridine synthase [Bacillus cereus MSX-D12]
gi|228585483|gb|EEK43587.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
m1293]
gi|401212026|gb|EJR18772.1| RluA family pseudouridine synthase [Bacillus cereus MSX-D12]
Length = 302
Score = 174 bits (440), Expect = 7e-41, Method: Compositional matrix adjust.
Identities = 107/273 (39%), Positives = 156/273 (57%), Gaps = 33/273 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV + R+D +++ + SR +VQ I+ +V++NG+ V K ++ V+ D + TI
Sbjct: 8 TVAEEQKNERIDKFVAGINNEWSRTQVQQWIKDDVVTVNGKAV-KGNYKVRENDEITVTI 66
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E + L + ED+ L+I YED +VLVVNKP MVVHPAPG+ +GTLVNG++HHC+
Sbjct: 67 PEPEELDIQPEDMNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCT----- 121
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q
Sbjct: 122 -----------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQL 162
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
T+ R Y ++ GV G I+ PI+RD R M +++G +HA + ++V+
Sbjct: 163 VAKTVTRRYKAIVHGVIPHDKGTIDAPIARDKKERQSMTV----DENG--KHAVTHFQVL 216
Query: 303 EILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
E LVE RLETGRTHQ+ + K P
Sbjct: 217 ERFK--DFTLVECRLETGRTHQIRVHMKYIGYP 247
>gi|385813705|ref|YP_005850098.1| Pseudouridine synthase [Lactobacillus helveticus H10]
gi|323466424|gb|ADX70111.1| Pseudouridine synthase [Lactobacillus helveticus H10]
Length = 310
Score = 174 bits (440), Expect = 7e-41, Method: Compositional matrix adjust.
Identities = 96/254 (37%), Positives = 147/254 (57%), Gaps = 33/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++S +I +SR RV+ ++ + +N +V KVS+ ++ GD + + ++PL
Sbjct: 22 RLDKFVSEQIPDLSRTRVKELVKEKEILVNHKV-EKVSYKIQAGDKIEINVPAVKPLDVV 80
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E+IPLDIVYED++V+VVNKP MVVHPAPG+ TLVN +L+H
Sbjct: 81 PENIPLDIVYEDEDVIVVNKPQGMVVHPAPGHPDHTLVNALLYHT--------------- 125
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
++ + S G RPGIVHR+DK TSGLL++AK+ + L +Q T +R+Y
Sbjct: 126 -------QDLAQSPEG--FRPGIVHRIDKDTSGLLMIAKNAKARESLEDQLAHKTNKRIY 176
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++ G + +G I+ PI R+P +R +MA + K A + +KV+ G +
Sbjct: 177 WAIVHGNFGEENGVIDAPIGRNPYDRKKMAVVENGKK------AVTHFKVLRQFK--GYS 228
Query: 312 LVEWRLETGRTHQV 325
L+E +LETGRTHQ+
Sbjct: 229 LIECQLETGRTHQI 242
>gi|42782985|ref|NP_980232.1| ribosomal large subunit pseudouridine synthase D [Bacillus cereus
ATCC 10987]
gi|49186742|ref|YP_029994.1| RNA pseudouridylate synthase [Bacillus anthracis str. Sterne]
gi|118479113|ref|YP_896264.1| ribosomal large subunit pseudouridine synthase D [Bacillus
thuringiensis str. Al Hakam]
gi|165872288|ref|ZP_02216925.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus anthracis str. A0488]
gi|167636442|ref|ZP_02394741.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus anthracis str. A0442]
gi|167641146|ref|ZP_02399401.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus anthracis str. A0193]
gi|170688858|ref|ZP_02880061.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus anthracis str. A0465]
gi|170708814|ref|ZP_02899250.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus anthracis str. A0389]
gi|177654900|ref|ZP_02936617.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus anthracis str. A0174]
gi|190565878|ref|ZP_03018797.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus anthracis str. Tsiankovskii-I]
gi|196035788|ref|ZP_03103190.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus cereus W]
gi|196045901|ref|ZP_03113130.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus cereus 03BB108]
gi|218905022|ref|YP_002452856.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus cereus AH820]
gi|225865874|ref|YP_002751252.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus cereus 03BB102]
gi|228916530|ref|ZP_04080096.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis serovar pulsiensis BGSC 4CC1]
gi|228928941|ref|ZP_04091973.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis serovar pondicheriensis BGSC 4BA1]
gi|228935208|ref|ZP_04098034.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis serovar andalousiensis BGSC 4AW1]
gi|228947612|ref|ZP_04109902.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis serovar monterrey BGSC 4AJ1]
gi|229092938|ref|ZP_04224071.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
Rock3-42]
gi|229123406|ref|ZP_04252610.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
95/8201]
gi|229186133|ref|ZP_04313302.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
BGSC 6E1]
gi|254683398|ref|ZP_05147258.1| ribosomal large subunit pseudouridine synthase, RluA family protein
[Bacillus anthracis str. CNEVA-9066]
gi|254735932|ref|ZP_05193638.1| ribosomal large subunit pseudouridine synthase, RluA family protein
[Bacillus anthracis str. Western North America USA6153]
gi|254739820|ref|ZP_05197513.1| ribosomal large subunit pseudouridine synthase, RluA family protein
[Bacillus anthracis str. Kruger B]
gi|254751010|ref|ZP_05203049.1| ribosomal large subunit pseudouridine synthase, RluA family protein
[Bacillus anthracis str. Vollum]
gi|301055383|ref|YP_003793594.1| ribosomal large subunit pseudouridylate synthase D [Bacillus cereus
biovar anthracis str. CI]
gi|376267789|ref|YP_005120501.1| Ribosomal large subunit pseudouridine synthase D [Bacillus cereus
F837/76]
gi|384181707|ref|YP_005567469.1| 23S rRNA pseudouridine synthase D [Bacillus thuringiensis serovar
finitimus YBT-020]
gi|386737715|ref|YP_006210896.1| Ribosomal large subunit pseudouridine synthase D [Bacillus
anthracis str. H9401]
gi|421507433|ref|ZP_15954353.1| ribosomal large subunit pseudouridine synthase D [Bacillus
anthracis str. UR-1]
gi|421639648|ref|ZP_16080239.1| ribosomal large subunit pseudouridine synthase D [Bacillus
anthracis str. BF1]
gi|423550359|ref|ZP_17526686.1| RluA family pseudouridine synthase [Bacillus cereus ISP3191]
gi|42738912|gb|AAS42840.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Bacillus cereus ATCC 10987]
gi|49180669|gb|AAT56045.1| RNA pseudouridylate synthase [Bacillus anthracis str. Sterne]
gi|118418338|gb|ABK86757.1| ribosomal large subunit pseudouridine synthase D [Bacillus
thuringiensis str. Al Hakam]
gi|164711964|gb|EDR17504.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus anthracis str. A0488]
gi|167510926|gb|EDR86317.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus anthracis str. A0193]
gi|167528184|gb|EDR90971.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus anthracis str. A0442]
gi|170126299|gb|EDS95190.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus anthracis str. A0389]
gi|170667213|gb|EDT17973.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus anthracis str. A0465]
gi|172080411|gb|EDT65498.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus anthracis str. A0174]
gi|190562797|gb|EDV16763.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus anthracis str. Tsiankovskii-I]
gi|195991437|gb|EDX55403.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus cereus W]
gi|196023341|gb|EDX62019.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus cereus 03BB108]
gi|218538740|gb|ACK91138.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus cereus AH820]
gi|225786554|gb|ACO26771.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus cereus 03BB102]
gi|228597309|gb|EEK54960.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
BGSC 6E1]
gi|228660182|gb|EEL15818.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
95/8201]
gi|228690442|gb|EEL44226.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
Rock3-42]
gi|228812132|gb|EEM58463.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis serovar monterrey BGSC 4AJ1]
gi|228824373|gb|EEM70179.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis serovar andalousiensis BGSC 4AW1]
gi|228830748|gb|EEM76353.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis serovar pondicheriensis BGSC 4BA1]
gi|228843109|gb|EEM88191.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis serovar pulsiensis BGSC 4CC1]
gi|300377552|gb|ADK06456.1| ribosomal large subunit pseudouridylate synthase D [Bacillus cereus
biovar anthracis str. CI]
gi|324327791|gb|ADY23051.1| 23S rRNA pseudouridine synthase D [Bacillus thuringiensis serovar
finitimus YBT-020]
gi|364513589|gb|AEW56988.1| Ribosomal large subunit pseudouridine synthase D [Bacillus cereus
F837/76]
gi|384387567|gb|AFH85228.1| Ribosomal large subunit pseudouridine synthase D [Bacillus
anthracis str. H9401]
gi|401189975|gb|EJQ97025.1| RluA family pseudouridine synthase [Bacillus cereus ISP3191]
gi|401822567|gb|EJT21717.1| ribosomal large subunit pseudouridine synthase D [Bacillus
anthracis str. UR-1]
gi|403393313|gb|EJY90558.1| ribosomal large subunit pseudouridine synthase D [Bacillus
anthracis str. BF1]
Length = 302
Score = 174 bits (440), Expect = 7e-41, Method: Compositional matrix adjust.
Identities = 107/273 (39%), Positives = 156/273 (57%), Gaps = 33/273 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV + R+D +++ + SR +VQ I+ +V++NG+ V K ++ V+ D + TI
Sbjct: 8 TVAEEQKNERIDKFVAGINNEWSRTQVQQWIKDDVVTVNGKAV-KGNYKVRENDEITVTI 66
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E + L + ED+ L+I YED +VLVVNKP MVVHPAPG+ +GTLVNG++HHC+
Sbjct: 67 PEPEELDIQPEDMNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCT----- 121
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q
Sbjct: 122 -----------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQL 162
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
T+ R Y ++ GV G I+ PI+RD R M +++G +HA + ++V+
Sbjct: 163 VAKTVTRRYKAIVHGVIPHDKGTIDAPIARDKKERQSMTV----DENG--KHAVTHFQVL 216
Query: 303 EILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
E LVE RLETGRTHQ+ + K P
Sbjct: 217 ERFK--DFTLVECRLETGRTHQIRVHMKYIGYP 247
>gi|357008383|ref|ZP_09073382.1| YlyB [Paenibacillus elgii B69]
Length = 317
Score = 174 bits (440), Expect = 7e-41, Method: Compositional matrix adjust.
Identities = 105/278 (37%), Positives = 159/278 (57%), Gaps = 33/278 (11%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDG-ISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDM 117
+ E T + + R+D +I+ ++ +SR +VQ I+ G V + G+ V K ++ + GD
Sbjct: 14 RFEWTAEPEDAGERIDKFITEALEEEVSRTQVQQWIKDGCVKVGGRAV-KPNYKLSEGDA 72
Query: 118 VNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCS 177
+ + E + L E I LD+VYED +V+VVNKP MVVHPAPG+ +GTLVN +L+HC
Sbjct: 73 MTLVMPEPEELVLTPEPIALDVVYEDSDVIVVNKPRGMVVHPAPGHYSGTLVNALLYHC- 131
Query: 178 LPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAH 237
+D+S I+G IRPGIVHR+DK TSGLL+ AK++ +H+
Sbjct: 132 ---------------KDLS-------GINGV-IRPGIVHRIDKDTSGLLMAAKNDLAHSG 168
Query: 238 LSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAAS 297
L+ Q K HT+ R Y +L G +G ++ PI RDP +R ++ + N ++HA +
Sbjct: 169 LAAQLKAHTVNRKYFALVHGNVPHENGTVDAPIGRDPKDR-KLYTVTERN----SKHAVT 223
Query: 298 RYKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ V+E G L+E +LETGRTHQ+ + K P
Sbjct: 224 HFLVLERF--GDYTLLELKLETGRTHQIRVHMKFIGHP 259
>gi|254994200|ref|ZP_05276390.1| hypothetical protein LmonocytoFSL_15395 [Listeria monocytogenes FSL
J2-064]
Length = 296
Score = 174 bits (440), Expect = 7e-41, Method: Compositional matrix adjust.
Identities = 103/254 (40%), Positives = 153/254 (60%), Gaps = 34/254 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D I+ + G SR+ +Q +++G +++NG++ +K ++ V+ GD ++ + E + L
Sbjct: 16 RVDKVIAEMM-GKSRSAIQLMLKNGDITVNGEL-AKPNYKVQVGDEIHYEVREPEELEVL 73
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AEDIPLDI +ED ++LVVNKP MVVHP+ G+A+GTLVN +L HC
Sbjct: 74 AEDIPLDIYFEDKDMLVVNKPEGMVVHPSAGHASGTLVNALLFHC--------------- 118
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
DD S I+G IRPGIVHR+DK TSGLL+VAK++H+H L++Q K T +R Y
Sbjct: 119 -----DD---LSGING-KIRPGIVHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSDREY 169
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
I+L G G IE PI R +R +MA + + A + ++V+E L G
Sbjct: 170 IALVHGDIVHQKGTIEAPIGRAKEDRQKMAVV------RDGKEARTHFEVLERLP--GYT 221
Query: 312 LVEWRLETGRTHQV 325
L+ +L+TGRTHQ+
Sbjct: 222 LINCKLDTGRTHQI 235
>gi|237734795|ref|ZP_04565276.1| ribosomal large subunit pseudouridine synthase D [Mollicutes
bacterium D7]
gi|229382123|gb|EEO32214.1| ribosomal large subunit pseudouridine synthase D [Coprobacillus sp.
D7]
Length = 316
Score = 174 bits (440), Expect = 7e-41, Method: Compositional matrix adjust.
Identities = 103/255 (40%), Positives = 149/255 (58%), Gaps = 32/255 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
LRLD I+ ++ +SR ++Q I GLV +N Q K S+ K D + TI + L
Sbjct: 24 LRLDKVIAMQLQELSRTQIQDMINQGLVLVN-QKKEKASYKTKLNDEIEITILDNVDLDI 82
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
E EDI L IVYED++V+VV+KP M+VHP+ G GTLVN +L HC
Sbjct: 83 EPEDISLKIVYEDEDVIVVDKPTGMIVHPSAGIMHGTLVNALLFHC-------------- 128
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
+D+S I+G + RPGIVHR+DK TSGLL+VAK++++H LS+Q K HT+ R
Sbjct: 129 --KDLS-------GINGVN-RPGIVHRIDKETSGLLMVAKNDNAHRLLSKQLKDHTVVRR 178
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y++L G+ G+++ PI R+P +R MA ++K A + + V++
Sbjct: 179 YVALVHGLIPHEHGKVDAPIGRNPKDRQSMAVTRTNSK-----EAVTNFTVLK--RYNAM 231
Query: 311 ALVEWRLETGRTHQV 325
+L+E RLETGRTHQ+
Sbjct: 232 SLIECRLETGRTHQI 246
>gi|374709384|ref|ZP_09713818.1| pseudouridine synthase [Sporolactobacillus inulinus CASD]
Length = 307
Score = 174 bits (440), Expect = 7e-41, Method: Compositional matrix adjust.
Identities = 102/254 (40%), Positives = 147/254 (57%), Gaps = 32/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D W+S ++ SR R+Q I++G + +NG V K S+ ++ D V + E +PL
Sbjct: 16 RIDRWLSGKLASESRNRIQQLIKNGDIRVNGSQV-KTSYKLRFNDQVLIHLPEPEPLNVS 74
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E IPLDIV+ED +V+VVNKP MVVHPAPG+ +GTLVN +L HC
Sbjct: 75 PEQIPLDIVFEDGSVIVVNKPRGMVVHPAPGHMSGTLVNALLGHC--------------- 119
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
D+ S I+G +RPGIVHR+D+ TSGLL+VAK + +H L++Q K + +R Y
Sbjct: 120 -RDL-------SGINGI-LRPGIVHRIDRETSGLLMVAKTDQAHRSLAKQLKDKSTKRKY 170
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+++ G G I+ PI R +R +MA ++K HA + +KV+E +
Sbjct: 171 LAIVHGNLPHDEGIIDAPIGRSEKDRKKMAVTEKNSK-----HAVTHFKVLERFS--NYT 223
Query: 312 LVEWRLETGRTHQV 325
V RLETGRTHQ+
Sbjct: 224 FVACRLETGRTHQI 237
>gi|254461389|ref|ZP_05074805.1| ribosomal large subunit pseudouridine synthase D [Rhodobacterales
bacterium HTCC2083]
gi|206677978|gb|EDZ42465.1| ribosomal large subunit pseudouridine synthase D [Rhodobacteraceae
bacterium HTCC2083]
Length = 341
Score = 174 bits (440), Expect = 7e-41, Method: Compositional matrix adjust.
Identities = 107/276 (38%), Positives = 145/276 (52%), Gaps = 52/276 (18%)
Query: 72 RLDAWISSRID---GISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPL 128
RLD +S + +SR R+ + +G ++ING V + + G V+ T+ E
Sbjct: 17 RLDKALSRDVPESASLSRTRIAKLLDAGAITINGAVQTDPKAKITAGAQVDITVEEAVDS 76
Query: 129 RAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEA 188
E EDIPLD++YEDD+++VVNKPA MVVHPAPG +GTLVN +LHH
Sbjct: 77 HIEPEDIPLDVMYEDDDLIVVNKPAGMVVHPAPGTPSGTLVNALLHH------------- 123
Query: 189 FSDAEDISDDEEFSSSIS--GASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHT 246
F+ +S G S RPG+VHR+DK T+GLLVVAK + +H L+ QF HT
Sbjct: 124 ------------FAGKLSGVGGSKRPGVVHRIDKETTGLLVVAKSDAAHHGLAAQFAAHT 171
Query: 247 IERVYISLTSGVPSQSSGRIE----------------VPISRDPNNRIRMAAIPGSNKHG 290
ER Y+++T G P S RI ++R ++R R A +
Sbjct: 172 AERAYLAVTQGAPEASDPRIRGVRGVSFETGGVLKVTTQLARHKHDRQRQAVL-----FE 226
Query: 291 QARHAASRYKVIEILAGGGS-ALVEWRLETGRTHQV 325
RHA +R + IE ALVE RLETGRTHQ+
Sbjct: 227 NGRHAVTRARTIERFGNPHCLALVECRLETGRTHQI 262
>gi|89891672|ref|ZP_01203175.1| ribosomal large subunit pseudouridine synthase D [Flavobacteria
bacterium BBFL7]
gi|89516007|gb|EAS18671.1| ribosomal large subunit pseudouridine synthase D [Flavobacteria
bacterium BBFL7]
Length = 349
Score = 174 bits (440), Expect = 7e-41, Method: Compositional matrix adjust.
Identities = 104/261 (39%), Positives = 148/261 (56%), Gaps = 40/261 (15%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISE------ 124
LR+D ++ + I+ +R+++Q SI+ G V +N +VV K ++ VK GD +
Sbjct: 33 LRVDKYLMNFIENATRSKIQQSIKDGAVRVNDEVV-KSNYKVKAGDHIRVLFKHPPHENL 91
Query: 125 LQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASS 184
L P EDIPLDIVYEDD ++VVNKPA MVVHP GN +GTL+N ++HH
Sbjct: 92 LVP-----EDIPLDIVYEDDTLVVVNKPAGMVVHPGHGNYSGTLINALIHH--------- 137
Query: 185 NQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKL 244
F + + +S RPG+VHR+DK TSGLLVVAK EH+ ++LS QF
Sbjct: 138 ----------------FDNLPNNSSNRPGLVHRIDKDTSGLLVVAKTEHAMSYLSAQFAA 181
Query: 245 HTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEI 304
T ER Y+++ G + SG +E I R P NR++ G + + A + + VIE
Sbjct: 182 KTSEREYVAIVWGNFDEQSGTVEGNIGRHPKNRLQNYVWSGEEAF-KGKPAVTHWSVIEG 240
Query: 305 LAGGGSALVEWRLETGRTHQV 325
L G ++ +LETGRTHQ+
Sbjct: 241 L--GYVTMISCKLETGRTHQI 259
>gi|254757932|ref|ZP_05209959.1| ribosomal large subunit pseudouridine synthase, RluA family protein
[Bacillus anthracis str. Australia 94]
Length = 249
Score = 174 bits (440), Expect = 7e-41, Method: Compositional matrix adjust.
Identities = 107/273 (39%), Positives = 156/273 (57%), Gaps = 33/273 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV + R+D +++ + SR +VQ I+ +V++NG+ V K ++ V+ D + TI
Sbjct: 8 TVAEEQKNERIDKFVAGINNEWSRTQVQQWIKDDVVTVNGKAV-KGNYKVRENDEITVTI 66
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E + L + ED+ L+I YED +VLVVNKP MVVHPAPG+ +GTLVNG++HHC+
Sbjct: 67 PEPEELDIQPEDMNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCT----- 121
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q
Sbjct: 122 -----------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQL 162
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
T+ R Y ++ GV G I+ PI+RD R M +++G +HA + ++V+
Sbjct: 163 VAKTVTRRYKAIVHGVIPHDKGTIDAPIARDKKERQSMTV----DENG--KHAVTHFQVL 216
Query: 303 EILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
E LVE RLETGRTHQ+ + K P
Sbjct: 217 ERFK--DFTLVECRLETGRTHQIRVHMKYIGYP 247
>gi|167750498|ref|ZP_02422625.1| hypothetical protein EUBSIR_01474 [Eubacterium siraeum DSM 15702]
gi|167656424|gb|EDS00554.1| pseudouridine synthase, RluA family [Eubacterium siraeum DSM 15702]
Length = 303
Score = 174 bits (440), Expect = 7e-41, Method: Compositional matrix adjust.
Identities = 101/259 (38%), Positives = 148/259 (57%), Gaps = 32/259 (12%)
Query: 67 KAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQ 126
K G R D +++ + GI+R+ + I G +NG++ +K + +K GD V + E Q
Sbjct: 8 KTGGERTDKFLALQDTGITRSAAAALIEQGCCLVNGKIAAK-NQKLKTGDTVTLDVPEAQ 66
Query: 127 PLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQ 186
P E+IPLDIVYED ++LVVNKP MVVHPAPG+ +GTLVN +++HC
Sbjct: 67 PADILPENIPLDIVYEDSDLLVVNKPKGMVVHPAPGHYSGTLVNALMYHCG--------- 117
Query: 187 EAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHT 246
+ S I+G IRPGIVHR+D+ TSGLL+VAK++ +H L+EQ K+H+
Sbjct: 118 -------------DSLSGINGV-IRPGIVHRIDRDTSGLLIVAKNDTAHNILAEQIKVHS 163
Query: 247 IERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILA 306
R Y+++ GV + G ++ PI R +R +M + +R A + Y V +
Sbjct: 164 FTREYMAVVQGV-IKEDGTVDAPIGRHKTDRKKMCVTTEN-----SREAVTHYFVEQTYR 217
Query: 307 GGGSALVEWRLETGRTHQV 325
+ LV RLETGRTHQ+
Sbjct: 218 --NNTLVRLRLETGRTHQI 234
>gi|383648684|ref|ZP_09959090.1| ribosomal large subunit pseudouridine synthase D [Sphingomonas
elodea ATCC 31461]
Length = 318
Score = 174 bits (440), Expect = 7e-41, Method: Compositional matrix adjust.
Identities = 102/267 (38%), Positives = 153/267 (57%), Gaps = 30/267 (11%)
Query: 60 LEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVS-INGQVVSKVSHNVKGGDMV 118
LE + +A RLD ++ + +SR RV++ I SG V+ +G + + GG +
Sbjct: 8 LEARIADEAHGWRLDRALTDALPTLSRERVKALISSGAVTGPDGALARDPARKAIGGAIF 67
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
+ + +P EA+DIPL++V+ED++++V++KPA +VVHPA GN GTLVN +LHHC+
Sbjct: 68 QVVVPDPKPAHNEAQDIPLNVVFEDEHLIVLDKPAGLVVHPAAGNFDGTLVNALLHHCAG 127
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
S I G + RPGIVHR+DK TSGL+V AK + +H L
Sbjct: 128 QL----------------------SGIGGVA-RPGIVHRIDKDTSGLMVAAKTDPAHVGL 164
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
+ QFK H+I+R Y ++TSG + G + P++R P+NR ++A G +HA +
Sbjct: 165 AHQFKAHSIDRRYRAITSGAVRLTQGTVNAPLARSPSNRKKIAVC----AEGHGKHAITH 220
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQV 325
++ I L + VE RLETGRTHQV
Sbjct: 221 WRKIRELR--DATYVECRLETGRTHQV 245
>gi|419718765|ref|ZP_14246071.1| pseudouridine synthase, RluA family [Lachnoanaerobaculum saburreum
F0468]
gi|383305105|gb|EIC96484.1| pseudouridine synthase, RluA family [Lachnoanaerobaculum saburreum
F0468]
Length = 303
Score = 174 bits (440), Expect = 8e-41, Method: Compositional matrix adjust.
Identities = 93/256 (36%), Positives = 153/256 (59%), Gaps = 36/256 (14%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D +++ ++ SR+ +Q I+ G V+IN +++ K ++ +K G+ V I + +PL
Sbjct: 16 RIDLFLAKNLESFSRSYIQDLIKKGKVTINNKII-KANYRLKEGECVVLDIPKPEPLEIV 74
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E+IP+DI+YED++V++VNKP MVVHPA G+ GTLVN +L+HC
Sbjct: 75 PENIPIDILYEDEDVILVNKPKGMVVHPAAGHYKGTLVNALLYHC--------------- 119
Query: 192 AEDISDDEEFSSSISGAS--IRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIER 249
S++SG + +RPGIVHR+D T+G++++ K++ +H H+++Q H+I R
Sbjct: 120 ----------KSNLSGINGVLRPGIVHRIDMDTTGVIIICKNDIAHQHIAKQLANHSITR 169
Query: 250 VYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGG 309
Y+++ +G G ++ PI R N+R +MA +K G + A + YKV+E L G
Sbjct: 170 KYVAIVNGNIKDDEGVVDAPIKRSKNDRKKMAV----DKDG--KRAVTHYKVLERL--NG 221
Query: 310 SALVEWRLETGRTHQV 325
+E LETGRTHQ+
Sbjct: 222 YTYIECVLETGRTHQI 237
>gi|365135096|ref|ZP_09343621.1| RluA family pseudouridine synthase [Subdoligranulum sp.
4_3_54A2FAA]
gi|363613066|gb|EHL64590.1| RluA family pseudouridine synthase [Subdoligranulum sp.
4_3_54A2FAA]
Length = 306
Score = 174 bits (440), Expect = 8e-41, Method: Compositional matrix adjust.
Identities = 107/267 (40%), Positives = 146/267 (54%), Gaps = 33/267 (12%)
Query: 60 LEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
LE T + R+DA +++ ++R+ Q + G V NG+ V+K S + GD +
Sbjct: 4 LEYTAGAEDTGRRIDAALAAAFPELTRSFAQQLLAEGRVLCNGRSVAK-SARLTQGDALC 62
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
++ + QP+ +DIPLDIVYED ++LVVNKP MVVHPA GN GTLVN +L+HC+
Sbjct: 63 VSLPDAQPVEIIPQDIPLDIVYEDSSLLVVNKPKGMVVHPAAGNPDGTLVNALLYHCA-G 121
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
L+ N E +RPGIVHR+DK TSGLLVVAKD +H LS
Sbjct: 122 RLSGINGE----------------------VRPGIVHRIDKDTSGLLVVAKDNETHLSLS 159
Query: 240 EQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHG-QARHAASR 298
+QF +H+I RVY ++ G + G +E I R P +R RMA +P K A H R
Sbjct: 160 QQFAVHSIARVYHTVVYGGFAADDGFVEGNIGRHPVDRKRMAVVPKGGKAAYTAYHVEER 219
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQV 325
+ L+ RL TGRTHQ+
Sbjct: 220 FPAFTHLS--------VRLRTGRTHQI 238
>gi|49478436|ref|YP_037954.1| ribosomal large subunit pseudouridine synthase D [Bacillus
thuringiensis serovar konkukian str. 97-27]
gi|49329992|gb|AAT60638.1| ribosomal large subunit pseudouridine synthase D [Bacillus
thuringiensis serovar konkukian str. 97-27]
Length = 302
Score = 173 bits (439), Expect = 8e-41, Method: Compositional matrix adjust.
Identities = 107/273 (39%), Positives = 156/273 (57%), Gaps = 33/273 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV + R+D +++ + SR +VQ I+ +V++NG+ V K ++ V+ D + TI
Sbjct: 8 TVAEEQKNERIDKFVAGINNEWSRTQVQQWIKDDVVTVNGKAV-KGNYKVREDDEITVTI 66
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E + L + ED+ L+I YED +VLVVNKP MVVHPAPG+ +GTLVNG++HHC+
Sbjct: 67 PEPEELDIQPEDMNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCT----- 121
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q
Sbjct: 122 -----------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQL 162
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
T+ R Y ++ GV G I+ PI+RD R M +++G +HA + ++V+
Sbjct: 163 VAKTVTRRYKAIVHGVIPHDKGTIDAPIARDKKERQSMTV----DENG--KHAVTHFQVL 216
Query: 303 EILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
E LVE RLETGRTHQ+ + K P
Sbjct: 217 ERFK--DFTLVECRLETGRTHQIRVHMKYIGYP 247
>gi|379012020|ref|YP_005269832.1| pseudouridine synthase RluA [Acetobacterium woodii DSM 1030]
gi|375302809|gb|AFA48943.1| pseudouridine synthase RluA [Acetobacterium woodii DSM 1030]
Length = 304
Score = 173 bits (439), Expect = 9e-41, Method: Compositional matrix adjust.
Identities = 104/254 (40%), Positives = 150/254 (59%), Gaps = 32/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD + + SR ++ I +G V +NGQ KVS +KGG+ ++ I + +
Sbjct: 16 RLDHFCCTLPGDYSREYIKKLIGAGDVLVNGQK-KKVSLRLKGGETISLMIPDPIECHMQ 74
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AEDIPLDIV+ED++V+VVNKP MVVHPAPGN +GTLVNG++ H
Sbjct: 75 AEDIPLDIVFEDEDVIVVNKPQGMVVHPAPGNLSGTLVNGLIFHT--------------- 119
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+ S+I+G +RPGI+HR+DK TSGLL+VAK++ +H LSEQ K HTI R Y
Sbjct: 120 --------KNLSNINGV-LRPGIIHRIDKDTSGLLMVAKNDQAHRILSEQLKEHTILRRY 170
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
L G + G +++PI R RI+MA + ++K A + ++V++ A
Sbjct: 171 YGLVKGTVKPNRGTVDMPIGRHEQLRIKMAVVEKNSK-----PAITHFEVVKRYA--QYT 223
Query: 312 LVEWRLETGRTHQV 325
L+ ++LETGRTHQ+
Sbjct: 224 LLRFQLETGRTHQI 237
>gi|395765671|ref|ZP_10446265.1| RluA family pseudouridine synthase [Bartonella sp. DB5-6]
gi|395411225|gb|EJF77759.1| RluA family pseudouridine synthase [Bartonella sp. DB5-6]
Length = 334
Score = 173 bits (439), Expect = 9e-41, Method: Compositional matrix adjust.
Identities = 100/275 (36%), Positives = 156/275 (56%), Gaps = 35/275 (12%)
Query: 61 EETVDTKAGKLRLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
++ D A RLD W++ + + +SR+R+Q+ IR G + ++GQ++ + +K ++
Sbjct: 4 QQITDEDALGQRLDQWLAKQYHNALSRSRLQTLIREGYLKVDGQLIKEPKTKLKPNQIIE 63
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
T+ L+ E I LDI++EDD+V+V+NKPA +VVHP GN +GTLVN +++HC
Sbjct: 64 LTMPTLRDAEPSGEAIALDILFEDDHVIVINKPAGLVVHPGNGNWSGTLVNALIYHCG-- 121
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
E S I G RPGIVHRLDK T+G++VVAK++ +H LS
Sbjct: 122 --------------------ESLSGIGGIK-RPGIVHRLDKNTTGVMVVAKNDLAHKSLS 160
Query: 240 EQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHA 295
QF H ++R Y +L G P+++ I+ + R P+NR + A + NK ARHA
Sbjct: 161 AQFSDHGRTSALDRRYHALIWGSPNRNVWTIDAALGRSPHNRTKQAVV--HNKSPHARHA 218
Query: 296 ASRYKVIEIL-----AGGGSALVEWRLETGRTHQV 325
+ + ++E ++L+E RLETGRTHQ+
Sbjct: 219 ITHFSLLEKYGTFTDTTSFASLLECRLETGRTHQI 253
>gi|389575752|ref|ZP_10165780.1| pseudouridine synthase, RluA family [Eubacterium cellulosolvens 6]
gi|389311237|gb|EIM56170.1| pseudouridine synthase, RluA family [Eubacterium cellulosolvens 6]
Length = 311
Score = 173 bits (439), Expect = 9e-41, Method: Compositional matrix adjust.
Identities = 106/267 (39%), Positives = 156/267 (58%), Gaps = 30/267 (11%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
+L TV+T+ R+DA+++S+ID +SR+ +Q ++ G V +NG+ V K ++ V D +
Sbjct: 3 KLTFTVETEDEDTRVDAYLASQIDRMSRSYIQKILKQGGVLVNGKAV-KPNYKVCEDDRI 61
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
I E + L EAEDIPLDI+YEDD+VL+VNKP MVVHPA G+ TLVN +L HC
Sbjct: 62 EIEIPENEELDIEAEDIPLDILYEDDDVLIVNKPKDMVVHPAAGHYEHTLVNALLFHC-- 119
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+ S I+G +RPGIVHR+DK T+G LV+ K++ +H L
Sbjct: 120 --------------------RDRLSGINGV-MRPGIVHRIDKDTTGALVICKNDAAHQSL 158
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
+ Q +H+I R Y ++ +G + +E I R N+R +MA + + +HA +
Sbjct: 159 AAQLAVHSITRRYRAIVAGNFKDETFTVEGNIGRSANDRKKMAVVSPD----KGKHAVTH 214
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQV 325
KV++ L G A VE LETGRTHQ+
Sbjct: 215 VKVLQNLK--GYAYVECELETGRTHQI 239
>gi|404494630|ref|YP_006718736.1| 23S rRNA pseudouridines 1911, 1915, 1917 synthase [Pelobacter
carbinolicus DSM 2380]
gi|77546623|gb|ABA90185.1| 23S rRNA pseudouridines 1911, 1915, 1917 synthase [Pelobacter
carbinolicus DSM 2380]
Length = 326
Score = 173 bits (439), Expect = 9e-41, Method: Compositional matrix adjust.
Identities = 99/254 (38%), Positives = 144/254 (56%), Gaps = 30/254 (11%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++ ++ +SR++++ I G V ++G +K +KGG+ + + + P A
Sbjct: 17 RLDRFLVEQLPELSRSQLKKLIDDGRVLLDG-AAAKPGSKLKGGETLTVDVPDPSPAEAV 75
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
+EDIPL I+YED +++V++KP MVVHPAPG+ GTLVN +LHHC
Sbjct: 76 SEDIPLVILYEDRHLIVIDKPPGMVVHPAPGHYQGTLVNALLHHC--------------- 120
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+D+S G +RPGIVHRLDK TSG++V K + +H L+ QFK H+I R Y
Sbjct: 121 -QDLSG--------IGGELRPGIVHRLDKDTSGVMVATKTDSAHQSLAAQFKAHSITRRY 171
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
I+L GV + G I+ PI R P +R +M S RHA + ++V+
Sbjct: 172 IALIHGVLTGDRGSIDRPIGRHPTHRKKM-----STTCRTGRHAVTHWRVLRRFDDDRLT 226
Query: 312 LVEWRLETGRTHQV 325
LVE LETGRTHQ+
Sbjct: 227 LVELALETGRTHQI 240
>gi|363899246|ref|ZP_09325756.1| hypothetical protein HMPREF9625_00416 [Oribacterium sp. ACB1]
gi|395209641|ref|ZP_10398735.1| pseudouridine synthase, RluA family [Oribacterium sp. ACB8]
gi|361959083|gb|EHL12379.1| hypothetical protein HMPREF9625_00416 [Oribacterium sp. ACB1]
gi|394705272|gb|EJF12801.1| pseudouridine synthase, RluA family [Oribacterium sp. ACB8]
Length = 306
Score = 173 bits (439), Expect = 9e-41, Method: Compositional matrix adjust.
Identities = 106/255 (41%), Positives = 149/255 (58%), Gaps = 32/255 (12%)
Query: 72 RLDAWIS-SRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
RLD++++ + +R+ + I G V NGQ +K S +K GD ++ E + L
Sbjct: 13 RLDSFLAENNTAEYTRSYIGKLIEEGYVLYNGQK-AKASIKLKSGDHISLIEKEAEVLDV 71
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
+ EDIPLDIV+ED+++LVVNKP MVVHPAPG+ TGTLVN ++ H
Sbjct: 72 KGEDIPLDIVFEDEDLLVVNKPRGMVVHPAPGHYTGTLVNAVIAHSGTSL---------- 121
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
SSI+G +RPGI+HR+DK TSGLL++ K++ SH L++Q + HTI R
Sbjct: 122 ------------SSINGV-LRPGIIHRIDKDTSGLLLICKNDLSHKALAKQLEEHTITRR 168
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y +L G + SG I PI RD +R R A + KHG + A + YK++E +
Sbjct: 169 YHALCFGRLKEESGTISAPIGRDEKDRKRQAI---NYKHG--KEAVTHYKLLESFE--NA 221
Query: 311 ALVEWRLETGRTHQV 325
+LVE RLETGRTHQ+
Sbjct: 222 SLVECRLETGRTHQI 236
>gi|229174558|ref|ZP_04302089.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
MM3]
gi|423401265|ref|ZP_17378438.1| RluA family pseudouridine synthase [Bacillus cereus BAG2X1-2]
gi|423457923|ref|ZP_17434720.1| RluA family pseudouridine synthase [Bacillus cereus BAG5X2-1]
gi|423478031|ref|ZP_17454746.1| RluA family pseudouridine synthase [Bacillus cereus BAG6X1-1]
gi|228608927|gb|EEK66218.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
MM3]
gi|401148307|gb|EJQ55800.1| RluA family pseudouridine synthase [Bacillus cereus BAG5X2-1]
gi|401654255|gb|EJS71798.1| RluA family pseudouridine synthase [Bacillus cereus BAG2X1-2]
gi|402428193|gb|EJV60290.1| RluA family pseudouridine synthase [Bacillus cereus BAG6X1-1]
Length = 302
Score = 173 bits (439), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 108/273 (39%), Positives = 157/273 (57%), Gaps = 33/273 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV + R+D +++ SR++VQ I+ +V++NG+ V KV++ VK D + TI
Sbjct: 8 TVAEEQKSERIDKFVAEINSEWSRSQVQQWIKDDVVTVNGKSV-KVNYKVKENDEITVTI 66
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
+ + L +AED+ L+I YED +VLVVNKP MVVHPAPG+ +GTLVNG++HHC+
Sbjct: 67 PDPEELDIQAEDMGLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCT----- 121
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q
Sbjct: 122 -----------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDVAHESLVNQL 162
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
T+ R Y ++ GV G I+ PI RD R M +++G ++A + ++V+
Sbjct: 163 VAKTVTRRYKAIVHGVIPHDKGTIDAPIGRDKKERQSMTV----DENG--KNAVTHFQVL 216
Query: 303 EILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
E LVE RLETGRTHQ+ + K P
Sbjct: 217 ERFK--DFTLVECRLETGRTHQIRVHMKYIGYP 247
>gi|255522642|ref|ZP_05389879.1| hypothetical protein LmonocFSL_15771 [Listeria monocytogenes FSL
J1-175]
Length = 279
Score = 173 bits (439), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 105/264 (39%), Positives = 156/264 (59%), Gaps = 34/264 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D I+ + G SR+ +Q +++G +++NG++ +K ++ V+ GD ++ + E + L
Sbjct: 16 RVDKVIAEMM-GKSRSAIQLMLKNGDITVNGEL-AKPNYKVQVGDEIHYEVREPEELEVL 73
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AEDIPLDI +ED ++LVVNKP MVVHP+ G+A+GTLVN +L HC
Sbjct: 74 AEDIPLDIYFEDKDMLVVNKPEGMVVHPSAGHASGTLVNALLFHC--------------- 118
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
DD S I+G IRPGIVHR+DK TSGLL+VAK++H+H L++Q K T +R Y
Sbjct: 119 -----DD---LSGING-KIRPGIVHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSDREY 169
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
I+L G G IE PI R +R +MA + + A + ++V+E L G
Sbjct: 170 IALVHGDIVHQKGTIEAPIGRAKEDRQKMAVVR------DGKEARTHFEVLERLP--GYT 221
Query: 312 LVEWRLETGRTHQVLMLYKLFYIP 335
L+ +L+TGRTHQ+ + K P
Sbjct: 222 LINCKLDTGRTHQIRVHLKYIGHP 245
>gi|163786072|ref|ZP_02180520.1| ribosomal large subunit pseudouridine synthase D [Flavobacteriales
bacterium ALC-1]
gi|159877932|gb|EDP71988.1| ribosomal large subunit pseudouridine synthase D [Flavobacteriales
bacterium ALC-1]
Length = 343
Score = 173 bits (439), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 107/265 (40%), Positives = 150/265 (56%), Gaps = 34/265 (12%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
VD LR+D ++ + ++ +R ++QS+ + G + IN V K ++ VK D V T+
Sbjct: 22 VDKGQQPLRIDKYLMNFVENATRNKIQSAAKDGCIFINNSPV-KSNYKVKPNDFV--TVK 78
Query: 124 ELQPLRAE---AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPT 180
P AEDIP+D+VYEDD++LVVNKPA MVVHP GN +GTL+N ++ H
Sbjct: 79 FKHPPHENLLIAEDIPIDVVYEDDDLLVVNKPAGMVVHPGHGNYSGTLINALIFH----- 133
Query: 181 LASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSE 240
F + + +S RPG+VHR+DK TSGLLVVAK E + AHLS
Sbjct: 134 --------------------FENLPNNSSDRPGLVHRIDKDTSGLLVVAKTEQAMAHLSN 173
Query: 241 QFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYK 300
QF T ER Y++L G ++ G IE I R P NR++ + ++ + + A + YK
Sbjct: 174 QFAKKTSEREYVALVWGNMTEDEGIIEGNIGRHPKNRLQ-NTVYLDDEADKGKPAITHYK 232
Query: 301 VIEILAGGGSALVEWRLETGRTHQV 325
VIE L G LV +LETGRTHQ+
Sbjct: 233 VIERL--GYVTLVSCKLETGRTHQI 255
>gi|399043350|ref|ZP_10737704.1| pseudouridine synthase, RluA family [Rhizobium sp. CF122]
gi|398058188|gb|EJL50096.1| pseudouridine synthase, RluA family [Rhizobium sp. CF122]
Length = 341
Score = 173 bits (439), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 108/286 (37%), Positives = 161/286 (56%), Gaps = 36/286 (12%)
Query: 50 EPIANYAGVQLEETVDTKAGKLRLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKV 108
+P +G++ T D A + RLDAW+++++ + SR+RV++ I+ G VS+ G+V++
Sbjct: 3 DPFKQASGIRKVLTADENA-EGRLDAWMTAQLGEEFSRSRVKALIKEGQVSVAGKVLADP 61
Query: 109 SHNVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTL 168
V+ GD+ + E + E+IPLDI+YEDD+++V++KPA +VVHPA GN TGTL
Sbjct: 62 QKKVRPGDIFEIVLPEPEDPTPRGENIPLDILYEDDDLIVISKPAGLVVHPAAGNWTGTL 121
Query: 169 VNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVV 228
VN +++HC + S I G RPGIVHRLDK T+G++VV
Sbjct: 122 VNALIYHCG----------------------DSLSGIGGVR-RPGIVHRLDKDTTGVMVV 158
Query: 229 AKDEHSHAHLSEQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIP 284
AK++ SH HLS QF H +ER Y ++ G P +G I + R +R R A
Sbjct: 159 AKNDISHRHLSLQFADHGRTMPLERAYQAIVWGRPRTLTGTINASLGRAVGDRTRRAVKR 218
Query: 285 GSNKHGQARHAASRYKVIEIL-----AGGGSALVEWRLETGRTHQV 325
+ A A + Y+V+E A ++LVE LETGRTHQ+
Sbjct: 219 AETQ--DADEAITHYEVLERFHENPDATSLASLVECHLETGRTHQI 262
>gi|168186171|ref|ZP_02620806.1| ribosomal large subunit pseudouridine synthase D [Clostridium
botulinum C str. Eklund]
gi|169295643|gb|EDS77776.1| ribosomal large subunit pseudouridine synthase D [Clostridium
botulinum C str. Eklund]
Length = 304
Score = 173 bits (439), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 101/254 (39%), Positives = 149/254 (58%), Gaps = 33/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +IS + SR+ Q I V +N K ++ +K GD V I E + + +
Sbjct: 16 RLDVFISKCFEEKSRSYAQKLIEEKNVFVNNSS-KKSNYKLKIGDYVEIKIKEDEKINIK 74
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
EDI L+I+YED++V+V++KP MVVHP GN +GTLVNG+L+HC
Sbjct: 75 PEDIKLNIIYEDEDVIVIDKPQGMVVHPGAGNYSGTLVNGLLYHC--------------- 119
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+ SSI+G +RPGIVHR+DK TSG+LVVAK++ +H LSEQ K H+++R Y
Sbjct: 120 --------DSLSSING-DVRPGIVHRIDKDTSGVLVVAKNDSAHIILSEQLKEHSMKREY 170
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
I+L G+ G I+ P+ R+P +RI+ A + ++G++ A + Y V+ +
Sbjct: 171 IALVEGIIKNDEGIIDAPLGRNPKDRIKRAVV----RNGKS--AVTHYNVLRRF--NKNT 222
Query: 312 LVEWRLETGRTHQV 325
LV+ LETGRTHQ+
Sbjct: 223 LVKCILETGRTHQI 236
>gi|291530266|emb|CBK95851.1| ribosomal large subunit pseudouridine synthase D [Eubacterium
siraeum 70/3]
Length = 304
Score = 173 bits (438), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 101/259 (38%), Positives = 148/259 (57%), Gaps = 32/259 (12%)
Query: 67 KAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQ 126
K G R D +++ + GI+R+ + I G +NG++ +K + +K GD V + E Q
Sbjct: 9 KTGGERTDKFLALQDTGITRSAAAALIEQGCCLVNGKIAAK-NQKLKTGDTVTLDVPEAQ 67
Query: 127 PLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQ 186
P E+IPLDIVYED ++LVVNKP MVVHPAPG+ +GTLVN +++HC
Sbjct: 68 PADILPENIPLDIVYEDSDLLVVNKPKGMVVHPAPGHYSGTLVNALMYHCG--------- 118
Query: 187 EAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHT 246
+ S I+G IRPGIVHR+D+ TSGLL+VAK++ +H L+EQ K+H+
Sbjct: 119 -------------DSLSGINGV-IRPGIVHRIDRDTSGLLIVAKNDTAHNILAEQIKVHS 164
Query: 247 IERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILA 306
R Y+++ GV + G ++ PI R +R +M + +R A + Y V +
Sbjct: 165 FTREYMAVVQGV-IKEDGTVDAPIGRHKTDRKKMCVTTEN-----SREAITHYFVEQTYR 218
Query: 307 GGGSALVEWRLETGRTHQV 325
+ LV RLETGRTHQ+
Sbjct: 219 --NNTLVRLRLETGRTHQI 235
>gi|167755826|ref|ZP_02427953.1| hypothetical protein CLORAM_01342 [Clostridium ramosum DSM 1402]
gi|365831520|ref|ZP_09373072.1| RluA family pseudouridine synthase [Coprobacillus sp. 3_3_56FAA]
gi|374625135|ref|ZP_09697552.1| RluA family pseudouridine synthase [Coprobacillus sp. 8_2_54BFAA]
gi|167704765|gb|EDS19344.1| pseudouridine synthase, RluA family [Clostridium ramosum DSM 1402]
gi|365261997|gb|EHM91898.1| RluA family pseudouridine synthase [Coprobacillus sp. 3_3_56FAA]
gi|373916418|gb|EHQ48166.1| RluA family pseudouridine synthase [Coprobacillus sp. 8_2_54BFAA]
Length = 306
Score = 173 bits (438), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 103/255 (40%), Positives = 149/255 (58%), Gaps = 32/255 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
LRLD I+ ++ +SR ++Q I GLV +N Q K S+ K D + TI + L
Sbjct: 14 LRLDKVIAMQLQELSRTQIQDMINQGLVLVN-QKKEKASYKTKLNDEIEITILDNVDLDI 72
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
E EDI L IVYED++V+VV+KP M+VHP+ G GTLVN +L HC
Sbjct: 73 EPEDISLKIVYEDEDVIVVDKPTGMIVHPSAGIMHGTLVNALLFHC-------------- 118
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
+D+S I+G + RPGIVHR+DK TSGLL+VAK++++H LS+Q K HT+ R
Sbjct: 119 --KDLS-------GINGVN-RPGIVHRIDKETSGLLMVAKNDNAHRLLSKQLKDHTVVRR 168
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y++L G+ G+++ PI R+P +R MA ++K A + + V++
Sbjct: 169 YVALVHGLIPHEHGKVDAPIGRNPKDRQSMAVTRTNSK-----EAVTNFTVLK--RYNAM 221
Query: 311 ALVEWRLETGRTHQV 325
+L+E RLETGRTHQ+
Sbjct: 222 SLIECRLETGRTHQI 236
>gi|205373291|ref|ZP_03226095.1| YlyB [Bacillus coahuilensis m4-4]
Length = 301
Score = 173 bits (438), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 104/277 (37%), Positives = 154/277 (55%), Gaps = 33/277 (11%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
+ E TV + R+D +S+ SR++VQ I+ G V +N + + ++ + D++
Sbjct: 3 RFEHTVTQEQVGERIDKVVSTINSDWSRSQVQQWIKDGHVLVNMEQ-KRTNYKSQASDVI 61
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
+ E + L EAED+ LD+ YED +V+VVNKP MVVHPAPG+ +GTLVNG++HHC
Sbjct: 62 TIEVPEAEVLDVEAEDLNLDVYYEDQDVIVVNKPKGMVVHPAPGHYSGTLVNGLMHHC-- 119
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H HL
Sbjct: 120 --------------KDL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDVAHEHL 157
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
Q ++ R Y++L GV G I+ PI RD +R M + Q +HA +
Sbjct: 158 VNQLVEKSVTRKYMALVHGVIQHDYGTIDAPIGRDSKDRQSMTIV------DQGKHAVTH 211
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
++V + LVE +LETGRTHQ+ + K P
Sbjct: 212 FEVKDRFE--QYTLVECQLETGRTHQIRVHMKYIGFP 246
>gi|161507611|ref|YP_001577565.1| pseudouridine synthase [Lactobacillus helveticus DPC 4571]
gi|160348600|gb|ABX27274.1| pseudouridine synthase [Lactobacillus helveticus DPC 4571]
Length = 303
Score = 173 bits (438), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 97/254 (38%), Positives = 147/254 (57%), Gaps = 33/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +IS +I +SR RV+ ++ + +N +V KVS+ ++ GD + + ++PL
Sbjct: 15 RLDKFISEQIPDLSRTRVKELVKEKEILVNHKV-EKVSYKIQAGDKIEINVPAVKPLDVV 73
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E+IPLDIVYED+ V+VVNKP MVVHPAPG+ TLVN +L+H
Sbjct: 74 PENIPLDIVYEDEVVIVVNKPQGMVVHPAPGHPDHTLVNALLYHT--------------- 118
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
++ + S G RPGIVHR+DK TSGLL++AK+ + L +Q T +R+Y
Sbjct: 119 -------QDLAQSPEG--FRPGIVHRIDKDTSGLLMIAKNAKARESLEDQLAHKTNKRIY 169
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++ G + +G I+ PI R+P +R +MA + K A + +KV++ G +
Sbjct: 170 WAIVHGDFGEENGVIDAPIGRNPYDRKKMAVVENGKK------AVTHFKVLKQFK--GYS 221
Query: 312 LVEWRLETGRTHQV 325
L+E +LETGRTHQ+
Sbjct: 222 LIECQLETGRTHQI 235
>gi|331001807|ref|ZP_08325329.1| hypothetical protein HMPREF0491_00191 [Lachnospiraceae oral taxon
107 str. F0167]
gi|330412781|gb|EGG92164.1| hypothetical protein HMPREF0491_00191 [Lachnospiraceae oral taxon
107 str. F0167]
Length = 304
Score = 173 bits (438), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 93/254 (36%), Positives = 153/254 (60%), Gaps = 32/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D ++S ++ SR+ +Q I+ G +I G+ + K ++ ++ GD+V I + +PL
Sbjct: 16 RIDVFLSKNLESFSRSYIQDLIKKGKATIGGKTI-KANYRLREGDIVALAIPKPEPLEIL 74
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E+IPLDIVYED++V++VNKP MVVHPA G+ +GTLVN +L+HC
Sbjct: 75 PENIPLDIVYEDNDVILVNKPKGMVVHPAAGHYSGTLVNALLYHC--------------- 119
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
++ S I+G +RPGIVHR+D T+G+++V K++++H H+++Q H+I R Y
Sbjct: 120 -------KDNLSGINGV-LRPGIVHRIDMDTTGIIIVCKNDNAHQHIAKQLAEHSITRKY 171
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+++ SG + G ++ I+R N+R +M +K G + A + +KV+E L
Sbjct: 172 VAIVSGNIKEDEGVVDAAIARSKNDRKKMTV----DKDG--KRAVTHFKVLERL--NNYT 223
Query: 312 LVEWRLETGRTHQV 325
+E LETGRTHQ+
Sbjct: 224 YIECVLETGRTHQI 237
>gi|311068067|ref|YP_003972990.1| pseudouridylate synthase [Bacillus atrophaeus 1942]
gi|419823952|ref|ZP_14347485.1| pseudouridylate synthase [Bacillus atrophaeus C89]
gi|310868584|gb|ADP32059.1| pseudouridylate synthase [Bacillus atrophaeus 1942]
gi|388471989|gb|EIM08779.1| pseudouridylate synthase [Bacillus atrophaeus C89]
Length = 303
Score = 173 bits (438), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 106/277 (38%), Positives = 153/277 (55%), Gaps = 33/277 (11%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q E T + R+D +++S SR +VQ ++ G + +NG V K ++ ++ GD V
Sbjct: 3 QFEITALPEQKSERIDKFLASAEKDWSRTQVQQWVKDGHIEVNGSPV-KANYKMQPGDQV 61
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
T+ E + L AE + LDI YED +VLVVNKP MVVHPAPG+ TGTLVNG++ HC
Sbjct: 62 KVTVPEPEALDVLAEPMDLDIYYEDQDVLVVNKPRGMVVHPAPGHVTGTLVNGLMAHC-- 119
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 120 --------------KDL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESL 157
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
Q T+ R Y+++ G+ S G I+ PI RD +R M + + ++A +
Sbjct: 158 VNQLVHKTVTRKYMAVVHGIISHDDGTIDAPIGRDKKDRQSMTVV------REGKNAVTH 211
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ V+E LVE +LETGRTHQ+ + K P
Sbjct: 212 FHVLERFQ--DFTLVECQLETGRTHQIRVHMKYIGFP 246
>gi|118588308|ref|ZP_01545717.1| Prenyl group binding site (CAAX box):RNA-binding S4:Pseudouridine
synthase:Pseudouridine synthase, Rlu:Pseudouridine
[Stappia aggregata IAM 12614]
gi|118439014|gb|EAV45646.1| Prenyl group binding site (CAAX box):RNA-binding S4:Pseudouridine
synthase:Pseudouridine synthase, Rlu:Pseudouridine
[Stappia aggregata IAM 12614]
Length = 341
Score = 173 bits (438), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 103/271 (38%), Positives = 151/271 (55%), Gaps = 36/271 (13%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TVD RLDA +++ ++ +SR R+QS I+SG V++ G + + + V GD + T+
Sbjct: 19 TVDAADAGKRLDAVLATHLEALSRNRIQSLIKSGDVTVGGAKIVEPKYRVNEGDALTLTL 78
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
+ + + EDIP+ +V+ED++++VV+KPA +VVHP GN TGTLVN ++HHC
Sbjct: 79 PQAEDPEPKGEDIPVTVVFEDEHLIVVDKPAGLVVHPGAGNWTGTLVNALIHHCG----- 133
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
+ S I G RPGIVHR+DK TSGLLVVAK + +H L+ QF
Sbjct: 134 -----------------DSLSGIGGVK-RPGIVHRIDKDTSGLLVVAKTDQAHKGLAAQF 175
Query: 243 KLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
H +ER Y +L G PS G I ++R NR ++A + S R A +
Sbjct: 176 ADHGRTGPLERAYSALVWGAPSGLKGTINANLARSQANRQKIAVVKTS-----GRQAITH 230
Query: 299 YKVIEILAGGG----SALVEWRLETGRTHQV 325
++V E ++L+E RLETGRTHQ+
Sbjct: 231 WQVKERFGNAEQPALASLLECRLETGRTHQI 261
>gi|146296933|ref|YP_001180704.1| RluA family pseudouridine synthase [Caldicellulosiruptor
saccharolyticus DSM 8903]
gi|145410509|gb|ABP67513.1| pseudouridine synthase, RluA family [Caldicellulosiruptor
saccharolyticus DSM 8903]
Length = 300
Score = 173 bits (438), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 102/254 (40%), Positives = 143/254 (56%), Gaps = 32/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++S + +R+ VQ I G V +N V K ++ VK GD++ I E + L
Sbjct: 9 RLDKYLSEALSK-TRSFVQKIIEEGNVWVNQSQVLKPAYKVKSGDIIKVVIPEPKQLSLV 67
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
A+DI +++VYED+++ V+NKP MVVHP GN TLVN +LH S
Sbjct: 68 AQDIDIEVVYEDEHLAVINKPRGMVVHPGAGNFENTLVNALLHKFSGRL----------- 116
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
SSI+G IRPGIVHRLDK TSGLL+VAK + +H LSE K H I+R+Y
Sbjct: 117 -----------SSINGV-IRPGIVHRLDKDTSGLLIVAKTDEAHIKLSEALKSHQIKRIY 164
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++ GV + SG I PI R P NR++MA +P + A + ++V+E
Sbjct: 165 YAICEGVLKEDSGVINAPIGRHPVNRLKMAVVP------NGKEAVTYFEVLERF--DKYT 216
Query: 312 LVEWRLETGRTHQV 325
++ RL+TGRTHQ+
Sbjct: 217 FIKLRLKTGRTHQI 230
>gi|336236130|ref|YP_004588746.1| RluA family pseudouridine synthase [Geobacillus thermoglucosidasius
C56-YS93]
gi|423720663|ref|ZP_17694845.1| pseudouridine synthase, rluA family [Geobacillus thermoglucosidans
TNO-09.020]
gi|335362985|gb|AEH48665.1| pseudouridine synthase, RluA family [Geobacillus
thermoglucosidasius C56-YS93]
gi|383366016|gb|EID43307.1| pseudouridine synthase, rluA family [Geobacillus thermoglucosidans
TNO-09.020]
Length = 304
Score = 173 bits (438), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 107/272 (39%), Positives = 151/272 (55%), Gaps = 32/272 (11%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
+D + R+D I++ + SR++VQ I+ LV++N Q V K ++ GD+V +
Sbjct: 8 IDEEYDNERIDKVIAALNEDWSRSKVQQWIKKQLVTVNDQHV-KANYKCSAGDIVVVRLP 66
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
E +PL E E+IPLDI YED +VLVVNKP MVVHPAPG+ GTLVN +L HC
Sbjct: 67 EPEPLYVEPENIPLDIYYEDADVLVVNKPRGMVVHPAPGHMRGTLVNALLAHC------- 119
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L +Q
Sbjct: 120 ---------HDL-------SGINGV-LRPGIVHRIDKDTSGLLMVAKNDMAHQALVDQLV 162
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
T+ R Y ++ GV G I+ PI RD +R +MA + K A + ++V+E
Sbjct: 163 KKTVTRKYKAIVHGVIPHDYGTIDAPIGRDKRDRKKMAVTEENGK-----EAVTHFRVLE 217
Query: 304 ILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+E +LETGRTHQ+ + K P
Sbjct: 218 RFR--QYTFIECQLETGRTHQIRVHMKYIGYP 247
>gi|423522277|ref|ZP_17498750.1| RluA family pseudouridine synthase [Bacillus cereus HuA4-10]
gi|401174971|gb|EJQ82174.1| RluA family pseudouridine synthase [Bacillus cereus HuA4-10]
Length = 302
Score = 173 bits (438), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 107/273 (39%), Positives = 155/273 (56%), Gaps = 33/273 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV + R+D +++ SR++VQ I+ +V++NG+ V KV++ VK D + TI
Sbjct: 8 TVAEEQKSERIDKFVAEINSEWSRSQVQQWIKDAVVTVNGKSV-KVNYKVKENDEITVTI 66
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E + L + ED+ L++ YED +VLVVNKP MVVHPAPG+ GTLVNG++HHC+
Sbjct: 67 PEPEELDIQPEDMNLEVYYEDADVLVVNKPRGMVVHPAPGHTKGTLVNGLMHHCT----- 121
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q
Sbjct: 122 -----------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQL 162
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
T+ R Y ++ GV G I+ PI RD R M +++G ++A + ++V+
Sbjct: 163 VAKTVTRRYKAIVHGVIPHDKGTIDAPIGRDKKERQSMTV----DENG--KNAVTHFQVL 216
Query: 303 EILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
E LVE RLETGRTHQ+ + K P
Sbjct: 217 ERFK--DFTLVECRLETGRTHQIRVHMKYIGYP 247
>gi|373106341|ref|ZP_09520644.1| RluA family pseudouridine synthase [Stomatobaculum longum]
gi|371652716|gb|EHO18124.1| RluA family pseudouridine synthase [Stomatobaculum longum]
Length = 304
Score = 173 bits (438), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 97/258 (37%), Positives = 146/258 (56%), Gaps = 39/258 (15%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD IS ++RA Q I+ G V ++G+ K S+ + G+ ++ T+ E +
Sbjct: 14 RLDIAISLLFPELTRAHAQKLIKEGSVLVDGKP-RKASYPLTAGERLSVTLPEPEATEVL 72
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E+IPLDI+YED +V+V+NKP MVVHPA G+ GTLVN +L+HC
Sbjct: 73 PENIPLDILYEDKDVIVINKPKGMVVHPAAGHTGGTLVNALLYHCK-------------- 118
Query: 192 AEDISDDEEFSSSISGAS--IRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIER 249
S+SG + +RPGIVHR+D+ T+G+++ K++ +H ++EQ K H+I R
Sbjct: 119 -----------DSLSGINGILRPGIVHRIDRDTTGVMIACKNDRAHQCIAEQLKAHSITR 167
Query: 250 VYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQ--ARHAASRYKVIEILAG 307
Y++L G + G ++ P+ RDP NR RM K G +HA + Y+V+E A
Sbjct: 168 RYLALAQGRMQEEEGTVDAPLGRDPENRKRM-------KSGMIGGKHAVTHYRVLERFA- 219
Query: 308 GGSALVEWRLETGRTHQV 325
+ +E RLETGRTHQ+
Sbjct: 220 -AATYLECRLETGRTHQI 236
>gi|196038675|ref|ZP_03105983.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus cereus NVH0597-99]
gi|196030398|gb|EDX68997.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus cereus NVH0597-99]
Length = 302
Score = 173 bits (438), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 107/273 (39%), Positives = 156/273 (57%), Gaps = 33/273 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV + R+D +++ + SR +VQ I+ +V++NG+ V K ++ V+ D + TI
Sbjct: 8 TVAEEQKNERIDKFVAGINNEWSRTQVQQWIKDDVVTVNGKAV-KGNYKVRENDEITVTI 66
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E + L + ED+ L+I YED +VLVVNKP MVVHPAPG+ +GTLVNG++HHC+
Sbjct: 67 PEPEELDIQPEDMNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCT----- 121
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q
Sbjct: 122 -----------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQL 162
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
T+ R Y ++ GV G I+ PI+RD R M +++G +HA + ++V+
Sbjct: 163 VAKTVIRRYKAIVHGVIPHDKGTIDAPIARDKKERQSMTV----DENG--KHAVTHFQVL 216
Query: 303 EILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
E LVE RLETGRTHQ+ + K P
Sbjct: 217 ERFK--DFTLVECRLETGRTHQIRVHMKYIGYP 247
>gi|323141904|ref|ZP_08076765.1| pseudouridine synthase, RluA family [Phascolarctobacterium
succinatutens YIT 12067]
gi|322413651|gb|EFY04509.1| pseudouridine synthase, RluA family [Phascolarctobacterium
succinatutens YIT 12067]
Length = 314
Score = 173 bits (438), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 105/276 (38%), Positives = 157/276 (56%), Gaps = 33/276 (11%)
Query: 50 EPIANYAGVQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVS 109
E I N A Q + + R D +++ ++ ++R+ +Q + G ++ G V K +
Sbjct: 2 EHIENGAAEQQRLIITEQEAGQRADVGLAAMLE-LTRSNMQKLLEEGR-AVRGSKVLKSN 59
Query: 110 HNVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLV 169
+ ++ GD ++ T+ E QPL + E+IPLDI+YED++V+VVNK MVVHPA GN GTLV
Sbjct: 60 YKLRLGDEIDVTLPEPQPLDVQPENIPLDIIYEDEDVVVVNKARGMVVHPAAGNLNGTLV 119
Query: 170 NGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVA 229
N +L+HC + S I+G IRPGIVHRLDK TSG+++ A
Sbjct: 120 NALLYHC-----------------------KNLSGINGV-IRPGIVHRLDKDTSGIMICA 155
Query: 230 KDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKH 289
K++ +H LS+Q + T +R Y+++ G SG IE I+RD N+R +MA + K
Sbjct: 156 KNDAAHLSLSQQIQAKTAQRTYLAVVRGNIKTDSGVIETLIARDKNDRKKMAVV----KE 211
Query: 290 GQARHAASRYKVIEILAGGGSALVEWRLETGRTHQV 325
G R A + Y+V+E G +V RL TGRTHQ+
Sbjct: 212 G-GRDAVTEYEVLERF--GKYTIVRCRLRTGRTHQI 244
>gi|398822585|ref|ZP_10580964.1| pseudouridine synthase, RluA family [Bradyrhizobium sp. YR681]
gi|398226816|gb|EJN13059.1| pseudouridine synthase, RluA family [Bradyrhizobium sp. YR681]
Length = 326
Score = 173 bits (438), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 105/274 (38%), Positives = 155/274 (56%), Gaps = 37/274 (13%)
Query: 60 LEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
+E V G RLD +++R+ +SR+R+++ I +G VS+ V +++V GD +
Sbjct: 1 MEVVVAGDEGSARLDRVLAARLPDLSRSRLKALILAGAVSLRASAVRDPAYHVISGDTII 60
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
+ E P + EDI LDIV+EDD+++V+NKP +VVHPA G+ TGTLVN ++ HC
Sbjct: 61 IDVPEAAPAEPKGEDIALDIVFEDDDIIVINKPKGLVVHPAAGHETGTLVNALIAHCG-A 119
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
TL S I G RPGIVHRLDK T+GL+VVAK++ +HA LS
Sbjct: 120 TL---------------------SGIGGVR-RPGIVHRLDKDTTGLMVVAKNDLAHASLS 157
Query: 240 EQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHA 295
QF H + R Y++ GVP++ G ++ PI R P+ R +MA G R A
Sbjct: 158 AQFADHGRTGAMRRGYMAFAWGVPNRHRGTVDAPIDRHPHAREKMAVRQGG------REA 211
Query: 296 ASRYKVIEILAGGG----SALVEWRLETGRTHQV 325
+ ++++E +G +AL+ LETGRTHQ+
Sbjct: 212 VTHWEILESFSGRDGKPIAALLGCELETGRTHQI 245
>gi|312111747|ref|YP_003990063.1| pseudouridine synthase [Geobacillus sp. Y4.1MC1]
gi|311216848|gb|ADP75452.1| pseudouridine synthase, RluA family [Geobacillus sp. Y4.1MC1]
Length = 304
Score = 173 bits (438), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 107/272 (39%), Positives = 152/272 (55%), Gaps = 32/272 (11%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
+D + R+D I++ + SR++VQ I++ LV++N Q V K ++ GD+V +
Sbjct: 8 IDEEYDNERIDKVIAALNEDWSRSKVQQWIKNQLVTVNDQHV-KANYKCSAGDIVVVRLP 66
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
E +PL E E+IPLDI YED +VLVVNKP MVVHPAPG+ GTLVN +L HC
Sbjct: 67 EPEPLYVEPENIPLDIYYEDADVLVVNKPRGMVVHPAPGHMRGTLVNALLAHC------- 119
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L +Q
Sbjct: 120 ---------HDL-------SGINGV-LRPGIVHRIDKDTSGLLMVAKNDMAHQALVDQLV 162
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
T+ R Y ++ GV G I+ PI RD +R +MA + K A + ++V+E
Sbjct: 163 KKTVTRKYKAIVHGVIPHDYGTIDAPIGRDKRDRKKMAVTEENGK-----EAVTHFRVLE 217
Query: 304 ILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+E +LETGRTHQ+ + K P
Sbjct: 218 RFR--QYTFIECQLETGRTHQIRVHMKYIGYP 247
>gi|341616031|ref|ZP_08702900.1| pseudouridine synthase D large subunit [Citromicrobium sp. JLT1363]
Length = 412
Score = 173 bits (438), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 102/254 (40%), Positives = 144/254 (56%), Gaps = 28/254 (11%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++ D +SR R++ I G V + G+ + S V G + PL AE
Sbjct: 114 RLDKALAEATD-LSRERIKGLIADGAVEVGGKRANSPSARVAEGAPFTVHLPAPTPLEAE 172
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
+DIPL + YED++++VV+KPA MVVHPA GN GTLVN +LHHC+
Sbjct: 173 PQDIPLVVAYEDEHLIVVDKPAGMVVHPAAGNRDGTLVNALLHHCAGQL----------- 221
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
S I+G RPGIVHR+DK TSGLLVVAK + +H L++QF H+I R Y
Sbjct: 222 -----------SGINGVE-RPGIVHRIDKDTSGLLVVAKTDSAHEGLAKQFADHSISRRY 269
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
I++ +G P + G I+ + R +R +MA +P G +HA + Y+ + G ++
Sbjct: 270 IAICAGQPKPAQGTIDARLGRSDRDRKKMAVLPPDATRG--KHAITHYRTTDSF--GVAS 325
Query: 312 LVEWRLETGRTHQV 325
++E RLETGRTHQV
Sbjct: 326 ILECRLETGRTHQV 339
>gi|284048842|ref|YP_003399181.1| RluA family pseudouridine synthase [Acidaminococcus fermentans DSM
20731]
gi|283953063|gb|ADB47866.1| pseudouridine synthase, RluA family [Acidaminococcus fermentans DSM
20731]
Length = 305
Score = 173 bits (438), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 104/255 (40%), Positives = 147/255 (57%), Gaps = 33/255 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
LR D ++++R+D +R+ VQ I+ G V+ NG+ +K + VK GD+ + L A
Sbjct: 14 LRADVFLAARLD-CTRSAVQHDIQEGRVTRNGKP-AKANTKVKEGDVFQVQVLPPVDLEA 71
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
E+IPLDI+YED +V+VVNKP MVVHPA GN GTLVN +L+HC
Sbjct: 72 RPENIPLDILYEDQDVIVVNKPRGMVVHPAAGNPDGTLVNALLYHC-------------- 117
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
D+ S I+G IRPGIVHRLDK TSG+++ AK++ +H L+EQ + +R
Sbjct: 118 --RDL-------SGINGV-IRPGIVHRLDKDTSGVMICAKNDRAHLSLAEQIQKKEAKRT 167
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y+++ G G IE + RDP +R +MA +P R AA+ Y+V+E G
Sbjct: 168 YLAIVRGNIKDDRGHIETQLDRDPRDRKKMAVVPSG-----GRWAATDYEVLERY--GKF 220
Query: 311 ALVEWRLETGRTHQV 325
+V RL TGRTHQ+
Sbjct: 221 TVVRCRLLTGRTHQI 235
>gi|423452804|ref|ZP_17429657.1| RluA family pseudouridine synthase [Bacillus cereus BAG5X1-1]
gi|423511927|ref|ZP_17488458.1| RluA family pseudouridine synthase [Bacillus cereus HuA2-1]
gi|401139363|gb|EJQ46925.1| RluA family pseudouridine synthase [Bacillus cereus BAG5X1-1]
gi|402450188|gb|EJV82022.1| RluA family pseudouridine synthase [Bacillus cereus HuA2-1]
Length = 302
Score = 173 bits (438), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 107/273 (39%), Positives = 155/273 (56%), Gaps = 33/273 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV + R+D +++ SR++VQ I+ +V++NG+ V K ++ VKG D + TI
Sbjct: 8 TVAEEQKSERIDKFVAEINSEWSRSQVQQWIKDAVVTVNGKSV-KGNYKVKGNDEITVTI 66
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E + L + ED+ L++ YED +VLVVNKP MVVHPAPG+ GTLVNG++HHC+
Sbjct: 67 PEPEELDIQPEDMNLEVYYEDADVLVVNKPRGMVVHPAPGHTKGTLVNGLMHHCT----- 121
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q
Sbjct: 122 -----------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQL 162
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
T+ R Y ++ GV G I+ PI RD R M +++G ++A + ++V+
Sbjct: 163 VAKTVTRRYKAIVHGVIPHDKGTIDAPIGRDKKERQSMTV----DENG--KNAVTHFQVL 216
Query: 303 EILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
E LVE RLETGRTHQ+ + K P
Sbjct: 217 ERFK--DFTLVECRLETGRTHQIRVHMKYIGYP 247
>gi|255029306|ref|ZP_05301257.1| hypothetical protein LmonL_09598 [Listeria monocytogenes LO28]
Length = 245
Score = 173 bits (438), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 105/264 (39%), Positives = 156/264 (59%), Gaps = 34/264 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D I+ + G SR+ +Q +++G +++NG++ +K ++ V+ GD ++ + E + L
Sbjct: 16 RVDKVIAEMM-GKSRSAIQLMLKNGDITVNGEL-AKPNYKVQVGDEIHYEVREPEELEVL 73
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AEDIPLDI +ED ++LVVNKP MVVHP+ G+A+GTLVN +L HC
Sbjct: 74 AEDIPLDIYFEDKDMLVVNKPEGMVVHPSAGHASGTLVNALLFHC--------------- 118
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
DD S I+G IRPGIVHR+DK TSGLL+VAK++H+H L++Q K T +R Y
Sbjct: 119 -----DD---LSGING-KIRPGIVHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSDREY 169
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
I+L G G IE PI R +R +MA + + A + ++V+E L G
Sbjct: 170 IALVHGDIVHQKGTIEAPIGRAKEDRQKMAVVR------DGKEARTHFEVLERLP--GYT 221
Query: 312 LVEWRLETGRTHQVLMLYKLFYIP 335
L+ +L+TGRTHQ+ + K P
Sbjct: 222 LINCKLDTGRTHQIRVHLKYIGHP 245
>gi|350272994|ref|YP_004884302.1| pseudouridine synthase [Oscillibacter valericigenes Sjm18-20]
gi|348597836|dbj|BAL01797.1| pseudouridine synthase [Oscillibacter valericigenes Sjm18-20]
Length = 307
Score = 173 bits (438), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 98/256 (38%), Positives = 144/256 (56%), Gaps = 36/256 (14%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLDA+++++ + ++R+ I G V ++G+ K S + GG+ V + QP
Sbjct: 15 RLDAFLAAQAENLTRSAAARLIEEGRVLVDGKRPVK-SLRLTGGETVTVELPNPQPTEVR 73
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
EDIPLD+VYED +V+VVNKP +VVHPAPG+ GTLVN +LHHC
Sbjct: 74 PEDIPLDVVYEDGDVIVVNKPKGLVVHPAPGHPDGTLVNALLHHC--------------- 118
Query: 192 AEDISDDEEFSSSIS--GASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIER 249
SS+S G +RPGIVHR+D+ TSGL++ AK++ +H L+ Q + HT+ R
Sbjct: 119 ----------GSSLSGIGGVLRPGIVHRIDRDTSGLIIAAKNDFAHQKLAAQLQDHTLAR 168
Query: 250 VYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGG 309
Y + G + SG ++ PI R P +R + A +PG R A + ++V+ + G
Sbjct: 169 TYECIVLGNLKEESGSVDAPIGRCPGDRKKQAVVPG------GRRAVTHWEVVARYS--G 220
Query: 310 SALVEWRLETGRTHQV 325
V RLETGRTHQ+
Sbjct: 221 YTHVRCRLETGRTHQI 236
>gi|298208169|ref|YP_003716348.1| ribosomal large subunit pseudouridine synthase D [Croceibacter
atlanticus HTCC2559]
gi|83848090|gb|EAP85960.1| ribosomal large subunit pseudouridine synthase D [Croceibacter
atlanticus HTCC2559]
Length = 356
Score = 173 bits (438), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 112/288 (38%), Positives = 156/288 (54%), Gaps = 36/288 (12%)
Query: 40 SSSSSGGNNREPIANYAGVQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVS 99
+S+SS N+ + +YA T LR+D ++ + I+ +R ++Q + + G +
Sbjct: 14 TSNSSEDNDDDLYEHYAF-----TASKGQEPLRVDKFLMNFIENATRNKIQKAAKEGNIY 68
Query: 100 INGQVVSKVSHNVKGGDMVNCTISELQPLRA--EAEDIPLDIVYEDDNVLVVNKPAHMVV 157
+N VV K ++ VK GD V + E P EDIPL+IV+EDD+VLVVNKPA MVV
Sbjct: 69 VNDAVV-KQNYKVKAGDEVKV-LFEHPPYEMLLTPEDIPLNIVHEDDDVLVVNKPAGMVV 126
Query: 158 HPAPGNATGTLVNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHR 217
HP GN +GTL+N ++ H F + + +S RPG+VHR
Sbjct: 127 HPGHGNYSGTLINALVFH-------------------------FDNLPNNSSNRPGLVHR 161
Query: 218 LDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNR 277
+DK TSGLLVVAK EH+ HLS+QF T R YI+L G G IE I R P NR
Sbjct: 162 IDKDTSGLLVVAKTEHAMTHLSKQFFNKTSSREYIALVWGNVEDDQGTIEGHIGRHPKNR 221
Query: 278 IRMAAIPGSNKHGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQV 325
++ + + + A + YKVIE L G L+ +LETGRTHQ+
Sbjct: 222 LQNTVFLEDDADEKGKPAVTHYKVIERL--GYVTLLSCKLETGRTHQI 267
>gi|312127570|ref|YP_003992444.1| pseudouridine synthase, rlua family [Caldicellulosiruptor
hydrothermalis 108]
gi|311777589|gb|ADQ07075.1| pseudouridine synthase, RluA family [Caldicellulosiruptor
hydrothermalis 108]
Length = 299
Score = 172 bits (437), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 104/254 (40%), Positives = 143/254 (56%), Gaps = 32/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++S + +R+ VQ I G V +N V K ++ VK GD++ I E + L
Sbjct: 9 RLDRYLSEALSK-TRSFVQKIIEEGNVLVNQTQVLKPAYKVKSGDIIKVVIPEPKQLSIV 67
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
A+DI +++VYED+++ V+NKP MVVHP GN TLVN +LH F
Sbjct: 68 AQDINIEVVYEDEHLAVINKPRGMVVHPGAGNFENTLVNALLH-------------KFRG 114
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
SSI+G IRPGIVHRLDK TSGLLVVAK + +H LSE K H I+R+Y
Sbjct: 115 R---------LSSINGV-IRPGIVHRLDKDTSGLLVVAKTDEAHVKLSEALKSHQIKRIY 164
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++ GV + SG I PI R P NR++MA +P + A + ++V+E
Sbjct: 165 YAICEGVLKEDSGVINAPIGRHPVNRLKMAVVP------NGKEAVTYFEVLERF--DKYT 216
Query: 312 LVEWRLETGRTHQV 325
V+ RL+TGRTHQ+
Sbjct: 217 FVKLRLKTGRTHQI 230
>gi|254510211|ref|ZP_05122278.1| ribosomal large subunit pseudouridine synthase D [Rhodobacteraceae
bacterium KLH11]
gi|221533922|gb|EEE36910.1| ribosomal large subunit pseudouridine synthase D [Rhodobacteraceae
bacterium KLH11]
Length = 344
Score = 172 bits (437), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 109/284 (38%), Positives = 158/284 (55%), Gaps = 38/284 (13%)
Query: 57 GVQLEETVDTKAGKLRLDAWISSRI---DGISRARVQSSIRSGLVSINGQVVSKVSHNVK 113
G +L E A RLD ++ + + +SR R+ I G V+++G VV V
Sbjct: 2 GTRLIEFQIAAAPPPRLDKALARDVPAEESLSRTRLARLIGEGAVTVDGAVVDDPKAKVA 61
Query: 114 GGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGIL 173
+ T++E + EDIPLD+VYEDD+++V+NKPA MVVHPAPG+ GTLVN +L
Sbjct: 62 EDAQIAITVAEAEDSHIGPEDIPLDVVYEDDDLIVINKPAGMVVHPAPGSPNGTLVNALL 121
Query: 174 HHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEH 233
HHC +D+S G RPGIVHR+DK TSGLLVVAK +
Sbjct: 122 HHCG---------------DDLSG--------VGGVKRPGIVHRIDKETSGLLVVAKSDA 158
Query: 234 SHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIE--VPISRDPNNRIRMA---AIPGSNK 288
+H L+ QF+ H++ER Y ++ GVP + R+ +S +P N +R+ A +++
Sbjct: 159 AHHGLAAQFEAHSVERYYRAVCYGVPDANDPRLRGIKGVSFEPGNIMRLTTQLARHKTDR 218
Query: 289 HGQA------RHAASRYKVIEILAGGGS-ALVEWRLETGRTHQV 325
QA RHA +R +++E+ G+ +LVE LETGRTHQ+
Sbjct: 219 QKQAVLFHGGRHAVTRSRIVEVFGNPGAISLVECWLETGRTHQI 262
>gi|441471608|emb|CCQ21363.1| Uncharacterized RNA pseudouridine synthase YlyB [Listeria
monocytogenes]
gi|441474742|emb|CCQ24496.1| Uncharacterized RNA pseudouridine synthase YlyB [Listeria
monocytogenes N53-1]
Length = 303
Score = 172 bits (437), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 103/254 (40%), Positives = 152/254 (59%), Gaps = 34/254 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D I+ + G SR+ +Q +++G + +NG++ +K ++ V+ GD ++ + E + L
Sbjct: 16 RVDKVIAEMM-GKSRSAIQLMLKNGDIMVNGEL-AKPNYKVQVGDEIHYEVREPEELEVL 73
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AEDIPLDI +ED ++LVVNKP MVVHP+ G+A+GTLVN +L HC
Sbjct: 74 AEDIPLDIYFEDKDMLVVNKPEGMVVHPSAGHASGTLVNALLFHC--------------- 118
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
DD S I+G IRPGIVHR+DK TSGLL+VAK++H+H L++Q K T +R Y
Sbjct: 119 -----DD---LSGING-KIRPGIVHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSDREY 169
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
I+L G G IE PI R +R +MA + + A + ++V+E L G
Sbjct: 170 IALVHGDIVHQKGTIEAPIGRAKEDRQKMAVV------RDGKEARTHFEVLERLP--GYT 221
Query: 312 LVEWRLETGRTHQV 325
L+ +L+TGRTHQ+
Sbjct: 222 LINCKLDTGRTHQI 235
>gi|423711105|ref|ZP_17685425.1| RluA family pseudouridine synthase [Bartonella washoensis Sb944nv]
gi|395415019|gb|EJF81454.1| RluA family pseudouridine synthase [Bartonella washoensis Sb944nv]
Length = 334
Score = 172 bits (437), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 107/275 (38%), Positives = 155/275 (56%), Gaps = 35/275 (12%)
Query: 61 EETVDTKAGKLRLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
+ D A RLD W++ + + +SR+R+Q IR G + I+GQ++ + +K M+
Sbjct: 4 QRVTDENALGQRLDQWLAEQYKNELSRSRLQVLIREGSLKIDGQLIKEPKTKLKPNQMIE 63
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
TI L + E I LDI++EDD+V+V+NKPA +VVHP GN TGTLVN +++HC
Sbjct: 64 LTIPVLSDAKPSGEAIALDILFEDDHVIVINKPAGLVVHPGNGNWTGTLVNALIYHC--- 120
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
+ S I G RPGIVHRLDK TSG++VVAK++ +H LS
Sbjct: 121 -------------------HDSLSGIGGIK-RPGIVHRLDKNTSGVMVVAKNDLAHQSLS 160
Query: 240 EQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHA 295
QF H ++R Y +L G PS++ I+ + R P+NR + A + + H ARHA
Sbjct: 161 AQFSDHGRTSALDRRYHALIWGSPSRNVLTIDASLGRSPHNRTKQAVVHSQSSH--ARHA 218
Query: 296 ASRYKVIE---ILAGGGS--ALVEWRLETGRTHQV 325
+ ++E LA S +L+E RLETGRTHQ+
Sbjct: 219 ITHISLLEKYGTLADTTSFASLLECRLETGRTHQI 253
>gi|30021981|ref|NP_833612.1| ribosomal large subunit pseudouridine synthase D [Bacillus cereus
ATCC 14579]
gi|229129170|ref|ZP_04258143.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
BDRD-Cer4]
gi|296504387|ref|YP_003666087.1| ribosomal large subunit pseudouridine synthase D [Bacillus
thuringiensis BMB171]
gi|423585698|ref|ZP_17561785.1| RluA family pseudouridine synthase [Bacillus cereus VD045]
gi|423649754|ref|ZP_17625324.1| RluA family pseudouridine synthase [Bacillus cereus VD169]
gi|29897537|gb|AAP10813.1| Ribosomal large subunit pseudouridine synthase D [Bacillus cereus
ATCC 14579]
gi|228654407|gb|EEL10272.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
BDRD-Cer4]
gi|296325439|gb|ADH08367.1| ribosomal large subunit pseudouridine synthase D [Bacillus
thuringiensis BMB171]
gi|401233044|gb|EJR39540.1| RluA family pseudouridine synthase [Bacillus cereus VD045]
gi|401283034|gb|EJR88931.1| RluA family pseudouridine synthase [Bacillus cereus VD169]
Length = 302
Score = 172 bits (437), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 107/273 (39%), Positives = 156/273 (57%), Gaps = 33/273 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV + R+D +++ + SR +VQ I+ +V++NG+ V K ++ VK D + TI
Sbjct: 8 TVAAEQKNERIDKFVAGINNEWSRTQVQQWIKDNVVTVNGKAV-KGNYKVKEEDEITVTI 66
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E + L + ED+ L+I YED +VLVVNKP MVVHPAPG+ +GTLVNG++HHC+
Sbjct: 67 PEPEELDIQPEDLNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCT----- 121
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q
Sbjct: 122 -----------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQL 162
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
T+ R Y ++ GV G I+ PI+RD R M +++G ++A + ++V+
Sbjct: 163 VAKTVTRRYKAIVHGVIPHDKGTIDAPIARDKKERQSMTV----DENG--KNAVTHFQVL 216
Query: 303 EILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
E LVE RLETGRTHQ+ + K P
Sbjct: 217 ERFK--DFTLVECRLETGRTHQIRVHMKYIGYP 247
>gi|321315311|ref|YP_004207598.1| pseudouridylate synthase [Bacillus subtilis BSn5]
gi|320021585|gb|ADV96571.1| pseudouridylate synthase [Bacillus subtilis BSn5]
Length = 303
Score = 172 bits (437), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 106/277 (38%), Positives = 152/277 (54%), Gaps = 33/277 (11%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q++ T + R+D +++S + SR +VQ ++ G V +NG V K ++ ++ GD V
Sbjct: 3 QIDITASEEQKSERIDKFLASTENDWSRTQVQQWVKDGQVVVNGSAV-KANYKIQPGDQV 61
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
T+ E + L AE + LDI YED +VLVVNKP MVVHPAPG+ TGTLVNG++ HC+
Sbjct: 62 TVTVPEPEALDVLAEPLDLDIYYEDQDVLVVNKPRGMVVHPAPGHLTGTLVNGLMAHCT- 120
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 121 ---------------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESL 157
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
Q T+ R Y ++ G+ S G I+ PI RD +R M ++A +
Sbjct: 158 VNQLVNKTVTRKYTAVVHGLISHDDGTIDAPIGRDKKDRQSMTVT------RDGKNAVTH 211
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ V+E LVE +LETGRTHQ+ + K P
Sbjct: 212 FHVLERFQ--DFTLVECQLETGRTHQIRVHMKYIGFP 246
>gi|335040592|ref|ZP_08533718.1| pseudouridine synthase, RluA family [Caldalkalibacillus thermarum
TA2.A1]
gi|334179562|gb|EGL82201.1| pseudouridine synthase, RluA family [Caldalkalibacillus thermarum
TA2.A1]
Length = 302
Score = 172 bits (437), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 100/256 (39%), Positives = 152/256 (59%), Gaps = 33/256 (12%)
Query: 70 KLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLR 129
++R+D +++ + SR ++Q+ I+ G V++NG+ V K ++ + D V + + L
Sbjct: 16 EMRIDKFLAEECEQWSRTQIQNWIKEGRVTVNGRPV-KANYKLSENDYVVLRVPPPRELS 74
Query: 130 AEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAF 189
E E + LDIVYED++VLVVNKP +VVHPAPG+ +GTLVNG+L HC
Sbjct: 75 IEPEQMDLDIVYEDEDVLVVNKPRGLVVHPAPGHYSGTLVNGLLAHC------------- 121
Query: 190 SDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIER 249
+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L++Q H + R
Sbjct: 122 ----------QNLSGINGI-LRPGIVHRIDKDTSGLLMVAKNDRAHLSLAKQLSEHRVIR 170
Query: 250 VYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGG 309
Y++L G +SG I PI R+P+NR +MA + G + A + ++VI+
Sbjct: 171 KYVALVHGQVGHNSGTINAPIGRNPHNRQQMAVVSG------GKPAVTHFQVIKRF--NR 222
Query: 310 SALVEWRLETGRTHQV 325
L+E +LETGRTHQ+
Sbjct: 223 YTLIECQLETGRTHQI 238
>gi|315303759|ref|ZP_07874262.1| ribosomal large subunit pseudouridine synthase D [Listeria ivanovii
FSL F6-596]
gi|313627868|gb|EFR96498.1| ribosomal large subunit pseudouridine synthase D [Listeria ivanovii
FSL F6-596]
Length = 302
Score = 172 bits (437), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 103/272 (37%), Positives = 160/272 (58%), Gaps = 34/272 (12%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
++ K + R+D ++ + G SR+ +Q +++G ++++G++ +K ++ V+ GD ++ +
Sbjct: 8 IEEKNARERIDKAVAE-LTGKSRSAIQIMLKNGDITVSGEI-AKPNYKVQVGDEIHLEVR 65
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
E + L AEDIPLDI +ED ++LVVNKP MVVHP+ G+A+ TLVN +L HC
Sbjct: 66 EPEELEVLAEDIPLDIYFEDKDMLVVNKPEGMVVHPSAGHASSTLVNALLFHC------- 118
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
+D+ S I+G IRPGIVHR+DK TSGLL+VAK++H+H L++Q K
Sbjct: 119 ---------KDL-------SGING-KIRPGIVHRIDKDTSGLLMVAKNDHAHESLAKQLK 161
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
T +R YI+L G G IE PI R +R +MA + + A + ++VIE
Sbjct: 162 DKTSDREYIALVHGDIVHQKGTIEAPIGRAKEDRQKMAVV------RDGKEARTHFEVIE 215
Query: 304 ILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
L G L+ +L+TGRTHQ+ + K P
Sbjct: 216 RLE--GYTLINCKLDTGRTHQIRVHLKYIGHP 245
>gi|218899046|ref|YP_002447457.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus cereus G9842]
gi|228902397|ref|ZP_04066552.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis IBL 4222]
gi|228966845|ref|ZP_04127889.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis serovar sotto str. T04001]
gi|402564764|ref|YP_006607488.1| ribosomal large subunit pseudouridine synthase D [Bacillus
thuringiensis HD-771]
gi|423359071|ref|ZP_17336574.1| RluA family pseudouridine synthase [Bacillus cereus VD022]
gi|434376996|ref|YP_006611640.1| ribosomal large subunit pseudouridine synthase D [Bacillus
thuringiensis HD-789]
gi|218543499|gb|ACK95893.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus cereus G9842]
gi|228792944|gb|EEM40502.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis serovar sotto str. T04001]
gi|228857254|gb|EEN01759.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis IBL 4222]
gi|401084943|gb|EJP93189.1| RluA family pseudouridine synthase [Bacillus cereus VD022]
gi|401793416|gb|AFQ19455.1| ribosomal large subunit pseudouridine synthase D [Bacillus
thuringiensis HD-771]
gi|401875553|gb|AFQ27720.1| ribosomal large subunit pseudouridine synthase D [Bacillus
thuringiensis HD-789]
Length = 302
Score = 172 bits (437), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 105/264 (39%), Positives = 154/264 (58%), Gaps = 33/264 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D +++ + SR++VQ I+ +V++NG+ V KV++ VK D + TI + + L +
Sbjct: 17 RIDKFVAGINNEWSRSQVQQWIKDDVVTVNGKAV-KVNYKVKEEDEITVTIPDPEALDIQ 75
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
ED+ L+I YED +VLVVNKP MVVHPAPG+ +GTLVNG++HHC+
Sbjct: 76 PEDMNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCT-------------- 121
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q T+ R Y
Sbjct: 122 --DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRY 171
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++ GV G I+ PI RD R M +++G ++A + ++V+E
Sbjct: 172 KAIVHGVIPHDKGTIDAPIGRDKKERQSMTV----DENG--KNAVTHFQVLERFK--DFT 223
Query: 312 LVEWRLETGRTHQVLMLYKLFYIP 335
LVE RLETGRTHQ+ + K P
Sbjct: 224 LVECRLETGRTHQIRVHMKYIGYP 247
>gi|395780276|ref|ZP_10460743.1| RluA family pseudouridine synthase [Bartonella washoensis 085-0475]
gi|395419543|gb|EJF85843.1| RluA family pseudouridine synthase [Bartonella washoensis 085-0475]
Length = 337
Score = 172 bits (437), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 107/275 (38%), Positives = 155/275 (56%), Gaps = 35/275 (12%)
Query: 61 EETVDTKAGKLRLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
+ D A RLD W++ + + +SR+R+Q IR G + I+GQ++ + +K M+
Sbjct: 4 QRVTDEDALGQRLDQWLAEQYKNELSRSRLQVLIREGSLKIDGQLIKEPKTKLKPNQMIE 63
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
TI L + E I LDI++EDD+V+V+NKPA +VVHP GN TGTLVN +++HC
Sbjct: 64 LTIPVLSDAKPSGEAIALDILFEDDHVIVINKPAGLVVHPGNGNWTGTLVNALIYHC--- 120
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
+ S I G RPGIVHRLDK TSG++VVAK++ +H LS
Sbjct: 121 -------------------HDSLSGIGGIK-RPGIVHRLDKNTSGVMVVAKNDLAHQSLS 160
Query: 240 EQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHA 295
QF H ++R Y +L G PS++ I+ + R P+NR + A + + H ARHA
Sbjct: 161 AQFSDHGRTSALDRRYHALIWGSPSRNVLTIDASLGRSPHNRTKQAVVHSQSSH--ARHA 218
Query: 296 ASRYKVIE---ILAGGGS--ALVEWRLETGRTHQV 325
+ ++E LA S +L+E RLETGRTHQ+
Sbjct: 219 ITHISLLEKYGTLADTTSFASLLECRLETGRTHQI 253
>gi|392989594|ref|YP_006488187.1| 23S rRNA pseudouridine synthase D [Enterococcus hirae ATCC 9790]
gi|392337014|gb|AFM71296.1| 23S rRNA pseudouridine synthase D [Enterococcus hirae ATCC 9790]
Length = 303
Score = 172 bits (437), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 110/277 (39%), Positives = 156/277 (56%), Gaps = 35/277 (12%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
+L T+ T+ G R+D ++ + SR+++Q ++ G VS+NGQVV K ++ VK D +
Sbjct: 3 ELNATIQTETG--RIDKVLTGLFNDYSRSQIQLWLKDGAVSVNGQVV-KANYKVKKNDEI 59
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
+ E + L EAEDIPL+IVYED+ V VVNKP MVVHP+ G+ GT+VN +++H
Sbjct: 60 VIAVPEPETLSIEAEDIPLEIVYEDEAVAVVNKPQGMVVHPSAGHPNGTMVNALMYHV-- 117
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+D+ SSI+G IRPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 118 --------------KDL-------SSINGV-IRPGIVHRIDKDTSGLLMVAKNDLAHESL 155
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
++Q K T R Y++L GV G I PI R NR +M A+ + A +
Sbjct: 156 AKQLKDKTSLRKYVALVHGVIPHEKGTINTPIGRSKVNR-KMQAV-----REDGKLAVTH 209
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ V+E LVE LETGRTHQ+ + K P
Sbjct: 210 FNVLERF--NDFTLVELTLETGRTHQIRVHMKYIGYP 244
>gi|395766553|ref|ZP_10447093.1| RluA family pseudouridine synthase [Bartonella doshiae NCTC 12862]
gi|395415887|gb|EJF82311.1| RluA family pseudouridine synthase [Bartonella doshiae NCTC 12862]
Length = 333
Score = 172 bits (437), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 102/277 (36%), Positives = 156/277 (56%), Gaps = 39/277 (14%)
Query: 61 EETVDTKAGKLRLDAWISSRIDG-ISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
++ D A RLD W++ + + +SR+R+Q IR G + I+ +++ + +K ++
Sbjct: 3 QQITDEDAIGQRLDQWLAKQYNNMLSRSRLQILIREGFLKIDNRIIKEPKTKLKQNQIIE 62
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
T+ L+ + E I LDI++EDD+V+V+NKPA +VVHP GN TGTLVN +++HC
Sbjct: 63 LTMPVLREAKPSGEAIALDILFEDDHVIVINKPAGLVVHPGNGNWTGTLVNALIYHC--- 119
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGAS--IRPGIVHRLDKGTSGLLVVAKDEHSHAH 237
+S+SG RPGIVHRLDK TSG++VVAK++ +H
Sbjct: 120 ----------------------GNSLSGIGGIKRPGIVHRLDKNTSGVMVVAKNDLAHKS 157
Query: 238 LSEQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQAR 293
LS QF H ++R Y +L G PS++ I+ + R P+NR + A + N H AR
Sbjct: 158 LSAQFSDHGRTSALDRRYRALIWGAPSRNVLTIDAFLGRSPHNRTKQAVVYSQNPH--AR 215
Query: 294 HAASRYKVIEIL-----AGGGSALVEWRLETGRTHQV 325
HA + ++E A ++L+E RLETGRTHQ+
Sbjct: 216 HAVTHLFLLEKYGACTDATSFASLLECRLETGRTHQI 252
>gi|240850017|ref|YP_002971410.1| ribosomal large subunit pseudouridine synthase D [Bartonella
grahamii as4aup]
gi|240267140|gb|ACS50728.1| ribosomal large subunit pseudouridine synthase D [Bartonella
grahamii as4aup]
Length = 334
Score = 172 bits (437), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 99/276 (35%), Positives = 154/276 (55%), Gaps = 35/276 (12%)
Query: 60 LEETVDTKAGKLRLDAWISSRIDGI-SRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
+++ D A RLD W++ + + SR+R+Q+ IR G + I+GQ + + ++ ++
Sbjct: 3 IQKITDEGALGQRLDQWLAKQYHNVFSRSRLQTLIREGYLKIDGQFIKEPKTKLRPKQII 62
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
+ +L+ AE I LDI++EDD+++V+NKPA +VVHP GN TGTLVN +++HC
Sbjct: 63 ELAMPDLRDAEPSAEAIALDILFEDDHIIVINKPAGLVVHPGNGNWTGTLVNALIYHCG- 121
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
S S G RPGIVHRLDK TSG+++VAK++ +H L
Sbjct: 122 ----------------------NSLSGIGGVKRPGIVHRLDKNTSGVMIVAKNDLAHKSL 159
Query: 239 SEQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARH 294
S QF H ++R Y +L G P ++ I+ + R P+NR + A I N + ARH
Sbjct: 160 SAQFSDHGRTCALDRRYHALIWGTPHRNVWTIDASLGRSPHNRTKQAVIHKQNPY--ARH 217
Query: 295 AASRYKVIEILAGGG-----SALVEWRLETGRTHQV 325
A + + ++E ++L+E RLETGRTHQ+
Sbjct: 218 AVTHFSLLEKYGSHADSTSFASLLECRLETGRTHQI 253
>gi|406027009|ref|YP_006725841.1| pseudouridine synthase D [Lactobacillus buchneri CD034]
gi|405125498|gb|AFS00259.1| pseudouridine synthase D [Lactobacillus buchneri CD034]
Length = 302
Score = 172 bits (437), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 104/254 (40%), Positives = 141/254 (55%), Gaps = 34/254 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD IS ISR+R ++ I + +NG+ V K + VK GD + + P+ E
Sbjct: 12 RLDKVISELDSSISRSRAKNLIDDQHLKVNGEPV-KPKYQVKSGDKIQVDSVQPTPISLE 70
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E+IPLDIVYEDD+V+VVNKP MVVHP+PG+ TLVN +L+H L
Sbjct: 71 PENIPLDIVYEDDDVIVVNKPQGMVVHPSPGHPDHTLVNALLYHSPL------------- 117
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
S+I+G RPGIVHR+DK TSGLL+VAK++ +H LS+Q K R Y
Sbjct: 118 -----------STING-EFRPGIVHRIDKDTSGLLMVAKNDKAHQFLSQQLKAQKNLRKY 165
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++L G + SG + PI R P +R + A + R A + ++V+E A
Sbjct: 166 VALVHGRIKEDSGVVNAPIGRSPKDRKKQAVV------SDGRSAVTHFEVLERFA--DYT 217
Query: 312 LVEWRLETGRTHQV 325
LV RLETGRTHQ+
Sbjct: 218 LVACRLETGRTHQI 231
>gi|294011927|ref|YP_003545387.1| ribosomal large subunit pseudouridine synthase D [Sphingobium
japonicum UT26S]
gi|390167381|ref|ZP_10219372.1| ribosomal large subunit pseudouridine synthase D [Sphingobium
indicum B90A]
gi|390167660|ref|ZP_10219641.1| ribosomal large subunit pseudouridine synthase D [Sphingobium
indicum B90A]
gi|292675257|dbj|BAI96775.1| ribosomal large subunit pseudouridine synthase D [Sphingobium
japonicum UT26S]
gi|389589726|gb|EIM67740.1| ribosomal large subunit pseudouridine synthase D [Sphingobium
indicum B90A]
gi|389590083|gb|EIM68088.1| ribosomal large subunit pseudouridine synthase D [Sphingobium
indicum B90A]
Length = 320
Score = 172 bits (437), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 104/275 (37%), Positives = 153/275 (55%), Gaps = 44/275 (16%)
Query: 60 LEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSH--------- 110
+E T+ +RLD ++ + +SR R+++ I GQV + +H
Sbjct: 8 IEATIGEAQDGMRLDKALAELVPDLSRERLKALI------AEGQVTGRPAHAGRSPNPSM 61
Query: 111 NVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVN 170
V G + A A+DIPL IV+ED +++V++KPA +VVHPA GN GTLVN
Sbjct: 62 KVAAGQAFAIVLPPPMEAEAVAQDIPLAIVHEDADLIVIDKPAGLVVHPAAGNLDGTLVN 121
Query: 171 GILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAK 230
+LHHC + S I G + RPGIVHR+DK TSGLLVVAK
Sbjct: 122 ALLHHC----------------------QGRLSGIGGVA-RPGIVHRIDKDTSGLLVVAK 158
Query: 231 DEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHG 290
+ +H L++QFK H+I+R+Y ++ GVP ++G ++ I R +R +MA ++ G
Sbjct: 159 SDRAHEGLAQQFKAHSIDRLYAAIVYGVPQPAAGTVDSWIGRSDADRKKMAV----HREG 214
Query: 291 QARHAASRYKVIEILAGGGSALVEWRLETGRTHQV 325
+ +HA + Y+ +E L G+A+VE RLETGRTHQV
Sbjct: 215 RGKHAVTHYRTMERLR--GAAMVECRLETGRTHQV 247
>gi|427412643|ref|ZP_18902835.1| RluA family pseudouridine synthase [Veillonella ratti
ACS-216-V-Col6b]
gi|425716450|gb|EKU79434.1| RluA family pseudouridine synthase [Veillonella ratti
ACS-216-V-Col6b]
Length = 328
Score = 172 bits (436), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 104/261 (39%), Positives = 153/261 (58%), Gaps = 34/261 (13%)
Query: 65 DTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISE 124
D K G+ RLD +++S ++G SR+ VQ I+SG V++N Q K + + G + + +
Sbjct: 33 DDKEGE-RLDVYLTSIMEG-SRSYVQQLIKSGAVTVN-QKTGKSNLKLTVGSTIMVVVPK 89
Query: 125 LQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASS 184
Q + + EDIPLDI++ED +++++NKP MVVHPA GN TGTLVN +L HC
Sbjct: 90 PQAVEVKPEDIPLDILFEDHDIIIINKPRGMVVHPAVGNYTGTLVNALLFHC-------- 141
Query: 185 NQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKL 244
D+S I+G IRPGIVHRLDK TSG+++ AK++ +H L+EQ K
Sbjct: 142 --------RDLS-------GING-EIRPGIVHRLDKDTSGVMMAAKNDLAHIGLAEQVKA 185
Query: 245 HTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEI 304
H+ R Y +L G + G I+ PI R P +R++MA + ++K A + + V+E
Sbjct: 186 HSATRTYYALVHGNIVEERGTIKAPIGRHPKDRMKMAVVFENSK-----EAVTHFTVVER 240
Query: 305 LAGGGSALVEWRLETGRTHQV 325
G LV+ LETGRTHQ+
Sbjct: 241 F--GKHTLVQCVLETGRTHQI 259
>gi|402775791|ref|YP_006629735.1| Pseudouridylate synthase [Bacillus subtilis QB928]
gi|402483460|gb|AFQ59969.1| Pseudouridylate synthase [Bacillus subtilis QB928]
Length = 303
Score = 172 bits (436), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 106/277 (38%), Positives = 152/277 (54%), Gaps = 33/277 (11%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q++ T + R+D +++S + SR +VQ ++ G V +NG V K ++ ++ GD V
Sbjct: 3 QIDITASEEQKSERIDKFLASTENDWSRTQVQQWVKDGQVVVNGSAV-KANYKIQPGDQV 61
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
T+ E + L AE + LDI YED +VLVVNKP MVVHPAPG+ TGTLVNG++ HC+
Sbjct: 62 TVTVPEPEALDVLAEPMDLDIYYEDQDVLVVNKPRGMVVHPAPGHLTGTLVNGLMAHCT- 120
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 121 ---------------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESL 157
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
Q T+ R Y ++ G+ S G I+ PI RD +R M ++A +
Sbjct: 158 VNQLVNKTVTRKYTAVVHGLISHDDGTIDAPIGRDKKDRQSMTVT------RDGKNAVTH 211
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ V+E LVE +LETGRTHQ+ + K P
Sbjct: 212 FHVLERFQ--DFTLVECQLETGRTHQIRVHMKYIGFP 246
>gi|291087665|ref|ZP_06572048.1| ribosomal large subunit pseudouridine synthase D [Clostridium sp.
M62/1]
gi|291074400|gb|EFE11764.1| pseudouridine synthase, RluA family [Clostridium sp. M62/1]
Length = 300
Score = 172 bits (436), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 96/262 (36%), Positives = 155/262 (59%), Gaps = 31/262 (11%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
V +A +R+D ++S DG+SR+ +Q ++S LV ++ + V K S+ + G+ + +
Sbjct: 2 VPAEAQGVRIDKFLSEACDGLSRSYLQKLLKSELVEVDKRTV-KNSYKLSAGEKIEFEVP 60
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
E +AEDIPLDI+YED ++++VNKP MVVHPA G+ + TLVNG+++HC
Sbjct: 61 EAAEPEIKAEDIPLDIIYEDSDIILVNKPKGMVVHPAAGHYSQTLVNGLMYHC------- 113
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
+ S I+G +RPGIVHR+D T+G+L+V K++ +H ++EQ K
Sbjct: 114 ---------------RDGLSGINGV-LRPGIVHRIDMDTTGVLIVCKNDFAHNAIAEQLK 157
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
+H+I R Y ++ GV + G ++ PI R P +R +M+ + K+G + A + Y+V+E
Sbjct: 158 VHSITRKYFAIVHGVIQEDEGTVDAPIGRHPVDRKKMSI---NRKNG--KEAVTHYRVLE 212
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
VE +LETGRTHQ+
Sbjct: 213 RFR--QFTYVECQLETGRTHQI 232
>gi|221309420|ref|ZP_03591267.1| hypothetical protein Bsubs1_08546 [Bacillus subtilis subsp.
subtilis str. 168]
gi|221313745|ref|ZP_03595550.1| hypothetical protein BsubsN3_08482 [Bacillus subtilis subsp.
subtilis str. NCIB 3610]
gi|221318669|ref|ZP_03599963.1| hypothetical protein BsubsJ_08416 [Bacillus subtilis subsp.
subtilis str. JH642]
gi|221322942|ref|ZP_03604236.1| hypothetical protein BsubsS_08522 [Bacillus subtilis subsp.
subtilis str. SMY]
gi|255767360|ref|NP_389429.3| pseudouridylate synthase [Bacillus subtilis subsp. subtilis str.
168]
gi|430755971|ref|YP_007209751.1| Signal peptidase II lsp [Bacillus subtilis subsp. subtilis str.
BSP1]
gi|452914367|ref|ZP_21962994.1| pseudouridine synthase, RluA family protein [Bacillus subtilis
MB73/2]
gi|254763395|sp|Q45480.3|YLYB_BACSU RecName: Full=Uncharacterized RNA pseudouridine synthase YlyB;
AltName: Full=RNA pseudouridylate synthase; AltName:
Full=RNA-uridine isomerase
gi|1373157|gb|AAB57767.1| orf-X; hypothetical protein; Method: conceptual translation
supplied by author [Bacillus subtilis subsp. subtilis
str. 168]
gi|225184987|emb|CAB13420.3| pseudouridylate synthase [Bacillus subtilis subsp. subtilis str.
168]
gi|407958953|dbj|BAM52193.1| pseudouridylate synthase [Synechocystis sp. PCC 6803]
gi|407964530|dbj|BAM57769.1| pseudouridylate synthase [Bacillus subtilis BEST7003]
gi|430020491|gb|AGA21097.1| Signal peptidase II lsp [Bacillus subtilis subsp. subtilis str.
BSP1]
gi|452116787|gb|EME07182.1| pseudouridine synthase, RluA family protein [Bacillus subtilis
MB73/2]
Length = 303
Score = 172 bits (436), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 106/277 (38%), Positives = 152/277 (54%), Gaps = 33/277 (11%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q++ T + R+D +++S + SR +VQ ++ G V +NG V K ++ ++ GD V
Sbjct: 3 QIDITASEEQKSERIDKFLASTENDWSRTQVQQWVKDGQVVVNGSAV-KANYKIQPGDQV 61
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
T+ E + L AE + LDI YED +VLVVNKP MVVHPAPG+ TGTLVNG++ HC+
Sbjct: 62 TVTVPEPEALDVLAEPMDLDIYYEDQDVLVVNKPRGMVVHPAPGHLTGTLVNGLMAHCT- 120
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 121 ---------------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESL 157
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
Q T+ R Y ++ G+ S G I+ PI RD +R M ++A +
Sbjct: 158 VNQLVNKTVTRKYTAVVHGLISHDDGTIDAPIGRDKKDRQSMTVT------RDGKNAVTH 211
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ V+E LVE +LETGRTHQ+ + K P
Sbjct: 212 FHVLERFQ--DFTLVECQLETGRTHQIRVHMKYIGFP 246
>gi|386758269|ref|YP_006231485.1| pseudouridylate synthase [Bacillus sp. JS]
gi|384931551|gb|AFI28229.1| pseudouridylate synthase [Bacillus sp. JS]
Length = 303
Score = 172 bits (436), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 106/277 (38%), Positives = 152/277 (54%), Gaps = 33/277 (11%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q++ T + R+D +++S + SR +VQ ++ G V +NG V K ++ ++ GD V
Sbjct: 3 QIDITASEEQKSERIDKFLASTENDWSRTQVQQWVKDGQVVVNGSAV-KANYKIQPGDQV 61
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
T+ E + L AE + LDI YED +VLVVNKP MVVHPAPG+ TGTLVNG++ HC+
Sbjct: 62 TVTVPEPEALDVLAEPMDLDIYYEDQDVLVVNKPRGMVVHPAPGHLTGTLVNGLMAHCT- 120
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 121 ---------------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESL 157
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
Q T+ R Y ++ G+ S G I+ PI RD +R M ++A +
Sbjct: 158 VNQLVNKTVTRKYTAVVHGLISHDDGTIDAPIGRDKKDRQSMTVT------RDGKNAVTH 211
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ V+E LVE +LETGRTHQ+ + K P
Sbjct: 212 FHVLERFQ--DFTLVECQLETGRTHQIRVHMKYIGFP 246
>gi|332292606|ref|YP_004431215.1| RluA family pseudouridine synthase [Krokinobacter sp. 4H-3-7-5]
gi|332170692|gb|AEE19947.1| pseudouridine synthase, RluA family [Krokinobacter sp. 4H-3-7-5]
Length = 347
Score = 172 bits (436), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 101/257 (39%), Positives = 145/257 (56%), Gaps = 32/257 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISEL-QPLR 129
LR+D ++ + ++ +R ++Q + ++G + +N +V K ++ VK GD+V
Sbjct: 31 LRVDKFLMNFVENATRNKIQKAAKNGSIQVNN-IVVKQNYKVKAGDVVRAMFEHPPHEFL 89
Query: 130 AEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC-SLPTLASSNQEA 188
EDI +D+VYEDD ++VVNKPA MVVHP GN +GTL+N ++HH +LP
Sbjct: 90 LTPEDIDIDVVYEDDQLMVVNKPAGMVVHPGHGNYSGTLINALIHHVDNLP--------- 140
Query: 189 FSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIE 248
+ +S RPG+VHR+DK TSGLLVVAK E + HLS+QF T E
Sbjct: 141 -----------------NNSSDRPGLVHRIDKDTSGLLVVAKTEQAMTHLSKQFFNKTTE 183
Query: 249 RVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGG 308
R Y+++ G G IE I R P NR++ G ++ Q + A + YKVIE L G
Sbjct: 184 REYVAIVWGNVVDDEGTIEGNIGRHPKNRLQNTVFYGEDE-DQGKPAVTHYKVIERL--G 240
Query: 309 GSALVEWRLETGRTHQV 325
LV +LETGRTHQ+
Sbjct: 241 YVTLVSCKLETGRTHQI 257
>gi|384175288|ref|YP_005556673.1| ribosomal large subunit pseudouridine synthase D [Bacillus subtilis
subsp. subtilis str. RO-NN-1]
gi|349594512|gb|AEP90699.1| ribosomal large subunit pseudouridine synthase D [Bacillus subtilis
subsp. subtilis str. RO-NN-1]
Length = 303
Score = 172 bits (436), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 106/277 (38%), Positives = 152/277 (54%), Gaps = 33/277 (11%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q++ T + R+D +++S + SR +VQ ++ G V +NG V K ++ ++ GD V
Sbjct: 3 QIDITASEEQKSERIDKFLASTENDWSRTQVQQWVKDGQVVVNGSAV-KANYKIQPGDQV 61
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
T+ E + L AE + LDI YED +VLVVNKP MVVHPAPG+ TGTLVNG++ HC+
Sbjct: 62 TVTVPEPEALDVLAEPMDLDIYYEDQDVLVVNKPRGMVVHPAPGHLTGTLVNGLMAHCT- 120
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 121 ---------------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESL 157
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
Q T+ R Y ++ G+ S G I+ PI RD +R M ++A +
Sbjct: 158 VNQLVNKTVTRKYTAVVHGLISHDDGTIDAPIGRDKKDRQSMTVT------RDGKNAVTH 211
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ V+E LVE +LETGRTHQ+ + K P
Sbjct: 212 FHVLERFQ--DFTLVECQLETGRTHQIRVHMKYIGFP 246
>gi|443242482|ref|YP_007375707.1| pseudouridine synthase [Nonlabens dokdonensis DSW-6]
gi|442799881|gb|AGC75686.1| pseudouridine synthase [Nonlabens dokdonensis DSW-6]
Length = 346
Score = 172 bits (436), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 103/258 (39%), Positives = 150/258 (58%), Gaps = 34/258 (13%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
LR+D ++ + I+ +R+++Q I+ G V++NG++V K ++ VK D + + P
Sbjct: 30 LRVDKYLMNFIENATRSKIQQGIKEGAVTVNGEIV-KSNYKVKPHDDIRVSFD--HPPHE 86
Query: 131 E---AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQE 187
AEDIPLDIVYEDD+++VVNKPA MVVHP GN +GTL+N ++HH
Sbjct: 87 SLLIAEDIPLDIVYEDDHLVVVNKPAGMVVHPGHGNYSGTLINALIHH------------ 134
Query: 188 AFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTI 247
F + + +S RPG+VHR+DK TSGLLVVAK E + A+LS QF T
Sbjct: 135 -------------FENLPNNSSNRPGLVHRIDKDTSGLLVVAKTEEAMAYLSAQFAAKTS 181
Query: 248 ERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAG 307
ER YI++ G ++ SG +E I R P NR++ + + + A + Y V E L
Sbjct: 182 EREYIAIVWGNFTEKSGTVEGNIGRHPKNRLQNTVWLDDEAY-KGKPAVTHYTVTEDL-- 238
Query: 308 GGSALVEWRLETGRTHQV 325
G +++ RLETGRTHQ+
Sbjct: 239 GYVSVISCRLETGRTHQI 256
>gi|206971264|ref|ZP_03232215.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus cereus AH1134]
gi|228954169|ref|ZP_04116197.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis serovar kurstaki str. T03a001]
gi|229071392|ref|ZP_04204614.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
F65185]
gi|229081145|ref|ZP_04213655.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
Rock4-2]
gi|229180168|ref|ZP_04307512.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
172560W]
gi|229192062|ref|ZP_04319031.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
ATCC 10876]
gi|365159330|ref|ZP_09355511.1| RluA family pseudouridine synthase [Bacillus sp. 7_6_55CFAA_CT2]
gi|423412304|ref|ZP_17389424.1| RluA family pseudouridine synthase [Bacillus cereus BAG3O-2]
gi|423426027|ref|ZP_17403058.1| RluA family pseudouridine synthase [Bacillus cereus BAG3X2-2]
gi|423431911|ref|ZP_17408915.1| RluA family pseudouridine synthase [Bacillus cereus BAG4O-1]
gi|423437345|ref|ZP_17414326.1| RluA family pseudouridine synthase [Bacillus cereus BAG4X12-1]
gi|423503431|ref|ZP_17480023.1| RluA family pseudouridine synthase [Bacillus cereus HD73]
gi|449090834|ref|YP_007423275.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus thuringiensis serovar kurstaki str. HD73]
gi|206734036|gb|EDZ51207.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus cereus AH1134]
gi|228591388|gb|EEK49238.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
ATCC 10876]
gi|228603377|gb|EEK60854.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
172560W]
gi|228702189|gb|EEL54665.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
Rock4-2]
gi|228711683|gb|EEL63636.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
F65185]
gi|228805489|gb|EEM52080.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis serovar kurstaki str. T03a001]
gi|363625328|gb|EHL76369.1| RluA family pseudouridine synthase [Bacillus sp. 7_6_55CFAA_CT2]
gi|401104372|gb|EJQ12349.1| RluA family pseudouridine synthase [Bacillus cereus BAG3O-2]
gi|401110774|gb|EJQ18673.1| RluA family pseudouridine synthase [Bacillus cereus BAG3X2-2]
gi|401116667|gb|EJQ24505.1| RluA family pseudouridine synthase [Bacillus cereus BAG4O-1]
gi|401120500|gb|EJQ28296.1| RluA family pseudouridine synthase [Bacillus cereus BAG4X12-1]
gi|402459652|gb|EJV91389.1| RluA family pseudouridine synthase [Bacillus cereus HD73]
gi|449024591|gb|AGE79754.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus thuringiensis serovar kurstaki str. HD73]
Length = 302
Score = 172 bits (436), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 107/273 (39%), Positives = 156/273 (57%), Gaps = 33/273 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV + R+D +++ + SR +VQ I+ +V++NG+ V K ++ VK D + TI
Sbjct: 8 TVAAEQKNERIDKFVAGINNEWSRTQVQQWIKDDVVTVNGKAV-KGNYKVKEEDEITVTI 66
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E + L + ED+ L+I YED +VLVVNKP MVVHPAPG+ +GTLVNG++HHC+
Sbjct: 67 PEPEELDIQPEDLNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCT----- 121
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q
Sbjct: 122 -----------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQL 162
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
T+ R Y ++ GV G I+ PI+RD R M +++G ++A + ++V+
Sbjct: 163 VAKTVTRRYKAIVHGVIPHDKGTIDAPIARDKKERQSMTV----DENG--KNAVTHFQVL 216
Query: 303 EILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
E LVE RLETGRTHQ+ + K P
Sbjct: 217 ERFK--DFTLVECRLETGRTHQIRVHMKYIGYP 247
>gi|188580214|ref|YP_001923659.1| RluA family pseudouridine synthase [Methylobacterium populi BJ001]
gi|179343712|gb|ACB79124.1| pseudouridine synthase, RluA family [Methylobacterium populi BJ001]
Length = 345
Score = 172 bits (436), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 102/259 (39%), Positives = 147/259 (56%), Gaps = 32/259 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++ D +SRAR+Q+ +R GLV +G VV + V G ++ T+ P
Sbjct: 36 RLDRVLARAFDDLSRARLQALVRDGLVQCDGAVVRDPARKVGAGSRIDLTVPAPLPAEPL 95
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E +PL +V+ED++++V++KPA +VVHPA G+ GTLVN ++ HC
Sbjct: 96 GEALPLAVVHEDEDLIVIDKPAGLVVHPAAGHEDGTLVNRLIAHCG-------------- 141
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLH----TI 247
S S G RPGIVHRLDK TSGLLVVAK++ +H LS QF H +
Sbjct: 142 ---------ASLSGIGGVRRPGIVHRLDKDTSGLLVVAKNDLAHQGLSAQFADHGRSGAL 192
Query: 248 ERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAG 307
ER Y++L GVP +G I ++R +NR ++A + + G+ R A + Y+V + A
Sbjct: 193 ERAYLALVWGVPEPRAGTIRANLARSRHNREKIAVV----RDGEGREAITHYRVEALPAA 248
Query: 308 GG-SALVEWRLETGRTHQV 325
G +AL+ RLETGRTHQ+
Sbjct: 249 DGVTALLRCRLETGRTHQI 267
>gi|27262446|gb|AAN87504.1| Ribosomal large subunit pseudouridine synthase D [Heliobacillus
mobilis]
Length = 327
Score = 172 bits (436), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 108/292 (36%), Positives = 159/292 (54%), Gaps = 38/292 (13%)
Query: 36 RARCSSSSSGGNNREPIANYAGV--QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSI 93
R R + N E ++ V L E VD+ RLD W+ +R SR Q+ I
Sbjct: 4 RKRWDPVNRNAKNVETDEDFPMVFATLPEEVDS-----RLDVWLVNRELVPSRTHGQNWI 58
Query: 94 RSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPA 153
+ GL+ + G V K ++ ++ GD + +E E+IP+DIVY+D +V V+NK A
Sbjct: 59 KEGLIKVEGMTV-KANYRLRPGDRIEVVPAEPVSTEIIPENIPIDIVYQDAHVAVINKSA 117
Query: 154 HMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPG 213
+VVHPA G+ +GTLVN +L+H +D+S I+G +RPG
Sbjct: 118 GLVVHPAEGHTSGTLVNALLYHI----------------KDLS-------GING-ELRPG 153
Query: 214 IVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRD 273
IVHR+DK TSGLLVVAK + +H HL+EQ K H + R Y+++ G+ +GRI+ PI RD
Sbjct: 154 IVHRIDKDTSGLLVVAKHDEAHIHLAEQVKDHLVRREYLAIVHGIIGAETGRIDAPIGRD 213
Query: 274 PNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQV 325
P +R +MA + + + + +V+E G +LV LETGRTHQ+
Sbjct: 214 PKDRQKMAVV------SSGKASVTHLRVLERFPESGFSLVRCNLETGRTHQI 259
>gi|218233909|ref|YP_002368692.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus cereus B4264]
gi|229152090|ref|ZP_04280285.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
m1550]
gi|218161866|gb|ACK61858.1| ribosomal large subunit pseudouridine synthase, RluA family
[Bacillus cereus B4264]
gi|228631439|gb|EEK88073.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
m1550]
Length = 302
Score = 172 bits (436), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 107/273 (39%), Positives = 156/273 (57%), Gaps = 33/273 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV + R+D +++ + SR +VQ I+ +V++NG+ V K ++ VK D + TI
Sbjct: 8 TVAAEQKNERIDKFVTGINNEWSRTQVQQWIKDEVVTVNGKAV-KGNYKVKEEDEITVTI 66
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E + L + ED+ L+I YED +VLVVNKP MVVHPAPG+ +GTLVNG++HHC+
Sbjct: 67 PEPEELDIQPEDLNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCT----- 121
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q
Sbjct: 122 -----------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQL 162
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
T+ R Y ++ GV G I+ PI+RD R M +++G ++A + ++V+
Sbjct: 163 VAKTVTRRYKAIVHGVIPHDKGTIDAPIARDKKERQSMTV----DENG--KNAVTHFQVL 216
Query: 303 EILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
E LVE RLETGRTHQ+ + K P
Sbjct: 217 ERFK--DFTLVECRLETGRTHQIRVHMKYIGYP 247
>gi|294781868|ref|ZP_06747200.1| ribosomal large subunit pseudouridine synthase, RluA family
[Fusobacterium sp. 1_1_41FAA]
gi|294481679|gb|EFG29448.1| ribosomal large subunit pseudouridine synthase, RluA family
[Fusobacterium sp. 1_1_41FAA]
Length = 318
Score = 172 bits (436), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 98/257 (38%), Positives = 151/257 (58%), Gaps = 33/257 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
+RLD +++ +I+ +R+ ++ I + V IN +V++K +K G+ + +I E + +
Sbjct: 19 MRLDKYLAEQIEEATRSYLEKLIDNSYVKINSKVINKNGRKLKSGEKIEISIPEEENIDI 78
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
EAE+IPLDIV+E+D+ ++VNK +MVVHPA GN GTLVN +L++ + L+S N
Sbjct: 79 EAENIPLDIVFENDDFILVNKKYNMVVHPAYGNYNGTLVNALLYYTN--NLSSVN----- 131
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
+IRPGI+HRLDK TSGL++VAK+ +HA L+ F TI +
Sbjct: 132 -----------------GNIRPGIIHRLDKDTSGLILVAKNNFAHAKLASMFTDKTIHKT 174
Query: 251 YISLTSGVPSQSS--GRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGG 308
Y+ + G S + GRIE I RD +R +MA + + K A S Y+V+E +
Sbjct: 175 YLCIVKGNFSDENLEGRIENLIGRDTKDRKKMAVVKENGK-----LAISNYRVVEQVK-- 227
Query: 309 GSALVEWRLETGRTHQV 325
+LVE +ETGRTHQ+
Sbjct: 228 DYSLVEVLIETGRTHQI 244
>gi|260583810|ref|ZP_05851558.1| ribosomal large subunit pseudouridine synthase D [Granulicatella
elegans ATCC 700633]
gi|260158436|gb|EEW93504.1| ribosomal large subunit pseudouridine synthase D [Granulicatella
elegans ATCC 700633]
Length = 301
Score = 172 bits (436), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 100/269 (37%), Positives = 152/269 (56%), Gaps = 40/269 (14%)
Query: 64 VDTKAGKLRLDAWISSRIDGI-------SRARVQSSIRSGLVSINGQVVSKVSHNVKGGD 116
++ K +L L S R+D I +R+ +Q ++SG VS+NG+VV K ++ K GD
Sbjct: 1 MENKIIELTLSLEKSERLDKILTKELSHTRSVIQQWLKSGFVSVNGEVV-KANYKAKDGD 59
Query: 117 MVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC 176
V I E + L AE+IPL+IV+ED+++LV+NKP+ MVVHP+ G++TGTLVN +L+H
Sbjct: 60 HVTIQIEEEEELTVLAENIPLEIVFEDEHLLVINKPSGMVVHPSKGHSTGTLVNALLYHV 119
Query: 177 SLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHA 236
S S RPGIVHR+DK TSGLLVVAK +H
Sbjct: 120 D------------------------QLSKGSESYRPGIVHRIDKDTSGLLVVAKTPQAHV 155
Query: 237 HLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAA 296
LS Q H++ R Y+++ G +G ++ P++RDP+NR++ + + A
Sbjct: 156 GLSNQLMDHSMTRSYVAIVEGSFEHITGTVDAPLARDPHNRLKRCV------QKEGKQAI 209
Query: 297 SRYKVIEILAGGGSALVEWRLETGRTHQV 325
+ + VI+ L ++++ LETGRTHQ+
Sbjct: 210 THFTVIQALK--ETSVLRLNLETGRTHQI 236
>gi|228960110|ref|ZP_04121774.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis serovar pakistani str. T13001]
gi|229047577|ref|ZP_04193167.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
AH676]
gi|229111362|ref|ZP_04240915.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
Rock1-15]
gi|423628987|ref|ZP_17604736.1| RluA family pseudouridine synthase [Bacillus cereus VD154]
gi|423641029|ref|ZP_17616647.1| RluA family pseudouridine synthase [Bacillus cereus VD166]
gi|423656753|ref|ZP_17632052.1| RluA family pseudouridine synthase [Bacillus cereus VD200]
gi|228672138|gb|EEL27429.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
Rock1-15]
gi|228723824|gb|EEL75179.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
AH676]
gi|228799626|gb|EEM46579.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis serovar pakistani str. T13001]
gi|401268532|gb|EJR74580.1| RluA family pseudouridine synthase [Bacillus cereus VD154]
gi|401280090|gb|EJR86012.1| RluA family pseudouridine synthase [Bacillus cereus VD166]
gi|401290494|gb|EJR96188.1| RluA family pseudouridine synthase [Bacillus cereus VD200]
Length = 302
Score = 172 bits (436), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 107/273 (39%), Positives = 156/273 (57%), Gaps = 33/273 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV + R+D +++ + SR +VQ I+ +V++NG+ V K ++ VK D + TI
Sbjct: 8 TVAAEQKNERIDKFVAGINNEWSRTQVQQWIKDDVVTVNGKAV-KGNYKVKEEDEITVTI 66
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E + L + ED+ L+I YED +VLVVNKP MVVHPAPG+ +GTLVNG++HHC+
Sbjct: 67 PEPEELDIQPEDLNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCT----- 121
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q
Sbjct: 122 -----------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQL 162
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
T+ R Y ++ GV G I+ PI+RD R M +++G ++A + ++V+
Sbjct: 163 VAKTVTRRYKAIVHGVIPHDKGTIDAPIARDKKERQSMTV----DENG--KNAVTHFQVL 216
Query: 303 EILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
E LVE RLETGRTHQ+ + K P
Sbjct: 217 ERFK--DFTLVECRLETGRTHQIRVHMKYIGYP 247
>gi|406927514|gb|EKD63533.1| hypothetical protein ACD_51C00259G0006 [uncultured bacterium]
Length = 303
Score = 172 bits (436), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 96/255 (37%), Positives = 147/255 (57%), Gaps = 32/255 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLR-A 130
RLD ++ ++GI+R ++Q I+ GLV +N + +K + +K GD +N I + +PL A
Sbjct: 12 RLDKILTESLEGITRQKIQLLIKDGLVKVNHEKSTKPNKQIKEGDFINVEIIK-KPLEWA 70
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
+ + + ++I++ED N LV+NKPA +VVHPAPG+ TLVNGIL+H + + S
Sbjct: 71 KPQKMDIEIIHEDGNYLVINKPAGLVVHPAPGHKENTLVNGILYHL---------KNSIS 121
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
ED S+RPGIVHRLD+ TSG+LV+AK++ SH LS Q + +++
Sbjct: 122 KKED--------------SVRPGIVHRLDQDTSGILVIAKNDESHYDLSRQIEKRMVKKT 167
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y++L +G+ GRIE PI R P R M + + A + +K + I
Sbjct: 168 YVALVNGIIDH-KGRIEAPIMRHPIKREEMTV------DSRGKEAITEFKPLRIFRDKNC 220
Query: 311 ALVEWRLETGRTHQV 325
L+E L+TGRTHQ+
Sbjct: 221 TLIEVDLKTGRTHQI 235
>gi|52080148|ref|YP_078939.1| pseudouridine synthase [Bacillus licheniformis DSM 13 = ATCC 14580]
gi|319646073|ref|ZP_08000303.1| pseudouridine synthase [Bacillus sp. BT1B_CT2]
gi|404489036|ref|YP_006713142.1| RNA-pseudouridine synthase YlyB [Bacillus licheniformis DSM 13 =
ATCC 14580]
gi|423682090|ref|ZP_17656929.1| pseudouridine synthetase [Bacillus licheniformis WX-02]
gi|52003359|gb|AAU23301.1| Pseudouridine synthase [Bacillus licheniformis DSM 13 = ATCC 14580]
gi|52348027|gb|AAU40661.1| putative RNA-pseudouridine synthase YlyB [Bacillus licheniformis
DSM 13 = ATCC 14580]
gi|317391823|gb|EFV72620.1| pseudouridine synthase [Bacillus sp. BT1B_CT2]
gi|383438864|gb|EID46639.1| pseudouridine synthetase [Bacillus licheniformis WX-02]
Length = 304
Score = 172 bits (436), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 108/264 (40%), Positives = 146/264 (55%), Gaps = 32/264 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D ++++ SR +VQ I+ V +NG V K ++ V+ GD V+ + E +PL
Sbjct: 16 RIDKYLTAVEADWSRTQVQQWIKEDRVLVNGNAV-KANYKVQEGDAVSVQVPEPEPLDVT 74
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AE + LDI YED +VLVVNKP MVVHPAPG+ TGTLVNG++ HC
Sbjct: 75 AEPMDLDIYYEDQDVLVVNKPRGMVVHPAPGHLTGTLVNGLMAHC--------------- 119
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
DD S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q T+ R Y
Sbjct: 120 -----DD---LSGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVNKTVTRKY 170
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+L GV G I+ PI RD +R M + K HA + ++VIE
Sbjct: 171 TALVHGVIPHDHGTIDAPIGRDKKDRQSMTVTRENGK-----HAVTHFEVIERF--DDFT 223
Query: 312 LVEWRLETGRTHQVLMLYKLFYIP 335
+VE +LETGRTHQ+ + K P
Sbjct: 224 VVECQLETGRTHQIRVHMKYIGFP 247
>gi|423592111|ref|ZP_17568142.1| RluA family pseudouridine synthase [Bacillus cereus VD048]
gi|401232244|gb|EJR38746.1| RluA family pseudouridine synthase [Bacillus cereus VD048]
Length = 302
Score = 172 bits (436), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 107/273 (39%), Positives = 155/273 (56%), Gaps = 33/273 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV + R+D +++ SR++VQ I+ +V++NG+ V K ++ VKG D + TI
Sbjct: 8 TVAEEQKSERIDKFVAEINSEWSRSQVQQWIKDAVVTVNGKSV-KGNYKVKGNDEITVTI 66
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E + L + ED+ L++ YED +VLVVNKP MVVHPAPG+ GTLVNG++HHC+
Sbjct: 67 PEPEELDIQPEDMNLEVYYEDADVLVVNKPRGMVVHPAPGHTKGTLVNGLMHHCT----- 121
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q
Sbjct: 122 -----------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQL 162
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
T+ R Y ++ GV G I+ PI RD R M +++G ++A + ++V+
Sbjct: 163 VAKTVTRRYKAIVHGVIPHDKGIIDAPIGRDKKERQSMTV----DENG--KNAVTHFQVL 216
Query: 303 EILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
E LVE RLETGRTHQ+ + K P
Sbjct: 217 ERFK--DFTLVECRLETGRTHQIRVHMKYIGYP 247
>gi|302871828|ref|YP_003840464.1| RluA family pseudouridine synthase [Caldicellulosiruptor
obsidiansis OB47]
gi|302574687|gb|ADL42478.1| pseudouridine synthase, RluA family [Caldicellulosiruptor
obsidiansis OB47]
Length = 303
Score = 172 bits (436), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 102/254 (40%), Positives = 144/254 (56%), Gaps = 32/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++S + +R+ VQ I G V +N V K ++ V+ GD++ I E + L
Sbjct: 9 RLDRYLSEVLSK-TRSFVQKIIEEGNVWVNQTQVLKPAYKVRSGDIIRIVIPEPKQLSLV 67
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
A+DI +++VYED+++ V+NKP MVVHP GN TLVN +LH S
Sbjct: 68 AQDIDIEVVYEDEHLAVINKPRGMVVHPGAGNFENTLVNALLHKFSGKL----------- 116
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
SSI+G IRPGIVHRLDK TSGLL+VAK + +H LSE K H I+R+Y
Sbjct: 117 -----------SSINGV-IRPGIVHRLDKDTSGLLIVAKTDEAHIKLSEALKSHQIKRIY 164
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++ GV + SG ++ PI R P NR++MA IP + A + ++V+E
Sbjct: 165 YAICEGVLKEDSGVVDAPIGRHPVNRLKMAVIP------NGKQAVTYFEVLE--RYDKYT 216
Query: 312 LVEWRLETGRTHQV 325
V+ RL+TGRTHQ+
Sbjct: 217 FVKLRLKTGRTHQI 230
>gi|345859993|ref|ZP_08812322.1| pseudouridine synthase, RluA family protein [Desulfosporosinus sp.
OT]
gi|344326854|gb|EGW38303.1| pseudouridine synthase, RluA family protein [Desulfosporosinus sp.
OT]
Length = 334
Score = 172 bits (436), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 109/265 (41%), Positives = 152/265 (57%), Gaps = 34/265 (12%)
Query: 61 EETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNC 120
+ET + G +RLD ++ + G SR+ VQ I V +NG K ++ V+ GD +
Sbjct: 37 KETFELAEG-IRLDVGVTD-VLGKSRSFVQGLIAQECVRVNGSP-KKANYKVRQGDQIEV 93
Query: 121 TISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPT 180
L+ AE E+IPLDI+YED++VLVVNK MVVHPAPG TGT+VN +L HC
Sbjct: 94 EFPILRESTAEPENIPLDILYEDEDVLVVNKRQGMVVHPAPGAWTGTMVNALLFHC---- 149
Query: 181 LASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSE 240
S I+G +RPGIVHR+DK TSG+LVVAK++ +H L+
Sbjct: 150 -------------------RNLSGINGV-LRPGIVHRIDKDTSGILVVAKNDIAHQGLAV 189
Query: 241 QFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYK 300
Q K H++ R Y++L GV + SG ++ PI RDP+ R RMA + +K A + Y
Sbjct: 190 QLKEHSMARKYLALVHGVVLEPSGTVDAPIGRDPSERKRMAVVMHHSK-----PAVTHYT 244
Query: 301 VIEILAGGGSALVEWRLETGRTHQV 325
V+E + + +E RLETGRTHQ+
Sbjct: 245 VLERFS--EATYLEVRLETGRTHQI 267
>gi|304320252|ref|YP_003853895.1| ribosomal large subunit pseudouridine synthase protein
[Parvularcula bermudensis HTCC2503]
gi|303299154|gb|ADM08753.1| putative ribosomal large subunit pseudouridine synthase protein
[Parvularcula bermudensis HTCC2503]
Length = 338
Score = 172 bits (436), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 97/260 (37%), Positives = 143/260 (55%), Gaps = 29/260 (11%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD WI+ + D SRAR+++ I G ++ + + ++ G++ + +
Sbjct: 19 RLDKWIADQTDAYSRARIKALIEGGALTKDAAPFTDPKWKLRQGEVFTLVPPPPEDPTPK 78
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
EDIPL +++ED +++V+NKPA +VVHPA GN TGTLVN +LHHC
Sbjct: 79 PEDIPLTVLFEDGDLIVINKPAGLVVHPAAGNWTGTLVNALLHHCG-------------- 124
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+ S I G IRPGIVHRLDK TSG++V+AK++H+H LS F H I+R Y
Sbjct: 125 --------DTLSGIGGV-IRPGIVHRLDKDTSGVMVIAKNDHAHQGLSALFAAHDIDRAY 175
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQ------ARHAASRYKVIEIL 305
++L G P +SG I P++R +R +M + G+ AR A ++
Sbjct: 176 LALCEGSPRPTSGTITWPLARSSGDRKKMTVVGVDRPEGKEAITHFARLDAYGIGRAKLP 235
Query: 306 AGGGSALVEWRLETGRTHQV 325
++LVE RLETGRTHQ+
Sbjct: 236 GDALASLVECRLETGRTHQI 255
>gi|229146464|ref|ZP_04274835.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
BDRD-ST24]
gi|228637097|gb|EEK93556.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
BDRD-ST24]
Length = 302
Score = 172 bits (436), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 105/264 (39%), Positives = 153/264 (57%), Gaps = 33/264 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D +++ + SR +VQ I+ +V++NG+ V K ++ VK D + TI E + L +
Sbjct: 17 RIDKFVAGINNEWSRTQVQQWIKDNVVTVNGKAV-KGNYKVKEEDEITVTIPEPEELDIQ 75
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
ED+ L+I YED +VLVVNKP MVVHPAPG+ +GTLVNG++HHC+
Sbjct: 76 PEDLNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCT-------------- 121
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q T+ R Y
Sbjct: 122 --DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRY 171
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++ GV G I+ PI+RD R M +++G ++A + ++V+E
Sbjct: 172 KAIVHGVIPHDKGTIDAPIARDKKERQSMTV----DENG--KNAVTHFQVLERFK--DFT 223
Query: 312 LVEWRLETGRTHQVLMLYKLFYIP 335
LVE RLETGRTHQ+ + K P
Sbjct: 224 LVECRLETGRTHQIRVHMKYIGYP 247
>gi|365157073|ref|ZP_09353354.1| RluA family pseudouridine synthase [Bacillus smithii 7_3_47FAA]
gi|363625807|gb|EHL76818.1| RluA family pseudouridine synthase [Bacillus smithii 7_3_47FAA]
Length = 303
Score = 172 bits (435), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 102/277 (36%), Positives = 157/277 (56%), Gaps = 33/277 (11%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
++E + + R+D +S + SR++VQ I+ G V++NG V K ++ + D +
Sbjct: 3 RIEHVITEEEQHQRIDKVLSQWNEDWSRSQVQEWIKEGRVTVNGATV-KANYKCEADDRI 61
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
++ E + L E++ LDI YED +V+VVNKP MVVHPAPG+ +GTLVNG++ HC
Sbjct: 62 VISVPEPEVLEITPENMDLDIYYEDRDVIVVNKPRGMVVHPAPGHLSGTLVNGLMAHC-- 119
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+D+S I+G +RPGIVHR+DK TSGLL+ AK++++H L
Sbjct: 120 --------------KDLS-------GINGV-LRPGIVHRIDKDTSGLLMAAKNDYAHEKL 157
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
S+Q T+ R Y ++ GV G I+ PI RDP +R +MA + +HA +
Sbjct: 158 SQQLSNKTVTRKYKAIVHGVIPHDVGTIDAPIGRDPKDRQKMAVVEN------GKHAVTH 211
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
++V+E + +L+E LETGRTHQ+ + K P
Sbjct: 212 FRVLERFS--QYSLIECELETGRTHQIRVHMKYIGHP 246
>gi|422416363|ref|ZP_16493320.1| ribosomal large subunit pseudouridine synthase D [Listeria innocua
FSL J1-023]
gi|313623251|gb|EFR93499.1| ribosomal large subunit pseudouridine synthase D [Listeria innocua
FSL J1-023]
Length = 297
Score = 172 bits (435), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 106/264 (40%), Positives = 154/264 (58%), Gaps = 34/264 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D I+ + G SR+ +Q +++G +++NG++ +K ++ V+ GD + E + L
Sbjct: 11 RVDKVIAEMM-GKSRSAIQLMLKNGDITVNGEL-AKPNYKVQVGDEIRYEAREPEELEIL 68
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AEDIPLDI +ED ++LVVNKP MVVHP+ G+A+GTLVN +L HC
Sbjct: 69 AEDIPLDIYFEDKDMLVVNKPEGMVVHPSAGHASGTLVNALLFHC--------------- 113
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
DD S I+G IRPGIVHR+DK TSGLL+VAK++H+H L++Q K T +R Y
Sbjct: 114 -----DD---LSGING-KIRPGIVHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSDREY 164
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
I+L G G IE PI R +R +MA + + A + ++VIE L G
Sbjct: 165 IALVHGDIVHQKGTIEAPIGRAKEDRQKMAVV------RDGKEARTHFEVIERLP--GYT 216
Query: 312 LVEWRLETGRTHQVLMLYKLFYIP 335
L+ +L+TGRTHQ+ + K P
Sbjct: 217 LINCKLDTGRTHQIRVHLKYIGHP 240
>gi|423470106|ref|ZP_17446850.1| RluA family pseudouridine synthase [Bacillus cereus BAG6O-2]
gi|423558545|ref|ZP_17534847.1| RluA family pseudouridine synthase [Bacillus cereus MC67]
gi|401191813|gb|EJQ98835.1| RluA family pseudouridine synthase [Bacillus cereus MC67]
gi|402437358|gb|EJV69382.1| RluA family pseudouridine synthase [Bacillus cereus BAG6O-2]
Length = 302
Score = 172 bits (435), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 107/273 (39%), Positives = 155/273 (56%), Gaps = 33/273 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV + R+D +++ SR++VQ I+ +V++NG+ V K ++ VKG D + TI
Sbjct: 8 TVAEEQKSERIDKFVAEINSEWSRSQVQQWIKDAVVTVNGKSV-KGNYKVKGNDEITVTI 66
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E + L + ED+ L++ YED +VLVVNKP MVVHPAPG+ GTLVNG++HHC+
Sbjct: 67 PEPEELDIQPEDMNLEVYYEDADVLVVNKPRGMVVHPAPGHTKGTLVNGLMHHCT----- 121
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q
Sbjct: 122 -----------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDVAHESLVNQL 162
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
T+ R Y ++ GV G I+ PI RD R M +++G ++A + ++V+
Sbjct: 163 VAKTVTRRYKAIVHGVIPHDKGTIDAPIGRDKKERQSMTV----DENG--KNAVTHFQVL 216
Query: 303 EILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
E LVE RLETGRTHQ+ + K P
Sbjct: 217 ERFK--DFTLVECRLETGRTHQIRVHMKYIGYP 247
>gi|229134702|ref|ZP_04263511.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
BDRD-ST196]
gi|423518584|ref|ZP_17495065.1| RluA family pseudouridine synthase [Bacillus cereus HuA2-4]
gi|228648748|gb|EEL04774.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
BDRD-ST196]
gi|401160792|gb|EJQ68167.1| RluA family pseudouridine synthase [Bacillus cereus HuA2-4]
Length = 302
Score = 172 bits (435), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 107/273 (39%), Positives = 155/273 (56%), Gaps = 33/273 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV + R+D +++ SR++VQ I+ +V++NG+ V K ++ VKG D + TI
Sbjct: 8 TVAEEQKSERIDKFVAEINSEWSRSQVQQWIKDAVVTVNGKSV-KGNYKVKGNDEITVTI 66
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E + L + ED+ L++ YED +VLVVNKP MVVHPAPG+ GTLVNG++HHC+
Sbjct: 67 PEPEELDIQPEDMNLEVYYEDADVLVVNKPRGMVVHPAPGHTKGTLVNGLMHHCT----- 121
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q
Sbjct: 122 -----------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQL 162
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
T+ R Y ++ GV G I+ PI RD R M +++G ++A + ++V+
Sbjct: 163 VAKTVTRRYKAIVHGVIPHDKGIIDAPIGRDKKERQSMTV----DENG--KNAVTHFQVL 216
Query: 303 EILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
E LVE RLETGRTHQ+ + K P
Sbjct: 217 ERFK--DFTLVECRLETGRTHQIRVHMKYIGYP 247
>gi|371776249|ref|ZP_09482571.1| ribosomal large subunit pseudouridine synthase D [Anaerophaga sp.
HS1]
Length = 361
Score = 172 bits (435), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 108/264 (40%), Positives = 147/264 (55%), Gaps = 32/264 (12%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
VD LR+D ++ +RI+ SR ++Q + SG V +NG+ V K ++ +K D+V +S
Sbjct: 38 VDKGQKPLRIDKFLVNRIENASRNKIQEAAASGSVLVNGKSV-KANYKIKPDDIVTIEMS 96
Query: 124 ELQPLRAE--AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTL 181
P E E+IPLDIV+ED+ ++VVNKP MVVHP GN TGTLVN + H
Sbjct: 97 -WPPREIEIVPENIPLDIVFEDNELIVVNKPPGMVVHPGYGNYTGTLVNALAWH------ 149
Query: 182 ASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQ 241
+ D F S RPG+VHR+DK TSGLLVVAK E++ HL++Q
Sbjct: 150 -------------LKDHPWFQSK----DPRPGLVHRIDKDTSGLLVVAKTENAKTHLAQQ 192
Query: 242 FKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKV 301
F T R Y +L G+ + G I I R+P +R +M P Q + A + YKV
Sbjct: 193 FFNKTTSRTYQALVWGIVKEDEGTIVGNIGRNPRDRKQMTVFPDDT---QGKPAVTHYKV 249
Query: 302 IEILAGGGSALVEWRLETGRTHQV 325
+E L G L+E RLETGRTHQ+
Sbjct: 250 LERL--GYVTLLECRLETGRTHQI 271
>gi|163941632|ref|YP_001646516.1| RluA family pseudouridine synthase [Bacillus weihenstephanensis
KBAB4]
gi|229013077|ref|ZP_04170242.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus mycoides
DSM 2048]
gi|423489069|ref|ZP_17465751.1| RluA family pseudouridine synthase [Bacillus cereus BtB2-4]
gi|423494794|ref|ZP_17471438.1| RluA family pseudouridine synthase [Bacillus cereus CER057]
gi|423498414|ref|ZP_17475031.1| RluA family pseudouridine synthase [Bacillus cereus CER074]
gi|423598796|ref|ZP_17574796.1| RluA family pseudouridine synthase [Bacillus cereus VD078]
gi|423661268|ref|ZP_17636437.1| RluA family pseudouridine synthase [Bacillus cereus VDM022]
gi|423669467|ref|ZP_17644496.1| RluA family pseudouridine synthase [Bacillus cereus VDM034]
gi|423674354|ref|ZP_17649293.1| RluA family pseudouridine synthase [Bacillus cereus VDM062]
gi|163863829|gb|ABY44888.1| pseudouridine synthase, RluA family [Bacillus weihenstephanensis
KBAB4]
gi|228748331|gb|EEL98191.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus mycoides
DSM 2048]
gi|401150887|gb|EJQ58339.1| RluA family pseudouridine synthase [Bacillus cereus CER057]
gi|401160463|gb|EJQ67841.1| RluA family pseudouridine synthase [Bacillus cereus CER074]
gi|401237066|gb|EJR43523.1| RluA family pseudouridine synthase [Bacillus cereus VD078]
gi|401298594|gb|EJS04194.1| RluA family pseudouridine synthase [Bacillus cereus VDM034]
gi|401301309|gb|EJS06898.1| RluA family pseudouridine synthase [Bacillus cereus VDM022]
gi|401309905|gb|EJS15238.1| RluA family pseudouridine synthase [Bacillus cereus VDM062]
gi|402432317|gb|EJV64376.1| RluA family pseudouridine synthase [Bacillus cereus BtB2-4]
Length = 302
Score = 172 bits (435), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 107/273 (39%), Positives = 155/273 (56%), Gaps = 33/273 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV + R+D +++ SR++VQ I+ +V++NG+ V K ++ VKG D + TI
Sbjct: 8 TVAEEQKSERIDKFVAEINSEWSRSQVQQWIKDAVVTVNGKSV-KGNYKVKGNDEITVTI 66
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E + L + ED+ L++ YED +VLVVNKP MVVHPAPG+ GTLVNG++HHC+
Sbjct: 67 PEPEELDIQPEDMNLEVYYEDADVLVVNKPRGMVVHPAPGHTKGTLVNGLMHHCT----- 121
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q
Sbjct: 122 -----------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQL 162
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
T+ R Y ++ GV G I+ PI RD R M +++G ++A + ++V+
Sbjct: 163 VAKTVTRRYKAIVHGVIPHDKGIIDAPIGRDKKERQSMTV----DENG--KNAVTHFQVL 216
Query: 303 EILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
E LVE RLETGRTHQ+ + K P
Sbjct: 217 ERFK--DFTLVECRLETGRTHQIRVHMKYIGYP 247
>gi|339624005|ref|ZP_08659794.1| pseudouridylate synthase, 23S RNA-specific [Fructobacillus
fructosus KCTC 3544]
Length = 306
Score = 172 bits (435), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 104/257 (40%), Positives = 145/257 (56%), Gaps = 34/257 (13%)
Query: 69 GKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPL 128
G R+DA ++S SR+ + S I+ G V +N Q V K S+ VK GD V T+ + + +
Sbjct: 12 GGKRIDAALASAGLEHSRSTLASWIKDGQVLVNDQPV-KSSYKVKSGDKVRITVPDTKSV 70
Query: 129 RAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEA 188
+ E+IPLDIVYEDD++LVVNK MVVHPA G+A GTLVN +L H L
Sbjct: 71 AIQPENIPLDIVYEDDDLLVVNKKQGMVVHPAAGHAGGTLVNALLFHAPL---------- 120
Query: 189 FSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIE 248
SSI+G RPGIVHR+D+ TSGLL+VAK++ +H L+ + K H E
Sbjct: 121 --------------SSING-EFRPGIVHRIDRDTSGLLMVAKNDRAHQALAAELKAHKTE 165
Query: 249 RVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGG 308
R Y +L G + G ++ P+ R P +R + A + G R A + ++V+E
Sbjct: 166 RYYYALVKGEFKEDHGTVDAPVGRHPKDRKKQAVVAG------GREAVTHFEVLERFH-- 217
Query: 309 GSALVEWRLETGRTHQV 325
G L+ LETGRTHQ+
Sbjct: 218 GYTLLRLALETGRTHQI 234
>gi|357419773|ref|YP_004932765.1| pseudouridine synthase [Thermovirga lienii DSM 17291]
gi|355397239|gb|AER66668.1| pseudouridine synthase, RluA family [Thermovirga lienii DSM 17291]
Length = 329
Score = 172 bits (435), Expect = 3e-40, Method: Compositional matrix adjust.
Identities = 106/303 (34%), Positives = 162/303 (53%), Gaps = 46/303 (15%)
Query: 52 IANYAGVQLEETVDTKAGK----LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSK 107
I ++ + +ET+ G+ RLD ++S +ID SR+ VQ I+ LV + G K
Sbjct: 11 IEDFGAGEGDETISILVGQNYEGYRLDVFLSEKIDR-SRSYVQKLIKENLVFVKGFSTIK 69
Query: 108 VSHNVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGT 167
S ++ G + I + + E +P D++YED++++++NKPA + VHP+PG+ GT
Sbjct: 70 PSTRLQSGMEIVVKIPVAEAITLTPEYVPFDVLYEDEDIIIINKPAGVAVHPSPGHWKGT 129
Query: 168 LVNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLV 227
LV G+LH P L S S+RPGIVHRLD GTSGL+V
Sbjct: 130 LVQGLLHR--YPELFSGEN----------------------SLRPGIVHRLDLGTSGLMV 165
Query: 228 VAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSN 287
+AK +H +S FK ++++ Y++L G P + SG I++PI RD NR+RMA P
Sbjct: 166 IAKHIKAHERMSMLFKTRSVKKEYLALVWGCPRKVSGLIDMPIGRDSRNRLRMAITP--- 222
Query: 288 KHGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQVLMLYK---------LFYIPRMI 338
+ + A +RY+V + G +LV R+ TGRTHQ+ + +K Y PR
Sbjct: 223 ---KGKRAITRYEV--LWTRNGFSLVRCRIYTGRTHQIRVHFKSLGCPVVGDKLYAPRRE 277
Query: 339 KVF 341
+VF
Sbjct: 278 RVF 280
>gi|210612741|ref|ZP_03289456.1| hypothetical protein CLONEX_01658 [Clostridium nexile DSM 1787]
gi|210151434|gb|EEA82442.1| hypothetical protein CLONEX_01658 [Clostridium nexile DSM 1787]
Length = 305
Score = 172 bits (435), Expect = 3e-40, Method: Compositional matrix adjust.
Identities = 96/263 (36%), Positives = 151/263 (57%), Gaps = 31/263 (11%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV+ + R+D ++S + +SR+ +Q I+ G V+ NG++V K ++ + D +
Sbjct: 6 TVEKEFSGNRVDKFLSEQFPDLSRSYIQKLIKDGHVTANGKIV-KANYKLNALDTLALDK 64
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
ELQ E+IP+DI+YED+++L+VNKP MVVHP+ G+ +GTLVN +++HC
Sbjct: 65 PELQEPDIVPENIPIDILYEDEDILIVNKPKGMVVHPSAGHYSGTLVNALMYHC------ 118
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
++ S I+G +RPGIVHR+D T+G L+V K++ H L+EQ
Sbjct: 119 ----------------KDQLSGINGI-MRPGIVHRIDMDTTGSLLVCKNDFVHQDLAEQL 161
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
K H+I+R+Y ++ GV + G I+ PI R P R +M+ + +HA + YKVI
Sbjct: 162 KEHSIQRIYHAIVHGVIKEDEGTIDAPIGRHPIERKKMSV-----NYKNGKHAVTHYKVI 216
Query: 303 EILAGGGSALVEWRLETGRTHQV 325
E ++ RLETGRTHQ+
Sbjct: 217 ERFK--NYTYIKCRLETGRTHQI 237
>gi|317131689|ref|YP_004091003.1| RluA family pseudouridine synthase [Ethanoligenens harbinense
YUAN-3]
gi|315469668|gb|ADU26272.1| pseudouridine synthase, RluA family [Ethanoligenens harbinense
YUAN-3]
Length = 302
Score = 172 bits (435), Expect = 3e-40, Method: Compositional matrix adjust.
Identities = 101/259 (38%), Positives = 143/259 (55%), Gaps = 32/259 (12%)
Query: 67 KAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQ 126
+AG+ RLD ++ +R+ +Q + GLV++NG+ K ++ GD + +
Sbjct: 12 QAGE-RLDRALARLCPDQTRSGLQKLLECGLVTLNGKPAGK-HDRMRAGDEIVVEFPDPV 69
Query: 127 PLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQ 186
PL A+A+DIP+++VYEDD++LVVNKP MVVHP GN GTLVN +L HC
Sbjct: 70 PLEAKAQDIPIEVVYEDDDLLVVNKPQGMVVHPGAGNPDGTLVNALLFHCG--------- 120
Query: 187 EAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHT 246
S S G +RPGIVHR+DK TSGLL+VAK++ +H L+ Q K H+
Sbjct: 121 --------------DSLSGIGGVLRPGIVHRIDKDTSGLLMVAKNDRAHQSLAAQIKAHS 166
Query: 247 IERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILA 306
R Y ++ GV + SG ++ P+ R P NR RMA +RHA + Y V+
Sbjct: 167 FLREYEAVVCGVIKEDSGTVDAPVGRHPTNRKRMAVT-----QKNSRHAVTHYTVLRRYT 221
Query: 307 GGGSALVEWRLETGRTHQV 325
+ RLETGRTHQ+
Sbjct: 222 --HYTHLRLRLETGRTHQI 238
>gi|423612107|ref|ZP_17587968.1| RluA family pseudouridine synthase [Bacillus cereus VD107]
gi|401247114|gb|EJR53458.1| RluA family pseudouridine synthase [Bacillus cereus VD107]
Length = 302
Score = 172 bits (435), Expect = 3e-40, Method: Compositional matrix adjust.
Identities = 107/273 (39%), Positives = 155/273 (56%), Gaps = 33/273 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV + R+D +++ SR++VQ I+ +V++NG+ V K ++ VK D + TI
Sbjct: 8 TVAEEQKSERIDKFVAGINSEWSRSQVQQWIKDAVVTVNGKAV-KGNYKVKENDEITVTI 66
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E + L + ED+ L+I YED +VLVVNKP MVVHPAPG+ +GTLVNG++HHC+
Sbjct: 67 PEPEELDIQPEDMSLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCT----- 121
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q
Sbjct: 122 -----------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQL 162
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
T+ R Y ++ GV G I+ PI RD R M +++G ++A + ++V+
Sbjct: 163 VAKTVTRRYKAIVHGVIPHDKGTIDAPIGRDKKERQSMTV----DENG--KNAVTHFQVL 216
Query: 303 EILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
E LVE RLETGRTHQ+ + K P
Sbjct: 217 ERFK--DFTLVECRLETGRTHQIRVHMKYIGYP 247
>gi|222529363|ref|YP_002573245.1| RluA family pseudouridine synthase [Caldicellulosiruptor bescii DSM
6725]
gi|222456210|gb|ACM60472.1| pseudouridine synthase, RluA family [Caldicellulosiruptor bescii
DSM 6725]
Length = 300
Score = 172 bits (435), Expect = 3e-40, Method: Compositional matrix adjust.
Identities = 102/254 (40%), Positives = 144/254 (56%), Gaps = 32/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++S + +R+ VQ I G V +N + V K ++ VK GD++ I E + L
Sbjct: 9 RLDRYLSEALSK-TRSFVQKIIEEGNVWVNQRQVLKPAYKVKSGDIIKVVIPEPKQLSLV 67
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
A+DI +++VYED+++ V+NKP MVVHP GN TLVN +LH
Sbjct: 68 AQDIDIEVVYEDEHLSVINKPRGMVVHPGAGNFENTLVNALLHKFKGRL----------- 116
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
SSI+G IRPGIVHRLDK TSGLLVVAK + +H LSE K H I+R+Y
Sbjct: 117 -----------SSINGV-IRPGIVHRLDKDTSGLLVVAKTDEAHIKLSEALKSHQIKRIY 164
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++ GV + SG ++ PI R P NR++MA +P + A + ++V+E
Sbjct: 165 YAICEGVLKEDSGVVDAPIGRHPVNRLKMAIVP------NGKEAVTYFEVLERF--DKYT 216
Query: 312 LVEWRLETGRTHQV 325
V+ RL+TGRTHQ+
Sbjct: 217 FVKLRLKTGRTHQI 230
>gi|315282847|ref|ZP_07871166.1| ribosomal large subunit pseudouridine synthase D [Listeria marthii
FSL S4-120]
gi|313613517|gb|EFR87342.1| ribosomal large subunit pseudouridine synthase D [Listeria marthii
FSL S4-120]
Length = 302
Score = 172 bits (435), Expect = 3e-40, Method: Compositional matrix adjust.
Identities = 105/264 (39%), Positives = 155/264 (58%), Gaps = 34/264 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D I+ + G SR+ +Q +++G +++NG++ +K ++ V+ GD ++ E + L
Sbjct: 16 RVDKVIAEMM-GKSRSAIQLMLKNGDITVNGEL-AKPNYKVQVGDEIHYEAREPEELEVL 73
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AEDIPLDI +ED ++LVVNKP MVVHP+ G+A+GTLVN +L HC
Sbjct: 74 AEDIPLDIYFEDKDMLVVNKPEGMVVHPSAGHASGTLVNALLFHC--------------- 118
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
DD S I+G IRPGIVHR+DK TSGLL+VAK++H+H L++Q K T +R Y
Sbjct: 119 -----DD---LSGING-KIRPGIVHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSDREY 169
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
I+L G G IE PI R +R +MA + + A + ++V+E L G
Sbjct: 170 IALVHGDIVHQKGTIEAPIGRAKEDRQKMAVV------RDGKEARTHFEVLERLP--GFT 221
Query: 312 LVEWRLETGRTHQVLMLYKLFYIP 335
L+ +L+TGRTHQ+ + K P
Sbjct: 222 LINCKLDTGRTHQIRVHLKYIGHP 245
>gi|342217473|ref|ZP_08710117.1| pseudouridine synthase, RluA family [Megasphaera sp. UPII 135-E]
gi|341594276|gb|EGS37076.1| pseudouridine synthase, RluA family [Megasphaera sp. UPII 135-E]
Length = 305
Score = 172 bits (435), Expect = 3e-40, Method: Compositional matrix adjust.
Identities = 111/272 (40%), Positives = 151/272 (55%), Gaps = 43/272 (15%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q E ++ G +RLD ++ + ISRA Q I+ V +N K ++ + G MV
Sbjct: 4 QTYEVIEADKG-IRLDVLVAREL-AISRAFAQQLIKEEKVYVN-DCKRKANYRLDVGQMV 60
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
S+ L A E+IPLDI+YED++++VVNKP MVVHPAPGN GTLVN +L+HC
Sbjct: 61 AMEPSQPTELCATPENIPLDILYEDEHLIVVNKPRGMVVHPAPGNPAGTLVNALLYHCQ- 119
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGAS--IRPGIVHRLDKGTSGLLVVAKDEHSHA 236
S+SG + IRPGIVHRLDK TSG++VVAK + +H
Sbjct: 120 ------------------------GSLSGINGMIRPGIVHRLDKDTSGVMVVAKTDVAHR 155
Query: 237 HLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAA 296
HL+EQ K HT +R Y +L G ++ G IE PI R P +RI+MA + K+G R A
Sbjct: 156 HLAEQIKAHTAKRTYWTLVHGTLAEMRGTIEAPIGRHPKDRIKMAV---NLKNG--REAI 210
Query: 297 SRYKVIEILAGGGSALVEW---RLETGRTHQV 325
+ + V E + W +LETGRTHQ+
Sbjct: 211 THFTVQE-----RYRMYTWIACQLETGRTHQI 237
>gi|228922645|ref|ZP_04085945.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis serovar huazhongensis BGSC 4BD1]
gi|423582102|ref|ZP_17558213.1| RluA family pseudouridine synthase [Bacillus cereus VD014]
gi|423635337|ref|ZP_17610990.1| RluA family pseudouridine synthase [Bacillus cereus VD156]
gi|228837074|gb|EEM82415.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
thuringiensis serovar huazhongensis BGSC 4BD1]
gi|401212981|gb|EJR19722.1| RluA family pseudouridine synthase [Bacillus cereus VD014]
gi|401278088|gb|EJR84024.1| RluA family pseudouridine synthase [Bacillus cereus VD156]
Length = 302
Score = 172 bits (435), Expect = 3e-40, Method: Compositional matrix adjust.
Identities = 107/273 (39%), Positives = 156/273 (57%), Gaps = 33/273 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV + R+D +++ + SR +VQ I+ +V++NG+ V K ++ VK D + TI
Sbjct: 8 TVAAEQKNERIDKFVAGINNEWSRTQVQQWIKDDVVTVNGKAV-KGNYKVKEEDEITVTI 66
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E + L + ED+ L+I YED +VLVVNKP MVVHPAPG+ +GTLVNG++HHC+
Sbjct: 67 PEPEELDIQPEDLNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCT----- 121
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q
Sbjct: 122 -----------DL-------SGINGI-MRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQL 162
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
T+ R Y ++ GV G I+ PI+RD R M +++G ++A + ++V+
Sbjct: 163 VAKTVTRRYKAIVHGVIPHDKGTIDAPIARDKKERQSMTV----DENG--KNAVTHFQVL 216
Query: 303 EILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
E LVE RLETGRTHQ+ + K P
Sbjct: 217 ERFK--DFTLVECRLETGRTHQIRVHMKYIGYP 247
>gi|427418636|ref|ZP_18908819.1| ribosomal large subunit pseudouridine synthase D [Leptolyngbya sp.
PCC 7375]
gi|425761349|gb|EKV02202.1| ribosomal large subunit pseudouridine synthase D [Leptolyngbya sp.
PCC 7375]
Length = 318
Score = 172 bits (435), Expect = 3e-40, Method: Compositional matrix adjust.
Identities = 105/264 (39%), Positives = 138/264 (52%), Gaps = 33/264 (12%)
Query: 66 TKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISEL 125
T A R+D W+S D +SR R+Q I G + IN Q V GD + I E+
Sbjct: 16 TDAANERIDRWLSQNCD-LSRNRIQKLIEQGALRINDQPCINKKVIVSSGDWLQLNIPEV 74
Query: 126 QPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSN 185
+ E IPLDI+YED +LVVNKP MVVHPAPG+ GTLVN +L HC
Sbjct: 75 EAFELTPEAIPLDILYEDQYLLVVNKPPGMVVHPAPGHPKGTLVNAVLAHCG-------- 126
Query: 186 QEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLH 245
+ + + G RPGIVHRLDK T+G +VVAK E HL Q +
Sbjct: 127 --------------DQLTGVGGVQ-RPGIVHRLDKDTTGAMVVAKTEPVLHHLQGQIQAK 171
Query: 246 TIERVYISLTSGVP----SQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKV 301
T +R Y+ + GVP +Q G ++ PI R P +R +MA +P R A + +++
Sbjct: 172 TAQREYLGVVFGVPKLPENQDVGIVDAPIGRHPKDRKKMAVVPIEKG---GRRAVTHWRI 228
Query: 302 IEILAGGGSALVEWRLETGRTHQV 325
E L G LV +RLETGRTHQ+
Sbjct: 229 QERL--GNYTLVHYRLETGRTHQI 250
>gi|229168633|ref|ZP_04296355.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
AH621]
gi|228614789|gb|EEK71892.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
AH621]
Length = 302
Score = 172 bits (435), Expect = 3e-40, Method: Compositional matrix adjust.
Identities = 107/273 (39%), Positives = 155/273 (56%), Gaps = 33/273 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV + R+D +++ SR++VQ I+ +V++NG+ V K ++ VKG D + TI
Sbjct: 8 TVAEEQKSERIDKFVAEINSEWSRSQVQQWIKDAVVTVNGKSV-KGNYKVKGNDEITVTI 66
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E + L + ED+ L++ YED +VLVVNKP MVVHPAPG+ GTLVNG++HHC+
Sbjct: 67 PEPEELDIQPEDMNLEVYYEDADVLVVNKPRGMVVHPAPGHTKGTLVNGLMHHCT----- 121
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q
Sbjct: 122 -----------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQL 162
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
T+ R Y ++ GV G I+ PI RD R M +++G ++A + ++V+
Sbjct: 163 VEKTVTRRYKAIVHGVIPHDKGIIDAPIGRDKKERQSMTV----DENG--KNAVTHFQVL 216
Query: 303 EILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
E LVE RLETGRTHQ+ + K P
Sbjct: 217 ERFK--DFTLVECRLETGRTHQIRVHMKYIGYP 247
>gi|193212389|ref|YP_001998342.1| RluA family pseudouridine synthase [Chlorobaculum parvum NCIB 8327]
gi|193085866|gb|ACF11142.1| pseudouridine synthase, RluA family [Chlorobaculum parvum NCIB
8327]
Length = 349
Score = 172 bits (435), Expect = 3e-40, Method: Compositional matrix adjust.
Identities = 102/257 (39%), Positives = 152/257 (59%), Gaps = 31/257 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
+R+D +++ +++ ++R +VQ++I G V +NG+ V K ++ VK D ++ T L+P
Sbjct: 34 MRIDRYLTQQVENMTRNKVQAAIEEGRVLVNGKPV-KSNYRVKSCDHIHLTF--LRPPAP 90
Query: 131 E--AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEA 188
E EDIP+ I+YEDD+++V++K A MVVHPA GN TGTL N ILHH
Sbjct: 91 ELAPEDIPITILYEDDDLMVIDKEAGMVVHPAFGNWTGTLANAILHHLG----------- 139
Query: 189 FSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIE 248
DA+++ E +RPGIVHRLDK TSGL+++AK+ + L+ QF +E
Sbjct: 140 -KDADELDKTE----------MRPGIVHRLDKDTSGLIIIAKNPTALHKLARQFANRQVE 188
Query: 249 RVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGG 308
+VY ++ GVP SG I+ I R NR MA P G +HA + Y+V+E L G
Sbjct: 189 KVYKAIVWGVPKAESGTIKTNIGRSHKNRKVMANFPYEGAEG--KHAITDYQVVEDL--G 244
Query: 309 GSALVEWRLETGRTHQV 325
+L++ L TGRTHQ+
Sbjct: 245 YFSLMDVTLHTGRTHQI 261
>gi|86144060|ref|ZP_01062398.1| ribosomal large subunit pseudouridine synthase D [Leeuwenhoekiella
blandensis MED217]
gi|85829520|gb|EAQ47984.1| ribosomal large subunit pseudouridine synthase D [Leeuwenhoekiella
blandensis MED217]
Length = 344
Score = 172 bits (435), Expect = 3e-40, Method: Compositional matrix adjust.
Identities = 107/273 (39%), Positives = 151/273 (55%), Gaps = 38/273 (13%)
Query: 59 QLEETVDTKAGK----LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKG 114
+L E AGK LR+D ++ + I+ +R ++Q + ++G + +NG VV K +H VK
Sbjct: 15 ELYEHYSFTAGKGQEPLRVDKFLMNFIEKATRNKIQQAAKNGNIQVNGAVV-KQNHKVKA 73
Query: 115 GDMVNCTISELQPLR--AEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGI 172
D+V + E P EDIPLDIV+EDD +LVVNKPA MVVHP GN +GTL+N +
Sbjct: 74 NDVVRV-LFEHPPYEFLLTPEDIPLDIVFEDDTLLVVNKPAGMVVHPGHGNYSGTLINAL 132
Query: 173 LHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDE 232
++H F + +S RPG+VHR+DK TSGLLVVAK E
Sbjct: 133 IYH-------------------------FDNLPENSSGRPGLVHRIDKDTSGLLVVAKTE 167
Query: 233 HSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQA 292
+ HL++QF T ER YI++ G + G +E I R P NR++ + Q
Sbjct: 168 EAMTHLAKQFFDKTSEREYIAIVWGNVEEDQGTVEGHIGRHPKNRMQNTVYEDGD---QG 224
Query: 293 RHAASRYKVIEILAGGGSALVEWRLETGRTHQV 325
+ A + YKV+E L G + +LETGRTHQ+
Sbjct: 225 KEAVTHYKVLERL--GYVTKISCKLETGRTHQI 255
>gi|451941575|ref|YP_007462212.1| ribosomal large subunit pseudouridine synthase D [Bartonella
vinsonii subsp. berkhoffii str. Winnie]
gi|451900962|gb|AGF75424.1| ribosomal large subunit pseudouridine synthase D [Bartonella
vinsonii subsp. berkhoffii str. Winnie]
Length = 332
Score = 172 bits (435), Expect = 3e-40, Method: Compositional matrix adjust.
Identities = 100/275 (36%), Positives = 154/275 (56%), Gaps = 35/275 (12%)
Query: 61 EETVDTKAGKLRLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
+ D A RLD W++ + + +SR+R+Q+ IR G + ++GQ++ + ++ ++
Sbjct: 4 QRITDEDALGQRLDQWLAKQYHNALSRSRLQTLIREGCLKVDGQLIKEPKTKLRPNQIIE 63
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
T+ L+ E I LDI++EDD+V+V+NKPA +VVHP GN TGTLVN +++HC
Sbjct: 64 LTMPVLRDAEPRGEAITLDILFEDDHVIVINKPAGLVVHPGNGNWTGTLVNALIYHCG-- 121
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
S S G RPGIVHRLDK TSG++VVAK++ +H +LS
Sbjct: 122 ---------------------NSLSGIGGVKRPGIVHRLDKNTSGVMVVAKNDLAHKNLS 160
Query: 240 EQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHA 295
QF H ++R Y +L G PS++ I+ + R +NR + A + N H ARHA
Sbjct: 161 AQFSDHGRTCALDRRYHALIWGSPSRNVWTIDASLGRSSHNRTKQAVVHNQNTH--ARHA 218
Query: 296 ASRYKVIEILAGGG-----SALVEWRLETGRTHQV 325
+ + ++E ++L+E RLETGRTHQ+
Sbjct: 219 VTHFSLLEKYRTCANTPPFASLLECRLETGRTHQI 253
>gi|27382447|ref|NP_773976.1| pseudouridine synthase [Bradyrhizobium japonicum USDA 110]
gi|27355618|dbj|BAC52601.1| blr7336 [Bradyrhizobium japonicum USDA 110]
Length = 335
Score = 172 bits (435), Expect = 3e-40, Method: Compositional matrix adjust.
Identities = 105/275 (38%), Positives = 153/275 (55%), Gaps = 37/275 (13%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
+LE V G RLD +++R+ +SR+R+++ I +G VS+ V +++V GD +
Sbjct: 9 RLEVVVAGDEGSARLDRVLAARLPDLSRSRLKALILAGAVSLKASAVRDPAYHVSHGDTI 68
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
+ E P + E+I LDIV+EDD+++V+NKP +VVHPA G+ TGTLVN ++ HC
Sbjct: 69 IIDVPEAAPAEPKGEEIALDIVFEDDDIIVINKPRGLVVHPAAGHETGTLVNALIAHCG- 127
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
TL S I G RPGIVHRLDK T+GL+VVAK++ +HA L
Sbjct: 128 STL---------------------SGIGGVR-RPGIVHRLDKDTTGLMVVAKNDLAHASL 165
Query: 239 SEQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARH 294
S QF H + R Y++ GVP + G ++ PI R P R +MA G R
Sbjct: 166 SAQFADHGRTGAMRRGYMAFAWGVPGRHRGTVDAPIDRHPYAREKMAVRQGG------RE 219
Query: 295 AASRYKVIEILAGGG----SALVEWRLETGRTHQV 325
A + ++++E G +AL+ LETGRTHQ+
Sbjct: 220 AVTHWEILESFPGRDGKPIAALLACELETGRTHQI 254
>gi|449094239|ref|YP_007426730.1| hypothetical protein C663_1590 [Bacillus subtilis XF-1]
gi|449028154|gb|AGE63393.1| hypothetical protein C663_1590 [Bacillus subtilis XF-1]
Length = 303
Score = 171 bits (434), Expect = 3e-40, Method: Compositional matrix adjust.
Identities = 107/277 (38%), Positives = 154/277 (55%), Gaps = 33/277 (11%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q++ T + R+D +++S + SR +VQ ++ G V +NG V K ++ ++ GD V
Sbjct: 3 QIDITASEEQKSERIDKFLASTENDWSRTQVQQWVKDGQVVVNGSAV-KANYKIQPGDQV 61
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
T+ E + L AE + LDI YED +VLVVNKP MVVHPAPG+ TGTLVNG++ HC+
Sbjct: 62 TVTVPEPEALDVLAEPMDLDIYYEDQDVLVVNKPRGMVVHPAPGHLTGTLVNGLMAHCT- 120
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 121 ---------------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESL 157
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
Q T+ R Y ++ G+ S G I+ PI RD +R M + G++ A +
Sbjct: 158 VNQLVNKTVTRKYTAVVHGLISHDDGTIDAPIGRDKKDRQSMTV----TRDGKS--AVTH 211
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ V+E LVE +LETGRTHQ+ + K P
Sbjct: 212 FHVLERFQ--DFTLVECQLETGRTHQIRVHMKYIGFP 246
>gi|269798295|ref|YP_003312195.1| pseudouridine synthase [Veillonella parvula DSM 2008]
gi|269094924|gb|ACZ24915.1| pseudouridine synthase, RluA family [Veillonella parvula DSM 2008]
Length = 305
Score = 171 bits (434), Expect = 3e-40, Method: Compositional matrix adjust.
Identities = 103/265 (38%), Positives = 155/265 (58%), Gaps = 33/265 (12%)
Query: 61 EETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNC 120
E V + +RLD +++ +++G SR+ +QS I+ G V++ G+V K + + ++
Sbjct: 3 EYIVSAEQEGMRLDVFLTEQMEG-SRSYIQSLIKGGHVTVGGKV-GKANLRLTPDTVIRV 60
Query: 121 TISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPT 180
I E + + + EDIPLD +YED ++++VNKP MVVHPA GN +GTLVN +L HC
Sbjct: 61 EIPEPESIEVKPEDIPLDYLYEDHDIVIVNKPRGMVVHPAVGNYSGTLVNALLFHC---- 116
Query: 181 LASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSE 240
+D+S I+G IRPGIVHRLDK TSG+++VAK++ +H L+E
Sbjct: 117 ------------KDLS-------GING-EIRPGIVHRLDKDTSGVMMVAKNDAAHIGLAE 156
Query: 241 QFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYK 300
Q K H+ R Y +L G + G I+ PI R P +R++MA + ++K A + +K
Sbjct: 157 QVKAHSARRTYWALVQGNIVEEKGTIKAPIGRHPKDRMKMAVVFENSK-----DAVTHFK 211
Query: 301 VIEILAGGGSALVEWRLETGRTHQV 325
V+ G LVE LETGRTHQ+
Sbjct: 212 VLARY--GHQTLVECNLETGRTHQI 234
>gi|424885737|ref|ZP_18309348.1| pseudouridine synthase, RluA family [Rhizobium leguminosarum bv.
trifolii WSM2012]
gi|393177499|gb|EJC77540.1| pseudouridine synthase, RluA family [Rhizobium leguminosarum bv.
trifolii WSM2012]
Length = 341
Score = 171 bits (434), Expect = 3e-40, Method: Compositional matrix adjust.
Identities = 107/286 (37%), Positives = 162/286 (56%), Gaps = 36/286 (12%)
Query: 50 EPIANYAGVQLEETVDTKAGKLRLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKV 108
+P AG + T D A + RLDAW+++++ + SR+R+++ I+ G V + G+ V+
Sbjct: 3 DPFKQAAGNRKVLTADETA-EGRLDAWLTAQLGEEFSRSRIKALIKDGQVFLRGEPVTDP 61
Query: 109 SHNVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTL 168
V+ GD T+ E + + EDIPLDI++ED++V+V++KP+ +VVHP GN TGTL
Sbjct: 62 QRKVRNGDSFEITLPEPEDPTPQGEDIPLDILHEDEDVIVISKPSGLVVHPGAGNWTGTL 121
Query: 169 VNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVV 228
VN +++HC + S I G RPGIVHRLDK T+G++VV
Sbjct: 122 VNALIYHCG----------------------DTLSGIGGVR-RPGIVHRLDKDTTGVMVV 158
Query: 229 AKDEHSHAHLSEQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIP 284
AK++ +H HLS QF H +ER Y ++ G P +G ++ P+ R +R R A+
Sbjct: 159 AKNDIAHRHLSLQFADHGRTMPLERAYQAVVWGRPRSLTGTVDAPLGRATGDRTRR-AVK 217
Query: 285 GSNKHGQARHAASRYKVIEIL-----AGGGSALVEWRLETGRTHQV 325
+ H A A + Y+VIE A ++LVE LETGRTHQ+
Sbjct: 218 RPDSH-DADEAITHYEVIERFQENPDATALASLVECHLETGRTHQI 262
>gi|227872363|ref|ZP_03990714.1| pseudouridylate synthase [Oribacterium sinus F0268]
gi|227841792|gb|EEJ52071.1| pseudouridylate synthase [Oribacterium sinus F0268]
Length = 303
Score = 171 bits (434), Expect = 3e-40, Method: Compositional matrix adjust.
Identities = 111/255 (43%), Positives = 150/255 (58%), Gaps = 32/255 (12%)
Query: 72 RLDAWISSRID-GISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
RLD ++S + D SR+ + I+ G VS+NG+ +K S VK GD ++ I E +
Sbjct: 13 RLDKYLSEQKDHDFSRSYLGKCIQEGCVSVNGEK-AKASLKVKAGDRIDFDIPEQKDPEV 71
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
E IPLDIVYEDD++LVVNK MVVHPA G+ +GTLVN +L H A S+
Sbjct: 72 LPEAIPLDIVYEDDDLLVVNKERGMVVHPAAGHYSGTLVNAVLAH------AGSS----- 120
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
SSI+G + RPGIVHR+DK T+GLL++ K++ SH L++Q + H+I R
Sbjct: 121 -----------LSSINGVN-RPGIVHRIDKDTTGLLLICKNDLSHQSLAKQLEEHSITRR 168
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y +L G + G I PI RD +R + A S KHG + A + YKV+E + S
Sbjct: 169 YHALVFGKIKEEDGIISAPIGRDEKDRKKQAI---SYKHG--KEALTHYKVLERFS--DS 221
Query: 311 ALVEWRLETGRTHQV 325
LVE RLETGRTHQ+
Sbjct: 222 TLVECRLETGRTHQI 236
>gi|406661144|ref|ZP_11069268.1| Ribosomal large subunit pseudouridine synthase D [Cecembia
lonarensis LW9]
gi|405555086|gb|EKB50136.1| Ribosomal large subunit pseudouridine synthase D [Cecembia
lonarensis LW9]
Length = 347
Score = 171 bits (434), Expect = 3e-40, Method: Compositional matrix adjust.
Identities = 106/265 (40%), Positives = 151/265 (56%), Gaps = 34/265 (12%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
VD R+D +++ ++ +R +VQ +I +G V +NG+ +K ++ +K D + +
Sbjct: 26 VDKGQTLTRIDKFLTDKVANATRNKVQQAIDAGNVLVNGKP-TKSNYKIKPLDEIKVLL- 83
Query: 124 ELQPLRAE--AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCS-LPT 180
E P E AE IPLDIVYEDD +LVVNKPA MVVHPA GN TGTLVNG++++ + LPT
Sbjct: 84 EKPPRDTEVVAEPIPLDIVYEDDQLLVVNKPAGMVVHPAHGNWTGTLVNGLVYYFNQLPT 143
Query: 181 LASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSE 240
+ G + RPG+VHR+DK TSGLLV+AK E + L+
Sbjct: 144 M------------------------PGNTGRPGLVHRIDKDTSGLLVIAKSEQAMTDLAN 179
Query: 241 QFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYK 300
QF H IER Y++L G P G I + R +R M A P + Q +HA + +K
Sbjct: 180 QFFHHQIERTYLALVWGEPKDDMGTIVAHVGRSAKDRKVMEAYPDGS---QGKHAVTHWK 236
Query: 301 VIEILAGGGSALVEWRLETGRTHQV 325
V++ L +L++ LETGRTHQ+
Sbjct: 237 VLKRLR--YVSLIQCNLETGRTHQI 259
>gi|3915406|sp|O50310.1|Y723_CHLP8 RecName: Full=Uncharacterized RNA pseudouridine synthase Cpar_0723;
AltName: Full=RNA pseudouridylate synthase; AltName:
Full=RNA-uridine isomerase
gi|2661852|emb|CAB06297.1| hypothetical protein [Prosthecochloris vibrioformis]
Length = 327
Score = 171 bits (434), Expect = 4e-40, Method: Compositional matrix adjust.
Identities = 102/257 (39%), Positives = 152/257 (59%), Gaps = 31/257 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
+R+D +++ +++ ++R +VQ++I G V +NG+ V K ++ VK D ++ T L+P
Sbjct: 12 MRIDRYLTQQVENMTRNKVQAAIEEGRVLVNGKPV-KSNYRVKSCDHIHLTF--LRPPAP 68
Query: 131 E--AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEA 188
E EDIP+ I+YEDD+++V++K A MVVHPA GN TGTL N ILHH
Sbjct: 69 ELAPEDIPITILYEDDDLMVIDKEAGMVVHPAFGNWTGTLANAILHHLG----------- 117
Query: 189 FSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIE 248
DA+++ E +RPGIVHRLDK TSGL+++AK+ + L+ QF +E
Sbjct: 118 -KDADELDKTE----------MRPGIVHRLDKDTSGLIIIAKNPTALHKLARQFANRQVE 166
Query: 249 RVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGG 308
+VY ++ GVP SG I+ I R NR MA P G +HA + Y+V+E L G
Sbjct: 167 KVYKAIVWGVPKAESGTIKTNIGRSHKNRKVMANFPYEGAEG--KHAITDYQVVEDL--G 222
Query: 309 GSALVEWRLETGRTHQV 325
+L++ L TGRTHQ+
Sbjct: 223 YFSLMDVTLHTGRTHQI 239
>gi|39995193|ref|NP_951144.1| 23S rRNA synthase [Geobacter sulfurreducens PCA]
gi|409910641|ref|YP_006889106.1| 23S rRNA pseudouridines 1911, 1915, 1917 synthase [Geobacter
sulfurreducens KN400]
gi|39981955|gb|AAR33417.1| 23S rRNA synthase [Geobacter sulfurreducens PCA]
gi|298504197|gb|ADI82920.1| 23S rRNA pseudouridines 1911, 1915, 1917 synthase [Geobacter
sulfurreducens KN400]
Length = 322
Score = 171 bits (434), Expect = 4e-40, Method: Compositional matrix adjust.
Identities = 109/263 (41%), Positives = 156/263 (59%), Gaps = 32/263 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
+V T+ RLD +++ + GI+R+ Q I G V+++ ++ K S ++GG+ V T+
Sbjct: 11 SVPTEGEAERLDQFVARSVQGITRSAAQRLIEEGRVTVDDRL-EKPSLKLRGGERVVVTV 69
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
P EAE+IPL +++ED +V+VV+KPA MVVHPA GN GTLVN +L HC+
Sbjct: 70 PPPAPAVPEAEEIPLVVLHEDGDVVVVDKPAGMVVHPAAGNPGGTLVNALLAHCT----- 124
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
D+S G IRPGIVHR+DK TSG+LVVAK + +H LS QF
Sbjct: 125 -----------DLSG--------IGGEIRPGIVHRIDKDTSGVLVVAKSDRAHESLSRQF 165
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
HT++RVY++L G P + GRIE I R P +R +M+ G+ +HG +HA + ++V
Sbjct: 166 HDHTVKRVYLALVYGSPREDKGRIEGAIGRHPTDRKKMS---GAARHG--KHAVTHWRVA 220
Query: 303 EILAGGGSALVEWRLETGRTHQV 325
G L+ RLETGRTHQ+
Sbjct: 221 ARFT--GVTLLRLRLETGRTHQI 241
>gi|239826543|ref|YP_002949167.1| pseudouridine synthase [Geobacillus sp. WCH70]
gi|239806836|gb|ACS23901.1| pseudouridine synthase, RluA family [Geobacillus sp. WCH70]
Length = 304
Score = 171 bits (434), Expect = 4e-40, Method: Compositional matrix adjust.
Identities = 107/272 (39%), Positives = 151/272 (55%), Gaps = 32/272 (11%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
+D + R+D I++ + SR++VQ I+ GLV++N Q V K ++ GD+V +
Sbjct: 8 IDAEYDNERIDKVIAALNEEWSRSKVQQWIKDGLVTVNDQHV-KANYKSSAGDVVVVRLP 66
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
E +PL E+IPLDI YED +VLVVNKP MVVHPAPG+ GTLVN +L HC+
Sbjct: 67 EPEPLHVVPENIPLDIYYEDADVLVVNKPRGMVVHPAPGHMRGTLVNALLAHCT------ 120
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L +Q
Sbjct: 121 ----------DL-------SGINGV-LRPGIVHRIDKDTSGLLMVAKNDMAHQSLVDQLV 162
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
T+ R Y ++ GV G I+ PI RD +R +M + K A + ++V+E
Sbjct: 163 KKTVTRKYKAIVHGVIPHDYGTIDAPIGRDKRDRKKMTVTEENGK-----EAVTHFRVLE 217
Query: 304 ILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
VE +LETGRTHQ+ + K P
Sbjct: 218 RFR--HYTFVECQLETGRTHQIRVHMKYIGYP 247
>gi|238018931|ref|ZP_04599357.1| hypothetical protein VEIDISOL_00791 [Veillonella dispar ATCC 17748]
gi|237864415|gb|EEP65705.1| hypothetical protein VEIDISOL_00791 [Veillonella dispar ATCC 17748]
Length = 307
Score = 171 bits (434), Expect = 4e-40, Method: Compositional matrix adjust.
Identities = 101/265 (38%), Positives = 156/265 (58%), Gaps = 33/265 (12%)
Query: 61 EETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNC 120
E V+ + +RLD +++ ++G SR+ +QS I+ G +++ G V K + + +V
Sbjct: 3 EYIVNAEQDGMRLDVFLTEHMEG-SRSYIQSLIKGGHITV-GAKVGKANLRLTPNAVVRV 60
Query: 121 TISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPT 180
I E + + + EDIPLD++YED ++++VNK MVVHPA GN +GTLVN +L+HC
Sbjct: 61 EIPEPESVEVKPEDIPLDVLYEDHDIIIVNKQRGMVVHPAVGNYSGTLVNALLYHC---- 116
Query: 181 LASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSE 240
+D+S I+G IRPGIVHRLDK TSG+++ AK++ +H L+E
Sbjct: 117 ------------KDLS-------GING-EIRPGIVHRLDKDTSGVMMAAKNDAAHIGLAE 156
Query: 241 QFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYK 300
Q K H+ +R Y++L G + G I+ PI R P +R++MA + ++K A + +
Sbjct: 157 QVKEHSAKRTYLALVQGNIVEEKGTIKAPIGRHPKDRMKMAVVFENSK-----DAVTHFN 211
Query: 301 VIEILAGGGSALVEWRLETGRTHQV 325
V+E G LVE LETGRTHQ+
Sbjct: 212 VVERF--GHQTLVECNLETGRTHQI 234
>gi|422296049|gb|EKU23348.1| pseudouridine synthase [Nannochloropsis gaditana CCMP526]
Length = 311
Score = 171 bits (433), Expect = 4e-40, Method: Compositional matrix adjust.
Identities = 98/254 (38%), Positives = 144/254 (56%), Gaps = 34/254 (13%)
Query: 81 IDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAEAEDIPLDIV 140
+ +SR+R ++ + +G +S++G+V++ S VK G + + E +P AEDIPLDI+
Sbjct: 5 FEDLSRSRCKALVEAGALSVDGEVLTDPSAKVKEGALYALKVPEPEPATPRAEDIPLDIL 64
Query: 141 YEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSDAEDISDDEE 200
+EDD+++V+NK A M VHPA GN TGTLVN +LHHC+
Sbjct: 65 FEDDDLIVINKAAGMTVHPAAGNWTGTLVNALLHHCA----------------------- 101
Query: 201 FSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPS 260
S S G RPGIVHRLDK TSG++VVAK + +H L +F H +ER Y++ G P
Sbjct: 102 GSLSGIGGVQRPGIVHRLDKDTSGVMVVAKSDRAHQGLGAKFAKHDVERAYLACVRGAPK 161
Query: 261 QSSGRIEVPISRDPNNRIRMAAIPGSNKHGQA-RHAASRYKVIEIL---AGGG-----SA 311
+ R+E + R +R + A I + H A + A + Y+ ++ AG ++
Sbjct: 162 PRADRLETRLGRSSYDRKKFAVI--DDPHSTAGKIAVTNYETLKTFGQEAGKSVGTPLAS 219
Query: 312 LVEWRLETGRTHQV 325
LVE RLETGRTHQ+
Sbjct: 220 LVECRLETGRTHQI 233
>gi|295099509|emb|CBK88598.1| ribosomal large subunit pseudouridine synthase D [Eubacterium
cylindroides T2-87]
Length = 305
Score = 171 bits (433), Expect = 4e-40, Method: Compositional matrix adjust.
Identities = 106/265 (40%), Positives = 151/265 (56%), Gaps = 33/265 (12%)
Query: 61 EETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNC 120
E +D + K+R+D ++S +D SR RV+ + G + +NG K S+ ++ GD +
Sbjct: 5 EFIIDDENAKIRVDKAVASLLD-FSRKRVKDILDEGNILVNGSP-CKASYILQEGDHLLV 62
Query: 121 TISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPT 180
I E+Q L E+IPL+IVYEDD+V+V+NKP MVVHPA G+ +GTLVN +++HC
Sbjct: 63 NIPEVQSLEVLPENIPLNIVYEDDDVIVINKPKGMVVHPAFGHVSGTLVNALMYHC---- 118
Query: 181 LASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSE 240
+D+ S I+G +RPGIVHR+DK TSGLLVV K++ +H LSE
Sbjct: 119 ------------KDL-------SGINGV-MRPGIVHRIDKDTSGLLVVCKNDKAHLALSE 158
Query: 241 QFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYK 300
Q T R Y+++ S G I PI RD +R +MA ++K A + +
Sbjct: 159 QLSNKTCHREYLAIVHHPFSHEHGTINAPIGRDEKDRQKMAVTANNSK-----EAITHFT 213
Query: 301 VIEILAGGGSALVEWRLETGRTHQV 325
V+E ALV RLETGRTHQ+
Sbjct: 214 VLENFK--DYALVRCRLETGRTHQI 236
>gi|312793558|ref|YP_004026481.1| pseudouridine synthase, rlua family [Caldicellulosiruptor
kristjanssonii 177R1B]
gi|312180698|gb|ADQ40868.1| pseudouridine synthase, RluA family [Caldicellulosiruptor
kristjanssonii 177R1B]
Length = 300
Score = 171 bits (433), Expect = 4e-40, Method: Compositional matrix adjust.
Identities = 101/254 (39%), Positives = 142/254 (55%), Gaps = 32/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++S + +R+ VQ I G V +N V K ++ VK GD++ I E + L
Sbjct: 9 RLDKYLSEALSK-TRSFVQKIIEEGNVWVNQTQVLKPAYKVKSGDIIKVVIPEPKQLSLV 67
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
A+DI +++VYED+++ V+NKP MVVHP GN TLVN +LH
Sbjct: 68 AQDIDIEVVYEDEHLAVINKPRGMVVHPGAGNFENTLVNALLHKFRGRL----------- 116
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
SSI+G IRPGIVHRLDK TSGLL+VAK + +H LSE K H I+R+Y
Sbjct: 117 -----------SSINGV-IRPGIVHRLDKDTSGLLIVAKTDEAHIKLSEALKSHQIKRIY 164
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++ GV + SG I PI R P NR++MA +P + A + ++V+E
Sbjct: 165 YAICEGVLKEDSGVINAPIGRHPVNRLKMAVVP------NGKEAVTYFEVLERF--DKYT 216
Query: 312 LVEWRLETGRTHQV 325
++ RL+TGRTHQ+
Sbjct: 217 FIKLRLKTGRTHQI 230
>gi|302391670|ref|YP_003827490.1| ribosomal large subunit pseudouridine synthase D [Acetohalobium
arabaticum DSM 5501]
gi|302203747|gb|ADL12425.1| ribosomal large subunit pseudouridine synthase D [Acetohalobium
arabaticum DSM 5501]
Length = 308
Score = 171 bits (433), Expect = 4e-40, Method: Compositional matrix adjust.
Identities = 97/265 (36%), Positives = 153/265 (57%), Gaps = 32/265 (12%)
Query: 61 EETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNC 120
E +D RLD +++ + + +SR+ +Q I +G V++N + K S+ ++ GD V
Sbjct: 6 EYIIDDNDVDQRLDKFLAYQNEELSRSYIQKLIDNGEVTVNKEE-KKNSYRLQVGDEVKL 64
Query: 121 TISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPT 180
I + + + + E IPL+++ ED++++V+NK A +VVHPAPG+ GTLVN +L+HC
Sbjct: 65 IIPQPEEVEIKPESIPLEVIAEDEDIVVINKQADLVVHPAPGHKQGTLVNALLYHC---- 120
Query: 181 LASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSE 240
+ S I+G IRPGIVHRLDK TSG +V AK++ +H +L +
Sbjct: 121 -------------------DNLSGING-EIRPGIVHRLDKDTSGAIVAAKNDQAHRNLVK 160
Query: 241 QFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYK 300
QFK E++Y++L G + +I+ I RDP NR RMA ++K A +R++
Sbjct: 161 QFKERRTEKIYLALVEGNIKHNKAKIDAAIGRDPYNRKRMAVTKRNSK-----QAVTRFE 215
Query: 301 VIEILAGGGSALVEWRLETGRTHQV 325
V+E G V+ +LETGRTHQ+
Sbjct: 216 VLERF--GNYTWVKLKLETGRTHQI 238
>gi|163758760|ref|ZP_02165847.1| putative ribosomal large subunit pseudouridine synthase protein
[Hoeflea phototrophica DFL-43]
gi|162284050|gb|EDQ34334.1| putative ribosomal large subunit pseudouridine synthase protein
[Hoeflea phototrophica DFL-43]
Length = 339
Score = 171 bits (433), Expect = 4e-40, Method: Compositional matrix adjust.
Identities = 103/264 (39%), Positives = 148/264 (56%), Gaps = 36/264 (13%)
Query: 72 RLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
RLDAW++ + G+SR+RV++ I +G VS+NG + H +K GD ++ + + +
Sbjct: 22 RLDAWLAEALAPGLSRSRVKALIEAGAVSVNGTPARQAKHKIKPGDEISLVVPDPEDPEP 81
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
E EDIPL I+YED +++V+NK A +VVHP GN TGTLVN ++HHC
Sbjct: 82 EGEDIPLSILYEDADLIVINKQAGLVVHPGAGNWTGTLVNALIHHCG------------- 128
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLH----T 246
+ S I G RPGIVHRLD+ T+G++VVAK + +H HL++QF H
Sbjct: 129 ---------DSLSGIGGVR-RPGIVHRLDRDTTGVMVVAKHDQAHRHLADQFADHGLTGP 178
Query: 247 IERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILA 306
+ER Y ++ G P+ G I+ + R +RIR A ++ RHA + Y V E
Sbjct: 179 LERAYQAVVWGKPAGLKGTIDAGLGR-ARDRIRRAVR--TDDAPDVRHAVTHYLVRERYG 235
Query: 307 GG-----GSALVEWRLETGRTHQV 325
+ LVE RLETGRTHQ+
Sbjct: 236 EKPDGTCAATLVECRLETGRTHQI 259
>gi|420155633|ref|ZP_14662491.1| pseudouridine synthase, RluA family [Clostridium sp. MSTE9]
gi|394758862|gb|EJF41698.1| pseudouridine synthase, RluA family [Clostridium sp. MSTE9]
Length = 308
Score = 171 bits (433), Expect = 5e-40, Method: Compositional matrix adjust.
Identities = 103/255 (40%), Positives = 146/255 (57%), Gaps = 32/255 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPL-RA 130
R D +S ++G +R+ VQ + +G V G+ +SK + V G + + + P+ +A
Sbjct: 16 RADLAVSELLEGQTRSGVQKLMLAGAVLCGGRPLSK-NDRVAEGQTIEVLLPDPAPMEQA 74
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
+ E+IPLDIVYEDD++LVVNKP MVVHPAPGN TLVN +L+HC
Sbjct: 75 KPENIPLDIVYEDDDLLVVNKPKGMVVHPAPGNRDKTLVNALLYHCG------------- 121
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
+ S I+G IRPGIVHR+DK TSGLL+VAK++ +H L+ Q K H+ R
Sbjct: 122 ---------DSLSGINGV-IRPGIVHRIDKDTSGLLIVAKNDFAHQSLAAQIKEHSFTRE 171
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y ++ G + SG ++ PI R P +R +M +R A + Y+V+E L G
Sbjct: 172 YEAVVYGHLREQSGTVDAPIGRHPTDRKKMTVT-----QKNSRRAVTHYQVLEELP--GF 224
Query: 311 ALVEWRLETGRTHQV 325
+ V RLETGRTHQ+
Sbjct: 225 SYVRLRLETGRTHQI 239
>gi|386820779|ref|ZP_10107995.1| pseudouridine synthase, RluA family [Joostella marina DSM 19592]
gi|386425885|gb|EIJ39715.1| pseudouridine synthase, RluA family [Joostella marina DSM 19592]
Length = 345
Score = 171 bits (433), Expect = 5e-40, Method: Compositional matrix adjust.
Identities = 111/279 (39%), Positives = 153/279 (54%), Gaps = 50/279 (17%)
Query: 59 QLEETVDTKAGK----LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKG 114
+L E AGK LR+D ++ + I+ +R ++Q + ++G + +NG V K +H VK
Sbjct: 14 ELYEHYSFTAGKGQEPLRVDKFLMNFIENATRNKIQQAAKNGNIYVNGTAV-KSNHKVKA 72
Query: 115 GDMVNCTISE------LQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTL 168
D V L P E+IPLD+VYEDD +LVVNK A MVVHP GN +GTL
Sbjct: 73 NDEVKVLFEHPPHEYLLTP-----ENIPLDVVYEDDTLLVVNKSAGMVVHPGHGNYSGTL 127
Query: 169 VNGILHHC-SLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLV 227
+N +++H +LP +SN+ RPG+VHR+DK TSGLLV
Sbjct: 128 INALIYHFENLP--MNSNE------------------------RPGLVHRIDKDTSGLLV 161
Query: 228 VAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIP-GS 286
VAK E + AHLS+QF T ER Y++L G + G +E I R P NR++M P G
Sbjct: 162 VAKTEEALAHLSKQFFNKTSEREYVALVWGNIEEEEGTVEGHIGRHPKNRLQMTVFPEGD 221
Query: 287 NKHGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQV 325
N + A + +KV+E G LV +LETGRTHQ+
Sbjct: 222 N----GKEAITHFKVLERF--GYVTLVSCKLETGRTHQI 254
>gi|229545666|ref|ZP_04434391.1| pseudouridylate synthase [Enterococcus faecalis TX1322]
gi|307275817|ref|ZP_07556956.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX2134]
gi|307291840|ref|ZP_07571711.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0411]
gi|422685833|ref|ZP_16744046.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX4000]
gi|422720764|ref|ZP_16777373.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0017]
gi|422734158|ref|ZP_16790452.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX1341]
gi|422739157|ref|ZP_16794340.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX2141]
gi|229309234|gb|EEN75221.1| pseudouridylate synthase [Enterococcus faecalis TX1322]
gi|306497106|gb|EFM66652.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0411]
gi|306507509|gb|EFM76640.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX2134]
gi|315029545|gb|EFT41477.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX4000]
gi|315032018|gb|EFT43950.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0017]
gi|315144961|gb|EFT88977.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX2141]
gi|315168880|gb|EFU12897.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX1341]
Length = 310
Score = 171 bits (433), Expect = 5e-40, Method: Compositional matrix adjust.
Identities = 106/277 (38%), Positives = 151/277 (54%), Gaps = 35/277 (12%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q+ T+ T+ G R+D +S + SR+++Q ++ V++NG+ V + ++ V GD +
Sbjct: 12 QINVTIQTEKG--RIDKVLSEHLPNHSRSQIQQWLKEKHVTVNGETV-RANYKVTAGDEI 68
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
TI E + L AEDIPL IVYED++V+VVNKP MVVHP+ G+ GTLVN +LHH
Sbjct: 69 VVTIPEPEALDMVAEDIPLTIVYEDNDVIVVNKPQGMVVHPSAGHPKGTLVNALLHHA-- 126
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+ S D+ +RPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 127 --------DHLSAINDV--------------VRPGIVHRIDKDTSGLLMVAKNDQAHESL 164
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
++Q K T R Y++L GV G I PI R +R A I G + A +
Sbjct: 165 AKQLKEKTSLRKYVALVHGVIPHDKGEINAPIGRSKVDRKMQAVIEG------GKEAVTH 218
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ V+E LVE +LETGRTHQ+ + K P
Sbjct: 219 FTVLERF--DAFTLVELQLETGRTHQIRVHMKYIGYP 253
>gi|387927105|ref|ZP_10129784.1| Pseudouridylate synthase, 23S RNA-specific [Bacillus methanolicus
PB1]
gi|387589249|gb|EIJ81569.1| Pseudouridylate synthase, 23S RNA-specific [Bacillus methanolicus
PB1]
Length = 303
Score = 171 bits (433), Expect = 5e-40, Method: Compositional matrix adjust.
Identities = 107/278 (38%), Positives = 155/278 (55%), Gaps = 35/278 (12%)
Query: 59 QLEETV-DTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDM 117
++E T+ D +AG R+D ISS + SR+++Q I+ G + +NGQ V K ++ D
Sbjct: 3 KMEHTILDEQAGG-RIDKLISSLNEEWSRSQIQQWIKDGQILVNGQKV-KTNYKCSLNDQ 60
Query: 118 VNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCS 177
+ I E + L E++ LDI YED +VLVVNKP MVVHPAPG+++GTLVNG++ HC
Sbjct: 61 IEIFIPEPEELDVIPEEMNLDIYYEDHDVLVVNKPKGMVVHPAPGHSSGTLVNGLMAHC- 119
Query: 178 LPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAH 237
+D+S I+G +RPGIVHR+DK TSGLL++AK++ SH
Sbjct: 120 ---------------KDLS-------GINGV-LRPGIVHRIDKDTSGLLMIAKNDFSHES 156
Query: 238 LSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAAS 297
L Q T+ R Y ++ GV G I+ P+ RDP +R MA + +HA +
Sbjct: 157 LVNQLVDKTVTRKYKAIVHGVIPHDYGTIDAPLGRDPKDRQSMAVV------DNGKHAVT 210
Query: 298 RYKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ V+E +E +LETGRTHQ+ + K P
Sbjct: 211 HFHVLERFK--DFTFIECQLETGRTHQIRVHMKYIGYP 246
>gi|422708626|ref|ZP_16766154.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0027]
gi|315037134|gb|EFT49066.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0027]
Length = 310
Score = 171 bits (433), Expect = 5e-40, Method: Compositional matrix adjust.
Identities = 106/277 (38%), Positives = 151/277 (54%), Gaps = 35/277 (12%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q+ T+ T+ G R+D +S + SR+++Q ++ V++NG+ V + ++ V GD +
Sbjct: 12 QINVTIQTEKG--RIDKVLSEHLPNHSRSQIQQWLKEKHVTVNGETV-RANYKVTAGDEI 68
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
TI E + L AEDIPL IVYED++V+VVNKP MVVHP+ G+ GTLVN +LHH
Sbjct: 69 VVTIPEPEVLDMVAEDIPLTIVYEDNDVIVVNKPQDMVVHPSAGHPKGTLVNALLHHA-- 126
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+ S D+ +RPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 127 --------DHLSAINDV--------------VRPGIVHRIDKDTSGLLMVAKNDQAHESL 164
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
++Q K T R Y++L GV G I PI R +R A I G + A +
Sbjct: 165 AKQLKEKTSLRKYVALVHGVIPHDKGEINAPIGRSKVDRKMQAVIEG------GKEAVTH 218
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ V+E LVE +LETGRTHQ+ + K P
Sbjct: 219 FTVLERF--DAFTLVELQLETGRTHQIRVHMKYIGYP 253
>gi|291514728|emb|CBK63938.1| ribosomal large subunit pseudouridine synthase D [Alistipes shahii
WAL 8301]
Length = 361
Score = 171 bits (433), Expect = 5e-40, Method: Compositional matrix adjust.
Identities = 102/264 (38%), Positives = 149/264 (56%), Gaps = 30/264 (11%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
T D +RLD +++ R++ SR R+Q++ SG + +NG+ +K S+ VK D + +
Sbjct: 34 TADKGQTPMRLDKFLTVRMEHCSRNRIQAAADSGNILVNGKA-AKSSYKVKPLDRIQIVM 92
Query: 123 S-ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTL 181
+ + AEDIPLDI YED +L+V+KPA +VVHP GN +GTLVN ++HH + +
Sbjct: 93 PYPRREVELVAEDIPLDIPYEDQWLLLVDKPAGLVVHPGVGNYSGTLVNALMHHLNKQGI 152
Query: 182 ASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQ 241
+ Q R G+VHR+DK TSGLLV+AKDE +HA L++Q
Sbjct: 153 PAEEQN-----------------------RAGLVHRIDKNTSGLLVIAKDEQTHARLAKQ 189
Query: 242 FKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKV 301
F HTI+R Y++L G + G I I R P +R +M + +HA + +KV
Sbjct: 190 FFDHTIQRRYVALVWGNFDEDEGTITGNIGRSPKDRQKMFVFADGS---DGKHAVTHWKV 246
Query: 302 IEILAGGGSALVEWRLETGRTHQV 325
++ G LVE RLETGRTHQ+
Sbjct: 247 LKRY--GYVTLVECRLETGRTHQI 268
>gi|322418237|ref|YP_004197460.1| RluA family pseudouridine synthase [Geobacter sp. M18]
gi|320124624|gb|ADW12184.1| pseudouridine synthase, RluA family [Geobacter sp. M18]
Length = 319
Score = 171 bits (432), Expect = 5e-40, Method: Compositional matrix adjust.
Identities = 106/266 (39%), Positives = 153/266 (57%), Gaps = 32/266 (12%)
Query: 60 LEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
+E T A RLD++IS + ++R+ I +G ++NGQ K + +KGG++V
Sbjct: 4 IELTFPCDADPERLDSFISRSVPELTRSAALRLIETGFATVNGQK-QKPALRLKGGEVVT 62
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
+ P + E+IPL+I+YED +V+VVNK A MVVHP GNA GTLVN +L HC
Sbjct: 63 VIVPPPTPAEPQPEEIPLEILYEDADVVVVNKGAGMVVHPGAGNAEGTLVNALLAHC--- 119
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
+D+S G +RPGIVHR+DK TSG LV+AK + +H L+
Sbjct: 120 -------------KDLSG--------IGGELRPGIVHRIDKDTSGTLVIAKSDRAHNGLA 158
Query: 240 EQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRY 299
EQFK+H+I+R+Y++L G P + G IE I R P R +M+ G +HG ++A + +
Sbjct: 159 EQFKVHSIKRIYLALVYGSPKEERGHIESVIGRHPVERKKMS---GKARHG--KNAITHW 213
Query: 300 KVIEILAGGGSALVEWRLETGRTHQV 325
+V G LV +LETGRTHQ+
Sbjct: 214 RVEARYP--GITLVRLKLETGRTHQI 237
>gi|307273068|ref|ZP_07554314.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0855]
gi|422695134|ref|ZP_16753122.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX4244]
gi|422728751|ref|ZP_16785157.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0012]
gi|424761167|ref|ZP_18188749.1| pseudouridine synthase, RluA family [Enterococcus faecalis R508]
gi|306510053|gb|EFM79077.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0855]
gi|315147417|gb|EFT91433.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX4244]
gi|315150758|gb|EFT94774.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0012]
gi|402402430|gb|EJV35146.1| pseudouridine synthase, RluA family [Enterococcus faecalis R508]
Length = 310
Score = 171 bits (432), Expect = 5e-40, Method: Compositional matrix adjust.
Identities = 106/277 (38%), Positives = 151/277 (54%), Gaps = 35/277 (12%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q+ T+ T+ G R+D +S + SR+++Q ++ V++NG+ V + ++ V GD +
Sbjct: 12 QINVTIQTEKG--RIDKVLSEHLPNHSRSQIQQWLKEKHVTVNGETV-RANYKVTAGDEI 68
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
TI E + L AEDIPL IVYED++V+VVNKP MVVHP+ G+ GTLVN +LHH
Sbjct: 69 VVTIPEPEVLDMVAEDIPLTIVYEDNDVIVVNKPQGMVVHPSAGHPNGTLVNALLHHA-- 126
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+ S D+ +RPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 127 --------DHLSAINDV--------------VRPGIVHRIDKDTSGLLMVAKNDQAHESL 164
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
++Q K T R Y++L GV G I PI R +R A I G + A +
Sbjct: 165 AKQLKEKTSLRKYVALVHGVIPHDKGEINAPIGRSKVDRKMQAVIEG------GKEAVTH 218
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ V+E LVE +LETGRTHQ+ + K P
Sbjct: 219 FTVLERF--DAFTLVELQLETGRTHQIRVHMKYIGYP 253
>gi|259503429|ref|ZP_05746331.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
antri DSM 16041]
gi|259168507|gb|EEW53002.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
antri DSM 16041]
Length = 303
Score = 171 bits (432), Expect = 5e-40, Method: Compositional matrix adjust.
Identities = 106/261 (40%), Positives = 142/261 (54%), Gaps = 36/261 (13%)
Query: 65 DTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISE 124
DT G R+D ++ SR+++Q I G V +NG+ V K + GD V
Sbjct: 10 DTLTG--RVDKALAHHFRQFSRSQLQKWIADGNVQVNGEAV-KAKAKLAVGDQVVIKPEA 66
Query: 125 LQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASS 184
Q + E IPLDIVYEDD+V+VVNKP MVVHPAPG+ TLVN +L+HC L
Sbjct: 67 PQKIDLVPEKIPLDIVYEDDDVIVVNKPQGMVVHPAPGHPDHTLVNALLYHCPL------ 120
Query: 185 NQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKL 244
S+I+G RPGIVHR+DK TSGLL+VAK++ +H L+ Q K
Sbjct: 121 ------------------STING-EFRPGIVHRIDKDTSGLLMVAKNDLAHRSLAAQLKA 161
Query: 245 HTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEI 304
T +R Y++L GV Q +G ++ PI R +R + A + RHA + +KV+E
Sbjct: 162 KTNQREYVALVHGVIKQDAGTVDAPIGRSKKDRKKQAIV------SDGRHAVTHFKVLER 215
Query: 305 LAGGGSALVEWRLETGRTHQV 325
LV RLETGRTHQ+
Sbjct: 216 FR--HYTLVSCRLETGRTHQI 234
>gi|418033307|ref|ZP_12671784.1| hypothetical protein BSSC8_27280 [Bacillus subtilis subsp. subtilis
str. SC-8]
gi|351469455|gb|EHA29631.1| hypothetical protein BSSC8_27280 [Bacillus subtilis subsp. subtilis
str. SC-8]
Length = 303
Score = 171 bits (432), Expect = 5e-40, Method: Compositional matrix adjust.
Identities = 106/277 (38%), Positives = 151/277 (54%), Gaps = 33/277 (11%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q++ T + R+D +++S + SR +VQ ++ G V +NG V K ++ ++ GD V
Sbjct: 3 QIDITASEEQKSERIDKFLASTENDWSRTQVQQWVKDGQVVVNGSAV-KANYKIQPGDQV 61
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
T+ E + L AE + LDI YED +VLVVNKP MVVHPAPG+ TGTLVNG++ HC
Sbjct: 62 TVTVPEPEALDVLAEPMDLDIYYEDQDVLVVNKPRGMVVHPAPGHLTGTLVNGLMAHCI- 120
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 121 ---------------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESL 157
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
Q T+ R Y ++ G+ S G I+ PI RD +R M ++A +
Sbjct: 158 VNQLVNKTVTRKYTAVVHGLISHDDGTIDAPIGRDKKDRQSMTVT------RDGKNAVTH 211
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ V+E LVE +LETGRTHQ+ + K P
Sbjct: 212 FHVLERFQ--DFTLVECQLETGRTHQIRVHMKYIGFP 246
>gi|326692704|ref|ZP_08229709.1| ribosomal large subunit pseudouridine synthase D [Leuconostoc
argentinum KCTC 3773]
Length = 308
Score = 171 bits (432), Expect = 5e-40, Method: Compositional matrix adjust.
Identities = 103/254 (40%), Positives = 148/254 (58%), Gaps = 34/254 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+DA ++++ SR + + ++SG V +NGQ V + S+ V GD+++ +QP
Sbjct: 15 RIDAILANQNLPYSRTVLANWVQSGEVLVNGQRVKR-SYKVAAGDVISIQPPAVQPTEIV 73
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AE +PLDIVYED ++LVVNKP MVVHPA G+ +GTLVNG+LHH L
Sbjct: 74 AEAMPLDIVYEDADLLVVNKPQGMVVHPAAGHTSGTLVNGLLHHAPL------------- 120
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
S+I+G RPGIVHR+D+ TSGLL+VAK++ +H LS Q K H +R+Y
Sbjct: 121 -----------STING-EFRPGIVHRIDRDTSGLLMVAKNDQAHQALSAQLKAHKNDRIY 168
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+L G +++G I PI+R +R + A G R A + ++VI G
Sbjct: 169 YALVRGEFEENTGTINAPIARHAIDRKKQAVQEG------GREAVTHFEVIARYV--GYT 220
Query: 312 LVEWRLETGRTHQV 325
L++ RLETGRTHQ+
Sbjct: 221 LLKVRLETGRTHQI 234
>gi|16801023|ref|NP_471291.1| hypothetical protein lin1957 [Listeria innocua Clip11262]
gi|422413387|ref|ZP_16490346.1| ribosomal large subunit pseudouridine synthase D [Listeria innocua
FSL S4-378]
gi|16414458|emb|CAC97187.1| lin1957 [Listeria innocua Clip11262]
gi|313618258|gb|EFR90322.1| ribosomal large subunit pseudouridine synthase D [Listeria innocua
FSL S4-378]
Length = 302
Score = 171 bits (432), Expect = 5e-40, Method: Compositional matrix adjust.
Identities = 103/254 (40%), Positives = 151/254 (59%), Gaps = 34/254 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D I+ ++ SR+ +Q +++G +++NG++ +K ++ V+ GD + E + L
Sbjct: 16 RVDKVIAEMMEK-SRSAIQLMLKNGDITVNGEL-AKPNYKVQVGDEIRYEAREPEELEIL 73
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AEDIPLDI +ED ++LVVNKP MVVHP+ G+A+GTLVN +L HC
Sbjct: 74 AEDIPLDIYFEDKDMLVVNKPEGMVVHPSAGHASGTLVNALLFHC--------------- 118
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
DD S I+G IRPGIVHR+DK TSGLL+VAK++H+H L++Q K T +R Y
Sbjct: 119 -----DD---LSGING-KIRPGIVHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSDREY 169
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
I+L G G IE PI R +R +MA + + A + ++VIE L G
Sbjct: 170 IALVHGDIVHQKGTIEAPIGRAKEDRQKMAVV------RDGKEARTHFEVIERLP--GYT 221
Query: 312 LVEWRLETGRTHQV 325
L+ +L+TGRTHQ+
Sbjct: 222 LINCKLDTGRTHQI 235
>gi|322437152|ref|YP_004219364.1| pseudouridine synthase [Granulicella tundricola MP5ACTX9]
gi|321164879|gb|ADW70584.1| pseudouridine synthase, RluA family [Granulicella tundricola
MP5ACTX9]
Length = 371
Score = 171 bits (432), Expect = 5e-40, Method: Compositional matrix adjust.
Identities = 108/269 (40%), Positives = 147/269 (54%), Gaps = 34/269 (12%)
Query: 65 DTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCT-IS 123
D A +RLDA+++ + ISRARVQ I +G V ++G V K +KGG+ +
Sbjct: 53 DVAAAGMRLDAYLAQALPDISRARVQILIEAGQVKVDG-AVPKAKAKLKGGETIEIEGQP 111
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNAT-----GTLVNGILHHCSL 178
+L+PL A EDIPL IVYED+ + VVNKPA M+VH G+ GTLVN +L H
Sbjct: 112 QLEPLHAIPEDIPLQIVYEDEYLAVVNKPAGMMVHAGAGSTDDERNRGTLVNAVLFHMG- 170
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+D S S G +RPGIVHRLDK TSGL+VVAKD+ +H L
Sbjct: 171 ---------------KTAD----SLSGVGGELRPGIVHRLDKQTSGLIVVAKDDVTHRRL 211
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
E F + + Y++L G ++ + +PI+RD RIRM + + G R A S
Sbjct: 212 GEMFSERRVSKTYLTLAHGELKKADTTVSLPIARDLVRRIRM-----TTRRGDGRSAVSH 266
Query: 299 YKVIEILAG--GGSALVEWRLETGRTHQV 325
+ V+E L G VE ++ETGRTHQ+
Sbjct: 267 FHVLERLDTPYGKFTFVEVKIETGRTHQI 295
>gi|256959131|ref|ZP_05563302.1| pseudouridylate synthase [Enterococcus faecalis DS5]
gi|256949627|gb|EEU66259.1| pseudouridylate synthase [Enterococcus faecalis DS5]
Length = 301
Score = 171 bits (432), Expect = 6e-40, Method: Compositional matrix adjust.
Identities = 106/277 (38%), Positives = 151/277 (54%), Gaps = 35/277 (12%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q+ T+ T+ G R+D +S + SR+++Q ++ V++NG+ V + ++ V GD +
Sbjct: 3 QINVTIQTEKG--RIDKVLSEHLPNHSRSQIQQWLKEKHVTVNGETV-RANYKVTAGDEI 59
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
TI E + L AEDIPL IVYED++V+VVNKP MVVHP+ G+ GTLVN +LHH
Sbjct: 60 VVTIPEPEVLDMVAEDIPLTIVYEDNDVIVVNKPQDMVVHPSAGHPKGTLVNALLHHA-- 117
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+ S D+ +RPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 118 --------DHLSAINDV--------------VRPGIVHRIDKDTSGLLMVAKNDQAHESL 155
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
++Q K T R Y++L GV G I PI R +R A I G + A +
Sbjct: 156 AKQLKEKTSLRKYVALVHGVIPHDKGEINAPIGRSKVDRKMQAVIEG------GKEAVTH 209
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ V+E LVE +LETGRTHQ+ + K P
Sbjct: 210 FTVLERF--DAFTLVELQLETGRTHQIRVHMKYIGYP 244
>gi|256619215|ref|ZP_05476061.1| pseudouridylate synthase [Enterococcus faecalis ATCC 4200]
gi|256853277|ref|ZP_05558647.1| pseudouridylate synthase [Enterococcus faecalis T8]
gi|300860210|ref|ZP_07106297.1| pseudouridine synthase, RluA family [Enterococcus faecalis TUSoD
Ef11]
gi|428767158|ref|YP_007153269.1| pseudouridylate synthase, 23S rRNA-specific [Enterococcus faecalis
str. Symbioflor 1]
gi|256598742|gb|EEU17918.1| pseudouridylate synthase [Enterococcus faecalis ATCC 4200]
gi|256711736|gb|EEU26774.1| pseudouridylate synthase [Enterococcus faecalis T8]
gi|300849249|gb|EFK76999.1| pseudouridine synthase, RluA family [Enterococcus faecalis TUSoD
Ef11]
gi|427185331|emb|CCO72555.1| pseudouridylate synthase, 23S rRNA-specific [Enterococcus faecalis
str. Symbioflor 1]
Length = 301
Score = 171 bits (432), Expect = 6e-40, Method: Compositional matrix adjust.
Identities = 106/277 (38%), Positives = 151/277 (54%), Gaps = 35/277 (12%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q+ T+ T+ G R+D +S + SR+++Q ++ V++NG+ V + ++ V GD +
Sbjct: 3 QINVTIQTEKG--RIDKVLSEHLPNHSRSQIQQWLKEKHVTVNGETV-RANYKVTAGDEI 59
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
TI E + L AEDIPL IVYED++V+VVNKP MVVHP+ G+ GTLVN +LHH
Sbjct: 60 VVTIPEPEALDMVAEDIPLTIVYEDNDVIVVNKPQGMVVHPSAGHPKGTLVNALLHHA-- 117
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+ S D+ +RPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 118 --------DHLSAINDV--------------VRPGIVHRIDKDTSGLLMVAKNDQAHESL 155
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
++Q K T R Y++L GV G I PI R +R A I G + A +
Sbjct: 156 AKQLKEKTSLRKYVALVHGVIPHDKGEINAPIGRSKVDRKMQAVIEG------GKEAVTH 209
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ V+E LVE +LETGRTHQ+ + K P
Sbjct: 210 FTVLERF--DAFTLVELQLETGRTHQIRVHMKYIGYP 244
>gi|227544604|ref|ZP_03974653.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
reuteri CF48-3A]
gi|338204549|ref|YP_004650694.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
reuteri SD2112]
gi|227185411|gb|EEI65482.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
reuteri CF48-3A]
gi|336449789|gb|AEI58404.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
reuteri SD2112]
Length = 303
Score = 171 bits (432), Expect = 6e-40, Method: Compositional matrix adjust.
Identities = 107/269 (39%), Positives = 148/269 (55%), Gaps = 39/269 (14%)
Query: 59 QLEETVDTKAGKL--RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGD 116
+LE T+D G++ R+D + D SR+++Q I G V +NG+ V K + + GD
Sbjct: 4 ELELTID---GEMVGRIDKQLGHHFDQFSRSQIQHWIEDGHVLVNGEQV-KPKYKLLVGD 59
Query: 117 MVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC 176
V E Q + EDIPLDIVYEDD+V+VVNKP MVVHPAPG+ TLVN +L+H
Sbjct: 60 HVQIIPEEPQKIDLTPEDIPLDIVYEDDDVIVVNKPQGMVVHPAPGHPNHTLVNALLYHS 119
Query: 177 SLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHA 236
L S+I+G RPGIVHR+DK TSGLL+VAK++ +H
Sbjct: 120 PL------------------------STING-EFRPGIVHRIDKDTSGLLMVAKNDMAHR 154
Query: 237 HLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAA 296
L+ Q K T +R Y++L GV + G I+ P+ R +R + A + RHA
Sbjct: 155 SLTAQLKAKTNKREYVALVHGVIKEDKGTIDAPLGRSLKDRKKQAVV------VDGRHAI 208
Query: 297 SRYKVIEILAGGGSALVEWRLETGRTHQV 325
+ + V+E LV +LETGRTHQ+
Sbjct: 209 THFNVLERFK--NYTLVACQLETGRTHQI 235
>gi|377809731|ref|YP_005004952.1| RluA family pseudouridine synthase [Pediococcus claussenii ATCC
BAA-344]
gi|361056472|gb|AEV95276.1| pseudouridine synthase, RluA family protein [Pediococcus claussenii
ATCC BAA-344]
Length = 301
Score = 171 bits (432), Expect = 6e-40, Method: Compositional matrix adjust.
Identities = 99/255 (38%), Positives = 144/255 (56%), Gaps = 36/255 (14%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQ-VVSKVSHNVKGGDMVNCTISELQPLRA 130
R+D I+ ++R+R+Q+ I+ G V +NG+ V++ +V GD V I + +P
Sbjct: 15 RIDKTITKNFSELTRSRIQNLIKHGNVLVNGESTVNRYKLSV--GDYVQILIPDPEPTEV 72
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
E + LDI+YEDD+V+V+NKP MVVHPAPG+ GTLVNG+L H L T+
Sbjct: 73 IPEKMNLDIIYEDDDVIVINKPQGMVVHPAPGHKNGTLVNGLLAHTPLATI--------- 123
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
RPGIVHR+DK TSGLL+VAK++ + LS+Q K T +R
Sbjct: 124 ----------------NGEFRPGIVHRIDKDTSGLLMVAKNDDALISLSKQLKDKTTKRR 167
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y+++ G ++ SG+I+ PI R +R +M I RHA + +KV++ G
Sbjct: 168 YLAIVHGNITEDSGKIDAPIGRSKKDRKKMDVI------ADGRHAVTHFKVLKRF--GEY 219
Query: 311 ALVEWRLETGRTHQV 325
L+E LETGRTHQ+
Sbjct: 220 TLIECILETGRTHQI 234
>gi|423098750|ref|ZP_17086458.1| pseudouridine synthase, RluA family [Listeria innocua ATCC 33091]
gi|370794577|gb|EHN62340.1| pseudouridine synthase, RluA family [Listeria innocua ATCC 33091]
Length = 302
Score = 171 bits (432), Expect = 6e-40, Method: Compositional matrix adjust.
Identities = 103/254 (40%), Positives = 151/254 (59%), Gaps = 34/254 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D I+ ++ SR+ +Q +++G +++NG++ +K ++ V+ GD + E + L
Sbjct: 16 RVDKVIAEMMEK-SRSAIQLMLKNGDITVNGEL-AKPNYKVQVGDEIRYEAREPEELEIL 73
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AEDIPLDI +ED ++LVVNKP MVVHP+ G+A+GTLVN +L HC
Sbjct: 74 AEDIPLDIYFEDKDMLVVNKPEGMVVHPSAGHASGTLVNALLFHC--------------- 118
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
DD S I+G IRPGIVHR+DK TSGLL+VAK++H+H L++Q K T +R Y
Sbjct: 119 -----DD---LSGING-KIRPGIVHRIDKDTSGLLMVAKNDHAHESLAKQLKDKTSDREY 169
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
I+L G G IE PI R +R +MA + + A + ++VIE L G
Sbjct: 170 IALVHGDIIHQKGMIEAPIGRAKEDRQKMAVV------RDGKEARTHFEVIERLP--GYT 221
Query: 312 LVEWRLETGRTHQV 325
L+ +L+TGRTHQ+
Sbjct: 222 LINCKLDTGRTHQI 235
>gi|443632785|ref|ZP_21116964.1| pseudouridylate synthase [Bacillus subtilis subsp. inaquosorum KCTC
13429]
gi|443347608|gb|ELS61666.1| pseudouridylate synthase [Bacillus subtilis subsp. inaquosorum KCTC
13429]
Length = 303
Score = 171 bits (432), Expect = 6e-40, Method: Compositional matrix adjust.
Identities = 106/277 (38%), Positives = 152/277 (54%), Gaps = 33/277 (11%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q++ T + R+D +++S + SR +VQ ++ G V +NG V K ++ ++ GD V
Sbjct: 3 QIDITASEEQKSERIDKFLASTENDWSRTQVQQWVKDGQVVVNGSPV-KSNYKIQPGDQV 61
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
T+ E + L AE + LDI YED +VLVVNKP MVVHPAPG+ TGTLVNG++ HC+
Sbjct: 62 TVTVPEPEALDVLAEPMDLDIYYEDQDVLVVNKPRGMVVHPAPGHLTGTLVNGLMAHCT- 120
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 121 ---------------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESL 157
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
Q T+ R Y ++ G+ S G I+ PI RD +R M ++A +
Sbjct: 158 VNQLVNKTVTRKYTAVVHGLISHDDGTIDAPIGRDKKDRQSMTVT------RDGKNAVTH 211
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ V+E LVE +LETGRTHQ+ + K P
Sbjct: 212 FHVLERFQ--DFTLVECQLETGRTHQIRVHMKYIGFP 246
>gi|328542559|ref|YP_004302668.1| RNA-pseudouridylate synthase, ribosomal large subunit D
[Polymorphum gilvum SL003B-26A1]
gi|326412305|gb|ADZ69368.1| RNA-pseudouridylate synthase protein, ribosomal large subunit D
[Polymorphum gilvum SL003B-26A1]
Length = 346
Score = 171 bits (432), Expect = 6e-40, Method: Compositional matrix adjust.
Identities = 105/266 (39%), Positives = 154/266 (57%), Gaps = 37/266 (13%)
Query: 68 AGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQP 127
AGK RLDA +++ + +SR RVQ+ IRSG V+++G + + + V G + + E +
Sbjct: 30 AGK-RLDAVLAAHLADLSRTRVQALIRSGEVTVDGGKIVEPKYRVNEGATLALGLPEPEE 88
Query: 128 LRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQE 187
+ EDIPL +VYEDD+++V++KPA +VVHP GN TGTLVN ++ HC
Sbjct: 89 AEPKGEDIPLVVVYEDDDLIVIDKPAGLVVHPGAGNWTGTLVNALIRHCG---------- 138
Query: 188 AFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLH-- 245
+ S I G RPGIVHRLDK TSGLLVVAK + +H LSEQF H
Sbjct: 139 ------------DSLSGIGGVR-RPGIVHRLDKETSGLLVVAKTDAAHKGLSEQFADHGR 185
Query: 246 --TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
+ER Y +L G P+ G ++ ++R NR +++ + ++G RHA + ++V+E
Sbjct: 186 SGPLERAYAALVWGAPATLRGTVDANLARSDANRQKISVV----RNG-GRHAVTHWQVLE 240
Query: 304 ILAGGG----SALVEWRLETGRTHQV 325
++L+E RLETGRTHQ+
Sbjct: 241 RFGPADQPAVASLLECRLETGRTHQI 266
>gi|407769550|ref|ZP_11116925.1| pseudouridylate synthase, 23S RNA-specific [Thalassospira
xiamenensis M-5 = DSM 17429]
gi|407287472|gb|EKF12953.1| pseudouridylate synthase, 23S RNA-specific [Thalassospira
xiamenensis M-5 = DSM 17429]
Length = 333
Score = 171 bits (432), Expect = 6e-40, Method: Compositional matrix adjust.
Identities = 109/256 (42%), Positives = 142/256 (55%), Gaps = 30/256 (11%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +++ SR+R++S I +G + +N ++K+S+ VK GD I
Sbjct: 24 RLDKVLATAWPEQSRSRIKSLIENGHLLLNDTPIAKMSYKVKSGDRFALEIPPAVAADPI 83
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AE I LDI+YEDD++LV+NKPA MVVHPA GN +GTLVN +L HC
Sbjct: 84 AEKIALDILYEDDDLLVINKPAGMVVHPAAGNESGTLVNALLAHCG-------------- 129
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF--KLHTIER 249
+ S I G RPGIVHRLDK TSG +VVAK++ +H LS F IER
Sbjct: 130 --------DSLSGIGGVK-RPGIVHRLDKDTSGAMVVAKNDATHRALSTLFSEDKENIER 180
Query: 250 VYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGG 309
YI++ GVP Q G IE I R P NR +MA + K A +RYKV+
Sbjct: 181 AYIAVVWGVPRQIEGVIEGNIGRSPRNRKKMAVLRNGGK-----PALTRYKVLAKRDDSL 235
Query: 310 SALVEWRLETGRTHQV 325
++LVE RL TGRTHQ+
Sbjct: 236 ASLVECRLLTGRTHQI 251
>gi|227518911|ref|ZP_03948960.1| pseudouridylate synthase [Enterococcus faecalis TX0104]
gi|229549858|ref|ZP_04438583.1| pseudouridylate synthase [Enterococcus faecalis ATCC 29200]
gi|293383481|ref|ZP_06629394.1| ribosomal large subunit pseudouridine synthase D [Enterococcus
faecalis R712]
gi|293388864|ref|ZP_06633350.1| ribosomal large subunit pseudouridine synthase D [Enterococcus
faecalis S613]
gi|307269533|ref|ZP_07550872.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX4248]
gi|307277912|ref|ZP_07558996.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0860]
gi|307289260|ref|ZP_07569216.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0109]
gi|312901873|ref|ZP_07761138.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0470]
gi|312907690|ref|ZP_07766681.1| pseudouridine synthase, RluA family [Enterococcus faecalis DAPTO
512]
gi|312910308|ref|ZP_07769155.1| pseudouridine synthase, RluA family [Enterococcus faecalis DAPTO
516]
gi|312951652|ref|ZP_07770547.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0102]
gi|384513397|ref|YP_005708490.1| ribosomal large subunit pseudouridine synthase D [Enterococcus
faecalis OG1RF]
gi|422692868|ref|ZP_16750883.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0031]
gi|422699060|ref|ZP_16756933.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX1346]
gi|422701912|ref|ZP_16759752.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX1342]
gi|422704628|ref|ZP_16762438.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX1302]
gi|422706513|ref|ZP_16764211.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0043]
gi|422714465|ref|ZP_16771191.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0309A]
gi|422715722|ref|ZP_16772438.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0309B]
gi|422727205|ref|ZP_16783648.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0312]
gi|422731593|ref|ZP_16787951.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0645]
gi|422869198|ref|ZP_16915718.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX1467]
gi|424676609|ref|ZP_18113480.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV103]
gi|424681575|ref|ZP_18118362.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV116]
gi|424683765|ref|ZP_18120515.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV129]
gi|424686331|ref|ZP_18122999.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV25]
gi|424690397|ref|ZP_18126932.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV31]
gi|424695490|ref|ZP_18131873.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV37]
gi|424696771|ref|ZP_18133112.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV41]
gi|424699843|ref|ZP_18136054.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV62]
gi|424703143|ref|ZP_18139277.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV63]
gi|424707360|ref|ZP_18143344.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV65]
gi|424716980|ref|ZP_18146278.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV68]
gi|424720558|ref|ZP_18149659.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV72]
gi|424724107|ref|ZP_18153056.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV73]
gi|424733698|ref|ZP_18162253.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV81]
gi|424744003|ref|ZP_18172308.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV85]
gi|424750489|ref|ZP_18178553.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV93]
gi|227073600|gb|EEI11563.1| pseudouridylate synthase [Enterococcus faecalis TX0104]
gi|229305127|gb|EEN71123.1| pseudouridylate synthase [Enterococcus faecalis ATCC 29200]
gi|291079272|gb|EFE16636.1| ribosomal large subunit pseudouridine synthase D [Enterococcus
faecalis R712]
gi|291081789|gb|EFE18752.1| ribosomal large subunit pseudouridine synthase D [Enterococcus
faecalis S613]
gi|306499969|gb|EFM69330.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0109]
gi|306505309|gb|EFM74495.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0860]
gi|306514153|gb|EFM82729.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX4248]
gi|310626718|gb|EFQ10001.1| pseudouridine synthase, RluA family [Enterococcus faecalis DAPTO
512]
gi|310630369|gb|EFQ13652.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0102]
gi|311289581|gb|EFQ68137.1| pseudouridine synthase, RluA family [Enterococcus faecalis DAPTO
516]
gi|311291066|gb|EFQ69622.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0470]
gi|315152327|gb|EFT96343.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0031]
gi|315156128|gb|EFU00145.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0043]
gi|315158230|gb|EFU02247.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0312]
gi|315162361|gb|EFU06378.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0645]
gi|315163874|gb|EFU07891.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX1302]
gi|315169613|gb|EFU13630.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX1342]
gi|315172438|gb|EFU16455.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX1346]
gi|315576067|gb|EFU88258.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0309B]
gi|315580642|gb|EFU92833.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0309A]
gi|327535286|gb|AEA94120.1| ribosomal large subunit pseudouridine synthase D [Enterococcus
faecalis OG1RF]
gi|329571882|gb|EGG53560.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX1467]
gi|402350674|gb|EJU85572.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV116]
gi|402356621|gb|EJU91352.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV103]
gi|402364130|gb|EJU98573.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV129]
gi|402364240|gb|EJU98682.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV31]
gi|402367865|gb|EJV02202.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV25]
gi|402368185|gb|EJV02505.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV37]
gi|402375342|gb|EJV09329.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV62]
gi|402377100|gb|EJV11011.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV41]
gi|402384958|gb|EJV18499.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV65]
gi|402385148|gb|EJV18688.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV63]
gi|402386328|gb|EJV19834.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV68]
gi|402391311|gb|EJV24622.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV81]
gi|402393029|gb|EJV26259.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV72]
gi|402395918|gb|EJV28995.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV73]
gi|402399426|gb|EJV32298.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV85]
gi|402406788|gb|EJV39334.1| pseudouridine synthase, RluA family [Enterococcus faecalis ERV93]
Length = 310
Score = 171 bits (432), Expect = 6e-40, Method: Compositional matrix adjust.
Identities = 106/277 (38%), Positives = 151/277 (54%), Gaps = 35/277 (12%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q+ T+ T+ G R+D +S + SR+++Q ++ V++NG+ V + ++ V GD +
Sbjct: 12 QINVTIQTEKG--RIDKVLSEHLPNHSRSQIQQWLKEKHVTVNGETV-RANYKVTAGDEI 68
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
TI E + L AEDIPL IVYED++V+VVNKP MVVHP+ G+ GTLVN +LHH
Sbjct: 69 VVTIPEPEVLDMVAEDIPLTIVYEDNDVIVVNKPQGMVVHPSAGHPKGTLVNALLHHA-- 126
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+ S D+ +RPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 127 --------DHLSAINDV--------------VRPGIVHRIDKDTSGLLMVAKNDQAHESL 164
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
++Q K T R Y++L GV G I PI R +R A I G + A +
Sbjct: 165 AKQLKEKTSLRKYVALVHGVIPHDKGEINAPIGRSKVDRKMQAVIEG------GKEAVTH 218
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ V+E LVE +LETGRTHQ+ + K P
Sbjct: 219 FTVLERF--DAFTLVELQLETGRTHQIRVHMKYIGYP 253
>gi|428279141|ref|YP_005560876.1| hypothetical protein BSNT_02552 [Bacillus subtilis subsp. natto
BEST195]
gi|291484098|dbj|BAI85173.1| hypothetical protein BSNT_02552 [Bacillus subtilis subsp. natto
BEST195]
Length = 303
Score = 171 bits (432), Expect = 6e-40, Method: Compositional matrix adjust.
Identities = 106/277 (38%), Positives = 154/277 (55%), Gaps = 33/277 (11%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q++ T + R+D +++S + SR +VQ ++ G V +NG V K ++ ++ GD V
Sbjct: 3 QIDITASEEQKSERIDKFLASSENDWSRTQVQQWVKDGQVVVNGSAV-KANYKIQPGDQV 61
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
T+ E + L AE + LDI YED +VLVVNKP MVVHPAPG+ TGTLVNG++ HC+
Sbjct: 62 TVTVPEPEALDVLAEPMDLDIYYEDQDVLVVNKPRGMVVHPAPGHLTGTLVNGLMAHCT- 120
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 121 ---------------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESL 157
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
Q T+ R Y ++ G+ S G I+ PI RD +R M + G++ A +
Sbjct: 158 VNQLVNKTVTRKYTAVVHGLISHDDGTIDAPIGRDKKDRQSMTV----TRDGKS--AVTH 211
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ V+E LVE +LETGRTHQ+ + + P
Sbjct: 212 FHVLERFQ--DFTLVECQLETGRTHQIRVHMRYIGFP 246
>gi|148544158|ref|YP_001271528.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
reuteri DSM 20016]
gi|184153530|ref|YP_001841871.1| pseudouridylate synthase [Lactobacillus reuteri JCM 1112]
gi|227364587|ref|ZP_03848648.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
reuteri MM2-3]
gi|325682298|ref|ZP_08161815.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
reuteri MM4-1A]
gi|148531192|gb|ABQ83191.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
reuteri DSM 20016]
gi|183224874|dbj|BAG25391.1| pseudouridylate synthase [Lactobacillus reuteri JCM 1112]
gi|227070424|gb|EEI08786.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
reuteri MM2-3]
gi|324978137|gb|EGC15087.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
reuteri MM4-1A]
Length = 303
Score = 171 bits (432), Expect = 7e-40, Method: Compositional matrix adjust.
Identities = 107/269 (39%), Positives = 148/269 (55%), Gaps = 39/269 (14%)
Query: 59 QLEETVDTKAGKL--RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGD 116
+LE T+D G++ R+D + D SR+++Q I G V +NG+ V K + + GD
Sbjct: 4 ELELTID---GEMVGRIDKQLGHHFDQFSRSQIQHWIEDGHVLVNGKQV-KPKYKLLVGD 59
Query: 117 MVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC 176
V E Q + EDIPLDIVYEDD+V+VVNKP MVVHPAPG+ TLVN +L+H
Sbjct: 60 HVQIIPEEPQKIDLAPEDIPLDIVYEDDDVIVVNKPQGMVVHPAPGHPDHTLVNALLYHS 119
Query: 177 SLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHA 236
L S+I+G RPGIVHR+DK TSGLL+VAK++ +H
Sbjct: 120 PL------------------------STING-EFRPGIVHRIDKDTSGLLMVAKNDMAHR 154
Query: 237 HLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAA 296
L+ Q K T +R Y++L GV + G I+ P+ R +R + A + RHA
Sbjct: 155 SLTAQLKAKTNKREYVALVHGVIKEDKGTIDAPLGRSLKDRKKQAVV------VDGRHAV 208
Query: 297 SRYKVIEILAGGGSALVEWRLETGRTHQV 325
+ + V+E LV +LETGRTHQ+
Sbjct: 209 THFNVLERFK--NYTLVACQLETGRTHQI 235
>gi|296331122|ref|ZP_06873596.1| pseudouridylate synthase [Bacillus subtilis subsp. spizizenii ATCC
6633]
gi|305674277|ref|YP_003865949.1| pseudouridylate synthase [Bacillus subtilis subsp. spizizenii str.
W23]
gi|296151766|gb|EFG92641.1| pseudouridylate synthase [Bacillus subtilis subsp. spizizenii ATCC
6633]
gi|305412521|gb|ADM37640.1| pseudouridylate synthase [Bacillus subtilis subsp. spizizenii str.
W23]
Length = 303
Score = 171 bits (432), Expect = 7e-40, Method: Compositional matrix adjust.
Identities = 106/277 (38%), Positives = 152/277 (54%), Gaps = 33/277 (11%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q++ T + R+D +++S + SR +VQ ++ G V +NG V K ++ ++ GD V
Sbjct: 3 QIDITASEEQKSERIDKFLASTENDWSRTQVQQWVKDGQVVVNGSPV-KSNYKIQPGDQV 61
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
T+ E + L AE + LDI YED +VLVVNKP MVVHPAPG+ TGTLVNG++ HC+
Sbjct: 62 TVTVPEPEALDVLAEPMDLDIYYEDQDVLVVNKPRGMVVHPAPGHLTGTLVNGLMAHCT- 120
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 121 ---------------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESL 157
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
Q T+ R Y ++ G+ S G I+ PI RD +R M ++A +
Sbjct: 158 VNQLVNKTVTRKYTAVVHGLISHDDGTIDAPIGRDKKDRQSMTVT------RDGKNAVTH 211
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ V+E LVE +LETGRTHQ+ + K P
Sbjct: 212 FHVLERFQ--DFTLVECQLETGRTHQIRVHMKYIGFP 246
>gi|331701446|ref|YP_004398405.1| RluA family pseudouridine synthase [Lactobacillus buchneri NRRL
B-30929]
gi|329128789|gb|AEB73342.1| pseudouridine synthase, RluA family [Lactobacillus buchneri NRRL
B-30929]
Length = 302
Score = 171 bits (432), Expect = 7e-40, Method: Compositional matrix adjust.
Identities = 103/254 (40%), Positives = 141/254 (55%), Gaps = 34/254 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD IS ISR+R ++ I + ING+ V K + VK GD + + P+ E
Sbjct: 12 RLDKVISELDSSISRSRAKNLIDDQHLKINGEPV-KPKYQVKSGDKIQVDSVQPTPISLE 70
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E++PLDIVYEDD+V+VVNKP MVVHP+PG+ TLVN +L+H L
Sbjct: 71 PENMPLDIVYEDDDVIVVNKPQGMVVHPSPGHPDHTLVNALLYHSPL------------- 117
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
S+I+G RPGIVHR+DK TSGLL+VAK++ +H LS+Q + R Y
Sbjct: 118 -----------STING-EFRPGIVHRIDKDTSGLLMVAKNDKAHQFLSQQLQAQKNLRKY 165
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++L G + SG + PI R P +R + A + R A + ++V+E A
Sbjct: 166 VALVHGRIKEDSGVVNAPIGRSPKDRKKQAVV------SDGRSAVTHFEVLERFA--DYT 217
Query: 312 LVEWRLETGRTHQV 325
LV RLETGRTHQ+
Sbjct: 218 LVACRLETGRTHQI 231
>gi|350265859|ref|YP_004877166.1| RluA family pseudouridine synthase [Bacillus subtilis subsp.
spizizenii TU-B-10]
gi|349598746|gb|AEP86534.1| pseudouridine synthase, RluA family protein [Bacillus subtilis
subsp. spizizenii TU-B-10]
Length = 303
Score = 170 bits (431), Expect = 7e-40, Method: Compositional matrix adjust.
Identities = 106/277 (38%), Positives = 152/277 (54%), Gaps = 33/277 (11%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q++ T + R+D +++S + SR +VQ ++ G V +NG V K ++ ++ GD V
Sbjct: 3 QIDITASEEQKSERIDKFLASTENDWSRTQVQQWVKDGQVVVNGNPV-KSNYKIQPGDQV 61
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
T+ E + L AE + LDI YED +VLVVNKP MVVHPAPG+ TGTLVNG++ HC+
Sbjct: 62 TVTVPEPEALDVLAEPMDLDIYYEDQDVLVVNKPRGMVVHPAPGHLTGTLVNGLMAHCT- 120
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 121 ---------------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESL 157
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
Q T+ R Y ++ G+ S G I+ PI RD +R M ++A +
Sbjct: 158 VNQLVNKTVTRKYTAVVHGLISHDDGTIDAPIGRDKKDRQSMTVT------RDGKNAVTH 211
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ V+E LVE +LETGRTHQ+ + K P
Sbjct: 212 FHVLERFQ--EFTLVECQLETGRTHQIRVHMKYIGFP 246
>gi|295132692|ref|YP_003583368.1| ribosomal large subunit pseudouridine synthase D [Zunongwangia
profunda SM-A87]
gi|294980707|gb|ADF51172.1| ribosomal large subunit pseudouridine synthase D [Zunongwangia
profunda SM-A87]
Length = 352
Score = 170 bits (431), Expect = 7e-40, Method: Compositional matrix adjust.
Identities = 102/257 (39%), Positives = 145/257 (56%), Gaps = 32/257 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLR- 129
LR+D ++ + I+ +R ++Q + + G + +N V K ++ VK GD+V E P
Sbjct: 34 LRVDKYLMNYIEKATRNKIQKAAKDGNIYVN-DVPVKQNYKVKAGDVVQVMF-EHPPYEF 91
Query: 130 -AEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEA 188
E+IPLDIVYEDD +LVVNKPA MVVHP GN +GTL+N +++H
Sbjct: 92 LLTPENIPLDIVYEDDTLLVVNKPAGMVVHPGHGNYSGTLINALVYH------------- 138
Query: 189 FSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIE 248
F + + +S RPG+VHR+DK TSGLLV+AK EH+ AHLS+QF T E
Sbjct: 139 ------------FENLPNNSSDRPGLVHRIDKDTSGLLVIAKTEHAMAHLSKQFFDKTSE 186
Query: 249 RVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGG 308
R YI++ G + G +E I R P NR++ G + + + A + KV+E G
Sbjct: 187 REYIAIVWGNVEEDEGTVEGNIGRHPKNRLQNTVYEGEDAE-KGKPAVTHLKVLERF--G 243
Query: 309 GSALVEWRLETGRTHQV 325
LV +LETGRTHQ+
Sbjct: 244 YVTLVACKLETGRTHQI 260
>gi|238924093|ref|YP_002937609.1| pseudouridine synthase, RluA family [Eubacterium rectale ATCC
33656]
gi|238875768|gb|ACR75475.1| pseudouridine synthase, RluA family [Eubacterium rectale ATCC
33656]
gi|291524836|emb|CBK90423.1| ribosomal large subunit pseudouridine synthase D [Eubacterium
rectale DSM 17629]
Length = 312
Score = 170 bits (431), Expect = 7e-40, Method: Compositional matrix adjust.
Identities = 99/256 (38%), Positives = 145/256 (56%), Gaps = 35/256 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++SS ISR+ Q ++ + +N + K ++ +K D+V+ TI +
Sbjct: 16 RLDKYLSSIYPDISRSFFQRILKENQILVNDKP-QKANYRLKTDDIVDVTIPDAVQTPIL 74
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
+DIPLDI+YEDD+VLVVNKP MVVHP+ G+ + TLVN I++HC
Sbjct: 75 PQDIPLDILYEDDDVLVVNKPKGMVVHPSAGHYSDTLVNAIMYHC--------------- 119
Query: 192 AEDISDDEEFSSSISG--ASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIER 249
S+SG IRPGIVHR+D T+G L+V K++ SH +SEQ K H+ R
Sbjct: 120 ----------KDSLSGINGEIRPGIVHRIDMDTTGSLIVCKNDESHIKISEQIKDHSCNR 169
Query: 250 VYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGG 309
+Y+ + G G IE I R+PN+R +MA + K+G+ A + YKV+E G
Sbjct: 170 IYVGIVCGNVKDDEGTIEGAIGRNPNDRKKMAI---NEKNGKP--AVTHYKVLERF--GD 222
Query: 310 SALVEWRLETGRTHQV 325
++++LETGRTHQ+
Sbjct: 223 YTYMQFKLETGRTHQI 238
>gi|228471651|ref|ZP_04056425.1| ribosomal large subunit pseudouridine synthase D [Capnocytophaga
gingivalis ATCC 33624]
gi|228277070|gb|EEK15756.1| ribosomal large subunit pseudouridine synthase D [Capnocytophaga
gingivalis ATCC 33624]
Length = 343
Score = 170 bits (431), Expect = 7e-40, Method: Compositional matrix adjust.
Identities = 107/277 (38%), Positives = 150/277 (54%), Gaps = 46/277 (16%)
Query: 59 QLEETVDTKAGK----LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKG 114
+L E KAGK LR+D ++ + ++ SR +VQ + + G + +NG V K +H VK
Sbjct: 11 ELYEHYSFKAGKGQEPLRVDKFLMNFVENASRNKVQQAAKDGNIFVNG-VAVKANHRVKA 69
Query: 115 GDMVNCTISE------LQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTL 168
D V + L P E IPLDIVYED+ ++++NKPA +VVHP GN GTL
Sbjct: 70 NDEVKVMFAHPPHEYLLVP-----EPIPLDIVYEDEELIIINKPAGLVVHPGHGNYQGTL 124
Query: 169 VNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVV 228
+NG+++H + SS+ RPG+VHR+DK TSGLLVV
Sbjct: 125 INGLIYHFQHLPMNSSD-------------------------RPGLVHRIDKDTSGLLVV 159
Query: 229 AKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNK 288
AK E + HL++QF T ER Y++L G +Q G I I R P NR++M P +
Sbjct: 160 AKTEEAMNHLAKQFFNKTSEREYVALVWGNLAQDEGTIIGHIGRHPKNRLQMTVFPDGS- 218
Query: 289 HGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQV 325
+ + A + YKV+E G +V RLETGRTHQ+
Sbjct: 219 --EGKEAITHYKVLERF--GYVTIVSCRLETGRTHQI 251
>gi|315651411|ref|ZP_07904436.1| ribosomal large subunit pseudouridine synthase D
[Lachnoanaerobaculum saburreum DSM 3986]
gi|315486370|gb|EFU76727.1| ribosomal large subunit pseudouridine synthase D
[Lachnoanaerobaculum saburreum DSM 3986]
Length = 303
Score = 170 bits (431), Expect = 7e-40, Method: Compositional matrix adjust.
Identities = 92/256 (35%), Positives = 154/256 (60%), Gaps = 36/256 (14%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D +++ ++ SR+ +Q I+ G V+IN +++ K ++ +K G+ V I + +PL
Sbjct: 16 RIDLFLAKNLESFSRSYIQDLIKKGKVTINNKII-KANYRLKEGECVVLDIPKPEPLEIV 74
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E+IP+DI+YED++V++VNKP MVVHPA G+ GTLVN +L+HC
Sbjct: 75 PENIPIDILYEDEDVILVNKPKGMVVHPAAGHYKGTLVNALLYHC--------------- 119
Query: 192 AEDISDDEEFSSSISGAS--IRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIER 249
S++SG + +RPGIVHR+D T+G++++ K++ +H H+++Q H+I R
Sbjct: 120 ----------KSNLSGINGVLRPGIVHRIDMDTTGVIIICKNDIAHQHIAKQLANHSITR 169
Query: 250 VYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGG 309
Y+++ +G + G I+ I+R ++R +MA +K G + A + YKV+E L G
Sbjct: 170 KYVAIVTGNIKEDEGVIDAAIARSKSDRKKMAV----DKDG--KRAVTHYKVLERL--NG 221
Query: 310 SALVEWRLETGRTHQV 325
+E LETGRTHQ+
Sbjct: 222 YTYIECVLETGRTHQI 237
>gi|121533717|ref|ZP_01665544.1| pseudouridine synthase, RluA family [Thermosinus carboxydivorans
Nor1]
gi|121307708|gb|EAX48623.1| pseudouridine synthase, RluA family [Thermosinus carboxydivorans
Nor1]
Length = 309
Score = 170 bits (431), Expect = 8e-40, Method: Compositional matrix adjust.
Identities = 102/261 (39%), Positives = 147/261 (56%), Gaps = 33/261 (12%)
Query: 65 DTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISE 124
D GK RLD ++ R+ +SR +Q I +G V++NG+ K ++ + D V + E
Sbjct: 15 DVDKGK-RLDLFLVERLPELSRTHIQRIIAAGEVTVNGKA-GKANYKLAPADYVTIRLPE 72
Query: 125 LQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASS 184
+P +AE I LDI+YED++++V+NKP MVVHPA GN GTLVN +L HC
Sbjct: 73 PKPAEIKAEAISLDILYEDEDIIVINKPRGMVVHPAAGNYEGTLVNALLRHC-------- 124
Query: 185 NQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKL 244
+ S I+G S RPGIVHRLDK TSG+++VAK + +H L+ Q K
Sbjct: 125 ---------------DRLSGINGVS-RPGIVHRLDKDTSGVMMVAKTDRAHLDLARQIKE 168
Query: 245 HTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEI 304
T R Y+++ G ++ G I PI R P +R +MA + ++K A + ++V+E
Sbjct: 169 RTAGRKYVAIVHGNIKENQGIINAPIGRHPTDRKKMAVVFTNSK-----EAITTFQVLER 223
Query: 305 LAGGGSALVEWRLETGRTHQV 325
G LVE RL TGRTHQ+
Sbjct: 224 F--GDYTLVECRLFTGRTHQI 242
>gi|225378086|ref|ZP_03755307.1| hypothetical protein ROSEINA2194_03746 [Roseburia inulinivorans DSM
16841]
gi|225210087|gb|EEG92441.1| hypothetical protein ROSEINA2194_03746 [Roseburia inulinivorans DSM
16841]
Length = 303
Score = 170 bits (431), Expect = 8e-40, Method: Compositional matrix adjust.
Identities = 101/256 (39%), Positives = 143/256 (55%), Gaps = 35/256 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++S SR+ Q I+ G VS+N +V K ++ +K D+V I + +
Sbjct: 16 RLDKYVSILFPEQSRSFFQKLIKDGNVSVNDKV-QKANYRLKTEDLVTVEIPDAVETQIL 74
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
EDIPLDI+YEDD++LVVNKP MVVHP+ G+ +GTLVN I++HC
Sbjct: 75 PEDIPLDILYEDDDLLVVNKPKGMVVHPSAGHYSGTLVNAIMYHC--------------- 119
Query: 192 AEDISDDEEFSSSISG--ASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIER 249
S+SG IRPGIVHR+D T+G L+V K++ SH ++EQ K H++ R
Sbjct: 120 ----------KDSLSGINGEIRPGIVHRIDMDTTGSLIVCKNDESHVFIAEQIKEHSVNR 169
Query: 250 VYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGG 309
Y + GV G I PI R P +R +MA + K+G + A + YKV+E
Sbjct: 170 RYRGIVYGVVRDDEGTIHAPIGRHPVDRKKMAI---NEKNG--KDAITHYKVLERF--DK 222
Query: 310 SALVEWRLETGRTHQV 325
+E++LETGRTHQ+
Sbjct: 223 YTYMEFKLETGRTHQI 238
>gi|291528977|emb|CBK94563.1| ribosomal large subunit pseudouridine synthase D [Eubacterium
rectale M104/1]
Length = 312
Score = 170 bits (431), Expect = 8e-40, Method: Compositional matrix adjust.
Identities = 99/256 (38%), Positives = 145/256 (56%), Gaps = 35/256 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++SS ISR+ Q ++ + +N + K ++ +K D+V+ TI +
Sbjct: 16 RLDKYLSSIYPDISRSFFQRILKENQILVNDKP-QKANYRLKTDDIVDVTIPDAVQTPIL 74
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
+DIPLDI+YEDD+VLVVNKP MVVHP+ G+ + TLVN I++HC
Sbjct: 75 PQDIPLDILYEDDDVLVVNKPKGMVVHPSAGHYSDTLVNAIMYHC--------------- 119
Query: 192 AEDISDDEEFSSSISG--ASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIER 249
S+SG IRPGIVHR+D T+G L+V K++ SH +SEQ K H+ R
Sbjct: 120 ----------KDSLSGINGEIRPGIVHRIDMDTTGSLIVCKNDESHIKISEQIKHHSCNR 169
Query: 250 VYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGG 309
+Y+ + G G IE I R+PN+R +MA + K+G+ A + YKV+E G
Sbjct: 170 IYVGIVCGNVKNDEGTIEGAIGRNPNDRKKMAI---NEKNGKP--AVTHYKVLERF--GD 222
Query: 310 SALVEWRLETGRTHQV 325
++++LETGRTHQ+
Sbjct: 223 YTYMQFKLETGRTHQI 238
>gi|257082401|ref|ZP_05576762.1| pseudouridylate synthase [Enterococcus faecalis E1Sol]
gi|256990431|gb|EEU77733.1| pseudouridylate synthase [Enterococcus faecalis E1Sol]
Length = 301
Score = 170 bits (431), Expect = 8e-40, Method: Compositional matrix adjust.
Identities = 106/277 (38%), Positives = 151/277 (54%), Gaps = 35/277 (12%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q+ T+ T+ G R+D +S + SR+++Q ++ V++NG+ V + ++ V GD +
Sbjct: 3 QINVTIQTEKG--RIDKVLSEHLPNHSRSQIQQWLKEKHVTVNGETV-RANYKVTAGDEI 59
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
TI E + L AEDIPL IVYED++V+VVNKP MVVHP+ G+ GTLVN +LHH
Sbjct: 60 VVTIPEPEVLDMVAEDIPLTIVYEDNDVIVVNKPQGMVVHPSAGHPKGTLVNALLHHA-- 117
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+ S D+ +RPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 118 --------DHLSAINDV--------------VRPGIVHRIDKDTSGLLMVAKNDQAHESL 155
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
++Q K T R Y++L GV G I PI R +R A I G + A +
Sbjct: 156 AKQLKEKTSLRKYVALVHGVIPHDKGEINTPIGRSKVDRKMQAVIEG------GKEAVTH 209
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ V+E LVE +LETGRTHQ+ + K P
Sbjct: 210 FTVLERF--DAFTLVELQLETGRTHQIRVHMKYIGYP 244
>gi|312903470|ref|ZP_07762650.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0635]
gi|422689213|ref|ZP_16747325.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0630]
gi|310633346|gb|EFQ16629.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0635]
gi|315577834|gb|EFU90025.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX0630]
Length = 310
Score = 170 bits (431), Expect = 8e-40, Method: Compositional matrix adjust.
Identities = 106/277 (38%), Positives = 151/277 (54%), Gaps = 35/277 (12%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q+ T+ T+ G R+D +S + SR+++Q ++ V++NG+ V + ++ V GD +
Sbjct: 12 QINVTIQTEKG--RIDKVLSEHLPNHSRSQIQQWLKEKHVTVNGETV-RANYKVTAGDEI 68
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
TI E + L AEDIPL IVYED++V+VVNKP MVVHP+ G+ GTLVN +LHH
Sbjct: 69 VVTIPEPEVLDMIAEDIPLTIVYEDNDVIVVNKPQGMVVHPSAGHPKGTLVNALLHHA-- 126
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+ S D+ +RPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 127 --------DHLSAINDV--------------VRPGIVHRIDKDTSGLLMVAKNDQAHESL 164
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
++Q K T R Y++L GV G I PI R +R A I G + A +
Sbjct: 165 AKQLKEKTSLRKYVALVHGVIPHDKGEINAPIGRSKVDRKMQAVIEG------GKEAVTH 218
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ V+E LVE +LETGRTHQ+ + K P
Sbjct: 219 FTVLERF--DAFTLVELQLETGRTHQIRVHMKYIGYP 253
>gi|260893452|ref|YP_003239549.1| RluA family pseudouridine synthase [Ammonifex degensii KC4]
gi|260865593|gb|ACX52699.1| pseudouridine synthase, RluA family [Ammonifex degensii KC4]
Length = 331
Score = 170 bits (431), Expect = 8e-40, Method: Compositional matrix adjust.
Identities = 103/264 (39%), Positives = 145/264 (54%), Gaps = 37/264 (14%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
V+ + +RLD +++ + SR+ +Q I G V + G+ V K S+ VK G+ + +
Sbjct: 9 VEEEEAGVRLDVYLARNLPENSRSYLQRLINEGYVQVGGRKV-KPSYKVKPGEEILVFLP 67
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
+ L E E IPL+I+YED+++LVVNKP MVVHP G+ GTLVN +L+HC
Sbjct: 68 PAETLEVEPEPIPLEIIYEDEDLLVVNKPRGMVVHPGAGHKRGTLVNALLYHC------- 120
Query: 184 SNQEAFSDAEDISDDEEFSSSISGAS--IRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQ 241
S+SG + +RPGIVHRLDK TSGLL+VAK++ +H LS Q
Sbjct: 121 -------------------RSLSGINGVLRPGIVHRLDKDTSGLLMVAKNDAAHLSLSAQ 161
Query: 242 FKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKV 301
K + + Y +L G + GRIE PI R P R +MA + G R A + Y+V
Sbjct: 162 LKERRVLKEYWALVYGEVKPAQGRIEAPIGRHPRYRQKMAVVAG------GRPAVTHYEV 215
Query: 302 IEILAGGGSALVEWRLETGRTHQV 325
+E G L+ R ETGRTHQ+
Sbjct: 216 VEYFP--GYTLLRVRPETGRTHQI 237
>gi|422721981|ref|ZP_16778558.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX2137]
gi|315027878|gb|EFT39810.1| pseudouridine synthase, RluA family [Enterococcus faecalis TX2137]
Length = 310
Score = 170 bits (431), Expect = 8e-40, Method: Compositional matrix adjust.
Identities = 106/277 (38%), Positives = 151/277 (54%), Gaps = 35/277 (12%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q+ T+ T+ G R+D +S + SR+++Q ++ V++NG+ V + ++ V GD +
Sbjct: 12 QINVTIQTEKG--RIDKVLSEHLPNHSRSQIQQWLKEKHVTVNGETV-RANYKVTAGDEI 68
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
TI E + L AEDIPL IVYED++V+VVNKP MVVHP+ G+ GTLVN +LHH
Sbjct: 69 VVTIPEPEVLDMVAEDIPLTIVYEDNDVIVVNKPQGMVVHPSVGHPNGTLVNALLHHA-- 126
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+ S D+ +RPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 127 --------DHLSAINDV--------------VRPGIVHRIDKDTSGLLMVAKNDQAHESL 164
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
++Q K T R Y++L GV G I PI R +R A I G + A +
Sbjct: 165 AKQLKEKTSLRKYVALVHGVIPHDKGEINAPIGRSKVDRKMQAVIEG------GKEAVTH 218
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ V+E LVE +LETGRTHQ+ + K P
Sbjct: 219 FTVLERF--DAFTLVELQLETGRTHQIRVHMKYIGYP 253
>gi|163782801|ref|ZP_02177797.1| hypothetical protein HG1285_15736 [Hydrogenivirga sp. 128-5-R1-1]
gi|159881922|gb|EDP75430.1| hypothetical protein HG1285_15736 [Hydrogenivirga sp. 128-5-R1-1]
Length = 322
Score = 170 bits (431), Expect = 8e-40, Method: Compositional matrix adjust.
Identities = 100/266 (37%), Positives = 151/266 (56%), Gaps = 30/266 (11%)
Query: 60 LEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
LE TV + RLD +++ +SR+ ++ I G + G+V K S+ VK GD V
Sbjct: 8 LEFTVSEEQAGERLDTFLAKAYPELSRSYIKRLIEEGFALVEGKV-RKPSYRVKEGDRVT 66
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
++ E +PL + EDIP+++VYED +V+V+ KP +VVHP+PG +GTLVN +L+H
Sbjct: 67 LSVPEPEPLEVKPEDIPIEVVYEDRDVVVIVKPCGLVVHPSPGYTSGTLVNALLYHI--- 123
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
+D+ SSI G RPGIVHRLDK T+GL+VVAK++ SH +L
Sbjct: 124 -------------KDL-------SSIGGVE-RPGIVHRLDKETAGLMVVAKNDTSHRNLV 162
Query: 240 EQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRY 299
EQF E++Y +L G + G +E+PI R P +R + S +++ A S +
Sbjct: 163 EQFASRRTEKLYRALVKGTVKEEHGILELPIGRHPFHRKKF-----STSSPRSKPAKSEF 217
Query: 300 KVIEILAGGGSALVEWRLETGRTHQV 325
V+E G L++ ++ TGRTHQ+
Sbjct: 218 WVLERFPGLELTLLKVKIYTGRTHQI 243
>gi|158425878|ref|YP_001527170.1| pseudouridine synthase [Azorhizobium caulinodans ORS 571]
gi|158332767|dbj|BAF90252.1| pseudouridine synthase [Azorhizobium caulinodans ORS 571]
Length = 354
Score = 170 bits (431), Expect = 8e-40, Method: Compositional matrix adjust.
Identities = 108/271 (39%), Positives = 146/271 (53%), Gaps = 38/271 (14%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV + LR D ++++R+ +SR R+Q + G VS+ G+VV + V GD +
Sbjct: 34 TVGPEDAGLRADRFLAARLPDLSRTRLQKLVADGRVSVGGRVVGDPAERVNAGDEWTVRV 93
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
+P E + L I YEDD ++VV+KPA +VVHPAPGN +GTLVNG+L HC
Sbjct: 94 PAPEPAAPVPEKMDLSIAYEDDFLIVVDKPAGLVVHPAPGNWSGTLVNGLLAHCGA---- 149
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
S S G RPGIVHRLDK TSGLLVVAK + +HA L+ QF
Sbjct: 150 -------------------SLSGIGGVKRPGIVHRLDKDTSGLLVVAKTDAAHAGLAAQF 190
Query: 243 KLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
H +ER Y + GVP Q G ++ PI R P +R +MA R A +
Sbjct: 191 ADHGRTGPLERAYYAFVWGVPDQ-RGTVDAPIDRHPTHRQKMAV------RQSGREAITH 243
Query: 299 YKVIEILAGGGSA----LVEWRLETGRTHQV 325
++ +E+ AG A L+E +LETGRTHQ+
Sbjct: 244 WERLEVFAGADGAPLASLIECQLETGRTHQI 274
>gi|227553528|ref|ZP_03983577.1| pseudouridylate synthase [Enterococcus faecalis HH22]
gi|255972642|ref|ZP_05423228.1| pseudouridylate synthase [Enterococcus faecalis T1]
gi|255975694|ref|ZP_05426280.1| pseudouridylate synthase [Enterococcus faecalis T2]
gi|256762651|ref|ZP_05503231.1| pseudouridylate synthase [Enterococcus faecalis T3]
gi|256961775|ref|ZP_05565946.1| pseudouridylate synthase [Enterococcus faecalis Merz96]
gi|257079163|ref|ZP_05573524.1| pseudouridylate synthase [Enterococcus faecalis JH1]
gi|257085033|ref|ZP_05579394.1| pseudouridylate synthase [Enterococcus faecalis Fly1]
gi|257419447|ref|ZP_05596441.1| pseudouridylate synthase [Enterococcus faecalis T11]
gi|257422461|ref|ZP_05599451.1| pseudouridylate synthase [Enterococcus faecalis X98]
gi|294779380|ref|ZP_06744781.1| pseudouridine synthase, RluA family [Enterococcus faecalis PC1.1]
gi|384518748|ref|YP_005706053.1| RluA family pseudouridine synthase [Enterococcus faecalis 62]
gi|397700031|ref|YP_006537819.1| pseudouridine synthase, RluA family protein [Enterococcus faecalis
D32]
gi|430361833|ref|ZP_19426910.1| pseudouridylate synthase [Enterococcus faecalis OG1X]
gi|430368433|ref|ZP_19428174.1| pseudouridylate synthase [Enterococcus faecalis M7]
gi|227177333|gb|EEI58305.1| pseudouridylate synthase [Enterococcus faecalis HH22]
gi|255963660|gb|EET96136.1| pseudouridylate synthase [Enterococcus faecalis T1]
gi|255968566|gb|EET99188.1| pseudouridylate synthase [Enterococcus faecalis T2]
gi|256683902|gb|EEU23597.1| pseudouridylate synthase [Enterococcus faecalis T3]
gi|256952271|gb|EEU68903.1| pseudouridylate synthase [Enterococcus faecalis Merz96]
gi|256987193|gb|EEU74495.1| pseudouridylate synthase [Enterococcus faecalis JH1]
gi|256993063|gb|EEU80365.1| pseudouridylate synthase [Enterococcus faecalis Fly1]
gi|257161275|gb|EEU91235.1| pseudouridylate synthase [Enterococcus faecalis T11]
gi|257164285|gb|EEU94245.1| pseudouridylate synthase [Enterococcus faecalis X98]
gi|294453509|gb|EFG21910.1| pseudouridine synthase, RluA family [Enterococcus faecalis PC1.1]
gi|323480881|gb|ADX80320.1| pseudouridine synthase, RluA family protein [Enterococcus faecalis
62]
gi|397336670|gb|AFO44342.1| pseudouridine synthase, RluA family protein [Enterococcus faecalis
D32]
gi|429512386|gb|ELA01994.1| pseudouridylate synthase [Enterococcus faecalis OG1X]
gi|429516189|gb|ELA05683.1| pseudouridylate synthase [Enterococcus faecalis M7]
Length = 301
Score = 170 bits (431), Expect = 8e-40, Method: Compositional matrix adjust.
Identities = 106/277 (38%), Positives = 151/277 (54%), Gaps = 35/277 (12%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q+ T+ T+ G R+D +S + SR+++Q ++ V++NG+ V + ++ V GD +
Sbjct: 3 QINVTIQTEKG--RIDKVLSEHLPNHSRSQIQQWLKEKHVTVNGETV-RANYKVTAGDEI 59
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
TI E + L AEDIPL IVYED++V+VVNKP MVVHP+ G+ GTLVN +LHH
Sbjct: 60 VVTIPEPEVLDMVAEDIPLTIVYEDNDVIVVNKPQGMVVHPSAGHPKGTLVNALLHHA-- 117
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+ S D+ +RPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 118 --------DHLSAINDV--------------VRPGIVHRIDKDTSGLLMVAKNDQAHESL 155
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
++Q K T R Y++L GV G I PI R +R A I G + A +
Sbjct: 156 AKQLKEKTSLRKYVALVHGVIPHDKGEINAPIGRSKVDRKMQAVIEG------GKEAVTH 209
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ V+E LVE +LETGRTHQ+ + K P
Sbjct: 210 FTVLERF--DAFTLVELQLETGRTHQIRVHMKYIGYP 244
>gi|291543962|emb|CBL17071.1| ribosomal large subunit pseudouridine synthase D [Ruminococcus
champanellensis 18P13]
Length = 304
Score = 170 bits (431), Expect = 9e-40, Method: Compositional matrix adjust.
Identities = 102/256 (39%), Positives = 147/256 (57%), Gaps = 32/256 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLR- 129
+RLD W++ ++ +SR+ VQ I G V NG+ +K + ++ GD + I + PL
Sbjct: 13 MRLDKWLTEQLPELSRSGVQHLIEQGAVLCNGKPAAK-NLKLREGDGLLVQIPDPAPLED 71
Query: 130 AEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAF 189
+ +++PL+IVYED+ +LVVNKP MVVHPA G+ GTLVN +L+HC
Sbjct: 72 VQPQNLPLEIVYEDEALLVVNKPKGMVVHPAAGHPDGTLVNALLYHC------------- 118
Query: 190 SDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIER 249
+ S+I+G IRPGIVHR+DK TSGLL+VAK + +H HL+EQ K H+ R
Sbjct: 119 ---------QGRLSTINGV-IRPGIVHRIDKNTSGLLMVAKTDFAHQHLAEQIKGHSFTR 168
Query: 250 VYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGG 309
Y ++ G + SG ++ PI R +R +M + ARHA + Y V+ A
Sbjct: 169 EYEAIACGRFREPSGTVDAPIGRSTADRQKMCVTEKN-----ARHAVTHYAVLTQFA--K 221
Query: 310 SALVEWRLETGRTHQV 325
A + RLETGRTHQ+
Sbjct: 222 HAHIRCRLETGRTHQI 237
>gi|256964973|ref|ZP_05569144.1| pseudouridylate synthase [Enterococcus faecalis HIP11704]
gi|256955469|gb|EEU72101.1| pseudouridylate synthase [Enterococcus faecalis HIP11704]
gi|295113102|emb|CBL31739.1| ribosomal large subunit pseudouridine synthase D [Enterococcus sp.
7L76]
Length = 301
Score = 170 bits (431), Expect = 9e-40, Method: Compositional matrix adjust.
Identities = 106/277 (38%), Positives = 151/277 (54%), Gaps = 35/277 (12%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q+ T+ T+ G R+D +S + SR+++Q ++ V++NG+ V + ++ V GD +
Sbjct: 3 QINVTIQTEKG--RIDKVLSEHLPNHSRSQIQQWLKEKHVTVNGETV-RANYKVTAGDEI 59
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
TI E + L AEDIPL IVYED++V+VVNKP MVVHP+ G+ GTLVN +LHH
Sbjct: 60 VVTIPEPEVLDMVAEDIPLTIVYEDNDVIVVNKPQGMVVHPSAGHPNGTLVNALLHHA-- 117
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+ S D+ +RPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 118 --------DHLSAINDV--------------VRPGIVHRIDKDTSGLLMVAKNDQAHESL 155
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
++Q K T R Y++L GV G I PI R +R A I G + A +
Sbjct: 156 AKQLKEKTSLRKYVALVHGVIPHDKGEINAPIGRSKVDRKMQAVIEG------GKEAVTH 209
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ V+E LVE +LETGRTHQ+ + K P
Sbjct: 210 FTVLERF--DAFTLVELQLETGRTHQIRVHMKYIGYP 244
>gi|150009274|ref|YP_001304017.1| ribosomal large subunit pseudouridine synthase D [Parabacteroides
distasonis ATCC 8503]
gi|255015880|ref|ZP_05288006.1| ribosomal large subunit pseudouridine synthase D [Bacteroides sp.
2_1_7]
gi|256841839|ref|ZP_05547345.1| ribosomal large subunit pseudouridine synthase D [Parabacteroides
sp. D13]
gi|262384161|ref|ZP_06077297.1| ribosomal large subunit pseudouridine synthase D [Bacteroides sp.
2_1_33B]
gi|301311073|ref|ZP_07217002.1| ribosomal large subunit pseudouridine synthase D [Bacteroides sp.
20_3]
gi|410104658|ref|ZP_11299570.1| RluA family pseudouridine synthase [Parabacteroides sp. D25]
gi|423334410|ref|ZP_17312189.1| RluA family pseudouridine synthase [Parabacteroides distasonis
CL03T12C09]
gi|423339061|ref|ZP_17316802.1| RluA family pseudouridine synthase [Parabacteroides distasonis
CL09T03C24]
gi|149937698|gb|ABR44395.1| ribosomal large subunit pseudouridine synthase D [Parabacteroides
distasonis ATCC 8503]
gi|256736733|gb|EEU50061.1| ribosomal large subunit pseudouridine synthase D [Parabacteroides
sp. D13]
gi|262295059|gb|EEY82991.1| ribosomal large subunit pseudouridine synthase D [Bacteroides sp.
2_1_33B]
gi|300831136|gb|EFK61777.1| ribosomal large subunit pseudouridine synthase D [Bacteroides sp.
20_3]
gi|409225601|gb|EKN18519.1| RluA family pseudouridine synthase [Parabacteroides distasonis
CL03T12C09]
gi|409231395|gb|EKN24248.1| RluA family pseudouridine synthase [Parabacteroides distasonis
CL09T03C24]
gi|409233670|gb|EKN26504.1| RluA family pseudouridine synthase [Parabacteroides sp. D25]
Length = 359
Score = 170 bits (430), Expect = 9e-40, Method: Compositional matrix adjust.
Identities = 105/256 (41%), Positives = 149/256 (58%), Gaps = 30/256 (11%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISE-LQPLR 129
LR+D ++ R+ G +R R+Q + +G + +N + V K ++ VK D+V+ + + L
Sbjct: 44 LRVDKFLVDRMMGATRNRIQLAAEAGCILVNDKPV-KSNYRVKPLDVVSIVMDRPRRELE 102
Query: 130 AEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAF 189
EDIPL+IVYEDD++LVVNKPA +VVHP GN TGTLVN + ++
Sbjct: 103 IIPEDIPLNIVYEDDDLLVVNKPAGLVVHPGHGNYTGTLVNALAYY-------------- 148
Query: 190 SDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIER 249
+ DD + S R G+VHR+DK TSGLLVVAK + ++LS QF T +R
Sbjct: 149 -----LKDDPYYDPS----DPRLGLVHRIDKDTSGLLVVAKRPEAKSNLSLQFFNKTTKR 199
Query: 250 VYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGG 309
Y +L G+ + GRIE I RDP +R++M P + Q + A + Y V+E L G
Sbjct: 200 KYRALVWGIVQEDEGRIEGNIGRDPRDRMQMTVFPEGD---QGKTAVTHYTVLERL--GY 254
Query: 310 SALVEWRLETGRTHQV 325
+LVE RLETGRTHQ+
Sbjct: 255 VSLVECRLETGRTHQI 270
>gi|373495389|ref|ZP_09585974.1| hypothetical protein HMPREF0380_01612 [Eubacterium infirmum F0142]
gi|371964867|gb|EHO82371.1| hypothetical protein HMPREF0380_01612 [Eubacterium infirmum F0142]
Length = 315
Score = 170 bits (430), Expect = 9e-40, Method: Compositional matrix adjust.
Identities = 102/263 (38%), Positives = 146/263 (55%), Gaps = 31/263 (11%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
T D+ GK R+D ++ SRID +SR+++Q V +N V + + +K GD +
Sbjct: 13 TDDSDRGK-RIDVFLGSRIDELSRSQIQKLFSKHEVFVNSAVCEEKKYKIKAGDSIEVYF 71
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
S +AE+ L+I+YED++++V++KP MVVHP GN TLVN +LHH
Sbjct: 72 SVEDEYIPKAENKELNIIYEDEDIIVIDKPRGMVVHPGAGNYNSTLVNALLHHV------ 125
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
ED+ + G + RPGIVHR+DK TSG+LVVAK + + L EQF
Sbjct: 126 ---------GEDLRE--------LGEADRPGIVHRIDKDTSGILVVAKSKLAFDSLKEQF 168
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
H+I+R Y +L SG+I+ PI RD NR+R AI G N + A +RY+V+
Sbjct: 169 SKHSIKRWYYALVYNNFGDDSGKIDRPIGRDKKNRLRR-AIDGEN----PKRAITRYEVM 223
Query: 303 EILAGGGSALVEWRLETGRTHQV 325
E G L++ LETGRTHQ+
Sbjct: 224 ERF--GNVVLIKAILETGRTHQI 244
>gi|298376939|ref|ZP_06986893.1| ribosomal large subunit pseudouridine synthase D [Bacteroides sp.
3_1_19]
gi|298265923|gb|EFI07582.1| ribosomal large subunit pseudouridine synthase D [Bacteroides sp.
3_1_19]
Length = 359
Score = 170 bits (430), Expect = 9e-40, Method: Compositional matrix adjust.
Identities = 105/256 (41%), Positives = 149/256 (58%), Gaps = 30/256 (11%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISE-LQPLR 129
LR+D ++ R+ G +R R+Q + +G + +N + V K ++ VK D+V+ + + L
Sbjct: 44 LRVDKFLVDRMMGATRNRIQLAAEAGCILVNDKPV-KSNYRVKPLDVVSVVMDRPRRELE 102
Query: 130 AEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAF 189
EDIPL+IVYEDD++LVVNKPA +VVHP GN TGTLVN + ++
Sbjct: 103 IIPEDIPLNIVYEDDDLLVVNKPAGLVVHPGHGNYTGTLVNALAYY-------------- 148
Query: 190 SDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIER 249
+ DD + S R G+VHR+DK TSGLLVVAK + ++LS QF T +R
Sbjct: 149 -----LKDDPYYDPS----DPRLGLVHRIDKDTSGLLVVAKRPEAKSNLSLQFFNKTTKR 199
Query: 250 VYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGG 309
Y +L G+ + GRIE I RDP +R++M P + Q + A + Y V+E L G
Sbjct: 200 KYRALVWGIVQEDEGRIEGNIGRDPRDRMQMTVFPEGD---QGKTAVTHYTVLERL--GY 254
Query: 310 SALVEWRLETGRTHQV 325
+LVE RLETGRTHQ+
Sbjct: 255 VSLVECRLETGRTHQI 270
>gi|406981013|gb|EKE02539.1| Pseudouridine synthase [uncultured bacterium]
Length = 310
Score = 170 bits (430), Expect = 9e-40, Method: Compositional matrix adjust.
Identities = 102/265 (38%), Positives = 149/265 (56%), Gaps = 33/265 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIR-SGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
RLD +++ I G+SR R+Q I+ SG V +N + SK S+ +K D V I E +PL
Sbjct: 20 RLDVFLAELIPGLSRTRIQQLIKESGCVLVNNEN-SKSSYKLKYADEVVVRIPEAKPLEL 78
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
+ E+IPLDI YED+N+++VNKP M+ HP TLVN +L+HC
Sbjct: 79 KPENIPLDIRYEDENIIIVNKPTGMLTHPTAIEREHTLVNALLYHC-------------- 124
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
+ S I+G +RPGIVHRLD+ TSGLL+VAK++++H LSEQ K T +R
Sbjct: 125 --------DGNLSGINGV-MRPGIVHRLDRDTSGLLMVAKNDYAHQFLSEQIKNKTAKRQ 175
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y+++ V SG I+ PI R P R +M + G ++A + +KV++
Sbjct: 176 YLAVVLSVIKADSGTIDAPIDRHPTQRYKMGVVEG------GKNAVTHWKVLDRFE--QF 227
Query: 311 ALVEWRLETGRTHQVLMLYKLFYIP 335
L+E LETGRTHQ+ + + + P
Sbjct: 228 TLIEATLETGRTHQIRVHFSHIHHP 252
>gi|423483483|ref|ZP_17460173.1| RluA family pseudouridine synthase [Bacillus cereus BAG6X1-2]
gi|401141034|gb|EJQ48589.1| RluA family pseudouridine synthase [Bacillus cereus BAG6X1-2]
Length = 302
Score = 170 bits (430), Expect = 9e-40, Method: Compositional matrix adjust.
Identities = 106/273 (38%), Positives = 154/273 (56%), Gaps = 33/273 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV + R+D +++ SR++VQ I+ +V++NG+ V K ++ VK D + TI
Sbjct: 8 TVAEEQKSERIDKFVAEINSEWSRSQVQQWIKDDVVTVNGKSV-KGNYKVKENDEITVTI 66
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E + L + ED+ L++ YED +VLVVNKP MVVHPAPG+ GTLVNG++HHC+
Sbjct: 67 PEPEELDIQPEDMNLEVYYEDADVLVVNKPRGMVVHPAPGHTKGTLVNGLMHHCT----- 121
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q
Sbjct: 122 -----------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQL 162
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
T+ R Y ++ GV G I+ PI RD R M +++G ++A + ++V+
Sbjct: 163 VAKTVTRRYKAIVHGVIPHDKGTIDAPIGRDKKERQSMTV----DENG--KNAVTHFQVL 216
Query: 303 EILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
E LVE RLETGRTHQ+ + K P
Sbjct: 217 ERFK--NFTLVECRLETGRTHQIRVHMKYIGYP 247
>gi|121601705|ref|YP_988611.1| RluA family pseudouridine synthase [Bartonella bacilliformis KC583]
gi|421760423|ref|ZP_16197240.1| ribosomal large subunit pseudouridine synthase D [Bartonella
bacilliformis INS]
gi|120613882|gb|ABM44483.1| pseudouridine synthase, RluA family [Bartonella bacilliformis
KC583]
gi|411175707|gb|EKS45732.1| ribosomal large subunit pseudouridine synthase D [Bartonella
bacilliformis INS]
Length = 336
Score = 170 bits (430), Expect = 9e-40, Method: Compositional matrix adjust.
Identities = 104/275 (37%), Positives = 152/275 (55%), Gaps = 35/275 (12%)
Query: 61 EETVDTKAGKLRLDAWISSRIDG-ISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
++ D A R+D W++ +SR+R+Q+ IR G + I+G++V++ +K +
Sbjct: 3 QQITDEDALGQRIDQWLAKHYQNELSRSRLQTLIREGYLKIDGKLVTEPKTKIKSNQTIE 62
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
TI L E E IPL I++EDD+++VVNKPA +VVHP GN TGTLVN +++HC
Sbjct: 63 LTIPTLNNAYPEGEAIPLHILFEDDHIIVVNKPAGLVVHPGHGNWTGTLVNALIYHCG-- 120
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
+ S I G RPGIVHRLDK TSG++VVAK++ +H LS
Sbjct: 121 --------------------DSLSGIGGVR-RPGIVHRLDKNTSGVIVVAKNDLAHKGLS 159
Query: 240 EQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHA 295
QF H ++R Y +L G P+++ G I + R +R + A I N + ARHA
Sbjct: 160 AQFSDHGRTGVLDRRYHALIWGSPNRNIGVITASLGRARYDRTKQAVIHSHNIY--ARHA 217
Query: 296 ASRYKVIEILAGGG-----SALVEWRLETGRTHQV 325
+ + VIE ++L+E RLETGRTHQ+
Sbjct: 218 VTHFSVIEKYQTCADKIPFASLLECRLETGRTHQI 252
>gi|325661581|ref|ZP_08150205.1| hypothetical protein HMPREF0490_00939 [Lachnospiraceae bacterium
4_1_37FAA]
gi|325472108|gb|EGC75322.1| hypothetical protein HMPREF0490_00939 [Lachnospiraceae bacterium
4_1_37FAA]
Length = 310
Score = 170 bits (430), Expect = 9e-40, Method: Compositional matrix adjust.
Identities = 96/255 (37%), Positives = 148/255 (58%), Gaps = 31/255 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
+R+D ++S ++ +SR+ +Q I+ V +NGQ V K ++ + D ++ TI EL+
Sbjct: 14 MRIDKFLSEKLPDLSRSYLQKLIKEKEVLVNGQPV-KANYKLSLEDHISVTIPELKEPDI 72
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
E IPLDI+YED+++LVVNKP MVVHP+ G+ +GTLVN ++ HC
Sbjct: 73 LPEQIPLDILYEDEDILVVNKPKGMVVHPSAGHYSGTLVNALMFHC-------------- 118
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
++ S I+G +RPGIVHR+D T+G L+V K++ +H L+EQ K HTI R
Sbjct: 119 --------KDQLSGINGV-MRPGIVHRIDMDTTGSLIVCKNDFAHQSLAEQLKDHTITRK 169
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y ++ GV + +G I+ PI R P R +M+ + +HA + Y+V++
Sbjct: 170 YHAIVHGVLKEDNGTIDAPIGRHPVERKKMSV-----NYKNGKHAVTHYRVLKRFE--KF 222
Query: 311 ALVEWRLETGRTHQV 325
VE +LETGRTHQ+
Sbjct: 223 TYVECQLETGRTHQI 237
>gi|302035761|ref|YP_003796083.1| 23S rRNA pseudouridine synthase [Candidatus Nitrospira defluvii]
gi|300603825|emb|CBK40157.1| 23S rRNA pseudouridine synthase [Candidatus Nitrospira defluvii]
Length = 321
Score = 170 bits (430), Expect = 9e-40, Method: Compositional matrix adjust.
Identities = 102/254 (40%), Positives = 147/254 (57%), Gaps = 27/254 (10%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D ++++R SR+ +Q I G + INGQ + + S +K GD + + +PL +
Sbjct: 21 RIDVFLANRDPTFSRSALQRLIGEGRILINGQTI-RPSQKIKPGDRIRLEVPRPEPLDLK 79
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E IP DI++ED +LV++KPA +VVHPAPGN +GTLVN +LHH A+S
Sbjct: 80 PEAIPFDILHEDAELLVLHKPAGLVVHPAPGNWSGTLVNALLHH-----FATSG------ 128
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+ S G RPG+VHRLDK TSG++V+AK + +H L+ QFKLHTI RVY
Sbjct: 129 ---------VTPSHIGGKERPGLVHRLDKETSGVMVIAKTDQAHRALAAQFKLHTITRVY 179
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+L GVP + G IE+ I RD R + +A + + + +A+ Y+V E G +A
Sbjct: 180 EALIWGVPKKGHGLIELAIGRDTKERKKFSA-----RTTKPKPSATDYQV-EERYGKIAA 233
Query: 312 LVEWRLETGRTHQV 325
V TGRTHQ+
Sbjct: 234 YVRLFPRTGRTHQL 247
>gi|398304126|ref|ZP_10507712.1| pseudouridylate synthase [Bacillus vallismortis DV1-F-3]
Length = 303
Score = 170 bits (430), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 105/277 (37%), Positives = 152/277 (54%), Gaps = 33/277 (11%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q++ T + R+D +++S + SR +VQ ++ G + +NG V K ++ ++ GD V
Sbjct: 3 QIDITASEEQKSERIDKFLASTENDWSRTQVQQWVKDGQIVVNGSPV-KSNYKIQPGDQV 61
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
T+ E + L AE + LDI YED +VLVVNKP MVVHPAPG+ TGTLVNG++ HC+
Sbjct: 62 TVTVPEPEALDVLAEPMDLDIYYEDQDVLVVNKPRGMVVHPAPGHLTGTLVNGLMAHCT- 120
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 121 ---------------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESL 157
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
Q T+ R Y ++ G+ S G I+ PI RD +R M ++A +
Sbjct: 158 VNQLVNKTVTRKYTAVVHGLISHDDGTIDAPIGRDKKDRQSMTVA------RDGKNAVTH 211
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ V+E LVE +LETGRTHQ+ + K P
Sbjct: 212 FHVLERFQ--DFTLVECQLETGRTHQIRVHMKYIGFP 246
>gi|296536195|ref|ZP_06898317.1| ribosomal large subunit pseudouridine synthase D [Roseomonas
cervicalis ATCC 49957]
gi|296263477|gb|EFH09980.1| ribosomal large subunit pseudouridine synthase D [Roseomonas
cervicalis ATCC 49957]
Length = 343
Score = 170 bits (430), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 101/254 (39%), Positives = 143/254 (56%), Gaps = 29/254 (11%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++++ I +SR+RV++ I +G V+ +GQ S ++ G QP +
Sbjct: 37 RLDRFLAAAIGTLSRSRVKALIEAGHVTRDGQPAGDPSEAIRTGATYVVAPPAAQPATPQ 96
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
A+DIPL I++ED +++V++KPA +VVHPAPGN GTLVN +L H
Sbjct: 97 AQDIPLTILFEDRHLIVLDKPAGLVVHPAPGNQDGTLVNALLAHAG-------------- 142
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
EE + G RPGIVHRLDK TSG++VVAK E +H LS F +ER Y
Sbjct: 143 -------EELTGI--GGEKRPGIVHRLDKDTSGVMVVAKSEVAHTALSAAFASRDLERAY 193
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++L GVP+ +SG ++ P+ R P +R RMA + + KH R+A R G A
Sbjct: 194 LALAWGVPAPASGEVDAPVGRHPTDRKRMAVVARNGKHALTRYATERAW------GTSCA 247
Query: 312 LVEWRLETGRTHQV 325
L+ RL TGRTHQ+
Sbjct: 248 LLRCRLATGRTHQI 261
>gi|257090036|ref|ZP_05584397.1| pseudouridylate synthase [Enterococcus faecalis CH188]
gi|256998848|gb|EEU85368.1| pseudouridylate synthase [Enterococcus faecalis CH188]
Length = 301
Score = 170 bits (430), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 106/277 (38%), Positives = 151/277 (54%), Gaps = 35/277 (12%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q+ T+ T+ G R+D +S + SR+++Q ++ V++NG+ V + ++ V GD +
Sbjct: 3 QINVTIQTEKG--RIDKVLSEHLPNHSRSQIQQWLKEKHVTVNGETV-RANYKVTAGDEI 59
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
TI E + L AEDIPL IVYED++V+VVNKP MVVHP+ G+ GTLVN +LHH
Sbjct: 60 VVTIPEPEVLDMIAEDIPLTIVYEDNDVIVVNKPQGMVVHPSAGHPKGTLVNALLHHA-- 117
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+ S D+ +RPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 118 --------DHLSAINDV--------------VRPGIVHRIDKDTSGLLMVAKNDQAHESL 155
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
++Q K T R Y++L GV G I PI R +R A I G + A +
Sbjct: 156 AKQLKEKTSLRKYVALVHGVIPHDKGEINAPIGRSKVDRKMQAVIEG------GKEAVTH 209
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ V+E LVE +LETGRTHQ+ + K P
Sbjct: 210 FTVLERF--DAFTLVELQLETGRTHQIRVHMKYIGYP 244
>gi|228998673|ref|ZP_04158260.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus mycoides
Rock3-17]
gi|228761141|gb|EEM10100.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus mycoides
Rock3-17]
Length = 302
Score = 170 bits (430), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 106/273 (38%), Positives = 155/273 (56%), Gaps = 33/273 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV + R+D +++ + SR++VQ I+ G+V++NG + K ++ VK D + I
Sbjct: 8 TVTEEQKSERIDKFLAGVNNEWSRSQVQQWIKDGVVTVNGNAI-KGNYKVKVNDEIAVAI 66
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
+ + L ED+ L+I YED +VLVVNKP MVVHPAPG+ +GTLVNG++HHC+
Sbjct: 67 PDPEELDILPEDMNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCT----- 121
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q
Sbjct: 122 -----------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQL 162
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
T+ R Y ++ GV G I+ PI RD +R M +++G +HA + ++V+
Sbjct: 163 VAKTVTRRYKAIVHGVIPHDKGTIDAPIGRDKKDRQSMTV----DENG--KHAVTHFQVL 216
Query: 303 EILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
E LVE RLETGRTHQ+ + K P
Sbjct: 217 ERFK--DFTLVECRLETGRTHQIRVHMKYIGYP 247
>gi|184155639|ref|YP_001843979.1| pseudouridine synthase [Lactobacillus fermentum IFO 3956]
gi|183226983|dbj|BAG27499.1| pseudouridine synthase [Lactobacillus fermentum IFO 3956]
Length = 304
Score = 170 bits (430), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 103/264 (39%), Positives = 146/264 (55%), Gaps = 34/264 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D + SR++++ I G V++NGQ V K + ++ GD V + E
Sbjct: 17 RIDKELGHHFPQFSRSQLKRWIDDGTVTVNGQTV-KAKYQLQAGDRVVIEPETPVEIDLE 75
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E+IPLDIVYEDD+VLVVNKP MVVHPAPG+ TLVN +++H L
Sbjct: 76 PENIPLDIVYEDDDVLVVNKPQGMVVHPAPGHPNHTLVNALMYHAPL------------- 122
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
SSI+G +RPGIVHR+DK TSGLL+VAK + +H L+ Q K + R Y
Sbjct: 123 -----------SSING-ELRPGIVHRIDKDTSGLLMVAKTDRAHRSLTAQLKEKSNLREY 170
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++L GV ++ G I+ P++R P +R + A + G RHA + ++V++
Sbjct: 171 VALVHGVIKENEGTIDAPLARSPKDRKKQAVVVG------GRHAVTHFRVLKRYQ--HYT 222
Query: 312 LVEWRLETGRTHQVLMLYKLFYIP 335
LV RLETGRTHQ+ + K P
Sbjct: 223 LVACRLETGRTHQIRVHMKYINHP 246
>gi|428770178|ref|YP_007161968.1| ribosomal large subunit pseudouridine synthase D [Cyanobacterium
aponinum PCC 10605]
gi|428684457|gb|AFZ53924.1| ribosomal large subunit pseudouridine synthase D [Cyanobacterium
aponinum PCC 10605]
Length = 314
Score = 170 bits (430), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 105/267 (39%), Positives = 146/267 (54%), Gaps = 29/267 (10%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q ++ + G +R+D W+ ID ISR+R+Q I G V +N QV +K GD V
Sbjct: 5 QYQQKLVVDKGGIRIDVWLGDNIDSISRSRLQKLISEGQVIVNQQVCESKKTILKTGDEV 64
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
I E IPLDI+YED+ +L++NKPA+ VVHPAPG++ GTLVN +L HC
Sbjct: 65 IVRIPPPVSSHLIPEAIPLDILYEDEYLLIINKPANFVVHPAPGHSQGTLVNALLSHCP- 123
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
D + I G RPGIVHRLDK T+G +VVAK E HL
Sbjct: 124 ------------DLKGI-----------GGVERPGIVHRLDKDTTGAMVVAKTEPVLHHL 160
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
Q K T +R Y+ + G PS SSG + +PI R P +R +M+ + +K G+ A +
Sbjct: 161 QGQIKAKTAKREYLGVVYGSPSVSSGIVNLPIGRHPCDRKKMSIL-SEDKGGKP--AVTH 217
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQV 325
+ + E + G +L+ + LETGRTHQ+
Sbjct: 218 WLLKERI--GNYSLIHYELETGRTHQI 242
>gi|227892505|ref|ZP_04010310.1| pseudouridylate synthase [Lactobacillus ultunensis DSM 16047]
gi|227865626|gb|EEJ73047.1| pseudouridylate synthase [Lactobacillus ultunensis DSM 16047]
Length = 305
Score = 170 bits (430), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 101/254 (39%), Positives = 145/254 (57%), Gaps = 33/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++S ++ +SR RV+ I+ + +N + KVS+ V+ GD V + ++PL
Sbjct: 15 RLDKFVSEQVPDLSRTRVKELIQDKNILVNNKS-EKVSYKVQAGDCVLVNVPAVKPLDVV 73
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E+IPLDIVYEDD+V+VVNKP MVVHPAPG+ TLVN +L+H LA S E F
Sbjct: 74 PENIPLDIVYEDDDVIVVNKPQGMVVHPAPGHPDHTLVNALLYHTK--DLAQS-PEGF-- 128
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
RPGIVHR+DK TSGLL++AK+ + L +Q T +R+Y
Sbjct: 129 -------------------RPGIVHRIDKDTSGLLMIAKNAKARESLEDQLAHKTNKRIY 169
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++ G + G I+ I R+P +R +MA + K A + +KV+E G +
Sbjct: 170 WAIVHGNFGEEGGTIDALIGRNPYDRKKMAVVENGKK------AVTHFKVLEQFK--GFS 221
Query: 312 LVEWRLETGRTHQV 325
L+E +LETGRTHQ+
Sbjct: 222 LIECQLETGRTHQI 235
>gi|229086457|ref|ZP_04218629.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
Rock3-44]
gi|228696774|gb|EEL49587.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
Rock3-44]
Length = 302
Score = 170 bits (430), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 107/273 (39%), Positives = 156/273 (57%), Gaps = 33/273 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV + R+D +++ + SR++VQ I+ G+V++NG + K ++ VK D + I
Sbjct: 8 TVKEEQKSERIDKFLAGINNEWSRSQVQQWIKDGVVTVNGNDI-KGNYKVKENDEIAVAI 66
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E + L AED+ L+I YED +VLVVNKP MVVHPAPG+ +GTLVNG+++HC+
Sbjct: 67 PEPEELDIRAEDMNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMYHCT----- 121
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q
Sbjct: 122 -----------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQL 162
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
T+ R Y ++ GV G I+ PI RD R MA +++G ++A + ++V+
Sbjct: 163 VEKTVTRRYKAIVHGVIPHDKGTIDAPIGRDKKERQSMAV----DENG--KNAVTHFQVL 216
Query: 303 EILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
E LVE RLETGRTHQ+ + K P
Sbjct: 217 ERFK--DFTLVECRLETGRTHQIRVHMKYIGYP 247
>gi|254294738|ref|YP_003060761.1| pseudouridine synthase [Hirschia baltica ATCC 49814]
gi|254043269|gb|ACT60064.1| pseudouridine synthase, RluA family [Hirschia baltica ATCC 49814]
Length = 369
Score = 170 bits (430), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 108/280 (38%), Positives = 153/280 (54%), Gaps = 54/280 (19%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNV-KGGDMVNCTISELQPLRA 130
RLD W+ +SR+R ++ I G V ++ ++ H V G V I PL A
Sbjct: 33 RLDKWLPIAAPELSRSRAKAIIEKGDVLLDDTAITSPKHKVIADGRYV---ILMPPPLDA 89
Query: 131 EA--EDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCS--LPTLASSNQ 186
E EDIPLD+++ED++++++NKPA +VVHPAPG+ +GTLVN +LHHC+ LP +
Sbjct: 90 EPLPEDIPLDVLFEDEHLIILNKPAGLVVHPAPGSTSGTLVNALLHHCAGQLPGI----- 144
Query: 187 EAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHT 246
G RPGIVHRLDK TSG++V AK E +H LS F+ H
Sbjct: 145 --------------------GGVARPGIVHRLDKDTSGVMVAAKTEFAHTGLSSLFQAHF 184
Query: 247 IERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAI------PGSNKHGQA-------- 292
+ER Y+++T G P G+IE I+R +R +MA + + HG++
Sbjct: 185 MERAYLAVTRGAPRPLLGKIETRIARSTTDRKKMAVVRESRLSASAEWHGESEEDYEQKG 244
Query: 293 RHAASRYKVIE----ILAGGG---SALVEWRLETGRTHQV 325
+HA + YKV+E I A G + L E RLETGRTHQ+
Sbjct: 245 KHAITNYKVLEQFGRIDATSGLPAATLTECRLETGRTHQI 284
>gi|423367937|ref|ZP_17345369.1| RluA family pseudouridine synthase [Bacillus cereus VD142]
gi|401082798|gb|EJP91063.1| RluA family pseudouridine synthase [Bacillus cereus VD142]
Length = 302
Score = 170 bits (430), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 105/273 (38%), Positives = 154/273 (56%), Gaps = 33/273 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV + R+D +++ SR++VQ I+ +V++NG+ V K ++ VKG D + TI
Sbjct: 8 TVAEEQKSERIDKFVAEINSEWSRSQVQQWIKDAVVTVNGKSV-KGNYKVKGNDEITVTI 66
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E + L + ED+ L++ YED +VLVVNKP MVVHPAPG+ GTLVNG++HHC+
Sbjct: 67 PEPEELDIQPEDMNLEVYYEDADVLVVNKPRGMVVHPAPGHTKGTLVNGLMHHCT----- 121
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q
Sbjct: 122 -----------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDVAHESLVNQL 162
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
T+ R Y ++ GV G I+ PI RD R M +++G ++A + ++V+
Sbjct: 163 VAKTVTRRYKAIVHGVIPHDKGTIDAPIGRDKKERQSMTV----DENG--KNAVTHFQVL 216
Query: 303 EILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
E VE RLETGRTHQ+ + + P
Sbjct: 217 ERFK--DFTFVECRLETGRTHQIRVHMRYIGYP 247
>gi|383787005|ref|YP_005471574.1| RluA family pseudouridine synthase [Fervidobacterium pennivorans
DSM 9078]
gi|383109852|gb|AFG35455.1| pseudouridine synthase, RluA family [Fervidobacterium pennivorans
DSM 9078]
Length = 344
Score = 170 bits (430), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 102/288 (35%), Positives = 159/288 (55%), Gaps = 37/288 (12%)
Query: 56 AGVQLEET---VDTKAGKLRLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKVSHN 111
A QLE+ V + RLD ++ + D ISR +Q +I++G V +NG ++ K S+
Sbjct: 26 ATPQLEKMDIQVTNREDGWRLDKFVMEKTPDWISRTFIQKAIKNGEVLVNG-ILKKPSYK 84
Query: 112 VKGGDMVNCTISELQPLRAE--AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLV 169
VK GD++ + + +P E E+IPLDI+YED ++LV+NK ++ HP P + +GT+V
Sbjct: 85 VKSGDIITLMVPQ-KPQVPEILPENIPLDIIYEDRDILVINKQPGIITHPIPSHTSGTIV 143
Query: 170 NGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVA 229
N +L+HC D + + G +RPGIVHRLDK TSG++V+A
Sbjct: 144 NAVLYHCK-------------DLQGV-----------GGVLRPGIVHRLDKDTSGVMVIA 179
Query: 230 KDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKH 289
K++ +H L++QFK E++Y+ L GVP ++ G I V I+R+P R++M +
Sbjct: 180 KNDLAHQSLTKQFKDRVTEKLYVCLVKGVPEKNEGDINVSIARNPVLRVKMTV----TQS 235
Query: 290 GQARHAASRYKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIPRM 337
+ A + YKVI S + W +TGRTHQ+ + K P M
Sbjct: 236 AYGKPALTHYKVIRKFGNLASLVFAWP-KTGRTHQIRVHMKYLGHPLM 282
>gi|392376177|ref|YP_003208010.1| pseudouridine synthase (pseudouridines 1911, 1915, 1917 in 23S RNA)
[Candidatus Methylomirabilis oxyfera]
gi|258593870|emb|CBE70211.1| pseudouridine synthase (pseudouridines 1911, 1915, 1917 in 23S RNA)
[Candidatus Methylomirabilis oxyfera]
Length = 314
Score = 170 bits (430), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 107/271 (39%), Positives = 156/271 (57%), Gaps = 34/271 (12%)
Query: 56 AGVQLEETV-DTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKG 114
+G ++ E + D AG LRLD ++S+ G+ R+++Q I++G V ++G+ K S
Sbjct: 2 SGDEIRELIADISAGGLRLDRYLST-ATGLPRSQIQRLIKAGRVLVDGRC-PKASAIAHP 59
Query: 115 GDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILH 174
G ++ +I QP E IPLDI+YED ++LV+NKPA +VVHPAPG+ +GTLV+ IL+
Sbjct: 60 GQQISLSIPPPQPSTLTPEPIPLDILYEDTDMLVLNKPAGLVVHPAPGHHSGTLVHAILY 119
Query: 175 HCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHS 234
HC P L +E RPGIVHRLDK TSG++VVAK + +
Sbjct: 120 HC--PDLPGIGEER----------------------RPGIVHRLDKETSGVMVVAKTDTA 155
Query: 235 HAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARH 294
A L+ QFK +++ YI+L G Q G+I I R +R RMA + + R
Sbjct: 156 MASLATQFKGRRVQKTYIALVHGEVKQPQGQIAADIGRHERDRKRMAV-----RTRKGRE 210
Query: 295 AASRYKVIEILAGGGSALVEWRLETGRTHQV 325
A + Y+VI+ L GG L+E + +TGRTHQ+
Sbjct: 211 AVTNYRVIKRL--GGLTLLELQPQTGRTHQI 239
>gi|414168204|ref|ZP_11424408.1| RluA family pseudouridine synthase [Afipia clevelandensis ATCC
49720]
gi|410888247|gb|EKS36051.1| RluA family pseudouridine synthase [Afipia clevelandensis ATCC
49720]
Length = 324
Score = 170 bits (430), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 102/271 (37%), Positives = 148/271 (54%), Gaps = 37/271 (13%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV G RLD ++ +SR+R+++ I +G V + G V +++V GD + +
Sbjct: 2 TVRGDEGSRRLDRVLAVHSPDLSRSRLKALILAGQVHVGGSPVRDPAYHVSAGDTITIDV 61
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
P E EDIPLDIV+ED +++V++KP ++VVHPA G+ TGTLVN ++ HC
Sbjct: 62 PPAAPAEPEGEDIPLDIVFEDGDLIVIDKPKNLVVHPAAGHETGTLVNALIAHCG----- 116
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
S S G RPGIVHRLDK T+GL+VVAK++ +H LS QF
Sbjct: 117 ------------------ASLSGIGGVKRPGIVHRLDKDTTGLMVVAKNDRAHQSLSAQF 158
Query: 243 KLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
H + R Y++ GVP++ SG I PI R P+ R +MA G R A +
Sbjct: 159 ADHGRTGEMRRGYMAFVWGVPNRKSGTINEPIDRHPHTREKMAVRQG------GREAVTH 212
Query: 299 YKVIEILAGGG----SALVEWRLETGRTHQV 325
++V+E G ++L+ +LETGRTHQ+
Sbjct: 213 WEVLETFTGKDGKPVASLLACQLETGRTHQI 243
>gi|257087008|ref|ZP_05581369.1| pseudouridylate synthase [Enterococcus faecalis D6]
gi|256995038|gb|EEU82340.1| pseudouridylate synthase [Enterococcus faecalis D6]
Length = 301
Score = 169 bits (429), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 106/277 (38%), Positives = 151/277 (54%), Gaps = 35/277 (12%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q+ T+ T+ G R+D +S + SR+++Q ++ V++NG+ V + ++ V GD +
Sbjct: 3 QINVTIQTEKG--RIDKVLSEHLPNHSRSQIQQWLKEKHVTVNGETV-RANYKVTAGDEI 59
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
TI E + L AEDIPL IVYED++V+VVNKP MVVHP+ G+ GTLVN +LHH
Sbjct: 60 VVTIPEPEVLDMVAEDIPLTIVYEDNDVIVVNKPQGMVVHPSVGHPNGTLVNALLHHA-- 117
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+ S D+ +RPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 118 --------DHLSAINDV--------------VRPGIVHRIDKDTSGLLMVAKNDQAHESL 155
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
++Q K T R Y++L GV G I PI R +R A I G + A +
Sbjct: 156 AKQLKEKTSLRKYVALVHGVIPHDKGEINAPIGRSKVDRKMQAVIEG------GKEAVTH 209
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ V+E LVE +LETGRTHQ+ + K P
Sbjct: 210 FTVLERF--DAFTLVELQLETGRTHQIRVHMKYIGYP 244
>gi|423561702|ref|ZP_17537978.1| RluA family pseudouridine synthase [Bacillus cereus MSX-A1]
gi|401201959|gb|EJR08824.1| RluA family pseudouridine synthase [Bacillus cereus MSX-A1]
Length = 302
Score = 169 bits (429), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 104/264 (39%), Positives = 153/264 (57%), Gaps = 33/264 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D +++ + SR++VQ I+ +V++NG+ V KV++ VK D + TI + + +
Sbjct: 17 RIDKFVAGINNEWSRSQVQQWIKDDVVTVNGKAV-KVNYKVKEEDEITVTIPDPEASDIQ 75
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
ED+ L+I YED +VLVVNKP MVVHPAPG+ +GTLVNG++HHC+
Sbjct: 76 PEDMNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCT-------------- 121
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q T+ R Y
Sbjct: 122 --DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLVAKTVTRRY 171
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++ GV G I+ PI RD R M +++G ++A + ++V+E
Sbjct: 172 KAIVHGVIPHDKGTIDAPIGRDKKERQSMTV----DENG--KNAVTHFQVLERFK--DFT 223
Query: 312 LVEWRLETGRTHQVLMLYKLFYIP 335
LVE RLETGRTHQ+ + K P
Sbjct: 224 LVECRLETGRTHQIRVHMKYIGYP 247
>gi|160947739|ref|ZP_02094906.1| hypothetical protein PEPMIC_01674 [Parvimonas micra ATCC 33270]
gi|158446873|gb|EDP23868.1| pseudouridine synthase, RluA family [Parvimonas micra ATCC 33270]
Length = 310
Score = 169 bits (429), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 96/256 (37%), Positives = 147/256 (57%), Gaps = 34/256 (13%)
Query: 70 KLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLR 129
K+R D ++S +I +SR +Q I+ LV +NG+ + K + ++ GD + +I + + +
Sbjct: 11 KIRCDVFLSEKISNLSRTSIQKLIKGKLVFVNGKNI-KPNVILEIGDEITVSIPDKKEIT 69
Query: 130 AEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAF 189
AEDI LDIVYEDD ++++NKP +MVVHPA GN TLVN +L+HC L + S
Sbjct: 70 LVAEDIDLDIVYEDDYIIIINKPRNMVVHPAVGNEKHTLVNALLNHCKLSMINSE----- 124
Query: 190 SDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIER 249
RPGIVHRLDK T+GL++ AKD+ +H L E F I +
Sbjct: 125 ---------------------RPGIVHRLDKDTTGLIICAKDDETHLKLVEMFANREINK 163
Query: 250 VYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGG 309
Y+++ +G S+ +G I+ PI RD +R +M+ +K G+A A + Y V +++
Sbjct: 164 KYLAICNGSFSKENGLIDKPIGRDEKDRKKMSV---KSKSGKA--AITEYNV--LISNLK 216
Query: 310 SALVEWRLETGRTHQV 325
+LV+ L TGRTHQ+
Sbjct: 217 YSLVDVTLHTGRTHQI 232
>gi|404253882|ref|ZP_10957850.1| ribosomal large subunit pseudouridine synthase D [Sphingomonas sp.
PAMC 26621]
Length = 315
Score = 169 bits (429), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 104/271 (38%), Positives = 151/271 (55%), Gaps = 34/271 (12%)
Query: 57 GVQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSK--VSHNVKG 114
GV ET LRLD ++ + ISR R+++ I +G V+ G + + S V G
Sbjct: 4 GVSTIETRIADEAGLRLDRALADALPTISRERLKALISTGQVTDEGGTLRRDPSSKAVPG 63
Query: 115 GDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILH 174
G + + + P EA+DI L +V+ED++++V++K A +VVHPA GN GTLVN +LH
Sbjct: 64 G-LYRIIVPDPTPAHNEAQDIALTVVFEDEHLIVIDKQAGLVVHPAAGNLDGTLVNALLH 122
Query: 175 HCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHS 234
HC S S G RPGIVHR+DK TSGL+V AK + +
Sbjct: 123 HCG-----------------------GSLSGIGGVARPGIVHRIDKDTSGLMVAAKTDRA 159
Query: 235 HAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARH 294
H L++QF H+I+R Y ++ SG P+ +G ++ P++R P NR ++A + G +
Sbjct: 160 HVGLAKQFAAHSIDRRYKAIVSGRPAPPAGSVDAPLARSPQNRKKIAIVQGGKR------ 213
Query: 295 AASRYKVIEILAGGGSALVEWRLETGRTHQV 325
A + + IE L +ALVE RLETGRTHQV
Sbjct: 214 AVTHFSTIERLR--EAALVECRLETGRTHQV 242
>gi|395493555|ref|ZP_10425134.1| ribosomal large subunit pseudouridine synthase D [Sphingomonas sp.
PAMC 26617]
Length = 315
Score = 169 bits (429), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 104/271 (38%), Positives = 151/271 (55%), Gaps = 34/271 (12%)
Query: 57 GVQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSK--VSHNVKG 114
GV ET LRLD ++ + ISR R+++ I +G V+ G + + S V G
Sbjct: 4 GVSTIETRIADEAGLRLDRALADALPTISRERLKALISTGQVTDEGGTLRRDPSSKAVPG 63
Query: 115 GDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILH 174
G + + + P EA+DI L +V+ED++++V++K A +VVHPA GN GTLVN +LH
Sbjct: 64 G-LYRIIVPDPTPAHNEAQDIALTVVFEDEHLIVIDKQAGLVVHPAAGNLDGTLVNALLH 122
Query: 175 HCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHS 234
HC S S G RPGIVHR+DK TSGL+V AK + +
Sbjct: 123 HCG-----------------------GSLSGIGGVARPGIVHRIDKDTSGLMVAAKTDRA 159
Query: 235 HAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARH 294
H L++QF H+I+R Y ++ SG P+ +G ++ P++R P NR ++A + G +
Sbjct: 160 HVGLAKQFAAHSIDRRYKAIVSGRPAPPAGSVDAPLARSPQNRKKIAIVQGGKR------ 213
Query: 295 AASRYKVIEILAGGGSALVEWRLETGRTHQV 325
A + + IE L +ALVE RLETGRTHQV
Sbjct: 214 AVTHFSTIERLR--EAALVECRLETGRTHQV 242
>gi|339498527|ref|ZP_08659503.1| pseudouridylate synthase, 23S RNA-specific [Leuconostoc
pseudomesenteroides KCTC 3652]
Length = 312
Score = 169 bits (429), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 101/254 (39%), Positives = 144/254 (56%), Gaps = 34/254 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+DA ++ SR + + G V +NG V + S+ V GD+V T E++
Sbjct: 15 RIDAVLAKETLPYSRTTLSDWLLEGNVLVNGTQVKR-SYKVSSGDVVTITPPEIKDTEIL 73
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AE+IPLDIVYEDD++LVVNKP MVVHPA G+ TGTLVN +++H L
Sbjct: 74 AENIPLDIVYEDDDLLVVNKPQGMVVHPAAGHTTGTLVNALMYHSPL------------- 120
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
S+I+G RPGIVHR+D+ TSGLL+VAK++ +H LS Q K H +R+Y
Sbjct: 121 -----------STING-EFRPGIVHRIDRDTSGLLMVAKNDSAHQALSAQLKAHKNQRIY 168
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
I+L G + +G I P++R +R + A G R A + ++V++ G
Sbjct: 169 IALVRGEFQEDTGTISAPLARHKVDRKKQAVTEG------GREAITHFQVLKRFV--GYT 220
Query: 312 LVEWRLETGRTHQV 325
L++ RLETGRTHQ+
Sbjct: 221 LLKVRLETGRTHQI 234
>gi|332638853|ref|ZP_08417716.1| pseudouridine synthase [Weissella cibaria KACC 11862]
Length = 304
Score = 169 bits (429), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 102/265 (38%), Positives = 146/265 (55%), Gaps = 34/265 (12%)
Query: 61 EETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNC 120
EET+ RLD ++ D +R +V I G++++NG V K ++VK D +
Sbjct: 3 EETLVITDQTGRLDKVVADAFDDYTRTQVTGWINDGILTVNG-AVKKAKYSVKPNDEIKF 61
Query: 121 TISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPT 180
T+ E + + EDIPLDIVYEDD++LVVNKP MVVHPA G+ +GTLVN ++ H L
Sbjct: 62 TVPEAVEIDLQPEDIPLDIVYEDDDLLVVNKPQGMVVHPALGHESGTLVNALMFHTPL-- 119
Query: 181 LASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSE 240
S+I+G +RPGIVHR+DK TSGLL+VAK++ +H LS
Sbjct: 120 ----------------------STINGV-VRPGIVHRIDKDTSGLLMVAKNDKAHESLSA 156
Query: 241 QFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYK 300
Q K R Y +L G ++ G I+ P+ R +R + A + G R A + +K
Sbjct: 157 QLKDKKNLRQYYALVHGEFVENEGTIKAPLGRSSADRKKQAVVAG------GRDAVTHFK 210
Query: 301 VIEILAGGGSALVEWRLETGRTHQV 325
V++ G L++ LETGRTHQ+
Sbjct: 211 VVKRFV--GYTLLQVTLETGRTHQI 233
>gi|357238999|ref|ZP_09126335.1| pseudouridine synthase, RluA family [Streptococcus ictaluri 707-05]
gi|356752721|gb|EHI69846.1| pseudouridine synthase, RluA family [Streptococcus ictaluri 707-05]
Length = 299
Score = 169 bits (429), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 99/254 (38%), Positives = 144/254 (56%), Gaps = 34/254 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++ D +SR++ I+ GLV +NGQ K + V+ GD + I + + L +
Sbjct: 11 RLDKALADLTD-LSRSQANDQIKQGLVLVNGQA-KKAKYTVQLGDKITYQIPQEEVLEYK 68
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AEDIPLDI+YEDD + +VNKP MVVHP+ G+A+GT+VN +++H
Sbjct: 69 AEDIPLDIIYEDDALAIVNKPQGMVVHPSAGHASGTMVNALMYHI--------------- 113
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+ SSI+G +RPGIVHR+DK TSGLL+VAK + +H HL+E+ K R Y
Sbjct: 114 --------KNLSSINGV-VRPGIVHRIDKDTSGLLMVAKTDKAHHHLAEELKAKKSLRKY 164
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+++ G G IE PI R +R + A + + A +R+ V+E G
Sbjct: 165 LAIVHGNLPNDRGVIEAPIGRSEKDRKKQAVTV------KGKEALTRFTVLERF--GDYT 216
Query: 312 LVEWRLETGRTHQV 325
L+E +LETGRTHQ+
Sbjct: 217 LLELQLETGRTHQI 230
>gi|114566812|ref|YP_753966.1| pseudouridylate synthase [Syntrophomonas wolfei subsp. wolfei str.
Goettingen]
gi|114337747|gb|ABI68595.1| ribosomal large subunit pseudouridine synthase D [Syntrophomonas
wolfei subsp. wolfei str. Goettingen]
Length = 305
Score = 169 bits (429), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 99/262 (37%), Positives = 152/262 (58%), Gaps = 33/262 (12%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
VD + RLDA+++ ++D +SR+ V++ I +G + ++ + K S+ +K G+ + I
Sbjct: 9 VDEEMEGERLDAFVTEQLDELSRSLVKTLIENGEIRVDSKQ-QKPSYRLKAGEEIIVEIP 67
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
++ L+ +A+DIPL +Y+D ++ V++KP MV HPA GN TLVN +L H L L+
Sbjct: 68 AVRELKLKAQDIPLSFIYQDKDIAVIDKPKGMVAHPAHGNWENTLVNALLFH--LKDLSG 125
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
N E +RPGIVHRLDK TSG++V+AK++ +H L+ Q K
Sbjct: 126 INGE----------------------LRPGIVHRLDKDTSGVMVIAKNDMAHRQLAAQIK 163
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
H+I R YI+L G+ ++ G IE PI R +R +MA I G R A S Y+V+E
Sbjct: 164 DHSINREYITLVHGIIKENLGSIEAPIGRSKQDRKKMAVIAG------GRPAVSNYQVLE 217
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
L G L++ +L TGRTHQ+
Sbjct: 218 RL--GNYTLLKVKLLTGRTHQI 237
>gi|418297020|ref|ZP_12908862.1| ribosomal large subunit pseudouridine synthase D [Agrobacterium
tumefaciens CCNWGS0286]
gi|355538118|gb|EHH07365.1| ribosomal large subunit pseudouridine synthase D [Agrobacterium
tumefaciens CCNWGS0286]
Length = 340
Score = 169 bits (429), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 102/264 (38%), Positives = 148/264 (56%), Gaps = 36/264 (13%)
Query: 72 RLDAWISSRIDG-ISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
RLD+W++ + G SR+R+++ I G VS+NGQ V++ V GD + + E +
Sbjct: 24 RLDSWLAGEVSGDFSRSRLKALIEQGAVSLNGQPVTEPKKKVHPGDRIEIVMPEPEDPEP 83
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
+ EDIPLD+ YED++++V+ KPA +VVHP GN TGTLVN ++HHC
Sbjct: 84 KGEDIPLDVEYEDEDLIVLIKPAGLVVHPGAGNWTGTLVNALIHHCG------------- 130
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLH----T 246
+ S I G RPGIVHRLDK TSG++VVAK++++H HL+ QF H
Sbjct: 131 ---------DSLSGIGGVK-RPGIVHRLDKETSGVMVVAKNDNAHRHLAAQFADHGRTGP 180
Query: 247 IERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEIL- 305
+ER Y ++ G P G I+ + R + R S+ AR A + Y+V+E
Sbjct: 181 LERAYKAIVWGRPRTLRGTIDAALGRSADRTKRAVKHEDSD---DAREAITHYEVMERYH 237
Query: 306 ----AGGGSALVEWRLETGRTHQV 325
A +++VE RLETGRTHQ+
Sbjct: 238 ERPDATCLASMVECRLETGRTHQI 261
>gi|325954148|ref|YP_004237808.1| pseudouridine synthase [Weeksella virosa DSM 16922]
gi|323436766|gb|ADX67230.1| pseudouridine synthase, RluA family [Weeksella virosa DSM 16922]
Length = 362
Score = 169 bits (429), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 107/272 (39%), Positives = 150/272 (55%), Gaps = 36/272 (13%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TVD LR+D ++ RI+ +R ++Q + +G + +N V K ++ VK GD + +
Sbjct: 23 TVDKGQSLLRIDKFLMIRIENATRNKIQQAAENGNILVNNLPV-KSNYKVKPGDFIQIML 81
Query: 123 SELQPLRAE---AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGI-LHHCSL 178
P R AED+PL+IV+EDD VLV++KPA MVVHP GN +GTLVN + H +L
Sbjct: 82 E--NPPREHKIIAEDLPLNIVFEDDQVLVIDKPAGMVVHPGHGNYSGTLVNALKFHFDNL 139
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
P S+S RPG+VHR+DK TSGLLV+AK E + HL
Sbjct: 140 P------------------------SMSAELERPGLVHRIDKDTSGLLVIAKTEQAMNHL 175
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
+ QF HT R Y +L G ++ G I I R +R++MA + Q +HA +
Sbjct: 176 ALQFANHTTTRKYNALVWGNVTEDEGTITGHIGRHLKDRMQMAVFEDGS---QGKHAVTH 232
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYK 330
YKV+E L+ LVE +LETGRTHQ+ +K
Sbjct: 233 YKVLERLS--YVTLVECQLETGRTHQIRTHFK 262
>gi|452974551|gb|EME74371.1| RNA-pseudouridine synthase YlyB [Bacillus sonorensis L12]
Length = 304
Score = 169 bits (429), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 110/275 (40%), Positives = 147/275 (53%), Gaps = 32/275 (11%)
Query: 61 EETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNC 120
E TV R+D +++ SR +VQ I+ V +N + V K ++ V+ GD+V
Sbjct: 5 EMTVQEDHKSERIDKYLTVMETDWSRTQVQQWIKEERVQVNDKAV-KANYKVQPGDVVIV 63
Query: 121 TISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPT 180
+ E +PL AE + LDI YED +VLVVNKP MVVHPAPG+ TGTLVNG++ HC
Sbjct: 64 DVPEPEPLDVLAEPMDLDIYYEDQDVLVVNKPRGMVVHPAPGHLTGTLVNGLMAHC---- 119
Query: 181 LASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSE 240
DD S I+G +RPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 120 ----------------DD---LSGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESLVN 159
Query: 241 QFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYK 300
Q T+ R Y +L GV G I+ PI RD +R M + K HA + ++
Sbjct: 160 QLVKKTVTRKYTALVHGVIPHDHGTIDAPIGRDKKDRQSMTVTRENGK-----HAVTHFE 214
Query: 301 VIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
V E +VE RLETGRTHQ+ + K P
Sbjct: 215 VKERF--DDFTVVECRLETGRTHQIRVHMKYIGFP 247
>gi|383774169|ref|YP_005453236.1| pseudouridine synthase-like protein [Bradyrhizobium sp. S23321]
gi|381362294|dbj|BAL79124.1| pseudouridine synthase-like protein [Bradyrhizobium sp. S23321]
Length = 335
Score = 169 bits (429), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 99/275 (36%), Positives = 150/275 (54%), Gaps = 37/275 (13%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
+LE V+ G RLD +++ + +SR+R+++ I +G V++ + +++V GD +
Sbjct: 9 RLEVVVEGSEGSARLDRVLAAHLTDLSRSRLKALILAGAVTLKASAIRDPAYHVSSGDTI 68
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
+ E P + EDI LDIV+EDD+++V+NKP +VVHPA G+ TGTLVN ++ HC
Sbjct: 69 TIDVPEAVPAEPKGEDITLDIVFEDDDIVVLNKPKGLVVHPAAGHETGTLVNALIAHCGT 128
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
S S G RPGIVHRLDK T+GL+VVAK++ +HA L
Sbjct: 129 -----------------------SLSGIGGVRRPGIVHRLDKDTTGLMVVAKNDLAHASL 165
Query: 239 SEQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARH 294
+ QF H + R Y++ GVP + G ++ PI R P R +MA R
Sbjct: 166 TAQFADHGRTGPMRRGYMAFAWGVPGRHRGTVDAPIDRHPYAREKMAV------RQSGRE 219
Query: 295 AASRYKVIEILAGGG----SALVEWRLETGRTHQV 325
A + ++++E AG + L+ LETGRTHQ+
Sbjct: 220 AVTHWEILESFAGRDGKPIATLLACELETGRTHQI 254
>gi|260663035|ref|ZP_05863928.1| pseudouridine synthase [Lactobacillus fermentum 28-3-CHN]
gi|260552656|gb|EEX25656.1| pseudouridine synthase [Lactobacillus fermentum 28-3-CHN]
Length = 304
Score = 169 bits (429), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 103/264 (39%), Positives = 146/264 (55%), Gaps = 34/264 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D + SR++++ I G V++NGQ V K + ++ GD V + E
Sbjct: 17 RIDKELGHHFPQFSRSQLKRWIDDGTVTVNGQTV-KAKYQLQAGDRVVIEPETPVEIDLE 75
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E+IPLDIVYEDD+VLVVNKP MVVHPAPG+ TLVN +++H L
Sbjct: 76 PENIPLDIVYEDDDVLVVNKPQGMVVHPAPGHPNHTLVNALMYHAPL------------- 122
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
SSI+G +RPGIVHR+DK TSGLL+VAK + +H L+ Q K + R Y
Sbjct: 123 -----------SSING-ELRPGIVHRIDKDTSGLLMVAKTDRAHRSLTAQLKEKSNLREY 170
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++L GV ++ G I+ P++R P +R + A + G RHA + ++V++
Sbjct: 171 VALVHGVIKENEGTIDAPLARSPKDRKKQAVVVG------GRHAITHFRVLKRYQ--HYT 222
Query: 312 LVEWRLETGRTHQVLMLYKLFYIP 335
LV RLETGRTHQ+ + K P
Sbjct: 223 LVACRLETGRTHQIRVHMKYINHP 246
>gi|303229468|ref|ZP_07316258.1| pseudouridine synthase, RluA family [Veillonella atypica
ACS-134-V-Col7a]
gi|401680523|ref|ZP_10812438.1| pseudouridine synthase, RluA family [Veillonella sp. ACP1]
gi|302516004|gb|EFL57956.1| pseudouridine synthase, RluA family [Veillonella atypica
ACS-134-V-Col7a]
gi|400218431|gb|EJO49311.1| pseudouridine synthase, RluA family [Veillonella sp. ACP1]
Length = 305
Score = 169 bits (429), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 101/254 (39%), Positives = 153/254 (60%), Gaps = 33/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +++ ++G SR+ +QS I+SG V +NG+V K + + ++ I E + +
Sbjct: 14 RLDVFLTDVMEG-SRSYIQSLIKSGHVLVNGKV-GKANLRLNADSTISVDIPEPESVEIL 71
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
EDIP++ +YED ++++VNKP MVVHPA GN +GTLVN +L+HC
Sbjct: 72 PEDIPVEYLYEDHDIIIVNKPRGMVVHPAIGNYSGTLVNALLYHC--------------- 116
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+D+S I+G IRPGIVHRLDK TSG+++ AK++ +H L+EQ K H+ +R Y
Sbjct: 117 -KDLS-------GING-EIRPGIVHRLDKDTSGVMMAAKNDAAHIGLAEQVKAHSAKRTY 167
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++L G + G I+ PI R P +R++MA + ++K A + +KV+E G
Sbjct: 168 LALVQGNIVEEKGIIKAPIGRHPKDRMKMAVVFENSK-----EAVTHFKVLE--RYGYHT 220
Query: 312 LVEWRLETGRTHQV 325
LVE LETGRTHQ+
Sbjct: 221 LVECVLETGRTHQI 234
>gi|291519437|emb|CBK74658.1| ribosomal large subunit pseudouridine synthase D [Butyrivibrio
fibrisolvens 16/4]
Length = 305
Score = 169 bits (429), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 92/257 (35%), Positives = 146/257 (56%), Gaps = 36/257 (14%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
+R+D ++++ + SR+ Q +I +G V +NG+ + K + K GD + +I ++ +
Sbjct: 16 IRIDKYLAAALPEKSRSYYQKAIDNGFVLVNGKQI-KSKYQTKLGDEIIVSIEPVKEIDI 74
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
EDIP+DI+YED +V+VVNKP MVVHPAPG+ +GTLVN +++HC
Sbjct: 75 LPEDIPIDILYEDSDVIVVNKPKGMVVHPAPGHYSGTLVNALMYHC-------------- 120
Query: 191 DAEDISDDEEFSSSISG--ASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIE 248
S+SG IRPGIVHR+D T+G L+V K++ +H ++ Q K+H++
Sbjct: 121 -----------KDSLSGINGEIRPGIVHRIDMNTTGSLLVCKNDKAHNDIAAQIKVHSVN 169
Query: 249 RVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGG 308
R+Y + G + G I I R+P +R +MA + R A + Y V+E
Sbjct: 170 RIYKGIVVGNFKEEEGTINANIGRNPKDRKKMAVV------SDGREAITHYTVLEQYK-- 221
Query: 309 GSALVEWRLETGRTHQV 325
G + V+++LETGRTHQ+
Sbjct: 222 GFSYVQFKLETGRTHQI 238
>gi|303231392|ref|ZP_07318126.1| pseudouridine synthase, RluA family [Veillonella atypica
ACS-049-V-Sch6]
gi|429760093|ref|ZP_19292583.1| pseudouridine synthase, RluA family [Veillonella atypica KON]
gi|302513988|gb|EFL55996.1| pseudouridine synthase, RluA family [Veillonella atypica
ACS-049-V-Sch6]
gi|429178498|gb|EKY19776.1| pseudouridine synthase, RluA family [Veillonella atypica KON]
Length = 305
Score = 169 bits (428), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 101/254 (39%), Positives = 153/254 (60%), Gaps = 33/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +++ ++G SR+ +QS I+SG V +NG+V K + + ++ I E + +
Sbjct: 14 RLDVFLTDVMEG-SRSYIQSLIKSGHVLVNGKV-GKANLRLNADSTISVDIPEPESVEIL 71
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
EDIP++ +YED ++++VNKP MVVHPA GN +GTLVN +L+HC
Sbjct: 72 PEDIPVEYLYEDHDIIIVNKPRGMVVHPAIGNYSGTLVNALLYHC--------------- 116
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+D+S I+G IRPGIVHRLDK TSG+++ AK++ +H L+EQ K H+ +R Y
Sbjct: 117 -KDLS-------GING-EIRPGIVHRLDKDTSGVMMAAKNDAAHIGLAEQVKAHSAKRTY 167
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++L G + G I+ PI R P +R++MA + ++K A + +KV+E G
Sbjct: 168 LALVQGNIVEEKGIIKAPIGRHPKDRMKMAVVFENSK-----EAVTHFKVLE--RYGYHT 220
Query: 312 LVEWRLETGRTHQV 325
LVE LETGRTHQ+
Sbjct: 221 LVECVLETGRTHQI 234
>gi|335047539|ref|ZP_08540560.1| pseudouridine synthase, RluA family [Parvimonas sp. oral taxon 110
str. F0139]
gi|333761347|gb|EGL38902.1| pseudouridine synthase, RluA family [Parvimonas sp. oral taxon 110
str. F0139]
Length = 292
Score = 169 bits (428), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 94/256 (36%), Positives = 143/256 (55%), Gaps = 34/256 (13%)
Query: 70 KLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLR 129
K+R D ++S +I +SR +Q I+ LV +NG+ + K + ++ GD + +I + + +
Sbjct: 11 KIRCDVFLSEKISNLSRTSIQKLIKEKLVFVNGKNI-KPNVILEIGDEITVSIPDKKEIT 69
Query: 130 AEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAF 189
AEDI LDIVYEDD ++++NKP +MVVHPA GN TLVN +L+HC L + S
Sbjct: 70 LVAEDIALDIVYEDDYIIIINKPRNMVVHPAAGNEAHTLVNALLNHCKLSMINSE----- 124
Query: 190 SDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIER 249
RPGIVHRLDK T+GL+V AKD+ +H L E F I +
Sbjct: 125 ---------------------RPGIVHRLDKDTTGLIVCAKDDETHLKLVEMFSNREINK 163
Query: 250 VYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGG 309
Y+++ +G S+ +G I+ PI RD +R +M+ K + A + Y ++ +
Sbjct: 164 KYLAICNGSFSKENGFIDKPIGRDEKDRKKMSV-----KSKSGKEALTEYNILT--SNLK 216
Query: 310 SALVEWRLETGRTHQV 325
+LV+ L TGRTHQ+
Sbjct: 217 YSLVDVTLHTGRTHQI 232
>gi|312622398|ref|YP_004024011.1| pseudouridine synthase, rlua family [Caldicellulosiruptor
kronotskyensis 2002]
gi|312202865|gb|ADQ46192.1| pseudouridine synthase, RluA family [Caldicellulosiruptor
kronotskyensis 2002]
Length = 299
Score = 169 bits (428), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 101/254 (39%), Positives = 143/254 (56%), Gaps = 32/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++S + +R+ VQ I G V +N V K ++ VK GD++ I E + L
Sbjct: 9 RLDRYLSEALSK-TRSFVQKIIEEGNVWVNQIQVLKPAYKVKSGDIIKVVIPEPKQLSLV 67
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
A++I ++++YED+++ V+NKP MVVHP GN TLVN +LH S
Sbjct: 68 AQEIDIEVLYEDEHLAVINKPRGMVVHPGAGNFENTLVNALLHKFSGRL----------- 116
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
SSI+G IRPGIVHRLDK TSGLLVVAK + +H LSE K H I+R+Y
Sbjct: 117 -----------SSINGV-IRPGIVHRLDKDTSGLLVVAKTDEAHIKLSEALKSHQIKRIY 164
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++ GV + SG I PI R P NR++MA +P + A + ++V+E
Sbjct: 165 YAICEGVLKEDSGVINAPIGRHPVNRLKMAVVP------NGKEAVTYFEVLERF--DKYT 216
Query: 312 LVEWRLETGRTHQV 325
++ RL+TGRTHQ+
Sbjct: 217 FIKLRLKTGRTHQI 230
>gi|404404826|ref|ZP_10996410.1| RluA family pseudouridine synthase [Alistipes sp. JC136]
Length = 360
Score = 169 bits (428), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 101/264 (38%), Positives = 148/264 (56%), Gaps = 30/264 (11%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
T D +RLD +++ R++ SR R+Q++ SG + +NG+ +K S+ VK D + +
Sbjct: 34 TADKGQTPMRLDKFLTVRMEHCSRNRIQAAADSGNILVNGKA-AKSSYKVKPLDRIQIVM 92
Query: 123 S-ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTL 181
+ + AE+IPLDI YED +L+V+KPA MVVHP GN GTLVN +++H + +
Sbjct: 93 PYPRREVELRAENIPLDIPYEDKWLLLVDKPAGMVVHPGVGNYDGTLVNALMYHLNAQGI 152
Query: 182 ASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQ 241
+ Q R G+VHR+DK TSGLLV+AKDE +HA L++Q
Sbjct: 153 PAEEQN-----------------------RAGLVHRIDKNTSGLLVIAKDEQTHARLAKQ 189
Query: 242 FKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKV 301
F HTI+R Y++L G + G I I R P +R +M + +HA + +KV
Sbjct: 190 FFDHTIQRRYVALVWGNFEEDEGTITGNIGRSPKDRQKMFVFADGS---DGKHAVTHWKV 246
Query: 302 IEILAGGGSALVEWRLETGRTHQV 325
++ G LVE RLETGRTHQ+
Sbjct: 247 LKRY--GYVTLVECRLETGRTHQI 268
>gi|334344653|ref|YP_004553205.1| RluA family pseudouridine synthase [Sphingobium chlorophenolicum
L-1]
gi|334101275|gb|AEG48699.1| pseudouridine synthase, RluA family [Sphingobium chlorophenolicum
L-1]
Length = 316
Score = 169 bits (428), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 102/266 (38%), Positives = 152/266 (57%), Gaps = 30/266 (11%)
Query: 60 LEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
+E T+ +RLD ++ + +SR R+++ I G V+ +G+ + S V G
Sbjct: 8 IEATIGEAQDGMRLDKALAELVPDLSRERLKALIVDGQVTSSGRAPNP-SLKVTMGQAFA 66
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
+ A A++IPL IV+ED +++V++KPA +VVHPA GN GTLVN +LHHC
Sbjct: 67 IALPPPVEAEAVAQNIPLAIVHEDADLIVIDKPAGLVVHPAAGNLDGTLVNALLHHC--- 123
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
+ S I G + RPGIVHR+DK TSGLLVVAK + +H L+
Sbjct: 124 -------------------QGQLSGIGGVA-RPGIVHRIDKDTSGLLVVAKSDRAHEGLA 163
Query: 240 EQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRY 299
+QF H+I+R+Y ++ G P ++G ++ I R +R +MA + G+ +HA + Y
Sbjct: 164 QQFAAHSIDRLYAAIVYGAPQPAAGTVDSWIGRSDADRKKMAVC----REGRGKHAVTHY 219
Query: 300 KVIEILAGGGSALVEWRLETGRTHQV 325
+ +E L G+ALVE RLETGRTHQV
Sbjct: 220 RTLEKLR--GAALVECRLETGRTHQV 243
>gi|402488750|ref|ZP_10835557.1| pseudouridine synthase [Rhizobium sp. CCGE 510]
gi|401812217|gb|EJT04572.1| pseudouridine synthase [Rhizobium sp. CCGE 510]
Length = 341
Score = 169 bits (428), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 105/286 (36%), Positives = 161/286 (56%), Gaps = 36/286 (12%)
Query: 50 EPIANYAGVQLEETVDTKAGKLRLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKV 108
+P AG + T D A + RLD W+++++ + SR+R+++ I+ G V + G+ V+
Sbjct: 3 DPFKQAAGNRKVLTADETA-EGRLDTWLTAQVAEEFSRSRIKALIKDGQVFLRGEPVTDP 61
Query: 109 SHNVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTL 168
V+ GD T+ E + + EDI LDI++ED++V+V++KP+ +VVHP PGN TGTL
Sbjct: 62 QRKVRNGDSFEITLPEPEDPTPQGEDIRLDILHEDEDVIVISKPSGLVVHPGPGNWTGTL 121
Query: 169 VNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVV 228
VN +++HC + S I G RPGIVHRLDK T+G++VV
Sbjct: 122 VNALIYHCG----------------------DTLSGIGGVR-RPGIVHRLDKDTTGVMVV 158
Query: 229 AKDEHSHAHLSEQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIP 284
AK++ +H HLS QF H +ER Y ++ G P +G ++ P+ R +R R A+
Sbjct: 159 AKNDIAHRHLSLQFADHGRTMPLERAYQAVVWGRPRTLTGTVDAPLGRATGDRTRR-AVK 217
Query: 285 GSNKHGQARHAASRYKVIEIL-----AGGGSALVEWRLETGRTHQV 325
+ H A A + Y+V+E A ++LVE LETGRTHQ+
Sbjct: 218 RPDSH-DADEAITHYQVVERFQEKPDATALASLVECHLETGRTHQI 262
>gi|78044742|ref|YP_360337.1| ribosomal large subunit pseudouridine synthase A [Carboxydothermus
hydrogenoformans Z-2901]
gi|77996857|gb|ABB15756.1| ribosomal large subunit pseudouridine synthase, RluA family
[Carboxydothermus hydrogenoformans Z-2901]
Length = 305
Score = 169 bits (428), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 103/268 (38%), Positives = 156/268 (58%), Gaps = 33/268 (12%)
Query: 59 QLEETVDTKAGKLRLDAWISSRID-GISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDM 117
+++ V+++ LRLD +++ + + +SR+ ++ I G V++NG + K S+ V+GG++
Sbjct: 4 EIKVVVNSEYSGLRLDKFLAEQEELELSRSFIKKLIEEGKVTVNG-LHRKASYKVRGGEI 62
Query: 118 VNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCS 177
+ + + L + E+IPLDIVYED++++VVNK A MVVHPA GN GTLVN +L+HC
Sbjct: 63 IAVLLPPPRELSVKPEEIPLDIVYEDEDLVVVNKKAGMVVHPAEGNWDGTLVNALLYHCQ 122
Query: 178 LPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAH 237
+ S G +RPGIVHRLDK TSGLLVVAK++ +H
Sbjct: 123 ------------------------NLSGIGGVLRPGIVHRLDKDTSGLLVVAKNDLAHQS 158
Query: 238 LSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAAS 297
L+EQ K R Y ++ G G I++PI R P +R +MA + SN + A +
Sbjct: 159 LAEQIKEKKAVREYWTIVHGYLKNKEGIIDLPIGRHPRDRQKMAVV--SN----GKTAQT 212
Query: 298 RYKVIEILAGGGSALVEWRLETGRTHQV 325
YKV+E G L++ +L TGRTHQ+
Sbjct: 213 VYKVLEEF-NKGFTLIQAKLLTGRTHQI 239
>gi|409386178|ref|ZP_11238635.1| Ribosomal large subunit pseudouridine synthase D [Lactococcus
raffinolactis 4877]
gi|399206541|emb|CCK19550.1| Ribosomal large subunit pseudouridine synthase D [Lactococcus
raffinolactis 4877]
Length = 299
Score = 169 bits (428), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 106/262 (40%), Positives = 148/262 (56%), Gaps = 34/262 (12%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
+ ++ LRLD IS D +SR + I++ V +NGQV K + V D+V+ I
Sbjct: 5 IKAQSAGLRLDKAISDNSD-VSRTQANDLIKADAVLVNGQV-KKAKYKVLENDIVSFDIP 62
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
E + L EAE+I L+IVYEDD+V V+NKP MVVHP+ G+ TGTLVN +++H +
Sbjct: 63 EPEVLSYEAENIALEIVYEDDDVAVINKPQGMVVHPSAGHQTGTLVNALMYHMT------ 116
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
SSI+G IRPGIVHR+DK TSGLL+VAK++ +H L+ Q K
Sbjct: 117 -----------------NLSSINGV-IRPGIVHRIDKDTSGLLMVAKNDQAHEFLATQLK 158
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
HT +R Y+++ G G IE PI R+ +R + A I G + A + ++V+E
Sbjct: 159 EHTSKRRYVAIIHGNLLNDRGVIEAPIGRNAKDRKKQAVIAG------GKPALTHFEVLE 212
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
G LV LETGRTHQ+
Sbjct: 213 RF--GDFTLVSLTLETGRTHQI 232
>gi|348026140|ref|YP_004765945.1| pseudouridine synthase [Megasphaera elsdenii DSM 20460]
gi|341822194|emb|CCC73118.1| pseudouridine synthase [Megasphaera elsdenii DSM 20460]
Length = 305
Score = 169 bits (428), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 104/254 (40%), Positives = 145/254 (57%), Gaps = 32/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +++S +D ISR+ Q I+ V++NG+ +K + + GD V I + +
Sbjct: 16 RLDVYLTSALD-ISRSYAQQLIQRQGVTVNGKD-AKANRRLNEGDRVKAVIEVQEEYKVV 73
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
+DIPLDIVYED +++V+NK MVVHPA GN GTLVN +L+HC
Sbjct: 74 PQDIPLDIVYEDKDIIVINKARGMVVHPAAGNPDGTLVNALLYHCQGEL----------- 122
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
S I+G IRPGIVHRLDK TSG++V AK + +H L+EQ K H+ R Y
Sbjct: 123 -----------SGINGV-IRPGIVHRLDKDTSGVMVAAKTDEAHKGLAEQIKAHSAHRTY 170
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+L G S+ G ++ PI R P +RI+MA + K G R A + +KV++ G
Sbjct: 171 WALVHGNISEERGIVDAPIGRHPKDRIKMAV---TFKGG--REAVTHFKVLKRY--GDYT 223
Query: 312 LVEWRLETGRTHQV 325
VE +LETGRTHQ+
Sbjct: 224 WVECKLETGRTHQI 237
>gi|347761723|ref|YP_004869284.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase D
[Gluconacetobacter xylinus NBRC 3288]
gi|347580693|dbj|BAK84914.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase D
[Gluconacetobacter xylinus NBRC 3288]
Length = 323
Score = 169 bits (428), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 99/254 (38%), Positives = 141/254 (55%), Gaps = 28/254 (11%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R D +I++ +D +SR+RV+S + SG + NG + + V+ G I P +
Sbjct: 20 RTDRFIATMVDTLSRSRVKSLMESGHLLRNGSPLRDPAEPVRAGMCYEIHIPPAIPTTPQ 79
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
+DI LDI+YED +++V++KPA MVVHPAPGN GTLVN +L HC
Sbjct: 80 GQDIALDILYEDRDLIVLDKPAGMVVHPAPGNEDGTLVNALLAHCG-------------- 125
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
S + G RPGIVHRLDK TSG++V AK E +H LS F ++R Y
Sbjct: 126 ---------DSLTGIGGERRPGIVHRLDKDTSGIMVAAKTEMAHQALSLAFAERRMDRAY 176
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++ G+P+ + G + I RD +R RMA I +G +HA + Y+++E GG A
Sbjct: 177 QAICWGIPTPAQGSFDGAIGRDRRDRKRMAVI----ANGGGKHALTHYRILETFH-GGLA 231
Query: 312 LVEWRLETGRTHQV 325
VE +L TGRTHQ+
Sbjct: 232 HVECKLATGRTHQI 245
>gi|228992627|ref|ZP_04152553.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
pseudomycoides DSM 12442]
gi|229006175|ref|ZP_04163861.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus mycoides
Rock1-4]
gi|228755016|gb|EEM04375.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus mycoides
Rock1-4]
gi|228766959|gb|EEM15596.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus
pseudomycoides DSM 12442]
Length = 302
Score = 169 bits (428), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 106/273 (38%), Positives = 155/273 (56%), Gaps = 33/273 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV + R+D +++ + SR++VQ I+ G+V++NG + K ++ VK D + I
Sbjct: 8 TVTEEQKSERIDKFLAGVNNEWSRSQVQQWIKDGVVTVNGNDI-KGNYKVKVNDEIAVAI 66
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
+ + L ED+ L+I YED +VLVVNKP MVVHPAPG+ +GTLVNG++HHC+
Sbjct: 67 PDPEELDILPEDMNLEIYYEDADVLVVNKPRGMVVHPAPGHTSGTLVNGLMHHCT----- 121
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q
Sbjct: 122 -----------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQL 162
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
T+ R Y ++ GV G I+ PI RD +R M +++G +HA + ++V+
Sbjct: 163 VAKTVTRRYKAIVHGVIPHDKGTIDAPIGRDKKDRQSMTV----DENG--KHAVTHFQVL 216
Query: 303 EILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
E LVE RLETGRTHQ+ + K P
Sbjct: 217 ERFK--DFTLVECRLETGRTHQIRVHMKYIGYP 247
>gi|311748762|ref|ZP_07722547.1| ribosomal large subunit pseudouridine synthase D [Algoriphagus sp.
PR1]
gi|126577297|gb|EAZ81545.1| ribosomal large subunit pseudouridine synthase D [Algoriphagus sp.
PR1]
Length = 344
Score = 169 bits (428), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 101/265 (38%), Positives = 147/265 (55%), Gaps = 32/265 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
++D +R+D ++S ++ +R +VQ +I +G V +NG+ +K ++ +K D + +
Sbjct: 23 SIDKGQKNIRIDKFLSEKLANATRNKVQQAIDAGSVLVNGKP-TKANYKIKPMDDIKVMM 81
Query: 123 SELQPLRAEA--EDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPT 180
E P E E I LDI+YED +L+VNKPA MVVHPA GN +GTL N +++H
Sbjct: 82 -EKPPRDTEVYPEKIELDIIYEDKYLLIVNKPAGMVVHPAHGNWSGTLANALVYH----- 135
Query: 181 LASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSE 240
F D + G RPG+VHR+DK TSGLLV+AK E + HL+
Sbjct: 136 --------FQDL----------PEMKGNEGRPGLVHRIDKDTSGLLVIAKQEEAMTHLAS 177
Query: 241 QFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYK 300
QF HTI+R YI+L G P + G IE + R NR M P Q +HA + +K
Sbjct: 178 QFFHHTIDRTYIALVWGEPKEDEGTIEGNVGRSAKNRKVMDVFPDGE---QGKHAITHWK 234
Query: 301 VIEILAGGGSALVEWRLETGRTHQV 325
V++ L +L++ LETGRTHQ+
Sbjct: 235 VLKRLR--YVSLIQCNLETGRTHQI 257
>gi|256847299|ref|ZP_05552745.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
coleohominis 101-4-CHN]
gi|256715963|gb|EEU30938.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
coleohominis 101-4-CHN]
Length = 308
Score = 169 bits (428), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 97/254 (38%), Positives = 146/254 (57%), Gaps = 34/254 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D +++ + +SR++++ I G V++N Q V K ++++ GD+V + Q + E
Sbjct: 17 RIDKQLATLLSDVSRSQIKKWIEDGNVTVNKQSV-KPKYHLQAGDIVQVIPEQPQKIDLE 75
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E+IPL+IVYEDD+VLVVNKP MVVHP+ G+ TLVN +L+HC L
Sbjct: 76 PENIPLEIVYEDDDVLVVNKPQGMVVHPSAGHPNHTLVNALLYHCPL------------- 122
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
S I+G RPGIVHR+DK TSGLL+VAK++ +H L+ Q K T +R Y
Sbjct: 123 -----------SHING-EYRPGIVHRIDKDTSGLLMVAKNDRAHRSLAAQLKAKTNQREY 170
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++L GV + G I+ P+ R P +R + A + R A + ++V++
Sbjct: 171 VALVHGVIKEDQGTIDAPLGRSPKDRKKQAVV------ADGRPAVTHFRVLKRYL--HYT 222
Query: 312 LVEWRLETGRTHQV 325
LV +LETGRTHQ+
Sbjct: 223 LVACKLETGRTHQI 236
>gi|282859073|ref|ZP_06268205.1| pseudouridine synthase, RluA family [Prevotella bivia JCVIHMP010]
gi|424899807|ref|ZP_18323349.1| pseudouridine synthase, RluA family [Prevotella bivia DSM 20514]
gi|282588153|gb|EFB93326.1| pseudouridine synthase, RluA family [Prevotella bivia JCVIHMP010]
gi|388592007|gb|EIM32246.1| pseudouridine synthase, RluA family [Prevotella bivia DSM 20514]
Length = 364
Score = 169 bits (428), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 105/263 (39%), Positives = 149/263 (56%), Gaps = 29/263 (11%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
VD K R+D ++ R+ SR R+Q + SG + +NGQ V K ++ V+ D++ +
Sbjct: 36 VDKGQEKERIDKFLFERMQHSSRNRIQKAADSGFIHVNGQPV-KSNYKVRPLDVITLMLD 94
Query: 124 ELQPLRA-EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
+ E EDIPLD++YEDD+++V+ KPA +VVHP GN GTL+N I H L LA
Sbjct: 95 RPKHDNTIEPEDIPLDVIYEDDDLMVIMKPAGLVVHPGAGNFHGTLINAIAWH--LKDLA 152
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
S + ++D E G+VHR+DK TSGLL++AK + L +QF
Sbjct: 153 SFD----------ANDPEV-----------GLVHRIDKDTSGLLLIAKTPEAKTKLGKQF 191
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
T R YI+L G + GRIE I+RDP +R+RM P ++ G +HA + YKVI
Sbjct: 192 FNKTTHRSYIALVWGNFVEDEGRIEGNIARDPKDRLRMTVFPPDSEIG--KHAVTHYKVI 249
Query: 303 EILAGGGSALVEWRLETGRTHQV 325
E G + L+E LETGRTHQ+
Sbjct: 250 ERF--GYTTLIECILETGRTHQI 270
>gi|300767399|ref|ZP_07077311.1| pseudouridylate synthase [Lactobacillus plantarum subsp. plantarum
ATCC 14917]
gi|300495218|gb|EFK30374.1| pseudouridylate synthase [Lactobacillus plantarum subsp. plantarum
ATCC 14917]
Length = 320
Score = 169 bits (428), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 106/272 (38%), Positives = 147/272 (54%), Gaps = 34/272 (12%)
Query: 54 NYAGVQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVK 113
N AG E+ RLD +++ +R++V I++ V++NGQ+ + H VK
Sbjct: 13 NVAGATTEQQFMITDQTGRLDKVLAALQSVWTRSQVDKLIKTDQVTVNGQLEASKYH-VK 71
Query: 114 GGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGIL 173
GD + +Q E E+IPLDIVYEDD+VLVVNKP MVVHPAPG+ TLVN +L
Sbjct: 72 PGDEIVVAAQTVQQTTIEPENIPLDIVYEDDDVLVVNKPQGMVVHPAPGHPNHTLVNALL 131
Query: 174 HHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEH 233
+H L S+I+G RPGIVHR+DK TSGLL+VAK++
Sbjct: 132 YHSPL------------------------STING-EFRPGIVHRIDKDTSGLLMVAKNDR 166
Query: 234 SHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQAR 293
+H L+ Q K T R Y++L GV + +G I P+ R P +R + A I R
Sbjct: 167 AHQSLAAQLKAKTNLREYVALVHGVIKEDTGTINAPLGRSPKDRKKQAII------KTGR 220
Query: 294 HAASRYKVIEILAGGGSALVEWRLETGRTHQV 325
A + +KV++ L+ RLETGRTHQ+
Sbjct: 221 PAVTHFKVLKRYQ--HYTLISCRLETGRTHQI 250
>gi|260101276|ref|ZP_05751513.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
helveticus DSM 20075]
gi|260084917|gb|EEW69037.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
helveticus DSM 20075]
Length = 306
Score = 169 bits (427), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 96/254 (37%), Positives = 146/254 (57%), Gaps = 33/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +IS +I +SR RV+ ++ + +N +V KVS+ ++ GD + + ++PL
Sbjct: 18 RLDKFISEQIPDLSRTRVKELVKEKEILVNHKV-EKVSYKIQAGDKIEINVPAVKPLDVV 76
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E+IPLDIVYED+ V+VVNKP MVVHPAPG+ TLVN +L+H
Sbjct: 77 PENIPLDIVYEDEVVIVVNKPQGMVVHPAPGHPDHTLVNALLYHT--------------- 121
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
++ + S G RPGIVHR+DK TSGLL++AK+ + L +Q T +R+Y
Sbjct: 122 -------QDLAQSPEG--FRPGIVHRIDKDTSGLLMIAKNAKARESLEDQLAHKTNKRIY 172
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++ G + +G I+ PI R+ +R +MA + K A + +KV++ G +
Sbjct: 173 WAIVHGNFGEENGVIDAPIGRNLYDRKKMAVVENGKK------AVTHFKVLKQFK--GYS 224
Query: 312 LVEWRLETGRTHQV 325
L+E +LETGRTHQ+
Sbjct: 225 LIECQLETGRTHQI 238
>gi|349686560|ref|ZP_08897702.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase D
[Gluconacetobacter oboediens 174Bp2]
Length = 323
Score = 169 bits (427), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 103/254 (40%), Positives = 143/254 (56%), Gaps = 28/254 (11%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R D +I++ ++G+SR+RV+S + SG + +G + + V+ G I P +
Sbjct: 20 RTDRFIANVVEGLSRSRVKSLMESGHLLRDGSPLRDPAEPVRAGMCYEIHIPPAIPATPQ 79
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
+DI LDI+YED +++V++KPA MVVHPAPGN GTLVN +L HC
Sbjct: 80 GQDIALDILYEDRDLIVLDKPAGMVVHPAPGNEDGTLVNALLAHCG-------------- 125
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
E + I G RPGIVHRLDK TSG++V AK E +H LS F I+R Y
Sbjct: 126 --------EGLTGIGGER-RPGIVHRLDKDTSGIMVAAKTEMAHQALSLAFAERRIDRAY 176
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++ GVPS +SG + I RD +R RMA I +G + A + Y+V++ GG A
Sbjct: 177 QAICWGVPSPASGSFDGAIGRDRRDRKRMAVI----ANGGGKMALTHYRVLDTFH-GGLA 231
Query: 312 LVEWRLETGRTHQV 325
VE RL TGRTHQ+
Sbjct: 232 HVECRLATGRTHQI 245
>gi|347521451|ref|YP_004779022.1| pseudouridine synthase [Lactococcus garvieae ATCC 49156]
gi|385832835|ref|YP_005870610.1| pseudouridine synthase [Lactococcus garvieae Lg2]
gi|343180019|dbj|BAK58358.1| pseudouridine synthase [Lactococcus garvieae ATCC 49156]
gi|343181988|dbj|BAK60326.1| pseudouridine synthase [Lactococcus garvieae Lg2]
Length = 301
Score = 169 bits (427), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 107/262 (40%), Positives = 148/262 (56%), Gaps = 34/262 (12%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
+D LRLD +++ D SR+ + IR G V+++GQV G + + +
Sbjct: 6 IDEPNAGLRLDKALANLSDA-SRSVLTELIREGKVTVDGQVKKAKYKVKVG-EAIAYELP 63
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
E++ L +AEDIPLDIVYED +V V+NKP MVVHP+ G+A+GTLVN I++H
Sbjct: 64 EVEVLDIQAEDIPLDIVYEDSDVAVINKPQGMVVHPSAGHASGTLVNAIMYHI------- 116
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
+D+ SSI+G IRPGIVHR+DK TSGLL++AK++ +H L+ Q K
Sbjct: 117 ---------KDL-------SSINGV-IRPGIVHRIDKDTSGLLMIAKNDAAHESLAAQLK 159
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
T +R YI+L G S G IE PI R+P R + A I G + A + + V+E
Sbjct: 160 AKTNKRRYIALVHGELSNEKGTIEAPIGRNPKERKKQAVISG------GKPAKTHFTVME 213
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
G LV LETGRTHQ+
Sbjct: 214 RFP--GYTLVALELETGRTHQI 233
>gi|257416242|ref|ZP_05593236.1| pseudouridylate synthase [Enterococcus faecalis ARO1/DG]
gi|257158070|gb|EEU88030.1| pseudouridylate synthase [Enterococcus faecalis ARO1/DG]
Length = 301
Score = 169 bits (427), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 106/277 (38%), Positives = 150/277 (54%), Gaps = 35/277 (12%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q+ T+ T+ G R+D +S + SR+++Q ++ V++NG+ V + ++ V GD +
Sbjct: 3 QINVTIQTEKG--RIDKVLSEHLPNHSRSQIQQWLKEKHVTVNGETV-RANYKVTAGDEI 59
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
TI E + L AEDIPL IVYED++V+VVNKP MVVHP+ G+ GTLVN +LHH
Sbjct: 60 VVTIPEPEVLDMVAEDIPLTIVYEDNDVIVVNKPQGMVVHPSAGHPNGTLVNALLHHA-- 117
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+ S D+ +RPGIVHR+DK TSGLL+VAK + +H L
Sbjct: 118 --------DHLSAINDV--------------VRPGIVHRIDKDTSGLLMVAKSDQAHESL 155
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
++Q K T R Y++L GV G I PI R +R A I G + A +
Sbjct: 156 AKQLKEKTSLRKYVALVHGVIPHDKGEINAPIGRSKVDRKMQAVIEG------GKEAVTH 209
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ V+E LVE +LETGRTHQ+ + K P
Sbjct: 210 FTVLERF--DTFTLVELQLETGRTHQIRVHMKYIGYP 244
>gi|213961970|ref|ZP_03390235.1| ribosomal large subunit pseudouridine synthase D [Capnocytophaga
sputigena Capno]
gi|213955323|gb|EEB66640.1| ribosomal large subunit pseudouridine synthase D [Capnocytophaga
sputigena Capno]
Length = 350
Score = 169 bits (427), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 106/274 (38%), Positives = 152/274 (55%), Gaps = 40/274 (14%)
Query: 59 QLEETVDTKAGK----LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKG 114
+L E AGK LR+D ++ + ++ +R +VQ + + G + +NG+ V K +H VK
Sbjct: 21 ELYEHYSFTAGKGQEPLRVDKFLMNFVENATRNKVQQAAKQGNIFVNGEPV-KANHRVKA 79
Query: 115 GDMVNCTISELQPLRAE---AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNG 171
D+V +S P + E+IPL+IVYEDD +LVVNKPA MVVHP GN +GTL+N
Sbjct: 80 NDVVKVLLS--HPPHEDLLVPENIPLNIVYEDDALLVVNKPAGMVVHPGHGNYSGTLINA 137
Query: 172 ILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKD 231
+++H F + +S RPG+VHR+DK TSGLLV+AK
Sbjct: 138 LVYH-------------------------FEHLPNNSSNRPGLVHRIDKDTSGLLVIAKT 172
Query: 232 EHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQ 291
E + HL++QF T +R YI+L G + G + I R +R++M P + HG
Sbjct: 173 EEAMLHLTQQFFYKTTQREYIALVWGNIEEDEGTVRGHIGRHLKDRLQMDVFPDGS-HG- 230
Query: 292 ARHAASRYKVIEILAGGGSALVEWRLETGRTHQV 325
+ A + YKV+E G LV RLETGRTHQ+
Sbjct: 231 -KEAVTHYKVLERF--GYVTLVSCRLETGRTHQI 261
>gi|332654861|ref|ZP_08420603.1| ribosomal large subunit pseudouridine synthase D [Ruminococcaceae
bacterium D16]
gi|332516204|gb|EGJ45812.1| ribosomal large subunit pseudouridine synthase D [Ruminococcaceae
bacterium D16]
Length = 301
Score = 169 bits (427), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 96/259 (37%), Positives = 149/259 (57%), Gaps = 32/259 (12%)
Query: 67 KAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQ 126
+ G RLDA+++S+++ ++R+ Q + G V+ G+ + K + G +V + + Q
Sbjct: 9 QEGGERLDAFVASQVEDLTRSAAQRLLEQGAVTSGGKPLKKNAKTTPGM-VVEVLLPDPQ 67
Query: 127 PLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQ 186
P+ ++IPLD+VYEDD+V+VVNKP +VVHPAPG+ GTLVN +L+HC
Sbjct: 68 PVEIVPQNIPLDVVYEDDDVIVVNKPVGLVVHPAPGHPDGTLVNALLYHCG--------- 118
Query: 187 EAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHT 246
+ S I+G +RPGIVHR+D+ TSGL++ AK++ +H L+ Q + HT
Sbjct: 119 -------------DSLSGING-ELRPGIVHRIDRDTSGLIIAAKNDRAHLALAAQLQDHT 164
Query: 247 IERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILA 306
+ RVY ++ G + G + PI R P +R +MA P + R A + +KV+
Sbjct: 165 LARVYEAVAVGGFKEDRGTVNAPIGRHPVDRKKMAVDP------KGRPAVTHWKVLGRYP 218
Query: 307 GGGSALVEWRLETGRTHQV 325
G +E RLETGRTHQ+
Sbjct: 219 --GCTHLECRLETGRTHQI 235
>gi|333904809|ref|YP_004478680.1| RNA pseudouridylate synthase [Streptococcus parauberis KCTC 11537]
gi|333120074|gb|AEF25008.1| RNA pseudouridylate synthase [Streptococcus parauberis KCTC 11537]
gi|456370694|gb|EMF49590.1| Ribosomal large subunit pseudouridine synthase D [Streptococcus
parauberis KRS-02109]
gi|457095660|gb|EMG26131.1| Ribosomal large subunit pseudouridine synthase D [Streptococcus
parauberis KRS-02083]
Length = 295
Score = 169 bits (427), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 98/254 (38%), Positives = 150/254 (59%), Gaps = 34/254 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD I+ + +SR + +I++G+V +NGQ +K ++VK GD++ I E + L +
Sbjct: 11 RLDKAIADLTE-LSRGQANDAIKAGIVLVNGQA-AKAKYSVKAGDIITYEIQEEEVLDYQ 68
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AEDIPLD+VYED+++ ++NKP MVVHP+ G+++GT+VN +L+
Sbjct: 69 AEDIPLDVVYEDEDLAIINKPQGMVVHPSAGHSSGTMVNALLYQI--------------- 113
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L+++ K R Y
Sbjct: 114 -KDL-------SGINGV-VRPGIVHRIDKDTSGLLMVAKNDAAHQALADELKAKKSLRKY 164
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+++ G G IE PI R +R + A I + + A +R++VIE G
Sbjct: 165 LAIVHGNLPNDRGIIEAPIGRSEKDRKKQAVI------ARGKEAVTRFQVIERF--GDYT 216
Query: 312 LVEWRLETGRTHQV 325
LVE LETGRTHQ+
Sbjct: 217 LVELTLETGRTHQI 230
>gi|223984556|ref|ZP_03634687.1| hypothetical protein HOLDEFILI_01982 [Holdemania filiformis DSM
12042]
gi|223963484|gb|EEF67865.1| hypothetical protein HOLDEFILI_01982 [Holdemania filiformis DSM
12042]
Length = 307
Score = 169 bits (427), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 102/262 (38%), Positives = 148/262 (56%), Gaps = 32/262 (12%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
V+ + +RLD ++S+ +D SR+R Q I V I+ V K S+ VK GD + T+
Sbjct: 8 VEEQDQGVRLDKYLSTAMDDCSRSRAQQLIDEEAVRIDDLPV-KNSYKVKAGDEIEVTLP 66
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
E + L A+ +++ L++VYED +V+V+NKP +VVHP PGN TLVNG+L HC
Sbjct: 67 EEEALEAQPQEMALNVVYEDHDVIVINKPKGLVVHPGPGNPDHTLVNGLLWHC------- 119
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
D+ S I+G +RPGIVHR+DK TSGL+V K++++H L++Q
Sbjct: 120 ---------HDL-------SGINGV-LRPGIVHRIDKDTSGLIVACKNDNAHQSLAKQLA 162
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
T R Y +L GV + G I+ PI RD +R +MA + +R A + +KV+E
Sbjct: 163 EKTAGRQYYALVHGVINHEYGTIDAPIGRDEKDRQKMAVTEKN-----SRPAITHFKVVE 217
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
LV RLETGRTHQ+
Sbjct: 218 RF--DNYTLVSCRLETGRTHQI 237
>gi|259046729|ref|ZP_05737130.1| ribosomal large subunit pseudouridine synthase D [Granulicatella
adiacens ATCC 49175]
gi|259036625|gb|EEW37880.1| ribosomal large subunit pseudouridine synthase D [Granulicatella
adiacens ATCC 49175]
Length = 308
Score = 169 bits (427), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 99/263 (37%), Positives = 156/263 (59%), Gaps = 38/263 (14%)
Query: 70 KLRLDAWISSRID-------GISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
KL+L+ + R+D G+SR +QS +++GL+S+NG+VV K ++ + GD V
Sbjct: 7 KLKLELEKTQRLDKVLTGELGLSRTTIQSWLKAGLISVNGEVV-KSNYKAQSGDEVTILQ 65
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E + + E+IPLDIV+EDD+++VVNKP+ MVVHP+ G+ +GTLVN +L+H
Sbjct: 66 KEEDVITIQPENIPLDIVFEDDSLIVVNKPSGMVVHPSKGHYSGTLVNALLYH------- 118
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
SN + S +E+I RPG+VHR+DK TSGLLV+AK+ H L+EQ
Sbjct: 119 -SNSLSDSTSEEI--------------YRPGLVHRIDKDTSGLLVIAKNNDVHQKLAEQI 163
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
+ + R YI++ G + +G ++ P+SR NR++ G ++A + ++V+
Sbjct: 164 AENKMNREYIAIVDGHFAHETGVVDAPLSRHQTNRLKRVVEKG------GKNAITHFEVL 217
Query: 303 EILAGGGSALVEWRLETGRTHQV 325
+ + +LV RLETGRTHQ+
Sbjct: 218 DSFS--DYSLVSCRLETGRTHQI 238
>gi|114707402|ref|ZP_01440299.1| Prenyl group binding site (CAAX box):RNA-binding S4:Pseudouridine
synthase:Pseudouridine synthase, Rlu:Pseudouridine
[Fulvimarina pelagi HTCC2506]
gi|114537283|gb|EAU40410.1| Prenyl group binding site (CAAX box):RNA-binding S4:Pseudouridine
synthase:Pseudouridine synthase, Rlu:Pseudouridine
[Fulvimarina pelagi HTCC2506]
Length = 339
Score = 169 bits (427), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 108/273 (39%), Positives = 155/273 (56%), Gaps = 33/273 (12%)
Query: 61 EETVDTKAGKLRLDAWISSRID-GISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
E TV+ + +R+DA+++ R +SRAR+QS IR+G V++ G + VK G+ V
Sbjct: 5 EYTVEAEEAGMRIDAFLAGRCSPELSRARIQSLIRAGDVTVGGVDTAAAKRRVKEGEAVA 64
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
+ E EDIPL IV+ED +++VV+KPA +VVHP PGN +GTLVN +LH+C
Sbjct: 65 LRVPAPAEPEPEPEDIPLTIVFEDADLVVVDKPAGLVVHPGPGNWSGTLVNALLHYCG-- 122
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
EE S I+G RPGIVHRLDK TSGLLV+AK + +H L+
Sbjct: 123 -------------------EEL-SGINGVK-RPGIVHRLDKDTSGLLVIAKTDMAHRSLA 161
Query: 240 EQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHA 295
EQF H + R Y ++ G P + GRIE + R ++R++ + + AR A
Sbjct: 162 EQFAAHGSDGRMVRSYRAIVWGTPVPAVGRIETMLGRSSSDRLKRDVVAATQP--DARQA 219
Query: 296 ASRYKVI---EILAGGGSALVEWRLETGRTHQV 325
+ Y+++ AG ++LVE RL TGRTHQ+
Sbjct: 220 ITDYRILAGAGRAAGAEASLVECRLATGRTHQI 252
>gi|194468025|ref|ZP_03074011.1| pseudouridine synthase, RluA family [Lactobacillus reuteri 100-23]
gi|194452878|gb|EDX41776.1| pseudouridine synthase, RluA family [Lactobacillus reuteri 100-23]
Length = 303
Score = 169 bits (427), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 106/269 (39%), Positives = 147/269 (54%), Gaps = 39/269 (14%)
Query: 59 QLEETVDTKAGKL--RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGD 116
+LE T+D G++ R+D + D SR+++Q I G V +NG+ V K + + GD
Sbjct: 4 ELELTID---GEMVGRIDKQLGHHFDQFSRSQIQHWIEDGHVLVNGKQV-KPKYKLLVGD 59
Query: 117 MVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC 176
V E Q + EDIPLDIVYEDD+V+VVNKP MVVHPAPG+ TLVN +L+H
Sbjct: 60 HVQIIPEEPQKIDLAPEDIPLDIVYEDDDVIVVNKPQGMVVHPAPGHPDHTLVNALLYHS 119
Query: 177 SLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHA 236
L S+I+G RPGIVHR+DK TSGLL+VAK++ +H
Sbjct: 120 PL------------------------STING-EFRPGIVHRIDKDTSGLLMVAKNDMAHR 154
Query: 237 HLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAA 296
L+ Q K T +R Y++L GV + G I+ P+ R +R + + RHA
Sbjct: 155 SLTAQLKAKTNKREYVALVHGVIKEDKGTIDAPLGRSLKDRKKQGVVV------DGRHAV 208
Query: 297 SRYKVIEILAGGGSALVEWRLETGRTHQV 325
+ + V+E LV +LETGRTHQ+
Sbjct: 209 THFNVLERFK--NYTLVACQLETGRTHQI 235
>gi|220927321|ref|YP_002502623.1| RluA family pseudouridine synthase [Methylobacterium nodulans ORS
2060]
gi|219951928|gb|ACL62320.1| pseudouridine synthase, RluA family [Methylobacterium nodulans ORS
2060]
Length = 337
Score = 169 bits (427), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 103/259 (39%), Positives = 145/259 (55%), Gaps = 32/259 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++ +SR+R+Q IR G V ++G + + V GG V T+ +P E
Sbjct: 18 RLDRALARTWPDLSRSRLQGLIREGGVRLDGAEIRDAAVRVAGGQTVAVTVPPARPATPE 77
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AE+ L I YEDD+++V++KP +VVHPAPG+ +GTLVN ++ HC
Sbjct: 78 AEERALIIPYEDDDLIVIDKPPGLVVHPAPGHDSGTLVNALIAHCG-------------- 123
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLH----TI 247
S S G RPGIVHRLDK TSGLLVVAK++ +HA LS QF H +
Sbjct: 124 ---------ASLSGIGGVRRPGIVHRLDKDTSGLLVVAKNDMAHAALSLQFADHGRSGQL 174
Query: 248 ERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILA- 306
ER Y++L GVP +GRI+ ++R +NR ++A + + + RHA + Y+ +L
Sbjct: 175 ERAYLALVWGVPEPRAGRIDAALARSDSNREKIAVV----RPEKGRHAITHYRTEAVLGV 230
Query: 307 GGGSALVEWRLETGRTHQV 325
LV RLETGRTHQ+
Sbjct: 231 REPVGLVRCRLETGRTHQI 249
>gi|421074245|ref|ZP_15535285.1| pseudouridine synthase, RluA family [Pelosinus fermentans JBW45]
gi|392527751|gb|EIW50837.1| pseudouridine synthase, RluA family [Pelosinus fermentans JBW45]
Length = 310
Score = 169 bits (427), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 101/261 (38%), Positives = 156/261 (59%), Gaps = 33/261 (12%)
Query: 65 DTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISE 124
+++AG+ RLD +++ + SR+ VQ I SG V +N ++V K ++ V+ D + +I E
Sbjct: 12 ESQAGE-RLDVFLTKQKPDTSRSAVQRLISSGDVIVNEKIV-KANYKVQALDDIQVSIPE 69
Query: 125 LQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASS 184
++ L AE+IPL I+YED++++++NK MVVHPA GN GTLVN +L HC
Sbjct: 70 IKTLELTAEEIPLAILYEDNDIIIINKSRGMVVHPAAGNYNGTLVNALLEHC-------- 121
Query: 185 NQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKL 244
ED+ S I+G + RPGIVHRLDK TSG++VVAK + +H L++Q K
Sbjct: 122 --------EDL-------SGINGVA-RPGIVHRLDKDTSGVMVVAKSDRAHVSLAKQIKD 165
Query: 245 HTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEI 304
T R Y+++ G + G I+ PI R P++R +M+ ++K A ++++V+E
Sbjct: 166 RTASRRYLAIVYGNIKEDHGVIKAPIGRHPSDRKKMSVTFTNSK-----EATTKFRVMER 220
Query: 305 LAGGGSALVEWRLETGRTHQV 325
G LVE +L TGRTHQ+
Sbjct: 221 F--GDYTLVECKLLTGRTHQI 239
>gi|326335706|ref|ZP_08201892.1| ribosomal large subunit pseudouridine synthase D [Capnocytophaga
sp. oral taxon 338 str. F0234]
gi|325692135|gb|EGD34088.1| ribosomal large subunit pseudouridine synthase D [Capnocytophaga
sp. oral taxon 338 str. F0234]
Length = 345
Score = 169 bits (427), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 107/277 (38%), Positives = 148/277 (53%), Gaps = 46/277 (16%)
Query: 59 QLEETVDTKAGK----LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKG 114
+L E KAGK LR+D ++ + ++ SR +VQ + + G + +NG V K +H VK
Sbjct: 16 ELYEHYSFKAGKGQEPLRVDKFLMNFVENASRNKVQQAAKDGNIFVNG-VAVKSNHRVKA 74
Query: 115 GDMVNCTISE------LQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTL 168
D V + L P E IPL+IVYED+ ++++NKPA +VVHP GN GTL
Sbjct: 75 NDEVKVMFAHPPHEYLLVP-----ELIPLNIVYEDEELIIINKPAGLVVHPGHGNYQGTL 129
Query: 169 VNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVV 228
+NG+++H F +S RPG+VHR+DK TSGLLVV
Sbjct: 130 INGLIYH-------------------------FEQLPKNSSDRPGLVHRIDKDTSGLLVV 164
Query: 229 AKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNK 288
AK E + HL++QF T ER YI+L G + G I I R P NR++M P +
Sbjct: 165 AKTEEAMNHLAKQFFNKTSEREYIALVWGNIPEDEGTITGHIGRHPKNRLQMTVFPDGS- 223
Query: 289 HGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQV 325
+ + A + YKV+E G LV RLETGRTHQ+
Sbjct: 224 --EGKEAITHYKVLERF--GYVTLVSCRLETGRTHQI 256
>gi|395217330|ref|ZP_10401583.1| pseudouridine synthase [Pontibacter sp. BAB1700]
gi|394455011|gb|EJF09565.1| pseudouridine synthase [Pontibacter sp. BAB1700]
Length = 361
Score = 169 bits (427), Expect = 3e-39, Method: Compositional matrix adjust.
Identities = 105/265 (39%), Positives = 148/265 (55%), Gaps = 34/265 (12%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
VD LR+D ++ R+ ++R ++Q +IRS V +N + V KVS+ VK D++ T++
Sbjct: 42 VDKGQALLRIDKFLMDRLPNVTRNKLQGAIRSESVQVNQKPV-KVSYKVKPLDVITITLA 100
Query: 124 ELQPLRAE--AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCS-LPT 180
P E EDIP++I+YED+ +L++NK MVVHP N +GTLVN + +H LPT
Sbjct: 101 T-PPRDTEIIPEDIPINIMYEDEELLIINKEPGMVVHPGFNNWSGTLVNALTYHLQQLPT 159
Query: 181 LASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSE 240
+ N E RPG+VHR+DK TSGLLV+AK E+S A L++
Sbjct: 160 --TRNGEG----------------------RPGLVHRIDKDTSGLLVIAKTEYSMAFLAK 195
Query: 241 QFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYK 300
QF HTIER Y +L GVP Q G I + R +R M P +HA + YK
Sbjct: 196 QFFKHTIERTYYALVWGVPKQDEGTIVGHVGRSAKDRRVMTVYPNGEF---GKHAVTHYK 252
Query: 301 VIEILAGGGSALVEWRLETGRTHQV 325
V++ +LV+ LETGRTHQ+
Sbjct: 253 VLQ--KYKYVSLVQCNLETGRTHQI 275
>gi|433446181|ref|ZP_20410240.1| pseudouridine synthase, RluA family protein [Anoxybacillus
flavithermus TNO-09.006]
gi|432000477|gb|ELK21371.1| pseudouridine synthase, RluA family protein [Anoxybacillus
flavithermus TNO-09.006]
Length = 303
Score = 168 bits (426), Expect = 3e-39, Method: Compositional matrix adjust.
Identities = 105/277 (37%), Positives = 153/277 (55%), Gaps = 33/277 (11%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q++ T++ + R+D I+ + SR++VQ ++ G V +NG+ V K ++ D V
Sbjct: 3 QIQLTIEEQHDGERIDKVIAELNEQWSRSQVQQWLKEGRVLVNGKAV-KPNYKCHVDDEV 61
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
+I + +PL E E IPLDI YED +VLVVNKP MVVHPAPG+ GTLVN +L HC
Sbjct: 62 VISIPDPEPLDVEPEPIPLDIYYEDADVLVVNKPRGMVVHPAPGHMHGTLVNALLAHC-- 119
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+D+ S I+G +RPGIVHR+DK TSGLL++AK++ +H L
Sbjct: 120 --------------QDL-------SGINGV-LRPGIVHRIDKDTSGLLMIAKNDLAHESL 157
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
Q T+ R Y+++ GV G I+ PI RDP +R MA + + A +
Sbjct: 158 VNQLVNKTVTRKYVAIVHGVIPHDYGTIDAPIGRDPRDRQSMAVV------ENGKEAVTH 211
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
++V+E +E +LETGRTHQ+ + K P
Sbjct: 212 FRVLERFE--HYTFLECQLETGRTHQIRVHMKYIGYP 246
>gi|373469185|ref|ZP_09560393.1| pseudouridine synthase, RluA family [Lachnospiraceae bacterium oral
taxon 082 str. F0431]
gi|371764864|gb|EHO53230.1| pseudouridine synthase, RluA family [Lachnospiraceae bacterium oral
taxon 082 str. F0431]
Length = 303
Score = 168 bits (426), Expect = 3e-39, Method: Compositional matrix adjust.
Identities = 96/266 (36%), Positives = 159/266 (59%), Gaps = 32/266 (12%)
Query: 60 LEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
E TV+ R+D +++ ++ SR+ +Q I+ G +I+G+ V K ++ ++ GD V
Sbjct: 4 FEITVEESDIDKRIDLFLAGNLESFSRSYIQDLIKKGKATISGKPV-KANYRLREGDSVV 62
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
+I + +PL E+IPL+I+YEDD+V++VNKP MVVHPA G+ + TLVN +L+HC
Sbjct: 63 LSIPKPKPLEILPENIPLNILYEDDDVILVNKPKGMVVHPAAGHYSDTLVNALLYHC--- 119
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
++ S I+G +RPGIVHR+D T+G+++V K++ +H H++
Sbjct: 120 -------------------KDNLSGINGV-LRPGIVHRIDMDTTGVIIVCKNDMAHQHIA 159
Query: 240 EQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRY 299
EQ H+I R Y+++ +G + G I+ I+R ++R +MA +++G + A + Y
Sbjct: 160 EQLANHSITRKYVAIVTGNIKEDEGVIDAAIARSKSDRKKMAV----DENG--KRAVTHY 213
Query: 300 KVIEILAGGGSALVEWRLETGRTHQV 325
KV+E L G +E LETGRTHQ+
Sbjct: 214 KVLERL--NGYTYIECVLETGRTHQI 237
>gi|338971701|ref|ZP_08627085.1| ribosomal large subunit pseudouridine synthase D [Bradyrhizobiaceae
bacterium SG-6C]
gi|338235110|gb|EGP10216.1| ribosomal large subunit pseudouridine synthase D [Bradyrhizobiaceae
bacterium SG-6C]
Length = 324
Score = 168 bits (426), Expect = 3e-39, Method: Compositional matrix adjust.
Identities = 102/271 (37%), Positives = 148/271 (54%), Gaps = 37/271 (13%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV G RLD ++ +SR+R+++ I +G V I G V +++V GD + +
Sbjct: 2 TVRGDEGSRRLDRVLAVHSPDLSRSRLKALILAGQVHIGGSPVRDPAYHVSAGDTITIDV 61
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
P E EDIPL+IV+ED +++V++KP ++VVHPA G+ TGTLVN ++ HC
Sbjct: 62 PPAAPAEPEGEDIPLNIVFEDGDLIVIDKPKNLVVHPAAGHETGTLVNALIAHCG----- 116
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
S S G RPGIVHRLDK T+GL+VVAK++ +H LS QF
Sbjct: 117 ------------------ASLSGIGGVKRPGIVHRLDKDTTGLMVVAKNDRAHQSLSAQF 158
Query: 243 KLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
H + R Y++ GVP++ SG I PI R P+ R +MA G R A +
Sbjct: 159 ADHGRTGEMRRGYMAFVWGVPNRKSGTINEPIDRHPHTREKMAVRQG------GREAVTH 212
Query: 299 YKVIEILAGGG----SALVEWRLETGRTHQV 325
++V+E G ++L+ +LETGRTHQ+
Sbjct: 213 WEVLETFTGKDGKPVASLLACQLETGRTHQI 243
>gi|164687826|ref|ZP_02211854.1| hypothetical protein CLOBAR_01470 [Clostridium bartlettii DSM
16795]
gi|164603101|gb|EDQ96566.1| pseudouridine synthase, RluA family [Clostridium bartlettii DSM
16795]
Length = 307
Score = 168 bits (426), Expect = 3e-39, Method: Compositional matrix adjust.
Identities = 100/254 (39%), Positives = 148/254 (58%), Gaps = 32/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++SS++ +SR+ +Q I+ V +NG++ K + VK D V I + L
Sbjct: 21 RLDVYLSSQLGEMSRSYIQKIIKDKKVKVNGKI-EKAKYAVKEDDSVVIEIPAPKLLEVI 79
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
+DIP+DIVYEDD++L+VNKP MVVHPAPGN TLVN IL+HC
Sbjct: 80 PQDIPIDIVYEDDDLLIVNKPQDMVVHPAPGNYENTLVNAILYHC--------------- 124
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
++ SSI+G IRPGIVHR+DK TSG+L++AK+ ++H L+EQ K H+I R Y
Sbjct: 125 -------KDNLSSINGV-IRPGIVHRIDKDTSGILMIAKNNNAHNSLAEQLKDHSITREY 176
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+ GV + ++ PI R+P +R++MA + + A + ++VI+
Sbjct: 177 EFICHGVVKEDKITVDRPIGRNPKDRLKMAIV------KDGKRAVTHFEVIKRYENFTH- 229
Query: 312 LVEWRLETGRTHQV 325
++ LETGRTHQ+
Sbjct: 230 -MKANLETGRTHQI 242
>gi|329116866|ref|ZP_08245583.1| pseudouridine synthase, RluA family [Streptococcus parauberis NCFD
2020]
gi|326907271|gb|EGE54185.1| pseudouridine synthase, RluA family [Streptococcus parauberis NCFD
2020]
Length = 295
Score = 168 bits (426), Expect = 3e-39, Method: Compositional matrix adjust.
Identities = 98/254 (38%), Positives = 150/254 (59%), Gaps = 34/254 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD I+ + +SR + +I++G+V +NGQ +K ++VK GD++ I E + L +
Sbjct: 11 RLDKAIADLTE-LSRGQANDAIKAGIVLVNGQA-AKAKYSVKAGDIITYEIQEEEVLDYQ 68
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AEDIPLD+VYED+++ ++NKP MVVHP+ G+++GT+VN +L+
Sbjct: 69 AEDIPLDVVYEDEDLAIINKPQGMVVHPSAGHSSGTMVNALLYQI--------------- 113
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L+++ K R Y
Sbjct: 114 -KDL-------SGINGV-VRPGIVHRIDKDTSGLLMVAKNDAAHRALADELKAKKSLRKY 164
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+++ G G IE PI R +R + A I + + A +R++VIE G
Sbjct: 165 LAIVHGNLPNDRGIIEAPIGRSEKDRKKQAVI------ARGKEAVTRFQVIERF--GDYT 216
Query: 312 LVEWRLETGRTHQV 325
LVE LETGRTHQ+
Sbjct: 217 LVELTLETGRTHQI 230
>gi|167771408|ref|ZP_02443461.1| hypothetical protein ANACOL_02774 [Anaerotruncus colihominis DSM
17241]
gi|167666048|gb|EDS10178.1| pseudouridine synthase, RluA family [Anaerotruncus colihominis DSM
17241]
Length = 306
Score = 168 bits (426), Expect = 3e-39, Method: Compositional matrix adjust.
Identities = 103/268 (38%), Positives = 152/268 (56%), Gaps = 32/268 (11%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGI-SRARVQSSIRSGLVSINGQVVSKVSHNVKGGDM 117
+L T + +R D W++S +G+ +R+ +Q V + + VSK + ++GG+
Sbjct: 3 RLYYTSEESDAGVRADRWLASAAEGLLTRSAIQKLCDCKAVRVGEKPVSK-NDRLRGGET 61
Query: 118 VNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCS 177
+ + QPL +DIP++IVYED ++LVVNKP MVVHPAPG+ GTLVN +L+HC
Sbjct: 62 FIIDVPDAQPLDIVPQDIPIEIVYEDGDLLVVNKPKGMVVHPAPGHPNGTLVNALLYHC- 120
Query: 178 LPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAH 237
+ SSI+G IRPGIVHR+DK TSGLL+VAK++ +H
Sbjct: 121 ---------------------QGRLSSINGV-IRPGIVHRIDKDTSGLLIVAKNDAAHGT 158
Query: 238 LSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAAS 297
L+EQ K H+ R+Y ++ G S G ++ PI R N+R +M + AR A +
Sbjct: 159 LAEQIKNHSFTRIYNAVVYGGFSTDEGTVDAPIGRSQNDRKKMCVTDRN-----ARGAVT 213
Query: 298 RYKVIEILAGGGSALVEWRLETGRTHQV 325
Y+V+E L G ++ LETGRTHQ+
Sbjct: 214 HYRVLERL--GRFTWLKLCLETGRTHQI 239
>gi|410658099|ref|YP_006910470.1| Ribosomal large subunit pseudouridine synthase D [Dehalobacter sp.
DCA]
gi|410661089|ref|YP_006913460.1| Ribosomal large subunit pseudouridine synthase D [Dehalobacter sp.
CF]
gi|409020454|gb|AFV02485.1| Ribosomal large subunit pseudouridine synthase D [Dehalobacter sp.
DCA]
gi|409023445|gb|AFV05475.1| Ribosomal large subunit pseudouridine synthase D [Dehalobacter sp.
CF]
Length = 321
Score = 168 bits (426), Expect = 3e-39, Method: Compositional matrix adjust.
Identities = 100/254 (39%), Positives = 148/254 (58%), Gaps = 33/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++ +SR+ +Q+ I+ V +N Q K ++ V+ D + +I Q L
Sbjct: 33 RLDTALAE-CTSLSRSYIQNLIQQERVLVNSQP-KKANYRVQEEDRIEISIPPAQKLDVL 90
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E++PL+IVYEDD++LVVNKP MVVHPAPG +GTLVN +L+HC
Sbjct: 91 PEELPLEIVYEDDDLLVVNKPQGMVVHPAPGAWSGTLVNALLYHC--------------- 135
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+ S I+G IRPGI+HR+DK TSGLLVVAK +++H HL+ Q K H++ R Y
Sbjct: 136 --------QNLSGINGV-IRPGIIHRIDKDTSGLLVVAKTDNAHHHLAHQIKEHSVGRSY 186
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++ G+ S+ SG ++ PI RDP +R +MA + +R+A + Y V+E
Sbjct: 187 RAVIHGLMSEPSGTVDAPIGRDPKDRKKMAVV-----FKNSRNAVTHYYVLERFMHFTE- 240
Query: 312 LVEWRLETGRTHQV 325
++ L+TGRTHQ+
Sbjct: 241 -IKAVLDTGRTHQI 253
>gi|415886500|ref|ZP_11548280.1| Pseudouridylate synthase, 23S RNA-specific [Bacillus methanolicus
MGA3]
gi|387587187|gb|EIJ79510.1| Pseudouridylate synthase, 23S RNA-specific [Bacillus methanolicus
MGA3]
Length = 303
Score = 168 bits (426), Expect = 3e-39, Method: Compositional matrix adjust.
Identities = 106/272 (38%), Positives = 150/272 (55%), Gaps = 34/272 (12%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
+D +AG+ R+D ISS + SR++VQ I+ G V +NGQ V K ++ D + I
Sbjct: 9 LDEQAGE-RIDKLISSINEEWSRSQVQQWIKDGQVLVNGQKV-KTNYKCSLNDQIEIFIP 66
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
+ + L E++ LDI YED +V+VVNKP MVVHPAPG++TGTLVNG+L HC
Sbjct: 67 DPEELDVLPEEMDLDIYYEDHDVIVVNKPRGMVVHPAPGHSTGTLVNGLLAHC------- 119
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
+D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q
Sbjct: 120 ---------KDL-------SGINGV-LRPGIVHRIDKDTSGLLMVAKNDFAHESLVNQLV 162
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
T+ R Y ++ G G I+ PI RDP +R M + +HA + + V+E
Sbjct: 163 EKTVTRKYKAIVHGEIPHDYGTIDAPIGRDPKDRQSMTVV------DNGKHAVTHFHVLE 216
Query: 304 ILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+E +LETGRTHQ+ + K P
Sbjct: 217 RFK--DFTFIECQLETGRTHQIRVHMKYIGYP 246
>gi|116333479|ref|YP_795006.1| pseudouridylate synthase [Lactobacillus brevis ATCC 367]
gi|116098826|gb|ABJ63975.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
brevis ATCC 367]
Length = 307
Score = 168 bits (426), Expect = 3e-39, Method: Compositional matrix adjust.
Identities = 97/254 (38%), Positives = 143/254 (56%), Gaps = 34/254 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++ + +SR++ + +I +G ++++G V K K G + ++ + +PL
Sbjct: 13 RLDKLVADAVATVSRSQAKLAIEAGQITVDGATV-KPKDKPKVGATIRVSLPDPEPLDLT 71
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
EDIPL+IVYED +VLVVNKP MVVHPAPG+ TLVN +L+H L
Sbjct: 72 PEDIPLEIVYEDADVLVVNKPQGMVVHPAPGHPNHTLVNALLYHSPL------------- 118
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
S I+G ++RPGIVHR+DK TSGLL+VAK++H+H LS Q + T R Y
Sbjct: 119 -----------SQING-TLRPGIVHRIDKDTSGLLMVAKNDHAHQSLSAQLQAKTNLREY 166
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+++ G + G I P+ R P +R + A + R A + ++V+E G
Sbjct: 167 VAIVHGNIKEEDGVIRAPLGRSPKDRKKQAIV------ADGRPAVTHFRVLERY--GTYT 218
Query: 312 LVEWRLETGRTHQV 325
L+ RLETGRTHQ+
Sbjct: 219 LIACRLETGRTHQI 232
>gi|424847927|ref|ZP_18272469.1| pseudouridine synthase, RluA family [Enterococcus faecium R501]
gi|402918671|gb|EJX39338.1| pseudouridine synthase, RluA family [Enterococcus faecium R501]
Length = 303
Score = 168 bits (426), Expect = 3e-39, Method: Compositional matrix adjust.
Identities = 108/277 (38%), Positives = 157/277 (56%), Gaps = 35/277 (12%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
+L+ T+ ++G R+D +++ SR+++Q +++G VS+NGQ V K ++ VK GD +
Sbjct: 3 ELKTTIHHESG--RIDKVLTNLFTDYSRSQIQLWLKNGAVSVNGQPV-KANYKVKQGDEI 59
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
I E + L E+IPL IVYED++V VVNKP MVVHP+ G+ GT+VN +++H
Sbjct: 60 TVLIPEPETLDVVPENIPLTIVYEDEDVAVVNKPQGMVVHPSAGHTHGTMVNALMYHI-- 117
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+D+ S+I+G IRPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 118 --------------KDL-------STINGV-IRPGIVHRIDKDTSGLLMVAKNDQAHESL 155
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
++Q K T R Y++L G G I PI R NR +M AI K A +
Sbjct: 156 AQQLKDKTSLRKYVALVHGEIPHEKGTINAPIGRSKENR-KMQAIREDGK-----SAVTH 209
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ V+E G LVE +LETGRTHQ+ + K P
Sbjct: 210 FTVLERFE--GFTLVELKLETGRTHQIRVHMKYIGYP 244
>gi|419799995|ref|ZP_14325308.1| pseudouridine synthase, RluA family [Streptococcus parasanguinis
F0449]
gi|385696494|gb|EIG26975.1| pseudouridine synthase, RluA family [Streptococcus parasanguinis
F0449]
Length = 296
Score = 168 bits (425), Expect = 3e-39, Method: Compositional matrix adjust.
Identities = 101/254 (39%), Positives = 145/254 (57%), Gaps = 34/254 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++ + +SRA I+ G V +NG V K + VK GD++ + E++ + E
Sbjct: 11 RLDKALAD-LTPLSRAVANEQIKEGKVLVNG-AVKKAKYTVKEGDIIQYDVPEVEEVSYE 68
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AED+PLDIVYED +V+VVNKP MVVHP+ G+ +GTLVN +L+H
Sbjct: 69 AEDLPLDIVYEDQDVVVVNKPQGMVVHPSAGHTSGTLVNALLYHV--------------- 113
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L+E+ K R Y
Sbjct: 114 -KDL-------SGING-ELRPGIVHRIDKDTSGLLMVAKNDQAHVALAEELKDKKSLRKY 164
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++ G G IE PI R +R + A + + A +R++V+E G
Sbjct: 165 WAIVHGNLPNDRGMIEAPIGRSEKDRKKQAVT------AKGKTAVTRFQVLERF--GNYT 216
Query: 312 LVEWRLETGRTHQV 325
LVE +LETGRTHQ+
Sbjct: 217 LVELQLETGRTHQI 230
>gi|333978716|ref|YP_004516661.1| RluA family pseudouridine synthase [Desulfotomaculum kuznetsovii
DSM 6115]
gi|333822197|gb|AEG14860.1| pseudouridine synthase, RluA family [Desulfotomaculum kuznetsovii
DSM 6115]
Length = 305
Score = 168 bits (425), Expect = 3e-39, Method: Compositional matrix adjust.
Identities = 103/254 (40%), Positives = 142/254 (55%), Gaps = 32/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++ +SR+ +Q I V++NG+ ++ S+ VK GD V I + L
Sbjct: 17 RLDIFLVKENPDLSRSHIQRLIAEQQVTVNGEP-ARSSYRVKPGDEVVLKIPLPRELEVV 75
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E+IPLDI YED +V+VVNKP MVVHPA GN +GTLVN +L+HC
Sbjct: 76 PENIPLDIYYEDGDVVVVNKPRGMVVHPAEGNYSGTLVNALLYHC--------------- 120
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
D+ S ++G +RPGIVHRLDK TSGL++VAK++ +H L+ Q K + R Y
Sbjct: 121 -RDL-------SGVNGV-MRPGIVHRLDKDTSGLIMVAKNDFTHLELARQLKDRRVTRRY 171
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+L G + G ++ PI R P +R RMA + RHA + Y V E G
Sbjct: 172 TALAHGNFKEDRGTVDAPIGRHPRDRQRMAVVSRG-----GRHAVTHYMVKERF--GQYT 224
Query: 312 LVEWRLETGRTHQV 325
L+E +LETGRTHQ+
Sbjct: 225 LLELKLETGRTHQI 238
>gi|91206061|ref|YP_538416.1| ribosomal large subunit pseudouridine synthase RluD subfamily
protein [Rickettsia bellii RML369-C]
gi|157826559|ref|YP_001495623.1| ribosomal large subunit pseudouridine synthase RluD subfamily
protein [Rickettsia bellii OSU 85-389]
gi|91069605|gb|ABE05327.1| Ribosomal large subunit pseudouridine synthase RluD subfamily
protein [Rickettsia bellii RML369-C]
gi|157801863|gb|ABV78586.1| Ribosomal large subunit pseudouridine synthase RluD subfamily
protein [Rickettsia bellii OSU 85-389]
Length = 312
Score = 168 bits (425), Expect = 3e-39, Method: Compositional matrix adjust.
Identities = 101/266 (37%), Positives = 150/266 (56%), Gaps = 29/266 (10%)
Query: 60 LEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
LE +V T+ LRLD +S ++ +SR ++Q +I+S V IN ++ VK D++
Sbjct: 2 LEYSVPTELSGLRLDKALSQLLENVSRNQIQKAIKSSCVQINNVIILDSDILVKENDIIL 61
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
+ E + L EA DI LDIVYED++++V+NK A M VHP G+ TLVN +LHH
Sbjct: 62 FSFKEPEELTIEAADIKLDIVYEDEDLIVINKAAGMTVHPGAGHHDDTLVNALLHH---- 117
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
++SD G+S RPGIVHRLDK T+GL+VVAK+ +H L+
Sbjct: 118 ------------TRNLSD--------IGSSERPGIVHRLDKDTTGLMVVAKNNKAHMLLA 157
Query: 240 EQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRY 299
Q + + R Y +L GV + G I+ I R ++R +M + K+G + A + Y
Sbjct: 158 NQIEQRQVVRKYKALVWGVINPLEGTIKNNIGRSRSDRQKMTIL----KYG-GKEAVTYY 212
Query: 300 KVIEILAGGGSALVEWRLETGRTHQV 325
K +E+ GG ++VE +L TGRTHQ+
Sbjct: 213 KTLELFYGGSISMVECKLATGRTHQI 238
>gi|113475517|ref|YP_721578.1| ribosomal large subunit pseudouridine synthase D [Trichodesmium
erythraeum IMS101]
gi|110166565|gb|ABG51105.1| ribosomal large subunit pseudouridine synthase D [Trichodesmium
erythraeum IMS101]
Length = 316
Score = 168 bits (425), Expect = 4e-39, Method: Compositional matrix adjust.
Identities = 101/254 (39%), Positives = 141/254 (55%), Gaps = 29/254 (11%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD W+S ++ +SR+ +Q I G V +N Q+ + V GD + I PL E
Sbjct: 20 RLDIWLSQQMLELSRSHIQKLISQGNVKVNDQLCTSKKAIVHQGDKIILVIPPPIPLAIE 79
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
A DIPLDI+YEDD +L++NKPA +VVHPAPG++ GTLVN +L HC
Sbjct: 80 ANDIPLDILYEDDALLIINKPAGLVVHPAPGHSEGTLVNALLAHCD-------------- 125
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
S + G RPGIVHRLDK T+G ++VAK +H++ HL Q + T R Y
Sbjct: 126 ----------SLAGIGGVQRPGIVHRLDKDTTGAIMVAKTDHAYQHLQAQLQAKTARREY 175
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+ + G P SG I +PI R +R +MA P + A + ++V E L G +
Sbjct: 176 LGVVYGSPKTDSGIINLPIGRHRVDRKKMAVTPVERG---GKIAVTHWEVKERL--GNFS 230
Query: 312 LVEWRLETGRTHQV 325
++ +RLETGRTHQ+
Sbjct: 231 MILFRLETGRTHQI 244
>gi|424673064|ref|ZP_18110007.1| pseudouridine synthase, RluA family [Enterococcus faecalis 599]
gi|402352874|gb|EJU87710.1| pseudouridine synthase, RluA family [Enterococcus faecalis 599]
Length = 310
Score = 168 bits (425), Expect = 4e-39, Method: Compositional matrix adjust.
Identities = 105/277 (37%), Positives = 151/277 (54%), Gaps = 35/277 (12%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q+ T+ T+ G R+D +S + SR+++Q ++ V++NG+ V + ++ V GD +
Sbjct: 12 QINVTIQTEKG--RIDKVLSEHLPNHSRSQIQQWLKEKHVTVNGETV-RANYKVTAGDEI 68
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
TI E + L AEDIPL IVYED++V+VVNKP MVVHP+ G+ GTLVN +LHH
Sbjct: 69 VVTIPEPEVLDMVAEDIPLTIVYEDNDVIVVNKPQGMVVHPSVGHPNGTLVNALLHHA-- 126
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+ S D+ +RPGIVHR+DK TSGLL+VAK++ ++ L
Sbjct: 127 --------DHLSAINDV--------------VRPGIVHRIDKDTSGLLMVAKNDQAYESL 164
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
++Q K T R Y++L GV G I PI R +R A I G + A +
Sbjct: 165 AKQLKEKTSLRKYVALVHGVIPHDKGEINAPIGRSKVDRKMQAVIEG------GKEAVTH 218
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ V+E LVE +LETGRTHQ+ + K P
Sbjct: 219 FTVLERF--DAFTLVELQLETGRTHQIRVHMKYIGYP 253
>gi|114763109|ref|ZP_01442535.1| ribosomal large subunit pseudouridine synthase D [Pelagibaca
bermudensis HTCC2601]
gi|114544162|gb|EAU47171.1| ribosomal large subunit pseudouridine synthase D [Roseovarius sp.
HTCC2601]
Length = 343
Score = 168 bits (425), Expect = 4e-39, Method: Compositional matrix adjust.
Identities = 108/276 (39%), Positives = 145/276 (52%), Gaps = 51/276 (18%)
Query: 72 RLDAWISSRID---GISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPL 128
RLD ++ + +SR R+ I G V+ G+V+S V GD + + + +
Sbjct: 16 RLDKALARDVPEAAALSRTRLAKLIAEGAVTRGGEVLSDPKVKVAEGDEIVIAVPQAEES 75
Query: 129 RAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEA 188
EDIPLDIV+EDD+++VVNKPA MVVHPAPG TGTLVN +LHH
Sbjct: 76 HIGPEDIPLDIVWEDDDLVVVNKPAGMVVHPAPGTPTGTLVNALLHH------------- 122
Query: 189 FSDAEDISDDEEFSSSISGAS--IRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHT 246
F +SG RPGIVHR+DK TSGLLVVAK + +H L+ QF+ H+
Sbjct: 123 ------------FGGKLSGVGGVARPGIVHRIDKDTSGLLVVAKSDRAHHGLAAQFEAHS 170
Query: 247 IERVYISLTSGVPSQSSGR----------------IEVPISRDPNNRIRMAAIPGSNKHG 290
+R Y ++ GVP+Q R I+ ++R +R R A G
Sbjct: 171 ADRAYRAICYGVPNQGDPRLLGTRGVSVEPGGVLCIQSGLARHKTDRQRQAVF----FDG 226
Query: 291 QARHAASRYKVIEIL-AGGGSALVEWRLETGRTHQV 325
Q RHA +R +V+E A AL+E RLETGRTHQ+
Sbjct: 227 QGRHAVTRARVLESFGAPPAMALLECRLETGRTHQI 262
>gi|408489613|ref|YP_006865982.1| ribosomal large subunit pseudouridine synthase RluD-like protein
[Psychroflexus torquis ATCC 700755]
gi|408466888|gb|AFU67232.1| ribosomal large subunit pseudouridine synthase RluD-like protein
[Psychroflexus torquis ATCC 700755]
Length = 345
Score = 168 bits (425), Expect = 4e-39, Method: Compositional matrix adjust.
Identities = 103/257 (40%), Positives = 147/257 (57%), Gaps = 32/257 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLR- 129
LR+D ++ + I+ +R +VQ + + G + +NG + K ++ VK GD V ++ P
Sbjct: 28 LRVDKFLMNFIENATRNKVQQAAKDGNIYVNG-IPVKQNYKVKAGDEVKVLLA-YPPYEN 85
Query: 130 -AEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEA 188
EDIPLDIVYEDD +LVVNK A MVVHP GN +GTL+N +++H
Sbjct: 86 LLTPEDIPLDIVYEDDALLVVNKAAGMVVHPGHGNYSGTLINALVYH------------- 132
Query: 189 FSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIE 248
F + + +S RPG+VHR+DK TSGLLVVAK E + A+LS QF T +
Sbjct: 133 ------------FENLPNNSSDRPGLVHRIDKDTSGLLVVAKTEAAMAYLSRQFFHKTSK 180
Query: 249 RVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGG 308
R Y+++ G ++ G IE I R+P NR++ G + Q + A + YKVIE L G
Sbjct: 181 REYVAIAWGNLNEEEGTIEGNIGRNPKNRLQNIVYLGDDA-DQGKPAVTHYKVIERL--G 237
Query: 309 GSALVEWRLETGRTHQV 325
L+ +LETGRTHQ+
Sbjct: 238 YVTLISCQLETGRTHQI 254
>gi|312866736|ref|ZP_07726950.1| pseudouridine synthase, RluA family [Streptococcus parasanguinis
F0405]
gi|311097817|gb|EFQ56047.1| pseudouridine synthase, RluA family [Streptococcus parasanguinis
F0405]
Length = 296
Score = 168 bits (425), Expect = 4e-39, Method: Compositional matrix adjust.
Identities = 101/254 (39%), Positives = 145/254 (57%), Gaps = 34/254 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++ + +SRA I+ G V +NG V K + VK GD++ + E++ + E
Sbjct: 11 RLDKALAD-LTPLSRAVANEQIKEGKVLVNG-TVKKAKYTVKEGDIIQYEVPEVEEVSYE 68
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AED+PLDIVYED +V+VVNKP MVVHP+ G+ +GTLVN +L+H
Sbjct: 69 AEDLPLDIVYEDQDVVVVNKPQGMVVHPSAGHTSGTLVNALLYHV--------------- 113
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L+E+ K R Y
Sbjct: 114 -KDL-------SGING-ELRPGIVHRIDKDTSGLLMVAKNDQAHVALAEELKDKKSLRKY 164
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++ G G IE PI R +R + A + + A +R++V+E G
Sbjct: 165 WAIVHGNLPNDRGMIEAPIGRSEKDRKKQAVT------AKGKPAVTRFQVLERF--GNYT 216
Query: 312 LVEWRLETGRTHQV 325
LVE +LETGRTHQ+
Sbjct: 217 LVELQLETGRTHQI 230
>gi|383753720|ref|YP_005432623.1| putative ribosomal large subunit pseudouridine synthase D
[Selenomonas ruminantium subsp. lactilytica TAM6421]
gi|381365772|dbj|BAL82600.1| putative ribosomal large subunit pseudouridine synthase D
[Selenomonas ruminantium subsp. lactilytica TAM6421]
Length = 312
Score = 168 bits (425), Expect = 4e-39, Method: Compositional matrix adjust.
Identities = 106/279 (37%), Positives = 153/279 (54%), Gaps = 42/279 (15%)
Query: 47 NNREPIANYAGVQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVS 106
NN EP+ A + G+ RLD ++ + +SR+ VQ I V ++G
Sbjct: 2 NNMEPVVFTA---------EEKGQ-RLDVFVVEKCPELSRSHVQKLIEQAHVLVDG-AQR 50
Query: 107 KVSHNVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATG 166
K + ++GG+ V + E +P+ E EDIPLDI+YED +++VVNK MVVHPA G +G
Sbjct: 51 KANFKLRGGEAVQVALPEAEPISVEPEDIPLDILYEDKDIIVVNKARGMVVHPASGVYSG 110
Query: 167 TLVNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLL 226
TLVN +LHHC +D+ S I+G IRPGIVHRLDK TSG++
Sbjct: 111 TLVNALLHHC----------------QDL-------SGING-EIRPGIVHRLDKDTSGVM 146
Query: 227 VVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGS 286
V AK++ +H L+EQ + R Y ++ G + +G I+ I R P +R +MA + +
Sbjct: 147 VCAKNDTAHLDLAEQIRTKAAHRTYWAIVYGNIKEEAGIIKGDIGRHPTDRKKMAIVREN 206
Query: 287 NKHGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQV 325
K A + +KV+E G LVE +LETGRTHQ+
Sbjct: 207 GK-----PAVTHFKVLERF--GEYTLVECKLETGRTHQI 238
>gi|309808015|ref|ZP_07701936.1| pseudouridine synthase, RluA family [Lactobacillus iners LactinV
01V1-a]
gi|308168744|gb|EFO70841.1| pseudouridine synthase, RluA family [Lactobacillus iners LactinV
01V1-a]
Length = 311
Score = 168 bits (425), Expect = 4e-39, Method: Compositional matrix adjust.
Identities = 103/262 (39%), Positives = 147/262 (56%), Gaps = 33/262 (12%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
V ++ +RLD +I++ I ISR RVQ I+ L++ NG + +K+S+ V D +N I
Sbjct: 11 VKSEESGVRLDKYIATHISTISRTRVQELIKQKLITTNG-LQTKLSYKVNTNDKINIEIP 69
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
QPL + E++ LDI+YEDD+V+VVNKP MVVHP+ G+ TLVNG+++H LA
Sbjct: 70 SPQPLSLDPENLNLDIIYEDDDVIVVNKPQGMVVHPSAGHPDHTLVNGLIYHTK--NLAE 127
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
DE F RPGIVHR+DK TSGLL++AK+ + L +Q
Sbjct: 128 C-------------DEIF---------RPGIVHRIDKDTSGLLMIAKNATARISLEKQLA 165
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
+R YI++ SSG I+ PI R+P R +MA + K A + + V+E
Sbjct: 166 NKINKREYIAIVHANFKHSSGVIDAPIGRNPYQRQQMAVVASGKK------AITHFTVLE 219
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
G +LV+ LETGRTHQ+
Sbjct: 220 QFP--GYSLVKCVLETGRTHQI 239
>gi|387879746|ref|YP_006310049.1| RluA family pseudouridine synthase [Streptococcus parasanguinis
FW213]
gi|386793197|gb|AFJ26232.1| RluA family pseudouridine synthase [Streptococcus parasanguinis
FW213]
Length = 296
Score = 168 bits (425), Expect = 4e-39, Method: Compositional matrix adjust.
Identities = 101/254 (39%), Positives = 145/254 (57%), Gaps = 34/254 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++ + +SRA I+ G V +NG V K + VK GD++ + E++ + E
Sbjct: 11 RLDKALAD-LTPLSRAVANEQIKEGKVLVNG-TVKKAKYTVKEGDIIQYEVPEVEEVSYE 68
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AED+PLDIVYED +V+VVNKP MVVHP+ G+ +GTLVN +L+H
Sbjct: 69 AEDLPLDIVYEDQDVVVVNKPQGMVVHPSAGHTSGTLVNALLYHI--------------- 113
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L+E+ K R Y
Sbjct: 114 -KDL-------SGING-ELRPGIVHRIDKDTSGLLMVAKNDQAHVALAEELKDKKSLRKY 164
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++ G G IE PI R +R + A + + A +R++V+E G
Sbjct: 165 WAIVHGNLPNDRGMIEAPIGRSEKDRKKQAVT------AKGKPAVTRFQVLERF--GNYT 216
Query: 312 LVEWRLETGRTHQV 325
LVE +LETGRTHQ+
Sbjct: 217 LVELQLETGRTHQI 230
>gi|312869892|ref|ZP_07730031.1| pseudouridine synthase, RluA family [Lactobacillus oris PB013-T2-3]
gi|417884854|ref|ZP_12529015.1| pseudouridine synthase, RluA family [Lactobacillus oris F0423]
gi|311094477|gb|EFQ52782.1| pseudouridine synthase, RluA family [Lactobacillus oris PB013-T2-3]
gi|341596810|gb|EGS39396.1| pseudouridine synthase, RluA family [Lactobacillus oris F0423]
Length = 304
Score = 168 bits (425), Expect = 4e-39, Method: Compositional matrix adjust.
Identities = 106/261 (40%), Positives = 142/261 (54%), Gaps = 36/261 (13%)
Query: 65 DTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISE 124
DT G R+D ++ + + SR+ +Q I G V +NGQ V K + + GD V
Sbjct: 11 DTLTG--RIDKVLAHQFNQFSRSHLQKWIVDGNVRVNGQPV-KPKYKLAVGDQVVIEPEA 67
Query: 125 LQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASS 184
Q + E IPLDIVYEDD+V+VVNKP MVVHPAPG+ TLVN +L+H L
Sbjct: 68 PQKVDLTPEKIPLDIVYEDDDVIVVNKPQGMVVHPAPGHPDHTLVNALLYHSPL------ 121
Query: 185 NQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKL 244
S+I+G RPGIVHR+DK TSGLL+VAK++ +H L+ Q K
Sbjct: 122 ------------------STING-EFRPGIVHRIDKDTSGLLMVAKNDLAHRSLAAQLKA 162
Query: 245 HTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEI 304
T +R Y++L GV Q +G I+ PI R +R + A + RHA + +KV+
Sbjct: 163 KTNQREYVALVHGVIKQDAGTIDAPIGRSKKDRKKQAVV------SDGRHAVTHFKVLRR 216
Query: 305 LAGGGSALVEWRLETGRTHQV 325
LV RLETGRTHQ+
Sbjct: 217 FR--HYTLVSCRLETGRTHQI 235
>gi|222149596|ref|YP_002550553.1| ribosomal large subunit pseudouridine synthase RluD subfamily
[Agrobacterium vitis S4]
gi|221736578|gb|ACM37541.1| ribosomal large subunit pseudouridine synthase RluD subfamily
[Agrobacterium vitis S4]
Length = 342
Score = 168 bits (425), Expect = 4e-39, Method: Compositional matrix adjust.
Identities = 105/280 (37%), Positives = 153/280 (54%), Gaps = 36/280 (12%)
Query: 56 AGVQLEETVDTKAGKLRLDAWISSRIDG-ISRARVQSSIRSGLVSINGQVVSKVSHNVKG 114
AG +E + + + RLDAW+++ + G +SR RV++ I G V +NG V++ +K
Sbjct: 8 AGEPRKELIAGEDAEGRLDAWLAASLGGDLSRNRVKALIEQGAVFVNGTAVTEPKRKIKP 67
Query: 115 GDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILH 174
GD + + E + + EDIPL ++YED +++V++KPA +VVHP GN TGTLVN ++H
Sbjct: 68 GDQLVIAMPEPEDPEPKGEDIPLTVLYEDKDLIVLSKPAGLVVHPGAGNWTGTLVNALIH 127
Query: 175 HCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHS 234
HC + S I G RPGIVHRLDK TSG++VVAK++ +
Sbjct: 128 HCG----------------------DSLSGIGGVK-RPGIVHRLDKETSGVMVVAKNDIA 164
Query: 235 HAHLSEQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHG 290
H HL++QF H +ER Y +L G P G I+ + R + R ++
Sbjct: 165 HRHLADQFADHGRSGPLERAYQALVWGRPRGLRGTIDAALGRAGDRTKRTVKREDTD--- 221
Query: 291 QARHAASRYKVIEILAGGGSA-----LVEWRLETGRTHQV 325
AR A + Y+V+E A LVE RLETGRTHQ+
Sbjct: 222 DAREAITHYQVMERYGEKPDATCLASLVECRLETGRTHQI 261
>gi|365858615|ref|ZP_09398538.1| putative ribosomal large subunit pseudouridine synthase D
[Acetobacteraceae bacterium AT-5844]
gi|363713926|gb|EHL97486.1| putative ribosomal large subunit pseudouridine synthase D
[Acetobacteraceae bacterium AT-5844]
Length = 343
Score = 168 bits (425), Expect = 4e-39, Method: Compositional matrix adjust.
Identities = 102/261 (39%), Positives = 145/261 (55%), Gaps = 31/261 (11%)
Query: 66 TKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISEL 125
T AG+ R+D +++ I +SR+RV++ I G V+ G+V++ S V+ G +
Sbjct: 31 TDAGQ-RVDRYLAGAIGALSRSRVKALIEEGHVTRGGKVLTDPSEPVREGVEYHVAPPPP 89
Query: 126 QPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSN 185
P +A+DIPL +++ED ++V++KPA +VVHPAPGN GTLVN +L H
Sbjct: 90 VPATPQAQDIPLTVLFEDRQLIVLDKPAGLVVHPAPGNEDGTLVNALLAHAG-------- 141
Query: 186 QEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF-KL 244
+E + G RPGIVHRLDK TSG++VVAK E +H LS F
Sbjct: 142 -------------DELAG--IGGEKRPGIVHRLDKDTSGVMVVAKTERAHQTLSATFASR 186
Query: 245 HTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEI 304
+ER Y++LT GVP+ +G IE PI R P +R RMA + + K R++ R
Sbjct: 187 ENLERSYLALTWGVPTSLTGEIEAPIGRHPTDRKRMAVVARNGKDALTRYSTERA----- 241
Query: 305 LAGGGSALVEWRLETGRTHQV 325
G AL+ RL TGRTHQ+
Sbjct: 242 -WGTACALIRCRLATGRTHQI 261
>gi|452990186|emb|CCQ98635.1| pseudouridylate synthase [Clostridium ultunense Esp]
Length = 307
Score = 168 bits (425), Expect = 4e-39, Method: Compositional matrix adjust.
Identities = 99/254 (38%), Positives = 149/254 (58%), Gaps = 33/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D +++ + + SR+++Q ++ V +NG V K ++ V GD + + + L+
Sbjct: 21 RIDRYLAEQEEDWSRSQIQKWLKEERVKVNG-VKVKANYRVAVGDEILLLVPPPEALKVL 79
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E IPL I+YED +++VVNKP MVVHPAPGN++GTLVN +L+H
Sbjct: 80 PEAIPLQILYEDRDLVVVNKPRGMVVHPAPGNSSGTLVNALLYHV--------------- 124
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+D+S I+G +RPGIVHR+DK TSGLLVVAK + +H L+ Q K H +ER Y
Sbjct: 125 -KDLS-------GINGI-LRPGIVHRIDKETSGLLVVAKSDRAHLGLAAQLKEHAMERSY 175
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+++ +G G ++ PI RDP +R +MA P + +HA + + V+E L
Sbjct: 176 LAVVNGHFPHRLGTVDAPIGRDPRDRKKMAVDP------KGKHAVTHFSVVEELP--KHT 227
Query: 312 LVEWRLETGRTHQV 325
L+ RLETGRTHQ+
Sbjct: 228 LLRCRLETGRTHQI 241
>gi|406670780|ref|ZP_11078025.1| RluA family pseudouridine synthase [Facklamia hominis CCUG 36813]
gi|405582296|gb|EKB56302.1| RluA family pseudouridine synthase [Facklamia hominis CCUG 36813]
Length = 321
Score = 168 bits (425), Expect = 4e-39, Method: Compositional matrix adjust.
Identities = 100/271 (36%), Positives = 158/271 (58%), Gaps = 38/271 (14%)
Query: 58 VQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDM 117
+QL + V+ + RLD ++ + G+SR +V+ I++G V +NG+V K ++G +
Sbjct: 7 IQLNQQVNHQG---RLDKVLAGLLPGVSRTQVKDLIQAGKVQVNGEV-QKAKFQLQGDEC 62
Query: 118 VNCTISE---LQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILH 174
++ + ++ + AED+PLDIVYEDD +LV+NKPA MVVHP+ G+ GTLVNG+L+
Sbjct: 63 LSIQSPDQETVEDIAVLAEDLPLDIVYEDDCLLVINKPAGMVVHPSKGHPRGTLVNGLLY 122
Query: 175 HCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHS 234
+ + LA + A+ RPGIVHR+DK TSGLLVVAK + +
Sbjct: 123 YLN-GQLAQGS----------------------AAYRPGIVHRIDKDTSGLLVVAKTDQA 159
Query: 235 HAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARH 294
H LS+Q H++ R Y+++ G +S G I +P+ RDP NR+R + Q +
Sbjct: 160 HQALSQQLGDHSLARTYLAVVHGQVKESEGEIHLPLKRDPKNRLRW------HVDAQGKE 213
Query: 295 AASRYKVIEILAGGGSALVEWRLETGRTHQV 325
A + ++V+ + G +L+ +L TGRTHQ+
Sbjct: 214 AWTDFRVLAV--GEYYSLLSLKLHTGRTHQI 242
>gi|312872998|ref|ZP_07733058.1| pseudouridine synthase, RluA family [Lactobacillus iners LEAF
2062A-h1]
gi|325912701|ref|ZP_08175084.1| pseudouridine synthase, RluA family [Lactobacillus iners UPII 60-B]
gi|311091520|gb|EFQ49904.1| pseudouridine synthase, RluA family [Lactobacillus iners LEAF
2062A-h1]
gi|325478122|gb|EGC81251.1| pseudouridine synthase, RluA family [Lactobacillus iners UPII 60-B]
Length = 311
Score = 168 bits (425), Expect = 4e-39, Method: Compositional matrix adjust.
Identities = 103/262 (39%), Positives = 147/262 (56%), Gaps = 33/262 (12%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
V ++ +RLD +I++ I ISR RVQ I+ L++ NG + +K+S+ V D +N I
Sbjct: 11 VKSEESGVRLDKYIATHISTISRTRVQELIKQKLITTNG-LQTKLSYKVNTNDKINIEIP 69
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
QPL + E++ LDI+YEDD+V+VVNKP MVVHP+ G+ TLVNG+++H LA
Sbjct: 70 SPQPLSLDPENLNLDIIYEDDDVIVVNKPQGMVVHPSAGHPDHTLVNGLIYHTK--NLAK 127
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
DE F RPGIVHR+DK TSGLL++AK+ + L +Q
Sbjct: 128 C-------------DEIF---------RPGIVHRIDKDTSGLLMIAKNATARISLEKQLA 165
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
+R YI++ SSG I+ PI R+P R +MA + K A + + V+E
Sbjct: 166 NKINKREYIAIVHANFKHSSGVIDAPIGRNPYQRQQMAVVASGKK------AITHFTVLE 219
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
G +LV+ LETGRTHQ+
Sbjct: 220 QFP--GYSLVKCVLETGRTHQI 239
>gi|337282172|ref|YP_004621643.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
parasanguinis ATCC 15912]
gi|335369765|gb|AEH55715.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
parasanguinis ATCC 15912]
Length = 296
Score = 168 bits (425), Expect = 4e-39, Method: Compositional matrix adjust.
Identities = 101/254 (39%), Positives = 145/254 (57%), Gaps = 34/254 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++ + +SRA I+ G V +NG V K + VK GD++ + E++ + E
Sbjct: 11 RLDKALAD-LTPLSRAVANEQIKEGKVLVNG-TVKKAKYTVKEGDIIQYEVPEVEEVSYE 68
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AED+PLDIVYED +V+VVNKP MVVHP+ G+ +GTLVN +L+H
Sbjct: 69 AEDLPLDIVYEDQDVVVVNKPQGMVVHPSAGHTSGTLVNALLYHI--------------- 113
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L+E+ K R Y
Sbjct: 114 -KDL-------SGING-ELRPGIVHRIDKDTSGLLMVAKNDQAHVALAEELKDKKSLRKY 164
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++ G G IE PI R +R + A + + A +R++V+E G
Sbjct: 165 WAIVHGNLPNDRGMIEAPIGRSEKDRKKQAVT------AKGKPAVTRFQVLERF--GNYT 216
Query: 312 LVEWRLETGRTHQV 325
LVE +LETGRTHQ+
Sbjct: 217 LVELQLETGRTHQI 230
>gi|315607390|ref|ZP_07882389.1| ribosomal large subunit pseudouridine synthase D [Prevotella buccae
ATCC 33574]
gi|315250947|gb|EFU30937.1| ribosomal large subunit pseudouridine synthase D [Prevotella buccae
ATCC 33574]
Length = 367
Score = 168 bits (425), Expect = 4e-39, Method: Compositional matrix adjust.
Identities = 105/265 (39%), Positives = 147/265 (55%), Gaps = 33/265 (12%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
VD +R+D +++ + SR R+QS+ +G + +NG+ V K ++ V+ GD+V +
Sbjct: 39 VDAGQAPVRIDKFLTEKNPHQSRNRIQSAADAGFIRVNGRPV-KSNYKVRPGDVVTLMLD 97
Query: 124 ELQ-PLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC-SLPTL 181
+ EDIPL +VYEDD ++V+NKPA MVVHP GN TGTL+N + ++ LPT
Sbjct: 98 RPKHDTSIVPEDIPLAVVYEDDGLMVINKPAGMVVHPGAGNFTGTLINAVAYYLKDLPTF 157
Query: 182 ASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQ 241
+++ E G+VHR+DK TSGLLVVAK + L +Q
Sbjct: 158 DANSPEV------------------------GLVHRIDKDTSGLLVVAKTPEAKTCLGKQ 193
Query: 242 FKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAI-PGSNKHGQARHAASRYK 300
F T R Y +L G GRIE I+RDP NR+RM PGS G + A + Y+
Sbjct: 194 FFNKTTHRSYNALVWGNIVDDEGRIEGNIARDPRNRLRMKVFAPGS---GIGKSAVTHYR 250
Query: 301 VIEILAGGGSALVEWRLETGRTHQV 325
V+E G + LVE RLETGRTHQ+
Sbjct: 251 VLERF--GYTTLVECRLETGRTHQI 273
>gi|259500628|ref|ZP_05743530.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
iners DSM 13335]
gi|302191317|ref|ZP_07267571.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
iners AB-1]
gi|259168012|gb|EEW52507.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
iners DSM 13335]
Length = 311
Score = 168 bits (425), Expect = 4e-39, Method: Compositional matrix adjust.
Identities = 103/262 (39%), Positives = 147/262 (56%), Gaps = 33/262 (12%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
V ++ +RLD +I++ I ISR RVQ I+ L++ NG + +K+S+ V D +N I
Sbjct: 11 VKSEESGVRLDKYIATHISTISRTRVQELIKQKLITTNG-LQTKLSYKVNTNDKINIEIP 69
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
QPL + E++ LDI+YEDD+V+VVNKP MVVHP+ G+ TLVNG+++H LA
Sbjct: 70 SPQPLSLDPENLNLDIIYEDDDVIVVNKPQGMVVHPSAGHPDHTLVNGLIYHTK--NLAE 127
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
DE F RPGIVHR+DK TSGLL++AK+ + L +Q
Sbjct: 128 C-------------DEIF---------RPGIVHRIDKDTSGLLMIAKNATARISLEKQLA 165
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
+R YI++ SSG I+ PI R+P R +MA + K A + + V+E
Sbjct: 166 NKINKREYIAIVHANFKHSSGVIDAPIGRNPYQRQQMAVVASGKK------AITHFTVLE 219
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
G +LV+ LETGRTHQ+
Sbjct: 220 QFP--GYSLVKCILETGRTHQI 239
>gi|408789810|ref|ZP_11201453.1| Ribosomal large subunit pseudouridine synthase D [Lactobacillus
florum 2F]
gi|408520959|gb|EKK20973.1| Ribosomal large subunit pseudouridine synthase D [Lactobacillus
florum 2F]
Length = 303
Score = 168 bits (425), Expect = 4e-39, Method: Compositional matrix adjust.
Identities = 99/254 (38%), Positives = 141/254 (55%), Gaps = 33/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +++ +SR+RVQ I +G ++++ Q K ++ K G ++ I +P+ +
Sbjct: 14 RLDKLVAAEFSDLSRSRVQQLIATGAITVSEQS-HKANYQPKPGATISIEIPTPEPIDVQ 72
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E +PL IVYEDD VLVV+KP MVVHPAPG+ TLVN IL+H LP
Sbjct: 73 PEPLPLAIVYEDDQVLVVDKPQGMVVHPAPGHPNHTLVNAILYHTKLP------------ 120
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
I+G IRPGIVHR+DK TSGLL+VAK + + LS+Q + T R Y
Sbjct: 121 ------------GING-EIRPGIVHRIDKDTSGLLMVAKTKQAQESLSQQLQAKTNRRKY 167
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++L G Q G I+ P+ R +R + A + G R A + ++V+E G
Sbjct: 168 LALVHGNLKQPKGTIDAPLGRSHTDRKKQAVVTG------GRPAVTHFRVLEHF-GSDYT 220
Query: 312 LVEWRLETGRTHQV 325
L+E +LETGRTHQ+
Sbjct: 221 LIECQLETGRTHQI 234
>gi|21674122|ref|NP_662187.1| ribosomal large subunit pseudouridine synthase D [Chlorobium
tepidum TLS]
gi|21647279|gb|AAM72529.1| ribosomal large subunit pseudouridine synthase D [Chlorobium
tepidum TLS]
Length = 329
Score = 168 bits (425), Expect = 4e-39, Method: Compositional matrix adjust.
Identities = 103/257 (40%), Positives = 149/257 (57%), Gaps = 31/257 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
+R+D +++ +++ +R +VQ +I V +NG+ V K ++ +K D ++ T L+P
Sbjct: 12 MRIDRYLTQQVENATRNKVQKAIEEQRVLVNGKPV-KSNYRIKSCDHIHITF--LRPPAP 68
Query: 131 E--AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEA 188
E EDIP+ I+YEDD+++V++K A MVVHPA GN TGTL N ILHH
Sbjct: 69 ELAPEDIPISILYEDDDLMVIDKEAGMVVHPAFGNWTGTLANAILHHLG----------- 117
Query: 189 FSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIE 248
DA+D+ E +RPGIVHRLDK TSGL++VAK+ + L+ QF +E
Sbjct: 118 -KDADDLDKTE----------MRPGIVHRLDKDTSGLIIVAKNPVALHKLATQFARRQVE 166
Query: 249 RVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGG 308
+VY ++ GVP+ SG I+ I R NR MA P G +HA + Y V+E LA
Sbjct: 167 KVYKAIVWGVPNPPSGTIKTNIGRSHKNRKVMANFPFEGAEG--KHAITDYLVVEDLA-- 222
Query: 309 GSALVEWRLETGRTHQV 325
AL++ L TGRTHQ+
Sbjct: 223 YFALMDMTLHTGRTHQI 239
>gi|312130058|ref|YP_003997398.1| ribosomal large subunit pseudouridine synthase d [Leadbetterella
byssophila DSM 17132]
gi|311906604|gb|ADQ17045.1| ribosomal large subunit pseudouridine synthase D [Leadbetterella
byssophila DSM 17132]
Length = 347
Score = 168 bits (425), Expect = 4e-39, Method: Compositional matrix adjust.
Identities = 106/269 (39%), Positives = 154/269 (57%), Gaps = 33/269 (12%)
Query: 60 LEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
L+ VD+ +RLD ++S + ISR R+Q++I + V +NG V K S+ VK D ++
Sbjct: 22 LQIVVDSGQSMMRLDKYLSHHLKNISRNRIQNAIDTDSVKVNGSSV-KSSYKVKPFDDIS 80
Query: 120 CTI--SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC- 176
+I S P ++IPLDIVYEDD+VL+VNK MVVHP GN GTLVN +++H
Sbjct: 81 ISIVRSSRIPKEVIPQNIPLDIVYEDDDVLLVNKAQEMVVHPGHGNPDGTLVNALVYHFG 140
Query: 177 SLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHA 236
+LP S IRPG+VHR+DKGTSGLLV+AK+E++
Sbjct: 141 NLP------------------------SARDGEIRPGLVHRIDKGTSGLLVIAKNEYALQ 176
Query: 237 HLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAA 296
L++QF HT ER Y +L G P + G I I R +R R++ + ++G + A
Sbjct: 177 FLAKQFADHTTERTYYALIWGEPKEPKGTINAHIGRGFKDR-RISDVFPEGEYG--KEAI 233
Query: 297 SRYKVIEILAGGGSALVEWRLETGRTHQV 325
+ Y+V++ L +L++ LETGRTHQ+
Sbjct: 234 THYEVLKSLR--YVSLIKCNLETGRTHQI 260
>gi|392390780|ref|YP_006427383.1| ribosomal large subunit pseudouridine synthase D [Ornithobacterium
rhinotracheale DSM 15997]
gi|390521858|gb|AFL97589.1| ribosomal large subunit pseudouridine synthase D [Ornithobacterium
rhinotracheale DSM 15997]
Length = 349
Score = 168 bits (425), Expect = 4e-39, Method: Compositional matrix adjust.
Identities = 101/267 (37%), Positives = 154/267 (57%), Gaps = 36/267 (13%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
T D LR+D ++ + I+ +R ++Q + ++G + +N + V K ++ VK GD V +
Sbjct: 24 TADKGQQPLRVDKFLMNFIENATRNKIQQAAKAGNILVNDEAV-KQNYRVKAGDEVKVVL 82
Query: 123 SELQPLRAEA---EDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC-SL 178
S P R ++IP+DIVYED++V+VVNK MVVHP GN +GTLVN + +H +L
Sbjct: 83 S--YPPRENVIIPQNIPVDIVYEDESVIVVNKAPGMVVHPGHGNYSGTLVNALKYHFDNL 140
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
P+L + + RPG+VHR+DK TSGLLV+AK E++ HL
Sbjct: 141 PSLTAELE------------------------RPGLVHRIDKDTSGLLVIAKTEYAMDHL 176
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
++QF T R+Y ++ G + G I I R+PNNR++MA + Q +HA +
Sbjct: 177 AKQFFNRTTRRLYTAIVWGNIEEDEGTIVGHIGRNPNNRMQMAVFEDGS---QGKHAVTH 233
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQV 325
+KV+E L G +V+ +LETGRTHQ+
Sbjct: 234 FKVLERL--GYITVVQCKLETGRTHQI 258
>gi|442772199|gb|AGC72864.1| ribosomal large subunit pseudouridine synthase D [uncultured
bacterium A1Q1_fos_97]
Length = 366
Score = 167 bits (424), Expect = 4e-39, Method: Compositional matrix adjust.
Identities = 101/264 (38%), Positives = 145/264 (54%), Gaps = 28/264 (10%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI- 122
VD K LR+D ++ RI +SR RVQ++I++G V +N Q + K + +K G + +
Sbjct: 31 VDAKQSPLRIDKFVMDRIGDVSRNRVQNAIKTGAVLVNDQEI-KPNFKIKPGQKITLILP 89
Query: 123 -SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTL 181
S R ++IPL I+YED+++LVVNKP +VVHP G+ GTLVN + +H L
Sbjct: 90 KSTTDKYRIVPQNIPLTIIYEDEDLLVVNKPPGLVVHPGVGHFRGTLVNALAYHLKL--- 146
Query: 182 ASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQ 241
D + SS R G+VHR+DK T+GLLVVAK+E + +HL++Q
Sbjct: 147 ---------------DPSQLSSG--NFQERVGLVHRIDKNTTGLLVVAKNEFALSHLAKQ 189
Query: 242 FKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKV 301
F HTIER Y +L G P G I + R P R P + Q + A + Y+V
Sbjct: 190 FFYHTIERTYYALVWGEPEDDKGTINAHVGRHPRFRKDFTVFPEGD---QGKWAVTHYEV 246
Query: 302 IEILAGGGSALVEWRLETGRTHQV 325
+E L +L++ LETGRTHQ+
Sbjct: 247 LERLY--YVSLIKCTLETGRTHQI 268
>gi|332879773|ref|ZP_08447463.1| pseudouridine synthase, RluA family [Capnocytophaga sp. oral taxon
329 str. F0087]
gi|332682292|gb|EGJ55199.1| pseudouridine synthase, RluA family [Capnocytophaga sp. oral taxon
329 str. F0087]
Length = 353
Score = 167 bits (424), Expect = 5e-39, Method: Compositional matrix adjust.
Identities = 107/273 (39%), Positives = 150/273 (54%), Gaps = 40/273 (14%)
Query: 60 LEETVDTKAGK----LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGG 115
+ E KAGK LR+D ++ + ++ +R +VQ + + G + +NGQ V K +H VK
Sbjct: 27 MYEHYSFKAGKGQEPLRVDKFLMNFVENATRNKVQQAAKQGNIFVNGQPV-KSNHRVKAN 85
Query: 116 DMVNCTISELQPLRAE---AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGI 172
D V + P + E+IPL IVYEDD++LVVNKPA MVVHP GN +GTL+N +
Sbjct: 86 DEVKVYFA--HPPHEDLLIPENIPLQIVYEDDSLLVVNKPAGMVVHPGHGNYSGTLINAL 143
Query: 173 LHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDE 232
++H F + + +S RPG+VHR+DK TSGLLV+AK E
Sbjct: 144 VYH-------------------------FENLPNNSSNRPGLVHRIDKDTSGLLVIAKTE 178
Query: 233 HSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQA 292
+ HL++QF T ER YI+L G G + I R +R++M P + HG
Sbjct: 179 EAMLHLTQQFFHKTTEREYIALVWGNVEADEGTVRGHIGRHLKDRLQMDVFPDGS-HG-- 235
Query: 293 RHAASRYKVIEILAGGGSALVEWRLETGRTHQV 325
+ A + YKV+E G LV RLETGRTHQ+
Sbjct: 236 KEAVTHYKVLERF--GYVTLVSCRLETGRTHQI 266
>gi|392948862|ref|ZP_10314462.1| Ribosomal large subunit pseudouridine synthase D [Lactobacillus
pentosus KCA1]
gi|392435835|gb|EIW13759.1| Ribosomal large subunit pseudouridine synthase D [Lactobacillus
pentosus KCA1]
Length = 307
Score = 167 bits (424), Expect = 5e-39, Method: Compositional matrix adjust.
Identities = 104/270 (38%), Positives = 147/270 (54%), Gaps = 36/270 (13%)
Query: 56 AGVQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGG 115
A + + T+ T+ G RLD ++ +R++V I++ V++NGQ V + VK G
Sbjct: 4 ATTEQQYTITTQQG--RLDKVLAGLQTDWTRSQVDKLIKTAQVTVNGQ-VQPSKYKVKVG 60
Query: 116 DMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHH 175
D + +Q E E+IPLDIVYEDD+VLVVNKP MVVHPAPG+ TLVN +L+H
Sbjct: 61 DQITVAAQTVQATTIEPENIPLDIVYEDDDVLVVNKPQGMVVHPAPGHPDHTLVNALLYH 120
Query: 176 CSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSH 235
L S+I+G RPGIVHR+DK TSGLL+VAK++ +H
Sbjct: 121 SPL------------------------STING-EFRPGIVHRIDKDTSGLLMVAKNDQAH 155
Query: 236 AHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHA 295
L+ Q K T R Y++L GV + +G I P+ R +R + A + R A
Sbjct: 156 QSLAAQLKAKTNLREYVALVHGVIKEETGTINAPLGRSLKDRKKQAIV------KTGRPA 209
Query: 296 ASRYKVIEILAGGGSALVEWRLETGRTHQV 325
+ +KV++ L+ RLETGRTHQ+
Sbjct: 210 VTHFKVLKRYQ--HYTLISCRLETGRTHQI 237
>gi|343520975|ref|ZP_08757943.1| pseudouridine synthase, RluA family [Parvimonas sp. oral taxon 393
str. F0440]
gi|343396181|gb|EGV08718.1| pseudouridine synthase, RluA family [Parvimonas sp. oral taxon 393
str. F0440]
Length = 310
Score = 167 bits (424), Expect = 5e-39, Method: Compositional matrix adjust.
Identities = 93/256 (36%), Positives = 142/256 (55%), Gaps = 34/256 (13%)
Query: 70 KLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLR 129
K+R D ++S +I +SR +Q I+ LV +N + + K + ++ GD + +I E + +
Sbjct: 11 KIRCDVFLSEKISNLSRTSIQKLIKDKLVFVNNKNI-KPNVILEIGDEITVSIPEKKEIT 69
Query: 130 AEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAF 189
AEDI LDIVYEDD ++++NKP +MVVHPA GN TLVN +L+HC L + S
Sbjct: 70 LVAEDIDLDIVYEDDYIIIINKPRNMVVHPAVGNEEHTLVNALLNHCKLSMINSE----- 124
Query: 190 SDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIER 249
RPGIVHRLDK T+GL++ AKD+ +H L E F I +
Sbjct: 125 ---------------------RPGIVHRLDKDTTGLIICAKDDETHLKLVEMFANREINK 163
Query: 250 VYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGG 309
Y+++ +G S+ +G I+ PI RD +R +M+ K + A + Y ++ +
Sbjct: 164 KYLAICNGSFSKENGFIDKPIGRDEKDRKKMSV-----KSKSGKEALTEYNILT--SNLK 216
Query: 310 SALVEWRLETGRTHQV 325
+LV+ L TGRTHQ+
Sbjct: 217 FSLVDVTLHTGRTHQI 232
>gi|227514877|ref|ZP_03944926.1| pseudouridylate synthase [Lactobacillus fermentum ATCC 14931]
gi|227086724|gb|EEI22036.1| pseudouridylate synthase [Lactobacillus fermentum ATCC 14931]
Length = 291
Score = 167 bits (424), Expect = 5e-39, Method: Compositional matrix adjust.
Identities = 100/254 (39%), Positives = 143/254 (56%), Gaps = 34/254 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D + SR++++ I G V++NGQ V K + ++ GD V + E
Sbjct: 4 RIDKELGHHFPQFSRSQLKRWIDDGTVTVNGQTV-KAKYQLQAGDRVVIKPETPVEIDLE 62
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E+IPLDIVYEDD+VLVVNKP MVVHPAPG+ TLVN ++++ L
Sbjct: 63 PENIPLDIVYEDDDVLVVNKPQGMVVHPAPGHPNHTLVNALMYYAPL------------- 109
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
SSI+G +RPGIVHR+DK TSGLL+VAK + +H L+ Q K + R Y
Sbjct: 110 -----------SSING-ELRPGIVHRIDKDTSGLLMVAKTDRAHRSLTAQLKEKSNLREY 157
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++L GV ++ G I+ P++R P +R + A + G RHA + ++V++
Sbjct: 158 VALVHGVIKENEGTIDAPLARSPKDRKKQAVVVG------GRHAVTHFRVLKRYQ--HYT 209
Query: 312 LVEWRLETGRTHQV 325
LV RLETGRTHQ+
Sbjct: 210 LVACRLETGRTHQI 223
>gi|331084859|ref|ZP_08333947.1| hypothetical protein HMPREF0987_00250 [Lachnospiraceae bacterium
9_1_43BFAA]
gi|330410953|gb|EGG90375.1| hypothetical protein HMPREF0987_00250 [Lachnospiraceae bacterium
9_1_43BFAA]
Length = 301
Score = 167 bits (424), Expect = 5e-39, Method: Compositional matrix adjust.
Identities = 95/255 (37%), Positives = 147/255 (57%), Gaps = 31/255 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
+R+D ++S ++ +SR+ +Q I+ V +NGQ V K ++ + D ++ I EL+
Sbjct: 14 MRIDKFLSEKLPDLSRSYLQKLIKEKEVLVNGQPV-KANYKLSLEDHISVMIPELKEPDI 72
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
E IPLDI+YED+++LVVNKP MVVHP+ G+ +GTLVN ++ HC
Sbjct: 73 LPEQIPLDILYEDEDILVVNKPKGMVVHPSAGHYSGTLVNALMFHC-------------- 118
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
++ S I+G +RPGIVHR+D T+G L+V K++ +H L+EQ K HTI R
Sbjct: 119 --------KDQLSGINGV-MRPGIVHRIDMDTTGSLIVCKNDFAHQSLAEQLKDHTITRK 169
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y ++ GV + +G I+ PI R P R +M+ + +HA + Y+V++
Sbjct: 170 YHAIVHGVLKEDNGTIDAPIGRHPVERKKMSV-----NYKNGKHAVTHYRVLKRFE--KF 222
Query: 311 ALVEWRLETGRTHQV 325
VE +LETGRTHQ+
Sbjct: 223 TYVECQLETGRTHQI 237
>gi|288925171|ref|ZP_06419106.1| ribosomal large subunit pseudouridine synthase D [Prevotella buccae
D17]
gi|288337936|gb|EFC76287.1| ribosomal large subunit pseudouridine synthase D [Prevotella buccae
D17]
Length = 358
Score = 167 bits (424), Expect = 5e-39, Method: Compositional matrix adjust.
Identities = 105/265 (39%), Positives = 147/265 (55%), Gaps = 33/265 (12%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
VD +R+D +++ + SR R+QS+ +G + +NG+ V K ++ V+ GD+V +
Sbjct: 30 VDAGQAPVRIDKFLTEKNPHQSRNRIQSAADAGFIRVNGRPV-KSNYKVRPGDVVTLMLD 88
Query: 124 ELQ-PLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC-SLPTL 181
+ EDIPL +VYEDD ++V+NKPA MVVHP GN TGTL+N + ++ LPT
Sbjct: 89 RPKHDTSIVPEDIPLAVVYEDDGLMVINKPAGMVVHPGAGNFTGTLINAVAYYLKDLPTF 148
Query: 182 ASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQ 241
+++ E G+VHR+DK TSGLLVVAK + L +Q
Sbjct: 149 DANSPEV------------------------GLVHRIDKDTSGLLVVAKTPEAKTCLGKQ 184
Query: 242 FKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAI-PGSNKHGQARHAASRYK 300
F T R Y +L G GRIE I+RDP NR+RM PGS G + A + Y+
Sbjct: 185 FFNKTTHRSYNALVWGNIVDDEGRIEGNIARDPRNRLRMKVFAPGS---GIGKSAVTHYR 241
Query: 301 VIEILAGGGSALVEWRLETGRTHQV 325
V+E G + LVE RLETGRTHQ+
Sbjct: 242 VLERF--GYTTLVECRLETGRTHQI 264
>gi|395244673|ref|ZP_10421628.1| Pseudouridine synthase [Lactobacillus hominis CRBIP 24.179]
gi|394483026|emb|CCI82636.1| Pseudouridine synthase [Lactobacillus hominis CRBIP 24.179]
Length = 305
Score = 167 bits (424), Expect = 5e-39, Method: Compositional matrix adjust.
Identities = 100/256 (39%), Positives = 145/256 (56%), Gaps = 33/256 (12%)
Query: 70 KLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLR 129
K RLD +++ ID +SR RVQ I + +N +VV K S+ ++ GD ++ TI +PL
Sbjct: 13 KGRLDKFLAQEIDELSRTRVQELIDDKNILVNDKVV-KASYKLESGDKISVTIPPKKPLS 71
Query: 130 AEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAF 189
A+D+ LD+VYED +V+VVNKP +VVHP+ G+ TLVNG+L+H
Sbjct: 72 LSAQDMNLDVVYEDQDVIVVNKPQGVVVHPSAGHPDHTLVNGLLYHT------------- 118
Query: 190 SDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIER 249
++ + S G RPGIVHR+DK TSGLL++AK++ + L +Q T +R
Sbjct: 119 ---------QDLAKSPEG--FRPGIVHRIDKDTSGLLMIAKNDKARESLEDQLAHKTNKR 167
Query: 250 VYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGG 309
Y+++ G G I PI R+PNNR +MA P K A + ++V+E
Sbjct: 168 EYLAIVHGNFEAKIGVINAPIGRNPNNRKQMAVNPKGKK------AITHFEVLEQFK--N 219
Query: 310 SALVEWRLETGRTHQV 325
ALV+ LETGRTHQ+
Sbjct: 220 YALVKCVLETGRTHQI 235
>gi|322389731|ref|ZP_08063278.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
parasanguinis ATCC 903]
gi|321143570|gb|EFX39001.1| ribosomal large subunit pseudouridine synthase D [Streptococcus
parasanguinis ATCC 903]
Length = 296
Score = 167 bits (424), Expect = 5e-39, Method: Compositional matrix adjust.
Identities = 100/254 (39%), Positives = 145/254 (57%), Gaps = 34/254 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++ + +SRA I+ G V +NG V K + VK GD++ + E++ + E
Sbjct: 11 RLDKALAD-LTPLSRAVANEQIKEGKVLVNG-TVKKAKYTVKEGDIIQYEVPEVEEVSYE 68
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AED+PLDIVYED +V+VVNKP MVVHP+ G+ +GTLVN +L+H
Sbjct: 69 AEDLPLDIVYEDQDVVVVNKPQGMVVHPSAGHTSGTLVNALLYHV--------------- 113
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+D+ S I+G +RPGIVHR+DK TSGLL++AK++ +H L+E+ K R Y
Sbjct: 114 -KDL-------SGING-ELRPGIVHRIDKDTSGLLMIAKNDQAHVALAEELKDKKSLRKY 164
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++ G G IE PI R +R + A + + A +R++V+E G
Sbjct: 165 WAIVHGNLPNDRGMIEAPIGRSEKDRKKQAVT------AKGKPAVTRFQVLERF--GNYT 216
Query: 312 LVEWRLETGRTHQV 325
LVE +LETGRTHQ+
Sbjct: 217 LVELQLETGRTHQI 230
>gi|260435696|ref|ZP_05789666.1| pseudouridylate synthase, 23S rRNA-specific [Synechococcus sp. WH
8109]
gi|260413570|gb|EEX06866.1| pseudouridylate synthase, 23S rRNA-specific [Synechococcus sp. WH
8109]
Length = 333
Score = 167 bits (424), Expect = 5e-39, Method: Compositional matrix adjust.
Identities = 100/260 (38%), Positives = 146/260 (56%), Gaps = 32/260 (12%)
Query: 67 KAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQ 126
K +RLD W+ S+ SRAR+Q I +G V +NG+ K ++ GD V + +
Sbjct: 33 KPLPMRLDRWLVSQRTEQSRARIQKFIDAGYVRVNGKT-GKAKTPLRQGDEVQLWMPPPE 91
Query: 127 PL-RAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSN 185
PL + E + LD+++EDD+++V+NKPA + VHPAPGN GTLVNG+LHHC P L
Sbjct: 92 PLSYLKPEPMDLDVLFEDDHLIVLNKPAGLTVHPAPGNKDGTLVNGLLHHC--PDL---- 145
Query: 186 QEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLH 245
ISG +RPGIVHRLDK T+G +V+AK + + L Q +
Sbjct: 146 -----------------PGISG-KLRPGIVHRLDKDTTGCIVIAKSQEALVRLQVQIQKR 187
Query: 246 TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEIL 305
R Y ++ GVP+ SG I PI R P +R + A + N R+A + + ++E L
Sbjct: 188 IASREYFAVVHGVPAGDSGTIVGPIGRHPADRKKYAVVSSEN----GRYACTHWTLVERL 243
Query: 306 AGGGSALVEWRLETGRTHQV 325
G +L+ ++L+TGRTHQ+
Sbjct: 244 --GDYSLLRFKLDTGRTHQI 261
>gi|171913853|ref|ZP_02929323.1| pseudouridine synthase, RluA family protein [Verrucomicrobium
spinosum DSM 4136]
Length = 303
Score = 167 bits (424), Expect = 5e-39, Method: Compositional matrix adjust.
Identities = 97/267 (36%), Positives = 148/267 (55%), Gaps = 32/267 (11%)
Query: 60 LEETVDTKA-GKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
++ TV+ A K RLD ++ + +SR R+Q I+ G + +NG+ +K + +K GD +
Sbjct: 1 MDFTVNESAPAKQRLDHYLQGELPDMSRTRLQGLIKDGHILLNGKA-AKPNTPLKQGDRI 59
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
+ + P +DIPL++++ED++++V+NKP +VVHPA GN GTLVN +L HC
Sbjct: 60 TMEVPDPVPTEVVPQDIPLNVLFEDEHIIVINKPDGLVVHPAAGNPDGTLVNALLFHCK- 118
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+ S G +RPGIVHRLDK TSG +V AK + +H L
Sbjct: 119 -----------------------NLSGIGGELRPGIVHRLDKETSGCMVAAKHDLAHTRL 155
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
+E F + ++Y++ +G PS SSGRIE I R P +R RMA + G + A +
Sbjct: 156 TEAFSQRDLTKIYLAAVNGTPSSSSGRIENRIGRHPVDRKRMALVTGE----AGKEALTE 211
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQV 325
+ + + G AL+ RL TGRTHQ+
Sbjct: 212 WDRVAVHQ--GCALIRCRLLTGRTHQI 236
>gi|257878226|ref|ZP_05657879.1| pseudouridylate synthase [Enterococcus faecium 1,230,933]
gi|257880994|ref|ZP_05660647.1| pseudouridylate synthase [Enterococcus faecium 1,231,502]
gi|257889576|ref|ZP_05669229.1| pseudouridylate synthase [Enterococcus faecium 1,231,410]
gi|257892484|ref|ZP_05672137.1| pseudouridylate synthase [Enterococcus faecium 1,231,408]
gi|260559776|ref|ZP_05831955.1| pseudouridylate synthase [Enterococcus faecium C68]
gi|293559348|ref|ZP_06675890.1| ribosomal large subunit pseudouridine synthase D [Enterococcus
faecium E1162]
gi|293569846|ref|ZP_06680933.1| ribosomal large subunit pseudouridine synthase D [Enterococcus
faecium E1071]
gi|294621730|ref|ZP_06700894.1| ribosomal large subunit pseudouridine synthase D [Enterococcus
faecium U0317]
gi|314939741|ref|ZP_07846963.1| pseudouridine synthase, RluA family [Enterococcus faecium
TX0133a04]
gi|314941758|ref|ZP_07848635.1| pseudouridine synthase, RluA family [Enterococcus faecium TX0133C]
gi|314948303|ref|ZP_07851695.1| pseudouridine synthase, RluA family [Enterococcus faecium TX0082]
gi|314952391|ref|ZP_07855398.1| pseudouridine synthase, RluA family [Enterococcus faecium TX0133A]
gi|314991990|ref|ZP_07857443.1| pseudouridine synthase, RluA family [Enterococcus faecium TX0133B]
gi|314995712|ref|ZP_07860802.1| pseudouridine synthase, RluA family [Enterococcus faecium
TX0133a01]
gi|383328291|ref|YP_005354175.1| RluA family pseudouridine synthase [Enterococcus faecium Aus0004]
gi|389868530|ref|YP_006375953.1| pseudouridylate synthase [Enterococcus faecium DO]
gi|406581288|ref|ZP_11056446.1| RluA family pseudouridine synthase [Enterococcus sp. GMD4E]
gi|406583592|ref|ZP_11058648.1| RluA family pseudouridine synthase [Enterococcus sp. GMD3E]
gi|406585861|ref|ZP_11060815.1| RluA family pseudouridine synthase [Enterococcus sp. GMD2E]
gi|406591362|ref|ZP_11065646.1| RluA family pseudouridine synthase [Enterococcus sp. GMD1E]
gi|410937476|ref|ZP_11369336.1| pseudouridylate synthase [Enterococcus sp. GMD5E]
gi|415899988|ref|ZP_11551736.1| ribosomal large subunit pseudouridine synthase D [Enterococcus
faecium E4453]
gi|424790436|ref|ZP_18216980.1| pseudouridine synthase, RluA family [Enterococcus faecium V689]
gi|424795203|ref|ZP_18221087.1| pseudouridine synthase, RluA family [Enterococcus faecium S447]
gi|424857346|ref|ZP_18281506.1| pseudouridine synthase, RluA family [Enterococcus faecium R499]
gi|424907805|ref|ZP_18331258.1| pseudouridine synthase, RluA family [Enterococcus faecium R497]
gi|424950447|ref|ZP_18365611.1| pseudouridine synthase, RluA family [Enterococcus faecium R496]
gi|424954133|ref|ZP_18369048.1| pseudouridine synthase, RluA family [Enterococcus faecium R494]
gi|424955881|ref|ZP_18370688.1| pseudouridine synthase, RluA family [Enterococcus faecium R446]
gi|424959148|ref|ZP_18373749.1| pseudouridine synthase, RluA family [Enterococcus faecium P1986]
gi|424963812|ref|ZP_18377965.1| pseudouridine synthase, RluA family [Enterococcus faecium P1190]
gi|424969001|ref|ZP_18382592.1| pseudouridine synthase, RluA family [Enterococcus faecium P1140]
gi|424970858|ref|ZP_18384334.1| pseudouridine synthase, RluA family [Enterococcus faecium P1139]
gi|424975249|ref|ZP_18388423.1| pseudouridine synthase, RluA family [Enterococcus faecium P1137]
gi|424979575|ref|ZP_18392419.1| pseudouridine synthase, RluA family [Enterococcus faecium P1123]
gi|424981648|ref|ZP_18394369.1| pseudouridine synthase, RluA family [Enterococcus faecium ERV99]
gi|424983351|ref|ZP_18395944.1| pseudouridine synthase, RluA family [Enterococcus faecium ERV69]
gi|424988051|ref|ZP_18400393.1| pseudouridine synthase, RluA family [Enterococcus faecium ERV38]
gi|424991676|ref|ZP_18403811.1| pseudouridine synthase, RluA family [Enterococcus faecium ERV26]
gi|424993822|ref|ZP_18405797.1| pseudouridine synthase, RluA family [Enterococcus faecium ERV168]
gi|424997132|ref|ZP_18408899.1| pseudouridine synthase, RluA family [Enterococcus faecium ERV165]
gi|425000110|ref|ZP_18411691.1| pseudouridine synthase, RluA family [Enterococcus faecium ERV161]
gi|425004135|ref|ZP_18415464.1| pseudouridine synthase, RluA family [Enterococcus faecium ERV102]
gi|425007659|ref|ZP_18418779.1| pseudouridine synthase, RluA family [Enterococcus faecium ERV1]
gi|425009934|ref|ZP_18420917.1| pseudouridine synthase, RluA family [Enterococcus faecium E422]
gi|425013990|ref|ZP_18424687.1| pseudouridine synthase, RluA family [Enterococcus faecium E417]
gi|425016446|ref|ZP_18427010.1| pseudouridine synthase, RluA family [Enterococcus faecium C621]
gi|425019678|ref|ZP_18430021.1| pseudouridine synthase, RluA family [Enterococcus faecium C497]
gi|425023611|ref|ZP_18433721.1| pseudouridine synthase, RluA family [Enterococcus faecium C1904]
gi|425031025|ref|ZP_18436170.1| pseudouridine synthase, RluA family [Enterococcus faecium 515]
gi|425035452|ref|ZP_18440288.1| pseudouridine synthase, RluA family [Enterococcus faecium 514]
gi|425038031|ref|ZP_18442664.1| pseudouridine synthase, RluA family [Enterococcus faecium 513]
gi|425040841|ref|ZP_18445283.1| pseudouridine synthase, RluA family [Enterococcus faecium 511]
gi|425044098|ref|ZP_18448282.1| pseudouridine synthase, RluA family [Enterococcus faecium 510]
gi|425047425|ref|ZP_18451378.1| pseudouridine synthase, RluA family [Enterococcus faecium 509]
gi|425053912|ref|ZP_18457431.1| pseudouridine synthase, RluA family [Enterococcus faecium 506]
gi|425060223|ref|ZP_18463521.1| pseudouridine synthase, RluA family [Enterococcus faecium 503]
gi|427394942|ref|ZP_18887864.1| RluA family pseudouridine synthase [Enterococcus durans
FB129-CNAB-4]
gi|430830513|ref|ZP_19448571.1| RluA family pseudouridine synthase [Enterococcus faecium E0333]
gi|430844296|ref|ZP_19462194.1| RluA family pseudouridine synthase [Enterococcus faecium E1050]
gi|430846276|ref|ZP_19464136.1| RluA family pseudouridine synthase [Enterococcus faecium E1133]
gi|430854615|ref|ZP_19472328.1| RluA family pseudouridine synthase [Enterococcus faecium E1392]
gi|430862181|ref|ZP_19479533.1| RluA family pseudouridine synthase [Enterococcus faecium E1573]
gi|430959905|ref|ZP_19487040.1| RluA family pseudouridine synthase [Enterococcus faecium E1576]
gi|431008935|ref|ZP_19489375.1| RluA family pseudouridine synthase [Enterococcus faecium E1578]
gi|431228594|ref|ZP_19501735.1| RluA family pseudouridine synthase [Enterococcus faecium E1622]
gi|431258945|ref|ZP_19505122.1| RluA family pseudouridine synthase [Enterococcus faecium E1623]
gi|431369935|ref|ZP_19509634.1| RluA family pseudouridine synthase [Enterococcus faecium E1627]
gi|431499479|ref|ZP_19515058.1| RluA family pseudouridine synthase [Enterococcus faecium E1634]
gi|431539725|ref|ZP_19517929.1| RluA family pseudouridine synthase [Enterococcus faecium E1731]
gi|431745976|ref|ZP_19534813.1| RluA family pseudouridine synthase [Enterococcus faecium E2134]
gi|431748515|ref|ZP_19537272.1| RluA family pseudouridine synthase [Enterococcus faecium E2297]
gi|431754618|ref|ZP_19543279.1| RluA family pseudouridine synthase [Enterococcus faecium E2883]
gi|431770610|ref|ZP_19559010.1| RluA family pseudouridine synthase [Enterococcus faecium E1644]
gi|431773136|ref|ZP_19561469.1| RluA family pseudouridine synthase [Enterococcus faecium E2369]
gi|431775999|ref|ZP_19564268.1| RluA family pseudouridine synthase [Enterococcus faecium E2560]
gi|431778534|ref|ZP_19566745.1| RluA family pseudouridine synthase [Enterococcus faecium E4389]
gi|431782102|ref|ZP_19570240.1| RluA family pseudouridine synthase [Enterococcus faecium E6012]
gi|431785508|ref|ZP_19573533.1| RluA family pseudouridine synthase [Enterococcus faecium E6045]
gi|447913117|ref|YP_007394529.1| Ribosomal large subunit pseudouridine synthase D [Enterococcus
faecium NRRL B-2354]
gi|257812454|gb|EEV41212.1| pseudouridylate synthase [Enterococcus faecium 1,230,933]
gi|257816652|gb|EEV43980.1| pseudouridylate synthase [Enterococcus faecium 1,231,502]
gi|257825936|gb|EEV52562.1| pseudouridylate synthase [Enterococcus faecium 1,231,410]
gi|257828863|gb|EEV55470.1| pseudouridylate synthase [Enterococcus faecium 1,231,408]
gi|260074000|gb|EEW62323.1| pseudouridylate synthase [Enterococcus faecium C68]
gi|291587594|gb|EFF19471.1| ribosomal large subunit pseudouridine synthase D [Enterococcus
faecium E1071]
gi|291598739|gb|EFF29792.1| ribosomal large subunit pseudouridine synthase D [Enterococcus
faecium U0317]
gi|291606712|gb|EFF36104.1| ribosomal large subunit pseudouridine synthase D [Enterococcus
faecium E1162]
gi|313590103|gb|EFR68948.1| pseudouridine synthase, RluA family [Enterococcus faecium
TX0133a01]
gi|313593425|gb|EFR72270.1| pseudouridine synthase, RluA family [Enterococcus faecium TX0133B]
gi|313595508|gb|EFR74353.1| pseudouridine synthase, RluA family [Enterococcus faecium TX0133A]
gi|313599436|gb|EFR78279.1| pseudouridine synthase, RluA family [Enterococcus faecium TX0133C]
gi|313640970|gb|EFS05550.1| pseudouridine synthase, RluA family [Enterococcus faecium
TX0133a04]
gi|313645284|gb|EFS09864.1| pseudouridine synthase, RluA family [Enterococcus faecium TX0082]
gi|364089059|gb|EHM31781.1| ribosomal large subunit pseudouridine synthase D [Enterococcus
faecium E4453]
gi|378937985|gb|AFC63057.1| pseudouridine synthase, RluA family [Enterococcus faecium Aus0004]
gi|388533779|gb|AFK58971.1| pseudouridylate synthase [Enterococcus faecium DO]
gi|402920777|gb|EJX41265.1| pseudouridine synthase, RluA family [Enterococcus faecium V689]
gi|402924802|gb|EJX44990.1| pseudouridine synthase, RluA family [Enterococcus faecium S447]
gi|402929095|gb|EJX48889.1| pseudouridine synthase, RluA family [Enterococcus faecium R499]
gi|402929667|gb|EJX49405.1| pseudouridine synthase, RluA family [Enterococcus faecium R497]
gi|402933179|gb|EJX52634.1| pseudouridine synthase, RluA family [Enterococcus faecium R496]
gi|402937617|gb|EJX56719.1| pseudouridine synthase, RluA family [Enterococcus faecium R494]
gi|402947438|gb|EJX65648.1| pseudouridine synthase, RluA family [Enterococcus faecium R446]
gi|402948129|gb|EJX66294.1| pseudouridine synthase, RluA family [Enterococcus faecium P1190]
gi|402949976|gb|EJX68001.1| pseudouridine synthase, RluA family [Enterococcus faecium P1140]
gi|402951210|gb|EJX69159.1| pseudouridine synthase, RluA family [Enterococcus faecium P1986]
gi|402954282|gb|EJX71918.1| pseudouridine synthase, RluA family [Enterococcus faecium P1137]
gi|402957504|gb|EJX74892.1| pseudouridine synthase, RluA family [Enterococcus faecium P1123]
gi|402960500|gb|EJX77637.1| pseudouridine synthase, RluA family [Enterococcus faecium P1139]
gi|402963258|gb|EJX80143.1| pseudouridine synthase, RluA family [Enterococcus faecium ERV99]
gi|402971822|gb|EJX88067.1| pseudouridine synthase, RluA family [Enterococcus faecium ERV69]
gi|402973029|gb|EJX89182.1| pseudouridine synthase, RluA family [Enterococcus faecium ERV38]
gi|402976157|gb|EJX92072.1| pseudouridine synthase, RluA family [Enterococcus faecium ERV26]
gi|402981680|gb|EJX97195.1| pseudouridine synthase, RluA family [Enterococcus faecium ERV168]
gi|402986753|gb|EJY01862.1| pseudouridine synthase, RluA family [Enterococcus faecium ERV165]
gi|402989884|gb|EJY04786.1| pseudouridine synthase, RluA family [Enterococcus faecium ERV161]
gi|402990538|gb|EJY05408.1| pseudouridine synthase, RluA family [Enterococcus faecium ERV102]
gi|402994548|gb|EJY09074.1| pseudouridine synthase, RluA family [Enterococcus faecium ERV1]
gi|402999798|gb|EJY13969.1| pseudouridine synthase, RluA family [Enterococcus faecium E417]
gi|403001579|gb|EJY15625.1| pseudouridine synthase, RluA family [Enterococcus faecium E422]
gi|403007115|gb|EJY20710.1| pseudouridine synthase, RluA family [Enterococcus faecium C621]
gi|403009283|gb|EJY22740.1| pseudouridine synthase, RluA family [Enterococcus faecium C1904]
gi|403011007|gb|EJY24345.1| pseudouridine synthase, RluA family [Enterococcus faecium C497]
gi|403016436|gb|EJY29254.1| pseudouridine synthase, RluA family [Enterococcus faecium 515]
gi|403017943|gb|EJY30664.1| pseudouridine synthase, RluA family [Enterococcus faecium 514]
gi|403020389|gb|EJY32931.1| pseudouridine synthase, RluA family [Enterococcus faecium 513]
gi|403027699|gb|EJY39574.1| pseudouridine synthase, RluA family [Enterococcus faecium 511]
gi|403028578|gb|EJY40396.1| pseudouridine synthase, RluA family [Enterococcus faecium 506]
gi|403030860|gb|EJY42514.1| pseudouridine synthase, RluA family [Enterococcus faecium 510]
gi|403033618|gb|EJY45110.1| pseudouridine synthase, RluA family [Enterococcus faecium 509]
gi|403042820|gb|EJY53762.1| pseudouridine synthase, RluA family [Enterococcus faecium 503]
gi|404452818|gb|EJZ99969.1| RluA family pseudouridine synthase [Enterococcus sp. GMD4E]
gi|404456387|gb|EKA03110.1| RluA family pseudouridine synthase [Enterococcus sp. GMD3E]
gi|404461969|gb|EKA07817.1| RluA family pseudouridine synthase [Enterococcus sp. GMD2E]
gi|404467838|gb|EKA12898.1| RluA family pseudouridine synthase [Enterococcus sp. GMD1E]
gi|410734089|gb|EKQ76010.1| pseudouridylate synthase [Enterococcus sp. GMD5E]
gi|425724078|gb|EKU86962.1| RluA family pseudouridine synthase [Enterococcus durans
FB129-CNAB-4]
gi|430483115|gb|ELA60214.1| RluA family pseudouridine synthase [Enterococcus faecium E0333]
gi|430496886|gb|ELA72945.1| RluA family pseudouridine synthase [Enterococcus faecium E1050]
gi|430539070|gb|ELA79332.1| RluA family pseudouridine synthase [Enterococcus faecium E1133]
gi|430548274|gb|ELA88179.1| RluA family pseudouridine synthase [Enterococcus faecium E1392]
gi|430549472|gb|ELA89304.1| RluA family pseudouridine synthase [Enterococcus faecium E1573]
gi|430556389|gb|ELA95897.1| RluA family pseudouridine synthase [Enterococcus faecium E1576]
gi|430560850|gb|ELB00142.1| RluA family pseudouridine synthase [Enterococcus faecium E1578]
gi|430574896|gb|ELB13659.1| RluA family pseudouridine synthase [Enterococcus faecium E1622]
gi|430577040|gb|ELB15645.1| RluA family pseudouridine synthase [Enterococcus faecium E1623]
gi|430583682|gb|ELB22040.1| RluA family pseudouridine synthase [Enterococcus faecium E1627]
gi|430588115|gb|ELB26320.1| RluA family pseudouridine synthase [Enterococcus faecium E1634]
gi|430593945|gb|ELB31920.1| RluA family pseudouridine synthase [Enterococcus faecium E1731]
gi|430609616|gb|ELB46800.1| RluA family pseudouridine synthase [Enterococcus faecium E2134]
gi|430613436|gb|ELB50446.1| RluA family pseudouridine synthase [Enterococcus faecium E2297]
gi|430619212|gb|ELB56040.1| RluA family pseudouridine synthase [Enterococcus faecium E2883]
gi|430635537|gb|ELB71633.1| RluA family pseudouridine synthase [Enterococcus faecium E1644]
gi|430637203|gb|ELB73236.1| RluA family pseudouridine synthase [Enterococcus faecium E2369]
gi|430642114|gb|ELB77897.1| RluA family pseudouridine synthase [Enterococcus faecium E2560]
gi|430644080|gb|ELB79783.1| RluA family pseudouridine synthase [Enterococcus faecium E4389]
gi|430647477|gb|ELB82923.1| RluA family pseudouridine synthase [Enterococcus faecium E6045]
gi|430648117|gb|ELB83540.1| RluA family pseudouridine synthase [Enterococcus faecium E6012]
gi|445188826|gb|AGE30468.1| Ribosomal large subunit pseudouridine synthase D [Enterococcus
faecium NRRL B-2354]
Length = 303
Score = 167 bits (424), Expect = 5e-39, Method: Compositional matrix adjust.
Identities = 107/277 (38%), Positives = 157/277 (56%), Gaps = 35/277 (12%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
+L+ T+ ++G R+D +++ SR+++Q +++G VS+NGQ V K ++ VK GD +
Sbjct: 3 ELKTTIHHESG--RIDKVLTNLFTDYSRSQIQLWLKNGAVSVNGQPV-KANYKVKQGDEI 59
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
I E + L E+IPL IVYED++V V+NKP MVVHP+ G+ GT+VN +++H
Sbjct: 60 TVLIPEPETLDVVPENIPLTIVYEDEDVAVINKPQGMVVHPSAGHTHGTMVNALMYHI-- 117
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+D+ S+I+G IRPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 118 --------------KDL-------STINGV-IRPGIVHRIDKDTSGLLMVAKNDQAHESL 155
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
++Q K T R Y++L G G I PI R NR +M AI K A +
Sbjct: 156 AQQLKDKTSLRKYVALVHGEIPHEKGTINAPIGRSKENR-KMQAIREDGK-----SAVTH 209
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ V+E G LVE +LETGRTHQ+ + K P
Sbjct: 210 FTVLERFE--GFTLVELKLETGRTHQIRVHMKYIGYP 244
>gi|335429378|ref|ZP_08556276.1| hypothetical protein HLPCO_10383 [Haloplasma contractile SSD-17B]
gi|334889388|gb|EGM27673.1| hypothetical protein HLPCO_10383 [Haloplasma contractile SSD-17B]
Length = 299
Score = 167 bits (424), Expect = 5e-39, Method: Compositional matrix adjust.
Identities = 98/256 (38%), Positives = 149/256 (58%), Gaps = 37/256 (14%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D ++ + SR +++ I+ V +N Q K +++VK GD++ TI E P E
Sbjct: 13 RIDKLVADKFPNFSRNQIKKMIKDEQVEVNKQS-EKPNYHVKWGDII--TIYEKDPEITE 69
Query: 132 --AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAF 189
E+IP+DI ++D +V+V+NK + MVVHP+ G+ TGTLVN L+HC+
Sbjct: 70 LVPENIPIDIHFQDKDVIVINKASGMVVHPSQGHYTGTLVNAALYHCN------------ 117
Query: 190 SDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIER 249
S I+G +RPG+VHR+DK T+GLLV+AK++H+H L++QFK T R
Sbjct: 118 -----------HLSGING-ELRPGVVHRIDKDTTGLLVMAKNDHAHNFLAKQFKDKTTTR 165
Query: 250 VYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGG 309
Y +L G + + G I+ PI RDP +R +MA + G R A + ++V+E L G
Sbjct: 166 EYCALVYGTIAHNKGTIDAPIGRDPKDRKKMAVVAG------GRSAVTHFEVVERL--GD 217
Query: 310 SALVEWRLETGRTHQV 325
L++ LETGRTHQ+
Sbjct: 218 YTLIKCVLETGRTHQI 233
>gi|313893115|ref|ZP_07826692.1| pseudouridine synthase, RluA family [Veillonella sp. oral taxon 158
str. F0412]
gi|313442468|gb|EFR60883.1| pseudouridine synthase, RluA family [Veillonella sp. oral taxon 158
str. F0412]
Length = 307
Score = 167 bits (424), Expect = 5e-39, Method: Compositional matrix adjust.
Identities = 101/265 (38%), Positives = 155/265 (58%), Gaps = 33/265 (12%)
Query: 61 EETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNC 120
E V + +RLD +++ +++G SR+ +QS I+ G V + G+V K + + ++
Sbjct: 3 EYIVSAEQEGMRLDVFLTEQMEG-SRSYIQSLIKGGHVIVGGKV-GKANLRLTPNMVIQV 60
Query: 121 TISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPT 180
I E + + + EDIPLD++YED ++++VNK MVVHPA GN +GTLVN +L HC
Sbjct: 61 EIPEPESVEVKPEDIPLDVLYEDHDIIIVNKARGMVVHPAVGNYSGTLVNALLFHC---- 116
Query: 181 LASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSE 240
+D+S I+G IRPGIVHRLDK TSG+++ AK++ +H L+E
Sbjct: 117 ------------KDLS-------GING-EIRPGIVHRLDKDTSGVMMAAKNDAAHIGLAE 156
Query: 241 QFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYK 300
Q K H+ +R Y +L G + G I+ PI R P +R++MA + ++K A + ++
Sbjct: 157 QVKEHSAKRTYWALVQGNIVEEKGTIKAPIGRHPKDRMKMAVVFENSK-----DAVTHFR 211
Query: 301 VIEILAGGGSALVEWRLETGRTHQV 325
V+E G LVE LETGRTHQ+
Sbjct: 212 VLERY--GHQTLVECNLETGRTHQI 234
>gi|209965021|ref|YP_002297936.1| ribosomal large subunit pseudouridine synthase D [Rhodospirillum
centenum SW]
gi|209958487|gb|ACI99123.1| ribosomal large subunit pseudouridine synthase D, putative
[Rhodospirillum centenum SW]
Length = 364
Score = 167 bits (424), Expect = 6e-39, Method: Compositional matrix adjust.
Identities = 107/266 (40%), Positives = 147/266 (55%), Gaps = 33/266 (12%)
Query: 64 VDTKAGKL--RLDAWISSRIDG--ISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
V+ AG+ RLD +S + G +SR+R++S I G VS G+ + S VK G +V
Sbjct: 48 VEVAAGRAGDRLDKVLSDALGGAGLSRSRLRSLIDQGCVSSGGETIDDASRRVKPGQIVE 107
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
+ +P + IPL IV+ED+++LV++K A MVVHPA GN GTLVN +L HC
Sbjct: 108 VLVPAAEPAVPLPQAIPLAIVHEDEDLLVIDKAAEMVVHPAAGNPDGTLVNALLAHCG-- 165
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
+ S I G RPGIVHRLDKGTSGLLV AK + +H L+
Sbjct: 166 --------------------DRLSGIGGVR-RPGIVHRLDKGTSGLLVAAKTDRAHQGLT 204
Query: 240 EQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRY 299
QF ++ R Y+++ GVP+ G IE I R P +R RMA + K A +RY
Sbjct: 205 AQFADRSLSRTYLAVVWGVPAAREGVIEGNIGRHPGDRKRMAVLSRGGK-----PAVTRY 259
Query: 300 KVIEILAGGGSALVEWRLETGRTHQV 325
+V+ G ++LVE +L TGRTHQ+
Sbjct: 260 RVVRSF-GLLASLVECKLLTGRTHQI 284
>gi|255659722|ref|ZP_05405131.1| ribosomal large subunit pseudouridine synthase D [Mitsuokella
multacida DSM 20544]
gi|260848296|gb|EEX68303.1| ribosomal large subunit pseudouridine synthase D [Mitsuokella
multacida DSM 20544]
Length = 308
Score = 167 bits (423), Expect = 6e-39, Method: Compositional matrix adjust.
Identities = 100/254 (39%), Positives = 149/254 (58%), Gaps = 32/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +++ +SRA VQ I G ++G+V K ++ ++ G+ V + E +P+
Sbjct: 16 RLDRFLTRMEPTLSRAHVQKVIAEGQALVSGRV-RKANYKLQAGEKVTFHLPEAKPVEIL 74
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
EDIPLDI+YED +++V+NK MVVHPA G TGTLVN +L+HC
Sbjct: 75 PEDIPLDILYEDSDIIVINKARGMVVHPATGIYTGTLVNALLYHC--------------- 119
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+D+ S I+G IRPGIVHRLDK TSG++V AK++ +H L+EQ + R+Y
Sbjct: 120 -KDL-------SGING-EIRPGIVHRLDKDTSGVMVAAKNDAAHLDLAEQIRTKAAHRIY 170
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++ G + +G I+ I R P +R +MA + ++HG+ A + ++V+E G
Sbjct: 171 RAIVCGNIREEAGVIKGDIGRHPTDRKKMAIV---HEHGKP--AVTHFRVLERF--GAYT 223
Query: 312 LVEWRLETGRTHQV 325
LVE RLETGRTHQ+
Sbjct: 224 LVECRLETGRTHQI 237
>gi|94970372|ref|YP_592420.1| ribosomal large subunit pseudouridine synthase D [Candidatus
Koribacter versatilis Ellin345]
gi|94552422|gb|ABF42346.1| ribosomal large subunit pseudouridine synthase D [Candidatus
Koribacter versatilis Ellin345]
Length = 333
Score = 167 bits (423), Expect = 6e-39, Method: Compositional matrix adjust.
Identities = 105/264 (39%), Positives = 152/264 (57%), Gaps = 40/264 (15%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQP--L 128
+RLD ++ S + +SRARVQ+ I + ++G+ SK S+ ++G ++++ + E QP L
Sbjct: 16 IRLDQYLVSHLPDVSRARVQALIDDEKILVDGKS-SKPSYKLRGSEVIDV-VGEYQPPPL 73
Query: 129 RAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNAT-----GTLVNGILHHCSLPTLAS 183
RA EDIPLD+VYEDD++ V+NKPA M+VH G GTLVN +L+
Sbjct: 74 RAIPEDIPLDVVYEDDDLAVINKPAGMMVHVGAGATEEERNRGTLVNALLYRF------- 126
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
A S+ G +RPGIVHRLDK TSGL+VVAK++ +H L+EQF
Sbjct: 127 ---RALSEV--------------GGDMRPGIVHRLDKETSGLIVVAKNDVAHRKLAEQFS 169
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
+ + Y++L G P + G I +PI+RD + R RM + + R A S Y+V E
Sbjct: 170 SRRVHKKYVALVHGWPKKLKGTINLPIARDMSRRTRM-----TTRGSGGRDALSHYEVKE 224
Query: 304 ILAG--GGSALVEWRLETGRTHQV 325
+ G ALVE ++ETGRTHQ+
Sbjct: 225 KIESPYGKFALVEVKIETGRTHQI 248
>gi|84515394|ref|ZP_01002756.1| ribosomal large subunit pseudouridine synthase D [Loktanella
vestfoldensis SKA53]
gi|84510677|gb|EAQ07132.1| ribosomal large subunit pseudouridine synthase D [Loktanella
vestfoldensis SKA53]
Length = 349
Score = 167 bits (423), Expect = 6e-39, Method: Compositional matrix adjust.
Identities = 106/254 (41%), Positives = 146/254 (57%), Gaps = 35/254 (13%)
Query: 84 ISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAEAEDIPLDIVYED 143
+SR+R+ I G V+++GQVV+ + G V T++ EA+DI LD+V+ED
Sbjct: 38 LSRSRLARLIADGAVAVDGQVVTDPRFRIAEGAQVAVTVAVAVESHIEAQDITLDVVFED 97
Query: 144 DNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSS 203
D+++V+NKPA MVVHPAPG A GTLVN ++HHC S
Sbjct: 98 DDLIVINKPAGMVVHPAPGTADGTLVNALIHHCG-----------------------DSL 134
Query: 204 SISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSS 263
S G RPGIVHR+DK TSGLLVVAK + +H HL++QF HT+ER YI++ GVP +
Sbjct: 135 SGVGGLKRPGIVHRIDKDTSGLLVVAKSDRAHHHLADQFADHTVERRYIAVCYGVPEAND 194
Query: 264 GRIE--VPISRDPNNRIRMAAIPGSNKHGQARHA----ASRYKV--IEILAGGG----SA 311
R+ S +P N +++ G ++ + R A A R+ V + ILA G +A
Sbjct: 195 PRLRGIKGTSFEPGNILKIQTQLGRHRTDRQRQAVSFTAGRHAVTRVRILAALGAMPVAA 254
Query: 312 LVEWRLETGRTHQV 325
LVE LETGRTHQ+
Sbjct: 255 LVECWLETGRTHQI 268
>gi|229829077|ref|ZP_04455146.1| hypothetical protein GCWU000342_01162 [Shuttleworthia satelles DSM
14600]
gi|229792240|gb|EEP28354.1| hypothetical protein GCWU000342_01162 [Shuttleworthia satelles DSM
14600]
Length = 306
Score = 167 bits (423), Expect = 6e-39, Method: Compositional matrix adjust.
Identities = 102/260 (39%), Positives = 148/260 (56%), Gaps = 40/260 (15%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV-----NCTISEL 125
LR+D +++ +DG SR +Q I GLV +NG + S+ ++ D + + ++EL
Sbjct: 15 LRIDRYLADHLDGQSRNSIQKLIEEGLVLVNGNA-CRASYKLQEKDQIFVSVPDAVLTEL 73
Query: 126 QPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSN 185
+P E IPLDI+YEDD +L+VNKP MVVHPAPG+ TGTLVN I++HC
Sbjct: 74 RP-----ERIPLDILYEDDQLLIVNKPKEMVVHPAPGHNTGTLVNAIMYHCG-------- 120
Query: 186 QEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLH 245
+E S I+G IRPGIVHR+D T+G L+V K + +H ++ Q K H
Sbjct: 121 -------------KEL-SGING-EIRPGIVHRIDMNTTGSLIVCKTDAAHRFIASQIKEH 165
Query: 246 TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEIL 305
++ RVY ++ G + + G I I RDP +R +M+ K+G R A + Y+ + L
Sbjct: 166 SVHRVYRAIVYGHLNPTEGTIRTSIGRDPRDRKKMSV---GVKNG--RQAITHYRELARL 220
Query: 306 AGGGSALVEWRLETGRTHQV 325
S VE+ LETGRTHQ+
Sbjct: 221 RNNFS-YVEFELETGRTHQI 239
>gi|430745597|ref|YP_007204726.1| RluA family pseudouridine synthase [Singulisphaera acidiphila DSM
18658]
gi|430017317|gb|AGA29031.1| pseudouridine synthase, RluA family [Singulisphaera acidiphila DSM
18658]
Length = 336
Score = 167 bits (423), Expect = 6e-39, Method: Compositional matrix adjust.
Identities = 102/256 (39%), Positives = 148/256 (57%), Gaps = 34/256 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+DA+++SR SR+ +Q I + V INGQ +K S+ V+ D + + EL
Sbjct: 22 RIDAYLASRYPDYSRSVIQKVIDAKAVLINGQP-TKASYKVRLDDEIRVWLPELADEAPI 80
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGI-LHHCSLPTLASSNQEAFS 190
E+IPL +VYED+ + VVNKP MVVHPA G+ +GTLVN + H+ +L T+A N
Sbjct: 81 PEEIPLQVVYEDEALTVVNKPPRMVVHPAKGHWSGTLVNALQFHYDTLSTVAGEN----- 135
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
RPGIVHRLD+ T+GLL+VAKD+ +H +L++QF+ T+ +
Sbjct: 136 --------------------RPGIVHRLDRDTTGLLLVAKDDLAHRNLAKQFEQRTVRKE 175
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAA-IPGSNKHGQARHAASRYKVIEILAGGG 309
Y+++ SGVPS+ S IE PI P NR +MA +P A+ A + Y+V+E G
Sbjct: 176 YLAIVSGVPSRDSDYIEKPIGFHPTNREKMAIRLPEDG----AKEAVTFYEVLERF--DG 229
Query: 310 SALVEWRLETGRTHQV 325
A + + TGRTHQ+
Sbjct: 230 FAYIRCKPRTGRTHQI 245
>gi|309803986|ref|ZP_07698068.1| pseudouridine synthase, RluA family [Lactobacillus iners LactinV
11V1-d]
gi|309807269|ref|ZP_07701239.1| pseudouridine synthase, RluA family [Lactobacillus iners LactinV
03V1-b]
gi|309809874|ref|ZP_07703724.1| pseudouridine synthase, RluA family [Lactobacillus iners SPIN
2503V10-D]
gi|312871741|ref|ZP_07731829.1| pseudouridine synthase, RluA family [Lactobacillus iners LEAF
3008A-a]
gi|312874168|ref|ZP_07734202.1| pseudouridine synthase, RluA family [Lactobacillus iners LEAF
2052A-d]
gi|312875676|ref|ZP_07735677.1| pseudouridine synthase, RluA family [Lactobacillus iners LEAF
2053A-b]
gi|315653539|ref|ZP_07906459.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
iners ATCC 55195]
gi|325912067|ref|ZP_08174465.1| pseudouridine synthase, RluA family [Lactobacillus iners UPII
143-D]
gi|329920256|ref|ZP_08277040.1| pseudouridine synthase, RluA family [Lactobacillus iners SPIN
1401G]
gi|349611433|ref|ZP_08890668.1| hypothetical protein HMPREF1027_00095 [Lactobacillus sp. 7_1_47FAA]
gi|308163905|gb|EFO66170.1| pseudouridine synthase, RluA family [Lactobacillus iners LactinV
11V1-d]
gi|308166329|gb|EFO68538.1| pseudouridine synthase, RluA family [Lactobacillus iners LactinV
03V1-b]
gi|308169826|gb|EFO71869.1| pseudouridine synthase, RluA family [Lactobacillus iners SPIN
2503V10-D]
gi|311088930|gb|EFQ47373.1| pseudouridine synthase, RluA family [Lactobacillus iners LEAF
2053A-b]
gi|311090238|gb|EFQ48648.1| pseudouridine synthase, RluA family [Lactobacillus iners LEAF
2052A-d]
gi|311092683|gb|EFQ51039.1| pseudouridine synthase, RluA family [Lactobacillus iners LEAF
3008A-a]
gi|315488901|gb|EFU78543.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
iners ATCC 55195]
gi|325476017|gb|EGC79185.1| pseudouridine synthase, RluA family [Lactobacillus iners UPII
143-D]
gi|328936301|gb|EGG32749.1| pseudouridine synthase, RluA family [Lactobacillus iners SPIN
1401G]
gi|348608526|gb|EGY58506.1| hypothetical protein HMPREF1027_00095 [Lactobacillus sp. 7_1_47FAA]
Length = 311
Score = 167 bits (423), Expect = 6e-39, Method: Compositional matrix adjust.
Identities = 103/262 (39%), Positives = 147/262 (56%), Gaps = 33/262 (12%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
V ++ +RLD +I++ I ISR RVQ I+ L++ NG + +K+S+ V D +N I
Sbjct: 11 VKSEESGVRLDKYIATHISTISRTRVQELIKQKLITTNG-LQTKLSYKVNTNDKINIEIP 69
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
QPL + E++ LDI+YEDD+V+VVNKP MVVHP+ G+ TLVNG+++H LA
Sbjct: 70 YPQPLSLDPENLNLDIIYEDDDVIVVNKPQGMVVHPSAGHPDHTLVNGLIYHTK--NLAK 127
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
DE F RPGIVHR+DK TSGLL++AK+ + L +Q
Sbjct: 128 C-------------DEIF---------RPGIVHRIDKDTSGLLMIAKNATARISLEKQLA 165
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
+R YI++ SSG I+ PI R+P R +MA + K A + + V+E
Sbjct: 166 NKINKREYIAIVHDNFKHSSGVIDAPIGRNPYQRQQMAVVASGKK------AITHFTVLE 219
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
G +LV+ LETGRTHQ+
Sbjct: 220 QFP--GYSLVKCVLETGRTHQI 239
>gi|299134311|ref|ZP_07027504.1| pseudouridine synthase, RluA family [Afipia sp. 1NLS2]
gi|298591058|gb|EFI51260.1| pseudouridine synthase, RluA family [Afipia sp. 1NLS2]
Length = 347
Score = 167 bits (423), Expect = 6e-39, Method: Compositional matrix adjust.
Identities = 101/262 (38%), Positives = 146/262 (55%), Gaps = 37/262 (14%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++ +++ +SR R+++ I +G VSI G V ++ VK + + + E
Sbjct: 34 RLDRVLAEQVEDLSRTRLKALIVAGHVSIGGAPVQDPAYQVKADETIIVEVPPAVAPEPE 93
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E+IPL+IVYEDD++LV+NKP +VVHPA G+ TGTLVN ++ HC
Sbjct: 94 GENIPLNIVYEDDDLLVLNKPKGLVVHPAAGHETGTLVNALIAHCGT------------- 140
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLH----TI 247
S S G RPGIVHRLDK T+GL+VVAK++ +H L+ QF H +
Sbjct: 141 ----------SLSGIGGVKRPGIVHRLDKDTTGLMVVAKNDRAHQSLTAQFADHGRTGAL 190
Query: 248 ERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAG 307
R Y++ G PS+S G I+ PI R P R +MA G RHA + ++++E G
Sbjct: 191 RRGYMAFVWGAPSRSHGTIDQPIDRHPFAREKMAVRQG------GRHAVTHWEMLESFEG 244
Query: 308 GG----SALVEWRLETGRTHQV 325
+AL+ +LETGRTHQ+
Sbjct: 245 RDGKPLAALLACQLETGRTHQI 266
>gi|430852585|ref|ZP_19470316.1| RluA family pseudouridine synthase [Enterococcus faecium E1258]
gi|430541419|gb|ELA81564.1| RluA family pseudouridine synthase [Enterococcus faecium E1258]
Length = 303
Score = 167 bits (423), Expect = 6e-39, Method: Compositional matrix adjust.
Identities = 106/277 (38%), Positives = 157/277 (56%), Gaps = 35/277 (12%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
+L+ T+ ++G R+D +++ SR+++Q +++G VS+NGQ V K ++ VK GD +
Sbjct: 3 ELKTTIHHESG--RIDKVLTNLFTDYSRSQIQLWLKNGAVSVNGQPV-KANYKVKQGDEI 59
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
I E + L E+IPL IVYED++V V+NKP MVVHP+ G+ GT+VN +++H
Sbjct: 60 TVLIPEPETLDVGPENIPLTIVYEDEDVAVINKPQGMVVHPSAGHTHGTMVNALMYHI-- 117
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+D+ S+I+G IRPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 118 --------------KDL-------STINGV-IRPGIVHRIDKDTSGLLMVAKNDQAHESL 155
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
++Q K T R Y++L G G I PI R NR +M AI + A +
Sbjct: 156 AQQLKDKTSLRKYVALVHGEIPHEKGTINAPIGRSKENR-KMQAI-----REDGKPAVTH 209
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ V+E G LVE +LETGRTHQ+ + K P
Sbjct: 210 FTVLERFE--GFTLVELKLETGRTHQIRVHMKYIGYP 244
>gi|421860326|ref|ZP_16292457.1| pseudouridylate synthase [Paenibacillus popilliae ATCC 14706]
gi|410830074|dbj|GAC42894.1| pseudouridylate synthase [Paenibacillus popilliae ATCC 14706]
Length = 324
Score = 167 bits (423), Expect = 6e-39, Method: Compositional matrix adjust.
Identities = 110/289 (38%), Positives = 161/289 (55%), Gaps = 37/289 (12%)
Query: 38 RCSSSSSGGNNREPIANYAGVQLEETVDTKAGKLRLDAWISSRID-GISRARVQSSIRSG 96
R SSSS N P + L D +AG+ R+D +I+ ++ +SR++VQ IR
Sbjct: 5 RTSSSSEEDN---PEGLEQDMLLWTVTDAEAGE-RIDKYITESLEESVSRSQVQLWIRDA 60
Query: 97 LVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMV 156
+ +NG+ V K ++ + GD + I E IPL + YED +V+V+NKP MV
Sbjct: 61 YLLVNGRSV-KPNYKIGAGDEMELRIPAPTATDIVPEAIPLHVYYEDADVIVINKPRGMV 119
Query: 157 VHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVH 216
VHPAPG+ + T+VN ++HHCS D+S I+G +RPGIVH
Sbjct: 120 VHPAPGHLSETVVNALMHHCS----------------DLS-------GING-ELRPGIVH 155
Query: 217 RLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNN 276
R+DK TSGLL+ AK++ +H L+ Q K HT+ R Y +L G + G I+ PI RDP++
Sbjct: 156 RIDKDTSGLLMAAKNDRAHTELAAQLKAHTVLRKYKALVHGNLAHDQGTIDAPIGRDPHD 215
Query: 277 RIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQV 325
R +M A+ N ++ A + ++V E G LVE +LETGRTHQ+
Sbjct: 216 R-KMFAVTDRN----SKRAVTHFQVAERF--GDVTLVELQLETGRTHQI 257
>gi|384215677|ref|YP_005606843.1| hypothetical protein BJ6T_19750 [Bradyrhizobium japonicum USDA 6]
gi|354954576|dbj|BAL07255.1| hypothetical protein BJ6T_19750 [Bradyrhizobium japonicum USDA 6]
Length = 335
Score = 167 bits (423), Expect = 6e-39, Method: Compositional matrix adjust.
Identities = 100/275 (36%), Positives = 151/275 (54%), Gaps = 37/275 (13%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
+LE V G RLD +++ + +SR+R+++ I +G VS+ + +++V GD +
Sbjct: 9 RLEVVVAGDEGSARLDRVLAAHLTDLSRSRLKALILAGAVSLRDAPIRDPAYHVTSGDTI 68
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
+ E P + EDI LDIV+EDD+++V+NKP +VVHPA G+ TGTLVN ++ HC
Sbjct: 69 TIDVPEAAPPEPKGEDIALDIVFEDDDIVVLNKPKGLVVHPAAGHETGTLVNALIAHCG- 127
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
S S G RPGIVHRLDK T+GL+VVAK++ +HA L
Sbjct: 128 ----------------------GSLSGIGGVRRPGIVHRLDKDTTGLMVVAKNDLAHASL 165
Query: 239 SEQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARH 294
+ QF H + R Y++ G+P + G ++ PI R P R +MA G R
Sbjct: 166 TAQFADHGRTGAMRRGYMAFAWGLPGRHRGTVDAPIDRHPYAREKMAVRQGG------RD 219
Query: 295 AASRYKVIEILAGGG----SALVEWRLETGRTHQV 325
A + ++++E AG ++L+ LETGRTHQ+
Sbjct: 220 AVTHWELLESFAGRDGKPIASLLACELETGRTHQI 254
>gi|408675561|ref|YP_006875309.1| pseudouridine synthase, RluA family [Emticicia oligotrophica DSM
17448]
gi|387857185|gb|AFK05282.1| pseudouridine synthase, RluA family [Emticicia oligotrophica DSM
17448]
Length = 343
Score = 167 bits (423), Expect = 6e-39, Method: Compositional matrix adjust.
Identities = 104/266 (39%), Positives = 153/266 (57%), Gaps = 36/266 (13%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
VD +RLD ++ +SR ++Q+SI + + +NG + +K S+ VK D++ T S
Sbjct: 25 VDKGQITMRLDKYLPHFTKNVSRNKIQNSIDAEAIKVNG-LPAKASYKVKPLDVI--TFS 81
Query: 124 ELQPLRAEA---EDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC-SLP 179
+P R E+IPLDIVYEDD++++VNKP MVVHPA GN +GTLVNG++++ +LP
Sbjct: 82 LPRPPRNHELLEENIPLDIVYEDDDLMIVNKPPRMVVHPAVGNWSGTLVNGLVYYLKNLP 141
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
T + IRPG+VHR+DK TSGLLV+AK++ + L+
Sbjct: 142 THRN------------------------GEIRPGLVHRIDKDTSGLLVIAKNDFAMTFLA 177
Query: 240 EQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRY 299
+QF HTIER Y +L GVP SG I I R NR + P + HG + + + Y
Sbjct: 178 KQFSEHTIERTYYALVWGVPKNPSGTIHQFIGRSLKNRKIIEVYPDGS-HG--KDSITHY 234
Query: 300 KVIEILAGGGSALVEWRLETGRTHQV 325
K+++ +L++ LETGRTHQ+
Sbjct: 235 KILKDYK--YVSLIQCNLETGRTHQI 258
>gi|414155728|ref|ZP_11412038.1| RluA family pseudouridine synthase [Streptococcus sp. F0442]
gi|410872663|gb|EKS20604.1| RluA family pseudouridine synthase [Streptococcus sp. F0442]
Length = 296
Score = 167 bits (423), Expect = 7e-39, Method: Compositional matrix adjust.
Identities = 101/254 (39%), Positives = 144/254 (56%), Gaps = 34/254 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++ + +SRA I+ G V +NG V K + VK GD++ + E+ + E
Sbjct: 11 RLDKALAD-LTPLSRAVANEQIKEGKVLVNG-TVKKAKYTVKEGDIIQYEVPEMVEISYE 68
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AED+PLDIVYED +V+VVNKP MVVHP+ G+ +GTLVN +L+H
Sbjct: 69 AEDLPLDIVYEDQDVVVVNKPQGMVVHPSAGHTSGTLVNALLYHV--------------- 113
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L+E+ K R Y
Sbjct: 114 -KDL-------SGING-ELRPGIVHRIDKDTSGLLMVAKNDQAHVALAEELKDKKSLRKY 164
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++ G G IE PI R +R + A + + A +R++V+E G
Sbjct: 165 WAIVHGNLPNDRGMIEAPIGRSEKDRKKQAVT------AKGKPAVTRFQVLERF--GDYT 216
Query: 312 LVEWRLETGRTHQV 325
LVE +LETGRTHQ+
Sbjct: 217 LVELQLETGRTHQI 230
>gi|257884651|ref|ZP_05664304.1| pseudouridylate synthase [Enterococcus faecium 1,231,501]
gi|261207803|ref|ZP_05922488.1| pseudouridylate synthase [Enterococcus faecium TC 6]
gi|289566255|ref|ZP_06446687.1| RNA pseudouridine synthase ylyB [Enterococcus faecium D344SRF]
gi|294616594|ref|ZP_06696370.1| ribosomal large subunit pseudouridine synthase D [Enterococcus
faecium E1636]
gi|416131314|ref|ZP_11597685.1| ribosomal large subunit pseudouridine synthase D [Enterococcus
faecium E4452]
gi|430820160|ref|ZP_19438797.1| RluA family pseudouridine synthase [Enterococcus faecium E0045]
gi|430822263|ref|ZP_19440842.1| RluA family pseudouridine synthase [Enterococcus faecium E0120]
gi|430825314|ref|ZP_19443519.1| RluA family pseudouridine synthase [Enterococcus faecium E0164]
gi|430828567|ref|ZP_19446687.1| RluA family pseudouridine synthase [Enterococcus faecium E0269]
gi|430849881|ref|ZP_19467648.1| RluA family pseudouridine synthase [Enterococcus faecium E1185]
gi|430864759|ref|ZP_19480584.1| RluA family pseudouridine synthase [Enterococcus faecium E1574]
gi|430870884|ref|ZP_19483471.1| RluA family pseudouridine synthase [Enterococcus faecium E1575]
gi|431195499|ref|ZP_19500477.1| RluA family pseudouridine synthase [Enterococcus faecium E1620]
gi|431295228|ref|ZP_19507116.1| RluA family pseudouridine synthase [Enterococcus faecium E1626]
gi|431620624|ref|ZP_19522789.1| RluA family pseudouridine synthase [Enterococcus faecium E1904]
gi|431743697|ref|ZP_19532573.1| RluA family pseudouridine synthase [Enterococcus faecium E2071]
gi|431765402|ref|ZP_19553916.1| RluA family pseudouridine synthase [Enterococcus faecium E4215]
gi|431766987|ref|ZP_19555447.1| RluA family pseudouridine synthase [Enterococcus faecium E1321]
gi|257820489|gb|EEV47637.1| pseudouridylate synthase [Enterococcus faecium 1,231,501]
gi|260078186|gb|EEW65892.1| pseudouridylate synthase [Enterococcus faecium TC 6]
gi|289161962|gb|EFD09830.1| RNA pseudouridine synthase ylyB [Enterococcus faecium D344SRF]
gi|291590544|gb|EFF22277.1| ribosomal large subunit pseudouridine synthase D [Enterococcus
faecium E1636]
gi|364093667|gb|EHM35915.1| ribosomal large subunit pseudouridine synthase D [Enterococcus
faecium E4452]
gi|430439850|gb|ELA50160.1| RluA family pseudouridine synthase [Enterococcus faecium E0045]
gi|430443321|gb|ELA53306.1| RluA family pseudouridine synthase [Enterococcus faecium E0120]
gi|430446207|gb|ELA55892.1| RluA family pseudouridine synthase [Enterococcus faecium E0164]
gi|430483400|gb|ELA60478.1| RluA family pseudouridine synthase [Enterococcus faecium E0269]
gi|430536576|gb|ELA76943.1| RluA family pseudouridine synthase [Enterococcus faecium E1185]
gi|430553540|gb|ELA93226.1| RluA family pseudouridine synthase [Enterococcus faecium E1574]
gi|430558683|gb|ELA98094.1| RluA family pseudouridine synthase [Enterococcus faecium E1575]
gi|430571877|gb|ELB10751.1| RluA family pseudouridine synthase [Enterococcus faecium E1620]
gi|430581318|gb|ELB19763.1| RluA family pseudouridine synthase [Enterococcus faecium E1626]
gi|430603570|gb|ELB41088.1| RluA family pseudouridine synthase [Enterococcus faecium E1904]
gi|430606486|gb|ELB43837.1| RluA family pseudouridine synthase [Enterococcus faecium E2071]
gi|430628489|gb|ELB64924.1| RluA family pseudouridine synthase [Enterococcus faecium E4215]
gi|430631860|gb|ELB68160.1| RluA family pseudouridine synthase [Enterococcus faecium E1321]
Length = 303
Score = 167 bits (423), Expect = 7e-39, Method: Compositional matrix adjust.
Identities = 106/277 (38%), Positives = 157/277 (56%), Gaps = 35/277 (12%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
+L+ T+ ++G R+D +++ SR+++Q +++G VS+NGQ V K ++ VK GD +
Sbjct: 3 ELKTTIHHESG--RIDKVLTNLFTDYSRSQIQLWLKNGAVSVNGQPV-KANYKVKQGDEI 59
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
I E + L E+IPL IVYED++V V+NKP MVVHP+ G+ GT+VN +++H
Sbjct: 60 TVLIPEPETLDVVPENIPLTIVYEDEDVAVINKPQGMVVHPSAGHTHGTMVNALMYHI-- 117
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+D+ S+I+G IRPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 118 --------------KDL-------STINGV-IRPGIVHRIDKDTSGLLMVAKNDQAHESL 155
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
++Q K T R Y++L G G I PI R NR +M AI + A +
Sbjct: 156 AQQLKDKTSLRKYVALVHGEIPHEKGTINAPIGRSKENR-KMQAI-----REDGKPAVTH 209
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ V+E G LVE +LETGRTHQ+ + K P
Sbjct: 210 FTVLERFE--GFTLVELKLETGRTHQIRVHMKYIGYP 244
>gi|308180606|ref|YP_003924734.1| pseudouridylate synthase [Lactobacillus plantarum subsp. plantarum
ST-III]
gi|380032591|ref|YP_004889582.1| RNA pseudouridylate synthase [Lactobacillus plantarum WCFS1]
gi|448821292|ref|YP_007414454.1| Pseudouridine synthase [Lactobacillus plantarum ZJ316]
gi|308046097|gb|ADN98640.1| pseudouridylate synthase [Lactobacillus plantarum subsp. plantarum
ST-III]
gi|342241834|emb|CCC79068.1| RNA pseudouridylate synthase [Lactobacillus plantarum WCFS1]
gi|448274789|gb|AGE39308.1| Pseudouridine synthase [Lactobacillus plantarum ZJ316]
Length = 307
Score = 167 bits (423), Expect = 7e-39, Method: Compositional matrix adjust.
Identities = 104/270 (38%), Positives = 146/270 (54%), Gaps = 34/270 (12%)
Query: 56 AGVQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGG 115
AG E+ RLD +++ +R++V I++ V++NGQ+ + H VK G
Sbjct: 2 AGATTEQQFTITDQTGRLDKVLAALQSVWTRSQVDKLIKTDQVTVNGQLEASKYH-VKPG 60
Query: 116 DMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHH 175
D + +Q E E+IPLDIVYEDD+VLVVNKP MVVHPAPG+ TLVN +L+H
Sbjct: 61 DEIVVAAQTVQQTTIEPENIPLDIVYEDDDVLVVNKPQGMVVHPAPGHPNHTLVNALLYH 120
Query: 176 CSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSH 235
L S+I+G RPGIVHR+DK TSGLL+VAK++ +H
Sbjct: 121 SPL------------------------STING-EFRPGIVHRIDKDTSGLLMVAKNDRAH 155
Query: 236 AHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHA 295
L+ Q K T R Y++L GV + +G I P+ R P +R + A + R A
Sbjct: 156 QSLAAQLKAKTNLREYVALVHGVIKEDTGTINAPLGRSPKDRKKQAIV------KTGRPA 209
Query: 296 ASRYKVIEILAGGGSALVEWRLETGRTHQV 325
+ +KV++ L+ RLETGRTHQ+
Sbjct: 210 VTHFKVLKRYQ--HYTLISCRLETGRTHQI 237
>gi|126664287|ref|ZP_01735278.1| ribosomal large subunit pseudouridine synthase D [Flavobacteria
bacterium BAL38]
gi|126623707|gb|EAZ94404.1| ribosomal large subunit pseudouridine synthase D [Flavobacteria
bacterium BAL38]
Length = 346
Score = 167 bits (423), Expect = 7e-39, Method: Compositional matrix adjust.
Identities = 103/258 (39%), Positives = 148/258 (57%), Gaps = 36/258 (13%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
LR+D ++ + I+ +R ++Q + +G + +N V K ++ VK GD+V ++ P
Sbjct: 29 LRVDKFLMNMIENTTRNKIQQAAENGSILVN-DVAVKSNYKVKAGDVVRLVLA--HPTYE 85
Query: 131 E---AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQE 187
+ E+IPLDIVYEDD +LV+NKPA MVVHP GN +GTLVN + +H
Sbjct: 86 QLLTPENIPLDIVYEDDQLLVINKPAGMVVHPGHGNYSGTLVNALAYH------------ 133
Query: 188 AFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTI 247
F + +S RPG+VHR+DK T+GLLVVAK E + A+LS+QF T
Sbjct: 134 -------------FENLPMNSSERPGLVHRIDKDTTGLLVVAKTELAMAYLSKQFAEKTS 180
Query: 248 ERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAG 307
ER Y++L G + G +E I R NR+RM A+ S++ G+ A + YKV+E
Sbjct: 181 EREYVALVWGNIEEDEGTVEGNIGRHDTNRMRM-AVHESDEKGKP--AVTHYKVLERF-- 235
Query: 308 GGSALVEWRLETGRTHQV 325
G LV +LETGRTHQ+
Sbjct: 236 GYVTLVSCQLETGRTHQI 253
>gi|229061498|ref|ZP_04198842.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
AH603]
gi|228717732|gb|EEL69382.1| Uncharacterized RNA pseudouridine synthase ylyB [Bacillus cereus
AH603]
Length = 302
Score = 167 bits (423), Expect = 7e-39, Method: Compositional matrix adjust.
Identities = 105/273 (38%), Positives = 154/273 (56%), Gaps = 33/273 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV + R+D +++ SR++VQ I+ +V++NG+ V K ++ VK D + TI
Sbjct: 8 TVAEEQKSERIDKFVAEINSEWSRSQVQQWIKDAVVTVNGKSV-KGNYKVKVNDEITVTI 66
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E + L + ED+ L++ YED +VLVVNKP MVVHPAPG+ GTLVNG++HHC+
Sbjct: 67 PEPEELDIQPEDMNLEVYYEDADVLVVNKPRGMVVHPAPGHTKGTLVNGLMHHCT----- 121
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q
Sbjct: 122 -----------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDVAHESLVNQL 162
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
T+ R Y ++ GV G I+ PI RD R M +++G ++A + ++V+
Sbjct: 163 VAKTVTRRYKAIVHGVIPHDKGTIDAPIGRDKKERQSMTV----DENG--KNAVTHFQVL 216
Query: 303 EILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ LVE RLETGRTHQ+ + K P
Sbjct: 217 DRFK--DFTLVECRLETGRTHQIRVHMKYIGYP 247
>gi|85704967|ref|ZP_01036067.1| ribosomal large subunit pseudouridine synthase D [Roseovarius sp.
217]
gi|85670289|gb|EAQ25150.1| ribosomal large subunit pseudouridine synthase D [Roseovarius sp.
217]
Length = 342
Score = 167 bits (423), Expect = 7e-39, Method: Compositional matrix adjust.
Identities = 108/269 (40%), Positives = 149/269 (55%), Gaps = 38/269 (14%)
Query: 72 RLDAWISSRID---GISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPL 128
RLD +S + +SR R+ + G V +NG V+ V GD++ + E +
Sbjct: 17 RLDKALSRDVPEEATLSRTRLARLLEEGAVQVNGAVMRDAKARVTAGDLIEILVPEARES 76
Query: 129 RAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEA 188
AE I L +VYEDD+++V+NKPA MVVHPAPG+ GTLVN +LHHC
Sbjct: 77 HISAEAIALTVVYEDDDLIVINKPAGMVVHPAPGSPEGTLVNALLHHCG----------- 125
Query: 189 FSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIE 248
S S G S RPGIVHR+DK TSGLLVVAK + +H L+ QF+ H++E
Sbjct: 126 ------------DSLSGVGGSKRPGIVHRIDKDTSGLLVVAKSDAAHQGLAAQFEAHSVE 173
Query: 249 RVYISLTSGVPSQSSGRIE-VP-ISRDPNNRIRMA---AIPGSNKHGQA------RHAAS 297
R Y ++ +GVP R+ +P IS + N +R+A A +++ QA RHA +
Sbjct: 174 RSYRAVVNGVPDAGDPRLRGLPGISFEAGNILRIATRLARHKTDRQKQAVLFEGGRHAVT 233
Query: 298 RYKVIEILAGGG-SALVEWRLETGRTHQV 325
R +VIE G +L+E LETGRTHQ+
Sbjct: 234 RARVIESFGTPGVVSLMECWLETGRTHQI 262
>gi|414163774|ref|ZP_11420021.1| RluA family pseudouridine synthase [Afipia felis ATCC 53690]
gi|410881554|gb|EKS29394.1| RluA family pseudouridine synthase [Afipia felis ATCC 53690]
Length = 343
Score = 167 bits (423), Expect = 7e-39, Method: Compositional matrix adjust.
Identities = 103/267 (38%), Positives = 148/267 (55%), Gaps = 38/267 (14%)
Query: 68 AGK-LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQ 126
AGK RLD ++ + + +SR R+++ I +G VSI G + ++ VK + + +
Sbjct: 25 AGKSQRLDRVLADQFEDLSRTRLKALIVAGHVSIGGAPILDPAYQVKADETIIIEVPPAV 84
Query: 127 PLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQ 186
P E E+IPLDIVYEDD++LV+NKP +VVHPA G+ TGTLVN ++ HC
Sbjct: 85 PAEPEGENIPLDIVYEDDDLLVLNKPKGLVVHPAAGHETGTLVNALIAHCGA-------- 136
Query: 187 EAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLH- 245
S S G RPGIVHRLDK T+GL+VVAK++ +H L+ QF H
Sbjct: 137 ---------------SLSGIGGVRRPGIVHRLDKDTTGLMVVAKNDRAHQSLTAQFADHG 181
Query: 246 ---TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
+ R Y++ G PS+ G I+ PI R P R +MA G RHA + ++++
Sbjct: 182 RTGALRRGYMAFVWGAPSRLHGTIDQPIDRHPFAREKMAVRQG------GRHAVTHWELL 235
Query: 303 EILAGGG----SALVEWRLETGRTHQV 325
E G ++L+ +LETGRTHQ+
Sbjct: 236 ESFEGRDGKPIASLLACQLETGRTHQI 262
>gi|436835980|ref|YP_007321196.1| pseudouridine synthase, RluA family [Fibrella aestuarina BUZ 2]
gi|384067393|emb|CCH00603.1| pseudouridine synthase, RluA family [Fibrella aestuarina BUZ 2]
Length = 343
Score = 167 bits (423), Expect = 7e-39, Method: Compositional matrix adjust.
Identities = 105/266 (39%), Positives = 152/266 (57%), Gaps = 36/266 (13%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
VD LR+D ++ S++ +R ++Q++I +G + +NG+ +K S+ VK GD++ +S
Sbjct: 23 VDPGQTMLRIDRFLDSKLANATRTKLQAAIDAGGIQVNGKP-TKASYKVKPGDLI--VLS 79
Query: 124 ELQPLRAEA---EDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC-SLP 179
P R +DIPLDIVYED+ +LVVNKPA MVVHPA GN GTLVN +++H +LP
Sbjct: 80 LPHPPRETTVIPQDIPLDIVYEDNELLVVNKPAGMVVHPAHGNWDGTLVNALVYHMQNLP 139
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
T N E RPG+VHR+DK TSGL+V+AK E++ +HL+
Sbjct: 140 T--GRNGEG----------------------RPGLVHRIDKDTSGLMVIAKTEYAMSHLA 175
Query: 240 EQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRY 299
QF H+IER Y++L G P + G I I R +R M K + + + Y
Sbjct: 176 RQFFDHSIERTYVALVWGQPDPADGTITGYIGRSAADRKVMTIYDDETK---GKWSVTHY 232
Query: 300 KVIEILAGGGSALVEWRLETGRTHQV 325
+ +E L +LV+ LETGRTHQ+
Sbjct: 233 RTLEPL--NFVSLVQCNLETGRTHQI 256
>gi|423332645|ref|ZP_17310427.1| pseudouridylate synthase [Lactobacillus reuteri ATCC 53608]
gi|337727763|emb|CCC02849.1| pseudouridylate synthase [Lactobacillus reuteri ATCC 53608]
Length = 303
Score = 167 bits (423), Expect = 7e-39, Method: Compositional matrix adjust.
Identities = 103/267 (38%), Positives = 147/267 (55%), Gaps = 35/267 (13%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
+LE T+D++ R+D + D SR+++Q I G V +NG+ V K + + GD +
Sbjct: 4 ELELTIDSEMVG-RIDKQLGHHFDQFSRSQIQHWIEDGHVLVNGKQV-KPKYKLLVGDHI 61
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
E Q + E+IPLDIVYED++V+VVNKP MVVHPAPG+ TLVN +L+H L
Sbjct: 62 QIIPEEPQKIDLTPENIPLDIVYEDEDVIVVNKPQGMVVHPAPGHPDHTLVNALLYHSPL 121
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
S+I+G RPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 122 ------------------------STING-EFRPGIVHRIDKDTSGLLMVAKNDMAHRSL 156
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
+ Q K T +R Y++L GV + G I+ P+ R +R + A + RHA +
Sbjct: 157 TAQLKAKTNKREYVALVHGVIKEDKGTIDAPLGRSLKDRKKQAVV------VDGRHAVTH 210
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQV 325
+ V+E LV +LETGRTHQ+
Sbjct: 211 FNVLERFK--NYTLVACQLETGRTHQI 235
>gi|342732560|ref|YP_004771399.1| pseudouridine synthase [Candidatus Arthromitus sp. SFB-mouse-Japan]
gi|384455955|ref|YP_005668550.1| ribosomal large subunit pseudouridine synthase D [Candidatus
Arthromitus sp. SFB-mouse-Yit]
gi|417960702|ref|ZP_12603244.1| pseudouridine synthase, RluA family [Candidatus Arthromitus sp.
SFB-2]
gi|417969080|ref|ZP_12610042.1| pseudouridine synthase, RluA family [Candidatus Arthromitus sp.
SFB-co]
gi|418016034|ref|ZP_12655599.1| ribosomal large subunit pseudouridine synthase D [Candidatus
Arthromitus sp. SFB-mouse-NYU]
gi|418372816|ref|ZP_12964908.1| pseudouridine synthase, RluA family [Candidatus Arthromitus sp.
SFB-mouse-SU]
gi|342330015|dbj|BAK56657.1| pseudouridine synthase [Candidatus Arthromitus sp. SFB-mouse-Japan]
gi|345506369|gb|EGX28663.1| ribosomal large subunit pseudouridine synthase D [Candidatus
Arthromitus sp. SFB-mouse-NYU]
gi|346984298|dbj|BAK79974.1| ribosomal large subunit pseudouridine synthase D [Candidatus
Arthromitus sp. SFB-mouse-Yit]
gi|380335277|gb|EIA25510.1| pseudouridine synthase, RluA family [Candidatus Arthromitus sp.
SFB-2]
gi|380338449|gb|EIA27336.1| pseudouridine synthase, RluA family [Candidatus Arthromitus sp.
SFB-co]
gi|380342485|gb|EIA30930.1| pseudouridine synthase, RluA family [Candidatus Arthromitus sp.
SFB-mouse-SU]
Length = 301
Score = 167 bits (423), Expect = 7e-39, Method: Compositional matrix adjust.
Identities = 100/255 (39%), Positives = 149/255 (58%), Gaps = 34/255 (13%)
Query: 72 RLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
R+D +I + + +R+ +Q I + +N +V+ K + VK GD+V+ +++ L
Sbjct: 15 RIDKFILDYLGESYTRSFIQRLISDEKILVNKKVI-KSGYKVKIGDVVSILDFDIKRLDI 73
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
A+DI LDIVYED +V++VNK M+VHPA TLVN ++++C
Sbjct: 74 LAQDIFLDIVYEDSDVIIVNKEQGMIVHPAQNIYKDTLVNALMYYC-------------- 119
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
+D+S SI+G RPGI+HR+DK TSGLLVVAK++ SH LSEQFK+H+I R
Sbjct: 120 --KDLS-------SINGVE-RPGIIHRIDKDTSGLLVVAKNDLSHKFLSEQFKIHSIRRE 169
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y++L GV +S G I+ I R+P NRI+MA + + + A + YKV+
Sbjct: 170 YVALVHGVIKKSEGLIKTNIGRNPQNRIKMAVVQ------KGKEAITEYKVLR--RYRRC 221
Query: 311 ALVEWRLETGRTHQV 325
LV+ +L TGRTHQ+
Sbjct: 222 TLVKCKLHTGRTHQI 236
>gi|338739820|ref|YP_004676782.1| ribosomal large subunit pseudouridine synthase D [Hyphomicrobium
sp. MC1]
gi|337760383|emb|CCB66214.1| ribosomal large subunit pseudouridine synthase D (Pseudouridylate
synthase) (Uracil hydrolyase) [Hyphomicrobium sp. MC1]
Length = 361
Score = 167 bits (423), Expect = 7e-39, Method: Compositional matrix adjust.
Identities = 102/262 (38%), Positives = 149/262 (56%), Gaps = 36/262 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D W++++I+GISRARVQ+ IR G VS G + ++ VK G +I + +
Sbjct: 35 RVDRWLATKIEGISRARVQALIRDGHVSA-GDTIRELRTPVKPGLTYTVSIPPAEDSGVK 93
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E+I L +VYEDDNV+V++KPA +VVHP+ G+ GTLVN ++ HC
Sbjct: 94 GEEIALHVVYEDDNVIVIDKPAGLVVHPSAGHDAGTLVNALIAHCG-------------- 139
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLH----TI 247
+ S I G RPGIVHRLDK TSGLLVVAK + +H L+EQFK H +
Sbjct: 140 --------DSLSGIGGVK-RPGIVHRLDKDTSGLLVVAKSDAAHQGLAEQFKSHGRDGRL 190
Query: 248 ERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAG 307
R Y++ G + +G I+ ++R NR+++A G + R A + Y+V+++ G
Sbjct: 191 HRSYLAFVWGRLPKPAGSIDARLARSRTNRLKIAVTRGE----EGREAKTHYEVLDVFPG 246
Query: 308 ----GGSALVEWRLETGRTHQV 325
G +L+ LETGRTHQ+
Sbjct: 247 ETPSGDISLLRLVLETGRTHQI 268
>gi|295687954|ref|YP_003591647.1| pseudouridine synthase [Caulobacter segnis ATCC 21756]
gi|295429857|gb|ADG09029.1| pseudouridine synthase, RluA family [Caulobacter segnis ATCC 21756]
Length = 340
Score = 167 bits (423), Expect = 7e-39, Method: Compositional matrix adjust.
Identities = 106/275 (38%), Positives = 140/275 (50%), Gaps = 32/275 (11%)
Query: 54 NYAGVQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVK 113
+ AG L + + RLD ++ +SRAR+Q+ I G +S GQ V+ S K
Sbjct: 19 DEAGEALTAVLPAELAGQRLDKALAPLFPDLSRARLQALIAEGRLSAEGQPVTDASRKAK 78
Query: 114 GGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGIL 173
G V + P E E IPL ++YED +++VV+KPA M HPAPG+ TGTLVN +L
Sbjct: 79 AGTYV-LLVPPPIPADPEPEAIPLTVLYEDAHLIVVDKPAGMAAHPAPGSLTGTLVNALL 137
Query: 174 HHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEH 233
HHC S S G RPGIVHRLDK TSG++V AK +
Sbjct: 138 HHCG-----------------------DSLSGVGGVARPGIVHRLDKDTSGVMVAAKSDA 174
Query: 234 SHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQAR 293
+H LS F H I+R+YI+LT G PS +G I + R P +R +MA + R
Sbjct: 175 AHKGLSALFATHDIDRLYIALTRGAPSPPAGTITTQLGRSPGDRKKMAVL-----RSGGR 229
Query: 294 HAASRYKVIEILAGGGSAL---VEWRLETGRTHQV 325
A + Y+V L V RLETGRTHQ+
Sbjct: 230 EAVTHYRVEAAFGPQEKPLAARVACRLETGRTHQI 264
>gi|339490789|ref|YP_004705294.1| pseudouridine synthase [Leuconostoc sp. C2]
gi|338852461|gb|AEJ30671.1| pseudouridine synthase [Leuconostoc sp. C2]
Length = 308
Score = 167 bits (423), Expect = 7e-39, Method: Compositional matrix adjust.
Identities = 105/262 (40%), Positives = 148/262 (56%), Gaps = 36/262 (13%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
V T+ G R+DA ++ SR + +++G + +N V + S+ V GD ++
Sbjct: 9 VTTQVG--RIDAILAKEDLQYSRTTLAEWLQNGHILVNNNKVKR-SYKVSVGDTISIFPP 65
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
E+ AEDIPLDIVYED+++LVVNKP MVVHPA G+++GTLVN +LHH L
Sbjct: 66 EVASTEIIAEDIPLDIVYEDNDILVVNKPQGMVVHPAAGHSSGTLVNALLHHAPL----- 120
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
S+I+G + RPGIVHR+D+ TSGLL+VAK++ +H LS Q K
Sbjct: 121 -------------------STING-TFRPGIVHRIDRDTSGLLMVAKNDVAHKALSAQLK 160
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
H +R+Y +L G S+ SG I PI R P +R R A G R A + ++V+
Sbjct: 161 AHKNDRIYYALVRGEFSEDSGTINAPIGRHPVDRKRQAVQVG------GREAITHFEVVH 214
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
G L++ RLETGRTHQ+
Sbjct: 215 RYV--GFTLLKVRLETGRTHQI 234
>gi|309805623|ref|ZP_07699665.1| pseudouridine synthase, RluA family [Lactobacillus iners LactinV
09V1-c]
gi|308165061|gb|EFO67302.1| pseudouridine synthase, RluA family [Lactobacillus iners LactinV
09V1-c]
Length = 311
Score = 167 bits (422), Expect = 8e-39, Method: Compositional matrix adjust.
Identities = 99/262 (37%), Positives = 148/262 (56%), Gaps = 33/262 (12%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
V ++ +RLD +I++ I ISR RVQ I+ L++ NG + +K+S+ V D +N I
Sbjct: 11 VKSEESGVRLDKYIATHISTISRTRVQELIKQKLITTNG-LQTKLSYKVNTNDKINIEIP 69
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
QPL + E++ LDI+YEDD+V+VVNKP MVVHP+ G+ TLVNG+++H
Sbjct: 70 SPQPLSLDPENLNLDIIYEDDDVIVVNKPQGMVVHPSAGHPDHTLVNGLIYHT------- 122
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
+ + ++I +RPGIVHR+DK TSGLL++AK+ + L +Q
Sbjct: 123 ---KNLAKCDEI--------------LRPGIVHRIDKDTSGLLMIAKNATARISLEKQLA 165
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
+R YI++ SSG I+ PI R+P R +MA + K A + + V+E
Sbjct: 166 NKINKREYIAIVHANFKHSSGVIDAPIGRNPYQRQQMAVVASGKK------AITHFTVLE 219
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
G +LV+ LETGRTHQ+
Sbjct: 220 QFP--GYSLVKCVLETGRTHQI 239
>gi|418275350|ref|ZP_12890673.1| RNA pseudouridylate synthase [Lactobacillus plantarum subsp.
plantarum NC8]
gi|376008901|gb|EHS82230.1| RNA pseudouridylate synthase [Lactobacillus plantarum subsp.
plantarum NC8]
Length = 307
Score = 167 bits (422), Expect = 8e-39, Method: Compositional matrix adjust.
Identities = 104/270 (38%), Positives = 146/270 (54%), Gaps = 34/270 (12%)
Query: 56 AGVQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGG 115
AG E+ RLD +++ +R++V I++ V++NGQ+ + H VK G
Sbjct: 2 AGATTEQQFTITDQTGRLDKVLAALQSVWTRSQVDKLIKTDQVTVNGQLEASKYH-VKPG 60
Query: 116 DMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHH 175
D + +Q E E+IPLDIVYEDD+VLVVNKP MVVHPAPG+ TLVN +L+H
Sbjct: 61 DEIVVDAQTVQQTTIEPENIPLDIVYEDDDVLVVNKPQGMVVHPAPGHPNHTLVNALLYH 120
Query: 176 CSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSH 235
L S+I+G RPGIVHR+DK TSGLL+VAK++ +H
Sbjct: 121 SPL------------------------STING-EFRPGIVHRIDKDTSGLLMVAKNDRAH 155
Query: 236 AHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHA 295
L+ Q K T R Y++L GV + +G I P+ R P +R + A + R A
Sbjct: 156 QSLAAQLKAKTNLREYVALVHGVIKEDTGTINAPLGRSPKDRKKQAIV------KTGRPA 209
Query: 296 ASRYKVIEILAGGGSALVEWRLETGRTHQV 325
+ +KV++ L+ RLETGRTHQ+
Sbjct: 210 VTHFKVLKRYQ--HYTLISCRLETGRTHQI 237
>gi|119357434|ref|YP_912078.1| ribosomal large subunit pseudouridine synthase D [Chlorobium
phaeobacteroides DSM 266]
gi|119354783|gb|ABL65654.1| ribosomal large subunit pseudouridine synthase D [Chlorobium
phaeobacteroides DSM 266]
Length = 350
Score = 167 bits (422), Expect = 8e-39, Method: Compositional matrix adjust.
Identities = 102/257 (39%), Positives = 146/257 (56%), Gaps = 31/257 (12%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
+R+D +++ +++ +R +VQ +I G V +NG+ V K ++ +K D++ T L+P
Sbjct: 34 MRIDKYLTQQVENATRNKVQEAITEGRVLVNGKPV-KSNYKIKSCDLIQITF--LRPPAP 90
Query: 131 E--AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEA 188
E E+IP+DI+YED +++VVNK A MVVHPA GN TGTL N ILHH
Sbjct: 91 EMAPENIPIDIIYEDADLMVVNKEAGMVVHPAFGNWTGTLANAILHHIG----------- 139
Query: 189 FSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIE 248
+D E S+ RPGIVHRLDK TSGL+++AK+ + L+ QF +E
Sbjct: 140 -------NDTGELDCSLQ----RPGIVHRLDKDTSGLIIIAKNPLALQRLARQFAQRQVE 188
Query: 249 RVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGG 308
++Y +L GVP +SG I+ I R NR M P G +HA + Y VIE L
Sbjct: 189 KIYHALVWGVPEPASGTIKTNIGRSKKNRKVMTTYPFEGIDG--KHAITDYAVIEDLR-- 244
Query: 309 GSALVEWRLETGRTHQV 325
+LV +L TGRTHQ+
Sbjct: 245 YFSLVSIKLHTGRTHQI 261
>gi|262340910|ref|YP_003283765.1| pseudouridylate synthase (ribosomal large subunit pseudouridine
synthase D) [Blattabacterium sp. (Blattella germanica)
str. Bge]
gi|262272247|gb|ACY40155.1| pseudouridylate synthase (ribosomal large subunit pseudouridine
synthase D) [Blattabacterium sp. (Blattella germanica)
str. Bge]
Length = 342
Score = 167 bits (422), Expect = 8e-39, Method: Compositional matrix adjust.
Identities = 104/279 (37%), Positives = 150/279 (53%), Gaps = 33/279 (11%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q++ + ++R+D ++ + I ISR ++Q SG + +N +V K ++ +K D V
Sbjct: 9 QIKIITNKNQKEIRIDKFLKNYIQNISRNQIQKWTTSGKILVNKNIVKK-NYKIKPLDFV 67
Query: 119 NCTIS------ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGI 172
IS L+ AE I LDI+YED++VLVVNKPA MVVHP GN TGTL++GI
Sbjct: 68 EIEISIPSVLDHLEYKNITAEKINLDILYEDEDVLVVNKPAGMVVHPGFGNETGTLIHGI 127
Query: 173 LHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDE 232
+H L +SN F+ R G+VHRLDK TSGLLV AK+E
Sbjct: 128 KYH-----LTNSNLNNFN------------------LYRCGLVHRLDKDTSGLLVFAKNE 164
Query: 233 HSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKH-GQ 291
+S HL +QF TI+R YI+L G + G I I RDP NR +M + N+ +
Sbjct: 165 YSQKHLFQQFYSRTIQRKYIALIWGNLIEEKGTITGFIGRDPKNRKKMTILKQENQEFNK 224
Query: 292 ARHAASRYKVIEILAGGGSALVEWRLETGRTHQVLMLYK 330
+ + + YKV+E V ++TG+THQ+ +K
Sbjct: 225 GKFSVTHYKVLERFK--YLTYVSCNIKTGKTHQIRAHFK 261
>gi|126738738|ref|ZP_01754434.1| ribosomal large subunit pseudouridine synthase D [Roseobacter sp.
SK209-2-6]
gi|126719919|gb|EBA16626.1| ribosomal large subunit pseudouridine synthase D [Roseobacter sp.
SK209-2-6]
Length = 344
Score = 167 bits (422), Expect = 8e-39, Method: Compositional matrix adjust.
Identities = 104/279 (37%), Positives = 151/279 (54%), Gaps = 38/279 (13%)
Query: 62 ETVDTKAGKLRLDAWISSRID---GISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
E V T+ RLD +S + +SR R+ I +G + ++G VV + G +
Sbjct: 7 EFVITENPPKRLDKAVSRDVPEEAALSRTRLARLIEAGSLLVDGVVVLDPKARIAEGAQI 66
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
+ T+ E + EDIPL+++YEDD+++V+NKPA MVVHPAPG +GTLVN +LHHC
Sbjct: 67 SITVEEAEDSHIGPEDIPLEVIYEDDDLIVINKPAGMVVHPAPGTPSGTLVNALLHHCG- 125
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
E S + G RPGIVHR+DK TSGLLVVAK + +H L
Sbjct: 126 ---------------------EKLSGVGGVK-RPGIVHRIDKETSGLLVVAKTDAAHQGL 163
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIE--VPISRDPNNRIRMAAIPGSNKHGQ----- 291
+ QF+ HT+ER Y ++ GVP + R+ S + N +++ +KH +
Sbjct: 164 AAQFEKHTVERYYRAVCYGVPDGNDPRLRGVKGASFESGNILKLTTQLARHKHDRQRQAV 223
Query: 292 ----ARHAASRYKVIEILAG-GGSALVEWRLETGRTHQV 325
RHA +R +++E G +AL+E LETGRTHQ+
Sbjct: 224 LFQGGRHAVTRARIVEPFGNPGTAALIECWLETGRTHQI 262
>gi|429740804|ref|ZP_19274479.1| pseudouridine synthase, RluA family [Porphyromonas catoniae F0037]
gi|429160148|gb|EKY02625.1| pseudouridine synthase, RluA family [Porphyromonas catoniae F0037]
Length = 385
Score = 167 bits (422), Expect = 8e-39, Method: Compositional matrix adjust.
Identities = 105/262 (40%), Positives = 148/262 (56%), Gaps = 29/262 (11%)
Query: 65 DTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISE 124
D LR+D +++SR+ G SR+R+Q ++ G V +NG V K ++ +K D+V +
Sbjct: 62 DKGQALLRVDKFLASRMTGSSRSRIQQALDGGYVFVNG-VAVKANYRIKPQDVVTLQLRR 120
Query: 125 LQ-PLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
+ L EDIPL+IVYED +LVVNKPA +VVHP GN +GTLVN + ++
Sbjct: 121 PKHTLEIVPEDIPLEIVYEDPYLLVVNKPAGLVVHPGHGNYSGTLVNALAYY-------- 172
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
+ DD + A R G+VHR+DK TSGLLVVAK + HL+ QF
Sbjct: 173 -----------LKDDPHYDP----ADPRVGLVHRIDKDTSGLLVVAKRPETKTHLARQFF 217
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
T R Y +L G ++ G I I RD +R++MA P ++ G +HA + Y+V+E
Sbjct: 218 EKTTHRSYRALVWGRFTEPQGTIIGNIGRDERDRLQMAVYPEGSERG--KHAVTHYEVLE 275
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
LA + VE RLETGRTHQ+
Sbjct: 276 ELA--YVSWVECRLETGRTHQI 295
>gi|420144301|ref|ZP_14651789.1| Pseudouridine synthase [Lactococcus garvieae IPLA 31405]
gi|391855753|gb|EIT66302.1| Pseudouridine synthase [Lactococcus garvieae IPLA 31405]
Length = 301
Score = 167 bits (422), Expect = 8e-39, Method: Compositional matrix adjust.
Identities = 106/262 (40%), Positives = 147/262 (56%), Gaps = 34/262 (12%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
+D LRLD +++ D SR+ + IR G V+++GQV G + + +
Sbjct: 6 IDEPNAGLRLDKALANLSDA-SRSVLTELIREGKVTVDGQVKKAKYKVKVG-EAIAYELP 63
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
E++ L +AEDIPLDIVYED +V V+NKP MVVHP+ G+A+GTLVN I++H
Sbjct: 64 EVEVLDIQAEDIPLDIVYEDSDVAVINKPQGMVVHPSAGHASGTLVNAIMYHI------- 116
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
+D+ SSI+G IRPGIVHR+DK TSGLL++AK++ +H L+ Q K
Sbjct: 117 ---------KDL-------SSINGV-IRPGIVHRIDKDTSGLLMIAKNDAAHESLAAQLK 159
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
T +R YI+L G G IE PI R+P R + A I G + A + + V+E
Sbjct: 160 AKTNKRRYIALVHGELPNEKGTIEAPIGRNPKERKKQAVISG------GKPAKTHFTVME 213
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
G LV LETGRTHQ+
Sbjct: 214 RFP--GYTLVALELETGRTHQI 233
>gi|103487227|ref|YP_616788.1| pseudouridine synthase RluD [Sphingopyxis alaskensis RB2256]
gi|98977304|gb|ABF53455.1| ribosomal large subunit pseudouridine synthase D [Sphingopyxis
alaskensis RB2256]
Length = 376
Score = 167 bits (422), Expect = 8e-39, Method: Compositional matrix adjust.
Identities = 98/262 (37%), Positives = 149/262 (56%), Gaps = 31/262 (11%)
Query: 65 DTKAGKLRLDAWISSRIDGISRARVQSSIRSG-LVSINGQVVSKVSHNVKGGDMVNCTIS 123
DT AG LRLD ++ + +SR R++S I+ G +V +G ++ + + +
Sbjct: 72 DTAAG-LRLDRALAEALPNLSRERLKSLIKGGRVVDAHGAILWDPAAKAAPPATIEIRVP 130
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
P A+D+ L I YED +++V++KPA MVVHPA GN GT+VN +LHHC+
Sbjct: 131 AALPAHNAAQDLDLVIAYEDAHLIVIDKPAGMVVHPAAGNLDGTMVNALLHHCA------ 184
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
S I G + RPGIVHR+DK TSGL+V AK + +H L++QF
Sbjct: 185 ----------------GQLSGIGGVA-RPGIVHRIDKDTSGLIVAAKHDKAHEGLAKQFA 227
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
H+I+R Y+++ +G P ++G ++ + R NR +MA + G+ +HA + Y+ +E
Sbjct: 228 AHSIDRRYLAIATGRPMPANGTVDAALGRSATNRKKMAVVAA----GRGKHALTHYRTVE 283
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
L G+ L+E RLETGRTHQV
Sbjct: 284 PLQ--GATLIECRLETGRTHQV 303
>gi|365882282|ref|ZP_09421535.1| pseudouridine synthase (pseudouridines 1911, 1915, 1917 in 23S RNA)
[Bradyrhizobium sp. ORS 375]
gi|365289416|emb|CCD94066.1| pseudouridine synthase (pseudouridines 1911, 1915, 1917 in 23S RNA)
[Bradyrhizobium sp. ORS 375]
Length = 326
Score = 167 bits (422), Expect = 8e-39, Method: Compositional matrix adjust.
Identities = 104/265 (39%), Positives = 150/265 (56%), Gaps = 37/265 (13%)
Query: 69 GKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPL 128
G RLD ++S++ +SR+R+++ I +G VS+ + V +++V GD + + E P
Sbjct: 10 GSPRLDRVLASKLPELSRSRLKALILAGQVSLRAEAVRDPAYHVAAGDTITIDVPEAVPA 69
Query: 129 RAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEA 188
AE IPL IVYEDD+++V++KPA +VVHPA G+ +GTLVN ++ HC
Sbjct: 70 EPAAEAIPLTIVYEDDDIIVIDKPAGLVVHPAAGHESGTLVNALIAHCG----------- 118
Query: 189 FSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLH--- 245
S S G RPGIVHRLDK T+GL+VVAK++H+HA LS QF H
Sbjct: 119 ------------ASLSGIGGVKRPGIVHRLDKDTTGLMVVAKNDHAHASLSAQFADHGRT 166
Query: 246 -TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEI 304
+ER Y++ G+P + G I PI R P+ R +MA P + R A + Y+V E
Sbjct: 167 GAMERGYLAFAWGLPHRPHGTINAPIDRHPHARDKMAVRP------RGREAITHYEVQES 220
Query: 305 LAGGG----SALVEWRLETGRTHQV 325
G ++L+ LETGRTHQ+
Sbjct: 221 FVGRDGKPVASLIACHLETGRTHQI 245
>gi|294617890|ref|ZP_06697499.1| ribosomal large subunit pseudouridine synthase D [Enterococcus
faecium E1679]
gi|291595835|gb|EFF27119.1| ribosomal large subunit pseudouridine synthase D [Enterococcus
faecium E1679]
Length = 303
Score = 167 bits (422), Expect = 8e-39, Method: Compositional matrix adjust.
Identities = 106/277 (38%), Positives = 157/277 (56%), Gaps = 35/277 (12%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
+L+ T+ ++G R+D +++ SR+++Q +++G VS+NGQ V K ++ VK GD +
Sbjct: 3 ELKTTIHHESG--RIDKVLTNLFTDYSRSQIQLWLKNGAVSVNGQPV-KANYKVKQGDEI 59
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
I E + L E+IPL IVYED++V V+NKP MVVHP+ G+ GT+VN +++H
Sbjct: 60 TVLIPEPETLDVVPENIPLTIVYEDEDVAVINKPQGMVVHPSAGHTHGTMVNALIYHI-- 117
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+D+ S+I+G IRPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 118 --------------KDL-------STINGV-IRPGIVHRIDKDTSGLLMVAKNDQAHESL 155
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
++Q K T R Y++L G G I PI R NR +M AI + A +
Sbjct: 156 AQQLKDKTSLRKYVALVHGEIPHEKGTINAPIGRSKENR-KMQAI-----REDGKPAVTH 209
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ V+E G LVE +LETGRTHQ+ + K P
Sbjct: 210 FTVLERFE--GFTLVELKLETGRTHQIRVHMKYIGYP 244
>gi|336395530|ref|ZP_08576929.1| pseudouridine synthase [Lactobacillus farciminis KCTC 3681]
Length = 304
Score = 167 bits (422), Expect = 9e-39, Method: Compositional matrix adjust.
Identities = 99/264 (37%), Positives = 151/264 (57%), Gaps = 36/264 (13%)
Query: 62 ETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCT 121
E +TK G RLDA+I+ I ++R+++Q I+ +++NGQ V+K + GD +
Sbjct: 12 EYNETKKG--RLDAFINDEISELTRSQIQKFIKDQYITVNGQPVAKSGFKLTNGDKILVN 69
Query: 122 ISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTL 181
+ E +P+ A E+IP+D+VYEDD+VLVVNKP MVVHPA G+ TLVN IL+HC
Sbjct: 70 VPEEEPIEAIPENIPIDVVYEDDDVLVVNKPQGMVVHPAAGHPDKTLVNAILYHCQ---- 125
Query: 182 ASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQ 241
I+DD+ IRPGIVHR+DK TSGLL++AK+ + L +Q
Sbjct: 126 -------------INDDD---------MIRPGIVHRIDKDTSGLLMIAKNNLAKQSLMKQ 163
Query: 242 FKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKV 301
K + R Y+++ G + +G+I P+ R +R + A + R+A + + V
Sbjct: 164 LKEKSNLREYVAIVHGNFKEKTGKINAPLGRSKTDRKKQAVVEN------GRNAVTHFTV 217
Query: 302 IEILAGGGSALVEWRLETGRTHQV 325
+E +L++ +LETGRTHQ+
Sbjct: 218 LEQFE--NYSLLKLKLETGRTHQI 239
>gi|338730392|ref|YP_004659784.1| ribosomal large subunit pseudouridine synthase D [Thermotoga
thermarum DSM 5069]
gi|335364743|gb|AEH50688.1| ribosomal large subunit pseudouridine synthase D [Thermotoga
thermarum DSM 5069]
Length = 306
Score = 167 bits (422), Expect = 9e-39, Method: Compositional matrix adjust.
Identities = 101/269 (37%), Positives = 149/269 (55%), Gaps = 35/269 (13%)
Query: 60 LEETVDTKAGKLRLDAWISSRID-GISRARVQSSIRSGLVSINGQVVSKVSHNVKGGD-- 116
+E V RLD ++ +++ SR+ +Q +I+ G V +N Q V K S+ VK GD
Sbjct: 1 MEFKVGKSEANQRLDLFLLAKLPVKFSRSYIQKAIKEGKVKVN-QKVQKPSYKVKPGDVI 59
Query: 117 MVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC 176
V EL+P+ E E I LDI+YED +++VVNKPA MVVHP P + TGTLVN +L+HC
Sbjct: 60 FVEEPAVELKPIAVEPEPIHLDILYEDHDIIVVNKPAGMVVHPIPAHMTGTLVNALLYHC 119
Query: 177 SLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHA 236
D + I G +RPGIVHRLDK TSG++VVAK++ +H
Sbjct: 120 K-------------DLQGI-----------GGELRPGIVHRLDKDTSGVIVVAKNDLAHQ 155
Query: 237 HLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAA 296
LS+QFK + ++Y +L G G I++ ++R P +RI+M R +
Sbjct: 156 SLSKQFKDRKVFKMYFALVQGCVKNDEGEIQLSLARHPVHRIKMTV------SETGRKSI 209
Query: 297 SRYKVIEILAGGGSALVEWRLETGRTHQV 325
+ YKV++ + +V + +TGRTHQ+
Sbjct: 210 TLYKVLKRFKDLATLVVAYP-KTGRTHQI 237
>gi|163794483|ref|ZP_02188454.1| Pseudouridylate synthase, 23S RNA-specific [alpha proteobacterium
BAL199]
gi|159180207|gb|EDP64730.1| Pseudouridylate synthase, 23S RNA-specific [alpha proteobacterium
BAL199]
Length = 349
Score = 167 bits (422), Expect = 9e-39, Method: Compositional matrix adjust.
Identities = 99/260 (38%), Positives = 141/260 (54%), Gaps = 34/260 (13%)
Query: 72 RLDAWISSRIDG------ISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISEL 125
R+D W++ ++ +SR R+++ I G + +NG ++ S VK G + E
Sbjct: 37 RIDRWLARCLEDRETDPPLSRNRLKTLILDGRLFVNGATITDPSSPVKPGATYRIDVPEA 96
Query: 126 QPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSN 185
P EA+D+PL +VYED ++V++KPA M VHPAPG TLVN ++ HC
Sbjct: 97 TPAIPEAQDLPLTVVYEDAALIVIDKPAGMTVHPAPGAPKDTLVNALIAHCG-------- 148
Query: 186 QEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLH 245
+ S I G RPGIVHR+DK TSGLLVVAK + +H L+ +F H
Sbjct: 149 --------------DSLSGIGGVK-RPGIVHRIDKDTSGLLVVAKTDAAHHALAARFADH 193
Query: 246 TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEIL 305
+I+R Y +L G P +GRIE I R P +RIRMA P G + A + ++ +
Sbjct: 194 SIDRAYRALCWGRPIPPAGRIEGAIGRHPRDRIRMAVRP----EGSGKAAVTHFRTVRAF 249
Query: 306 AGGGSALVEWRLETGRTHQV 325
+ L+E RLETGRTHQ+
Sbjct: 250 -NEAATLLECRLETGRTHQI 268
>gi|291459221|ref|ZP_06598611.1| ribosomal large subunit pseudouridine synthase D [Oribacterium sp.
oral taxon 078 str. F0262]
gi|291418475|gb|EFE92194.1| ribosomal large subunit pseudouridine synthase D [Oribacterium sp.
oral taxon 078 str. F0262]
Length = 308
Score = 167 bits (422), Expect = 9e-39, Method: Compositional matrix adjust.
Identities = 103/263 (39%), Positives = 148/263 (56%), Gaps = 32/263 (12%)
Query: 64 VDTKAGKLRLDAWISSRID-GISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
V+ + RLD ++S R + +SR+ + I G V ++GQ K S ++GG+ ++
Sbjct: 9 VEAECAGERLDRYLSKRPELSLSRSYAERLIGEGRVLLDGQA-EKPSKRLRGGEQISICF 67
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E +P AE+IPLDIVYED +L+VNKP MVVHPAPG++ GTLVN +L P L
Sbjct: 68 PEEKPTEIRAEEIPLDIVYEDSELLLVNKPKGMVVHPAPGHSGGTLVNALLGRPG-PEL- 125
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
SSI+G +RPGIVHR+D+ T+GLL+V K + +H L+EQ
Sbjct: 126 --------------------SSINGV-LRPGIVHRIDRDTTGLLLVCKKDRAHRALAEQL 164
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
K HTI R Y ++ G + G+++ PI R +R + A + R A + Y+V+
Sbjct: 165 KEHTITRRYHAILCGRMREDEGKVDAPIGRSRRDRKKQAI-----DWERGREAVTHYRVL 219
Query: 303 EILAGGGSALVEWRLETGRTHQV 325
E + LVE RLETGRTHQ+
Sbjct: 220 ERFS--EYTLVECRLETGRTHQI 240
>gi|163846479|ref|YP_001634523.1| RluA family pseudouridine synthase [Chloroflexus aurantiacus
J-10-fl]
gi|222524258|ref|YP_002568729.1| RluA family pseudouridine synthase [Chloroflexus sp. Y-400-fl]
gi|172045876|sp|Q45826.2|Y901_CHLAA RecName: Full=Uncharacterized RNA pseudouridine synthase Caur_0901;
AltName: Full=RNA pseudouridylate synthase; AltName:
Full=RNA-uridine isomerase
gi|163667768|gb|ABY34134.1| pseudouridine synthase, RluA family [Chloroflexus aurantiacus
J-10-fl]
gi|222448137|gb|ACM52403.1| pseudouridine synthase, RluA family [Chloroflexus sp. Y-400-fl]
Length = 316
Score = 167 bits (422), Expect = 9e-39, Method: Compositional matrix adjust.
Identities = 98/254 (38%), Positives = 144/254 (56%), Gaps = 35/254 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D +++ + +SRA+VQ I G V +G+ + S V+ G ++ TI P
Sbjct: 27 RIDRFLAGAMPDLSRAQVQRLIEQGFVLYDGRS-PRASQPVRPGAVIQLTIPPPIPTELV 85
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AE IPLD+VYED ++ V+NKPA MVVHPAPG+ GTLVN +L P LA
Sbjct: 86 AEPIPLDVVYEDADIAVINKPAGMVVHPAPGHPRGTLVNALL--ARYPDLA--------- 134
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
G +RPGIVHRLD+ TSGLLV+A+ + + L +Q + + ++Y
Sbjct: 135 --------------IGGELRPGIVHRLDRDTSGLLVIARHDQAMRSLVDQQQARRMRKIY 180
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+L G P + +G I+ PI RDP +R+RMA +P R A + Y++++ G +
Sbjct: 181 QALVIGRPPE-TGTIDAPIGRDPRDRLRMAVVP------DGRPARTHYRLLDTF--GDYS 231
Query: 312 LVEWRLETGRTHQV 325
L+E +LETGRTHQ+
Sbjct: 232 LLEVQLETGRTHQI 245
>gi|293553487|ref|ZP_06674115.1| ribosomal large subunit pseudouridine synthase D [Enterococcus
faecium E1039]
gi|430833308|ref|ZP_19451321.1| RluA family pseudouridine synthase [Enterococcus faecium E0679]
gi|291602364|gb|EFF32588.1| ribosomal large subunit pseudouridine synthase D [Enterococcus
faecium E1039]
gi|430486763|gb|ELA63599.1| RluA family pseudouridine synthase [Enterococcus faecium E0679]
Length = 303
Score = 167 bits (422), Expect = 9e-39, Method: Compositional matrix adjust.
Identities = 106/277 (38%), Positives = 157/277 (56%), Gaps = 35/277 (12%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
+L+ T+ ++G R+D +++ SR+++Q +++G VS+NGQ V K ++ VK GD +
Sbjct: 3 ELKTTIHHESG--RIDKVLTNLFTDYSRSQIQLWLKNGAVSVNGQPV-KANYKVKQGDDI 59
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
I E + L E+IPL IVYED++V V+NKP MVVHP+ G+ GT+VN +++H
Sbjct: 60 TVLIPEPETLDVVPENIPLTIVYEDEDVAVINKPQGMVVHPSAGHTHGTMVNALMYHI-- 117
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+D+ S+I+G IRPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 118 --------------KDL-------STINGV-IRPGIVHRIDKDTSGLLMVAKNDQAHESL 155
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
++Q K T R Y++L G G I PI R NR +M AI + A +
Sbjct: 156 AQQLKDKTSLRKYVALVHGEIPHEKGTINAPIGRSKENR-KMQAI-----REDGKPAVTH 209
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ V+E G LVE +LETGRTHQ+ + K P
Sbjct: 210 FTVLERFE--GFTLVELKLETGRTHQIRVHMKYIGYP 244
>gi|425058453|ref|ZP_18461834.1| pseudouridine synthase, RluA family [Enterococcus faecium 504]
gi|430836003|ref|ZP_19453988.1| RluA family pseudouridine synthase [Enterococcus faecium E0680]
gi|403038394|gb|EJY49610.1| pseudouridine synthase, RluA family [Enterococcus faecium 504]
gi|430488843|gb|ELA65491.1| RluA family pseudouridine synthase [Enterococcus faecium E0680]
Length = 303
Score = 167 bits (422), Expect = 9e-39, Method: Compositional matrix adjust.
Identities = 106/277 (38%), Positives = 157/277 (56%), Gaps = 35/277 (12%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
+L+ T+ ++G R+D +++ SR+++Q +++G VS+NGQ V K ++ VK GD +
Sbjct: 3 ELKTTIHHESG--RIDKVLTNLFTDYSRSQIQLWLKNGAVSVNGQPV-KANYKVKQGDDI 59
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
I E + L E+IPL IVYED++V V+NKP MVVHP+ G+ GT+VN +++H
Sbjct: 60 TVLIPEPETLDVVPENIPLTIVYEDEDVAVINKPQGMVVHPSAGHTHGTMVNALMYHI-- 117
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+D+ S+I+G IRPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 118 --------------KDL-------STINGV-IRPGIVHRIDKDTSGLLMVAKNDQAHESL 155
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
++Q K T R Y++L G G I PI R NR +M AI + A +
Sbjct: 156 AQQLKDKTSLRKYVALVHGEIPHEKGTINAPIGRSKENR-KMQAI-----REDGKPAVTH 209
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ V+E G LVE +LETGRTHQ+ + K P
Sbjct: 210 FTVLERFE--GFTLVELKLETGRTHQIRVHMKYIGYP 244
>gi|332668251|ref|YP_004451039.1| RluA family pseudouridine synthase [Haliscomenobacter hydrossis DSM
1100]
gi|332337065|gb|AEE54166.1| pseudouridine synthase, RluA family [Haliscomenobacter hydrossis
DSM 1100]
Length = 366
Score = 167 bits (422), Expect = 9e-39, Method: Compositional matrix adjust.
Identities = 101/264 (38%), Positives = 149/264 (56%), Gaps = 28/264 (10%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI- 122
VD LR+D ++ RI +SR RVQ++I++G V +N Q + K + +K G + +
Sbjct: 31 VDGNQSPLRIDKFLMDRIGEVSRNRVQNAIKTGSVLVNDQEI-KPNFKIKPGQKITLILP 89
Query: 123 -SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTL 181
S LR ++IPL++VYED+++LVVNKP +VVHP G+ GTLVN + +H L
Sbjct: 90 KSTTDKLRIVPQNIPLNVVYEDEDLLVVNKPPGLVVHPGVGHFKGTLVNALAYHLRL--- 146
Query: 182 ASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQ 241
NQ + + ++ R G+VHR+DK TSGLLVVAK+E + +HL++Q
Sbjct: 147 -DPNQISTGNFQE----------------RVGLVHRIDKNTSGLLVVAKNEFALSHLAKQ 189
Query: 242 FKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKV 301
F HTIER Y +L G P + G I + R P R P + Q + A + Y+V
Sbjct: 190 FFYHTIERTYNALVWGEPEEDRGTINAHVGRHPRFRKDFTVFPEGD---QGKWAVTHYQV 246
Query: 302 IEILAGGGSALVEWRLETGRTHQV 325
+E L +L++ LETGRTHQ+
Sbjct: 247 LERLY--YVSLIKCTLETGRTHQI 268
>gi|212639635|ref|YP_002316155.1| Pseudouridylate synthase, 23S RNA-specific [Anoxybacillus
flavithermus WK1]
gi|212561115|gb|ACJ34170.1| Pseudouridylate synthase, 23S RNA-specific [Anoxybacillus
flavithermus WK1]
Length = 303
Score = 167 bits (422), Expect = 9e-39, Method: Compositional matrix adjust.
Identities = 106/277 (38%), Positives = 151/277 (54%), Gaps = 33/277 (11%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
Q++ T++ + R+D I+ + SR++VQ ++ G V +NG+ V K ++ D V
Sbjct: 3 QIQLTIEEQHDGERIDKVIAELNEQWSRSQVQQWLKEGHVLVNGKAV-KPNYKCHVDDEV 61
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
+I +PL E IPLDI YED +VLVVNKP MVVHPAPG+ GTLVN +L HC
Sbjct: 62 VISIPSPEPLDVAPEPIPLDIYYEDADVLVVNKPRGMVVHPAPGHMHGTLVNALLAHC-- 119
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 120 --------------QDL-------SGINGV-LRPGIVHRIDKDTSGLLMVAKNDLAHESL 157
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
Q T+ R Y+++ GV G I+ PI RDP +R MA + + A +
Sbjct: 158 VNQLVNKTVTRKYVAIVHGVIPHDYGTIDAPIGRDPRDRQSMAVV------ENGKEAVTH 211
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
++V+E VE +LETGRTHQ+ + K P
Sbjct: 212 FRVLERFE--HYTFVECQLETGRTHQIRVHMKYIGYP 246
>gi|154249782|ref|YP_001410607.1| RluA family pseudouridine synthase [Fervidobacterium nodosum
Rt17-B1]
gi|154153718|gb|ABS60950.1| pseudouridine synthase, RluA family [Fervidobacterium nodosum
Rt17-B1]
Length = 314
Score = 167 bits (422), Expect = 9e-39, Method: Compositional matrix adjust.
Identities = 104/281 (37%), Positives = 159/281 (56%), Gaps = 42/281 (14%)
Query: 64 VDTKAGKLRLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCT- 121
V ++ RLD ++ + + ISR +Q +I++G V +NG K S+ VK GD++
Sbjct: 5 VTSRENGWRLDKFVMEKTPEWISRTFIQRAIKNGEVLVNG-TSKKPSYKVKSGDIITLNA 63
Query: 122 -----ISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC 176
I E+ P EDIPLDI+YED ++LV+NK ++ HP P + +GT+VNG+L+HC
Sbjct: 64 PEAPEIPEILP-----EDIPLDIIYEDRDILVINKQPGIITHPIPSHTSGTIVNGVLYHC 118
Query: 177 SLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHA 236
D + I G +RPGIVHRLDK TSG++V+AK++ +H
Sbjct: 119 K-------------DLQGI-----------GGVLRPGIVHRLDKDTSGVMVIAKNDLAHQ 154
Query: 237 HLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAA 296
L++QFK E++YI L GVP + G IE+ I+R+P R++M ++++G+ A
Sbjct: 155 SLTKQFKDRLTEKLYICLVKGVPKRKEGDIEINIARNPVLRVKMTVT--NSEYGKP--AL 210
Query: 297 SRYKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIPRM 337
+ YKV+ G +ALV +TGRTHQ+ + K P M
Sbjct: 211 THYKVVREF-GDIAALVFAYPKTGRTHQIRVHMKYIGHPLM 250
>gi|225567968|ref|ZP_03776993.1| hypothetical protein CLOHYLEM_04041 [Clostridium hylemonae DSM
15053]
gi|225163256|gb|EEG75875.1| hypothetical protein CLOHYLEM_04041 [Clostridium hylemonae DSM
15053]
Length = 304
Score = 166 bits (421), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 97/263 (36%), Positives = 146/263 (55%), Gaps = 32/263 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV+ + G+ R+D +++ + SR+ +Q I+ + +N + V K ++ + GDM+ TI
Sbjct: 6 TVENEEGE-RIDRYLAEMLSDRSRSYIQKLIKDSHILVNNKPV-KANYRLSCGDMLEVTI 63
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
+ EDIPL I+YED ++++VNKP MVVHPAPG+ +GTLVN ++ HC
Sbjct: 64 PSAKEPDILPEDIPLHILYEDADIIIVNKPKQMVVHPAPGHYSGTLVNALMFHCGREL-- 121
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
S I+G +RPGIVHR+D T+G L+V K++ +H LSEQ
Sbjct: 122 --------------------SGINGM-MRPGIVHRIDMDTTGSLIVCKNDMAHQALSEQL 160
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
K H+I R+Y ++ G + G + PI R P +R RM S AR A + YKV+
Sbjct: 161 KKHSIRRIYEAVVHGGFKEEEGTVSAPIGRHPTDRKRM-----STHAKNAREAVTHYKVL 215
Query: 303 EILAGGGSALVEWRLETGRTHQV 325
E G + ++ LETGRTHQ+
Sbjct: 216 ERF--GEYSYIQCELETGRTHQI 236
>gi|50365205|ref|YP_053630.1| 23S rRNA/tRNA pseudouridine synthase [Mesoplasma florum L1]
gi|50363761|gb|AAT75746.1| 23S rRNA/tRNA pseudouridine synthase [Mesoplasma florum L1]
Length = 311
Score = 166 bits (421), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 101/269 (37%), Positives = 148/269 (55%), Gaps = 33/269 (12%)
Query: 70 KLRLDAWISSRI---DGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQ 126
K+RLD ++ + SR+ +Q+ I+ G V +NG V +K + N+ G + I E++
Sbjct: 9 KVRLDKYLVDALAESTEYSRSYIQTLIKDGNVIVNGNVETKQNFNLIGDIEIEINIPEVK 68
Query: 127 PLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQ 186
E I LDIVYEDD++LVVNKP +MVVHP GN GT+VN +L
Sbjct: 69 TSTINPEKIDLDIVYEDDDILVVNKPNNMVVHPGAGNTEGTMVNALL------------- 115
Query: 187 EAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHT 246
D EF S+I G RPGIVHR+DK T+GLL+VAK++ SH L+E K H
Sbjct: 116 ---------GRDAEFLSTIGGVE-RPGIVHRIDKQTTGLLIVAKNDKSHQVLTEMLKNHE 165
Query: 247 IERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILA 306
I + Y++L G + G I+ PI R N+R +M ++K +A + ++VI+ L
Sbjct: 166 IYKEYVALVWGEIKEDKGIIDAPIGRHQNDRKKMMVTSKNSK-----YAVTNFEVIKRL- 219
Query: 307 GGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ LV+ +ETGRTHQ+ + + P
Sbjct: 220 -DKTTLVKCAIETGRTHQIRVHFNFIKHP 247
>gi|253702050|ref|YP_003023239.1| pseudouridine synthase [Geobacter sp. M21]
gi|251776900|gb|ACT19481.1| pseudouridine synthase, RluA family [Geobacter sp. M21]
Length = 319
Score = 166 bits (421), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 104/266 (39%), Positives = 152/266 (57%), Gaps = 32/266 (12%)
Query: 60 LEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
+E T + + RLD++IS + ++R+ I +G ++NG K + +KGG++V
Sbjct: 4 IELTFPSDSDPERLDSFISRNVPELTRSAALRLIETGFATVNGSK-QKPALKLKGGEVVQ 62
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
+ P + E+IP++++YED ++VVNK A MVVHP GN GTLVN +L HC
Sbjct: 63 VVVPPPVPAEPQPEEIPIEVLYEDGELVVVNKGAGMVVHPGAGNPEGTLVNALLAHC--- 119
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
+D+S G +RPGIVHR+DK TSG LVVAK + +H L+
Sbjct: 120 -------------KDLSG--------IGGELRPGIVHRIDKDTSGTLVVAKSDRAHNALA 158
Query: 240 EQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRY 299
EQFK HTI+RVY++L G P + GRIE I R P +R +M+A +HG + A + +
Sbjct: 159 EQFKEHTIKRVYLALVYGSPKEDKGRIESSIGRHPTDRKKMSA---KARHG--KQAVTHW 213
Query: 300 KVIEILAGGGSALVEWRLETGRTHQV 325
+V+ G L+ RLETGRTHQ+
Sbjct: 214 RVVARYP--GITLIRLRLETGRTHQI 237
>gi|254556664|ref|YP_003063081.1| pseudouridylate synthase [Lactobacillus plantarum JDM1]
gi|254045591|gb|ACT62384.1| pseudouridylate synthase [Lactobacillus plantarum JDM1]
Length = 307
Score = 166 bits (421), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 104/270 (38%), Positives = 146/270 (54%), Gaps = 34/270 (12%)
Query: 56 AGVQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGG 115
AG E+ RLD +++ +R++V I++ V++NGQ+ + H VK G
Sbjct: 2 AGATTEQQFTITDQTGRLDKVLAALQSVWTRSQVDKLIKTDQVTVNGQLEASKYH-VKPG 60
Query: 116 DMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHH 175
D + +Q E E+IPLDIVYEDD+VLVVNKP MVVHPAPG+ TLVN +L+H
Sbjct: 61 DEIVVAAQTVQQTTIEPENIPLDIVYEDDDVLVVNKPQGMVVHPAPGHPNHTLVNALLYH 120
Query: 176 CSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSH 235
L S+I+G RPGIVHR+DK TSGLL+VAK++ +H
Sbjct: 121 SPL------------------------STING-EFRPGIVHRIDKDTSGLLMVAKNDRAH 155
Query: 236 AHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHA 295
L+ Q K T R Y++L GV + +G I P+ R P +R + A + R A
Sbjct: 156 QSLAAQLKAKTNLREYVALVHGVIKEDTGTINAPLGRSPKDRKKQAIV------KTGRPA 209
Query: 296 ASRYKVIEILAGGGSALVEWRLETGRTHQV 325
+ +KV++ L+ RLETGRTHQ+
Sbjct: 210 ITHFKVLKRYQ--HYTLISCRLETGRTHQI 237
>gi|56750446|ref|YP_171147.1| ribosomal large subunit pseudouridine synthase D [Synechococcus
elongatus PCC 6301]
gi|81299921|ref|YP_400129.1| ribosomal large subunit pseudouridine synthase D [Synechococcus
elongatus PCC 7942]
gi|56685405|dbj|BAD78627.1| ribosomal large subunit pseudouridine synthase D [Synechococcus
elongatus PCC 6301]
gi|81168802|gb|ABB57142.1| ribosomal large subunit pseudouridine synthase D [Synechococcus
elongatus PCC 7942]
Length = 313
Score = 166 bits (421), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 98/254 (38%), Positives = 140/254 (55%), Gaps = 28/254 (11%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD W++ + +SRAR+Q I +G + +NG+V + + GD + + + +
Sbjct: 16 RLDRWLAQQWPHLSRARLQKLIAAGQLRVNGEVCDQKRWQPRLGDRLELEMPPTEAIALA 75
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E+IPLDI+YED ++L+VNK MVVHPA G+ TGTLV+ +L HC
Sbjct: 76 PEEIPLDILYEDADLLIVNKAVGMVVHPAAGHDTGTLVHALLAHCG-------------- 121
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
S + G RPGIVHRLDK T+G +VVAK E + L +Q + T +R Y
Sbjct: 122 ---------DSLTGIGGEQRPGIVHRLDKDTTGAMVVAKTEAALLSLQDQIRQKTAQREY 172
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+ + G P Q SG++E PI R +R RMA +P R A + ++V E L G A
Sbjct: 173 LGVVFGSPRQDSGQVEEPIGRHLRDRKRMAVVPIERG---GRWALTHWQVRERL--GNYA 227
Query: 312 LVEWRLETGRTHQV 325
L+ +RL TGRTHQ+
Sbjct: 228 LLHYRLATGRTHQI 241
>gi|392957456|ref|ZP_10322979.1| hypothetical protein A374_11980 [Bacillus macauensis ZFHKF-1]
gi|391876419|gb|EIT85016.1| hypothetical protein A374_11980 [Bacillus macauensis ZFHKF-1]
Length = 303
Score = 166 bits (421), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 102/277 (36%), Positives = 155/277 (55%), Gaps = 32/277 (11%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
+E ++ +A R+D ++S SR++VQ+ I+ G ++++G+ + K ++ V G++V
Sbjct: 3 HIEVRIEEQAQGERIDKVVTSYRPQWSRSQVQTWIKEGAITVDGKQI-KTNYKVSAGEVV 61
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
+ + L E E++ L+IVYED +VLVVNKP MVVHPAPGN +GTLVNG++ HC
Sbjct: 62 TIIVPDPVTLDVEPEEMNLEIVYEDGDVLVVNKPRGMVVHPAPGNYSGTLVNGLMAHC-- 119
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
D+ S I+G +RPGIVHR+DK T+GLL+VAK++ +H L
Sbjct: 120 --------------RDL-------SGINGV-LRPGIVHRIDKDTTGLLMVAKNDMAHESL 157
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
Q K T R Y ++ G G I+ PI RD ++R RM + +R A +
Sbjct: 158 VNQLKAKTTTRKYKAIVHGNMPHDRGTIDAPIGRDKSDRQRMTVTDEN-----SRDAITH 212
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
++V+E VE +LETGRTHQ+ + K P
Sbjct: 213 FRVLERFP--DFTFVECQLETGRTHQIRVHLKYIGFP 247
>gi|384537309|ref|YP_005721394.1| putative ribosomal large subunit pseudouridine synthase protein
[Sinorhizobium meliloti SM11]
gi|336034201|gb|AEH80133.1| putative ribosomal large subunit pseudouridine synthase protein
[Sinorhizobium meliloti SM11]
Length = 343
Score = 166 bits (421), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 108/271 (39%), Positives = 149/271 (54%), Gaps = 38/271 (14%)
Query: 65 DTKAGKLRLDAWISSRIDG-ISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
D AG RLDA+++ + G SR R++S I G VSING V++ V GD +
Sbjct: 19 DDAAG--RLDAFLTEALAGEFSRNRIKSLIEQGAVSINGATVTEPKRKVHPGDSFRIALP 76
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
E + + E IPLD++YED +++V+ KPA +VVHP GN TGTLVN ++HHC
Sbjct: 77 EPEDPEPKGEAIPLDVLYEDADLIVLVKPAGLVVHPGAGNWTGTLVNALIHHCG------ 130
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
+ S I G RPGIVHRLDK TSG++VVAK++ +H HLS+QF
Sbjct: 131 ----------------DSLSGIGGVK-RPGIVHRLDKDTSGVMVVAKNDAAHRHLSDQFA 173
Query: 244 LH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRY 299
H +ER Y ++ G P Q G+I+ P+ R + R S+ AR A + Y
Sbjct: 174 DHGRNGPLERAYRAVVWGRPRQLKGKIDAPLGRAGDRTKRAVKREDSD---DAREAITHY 230
Query: 300 KVIEIL--AGGGSAL---VEWRLETGRTHQV 325
+V+E G++L VE LETGRTHQ+
Sbjct: 231 EVVERYHEKPDGTSLASTVECHLETGRTHQI 261
>gi|319649641|ref|ZP_08003797.1| pseudouridine synthase [Bacillus sp. 2_A_57_CT2]
gi|317398803|gb|EFV79485.1| pseudouridine synthase [Bacillus sp. 2_A_57_CT2]
Length = 300
Score = 166 bits (421), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 106/271 (39%), Positives = 148/271 (54%), Gaps = 34/271 (12%)
Query: 65 DTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISE 124
D +AG+ R+D +S+ SR +VQ I+ G V +NGQ K ++ D + +I E
Sbjct: 7 DEQAGE-RIDKVLSTLNADWSRTQVQQWIKDGNVLVNGQ-KPKTNYKCTANDKIEISIPE 64
Query: 125 LQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASS 184
+ L E + LDI YED +VLVVNKP MVVHPA G+ TGTLVNG++ HC+
Sbjct: 65 PEELDVVPEKMDLDIYYEDKDVLVVNKPKGMVVHPAAGHGTGTLVNGLMAHCT------- 117
Query: 185 NQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKL 244
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L Q
Sbjct: 118 ---------DL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDMAHESLVNQLMN 160
Query: 245 HTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEI 304
T+ R Y ++ GV G I+ PI+RDP +R M + +HA + ++V+E
Sbjct: 161 KTVTRKYRAVVHGVIPHDYGTIDAPIARDPKDRQSMTVV------DNGKHAVTHFQVLER 214
Query: 305 LAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
LVE +LETGRTHQ+ + K P
Sbjct: 215 FR--DFTLVECQLETGRTHQIRVHMKYIGYP 243
>gi|149371695|ref|ZP_01891111.1| ribosomal large subunit pseudouridine synthase D [unidentified
eubacterium SCB49]
gi|149355322|gb|EDM43882.1| ribosomal large subunit pseudouridine synthase D [unidentified
eubacterium SCB49]
Length = 348
Score = 166 bits (421), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 98/263 (37%), Positives = 145/263 (55%), Gaps = 31/263 (11%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISEL-QPLR 129
LR+D ++ +R++ +R+++Q + + G + +N V+ K ++ VK D+V + L
Sbjct: 32 LRVDKYLMNRVENATRSKIQKAAKEGNIFVNN-VIVKSNYKVKANDVVTVLFAHPPYELL 90
Query: 130 AEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC-SLPTLASSNQEA 188
EDI +DIVYEDD++LVVNK MVVHP GN +GTL+N ++HH +LP
Sbjct: 91 LTPEDIDIDIVYEDDDLLVVNKQPGMVVHPGHGNYSGTLINALIHHIDNLP--------- 141
Query: 189 FSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIE 248
+ +S RPG+VHR+DK TSGLLVVAK E + HL++QF T E
Sbjct: 142 -----------------NNSSNRPGLVHRIDKDTSGLLVVAKTEEAMTHLAKQFFDKTTE 184
Query: 249 RVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGG 308
R Y++L G G IE I R P NR++ + + + A + +KV+E G
Sbjct: 185 REYVALVWGNIEDDEGTIEGHIGRHPKNRLQNTVFLDEDAEEKGKAAVTHFKVLERF--G 242
Query: 309 GSALVEWRLETGRTHQVLMLYKL 331
LV +LETGRTHQ+ + K
Sbjct: 243 YVTLVSCKLETGRTHQIRVHMKF 265
>gi|296111936|ref|YP_003622318.1| pseudouridine synthase [Leuconostoc kimchii IMSNU 11154]
gi|295833468|gb|ADG41349.1| pseudouridine synthase [Leuconostoc kimchii IMSNU 11154]
Length = 308
Score = 166 bits (421), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 104/262 (39%), Positives = 148/262 (56%), Gaps = 36/262 (13%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
+ T+ G R+DA ++ SR + +++G + +N V + S+ V GD ++
Sbjct: 9 ITTQVG--RIDAILAKEDLQYSRTTLAEWLQNGHILVNNNKVKR-SYKVSVGDTISIFPP 65
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
E+ AEDIPLDIVYED+++LVVNKP MVVHPA G+++GTLVN +LHH L
Sbjct: 66 EVASTEIIAEDIPLDIVYEDNDILVVNKPQGMVVHPAAGHSSGTLVNALLHHAPL----- 120
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
S+I+G + RPGIVHR+D+ TSGLL+VAK++ +H LS Q K
Sbjct: 121 -------------------STING-TFRPGIVHRIDRDTSGLLMVAKNDVAHKALSAQLK 160
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
H +R+Y +L G S+ SG I PI R P +R R A G R A + ++V+
Sbjct: 161 AHKNDRIYYALVRGEFSEDSGTINAPIGRHPVDRKRQAVQVG------GREAITHFEVVH 214
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
G L++ RLETGRTHQ+
Sbjct: 215 RYV--GFTLLKVRLETGRTHQI 234
>gi|389876793|ref|YP_006370358.1| Pseudouridylate synthase, 23S RNA-specific [Tistrella mobilis
KA081020-065]
gi|388527577|gb|AFK52774.1| Pseudouridylate synthase, 23S RNA-specific [Tistrella mobilis
KA081020-065]
Length = 405
Score = 166 bits (421), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 109/291 (37%), Positives = 157/291 (53%), Gaps = 28/291 (9%)
Query: 40 SSSSSGGNNREPIANYAGVQLEETVD----TKAGKLRLDAWISSRIDGISRARVQSSIRS 95
+ + +G ++ E A A L TVD T + R D +++ +SR RVQ+ IR
Sbjct: 59 AEAEAGLDDDELSALEAAAVLGGTVDITLPTGFAEERADRLLANAAPSLSRGRVQALIRD 118
Query: 96 GLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHM 155
G V+++G ++ S VK G + T+ + R E E + LDIVYED+ ++VV+KPA +
Sbjct: 119 GRVTLDGATIADASRRVKPGQKLTVTVPVPEERRLEPEPMALDIVYEDEWLIVVDKPAGL 178
Query: 156 VVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIV 215
VVHP GN GTLV+G+L H D SS GA RPG+V
Sbjct: 179 VVHPGAGNDRGTLVSGLLAHG---------------------DGRLSS--IGAPTRPGVV 215
Query: 216 HRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPN 275
HR+DK TSGL+V AK + +H L+ QF HTI R Y ++ GVP+ GRIE I R
Sbjct: 216 HRIDKDTSGLIVFAKTDAAHLALARQFADHTIRRAYTAIVWGVPAVDPGRIEGNIGRHAT 275
Query: 276 NRIRMAAIPGSNKHGQARHA-ASRYKVIEILAGGGSALVEWRLETGRTHQV 325
+R RMA + K + A+ V+E+ +++++ RLETGRTHQ+
Sbjct: 276 DRQRMAVVTRGGKPAVTHYRIANMVGVVEVSEKPLASVLDCRLETGRTHQI 326
>gi|385825909|ref|YP_005862251.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
johnsonii DPC 6026]
gi|329667353|gb|AEB93301.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
johnsonii DPC 6026]
Length = 304
Score = 166 bits (421), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 98/262 (37%), Positives = 149/262 (56%), Gaps = 35/262 (13%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
+D + G RLD I+ +I +SR +++ + + +N + KVS+ V+ GD+++ TI
Sbjct: 9 IDDEKG--RLDKVIAEKITDLSRTKIKELVNDKNILVNNKA-EKVSYKVQSGDVIDVTIP 65
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
++PL EAE++ LDIVYED +V+VVNKP MVVHP+ G+ TLVNG+L+H
Sbjct: 66 PVKPLSLEAENLHLDIVYEDSDVIVVNKPQGMVVHPSAGHPDHTLVNGLLYHT------- 118
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
D++D E RPGIVHR+DK TSGLL++AK++ + L +Q
Sbjct: 119 ---------RDLADSPE--------GFRPGIVHRIDKDTSGLLMIAKNDKARESLEKQLA 161
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
+R Y+++ G +G I PI R+PNNR +MA P + + A + + V+E
Sbjct: 162 EKINKREYLAIVHGNFEVKNGVINAPIGRNPNNRKQMAVNP------KGKAAVTHFTVLE 215
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
+LV+ LETGRTHQ+
Sbjct: 216 QFK--NYSLVKCVLETGRTHQI 235
>gi|15966478|ref|NP_386831.1| ribosomal large subunit pseudouridine synthase [Sinorhizobium
meliloti 1021]
gi|334317482|ref|YP_004550101.1| RluA family pseudouridine synthase [Sinorhizobium meliloti AK83]
gi|384530608|ref|YP_005714696.1| RluA family pseudouridine synthase [Sinorhizobium meliloti BL225C]
gi|407721791|ref|YP_006841453.1| RNA pseudouridine synthase YlyB [Sinorhizobium meliloti Rm41]
gi|418400213|ref|ZP_12973756.1| RluA family pseudouridine synthase [Sinorhizobium meliloti
CCNWSX0020]
gi|433614557|ref|YP_007191355.1| pseudouridine synthase, RluA family [Sinorhizobium meliloti GR4]
gi|15075749|emb|CAC47304.1| Putative ribosomal large subunit pseudouridine synthase
[Sinorhizobium meliloti 1021]
gi|333812784|gb|AEG05453.1| pseudouridine synthase, RluA family [Sinorhizobium meliloti BL225C]
gi|334096476|gb|AEG54487.1| pseudouridine synthase, RluA family [Sinorhizobium meliloti AK83]
gi|359505889|gb|EHK78408.1| RluA family pseudouridine synthase [Sinorhizobium meliloti
CCNWSX0020]
gi|407320023|emb|CCM68627.1| putative RNA pseudouridine synthase YlyB [Sinorhizobium meliloti
Rm41]
gi|429552747|gb|AGA07756.1| pseudouridine synthase, RluA family [Sinorhizobium meliloti GR4]
Length = 343
Score = 166 bits (421), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 108/271 (39%), Positives = 149/271 (54%), Gaps = 38/271 (14%)
Query: 65 DTKAGKLRLDAWISSRIDG-ISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
D AG RLDA+++ + G SR R++S I G VSING V++ V GD +
Sbjct: 19 DDAAG--RLDAFLTEALAGEFSRNRIKSLIEQGAVSINGATVTEPKRKVHPGDSFRIALP 76
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
E + + E IPLD++YED +++V+ KPA +VVHP GN TGTLVN ++HHC
Sbjct: 77 EPEDPEPKGEAIPLDVLYEDADLIVLVKPAGLVVHPGAGNWTGTLVNALIHHCG------ 130
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
+ S I G RPGIVHRLDK TSG++VVAK++ +H HLS+QF
Sbjct: 131 ----------------DSLSGIGGVK-RPGIVHRLDKDTSGVMVVAKNDAAHRHLSDQFA 173
Query: 244 LH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRY 299
H +ER Y ++ G P Q G+I+ P+ R + R S+ AR A + Y
Sbjct: 174 DHGRNGPLERAYRAVVWGRPRQLKGKIDAPLGRAGDRTKRAVKREDSD---DAREAITHY 230
Query: 300 KVIEIL--AGGGSAL---VEWRLETGRTHQV 325
+V+E G++L VE LETGRTHQ+
Sbjct: 231 EVVERYHEKPDGTSLASTVECHLETGRTHQI 261
>gi|86137869|ref|ZP_01056445.1| ribosomal large subunit pseudouridine synthase D [Roseobacter sp.
MED193]
gi|85825461|gb|EAQ45660.1| ribosomal large subunit pseudouridine synthase D [Roseobacter sp.
MED193]
Length = 346
Score = 166 bits (421), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 101/269 (37%), Positives = 147/269 (54%), Gaps = 38/269 (14%)
Query: 72 RLDAWISSRIDG---ISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPL 128
RLD +S + +SR R+ I +G ++++G VV V G ++ T+ E +
Sbjct: 17 RLDKAVSRDVPAEATLSRTRLARLIEAGSLTVDGVVVQDAKARVAEGAVITITVEEAEDS 76
Query: 129 RAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEA 188
EDI LD+++EDD+++V+NKP+ MVVHPAPG +GTLVN +LHHC
Sbjct: 77 HIGPEDIALDVIFEDDDLIVINKPSGMVVHPAPGTPSGTLVNALLHHCG----------- 125
Query: 189 FSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIE 248
E S + G RPGIVHR+DK TSGLLVVAK + +H L+ QF+ HT+E
Sbjct: 126 -----------ENLSGVGGVK-RPGIVHRIDKETSGLLVVAKSDAAHQGLAAQFEKHTVE 173
Query: 249 RVYISLTSGVPSQSSGRIE--VPISRDPNNRIRMAAIPGSNKHGQ---------ARHAAS 297
R Y ++ GVP + R+ S +P N +++ +KH + RHA +
Sbjct: 174 RYYRAICYGVPDANDPRLRGVKGTSFEPGNILKLTTQLARHKHDRQRQAVLFQGGRHAVT 233
Query: 298 RYKVIEIL-AGGGSALVEWRLETGRTHQV 325
R +++E A AL+E LETGRTHQ+
Sbjct: 234 RARIVEPFGAPPVVALIECWLETGRTHQI 262
>gi|83949443|ref|ZP_00958176.1| ribosomal large subunit pseudouridine synthase D [Roseovarius
nubinhibens ISM]
gi|83837342|gb|EAP76638.1| ribosomal large subunit pseudouridine synthase D [Roseovarius
nubinhibens ISM]
Length = 341
Score = 166 bits (421), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 111/269 (41%), Positives = 146/269 (54%), Gaps = 38/269 (14%)
Query: 72 RLDAWISSRIDG---ISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPL 128
RLD +S + +SR R+ + G VS+NG V V GD V T+ +
Sbjct: 17 RLDKALSRDVPEEAHLSRTRLARLVEEGAVSVNGAEARDVKSRVAEGDEVVITVPVAEES 76
Query: 129 RAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEA 188
E+IPLDIVYED ++LVVNKPA MVVHPAPG GTLVN +LHHC
Sbjct: 77 DILPENIPLDIVYEDADLLVVNKPAGMVVHPAPGTPRGTLVNALLHHCG----------- 125
Query: 189 FSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIE 248
D+S G RPGIVHR+DK TSGLLVVAK + +H L+ QF+ H+ E
Sbjct: 126 ----GDLSG--------VGGVRRPGIVHRIDKDTSGLLVVAKSDQAHHGLAAQFEAHSAE 173
Query: 249 RVYISLTSGVPSQSSGRIE--VPISRDPNNRIRMA---AIPGSNKHGQA------RHAAS 297
RVY ++ GVP + R+ + +P N +R+ A +++ QA +HA +
Sbjct: 174 RVYQAIVYGVPDAADPRLGGLRGVGFEPGNVLRITTQLARHRTDRQKQAVLFDGGKHAVT 233
Query: 298 RYKVIEILAGGGS-ALVEWRLETGRTHQV 325
R +V E L S AL+E RLETGRTHQ+
Sbjct: 234 RAQVTERLGDPASVALIECRLETGRTHQI 262
>gi|229496851|ref|ZP_04390560.1| ribosomal large subunit pseudouridine synthase D [Porphyromonas
endodontalis ATCC 35406]
gi|229316262|gb|EEN82186.1| ribosomal large subunit pseudouridine synthase D [Porphyromonas
endodontalis ATCC 35406]
Length = 359
Score = 166 bits (421), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 101/263 (38%), Positives = 150/263 (57%), Gaps = 29/263 (11%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
VD LR+D ++ +++ SR R+Q + +G + + G+ K ++ V+ GD++ ++
Sbjct: 37 VDKGQTPLRIDKFLVDKLEHSSRHRIQLAAEAGYLFV-GETPIKSNYKVRPGDVITLRLA 95
Query: 124 ELQPLRA-EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
R AEDIPL++VYED+++LVVNKPA MVVHP GN TGTLVN + ++
Sbjct: 96 RPPHERGIVAEDIPLEVVYEDNDLLVVNKPAGMVVHPGNGNYTGTLVNALAYY------- 148
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
DD ++ ++ G+VHR+DK TSGLLVVAK + L +QF
Sbjct: 149 ------------FRDDPKYDANDPNV----GLVHRIDKDTSGLLVVAKRPEAKTALGKQF 192
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
T ER Y +L G +S GRIE I RDP +R RM+ P ++ G ++A + Y+V+
Sbjct: 193 FEKTSERSYRALVWGAFKESEGRIEGNIGRDPRDRTRMSVFPPNSDEG--KNAITHYRVL 250
Query: 303 EILAGGGSALVEWRLETGRTHQV 325
E A + +E RLETGRTHQ+
Sbjct: 251 ETFA--FVSYIECRLETGRTHQI 271
>gi|418055654|ref|ZP_12693708.1| pseudouridine synthase, RluA family [Hyphomicrobium denitrificans
1NES1]
gi|353209932|gb|EHB75334.1| pseudouridine synthase, RluA family [Hyphomicrobium denitrificans
1NES1]
Length = 348
Score = 166 bits (421), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 104/277 (37%), Positives = 151/277 (54%), Gaps = 40/277 (14%)
Query: 61 EETVDTKAGK----LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGD 116
++T++ AG R+D W++ RI+ +SRAR+Q+ I G VS NG + + VK G
Sbjct: 12 QDTIELTAGPEDAGQRVDRWLADRIESLSRARIQALIHGGYVS-NGGTIREARAPVKPGV 70
Query: 117 MVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC 176
+ P E E++PL IVYED +++V++KPA +VVHPA G+A+GTLVN ++ HC
Sbjct: 71 TYRIALPPPSPSEVEGENLPLAIVYEDADLIVIDKPAGLVVHPAAGHASGTLVNALIAHC 130
Query: 177 SLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHA 236
+ S I G RPGIVHRLDK TSGLLV+AK++ +H
Sbjct: 131 G----------------------DSLSGIGGIK-RPGIVHRLDKDTSGLLVIAKNDAAHQ 167
Query: 237 HLSEQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQA 292
L+EQFK H + R Y++ G + G I+ + R NR ++A + G
Sbjct: 168 GLAEQFKSHGRDGRLYRSYLAFVWGKLPRPKGSIDARLGRSQANRTKIAVVRGE----AG 223
Query: 293 RHAASRYKVIEILAG----GGSALVEWRLETGRTHQV 325
R A + Y+V++ G G +LV LETGRTHQ+
Sbjct: 224 RSATTHYEVLKTFPGDRPTGDVSLVRLVLETGRTHQI 260
>gi|42519111|ref|NP_965041.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
johnsonii NCC 533]
gi|41583398|gb|AAS09007.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
johnsonii NCC 533]
Length = 304
Score = 166 bits (421), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 98/262 (37%), Positives = 149/262 (56%), Gaps = 35/262 (13%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
+D + G RLD I+ +I +SR +++ + + +N + KVS+ V+ GD+++ TI
Sbjct: 9 IDDEKG--RLDKVIAEKITDLSRTKIKELVNDKNILVNNKA-EKVSYKVQSGDVIDVTIP 65
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
++PL EAE++ LDIVYED +V+VVNKP MVVHP+ G+ TLVNG+L+H
Sbjct: 66 PVKPLSLEAENLHLDIVYEDSDVIVVNKPQGMVVHPSAGHPDHTLVNGLLYHT------- 118
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
D++D E RPGIVHR+DK TSGLL++AK++ + L +Q
Sbjct: 119 ---------RDLADSPE--------GFRPGIVHRIDKDTSGLLMIAKNDKARESLEKQLA 161
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
+R Y+++ G +G I PI R+PNNR +MA P + + A + + V+E
Sbjct: 162 EKINKREYLAIVHGNFEVKNGVINAPIGRNPNNRKQMAVNP------KGKAAVTHFTVLE 215
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
+LV+ LETGRTHQ+
Sbjct: 216 QFK--NYSLVKCVLETGRTHQI 235
>gi|255261883|ref|ZP_05341225.1| ribosomal large subunit pseudouridine synthase D [Thalassiobium sp.
R2A62]
gi|255104218|gb|EET46892.1| ribosomal large subunit pseudouridine synthase D [Thalassiobium sp.
R2A62]
Length = 341
Score = 166 bits (421), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 104/274 (37%), Positives = 145/274 (52%), Gaps = 48/274 (17%)
Query: 72 RLDAWISSRIDG---ISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPL 128
RLD I+ + +SR+R+ + SG V++NG V++ V D + T+ +
Sbjct: 17 RLDKAIARDVPADASLSRSRIAKLLASGDVALNGAVLTDPRAKVAEDDEITVTLPDAAES 76
Query: 129 RAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEA 188
EDIPLD+V+EDD+++V+NKP+ MVVHPAPG+ +GTLVN ++HHC
Sbjct: 77 HMGPEDIPLDLVFEDDDLIVINKPSGMVVHPAPGSPSGTLVNALMHHCG----------- 125
Query: 189 FSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIE 248
S S G RPGIVHR+DK TSGLLVVAK + +H L+ QF+ HT+E
Sbjct: 126 ------------DSLSGVGGEKRPGIVHRIDKETSGLLVVAKSDKAHHGLAAQFEAHTVE 173
Query: 249 RVYISLTSGVPSQSSGR----------------IEVPISRDPNNRIRMAAIPGSNKHGQA 292
R Y ++ GVP + R I ++R +R R A + G
Sbjct: 174 RYYRAVVYGVPDSNDPRLRGIRGVNFERSNIMKITTQLARHKTDRQRQAVL-----FGNG 228
Query: 293 RHAASRYKVIEILAGGGSA-LVEWRLETGRTHQV 325
RHA +R +V+E A LVE LETGRTHQ+
Sbjct: 229 RHAVTRARVVERFGQPVVASLVECWLETGRTHQI 262
>gi|417837540|ref|ZP_12483778.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
johnsonii pf01]
gi|338761083|gb|EGP12352.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
johnsonii pf01]
Length = 304
Score = 166 bits (421), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 98/262 (37%), Positives = 149/262 (56%), Gaps = 35/262 (13%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
+D + G RLD I+ +I +SR +++ + + +N + KVS+ V+ GD+++ TI
Sbjct: 9 IDDEKG--RLDKVIAEKITDLSRTKIKELVNDKNILVNNKA-EKVSYKVQSGDVIDVTIP 65
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
++PL EAE++ LDIVYED +V+VVNKP MVVHP+ G+ TLVNG+L+H
Sbjct: 66 PVKPLSLEAENLHLDIVYEDSDVIVVNKPQGMVVHPSAGHPDHTLVNGLLYHT------- 118
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
D++D E RPGIVHR+DK TSGLL++AK++ + L +Q
Sbjct: 119 ---------RDLADSPE--------RFRPGIVHRIDKDTSGLLMIAKNDKARESLEKQLA 161
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
+R Y+++ G +G I PI R+PNNR +MA P + + A + + V+E
Sbjct: 162 EKINKREYLAIVHGNFEVKNGVINAPIGRNPNNRKQMAVNP------KGKAAVTHFTVLE 215
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
+LV+ LETGRTHQ+
Sbjct: 216 QFK--NYSLVKCVLETGRTHQI 235
>gi|262277480|ref|ZP_06055273.1| ribosomal large subunit pseudouridine synthase D [alpha
proteobacterium HIMB114]
gi|262224583|gb|EEY75042.1| ribosomal large subunit pseudouridine synthase D [alpha
proteobacterium HIMB114]
Length = 325
Score = 166 bits (421), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 94/268 (35%), Positives = 150/268 (55%), Gaps = 35/268 (13%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
VD + R+D ++ + ISR++V I++ L+ +NGQ++ SH VK GD +
Sbjct: 7 VVDENFDQKRIDQVVAKQYPKISRSKVSKIIKTELLKLNGQILKDPSHKVKSGDQIEFEN 66
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
+ + + + L+I++ED ++++++KP MVVHP GN T+VNG+L+HC
Sbjct: 67 LIEETINLIPKKMDLNIIFEDQDIIIIDKPIGMVVHPGAGNYEDTMVNGLLYHCK----- 121
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
N + + ED RPGIVHR+DK TSGLLVVAK++ +HA +++QF
Sbjct: 122 --NNLSGMNGED----------------RPGIVHRIDKDTSGLLVVAKNDQAHAFIAKQF 163
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAA--IPGSNKHGQARHAASRYK 300
+ H+I+R Y+ G+ G+IE I R+ NR +M+A I G + A + Y+
Sbjct: 164 EEHSIKRSYLVFVYGILRPLHGKIETLIGRNKTNRQKMSADVIRGKD-------AITNYE 216
Query: 301 VIEILAGG---GSALVEWRLETGRTHQV 325
+E+ G +LV+ LETGRTHQ+
Sbjct: 217 TLEVFKGNKIPDISLVKCILETGRTHQI 244
>gi|390946631|ref|YP_006410391.1| RluA family pseudouridine synthase [Alistipes finegoldii DSM 17242]
gi|390423200|gb|AFL77706.1| pseudouridine synthase, RluA family [Alistipes finegoldii DSM
17242]
Length = 362
Score = 166 bits (420), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 103/265 (38%), Positives = 147/265 (55%), Gaps = 36/265 (13%)
Query: 65 DTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISE 124
D LRLD +++ R++ SR R+Q++ G + +NG+ +K S+ VK D + +
Sbjct: 37 DKGQAPLRLDKFLTVRMEKCSRNRIQAAADCGSILVNGKA-AKSSYKVKPLDRIQIVLP- 94
Query: 125 LQPLRAEA---EDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC-SLPT 180
P R EDIPL+I YEDD++L+VNKPA +VVHP GN +GTLVN + +H +LP
Sbjct: 95 -YPRREVEIIPEDIPLEIPYEDDDLLIVNKPAGLVVHPGHGNYSGTLVNALTYHLRNLPL 153
Query: 181 LASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSE 240
+ +R G+VHR+DK TSGLLVVAK+E SHA L++
Sbjct: 154 FQEGD------------------------MRAGLVHRIDKNTSGLLVVAKNEQSHARLAK 189
Query: 241 QFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYK 300
QF HTI R Y++L G + G I I R P +R +M + +HA + ++
Sbjct: 190 QFFDHTIGRRYVALVWGNFEEDEGTITGNIGRSPRDRQKMFVFEDGS---DGKHAVTHWR 246
Query: 301 VIEILAGGGSALVEWRLETGRTHQV 325
V++ G LVE RLETGRTHQ+
Sbjct: 247 VLKRY--GYVTLVECRLETGRTHQI 269
>gi|325263923|ref|ZP_08130656.1| ribosomal large subunit pseudouridine synthase D [Clostridium sp.
D5]
gi|324030961|gb|EGB92243.1| ribosomal large subunit pseudouridine synthase D [Clostridium sp.
D5]
Length = 305
Score = 166 bits (420), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 97/269 (36%), Positives = 149/269 (55%), Gaps = 32/269 (11%)
Query: 58 VQLEETVDTK-AGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGD 116
+Q+EE T +R+D +++ I ++R+ +Q I +GLV++ GQ K ++ D
Sbjct: 1 MQMEELYFTAGTAGIRIDKFLAEAIPDVTRSHIQKLISTGLVTV-GQKAVKANYKTALND 59
Query: 117 MVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC 176
+ I E + + EDIPLDI+YED+++L+VNKP MVVHPAPG+ + TLVN +++HC
Sbjct: 60 EIAVRIPEPEIPDIQPEDIPLDILYEDNDILIVNKPKGMVVHPAPGHYSNTLVNAVMYHC 119
Query: 177 SLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHA 236
+ S I+G + RPGIVHR+D T+G L++ K++ +H
Sbjct: 120 ----------------------RDNLSGINGVA-RPGIVHRIDMDTTGSLIICKNDTAHQ 156
Query: 237 HLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAA 296
L+EQ K H I R Y ++ G + S ++ PI R P +R +M S + R A
Sbjct: 157 ALAEQLKEHHITRKYHAVVHGNLKEDSQTVDAPIGRHPVDRKKM-----STRAPHGRQAV 211
Query: 297 SRYKVIEILAGGGSALVEWRLETGRTHQV 325
+ YKV+E G +E LETGRTHQ+
Sbjct: 212 THYKVLERF--GEYTYIECELETGRTHQI 238
>gi|58038975|ref|YP_190939.1| ribosomal large subunit pseudouridine synthase D [Gluconobacter
oxydans 621H]
gi|58001389|gb|AAW60283.1| Ribosomal large subunit pseudouridine synthase D [Gluconobacter
oxydans 621H]
Length = 322
Score = 166 bits (420), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 104/263 (39%), Positives = 145/263 (55%), Gaps = 32/263 (12%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
VD R D ++ I +SR+RV++ I SG +S+NG+ V + + ++ G + T
Sbjct: 12 VDASTAGQRADRALADAIGTVSRSRVKALIESGNLSVNGKTVCEPAETLRDGMEMVLTFP 71
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
P R AE IPL+I+YEDD+++V++K A +V HPAPGN TGTLVN +L HC
Sbjct: 72 APTPARPVAEQIPLNILYEDDDLIVLDKQAGLVTHPAPGNETGTLVNALLGHCGEGFEGI 131
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
++ RPGIVHRLDK TSGL+VVAK H LSE F
Sbjct: 132 GGEK-----------------------RPGIVHRLDKDTSGLMVVAKTAMVHNALSEAFA 168
Query: 244 LHTIERVYISLTSG-VPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
I+R Y++L G +P++ G + I RD +R RMA + GS + A +R+K+I
Sbjct: 169 ARDIDRAYLALAWGLLPAE--GEFDGSIGRDKRDRKRMAVV-GSG----GKVALTRFKLI 221
Query: 303 EILAGGGSALVEWRLETGRTHQV 325
E S L+E RL TGRTHQ+
Sbjct: 222 EPYQAAVS-LIECRLATGRTHQI 243
>gi|357385456|ref|YP_004900180.1| ribosomal large subunit pseudouridine synthase D [Pelagibacterium
halotolerans B2]
gi|351594093|gb|AEQ52430.1| ribosomal large subunit pseudouridine synthase D [Pelagibacterium
halotolerans B2]
Length = 336
Score = 166 bits (420), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 105/283 (37%), Positives = 155/283 (54%), Gaps = 43/283 (15%)
Query: 56 AGVQLEE-----TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSH 110
AG QL++ TV RLDA++++R SR R++ I G VS++G +
Sbjct: 2 AGSQLQQDRHDATVLENEAGTRLDAFLAARFPLFSRNRIKDLILLGAVSVDGTTNDVPKY 61
Query: 111 NVKGGDMVNCTISELQPLRAEAE--DIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTL 168
V+ G+ + T++ +P+ AE + DI L+I++ED+ ++V++KPA MVVHPAPGN GTL
Sbjct: 62 RVRTGESI--TLAAPEPVEAEPQPQDIALNILFEDEYLIVIDKPAGMVVHPAPGNEDGTL 119
Query: 169 VNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVV 228
VN ++HHC + I G RPGIVHRLDK TSG++V
Sbjct: 120 VNALIHHCG----------------------DSLRGIGGVK-RPGIVHRLDKDTSGVMVA 156
Query: 229 AKDEHSHAHLSEQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIP 284
AK E +H L+ QF H +ER YI+ G+P+ G +E I RDPNNR++ + P
Sbjct: 157 AKTEQAHNGLAAQFADHGRTGPLERAYIAFVWGIPNPLVGTVETMIGRDPNNRLKQSVQP 216
Query: 285 GSNKHGQARHAASRYKVIEILAGGGSALVEWR--LETGRTHQV 325
+ R A + Y+V + ++ + R LETGRTHQ+
Sbjct: 217 -----REGREAITHYRVEGRFSDDKWSIAQVRCQLETGRTHQI 254
>gi|325860234|ref|ZP_08173359.1| pseudouridine synthase, RluA family [Prevotella denticola CRIS
18C-A]
gi|325482321|gb|EGC85329.1| pseudouridine synthase, RluA family [Prevotella denticola CRIS
18C-A]
Length = 361
Score = 166 bits (420), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 102/264 (38%), Positives = 144/264 (54%), Gaps = 31/264 (11%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
VD +R+D ++ R+ SR R+Q + +G + +NG V K S+ V+ D++ +
Sbjct: 35 VDKGQEPVRIDKFLYERMQHSSRNRIQKAADAGFIHVNGAAV-KSSYKVRPEDVITLMLD 93
Query: 124 ELQPLRA-EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC-SLPTL 181
+ EAEDIPLDIVYEDD ++V+NKPA +VVHP GN GTL+N + H +P
Sbjct: 94 RPKHDNTIEAEDIPLDIVYEDDVLMVINKPAGLVVHPGAGNFHGTLINAVAWHLKDMPAF 153
Query: 182 ASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQ 241
++ E G+VHR+DK TSGLLVVAK + L Q
Sbjct: 154 DPNDPEV------------------------GLVHRIDKDTSGLLVVAKTPDAKTDLGRQ 189
Query: 242 FKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKV 301
F T R Y +L G ++ GRIE I+RDP +R+RMA P ++ G+ A + Y+V
Sbjct: 190 FFNKTTHRSYNALVWGNFTEEEGRIEGNIARDPRDRLRMAVFPPGSETGKP--AVTHYRV 247
Query: 302 IEILAGGGSALVEWRLETGRTHQV 325
IE G + L+E LETGRTHQ+
Sbjct: 248 IERF--GYTTLIECVLETGRTHQI 269
>gi|328948139|ref|YP_004365476.1| RluA family pseudouridine synthase [Treponema succinifaciens DSM
2489]
gi|328448463|gb|AEB14179.1| pseudouridine synthase, RluA family [Treponema succinifaciens DSM
2489]
Length = 326
Score = 166 bits (420), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 103/271 (38%), Positives = 152/271 (56%), Gaps = 23/271 (8%)
Query: 66 TKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISEL 125
T G++RLD +I+S +G++R++++S I + +NG+ K+S VK D+++ E
Sbjct: 11 TYKGEIRLDKYIASLPNGMNRSKLKSGIVC--IQVNGKK-QKISCQVKANDIIDIQWEEN 67
Query: 126 QPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSN 185
P E E+IPLD +YED+NV VVNK MV HPA GN GTLVN +L+H
Sbjct: 68 VPDNIEPENIPLDTIYEDENVCVVNKKQGMVTHPAAGNWKGTLVNALLYHWG-------- 119
Query: 186 QEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLH 245
E I + +E S ++ RPGIVHRLDK TSG+++ AK+ + LS QF+ H
Sbjct: 120 ------RESIPELKEGQVSKILSNRRPGIVHRLDKETSGIIITAKNHDTEEFLSAQFRNH 173
Query: 246 -TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEI 304
+I + YI++ G P G I+ I RDP R R A+ G+ + + A S Y+ I
Sbjct: 174 SSIVKEYIAICIGRPQHQHGIIQTNIIRDPKERKRFKAVVGTE---EGKPAESYYECISC 230
Query: 305 LAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
G +L++ R+ TGRTHQ+ + K P
Sbjct: 231 Y--GEYSLMKVRINTGRTHQIRVHMKYLNCP 259
>gi|327312694|ref|YP_004328131.1| RluA family pseudouridine synthase [Prevotella denticola F0289]
gi|326946223|gb|AEA22108.1| pseudouridine synthase, RluA family [Prevotella denticola F0289]
Length = 361
Score = 166 bits (420), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 102/264 (38%), Positives = 144/264 (54%), Gaps = 31/264 (11%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
VD +R+D ++ R+ SR R+Q + +G + +NG V K S+ V+ D++ +
Sbjct: 35 VDKGQEPVRIDKFLYERMQHSSRNRIQKAADAGFIHVNGTAV-KSSYKVRPEDVITLMLD 93
Query: 124 ELQPLRA-EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC-SLPTL 181
+ EAEDIPLDIVYEDD ++V+NKPA +VVHP GN GTL+N + H +P
Sbjct: 94 RPKHDNTIEAEDIPLDIVYEDDVLMVINKPAGLVVHPGAGNFHGTLINAVAWHLKDMPAF 153
Query: 182 ASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQ 241
++ E G+VHR+DK TSGLLVVAK + L Q
Sbjct: 154 DPNDPEV------------------------GLVHRIDKDTSGLLVVAKTPDAKTDLGRQ 189
Query: 242 FKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKV 301
F T R Y +L G ++ GRIE I+RDP +R+RMA P ++ G+ A + Y+V
Sbjct: 190 FFNKTTHRSYNALVWGNFTEEEGRIEGNIARDPRDRLRMAVFPPGSETGKP--AVTHYRV 247
Query: 302 IEILAGGGSALVEWRLETGRTHQV 325
IE G + L+E LETGRTHQ+
Sbjct: 248 IERF--GYTTLIECILETGRTHQI 269
>gi|157363878|ref|YP_001470645.1| RluA family pseudouridine synthase [Thermotoga lettingae TMO]
gi|157314482|gb|ABV33581.1| pseudouridine synthase, RluA family [Thermotoga lettingae TMO]
Length = 298
Score = 166 bits (420), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 104/265 (39%), Positives = 153/265 (57%), Gaps = 35/265 (13%)
Query: 63 TVDTKAGKLRLDAWISSRI-DGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCT 121
TV+ LRLD ++ RI ISR+ VQ +I+ G V++N V+ K ++ VK GD+V +
Sbjct: 2 TVEKSEVNLRLDLFLLQRIPKAISRSFVQRAIKEGKVTVN-DVIRKPNYRVKFGDVVKIS 60
Query: 122 I-SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPT 180
I S Q + E E I + ++YED++++VVNKPA M+VHP P + +GTLVN +L+HC
Sbjct: 61 IPSNAQSISIEPEPIQIGVIYEDEDIIVVNKPAGMIVHPIPSHNSGTLVNALLYHCK--- 117
Query: 181 LASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSE 240
D + I G +RPGIVHRLDK TSG++VVAK++ +H +LS
Sbjct: 118 ----------DLKGI-----------GGELRPGIVHRLDKDTSGVMVVAKNDFAHHNLSN 156
Query: 241 QFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYK 300
QFK + ++Y++L SG G I++ I+R P R +MAA R A + YK
Sbjct: 157 QFKDRKVFKMYLALVSGKVEHLEGDIQISIARHPVLRTKMAA------SEIGRIAVTHYK 210
Query: 301 VIEILAGGGSALVEWRLETGRTHQV 325
VI+ + L+ +TGRTHQ+
Sbjct: 211 VIKYFE--HATLLMAFPKTGRTHQI 233
>gi|334364756|ref|ZP_08513736.1| pseudouridine synthase, RluA family [Alistipes sp. HGB5]
gi|313159132|gb|EFR58507.1| pseudouridine synthase, RluA family [Alistipes sp. HGB5]
Length = 362
Score = 166 bits (420), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 103/265 (38%), Positives = 148/265 (55%), Gaps = 36/265 (13%)
Query: 65 DTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISE 124
D LRLD +++ R++ SR R+Q++ SG + +NG+ +K S+ VK D + +
Sbjct: 37 DKGQAPLRLDKFLTVRMEKCSRNRIQAAADSGSILVNGKA-AKSSYKVKPLDRIQIVMP- 94
Query: 125 LQPLRAEA---EDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC-SLPT 180
P R E+IPL+I YEDD++L+VNKPA +VVHP GN +GTLVN + +H +LP
Sbjct: 95 -YPRREVEIIPENIPLEIPYEDDDLLIVNKPAGLVVHPGHGNYSGTLVNALTYHLRNLPL 153
Query: 181 LASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSE 240
+ +R G+VHR+DK TSGLLVVAK+E SHA L++
Sbjct: 154 FQEGD------------------------MRAGLVHRIDKNTSGLLVVAKNEQSHARLAK 189
Query: 241 QFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYK 300
QF HTI R Y++L G + G I I R P +R +M + +HA + ++
Sbjct: 190 QFFDHTIGRRYVALVWGNFEEDEGTITGNIGRSPRDRQKMFVFEDGS---DGKHAVTHWR 246
Query: 301 VIEILAGGGSALVEWRLETGRTHQV 325
V++ G LVE RLETGRTHQ+
Sbjct: 247 VLKRY--GYVTLVECRLETGRTHQI 269
>gi|429749481|ref|ZP_19282603.1| pseudouridine synthase, RluA family [Capnocytophaga sp. oral taxon
332 str. F0381]
gi|429168134|gb|EKY09986.1| pseudouridine synthase, RluA family [Capnocytophaga sp. oral taxon
332 str. F0381]
Length = 349
Score = 166 bits (420), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 108/276 (39%), Positives = 153/276 (55%), Gaps = 40/276 (14%)
Query: 57 GVQLEETVDTKAGK----LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNV 112
G +L E KAGK LR+D ++ + ++ +R +VQ + + G + +NG V K ++ V
Sbjct: 18 GNELYEHYCFKAGKGQEPLRVDKFLMNFVENATRNKVQQAAKQGNIFVNGSPV-KANYRV 76
Query: 113 KGGDMVNCTISELQPLRAE---AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLV 169
K D V + P + AE+I LDIVYED+ +LVVNKPA MVVHP GN +GTL+
Sbjct: 77 KANDEVKVLFA--HPPHEDLLVAENIALDIVYEDEQLLVVNKPAGMVVHPGHGNYSGTLI 134
Query: 170 NGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVA 229
N +++H F + + +S RPG+VHR+DK TSGLLVVA
Sbjct: 135 NALVYH-------------------------FENLPNNSSNRPGLVHRIDKDTSGLLVVA 169
Query: 230 KDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKH 289
K E + HL++QF T ER YI+L G ++ G + I R +R++MA + H
Sbjct: 170 KTEEAMLHLTQQFFNKTTEREYIALVWGNIAEDEGTVRGHIGRHLKDRLQMAVFEDGS-H 228
Query: 290 GQARHAASRYKVIEILAGGGSALVEWRLETGRTHQV 325
G + A + YKV+E G LV RLETGRTHQ+
Sbjct: 229 G--KEAVTHYKVLERF--GYVTLVSCRLETGRTHQI 260
>gi|302382390|ref|YP_003818213.1| pseudouridine synthase [Brevundimonas subvibrioides ATCC 15264]
gi|302193018|gb|ADL00590.1| pseudouridine synthase, RluA family [Brevundimonas subvibrioides
ATCC 15264]
Length = 336
Score = 166 bits (420), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 104/260 (40%), Positives = 141/260 (54%), Gaps = 34/260 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++ + +SR R+Q+ + G VS +G VV+ S GD + T+ +
Sbjct: 29 RLDKALARALPTLSRGRLQALLAQGAVSHDGAVVTDGSSRAIPGDY-DITVPPVMAAEPR 87
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
A+ IPL ++YED +++V++KPA M HPAPG GTLVN +LHHC TL
Sbjct: 88 AQAIPLTVLYEDADLIVIDKPAGMAAHPAPGTPDGTLVNALLHHCGA-TL---------- 136
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
S I G + RPGIVHRLDK TSG++V AK + +HA LS F H IER Y
Sbjct: 137 -----------SGIGGVA-RPGIVHRLDKDTSGVMVAAKSDRAHAGLSALFATHDIERTY 184
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHG------QARHAASRYKVIEIL 305
I+LT G PS + GRIE I R ++R +MA + ++ QAR+A L
Sbjct: 185 IALTRGAPSPTLGRIETLIGRSSSDRKKMAVLKSGGRNAITDYVVQARYAVPAKPGAAPL 244
Query: 306 AGGGSALVEWRLETGRTHQV 325
A A V L+TGRTHQ+
Sbjct: 245 A----ARVACTLQTGRTHQI 260
>gi|114771661|ref|ZP_01449065.1| putative Pseudouridine synthase, Rlu [Rhodobacterales bacterium
HTCC2255]
gi|114547733|gb|EAU50623.1| putative Pseudouridine synthase, Rlu [alpha proteobacterium
HTCC2255]
Length = 341
Score = 166 bits (420), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 104/276 (37%), Positives = 152/276 (55%), Gaps = 54/276 (19%)
Query: 72 RLDAWISSRIDG---ISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPL 128
RLD ++S + +SR+R+ I G V++ G+ ++K+ + G + + +Q
Sbjct: 18 RLDKALASVVPAEVTLSRSRITKLIAEGAVTLAGEPITKLKYKAPAGSIFRIVMPPVQDY 77
Query: 129 R-AEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQE 187
A+ E+IPLDIV+EDD++++VNKPA MVVHPAPG+ GTLVN +L++
Sbjct: 78 ENAQPENIPLDIVFEDDHLIIVNKPAGMVVHPAPGSENGTLVNALLYY------------ 125
Query: 188 AFSDAEDISDDEEFSSSISG--ASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLH 245
F ++SG RPGIVHR+DK TSGLLVVAK + +HA L++QF H
Sbjct: 126 -------------FDGNLSGVGGEKRPGIVHRIDKDTSGLLVVAKSDSAHAGLAKQFADH 172
Query: 246 TIERVYISLTSGVPSQSSG----------------RIEVPISRDPNNRIRMAAIPGSNKH 289
+I R Y++++ GVP +S R+ I+R +R RMA +
Sbjct: 173 SISRRYLAVSKGVPQKSDPRLAGLRGVNFEDGGVIRVATNIARHKTDRKRMAVV-----Q 227
Query: 290 GQARHAASRYKVIEILAGGGSALVEWRLETGRTHQV 325
RHA +R V+E A SAL+E LETGRTHQ+
Sbjct: 228 DAGRHAITRATVLENFA--HSALMECWLETGRTHQI 261
>gi|430837884|ref|ZP_19455834.1| RluA family pseudouridine synthase [Enterococcus faecium E0688]
gi|430858355|ref|ZP_19475983.1| RluA family pseudouridine synthase [Enterococcus faecium E1552]
gi|430492164|gb|ELA68578.1| RluA family pseudouridine synthase [Enterococcus faecium E0688]
gi|430545564|gb|ELA85537.1| RluA family pseudouridine synthase [Enterococcus faecium E1552]
Length = 303
Score = 166 bits (420), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 105/277 (37%), Positives = 156/277 (56%), Gaps = 35/277 (12%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
+L+ T+ ++G R+D +++ SR+++Q +++G VS+NGQ V K ++ VK GD +
Sbjct: 3 ELKTTIHHESG--RIDKVLTNLFTDYSRSQIQLWLKNGAVSVNGQPV-KANYKVKQGDEI 59
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
I E + L E+IPL IVYED++V V+NKP MVVHP+ G+ GT+VN +++H
Sbjct: 60 TVLIPEPETLDVVPENIPLTIVYEDEDVAVINKPQGMVVHPSAGHTHGTMVNALMYHI-- 117
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+D+ S+I+G IRPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 118 --------------KDL-------STINGV-IRPGIVHRIDKDTSGLLMVAKNDQAHESL 155
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
++Q K T R Y++L G G I PI R NR +M I + A +
Sbjct: 156 AQQLKDKTSLRKYVALVHGEIPHEKGTINAPIGRSKENR-KMQVI-----REDGKSAVTH 209
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ V+E G LVE +LETGRTHQ+ + K P
Sbjct: 210 FTVLERFE--GFTLVELKLETGRTHQIRVHMKYIGYP 244
>gi|336307721|gb|AEI50823.1| pseudouridine synthase, RluA family [Runella slithyformis DSM
19594]
Length = 342
Score = 166 bits (420), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 104/264 (39%), Positives = 150/264 (56%), Gaps = 36/264 (13%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
+RLD ++ + I+R ++Q++I + V +N + V K S+ +K D++ T+S P R
Sbjct: 30 MRLDHYLKHHLSNITRTKLQNAIETESVKVNNKPV-KSSYKIKPLDVI--TVSMPHPPRE 86
Query: 131 E---AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCS-LPTLASSNQ 186
AE+IPL I+YED VLV+NKPA MVVHPA GN +GT+VN +++H LPT N
Sbjct: 87 TDIVAENIPLTIIYEDQEVLVLNKPAGMVVHPAYGNWSGTVVNALVYHFQHLPT--GRNG 144
Query: 187 EAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHT 246
EA RPG++HR+DK TSGLLV+AK E+S AH++ QF HT
Sbjct: 145 EA----------------------RPGLIHRIDKDTSGLLVIAKTEYSMAHIARQFFEHT 182
Query: 247 IERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILA 306
ER Y +L G P + G I I R +R M + Q +HA + YKV++
Sbjct: 183 TERTYFALVWGEPKTTEGTIVGHIGRSARDRKVMDVYEDGS---QGKHAVTHYKVLKTFK 239
Query: 307 GGGSALVEWRLETGRTHQVLMLYK 330
+LV+ LETGRTHQ+ + ++
Sbjct: 240 --YVSLVQCNLETGRTHQIRVHFQ 261
>gi|329766891|ref|ZP_08258419.1| hypothetical protein HMPREF0428_00116 [Gemella haemolysans M341]
gi|328837616|gb|EGF87241.1| hypothetical protein HMPREF0428_00116 [Gemella haemolysans M341]
Length = 299
Score = 166 bits (420), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 92/254 (36%), Positives = 141/254 (55%), Gaps = 34/254 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D ++ + +SR +Q+ I G + ++G + K ++ +K G+++ E + L
Sbjct: 15 RIDKFLQQELTDVSRTNIQNLISEGYIKVDGNNI-KTNYKLKDGNVITIEYKEPEELDVV 73
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
+DIP+DIVYEDD++++VNK MVVHP+ G+ GTLVN +L H L
Sbjct: 74 KQDIPIDIVYEDDDLIIVNKAKGMVVHPSVGHKDGTLVNALLFHSEL------------- 120
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
SSI+G +IRPGIVHR+DK TSGLL+VAK++ +H LSE ++R Y
Sbjct: 121 -----------SSING-TIRPGIVHRIDKDTSGLLIVAKNDKAHVKLSEMIANKDVKRKY 168
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+L G G I+ PI+R+P R MA I + + + + +KV++
Sbjct: 169 YALVHGSIKHDYGTIDAPIARNPKERKEMAVI------DEGKLSITHFKVVDRFE--KYT 220
Query: 312 LVEWRLETGRTHQV 325
L+E LETGRTHQ+
Sbjct: 221 LIECELETGRTHQI 234
>gi|418061568|ref|ZP_12699419.1| pseudouridine synthase, RluA family [Methylobacterium extorquens
DSM 13060]
gi|373564871|gb|EHP90949.1| pseudouridine synthase, RluA family [Methylobacterium extorquens
DSM 13060]
Length = 343
Score = 166 bits (420), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 100/259 (38%), Positives = 146/259 (56%), Gaps = 32/259 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++ D +SRAR+Q +R GLV +G VV + V G +N ++ P
Sbjct: 34 RLDRVLARVFDDLSRARLQGLVREGLVRCDGIVVRDPARKVGAGCRINLSVPAPLPAEPL 93
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E +PL +V+ED++++V++KPA +VVHPA G+ GTLVN ++ HC +
Sbjct: 94 GEALPLAVVHEDEDLIVIDKPAGLVVHPAAGHEDGTLVNRLIAHCGV------------- 140
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLH----TI 247
S S G RPGIVHRLDK TSGLLVVAK++ +H LS QF H +
Sbjct: 141 ----------SLSGIGGVRRPGIVHRLDKDTSGLLVVAKNDLAHQGLSAQFADHGRSGAL 190
Query: 248 ERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAG 307
ER Y++L VP +G I ++R +NR ++A + + G+ R A + Y+V ++
Sbjct: 191 ERAYLALVWNVPEPRAGTIRANLARSRHNREKIAVV----RDGEGREAITHYRVEDVHGE 246
Query: 308 GG-SALVEWRLETGRTHQV 325
GG +AL+ LETGRTHQ+
Sbjct: 247 GGVTALLRCHLETGRTHQI 265
>gi|148552990|ref|YP_001260572.1| ribosomal large subunit pseudouridine synthase D [Sphingomonas
wittichii RW1]
gi|148498180|gb|ABQ66434.1| ribosomal large subunit pseudouridine synthase D [Sphingomonas
wittichii RW1]
Length = 321
Score = 166 bits (420), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 101/267 (37%), Positives = 148/267 (55%), Gaps = 30/267 (11%)
Query: 60 LEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVS-INGQVVSKVSHNVKGGDMV 118
L V A RLD +++ + +SR R+++ I SG VS +G + + V G
Sbjct: 8 LHAVVPQDAEGWRLDRALAAALPTLSRERLKALISSGQVSHADGALARDPAMKVAPGARF 67
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
+ + P A+DIPL + YED++++V++KPA +VVHPA GN GTLVN +LHHC
Sbjct: 68 AVIVPDPAPAHNAAQDIPLVVAYEDEHLIVIDKPAGLVVHPAAGNPDGTLVNALLHHC-- 125
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
S S G RPGIVHR+DK TSGL+V AK + +H L
Sbjct: 126 ---------------------RGSLSGIGGVERPGIVHRIDKDTSGLMVAAKTDPAHVGL 164
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
+ QF H+I+R Y ++ +G P ++G ++ P++R +R ++A + G+ + A +
Sbjct: 165 AAQFARHSIDRRYRAIVAGTPRLAAGTVDAPLARSTADRKKIAIV----ADGRGKRAVTH 220
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQV 325
Y VIE L +ALVE RLETGRTHQV
Sbjct: 221 YSVIEPLR--RAALVECRLETGRTHQV 245
>gi|400753763|ref|YP_006562131.1| ribosomal large subunit pseudouridine synthase D [Phaeobacter
gallaeciensis 2.10]
gi|398652916|gb|AFO86886.1| ribosomal large subunit pseudouridine synthase D [Phaeobacter
gallaeciensis 2.10]
Length = 344
Score = 166 bits (419), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 103/269 (38%), Positives = 148/269 (55%), Gaps = 38/269 (14%)
Query: 72 RLDAWISSRID---GISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPL 128
RLD +S + +SR R+ I +G + +NG VVS V G ++ TI E +
Sbjct: 17 RLDKAVSRDVPEEATLSRTRLARLIEAGQLQVNGTVVSDAKAKVDEGALIEITIEEAEDS 76
Query: 129 RAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEA 188
EDIPL+++YEDD+++V+NKP MVVHPAPG +GTLVN +LHHC
Sbjct: 77 HIGPEDIPLEVIYEDDDLIVINKPTGMVVHPAPGTPSGTLVNALLHHCG----------- 125
Query: 189 FSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIE 248
+ S + G RPGIVHR+DK TSGLLVVAK + +H L+ QF+ HT+E
Sbjct: 126 -----------DNLSGVGGVK-RPGIVHRIDKETSGLLVVAKSDVAHQGLAAQFEKHTVE 173
Query: 249 RVYISLTSGVPSQSSGRIE--VPISRDPNNRIRMA---AIPGSNKHGQA------RHAAS 297
R Y ++ GVP + R+ S +P N +++ A +++ QA RHA +
Sbjct: 174 RYYRAICYGVPDANDPRLRGVKGTSFEPGNILKLTTQLARHKTDRQRQAVLFQGGRHAIT 233
Query: 298 RYKVIEILAGGG-SALVEWRLETGRTHQV 325
R ++++ AL+E LETGRTHQ+
Sbjct: 234 RARIVDSFGTPPVVALIECWLETGRTHQI 262
>gi|410458066|ref|ZP_11311830.1| pseudouridine synthase [Bacillus azotoformans LMG 9581]
gi|409931891|gb|EKN68865.1| pseudouridine synthase [Bacillus azotoformans LMG 9581]
Length = 303
Score = 166 bits (419), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 106/277 (38%), Positives = 154/277 (55%), Gaps = 32/277 (11%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
+ E T+ + R+D +S+ + SR++VQ I GLV++NG+ + K ++ K D +
Sbjct: 3 KFEATITSANENERIDKVLSTFNEEWSRSQVQQWINDGLVTVNGKDI-KGNYKCKLDDYI 61
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
I E + L E++ LDI YED +VLVVNKP MVVHPAPG+ +GTLVNG++ HC
Sbjct: 62 ELQIPEPEILDVLPEEMNLDIYYEDSDVLVVNKPKGMVVHPAPGHLSGTLVNGLMAHC-- 119
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 120 --------------KDL-------SGINGV-LRPGIVHRIDKDTSGLLMVAKNDMAHESL 157
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
+Q T+ R Y +L G S +G I+ PI RD N+R M ++K A +
Sbjct: 158 VDQLVNKTVLRKYKALVHGNISHDNGTIDAPIGRDKNDRQSMTVTDENSK-----TAVTH 212
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
++V+E VE +LETGRTHQ+ + K P
Sbjct: 213 FRVLERFK--DYTFVECQLETGRTHQIRVHMKYIGYP 247
>gi|429752649|ref|ZP_19285492.1| pseudouridine synthase, RluA family [Capnocytophaga sp. oral taxon
326 str. F0382]
gi|429176034|gb|EKY17440.1| pseudouridine synthase, RluA family [Capnocytophaga sp. oral taxon
326 str. F0382]
Length = 350
Score = 166 bits (419), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 105/274 (38%), Positives = 152/274 (55%), Gaps = 40/274 (14%)
Query: 59 QLEETVDTKAGK----LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKG 114
+L E AGK LR+D ++ + ++ +R +VQ + + G + +NG+ V K +H VK
Sbjct: 21 ELYEHYSFTAGKGQEPLRVDKFLMNFVENATRNKVQQAAKQGNIFVNGEPV-KANHRVKA 79
Query: 115 GDMVNCTISELQPLRAE---AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNG 171
D+V +S P + E+IPL+IVYED+ +LVVNKPA MVVHP GN +GTL+N
Sbjct: 80 NDVVKVLLS--HPPHEDLLVPENIPLNIVYEDEALLVVNKPAGMVVHPGHGNYSGTLINA 137
Query: 172 ILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKD 231
+++H F + +S RPG+VHR+DK TSGLLV+AK
Sbjct: 138 LVYH-------------------------FEHLPNNSSNRPGLVHRIDKDTSGLLVIAKT 172
Query: 232 EHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQ 291
E + HL++QF T +R YI+L G + G + I R +R++M P + HG
Sbjct: 173 EEAMLHLTQQFFHKTTQREYIALVWGNIEEDEGTVRGHIGRHLKDRLQMDVFPDGS-HG- 230
Query: 292 ARHAASRYKVIEILAGGGSALVEWRLETGRTHQV 325
+ A + YKV+E G LV RLETGRTHQ+
Sbjct: 231 -KEAVTHYKVLERF--GYVTLVSCRLETGRTHQI 261
>gi|225010881|ref|ZP_03701348.1| pseudouridine synthase, RluA family [Flavobacteria bacterium
MS024-3C]
gi|225004928|gb|EEG42883.1| pseudouridine synthase, RluA family [Flavobacteria bacterium
MS024-3C]
Length = 379
Score = 166 bits (419), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 100/257 (38%), Positives = 142/257 (55%), Gaps = 34/257 (13%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISEL-QPLR 129
LR+D ++ + I+ +R ++Q + + G + +N VV K ++ VK GD + +
Sbjct: 66 LRIDKYLMNFIENATRNKIQQAAKEGHIWVNDLVV-KQNYKVKAGDQIKVMFTHPPYEFL 124
Query: 130 AEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC-SLPTLASSNQEA 188
EDIPLD+VYED +++VVNKP MVVHP GN +GTL+N +L H LP
Sbjct: 125 LTPEDIPLDVVYEDSDLMVVNKPPGMVVHPGHGNYSGTLINALLFHVKDLP--------- 175
Query: 189 FSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIE 248
++ DE RPG+VHR+DK TSGLLVVAK + HL++QF T E
Sbjct: 176 ------LNADE-----------RPGLVHRIDKDTSGLLVVAKTAKAMTHLAKQFFDKTSE 218
Query: 249 RVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGG 308
R Y+++ G + G + I R P NR++MA P + Q + A + YKV+E L G
Sbjct: 219 REYVAIVWGNVEEEQGTVRGHIGRHPKNRLQMAVFPDGD---QGKEAVTHYKVMERL--G 273
Query: 309 GSALVEWRLETGRTHQV 325
LV LETGRTHQ+
Sbjct: 274 YVTLVSCVLETGRTHQI 290
>gi|379731502|ref|YP_005323698.1| RluA family pseudouridine synthase [Saprospira grandis str. Lewin]
gi|378577113|gb|AFC26114.1| pseudouridine synthase, RluA family protein [Saprospira grandis
str. Lewin]
Length = 345
Score = 166 bits (419), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 106/278 (38%), Positives = 150/278 (53%), Gaps = 38/278 (13%)
Query: 50 EPIANYAGVQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVS 109
EP+ ++ E D +RLD ++ R++ ++R++VQ I +G V++N + +K +
Sbjct: 12 EPLFDW----YEYKADPGQEPMRLDKFLMQRMERMTRSKVQRGIEAGYVTVNDKE-AKSN 66
Query: 110 HNVKGGDMVNCTISELQPLRAE--AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGT 167
+K D++ +P + E A+DIPLDI YED+ VL+V KPA MVVHP GN TGT
Sbjct: 67 QKIKPHDLIKVRWRRARP-KGEVIAQDIPLDIRYEDEEVLMVYKPAGMVVHPGVGNYTGT 125
Query: 168 LVNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLV 227
LVN + H F G PG+VHR+DK T+G+LV
Sbjct: 126 LVNALAWH-------------------------FKDLPQGNGSYPGLVHRIDKFTTGILV 160
Query: 228 VAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSN 287
VAK E + HLS+QF HTI+R Y +L G G I I RDP NR R +
Sbjct: 161 VAKTEEAIQHLSKQFFNHTIKRKYRALVWGDVEAEEGTITGHIGRDPKNRKRF-CVHEDE 219
Query: 288 KHGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQV 325
++G +HA + YKV++ G LVE +LETGRTHQ+
Sbjct: 220 EYG--KHAVTHYKVLKRF--GYVTLVECQLETGRTHQI 253
>gi|399992104|ref|YP_006572344.1| ribosomal large subunit pseudouridine synthase D [Phaeobacter
gallaeciensis DSM 17395 = CIP 105210]
gi|398656659|gb|AFO90625.1| ribosomal large subunit pseudouridine synthase D [Phaeobacter
gallaeciensis DSM 17395 = CIP 105210]
Length = 344
Score = 166 bits (419), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 103/269 (38%), Positives = 148/269 (55%), Gaps = 38/269 (14%)
Query: 72 RLDAWISSRID---GISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPL 128
RLD +S + +SR R+ I +G + +NG VVS V G ++ TI E +
Sbjct: 17 RLDKAVSRDVPEEATLSRTRLARLIEAGQLQVNGTVVSDAKAKVDEGALIEITIEEAEDS 76
Query: 129 RAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEA 188
EDIPL+++YEDD+++V+NKP MVVHPAPG +GTLVN +LHHC
Sbjct: 77 HIGPEDIPLEVIYEDDDLIVINKPTGMVVHPAPGTPSGTLVNALLHHCG----------- 125
Query: 189 FSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIE 248
+ S + G RPGIVHR+DK TSGLLVVAK + +H L+ QF+ HT+E
Sbjct: 126 -----------DNLSGVGGVK-RPGIVHRIDKETSGLLVVAKSDVAHQGLAAQFEKHTVE 173
Query: 249 RVYISLTSGVPSQSSGRIE--VPISRDPNNRIRMA---AIPGSNKHGQA------RHAAS 297
R Y ++ GVP + R+ S +P N +++ A +++ QA RHA +
Sbjct: 174 RYYRAICYGVPDANDPRLRGVKGTSFEPGNILKLTTQLARHKTDRQRQAVLFQGGRHAIT 233
Query: 298 RYKVIEILAGGG-SALVEWRLETGRTHQV 325
R ++++ AL+E LETGRTHQ+
Sbjct: 234 RARIVDSFGTPPVVALIECWLETGRTHQI 262
>gi|166031852|ref|ZP_02234681.1| hypothetical protein DORFOR_01553 [Dorea formicigenerans ATCC
27755]
gi|166028305|gb|EDR47062.1| pseudouridine synthase, RluA family [Dorea formicigenerans ATCC
27755]
Length = 302
Score = 166 bits (419), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 97/263 (36%), Positives = 152/263 (57%), Gaps = 32/263 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV+ + G R+D +++ + SR+ +Q I+ + +N + V K ++ + GD V I
Sbjct: 6 TVENEEGD-RIDRYLAEEMPERSRSYLQKLIKEQYIKVNNKPV-KANYRLVLGDRVEVCI 63
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E + E E+IPLDI+YED++V+VVNKP MVVHPAPG+ +GTLVN +++HC
Sbjct: 64 PEAKEPDIEPENIPLDILYEDEDVIVVNKPKQMVVHPAPGHYSGTLVNALMYHC------ 117
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
N+ S I+G S RPGIVHR+D T+G L++ K++ +H L+ Q
Sbjct: 118 -GNE---------------LSGINGTS-RPGIVHRIDMDTTGSLIICKNDMAHQSLAVQL 160
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
+ H+I R+Y ++ G + G + PI R P +R +M +I N AR+A + YKV+
Sbjct: 161 EEHSINRIYEAIVHGNIKEEEGTVNAPIGRHPTDRKKM-SIHAKN----ARNAITHYKVL 215
Query: 303 EILAGGGSALVEWRLETGRTHQV 325
+ G ++ +LETGRTHQ+
Sbjct: 216 KRF--GDYTYIQCKLETGRTHQI 236
>gi|339021492|ref|ZP_08645543.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase D
[Acetobacter tropicalis NBRC 101654]
gi|338751473|dbj|GAA08847.1| ribosomal RNA large subunit 23S rRNA pseudouridine synthase D
[Acetobacter tropicalis NBRC 101654]
Length = 436
Score = 166 bits (419), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 99/273 (36%), Positives = 146/273 (53%), Gaps = 29/273 (10%)
Query: 57 GVQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGD 116
G L V + R+D ++S++ +SR+RV+ I SG + + +++ + +V+ G
Sbjct: 111 GSMLTFVVQPEQAGERVDRYVSAQSGTLSRSRVKGLIESGHLQCGAKQITEPAESVRAGM 170
Query: 117 MVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC 176
+ I P + E +P +I YEDD+++V+NKPA +VVHPAPGN TGTLVNG++ HC
Sbjct: 171 ELVLHIPPATPAVPQGEAVPFEIFYEDDDLIVLNKPAGLVVHPAPGNETGTLVNGLIAHC 230
Query: 177 SLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHA 236
E I G RPGIVHRLDK TSGL+V AK E +H
Sbjct: 231 G----------------------ESLKGIGGER-RPGIVHRLDKDTSGLMVAAKTEKAHL 267
Query: 237 HLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAA 296
LS+ F I+R Y++ G P+ + G E I RD +R RM HG + A
Sbjct: 268 ALSDDFAARRIDRAYLAFCWGCPNPAEGDYEGDIGRDKRDRKRMTI----TTHG-GKWAL 322
Query: 297 SRYKVIEILAGGGSALVEWRLETGRTHQVLMLY 329
+ Y+ ++ G+ALV +L TGRTHQ+ + +
Sbjct: 323 THYRTLQAFE-MGAALVTCKLATGRTHQIRVHF 354
>gi|260438385|ref|ZP_05792201.1| ribosomal large subunit pseudouridine synthase D [Butyrivibrio
crossotus DSM 2876]
gi|292808971|gb|EFF68176.1| ribosomal large subunit pseudouridine synthase D [Butyrivibrio
crossotus DSM 2876]
Length = 316
Score = 166 bits (419), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 93/272 (34%), Positives = 148/272 (54%), Gaps = 39/272 (14%)
Query: 60 LEETVDTKAGKLRLDAWISSRIDG----ISRARVQSSIRSGLVSINGQVVSKVSHNVKGG 115
+E +D R+D ++S + SR+ +Q I +G V +N + +K + +
Sbjct: 10 IELNIDKTQEGERIDKFLSDMLSSDERTYSRSYIQKLIEAGNVCVNDKN-TKTGYKISYN 68
Query: 116 DMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHH 175
D++ I L+ + AE+IPLDIVYEDD++++VNKP MVVHP+ G+ TGTLVN +++H
Sbjct: 69 DLIKVMIPYLEDINIVAENIPLDIVYEDDDIILVNKPKGMVVHPSAGHYTGTLVNALMYH 128
Query: 176 CSLPTLASSNQEAFSDAEDISDDEEFSSSISGAS--IRPGIVHRLDKGTSGLLVVAKDEH 233
C S+++SG + +RPGIVHR+DK T+G++V K++
Sbjct: 129 C-------------------------SNNLSGINGVMRPGIVHRIDKDTTGIIVACKNDA 163
Query: 234 SHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQAR 293
+H LSEQ K H I R Y ++ + G ++ PI R P R +MA + +
Sbjct: 164 AHISLSEQLKEHNITRYYYAICHNCFKEKEGTVDAPIGRHPVERKKMAI-----NYKNGK 218
Query: 294 HAASRYKVIEILAGGGSALVEWRLETGRTHQV 325
A + Y+V+E A ++ +LETGRTHQ+
Sbjct: 219 KAVTHYEVLENFR--NFAYIKCKLETGRTHQI 248
>gi|206900390|ref|YP_002251511.1| pseudouridylate synthase [Dictyoglomus thermophilum H-6-12]
gi|206739493|gb|ACI18551.1| pseudouridylate synthase, 23S RNA-specific [Dictyoglomus
thermophilum H-6-12]
Length = 303
Score = 166 bits (419), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 97/257 (37%), Positives = 145/257 (56%), Gaps = 34/257 (13%)
Query: 69 GKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPL 128
G R+D ++S +I +SR+++Q I GL+ +N + V K S+ VK GD + + +
Sbjct: 13 GGERIDKYLSQKI-SLSRSQIQDLIDKGLIKVNEKEV-KSSYKVKVGDKIEVIVPPPEET 70
Query: 129 RAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEA 188
+ +DIP++IVYEDD+++++NKP MVVHPA G+ TLVN +L+
Sbjct: 71 EIKPQDIPIEIVYEDDDIVIINKPKGMVVHPAHGHYNDTLVNALLYRI------------ 118
Query: 189 FSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIE 248
+D+S G IRPGIVHRLDK T+GLL++AK++ SH LSEQ K ++
Sbjct: 119 ----KDLSG--------IGGEIRPGIVHRLDKDTTGLLIIAKNDVSHQRLSEQLKNRILK 166
Query: 249 RVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGG 308
R Y ++ G R+E P+ R P +R RMA +P + A + +KV+E
Sbjct: 167 RTYWAICEGEIPWEEKRVEAPLGRHPIDRKRMAIVP------YGKLAITNFKVLERFK-- 218
Query: 309 GSALVEWRLETGRTHQV 325
G L+ LETGRTHQ+
Sbjct: 219 GYTLISADLETGRTHQI 235
>gi|383788875|ref|YP_005473444.1| ribosomal large subunit pseudouridine synthase D [Caldisericum
exile AZM16c01]
gi|381364512|dbj|BAL81341.1| ribosomal large subunit pseudouridine synthase D [Caldisericum
exile AZM16c01]
Length = 303
Score = 166 bits (419), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 98/255 (38%), Positives = 141/255 (55%), Gaps = 35/255 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD I ++ +SR+ +Q I+ G V +NG +V K SH VK D+V E + L+ E
Sbjct: 12 RLDKVIEDKLPNLSRSYIQKLIKEGYVLVNGSIVEKPSHKVKVNDIVEVKEKEAEVLQVE 71
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
ED P+ IVYED+ +L+++K A + VHP T TLVN +L+H
Sbjct: 72 KEDKPIKIVYEDEYLLIIDKEAGLTVHPVGSKTTNTLVNRLLYHI--------------- 116
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
ED+S G IRPGIVHRLD+ TSGL+VVAK++ +H LSE K H I+R Y
Sbjct: 117 -EDLSQ--------IGGIIRPGIVHRLDRDTSGLMVVAKNDTAHRALSEMLKRHEIKRKY 167
Query: 252 ISLTSGVPSQSSGRIEVPISRDP-NNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
I L G + G I +P+ R+ R+R++ + + A + +KV+E + G
Sbjct: 168 ICLVKGNFKEKVGIINLPLKREQGTTRMRVSVM--------GKEAITHFKVLE--SIGPY 217
Query: 311 ALVEWRLETGRTHQV 325
L++ LETGRTHQ+
Sbjct: 218 TLLQVELETGRTHQI 232
>gi|240137515|ref|YP_002961986.1| ribosomal large subunit pseudouridine synthase D (Pseudouridylate
synthase) (Uracil hydrolyase) [Methylobacterium
extorquens AM1]
gi|240007483|gb|ACS38709.1| ribosomal large subunit pseudouridine synthase D (Pseudouridylate
synthase) (Uracil hydrolyase) [Methylobacterium
extorquens AM1]
Length = 330
Score = 166 bits (419), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 100/259 (38%), Positives = 146/259 (56%), Gaps = 32/259 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++ D +SRAR+Q +R GLV +G VV + V G +N ++ P
Sbjct: 21 RLDRVLARVFDDLSRARLQGLVREGLVRCDGIVVRDPARKVGAGCRINLSVPAPLPAEPL 80
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E +PL +V+ED++++V++KPA +VVHPA G+ GTLVN ++ HC +
Sbjct: 81 GEALPLAVVHEDEDLIVIDKPAGLVVHPAAGHEDGTLVNRLIAHCGV------------- 127
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLH----TI 247
S S G RPGIVHRLDK TSGLLVVAK++ +H LS QF H +
Sbjct: 128 ----------SLSGIGGVRRPGIVHRLDKDTSGLLVVAKNDLAHQGLSAQFADHGRSGAL 177
Query: 248 ERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAG 307
ER Y++L VP +G I ++R +NR ++A + + G+ R A + Y+V ++
Sbjct: 178 ERAYLALVWNVPEPRAGTIRANLARSRHNREKIAVV----RDGEGREAITHYRVEDVHGE 233
Query: 308 GG-SALVEWRLETGRTHQV 325
GG +AL+ LETGRTHQ+
Sbjct: 234 GGVTALLRCHLETGRTHQI 252
>gi|225572138|ref|ZP_03781002.1| hypothetical protein RUMHYD_00432 [Blautia hydrogenotrophica DSM
10507]
gi|225040404|gb|EEG50650.1| pseudouridine synthase, RluA family [Blautia hydrogenotrophica DSM
10507]
Length = 307
Score = 166 bits (419), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 99/254 (38%), Positives = 147/254 (57%), Gaps = 31/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D +++ + ISR+ Q ++ G V I+G+V +K S ++ GD + + + + E
Sbjct: 19 RIDKYLARVMPEISRSYFQKLLKDGGVFIDGKV-AKASDRLQCGDEIYFQMPKSREPDIE 77
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
ED+ LDI+YED +LV+NKP MVVHP PG+ +GTLVNG+L HC
Sbjct: 78 PEDLSLDILYEDPYLLVINKPKGMVVHPCPGHYSGTLVNGVLFHCKGQL----------- 126
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
S I+G +RPGIVHR+DK T+G LVV KD+ +H +L+ Q HTI R Y
Sbjct: 127 -----------SGINGV-LRPGIVHRIDKDTTGALVVCKDDQTHRNLAVQLAEHTITRRY 174
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++ +G S G +E PI R P +R +M+ + K+G + A + Y+V+E G +
Sbjct: 175 RAIVTGNLSADEGTVEGPIGRHPVDRKKMSI---NFKNG--KDAVTHYRVLERF--GKAT 227
Query: 312 LVEWRLETGRTHQV 325
+E RLETGRTHQ+
Sbjct: 228 YIECRLETGRTHQI 241
>gi|333377526|ref|ZP_08469260.1| hypothetical protein HMPREF9456_00855 [Dysgonomonas mossii DSM
22836]
gi|332884260|gb|EGK04528.1| hypothetical protein HMPREF9456_00855 [Dysgonomonas mossii DSM
22836]
Length = 355
Score = 166 bits (419), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 100/262 (38%), Positives = 147/262 (56%), Gaps = 30/262 (11%)
Query: 65 DTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISE 124
D G +R+D +++ I G+SR R+Q + + + +N V K ++ +K D+++ ++
Sbjct: 34 DKGQGMIRVDKYLAMHIVGVSRNRIQQAAEADCILVNNTPV-KSNYRIKPLDVISVVMNR 92
Query: 125 L-QPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
+ L EDIPLD+VYED++++V+NKP +VVHP GN GT+VN I
Sbjct: 93 PPRELEIIPEDIPLDVVYEDEDLMVINKPPGLVVHPGFGNYQGTMVNAI----------- 141
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
A + D E+ S R GIVHR+DK TSGL++VAK+ ++ HLS QF
Sbjct: 142 --------AYRLKDTPEYDSK----DPRLGIVHRIDKDTSGLILVAKNAYAKTHLSAQFF 189
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
T +R YI+L G S GRIE I R NR+ M P ++ +HA + YKV+E
Sbjct: 190 NKTTKRQYIALVWGNISDDEGRIEANIGRSLKNRMLMTVFPEAD---YGKHAVTHYKVLE 246
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
L G L++ RLETGRTHQ+
Sbjct: 247 RL--GYVTLIQCRLETGRTHQI 266
>gi|328957532|ref|YP_004374918.1| pseudouridylate synthase [Carnobacterium sp. 17-4]
gi|328673856|gb|AEB29902.1| pseudouridylate synthase [Carnobacterium sp. 17-4]
Length = 301
Score = 166 bits (419), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 103/264 (39%), Positives = 148/264 (56%), Gaps = 33/264 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++ + I+R+ +Q I+ G VS+NG+ + K ++ V+ GD + EL L
Sbjct: 15 RLDKVLTDLLPSITRSHIQQWIKEGNVSVNGEKM-KANYKVQPGDEIAIVEPELVSLEVL 73
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AEDIP++IVY+D++V+VVNK MVVHP+ G+ TGTLVN ++HH +
Sbjct: 74 AEDIPIEIVYQDEDVVVVNKAQGMVVHPSAGHQTGTLVNALMHHIT-------------- 119
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
D+ S I+G +IRPGIVHR+DK TSGLL+VAK++ +H L+ Q K T R Y
Sbjct: 120 --DL-------SGING-TIRPGIVHRIDKDTSGLLMVAKNDAAHEKLAAQLKDKTSLREY 169
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
I+L GV G I+ P+ R +R + I G R A + + V+E
Sbjct: 170 IALVHGVIPHEKGTIDAPLGRSKQDRKKQDIIDG------GRAAVTHFTVLERFK--DFT 221
Query: 312 LVEWRLETGRTHQVLMLYKLFYIP 335
LV +LETGRTHQ+ + K P
Sbjct: 222 LVSLKLETGRTHQIRVHMKYIGYP 245
>gi|319898406|ref|YP_004158499.1| ribosomal large subunit pseudouridine synthase D [Bartonella
clarridgeiae 73]
gi|319402370|emb|CBI75909.1| ribosomal large subunit pseudouridine synthase D [Bartonella
clarridgeiae 73]
Length = 335
Score = 166 bits (419), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 95/264 (35%), Positives = 153/264 (57%), Gaps = 35/264 (13%)
Query: 72 RLDAWISSRIDG-ISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
R+D W++ + G ISR+R+Q+ IR G + I+GQ++ + +K ++ I R
Sbjct: 16 RIDQWLAKQYKGEISRSRLQTLIREGHLKIDGQLIKEPKTKLKSNQIIELIIPAPNDARP 75
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
+ E + LDI +EDD+V+V+NKPA +VVHP GN TGTLVN +++HCS
Sbjct: 76 QGEALALDIFFEDDHVIVINKPAGLVVHPGNGNWTGTLVNALIYHCS------------- 122
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLH----T 246
+ S I G RPGIVHRLDK TSG++V+AK++ +H +L+ QF H
Sbjct: 123 ---------DSLSGIGGIK-RPGIVHRLDKDTSGVMVIAKNDIAHRNLNAQFADHGRTSA 172
Query: 247 IERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILA 306
++R Y ++ G P+++ I+ ++R ++R + A + ++H ARHA + + ++E
Sbjct: 173 LDRRYHAIIWGSPNRNIATIDTFLARSSHDRTKRAVV--HSEHANARHAITHFSLLEKYG 230
Query: 307 GGG-----SALVEWRLETGRTHQV 325
++L+E RLETGRTHQ+
Sbjct: 231 TCNDTTPFASLLECRLETGRTHQI 254
>gi|317129279|ref|YP_004095561.1| pseudouridine synthase [Bacillus cellulosilyticus DSM 2522]
gi|315474227|gb|ADU30830.1| pseudouridine synthase, RluA family [Bacillus cellulosilyticus DSM
2522]
Length = 305
Score = 166 bits (419), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 105/278 (37%), Positives = 149/278 (53%), Gaps = 33/278 (11%)
Query: 58 VQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDM 117
++L E + G +R+D +IS SR +Q I + +NG + K + VK GD
Sbjct: 1 MELYEITSEENG-VRIDKFISDHFPQWSRTIIQQWIVDNHIQVNGTPI-KSKYKVKAGDH 58
Query: 118 VNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCS 177
+ + PL AE++ LDI+YED +VLVVNKP MVVHPAPG+ TGTLVNG+++HC
Sbjct: 59 IEIREPDPIPLEIPAENLNLDIIYEDGDVLVVNKPRGMVVHPAPGHYTGTLVNGLMYHC- 117
Query: 178 LPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAH 237
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H
Sbjct: 118 ---------------HDL-------SGINGV-MRPGIVHRIDKDTSGLLMVAKNDRAHES 154
Query: 238 LSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAAS 297
L Q K +R Y ++ SG+ G I+ PI R+P +R M + +R A +
Sbjct: 155 LVNQLKNKETKRRYYAIVSGIIPHDKGTIDAPIGRNPEDRQSMMVTEKN-----SRDAVT 209
Query: 298 RYKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
++V+E LV LETGRTHQ+ + K P
Sbjct: 210 HFQVVERFY--RHTLVSCELETGRTHQIRVHLKYIGFP 245
>gi|77406381|ref|ZP_00783442.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Streptococcus agalactiae H36B]
gi|77175005|gb|EAO77813.1| ribosomal large subunit pseudouridine synthase, RluD subfamily
[Streptococcus agalactiae H36B]
Length = 296
Score = 166 bits (419), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 100/262 (38%), Positives = 150/262 (57%), Gaps = 34/262 (12%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
+ K +RLD ++ + +SR++ I+ G+V +NGQV K + V+ GD + I
Sbjct: 3 ITIKVAGVRLDKALADNSE-LSRSQANEEIKKGIVLVNGQV-KKAKYTVQEGDRITFDIP 60
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
+ + L +AE+IPLDI+Y+DD+V VVNKP MVVHP+ G+++GTLVN +++H
Sbjct: 61 KKEVLDYQAENIPLDIIYQDDDVAVVNKPQGMVVHPSAGHSSGTLVNALMYHI------- 113
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
+D+ SSI+G +RPGIVHR+DK TSGLL+VAK++ +H L+E+ K
Sbjct: 114 ---------KDL-------SSINGV-VRPGIVHRIDKDTSGLLMVAKNDRAHQVLAEELK 156
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
R Y+++ G G IE PI R +R + A + + A +R+ V+E
Sbjct: 157 DKKSLRKYLAIVHGNLPNDQGVIEAPIGRSDKDRKKQAVT------AKGKPAVTRFHVLE 210
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
G LVE LETGRTHQ+
Sbjct: 211 RF--GDYTLVELSLETGRTHQI 230
>gi|414074219|ref|YP_006999436.1| ribosomal large subunit pseudouridine synthase D [Lactococcus
lactis subsp. cremoris UC509.9]
gi|413974139|gb|AFW91603.1| ribosomal large subunit pseudouridine synthase D [Lactococcus
lactis subsp. cremoris UC509.9]
Length = 301
Score = 166 bits (419), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 99/255 (38%), Positives = 149/255 (58%), Gaps = 34/255 (13%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
LRLD ++++ + SR+ + I++ V +N + K + VK GD + I + + L
Sbjct: 13 LRLDKALANQTE-YSRSLLTELIKNDKVFVNNEA-KKAKYKVKTGDRIEFEIPQAEVLDV 70
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
AED+PL+I+YED +V VVNKP MVVHPA G+A+GTLVN I++H
Sbjct: 71 AAEDLPLEIIYEDSDVAVVNKPQGMVVHPAAGHASGTLVNAIMYHI-------------- 116
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
+D+ SSI+G IRPGIVHR+DK TSGLL++AK++ +H L++Q K T +R
Sbjct: 117 --KDL-------SSINGV-IRPGIVHRIDKDTSGLLMIAKNDKAHESLADQLKDKTSKRR 166
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y+++ G + G IE PI R+ +R + A + G + A + ++V+E G
Sbjct: 167 YLAIVHGELANDKGTIEAPIGRNLKDRKKQAVVSG------GKPAVTHFEVLERFV--GY 218
Query: 311 ALVEWRLETGRTHQV 325
L+ RLETGRTHQ+
Sbjct: 219 TLIALRLETGRTHQI 233
>gi|118586926|ref|ZP_01544359.1| pseudouridylate synthases, 23S RNA-specific [Oenococcus oeni ATCC
BAA-1163]
gi|421185002|ref|ZP_15642416.1| ribosomal large subunit pseudouridine synthase D [Oenococcus oeni
AWRIB318]
gi|421187233|ref|ZP_15644609.1| ribosomal large subunit pseudouridine synthase D [Oenococcus oeni
AWRIB418]
gi|118432653|gb|EAV39386.1| pseudouridylate synthases, 23S RNA-specific [Oenococcus oeni ATCC
BAA-1163]
gi|399964060|gb|EJN98715.1| ribosomal large subunit pseudouridine synthase D [Oenococcus oeni
AWRIB418]
gi|399965449|gb|EJO00022.1| ribosomal large subunit pseudouridine synthase D [Oenococcus oeni
AWRIB318]
Length = 308
Score = 166 bits (419), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 102/266 (38%), Positives = 145/266 (54%), Gaps = 36/266 (13%)
Query: 60 LEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
LE T+ ++G RLD +++ SR +++ I V +NG+ V + V+ GD V
Sbjct: 11 LESTIVNQSG--RLDKILATDFSAFSRNQIKKLIDQDRVIVNGKPVL-AKYLVQDGDHVV 67
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
+ ++ E IPLDIVYEDD+++VVNKP MVVHP+ G++ TLVN +L H L
Sbjct: 68 IKVPPVKKTELLPEKIPLDIVYEDDDLIVVNKPQGMVVHPSAGHSEHTLVNALLSHAPL- 126
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
S+I+G RPGIVHR+DK TSGLL+VAK+ +H HLS
Sbjct: 127 -----------------------STING-EFRPGIVHRIDKDTSGLLMVAKNNFAHEHLS 162
Query: 240 EQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRY 299
K H R Y+++ G S+ G I+ PI RDP NR + A + R A + +
Sbjct: 163 LDLKSHKTGRKYLAIVHGNFSEKRGTIKAPIDRDPKNRQKQAVV------ANGREAITHF 216
Query: 300 KVIEILAGGGSALVEWRLETGRTHQV 325
KV+E + +L+E LETGRTHQ+
Sbjct: 217 KVLESFS--NYSLIEAVLETGRTHQI 240
>gi|33864373|ref|NP_895933.1| pseudouridylate synthase specific to ribosomal large subunit
[Prochlorococcus marinus str. MIT 9313]
gi|33641153|emb|CAE22283.1| putative pseudouridylate synthase specific to ribosomal large
subunit [Prochlorococcus marinus str. MIT 9313]
Length = 324
Score = 165 bits (418), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 98/261 (37%), Positives = 146/261 (55%), Gaps = 34/261 (13%)
Query: 67 KAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQ 126
K +RLD W+ S+ SR+ +Q I +GLV +NG + + ++ GD V + +
Sbjct: 24 KPLPMRLDRWLVSQRSEQSRSHIQKFIEAGLVRVNG-ITGRAKTPLRQGDEVELWMPPPE 82
Query: 127 PL-RAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCS-LPTLASS 184
PL + E++PLD+++ED +++V+NKPA + VHPAPGN GTLVNG+LHHCS LP
Sbjct: 83 PLPYLQPEEMPLDVLFEDRHLIVINKPAGLTVHPAPGNRNGTLVNGLLHHCSDLP----- 137
Query: 185 NQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKL 244
ISG +RPGIVHRLDK T+G +V+AK + + L EQ +
Sbjct: 138 -------------------GISG-KLRPGIVHRLDKDTTGCIVIAKSQEALVKLQEQIQK 177
Query: 245 HTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEI 304
R Y+++ G PS G I I R P +R + A + RHA + + ++E
Sbjct: 178 RIASRNYLAVVHGAPSGDQGTIVAAIGRHPVDRKKYAVVTEDG----GRHACTHWTLVER 233
Query: 305 LAGGGSALVEWRLETGRTHQV 325
LA +L+ ++L+TGRTHQ+
Sbjct: 234 LA--DYSLLRFKLDTGRTHQI 252
>gi|383450573|ref|YP_005357294.1| 23S rRNA pseudouridine synthase [Flavobacterium indicum GPTSA100-9]
gi|380502195|emb|CCG53237.1| Probable 23S rRNA pseudouridine synthase [Flavobacterium indicum
GPTSA100-9]
Length = 344
Score = 165 bits (418), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 106/257 (41%), Positives = 145/257 (56%), Gaps = 34/257 (13%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLR- 129
LR+D ++ + ID +R ++Q + SG + +N V K ++ VK D+V + E P
Sbjct: 29 LRIDKFLMNVIDNTTRNKIQKAADSGNILVN-DVAVKSNYKVKPNDVVRVML-EHPPYEH 86
Query: 130 -AEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEA 188
+ E+IP+DIVYED+ VLVVNKPA MVVHP GN +GTLVN + +H
Sbjct: 87 LLKGENIPIDIVYEDEQVLVVNKPAGMVVHPGHGNYSGTLVNALAYH------------- 133
Query: 189 FSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIE 248
F + +S RPG+VHR+DK TSGLLVVAK EH+ HL++QF T E
Sbjct: 134 ------------FDNLPMNSSERPGLVHRIDKDTSGLLVVAKTEHAMNHLTKQFAEKTSE 181
Query: 249 RVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGG 308
R Y+++ G + G IE I R NR++MA P K + A + YKVIE L G
Sbjct: 182 REYVAIVWGNIEEEEGTIEGNIDRHQTNRMQMAVYPDGEK---GKPAVTHYKVIERL--G 236
Query: 309 GSALVEWRLETGRTHQV 325
+V +LETGRTHQ+
Sbjct: 237 YVTVVSCKLETGRTHQI 253
>gi|365888371|ref|ZP_09427141.1| pseudouridine synthase (pseudouridines 1911, 1915, 1917 in 23S RNA)
[Bradyrhizobium sp. STM 3809]
gi|365335954|emb|CCD99672.1| pseudouridine synthase (pseudouridines 1911, 1915, 1917 in 23S RNA)
[Bradyrhizobium sp. STM 3809]
Length = 331
Score = 165 bits (418), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 103/270 (38%), Positives = 153/270 (56%), Gaps = 42/270 (15%)
Query: 69 GKLRLDAWISSRIDGISRARVQSSIRSGLVSIN-----GQVVSKVSHNVKGGDMVNCTIS 123
G RLD +++R+ +SR+R+++ I +G VS+ + V +++V GD + +
Sbjct: 10 GSPRLDRVLAARLPELSRSRLKALILAGQVSLGSGRPGAEAVRDPAYHVAAGDTITIDVP 69
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
E P AE IPLDIVYEDD+++V++KP+ +VVHPA G+ +GTLVN ++ HC
Sbjct: 70 EAAPPAPAAEAIPLDIVYEDDDIIVIDKPSGLVVHPAAGHESGTLVNALIAHCG------ 123
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
S S G RPGIVHRLDK T+GL+VVAK++H+HA LS QF
Sbjct: 124 -----------------ASLSGIGGVRRPGIVHRLDKDTTGLMVVAKNDHAHASLSAQFA 166
Query: 244 LH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRY 299
H +ER Y++ G+P + G + PI R P+ R +MA P + R A + Y
Sbjct: 167 DHGRTGAMERGYLAFAWGLPHRPHGTVNAPIDRHPHARDKMAVRP------RGREAITHY 220
Query: 300 KVIEILAGGG----SALVEWRLETGRTHQV 325
+V+E +G ++L+ LETGRTHQ+
Sbjct: 221 EVMESFSGRDGKPVASLIACHLETGRTHQI 250
>gi|308274565|emb|CBX31164.1| Uncharacterized RNA pseudouridine synthase ylyB [uncultured
Desulfobacterium sp.]
Length = 335
Score = 165 bits (418), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 103/261 (39%), Positives = 143/261 (54%), Gaps = 32/261 (12%)
Query: 65 DTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISE 124
D +RLD +SS I SR+ S I G +++ Q+ K + VK GD + TI +
Sbjct: 28 DESVSGIRLDIVVSSYIPLCSRSIAASLINKGKITVCNQI-KKQGYKVKFGDKITGTIPD 86
Query: 125 LQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASS 184
+P+ E I L+I+YED +++V+NKP +V HPAPG+ +GTLVN +L HC P L
Sbjct: 87 PEPVSFLPEPIELNILYEDSDIIVINKPPGIVAHPAPGHYSGTLVNALLFHC--PDLTGI 144
Query: 185 NQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKL 244
G IRPGIVHRLDK TSG LVVAK++ SH +L QFK
Sbjct: 145 ----------------------GGEIRPGIVHRLDKDTSGALVVAKNDISHTNLCLQFKE 182
Query: 245 HTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEI 304
I + Y++L G P SG I +PI R P+NR +M+ + + + A + +KVIE
Sbjct: 183 RRIRKKYLALVWGNPEHDSGSITLPIGRHPSNRKKMSVL-----TRKPKTAETLWKVIER 237
Query: 305 LAGGGSALVEWRLETGRTHQV 325
+L E L+TGRTHQ+
Sbjct: 238 YK--SVSLWEIDLKTGRTHQI 256
>gi|424840942|ref|ZP_18265567.1| pseudouridine synthase, RluA family [Saprospira grandis DSM 2844]
gi|395319140|gb|EJF52061.1| pseudouridine synthase, RluA family [Saprospira grandis DSM 2844]
Length = 345
Score = 165 bits (418), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 105/278 (37%), Positives = 146/278 (52%), Gaps = 38/278 (13%)
Query: 50 EPIANYAGVQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVS 109
EP+ ++ E D +RLD ++ R++ ++R++VQ I +G V++N + +K +
Sbjct: 12 EPLFDW----YEYKADPGQEPMRLDKFLMQRMERMTRSKVQRGIDAGYVTVN-EKEAKSN 66
Query: 110 HNVKGGDMVNCTISELQPLRAE--AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGT 167
+K D++ +P + E A+DIPLDI YED+ VL+V KPA MVVHP GN TGT
Sbjct: 67 QKIKPHDLIKVRWRRARP-KGEVIAQDIPLDIRYEDEEVLMVYKPAGMVVHPGVGNYTGT 125
Query: 168 LVNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLV 227
LVN + H F G PG+VHR+DK T+G+LV
Sbjct: 126 LVNALAWH-------------------------FKDLPQGNGSYPGLVHRIDKFTTGVLV 160
Query: 228 VAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSN 287
VAK E + HLS+QF HTI+R Y +L G G I I RDP NR R
Sbjct: 161 VAKTEEAIQHLSKQFFDHTIKRKYRALVWGDVEAEEGTITGHIGRDPKNRKRFCVYEDEE 220
Query: 288 KHGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQV 325
+HA + YKV++ G LVE +LETGRTHQ+
Sbjct: 221 ---YGKHAVTHYKVLKRF--GYVTLVECQLETGRTHQI 253
>gi|326803607|ref|YP_004321425.1| putative ribosomal large subunit pseudouridine synthase D
[Aerococcus urinae ACS-120-V-Col10a]
gi|326650706|gb|AEA00889.1| putative ribosomal large subunit pseudouridine synthase D
[Aerococcus urinae ACS-120-V-Col10a]
Length = 315
Score = 165 bits (418), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 99/255 (38%), Positives = 138/255 (54%), Gaps = 29/255 (11%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
LRLD ++S R+D SR+ + I++G V +N QVV K S+ + D ++ I E Q L
Sbjct: 14 LRLDRYLSQRLDSYSRSEIAQWIKTGQVKVNKQVV-KPSYRLNPMDKISLAIEEEQKLPI 72
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
E E + LDIVYED ++LV+NK MVVHP+ G+ +GTLVN +L A N S
Sbjct: 73 EGESLDLDIVYEDKDLLVINKAKGMVVHPSKGHLSGTLVNALL------AYAQKNHFTLS 126
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
D G RPGIVHRLDK TSGL+VVAK + ++ L E H ++R
Sbjct: 127 DL--------------GDYYRPGIVHRLDKDTSGLMVVAKSDPAYQALLEDLANHQLDRK 172
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y++L G G I++P+ R P +R+R P + A + +K +I
Sbjct: 173 YLALIYGHLPDKQGTIDIPLRRHPKDRMRYVGDP------LGKEAVTHFK--QIAQVENY 224
Query: 311 ALVEWRLETGRTHQV 325
AL+ LETGRTHQ+
Sbjct: 225 ALLRLSLETGRTHQI 239
>gi|317968170|ref|ZP_07969560.1| pseudouridylate synthase, 23S RNA-specific [Synechococcus sp.
CB0205]
Length = 325
Score = 165 bits (418), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 98/261 (37%), Positives = 144/261 (55%), Gaps = 34/261 (13%)
Query: 67 KAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQ 126
K +RLD W+ ++ SRAR+Q I +G V +NG V + ++ D V + +
Sbjct: 18 KPLPMRLDRWLVAQRPEQSRARIQKFIDAGYVRVNG-VTGRAKTPLRLNDTVELWMPPPE 76
Query: 127 PLRAE-AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC-SLPTLASS 184
PL +DIPLD++YED++++V+NKPA + VHPAPGN GTLVNG+LHHC LP +
Sbjct: 77 PLPYLIPQDIPLDVLYEDEHLIVLNKPAGLTVHPAPGNKDGTLVNGLLHHCPDLPGI--- 133
Query: 185 NQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKL 244
G +RPGIVHRLDK T+G +VVAK + + L Q +
Sbjct: 134 ----------------------GGEMRPGIVHRLDKDTTGCIVVAKSQEALVKLQVQIQK 171
Query: 245 HTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEI 304
R Y+++ G P+ +G I I R P +R + A + G RHA + + ++E
Sbjct: 172 RVASREYLAVVHGAPAGDNGTIVGAIGRHPADRKKYAVV----HDGSGRHACTHWTLLER 227
Query: 305 LAGGGSALVEWRLETGRTHQV 325
L G AL+ ++L+TGRTHQ+
Sbjct: 228 L--GDYALMRFKLDTGRTHQI 246
>gi|402306254|ref|ZP_10825305.1| pseudouridine synthase, RluA family [Prevotella sp. MSX73]
gi|400380021|gb|EJP32850.1| pseudouridine synthase, RluA family [Prevotella sp. MSX73]
Length = 367
Score = 165 bits (418), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 104/265 (39%), Positives = 146/265 (55%), Gaps = 33/265 (12%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
VD +R+D +++ + SR R+QS+ +G + +NG+ V K ++ V+ GD+V +
Sbjct: 39 VDAGQAPVRIDKFLTEKNPHQSRNRIQSAADAGFIRVNGRPV-KSNYKVRPGDVVTLMLD 97
Query: 124 ELQ-PLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC-SLPTL 181
+ EDIPL +VYEDD ++V+NKPA MVVHP GN TGTL+N + ++ LPT
Sbjct: 98 RPKHDTSIVPEDIPLAVVYEDDGLMVINKPAGMVVHPGAGNFTGTLINAVAYYLKDLPTF 157
Query: 182 ASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQ 241
+++ E G+VHR+DK TSGLLVVAK + L +Q
Sbjct: 158 DANSPEV------------------------GLVHRIDKDTSGLLVVAKTPEAKTCLGKQ 193
Query: 242 FKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAI-PGSNKHGQARHAASRYK 300
F T R Y +L G GRIE I+RDP NR+RM P S G + A + Y+
Sbjct: 194 FFNKTTHRSYNALVWGNIVDDEGRIEGNIARDPRNRLRMKVFAPDS---GIGKSAVTHYR 250
Query: 301 VIEILAGGGSALVEWRLETGRTHQV 325
V+E G + LVE RLETGRTHQ+
Sbjct: 251 VLERF--GYTTLVECRLETGRTHQI 273
>gi|116491102|ref|YP_810646.1| ribosomal large subunit pseudouridine synthase D [Oenococcus oeni
PSU-1]
gi|290890605|ref|ZP_06553676.1| hypothetical protein AWRIB429_1066 [Oenococcus oeni AWRIB429]
gi|419757659|ref|ZP_14283990.1| ribosomal large subunit pseudouridine synthase D [Oenococcus oeni
AWRIB304]
gi|419857648|ref|ZP_14380353.1| ribosomal large subunit pseudouridine synthase D [Oenococcus oeni
AWRIB202]
gi|419858333|ref|ZP_14381006.1| ribosomal large subunit pseudouridine synthase D [Oenococcus oeni
DSM 20252 = AWRIB129]
gi|421187322|ref|ZP_15644682.1| ribosomal large subunit pseudouridine synthase D [Oenococcus oeni
AWRIB419]
gi|421189764|ref|ZP_15647078.1| ribosomal large subunit pseudouridine synthase D [Oenococcus oeni
AWRIB422]
gi|421190779|ref|ZP_15648063.1| ribosomal large subunit pseudouridine synthase D [Oenococcus oeni
AWRIB548]
gi|421193699|ref|ZP_15650945.1| ribosomal large subunit pseudouridine synthase D [Oenococcus oeni
AWRIB553]
gi|421194793|ref|ZP_15652009.1| ribosomal large subunit pseudouridine synthase D [Oenococcus oeni
AWRIB568]
gi|421195995|ref|ZP_15653187.1| ribosomal large subunit pseudouridine synthase D [Oenococcus oeni
AWRIB576]
gi|116091827|gb|ABJ56981.1| ribosomal large subunit pseudouridine synthase D [Oenococcus oeni
PSU-1]
gi|290479733|gb|EFD88386.1| hypothetical protein AWRIB429_1066 [Oenococcus oeni AWRIB429]
gi|399905617|gb|EJN93054.1| ribosomal large subunit pseudouridine synthase D [Oenococcus oeni
AWRIB304]
gi|399969121|gb|EJO03544.1| ribosomal large subunit pseudouridine synthase D [Oenococcus oeni
AWRIB419]
gi|399971858|gb|EJO06097.1| ribosomal large subunit pseudouridine synthase D [Oenococcus oeni
AWRIB553]
gi|399972854|gb|EJO07053.1| ribosomal large subunit pseudouridine synthase D [Oenococcus oeni
AWRIB422]
gi|399973475|gb|EJO07640.1| ribosomal large subunit pseudouridine synthase D [Oenococcus oeni
AWRIB548]
gi|399977186|gb|EJO11177.1| ribosomal large subunit pseudouridine synthase D [Oenococcus oeni
AWRIB568]
gi|399978149|gb|EJO12110.1| ribosomal large subunit pseudouridine synthase D [Oenococcus oeni
AWRIB576]
gi|410497632|gb|EKP89103.1| ribosomal large subunit pseudouridine synthase D [Oenococcus oeni
AWRIB202]
gi|410498769|gb|EKP90214.1| ribosomal large subunit pseudouridine synthase D [Oenococcus oeni
DSM 20252 = AWRIB129]
Length = 304
Score = 165 bits (418), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 102/266 (38%), Positives = 145/266 (54%), Gaps = 36/266 (13%)
Query: 60 LEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
LE T+ ++G RLD +++ SR +++ I V +NG+ V + V+ GD V
Sbjct: 7 LESTIVNQSG--RLDKILATDFSAFSRNQIKKLIDQDRVIVNGKPVL-AKYLVQDGDHVV 63
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
+ ++ E IPLDIVYEDD+++VVNKP MVVHP+ G++ TLVN +L H L
Sbjct: 64 IKVPPVKKTELLPEKIPLDIVYEDDDLIVVNKPQGMVVHPSAGHSEHTLVNALLSHAPL- 122
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
S+I+G RPGIVHR+DK TSGLL+VAK+ +H HLS
Sbjct: 123 -----------------------STING-EFRPGIVHRIDKDTSGLLMVAKNNFAHEHLS 158
Query: 240 EQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRY 299
K H R Y+++ G S+ G I+ PI RDP NR + A + R A + +
Sbjct: 159 LDLKSHKTGRKYLAIVHGNFSEKRGTIKAPIDRDPKNRQKQAVV------ANGREAITHF 212
Query: 300 KVIEILAGGGSALVEWRLETGRTHQV 325
KV+E + +L+E LETGRTHQ+
Sbjct: 213 KVLESFS--NYSLIEAVLETGRTHQI 236
>gi|254559695|ref|YP_003066790.1| ribosomal large subunit pseudouridine synthase D [Methylobacterium
extorquens DM4]
gi|254266973|emb|CAX22773.1| ribosomal large subunit pseudouridine synthase D (Pseudouridylate
synthase) (Uracil hydrolyase) [Methylobacterium
extorquens DM4]
Length = 330
Score = 165 bits (418), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 99/259 (38%), Positives = 146/259 (56%), Gaps = 32/259 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++ D +SRAR+Q +R GLV +G VV + V G ++ ++ P
Sbjct: 21 RLDRVLARVFDDLSRARLQGLVREGLVRCDGIVVRDPARKVGAGSRIDLSVPAPLPAEPL 80
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E +PL +V+ED++++V++KPA +VVHPA G+ GTLVN ++ HC +
Sbjct: 81 GEALPLAVVHEDEDLIVIDKPAGLVVHPAAGHEDGTLVNRLIAHCGV------------- 127
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLH----TI 247
S S G RPGIVHRLDK TSGLLVVAK++ +H LS QF H +
Sbjct: 128 ----------SLSGIGGVRRPGIVHRLDKDTSGLLVVAKNDLAHQGLSAQFADHGRSGAL 177
Query: 248 ERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAG 307
ER Y++L VP +G I ++R +NR ++A + + G+ R A + Y+V ++
Sbjct: 178 ERAYLALVWNVPEPRAGTIRANLARSRHNREKIAVV----REGEGREAITHYRVEDVHGE 233
Query: 308 GG-SALVEWRLETGRTHQV 325
GG +AL+ LETGRTHQ+
Sbjct: 234 GGVTALLRCHLETGRTHQI 252
>gi|410462720|ref|ZP_11316282.1| dephospho-CoA kinase [Desulfovibrio magneticus str. Maddingley
MBC34]
gi|409984172|gb|EKO40499.1| dephospho-CoA kinase [Desulfovibrio magneticus str. Maddingley
MBC34]
Length = 570
Score = 165 bits (418), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 100/265 (37%), Positives = 147/265 (55%), Gaps = 33/265 (12%)
Query: 63 TVDTKAGKLRLDAWISSRI--DGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNC 120
T A RLDA+ S+R+ +SR +V+++I +GLV ++G++ K ++GG+ +
Sbjct: 34 TAVVDAAGTRLDAFWSARLADKDVSRGKVRAAIEAGLVLVDGEICRKPGLKLRGGETLTL 93
Query: 121 TISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPT 180
T+ E P A+AED L ++Y D +VLV+NKPA + +HPAP GTLVN +LHH
Sbjct: 94 TLPE-TPSEAKAEDGDLKLLYLDGDVLVLNKPAGLTIHPAPSQPEGTLVNRLLHH----- 147
Query: 181 LASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSE 240
F D ++ D RPGIVHRLDK TSGLL+VA E + L+
Sbjct: 148 --------FPDMRAMAGD------------RPGIVHRLDKDTSGLLLVALTESARLALAA 187
Query: 241 QFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYK 300
F + + Y++L G P + G IE+PI RDP + +MA + K G R A S +K
Sbjct: 188 DFAERRVSKTYLALVHGRPERPDGVIELPIGRDPKHPTKMAVV---AKGG--REARSSWK 242
Query: 301 VIEILAGGGSALVEWRLETGRTHQV 325
+ G ++L+E + TGRTHQ+
Sbjct: 243 LAWTAPDGSASLLEVTIATGRTHQI 267
>gi|346306277|ref|ZP_08848435.1| hypothetical protein HMPREF9457_00144 [Dorea formicigenerans
4_6_53AFAA]
gi|345900082|gb|EGX69910.1| hypothetical protein HMPREF9457_00144 [Dorea formicigenerans
4_6_53AFAA]
Length = 304
Score = 165 bits (418), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 97/263 (36%), Positives = 151/263 (57%), Gaps = 32/263 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV+ + G R+D +++ + SR+ +Q I+ + +N + V K ++ + GD V I
Sbjct: 6 TVENEEGD-RIDRYLAEEMPERSRSYLQKLIKKQYIKVNNKPV-KANYRLVLGDRVEVCI 63
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E + E+IPLDI+YED++V+VVNKP MVVHPAPG+ +GTLVN +++HC
Sbjct: 64 PEAKEPDINPENIPLDILYEDEDVIVVNKPKQMVVHPAPGHYSGTLVNALMYHC------ 117
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
N+ S I+G S RPGIVHR+D T+G L++ K++ +H L+ Q
Sbjct: 118 -GNE---------------LSGINGTS-RPGIVHRIDMDTTGSLIICKNDMAHQSLAVQL 160
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
K H+I R+Y ++ G + G + PI R P +R +M +I N AR+A + YKV+
Sbjct: 161 KEHSINRIYEAIVHGNIKEEEGTVNAPIGRHPTDRKKM-SIHAKN----ARNAITHYKVL 215
Query: 303 EILAGGGSALVEWRLETGRTHQV 325
+ G ++ +LETGRTHQ+
Sbjct: 216 KRF--GNYTYIQCKLETGRTHQI 236
>gi|358067453|ref|ZP_09153932.1| hypothetical protein HMPREF9333_00813 [Johnsonella ignava ATCC
51276]
gi|356694369|gb|EHI56031.1| hypothetical protein HMPREF9333_00813 [Johnsonella ignava ATCC
51276]
Length = 299
Score = 165 bits (418), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 91/254 (35%), Positives = 146/254 (57%), Gaps = 32/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD++++S G SR+ +Q I+ G + +N + SK S+ V+ GD++ ++ + + +
Sbjct: 14 RLDSYVNSLGLGFSRSYIQKLIKDGSLLVNA-LASKSSYKVETGDIITFSVPDEEEIEII 72
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
A+DIPLDI YED+++LVVNKP MVVHPA G T TLVN +L+HC SD
Sbjct: 73 AQDIPLDIYYEDEDMLVVNKPKDMVVHPAAGRYTSTLVNALLYHCG---------NNLSD 123
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
I +RPGIVHR+DK T+GLL++ K ++ +S Q + H+I+R+Y
Sbjct: 124 MNSI--------------LRPGIVHRIDKDTTGLLLICKTNTAYVSISAQLRAHSIKRLY 169
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++ G+ ++ G I+ PI R +R +MA + + A + Y+V++
Sbjct: 170 KAIVCGIVNEDEGIIDKPIGRHNIDRKKMAVV------DDGKEAITHYRVLKRFK--NHT 221
Query: 312 LVEWRLETGRTHQV 325
+E +L+TGRTHQ+
Sbjct: 222 YIECQLKTGRTHQI 235
>gi|261417496|ref|YP_003251179.1| RluA family pseudouridine synthase [Fibrobacter succinogenes subsp.
succinogenes S85]
gi|385789406|ref|YP_005820529.1| ribosomal large subunit pseudouridine synthase D [Fibrobacter
succinogenes subsp. succinogenes S85]
gi|261373952|gb|ACX76697.1| pseudouridine synthase, RluA family [Fibrobacter succinogenes
subsp. succinogenes S85]
gi|302326984|gb|ADL26185.1| ribosomal large subunit pseudouridine synthase D [Fibrobacter
succinogenes subsp. succinogenes S85]
Length = 424
Score = 165 bits (418), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 97/262 (37%), Positives = 146/262 (55%), Gaps = 31/262 (11%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
V+ K R+D ++ ++ +SR VQ I +G V + G VSK G +V +
Sbjct: 5 VEEKHNGERIDKFLVGVMENVSRTDVQKLIEAGEVKVGGGKVSKNFRVETGMAVVVEKMI 64
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
E + E EDIPL+IVYEDD+++V+NKP ++VVHP G + GTL +L+H
Sbjct: 65 EKESSTLEPEDIPLNIVYEDDDIVVINKPRNLVVHPGNGVSKGTLAAALLYHF------- 117
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
+E S+++G +RPGIVHRLDK T GL+VVAK++ +H HL+ Q +
Sbjct: 118 ---------------KENLSTVNG-PLRPGIVHRLDKDTPGLMVVAKNDAAHRHLAHQLE 161
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
T+ R Y +L G P G I+ PI R+P NR++MA + G K + + A ++ I
Sbjct: 162 TRTLHRTYNALVWGCPRDLEGTIDAPIGRNPKNRLKMAVVKGG-KESRTHYVAKQFFAI- 219
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
+ L+E +LE+GRTHQ+
Sbjct: 220 ------ATLLELQLESGRTHQI 235
>gi|209542655|ref|YP_002274884.1| RluA family pseudouridine synthase [Gluconacetobacter
diazotrophicus PAl 5]
gi|209530332|gb|ACI50269.1| pseudouridine synthase, RluA family [Gluconacetobacter
diazotrophicus PAl 5]
Length = 322
Score = 165 bits (418), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 100/263 (38%), Positives = 144/263 (54%), Gaps = 29/263 (11%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
T +T+ R D +++ + +SR+RV++ + G V +G V+ + + V+ G +
Sbjct: 11 TPETEHAGQRTDRFLADMVGTLSRSRVKALMEGGHVLRDGHVLREPADPVRAGLCYEIRM 70
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
P A+ IP I+YED +++V++KPA +VVHPAPGN GTLVN +L HC
Sbjct: 71 PPAIPATPRAQAIPFAILYEDSDLIVLDKPAGLVVHPAPGNEDGTLVNALLAHCG----- 125
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
S + G RPGIVHRLDK TSG++VVAK E +H LS+ F
Sbjct: 126 ------------------DSLTGIGGERRPGIVHRLDKDTSGVMVVAKTEQAHTALSDAF 167
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
I+R Y++L G+ S +SG E I RD +R RMA + HG +HA + Y+ +
Sbjct: 168 AARDIDRTYLALAWGILSPASGTFEGAIGRDRRDRKRMAVV----THG-GKHAMTHYRTL 222
Query: 303 EILAGGGSALVEWRLETGRTHQV 325
GG S+ VE RL TGRTHQ+
Sbjct: 223 HSFHGGISS-VECRLATGRTHQI 244
>gi|169335052|ref|ZP_02862245.1| hypothetical protein ANASTE_01458 [Anaerofustis stercorihominis DSM
17244]
gi|169257790|gb|EDS71756.1| pseudouridine synthase, RluA family [Anaerofustis stercorihominis
DSM 17244]
Length = 301
Score = 165 bits (418), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 98/265 (36%), Positives = 152/265 (57%), Gaps = 32/265 (12%)
Query: 61 EETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNC 120
E V + +R D ++S +++ SR ++ + G V +N + V K S + G+ V
Sbjct: 5 EFIVTEEKQNIRCDKFLSDKLEDFSRESLKKLFKEGEVFLNDEKV-KPSRKLIAGERVKV 63
Query: 121 TISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPT 180
+ E + L AE+IP++IVYED++V++V+KP MVVHPA GN +GTLVN +++H
Sbjct: 64 NLPEPEVLDVIAENIPINIVYEDEDVVIVDKPQGMVVHPANGNHSGTLVNALMYH----- 118
Query: 181 LASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSE 240
+D+S SI+G IRPGIVHR+DK TSGLL++AK++++H HL+
Sbjct: 119 -----------VKDLS-------SINGV-IRPGIVHRIDKDTSGLLIIAKNDNAHNHLAV 159
Query: 241 QFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYK 300
QFK H+I R Y ++ G+ ++SG I+ PI RD R M ++K A + +
Sbjct: 160 QFKEHSINRRYKTICHGIIHENSGTIDAPIGRDKIKRKEMCVTQSNSK-----RAVTHFD 214
Query: 301 VIEILAGGGSALVEWRLETGRTHQV 325
VI+ ++ LETGRTHQ+
Sbjct: 215 VIK--RYDKYTFLDVHLETGRTHQI 237
>gi|427392578|ref|ZP_18886583.1| RluA family pseudouridine synthase [Alloiococcus otitis ATCC 51267]
gi|425731258|gb|EKU94077.1| RluA family pseudouridine synthase [Alloiococcus otitis ATCC 51267]
Length = 304
Score = 165 bits (418), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 101/265 (38%), Positives = 151/265 (56%), Gaps = 34/265 (12%)
Query: 61 EETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNC 120
E +D + G RLD +S +++ +SR+++Q I++ V++NGQ V K ++ V GD V
Sbjct: 6 EVRIDQEKG--RLDKVLSDQLNDLSRSKIQDLIQTDQVTVNGQAV-KANYQVAKGDKVVL 62
Query: 121 TISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPT 180
TI +Q + EAE IP+ IVY+D ++ VVNKP +MVVHP+ G+ TLVN +L+ L
Sbjct: 63 TIPPVQEVNLEAEAIPVPIVYQDSDLAVVNKPQNMVVHPSLGHPDHTLVNALLY--QLDN 120
Query: 181 LASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSE 240
L+ N E +RPGIVHR+DK TSGLLVVAK++ +H LS+
Sbjct: 121 LSGINGE----------------------LRPGIVHRIDKDTSGLLVVAKNDLAHQSLSK 158
Query: 241 QFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYK 300
Q K T++R Y++L G G I+ PI RD +R + A + A + +
Sbjct: 159 QLKDKTVDRHYLALVHGHVPHPKGTIDAPIGRDSKDRKKYAVTEN------GKEAITHFD 212
Query: 301 VIEILAGGGSALVEWRLETGRTHQV 325
+I G +L++ +LETGRTHQ+
Sbjct: 213 LIRYF-GQDYSLIQCQLETGRTHQI 236
>gi|410455450|ref|ZP_11309330.1| pseudouridylate synthase, 23S RNA-specific [Bacillus bataviensis
LMG 21833]
gi|409929277|gb|EKN66362.1| pseudouridylate synthase, 23S RNA-specific [Bacillus bataviensis
LMG 21833]
Length = 303
Score = 165 bits (418), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 104/277 (37%), Positives = 151/277 (54%), Gaps = 33/277 (11%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
++E T+ + R+D ISS D SR +VQ I+ G + +NGQ V K ++ D +
Sbjct: 3 KMEHTILEEQKGDRIDKAISSLNDEWSRTQVQQWIKDGNILVNGQSV-KTNYKCNLNDEI 61
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
TI + + L E++ L+I YED +VLVVNKP MVVHPAPG+ +GTLVNG++ HC
Sbjct: 62 KITIPDPEELDVLPENLDLEIYYEDKDVLVVNKPRGMVVHPAPGHLSGTLVNGLMAHC-- 119
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 120 --------------KDL-------SGINGV-LRPGIVHRIDKDTSGLLMVAKNDLAHESL 157
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
Q T+ R Y ++ GV G I+ P+ RD +R MA + +HA +
Sbjct: 158 VNQLVKKTVTRKYKAIVHGVIPHDYGTIDAPLGRDTKDRQSMAVV------DNGKHAVTH 211
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
++V++ VE +LETGRTHQ+ + K P
Sbjct: 212 FQVLDRFK--DFTFVECQLETGRTHQIRVHMKYIGYP 246
>gi|170077579|ref|YP_001734217.1| 23S rRNA-specific pseudouridylate synthase [Synechococcus sp. PCC
7002]
gi|169885248|gb|ACA98961.1| 23S rRNA-specific pseudouridylate synthase [Synechococcus sp. PCC
7002]
Length = 308
Score = 165 bits (418), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 97/255 (38%), Positives = 142/255 (55%), Gaps = 32/255 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD W++ ++ +SR+R+Q I G V +N +K GD + I +
Sbjct: 16 RLDQWLAQQLPELSRSRLQRLIEQGQVQLNEAPCQSKKTKLKVGDRLILKIPAPATMALA 75
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E + LDI++ED++ L+VNKPA MVVHPAPGN TGTLV+G+L HC
Sbjct: 76 PEAMDLDILFEDEHFLIVNKPAGMVVHPAPGNYTGTLVHGLLAHCG-------------- 121
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
E + I G RPGIVHRLDK T+G + +AK + +H HL Q K T R Y
Sbjct: 122 --------ENLAGIGGVQ-RPGIVHRLDKDTTGAIAIAKTDQAHQHLQAQIKAKTARREY 172
Query: 252 ISLTSGVP-SQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
+ + G P + ++G IE PI+R +R +MA ++ G R A + ++++E L G
Sbjct: 173 MGIVYGCPRNDAAGTIEAPIARHKGDRKKMAV----DETG--RPAVTHWEIMERL--GNY 224
Query: 311 ALVEWRLETGRTHQV 325
+L+ ++LETGRTHQ+
Sbjct: 225 SLLYYKLETGRTHQI 239
>gi|284036309|ref|YP_003386239.1| pseudouridine synthase [Spirosoma linguale DSM 74]
gi|283815602|gb|ADB37440.1| pseudouridine synthase, RluA family [Spirosoma linguale DSM 74]
Length = 348
Score = 165 bits (417), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 107/271 (39%), Positives = 158/271 (58%), Gaps = 36/271 (13%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
VD LR+D ++ R+ +R ++Q+ I + V +N + +K S+ +K D++ T+S
Sbjct: 22 VDKGQSLLRIDRFLMDRLQNATRTKIQAGIDAESVRVNDKP-TKASYKIKPSDII--TVS 78
Query: 124 ELQPLRA---EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC-SLP 179
P R + E+IP++IV+EDD++LV+NKPA MVVHPA GN GTLVN +++H +LP
Sbjct: 79 LPHPPRETDLKPENIPINIVFEDDDLLVINKPAGMVVHPAHGNWDGTLVNALVYHFQNLP 138
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
T S + E +RPG+VHR+DK TSGL+V+AK E + +L+
Sbjct: 139 T--SRHGE----------------------VRPGLVHRIDKDTSGLMVIAKTEFAMTYLA 174
Query: 240 EQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRY 299
QF HTIER Y +LT GVP+ G I I R +R ++ AI + + + A + Y
Sbjct: 175 RQFFEHTIERTYNALTWGVPNPQIGTITGFIGRSIKDR-KVQAI--YDDESKGKWAVTHY 231
Query: 300 KVIEILAGGGSALVEWRLETGRTHQVLMLYK 330
+E L G ALVE +LETGRTHQ+ +K
Sbjct: 232 TTLEDL--GYVALVECKLETGRTHQIRAHFK 260
>gi|225027663|ref|ZP_03716855.1| hypothetical protein EUBHAL_01922 [Eubacterium hallii DSM 3353]
gi|224954977|gb|EEG36186.1| pseudouridine synthase, RluA family [Eubacterium hallii DSM 3353]
Length = 319
Score = 165 bits (417), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 98/263 (37%), Positives = 146/263 (55%), Gaps = 30/263 (11%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
TV + +RLD +++ + SR+ +Q I+ G V++ G K +K D V +
Sbjct: 23 TVMEEQEGMRLDQFLAGELKEHSRSYIQKLIKEGRVTV-GDKKEKPGCRLKVEDNVVICV 81
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
L+ L E + LDI+YED++V+++NKP MVVHP PG TGTLVNG+L+HC
Sbjct: 82 PPLKELEVLPEKMDLDIIYEDEDVILINKPKDMVVHPCPGRYTGTLVNGLLYHCR----- 136
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
+ S I+G +RPGIVHR+DK T+G+LVV K++ +H L+EQ
Sbjct: 137 -----------------DNLSGINGV-LRPGIVHRIDKDTTGVLVVCKNDMAHKSLAEQL 178
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
K H+I R Y ++ +Q G ++ PI R P +R +MA P + K A + YKV+
Sbjct: 179 KEHSITRKYEAIVYNNFTQEEGTVDAPIGRSPADRKKMAVEPKNGK-----RAVTHYKVL 233
Query: 303 EILAGGGSALVEWRLETGRTHQV 325
L + +E +LETGRTHQ+
Sbjct: 234 SHLNHQFNH-IECQLETGRTHQI 255
>gi|456352961|dbj|BAM87406.1| pseudouridine synthase [Agromonas oligotrophica S58]
Length = 379
Score = 165 bits (417), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 103/265 (38%), Positives = 149/265 (56%), Gaps = 37/265 (13%)
Query: 69 GKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPL 128
G RLD +++++ +SR+R+++ I +G VS+ V +++V GD + + E P
Sbjct: 63 GSPRLDRVLAAKLPELSRSRLKALILAGQVSLRAGAVRDPAYHVTAGDTITIDVPEAVPA 122
Query: 129 RAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEA 188
AE IPL IVYEDD+++V++KP+ +VVHPA G+ +GTLVN ++ HC
Sbjct: 123 EPAAEAIPLTIVYEDDDIIVIDKPSGLVVHPAAGHESGTLVNALIAHCG----------- 171
Query: 189 FSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLH--- 245
S S G RPGIVHRLDK T+GL+VVAK++H+HA LS QF H
Sbjct: 172 ------------ASLSGIGGVKRPGIVHRLDKDTTGLMVVAKNDHAHASLSAQFADHGRT 219
Query: 246 -TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEI 304
+ER Y++ G+P + G I PI R P+ R +MA P + R A + Y+V E
Sbjct: 220 GAMERGYLAFAWGLPHRPHGTINAPIDRHPHARDKMAVRP------KGREAITHYEVQES 273
Query: 305 LAGGG----SALVEWRLETGRTHQV 325
G +AL+ LETGRTHQ+
Sbjct: 274 FTGRDGKPVAALIACHLETGRTHQI 298
>gi|301301197|ref|ZP_07207353.1| pseudouridine synthase, RluA family [Lactobacillus salivarius
ACS-116-V-Col5a]
gi|300851196|gb|EFK78924.1| pseudouridine synthase, RluA family [Lactobacillus salivarius
ACS-116-V-Col5a]
Length = 298
Score = 165 bits (417), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 98/254 (38%), Positives = 145/254 (57%), Gaps = 34/254 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +++ +R++++ I G + +NG V K ++ V GD + E++ L E
Sbjct: 13 RLDKVVTNIFTDYTRSQLKKMIDDGNIKVNGDV-KKANYKVNLGDEITFDKPEVKKLSLE 71
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E+IPLDIVYEDD+V+VVNKP MVVHP+PG+ TLVN +L+H L
Sbjct: 72 PENIPLDIVYEDDDVIVVNKPQGMVVHPSPGHFEHTLVNALLYHSPL------------- 118
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
S+I+G + RPGIVHR+DK TSGLL+VAK++ +H L++Q K T R Y
Sbjct: 119 -----------STING-TYRPGIVHRIDKDTSGLLMVAKNDMAHQSLAKQLKDKTNTREY 166
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
I+L G + SG I+ P+ R +R + A + R+A + ++V++ G
Sbjct: 167 IALVHGNIKEDSGTIDAPLGRSKVDRKKQAVVK------DGRNAVTHFEVLK--RYGDYT 218
Query: 312 LVEWRLETGRTHQV 325
LV+ LETGRTHQ+
Sbjct: 219 LVKCVLETGRTHQI 232
>gi|292669557|ref|ZP_06602983.1| ribosomal large subunit pseudouridine synthase D [Selenomonas noxia
ATCC 43541]
gi|292648766|gb|EFF66738.1| ribosomal large subunit pseudouridine synthase D [Selenomonas noxia
ATCC 43541]
Length = 302
Score = 165 bits (417), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 97/254 (38%), Positives = 146/254 (57%), Gaps = 32/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++ ++ +SR+ Q I V+++G K ++ ++GG+ V C + ++ +
Sbjct: 13 RLDVFLVRKMPDLSRSYAQRLIEEKRVTVDG-TPRKANYKLRGGECVACDLPPVEEVSVR 71
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AE+IPLDI+YED +++VVNKP MVVHPA G + GTLVN +L+HC
Sbjct: 72 AENIPLDILYEDADIIVVNKPRGMVVHPAAGISGGTLVNALLYHC--------------- 116
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
D+ S I+GA +RPGIVHRLDK TSG++ AK++ +H L+EQ + R Y
Sbjct: 117 -RDL-------SGINGA-LRPGIVHRLDKDTSGVMAAAKNDAAHRSLAEQIQKKEARREY 167
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++ G ++ +G I I R P +R RMA + + K HA + ++V+E GG
Sbjct: 168 RAIVYGNIAERAGIITGDIGRHPTDRKRMAIVRENGK-----HATTHFEVLERF--GGYT 220
Query: 312 LVEWRLETGRTHQV 325
V RLETGRTHQ+
Sbjct: 221 FVACRLETGRTHQI 234
>gi|390630849|ref|ZP_10258823.1| Pseudouridine synthase [Weissella confusa LBAE C39-2]
gi|390483904|emb|CCF31171.1| Pseudouridine synthase [Weissella confusa LBAE C39-2]
Length = 305
Score = 165 bits (417), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 101/265 (38%), Positives = 145/265 (54%), Gaps = 34/265 (12%)
Query: 61 EETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNC 120
EET+ RLD ++ + +R +V I G++ +NG K ++VK GD +
Sbjct: 3 EETLVITDQTGRLDKVVADAFEDYTRTQVTGWINDGVLKVNG-AEKKAKYSVKPGDEITF 61
Query: 121 TISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPT 180
T+ E + + EDIPLDIVYEDD++LVVNKP MVVHPA G+ +GTLVN ++ H L
Sbjct: 62 TVPEPVEIDLKPEDIPLDIVYEDDDLLVVNKPQGMVVHPALGHESGTLVNALMFHTPL-- 119
Query: 181 LASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSE 240
S+I+G +RPGIVHR+DK TSGLL+VAK++ +H LS
Sbjct: 120 ----------------------STINGV-VRPGIVHRIDKDTSGLLMVAKNDKAHEALSA 156
Query: 241 QFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYK 300
Q K R Y +L G ++ G I+ P+ R +R + A + G R A + +K
Sbjct: 157 QLKDKKNLRQYYALVHGEFIENEGTIKAPLGRSSADRKKQAVVAG------GRDAVTHFK 210
Query: 301 VIEILAGGGSALVEWRLETGRTHQV 325
V++ G L++ LETGRTHQ+
Sbjct: 211 VVKRFV--GYTLLQVTLETGRTHQI 233
>gi|374385236|ref|ZP_09642744.1| RluA family pseudouridine synthase [Odoribacter laneus YIT 12061]
gi|373226441|gb|EHP48767.1| RluA family pseudouridine synthase [Odoribacter laneus YIT 12061]
Length = 352
Score = 165 bits (417), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 104/261 (39%), Positives = 152/261 (58%), Gaps = 30/261 (11%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS-ELQPLR 129
LR+D ++ +R+ SR ++Q + +G + +N + V K ++ VK D ++ +S + +
Sbjct: 39 LRIDKFLMTRLPNASRTKIQEAADAGCILVNDKAV-KSNYKVKPNDTISVIMSYPKRDIE 97
Query: 130 AEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAF 189
E+IPLDIVYED+ V+V+NKPA MVVHPA G+ +GTLVN ++ H
Sbjct: 98 IIPENIPLDIVYEDEQVMVINKPAGMVVHPAFGHFSGTLVNALVWH-------------- 143
Query: 190 SDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIER 249
+ D+ F+++ IRPG+VHR+DK TSGLLV+AK E + AHL+ QF T +R
Sbjct: 144 -----LKDNPLFTTN----DIRPGLVHRIDKDTSGLLVIAKTEQAKAHLALQFFNKTSDR 194
Query: 250 VYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGG 309
Y++L G + + I I R P NR M+ P + HG + A + YKVIE L G
Sbjct: 195 KYVALCWGNLKEDTATITGHIGRHPVNRKIMSVYPDGS-HG--KQAVTHYKVIERL--GY 249
Query: 310 SALVEWRLETGRTHQVLMLYK 330
LVE LETGRTHQ+ +K
Sbjct: 250 VNLVECILETGRTHQIRAHFK 270
>gi|425054142|ref|ZP_18457657.1| pseudouridine synthase, RluA family [Enterococcus faecium 505]
gi|403036667|gb|EJY48010.1| pseudouridine synthase, RluA family [Enterococcus faecium 505]
Length = 303
Score = 165 bits (417), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 106/277 (38%), Positives = 155/277 (55%), Gaps = 35/277 (12%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
+L+ T+ ++G R+D +++ SR+++Q ++ VS+NGQ V K ++ VK GD +
Sbjct: 3 ELKTTIRHESG--RIDKVLTNLFSDYSRSQIQLWLKERAVSVNGQPV-KANYKVKQGDEI 59
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
I E + L E+IPL IVYED++V V+NKP MVVHP+ G+ GT+VN +++H
Sbjct: 60 TVLIPEPETLDVVPENIPLTIVYEDEDVAVINKPQGMVVHPSAGHTHGTMVNALMYHI-- 117
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
+D+ S+I+G IRPGIVHR+DK TSGLL+VAK++ +H L
Sbjct: 118 --------------KDL-------STINGV-IRPGIVHRIDKDTSGLLMVAKNDQAHESL 155
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
+EQ K T R Y++L G G I PI R NR +M AI + A +
Sbjct: 156 AEQLKDKTSLRKYVALVHGEIPHEKGTINAPIGRSKENR-KMQAI-----REDGKPAVTH 209
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ V+E G LVE +LETGRTHQ+ + K P
Sbjct: 210 FTVLERFE--GFTLVELKLETGRTHQIRVHMKYIGYP 244
>gi|197119760|ref|YP_002140187.1| ribosomal large subunit pseudouridine synthase D [Geobacter
bemidjiensis Bem]
gi|197089120|gb|ACH40391.1| 23S rRNA pseudouridines 1911, 1915, 1917 synthase [Geobacter
bemidjiensis Bem]
Length = 319
Score = 165 bits (417), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 103/266 (38%), Positives = 152/266 (57%), Gaps = 32/266 (12%)
Query: 60 LEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
+E T + + RLD++IS + ++R+ I +G ++NG K + +KGG++V
Sbjct: 4 IELTFPSDSDPERLDSFISRSVPELTRSAALRLIETGFATVNGSK-QKPALKLKGGEVVQ 62
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
+ P + E+IP++++YED ++VVNK A MVVHP GN GTLVN +L HC
Sbjct: 63 VVVPPPTPAEPQPEEIPIEVLYEDAELVVVNKGAGMVVHPGAGNPEGTLVNALLAHC--- 119
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
+D+S G +RPGIVHR+DK TSG LVVAK + +H L+
Sbjct: 120 -------------KDLSG--------IGGELRPGIVHRIDKDTSGTLVVAKCDRAHNALA 158
Query: 240 EQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRY 299
EQFK H+I+RVY++L G P + GRIE I R P +R +M+A +HG + A + +
Sbjct: 159 EQFKEHSIKRVYLALVYGSPKEDKGRIESTIGRHPTDRKKMSA---KARHG--KQAVTHW 213
Query: 300 KVIEILAGGGSALVEWRLETGRTHQV 325
+V+ G L+ RLETGRTHQ+
Sbjct: 214 RVVARYP--GITLIRLRLETGRTHQI 237
>gi|154492071|ref|ZP_02031697.1| hypothetical protein PARMER_01702 [Parabacteroides merdae ATCC
43184]
gi|423724549|ref|ZP_17698694.1| RluA family pseudouridine synthase [Parabacteroides merdae
CL09T00C40]
gi|154087857|gb|EDN86902.1| pseudouridine synthase, RluA family [Parabacteroides merdae ATCC
43184]
gi|409237530|gb|EKN30329.1| RluA family pseudouridine synthase [Parabacteroides merdae
CL09T00C40]
Length = 359
Score = 165 bits (417), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 105/258 (40%), Positives = 144/258 (55%), Gaps = 34/258 (13%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
LR+D ++ R+ G +R R+QS+ +G + NG+ V K ++ VK D+V TI +P R
Sbjct: 44 LRVDKFLVDRMFGATRNRIQSAADAGCIMANGKPV-KSNYRVKPEDVV--TIMMTRPPRT 100
Query: 131 EA---EDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQE 187
E+IP+ IVYEDD++LVV+KPA +VVHP GN TGTLVN + + N
Sbjct: 101 FEILPENIPIKIVYEDDDLLVVDKPAGLVVHPGHGNYTGTLVNALAWYLKDDPTYDPNDP 160
Query: 188 AFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTI 247
A G+VHR+DK TSGLLVVAK + AHLS QF T
Sbjct: 161 AL-----------------------GLVHRIDKDTSGLLVVAKKPEAKAHLSMQFFHKTT 197
Query: 248 ERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAG 307
+R Y +L G+ + GRIE I R+P +R++M P + Q + A + Y V+E L
Sbjct: 198 KREYRALVWGIVREDEGRIEGNIGRNPRDRMQMTVFPEGD---QGKTAVTHYSVLERL-- 252
Query: 308 GGSALVEWRLETGRTHQV 325
G LV+ RLETGRTHQ+
Sbjct: 253 GYVTLVKCRLETGRTHQI 270
>gi|410099029|ref|ZP_11294003.1| RluA family pseudouridine synthase [Parabacteroides goldsteinii
CL02T12C30]
gi|409220160|gb|EKN13117.1| RluA family pseudouridine synthase [Parabacteroides goldsteinii
CL02T12C30]
Length = 357
Score = 165 bits (417), Expect = 4e-38, Method: Compositional matrix adjust.
Identities = 104/258 (40%), Positives = 143/258 (55%), Gaps = 34/258 (13%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
LR+D ++ R+ G +R R+Q + +G + NG+ V K ++ VK D+V +S +P R
Sbjct: 42 LRVDKFLVDRMMGATRNRIQLAADAGCIMANGKPV-KSNYRVKPEDVVTIMMS--RPRRD 98
Query: 131 EA---EDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQE 187
A E+IP+ I+YEDD++LVV+KPA +VVHP GN TGTLVN + + N
Sbjct: 99 LAIIPENIPIKIIYEDDDLLVVDKPAGLVVHPGHGNYTGTLVNALAWYLKDDPTYDPNDP 158
Query: 188 AFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTI 247
A G+VHR+DK TSGLLVVAK + AHLS QF T
Sbjct: 159 AL-----------------------GLVHRIDKDTSGLLVVAKKPEAKAHLSMQFFNKTT 195
Query: 248 ERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAG 307
+R Y +L G+ GRIE I RDP +R++M P + Q + A + Y V+E L
Sbjct: 196 KREYRALVWGIVKDDEGRIEGNIGRDPRDRMQMTVFPEGD---QGKTAVTHYSVLERL-- 250
Query: 308 GGSALVEWRLETGRTHQV 325
G LV+ RLETGRTHQ+
Sbjct: 251 GYVTLVKCRLETGRTHQI 268
>gi|410031141|ref|ZP_11280971.1| RluA family pseudouridine synthase [Marinilabilia sp. AK2]
Length = 383
Score = 165 bits (417), Expect = 4e-38, Method: Compositional matrix adjust.
Identities = 104/265 (39%), Positives = 151/265 (56%), Gaps = 34/265 (12%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
VD R+D +++ ++ +R +VQ +I +G V +N + +K ++ VK D + +
Sbjct: 62 VDKGQTLTRIDKFLTDKVANATRNKVQQAIDAGNVLVNRKP-TKSNYKVKPLDEIKVFL- 119
Query: 124 ELQPLRAEA--EDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCS-LPT 180
E P E E IPLDIVYEDD++LVVNKPA MVVHPA GN +GTLVNG++++ + LPT
Sbjct: 120 EKPPRDTEVVPEPIPLDIVYEDDHLLVVNKPAGMVVHPAHGNWSGTLVNGLVYYFNQLPT 179
Query: 181 LASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSE 240
L G + RPG+VHR+DK TSGLLV+AK E + L+
Sbjct: 180 L------------------------PGNTGRPGLVHRIDKDTSGLLVIAKSELAMTELAN 215
Query: 241 QFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYK 300
QF H I+R Y++L G P + G I + R +R M A P + Q +HA + +K
Sbjct: 216 QFFHHHIDRTYLALVWGEPKEEEGTIVAHVGRSAKDRKVMDAYPDGS---QGKHAVTHWK 272
Query: 301 VIEILAGGGSALVEWRLETGRTHQV 325
+++ L +LV+ LETGRTHQ+
Sbjct: 273 ILKKLR--YVSLVQCNLETGRTHQI 295
>gi|390935099|ref|YP_006392604.1| RluA family pseudouridine synthase [Thermoanaerobacterium
saccharolyticum JW/SL-YS485]
gi|389570600|gb|AFK87005.1| pseudouridine synthase, RluA family [Thermoanaerobacterium
saccharolyticum JW/SL-YS485]
Length = 306
Score = 165 bits (417), Expect = 4e-38, Method: Compositional matrix adjust.
Identities = 103/254 (40%), Positives = 154/254 (60%), Gaps = 34/254 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D++++S +D +R+ ++ I GLV +NG V K ++ +K GD ++ I E + + +
Sbjct: 19 RIDSFLASEVD-FTRSYLKKLILDGLVKVNGAPV-KPNYKIKEGDTIDVNIPEAEEIDLK 76
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E+IPLDI+YEDD+++VVNKP MVVHPAPGN +GTLVN +L+HC+ L+ N E
Sbjct: 77 PENIPLDIIYEDDDIIVVNKPQGMVVHPAPGNLSGTLVNALLYHCT--NLSGINGE---- 130
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
+RPGIVHRLDK TSG++VVAK++ +H LS Q K TI + Y
Sbjct: 131 ------------------LRPGIVHRLDKDTSGVMVVAKNDKAHLELSNQIKNRTILKKY 172
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+++ GV G +E PI RD R +MA + R+A + Y+V+E ++
Sbjct: 173 LAIVEGVIKSDEGAVEAPIGRDHIERKKMAVV------KDGRYALTLYRVLERYK--NNS 224
Query: 312 LVEWRLETGRTHQV 325
LVE ++TGRTHQ+
Sbjct: 225 LVEAVIKTGRTHQI 238
>gi|335996600|ref|ZP_08562517.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
ruminis SPM0211]
gi|335351670|gb|EGM53161.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
ruminis SPM0211]
Length = 301
Score = 165 bits (417), Expect = 4e-38, Method: Compositional matrix adjust.
Identities = 100/265 (37%), Positives = 147/265 (55%), Gaps = 36/265 (13%)
Query: 61 EETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNC 120
E V+ + G RLD S SR++++ + G +++NG+ K + VK GD++
Sbjct: 3 ETVVEMQNG--RLDKVCSEIFSDYSRSQIKQLLDGGNITVNGKT-EKAKYKVKSGDVIRL 59
Query: 121 TISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPT 180
E + L E+IPLDIVYEDD+V+V+NKP MVVHPAPG+ TLVN +L+HC L
Sbjct: 60 EEPETKTLELRPENIPLDIVYEDDDVIVINKPQGMVVHPAPGHDEHTLVNALLYHCPL-- 117
Query: 181 LASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSE 240
S+I+G + RPGIVHR+DK TSGLL+VAK++ +H L++
Sbjct: 118 ----------------------STING-TFRPGIVHRIDKDTSGLLMVAKNDKAHRSLAK 154
Query: 241 QFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYK 300
Q K T R Y++L G ++ G I PI R +R + A + R+A + ++
Sbjct: 155 QLKDKTNIREYVALVHGRIAEDEGTINAPIGRSLKDRKKQAVVK------DGRNAVTHFE 208
Query: 301 VIEILAGGGSALVEWRLETGRTHQV 325
V++ LV+ LETGRTHQ+
Sbjct: 209 VLKRYR--DYTLVKCILETGRTHQI 231
>gi|406706624|ref|YP_006756977.1| ribosomal large subunit pseudouridine synthase D [alpha
proteobacterium HIMB5]
gi|406652400|gb|AFS47800.1| ribosomal large subunit pseudouridine synthase D [alpha
proteobacterium HIMB5]
Length = 326
Score = 165 bits (417), Expect = 4e-38, Method: Compositional matrix adjust.
Identities = 95/270 (35%), Positives = 150/270 (55%), Gaps = 31/270 (11%)
Query: 59 QLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV 118
+++ V++K R+D +++ + +SR R+++ I +G V NG +++ S + D +
Sbjct: 4 KIKYIVESKEENQRIDIFLNKKNTELSRTRIKNLILNGNVKYNGDILTDPSKKINAEDNI 63
Query: 119 NCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
TI E + L + LDI++ED++++++NKPA + +HPAPGN T+VN +
Sbjct: 64 LITIPEPKKLSLKPYKFNLDIIFEDEDLIIINKPAGIAMHPAPGNYDNTIVNAL------ 117
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
IS D+ S+I G +RPGIVHR+DK TSGL+VVAK+ +H +L
Sbjct: 118 ----------------ISYDKNSLSTI-GDELRPGIVHRIDKDTSGLIVVAKNNKTHENL 160
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
S QF HTI RVY L G S G+IE I+R NR M A + + A +
Sbjct: 161 SSQFNEHTITRVYELLIWGKIRPSKGKIETYITRSSKNRQMMEA-----SLTKGKRAITN 215
Query: 299 YKVIEILAGGGS---ALVEWRLETGRTHQV 325
Y+ +E+ + +L+E +LETGRTHQ+
Sbjct: 216 YQTLEVFENDSTPTLSLIECKLETGRTHQI 245
>gi|347536599|ref|YP_004844024.1| putative 23S rRNA pseudouridine synthase [Flavobacterium
branchiophilum FL-15]
gi|345529757|emb|CCB69787.1| Probable 23S rRNA pseudouridine synthase [Flavobacterium
branchiophilum FL-15]
Length = 346
Score = 165 bits (417), Expect = 4e-38, Method: Compositional matrix adjust.
Identities = 100/257 (38%), Positives = 147/257 (57%), Gaps = 34/257 (13%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPL-- 128
LR+D ++ + I +R ++Q++ SG + +NG++V K ++ VK D+V +S P
Sbjct: 29 LRIDKFLMNLIPNATRNKIQTAATSGNIYVNGKIV-KSNYKVKPLDLVQIMLSH-PPFEN 86
Query: 129 RAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEA 188
R + EDIPLDIVYED+ +L++NKPA +VVHP GN TGTLVN + H
Sbjct: 87 RIDPEDIPLDIVYEDEALLLINKPAGLVVHPGHGNYTGTLVNALAFH------------- 133
Query: 189 FSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIE 248
F + +S RPG+VHR+DK TSGLLV+AK E + HL++QF+ T E
Sbjct: 134 ------------FQNLPMNSSERPGLVHRIDKDTSGLLVIAKTEAAMTHLAKQFEQKTSE 181
Query: 249 RVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGG 308
R YI++ G + G IE I+R +R++MA + + A + YKV+E G
Sbjct: 182 REYIAMVWGNLKEDFGTIEGNIARHLKDRMQMAVFDDPD---VGKPAITHYKVLERF--G 236
Query: 309 GSALVEWRLETGRTHQV 325
L+ +LETGRTHQ+
Sbjct: 237 YVTLISCKLETGRTHQI 253
>gi|227890823|ref|ZP_04008628.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
salivarius ATCC 11741]
gi|227867232|gb|EEJ74653.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
salivarius ATCC 11741]
Length = 301
Score = 164 bits (416), Expect = 4e-38, Method: Compositional matrix adjust.
Identities = 97/254 (38%), Positives = 145/254 (57%), Gaps = 34/254 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +++ +R++++ I G + +NG V K ++ V GD + E++ L E
Sbjct: 16 RLDKVVTNIFTDYTRSQLKKMIDDGNIKVNGDV-KKANYKVNLGDEITFDKPEVKKLSLE 74
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E+IPLDIVYEDD+V+VVNKP MVVHP+PG+ TLVN +L+H L
Sbjct: 75 PENIPLDIVYEDDDVIVVNKPQGMVVHPSPGHFEHTLVNALLYHSPL------------- 121
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
S+I+G + RPGIVHR+DK TSGLL+VAK++ +H L++Q K T R Y
Sbjct: 122 -----------STING-TYRPGIVHRIDKDTSGLLMVAKNDMAHQSLAKQLKDKTNTREY 169
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++L G + SG I+ P+ R +R + A + R+A + ++V++ G
Sbjct: 170 VALVHGNIKEDSGTIDAPLGRSKVDRKKQAVVK------DGRNAVTHFEVLK--RYGDYT 221
Query: 312 LVEWRLETGRTHQV 325
LV+ LETGRTHQ+
Sbjct: 222 LVKCVLETGRTHQI 235
>gi|421277207|ref|ZP_15728027.1| pseudouridine synthase [Streptococcus mitis SPAR10]
gi|395876488|gb|EJG87564.1| pseudouridine synthase [Streptococcus mitis SPAR10]
Length = 297
Score = 164 bits (416), Expect = 4e-38, Method: Compositional matrix adjust.
Identities = 100/262 (38%), Positives = 150/262 (57%), Gaps = 34/262 (12%)
Query: 64 VDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTIS 123
+ + G LRLD +S + +SR+ I+SG V +NGQV K + V+ GDM+ I
Sbjct: 3 IKIERGGLRLDKALSDLTE-LSRSLANEQIKSGQVLVNGQV-KKAKYTVQEGDMITYQIP 60
Query: 124 ELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLAS 183
E + L AEDIPL+I+Y+D++V VVNKP MVVHP+ G+ +GTLVN +++H
Sbjct: 61 EPEVLEYVAEDIPLEIIYQDEDVAVVNKPQGMVVHPSAGHTSGTLVNALMYHI------- 113
Query: 184 SNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFK 243
+D+ S I+G +RPGIVHR+DK TSGLL++AK++ +H L+++ K
Sbjct: 114 ---------KDL-------SGINGV-LRPGIVHRIDKDTSGLLMIAKNDEAHMALAQELK 156
Query: 244 LHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIE 303
R Y ++ G G IE PI R +R + A + + A +R++V+E
Sbjct: 157 DKKSLRKYWAIVHGNLPNDRGVIEAPIGRSEKDRKKQAVT------AKGKPAVTRFQVLE 210
Query: 304 ILAGGGSALVEWRLETGRTHQV 325
G +L+E +LETGRTHQ+
Sbjct: 211 RF--GDYSLLELQLETGRTHQI 230
>gi|347525390|ref|YP_004832138.1| ribosomal large subunit pseudouridine synthase [Lactobacillus
ruminis ATCC 27782]
gi|345284349|gb|AEN78202.1| ribosomal large subunit pseudouridine synthase [Lactobacillus
ruminis ATCC 27782]
Length = 301
Score = 164 bits (416), Expect = 4e-38, Method: Compositional matrix adjust.
Identities = 100/265 (37%), Positives = 146/265 (55%), Gaps = 36/265 (13%)
Query: 61 EETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNC 120
E V+ + G RLD S SR++++ I G +++NG+ K + VK GD++
Sbjct: 3 ETVVEMQNG--RLDKACSEIFSDYSRSQIKQLIDGGNITVNGKT-EKAKYKVKSGDVIRL 59
Query: 121 TISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPT 180
E + L E+IPLDIVYEDD+V+V+NKP MVVHPAPG+ TLVN +L+HC L
Sbjct: 60 EEPETKTLELRPENIPLDIVYEDDDVIVINKPQGMVVHPAPGHDEHTLVNALLYHCPL-- 117
Query: 181 LASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSE 240
S+I+G + RPGIVHR+DK TSGLL+VAK++ +H L++
Sbjct: 118 ----------------------STING-TFRPGIVHRIDKDTSGLLMVAKNDKAHRSLAK 154
Query: 241 QFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYK 300
Q K T R Y++L G ++ G I PI R +R + A + R+A + ++
Sbjct: 155 QLKDKTNIREYVALVHGRIAEDEGTINAPIGRSLKDRKKQAVVK------DGRNAVTHFE 208
Query: 301 VIEILAGGGSALVEWRLETGRTHQV 325
V++ V+ LETGRTHQ+
Sbjct: 209 VLKRYR--DYTFVKCILETGRTHQI 231
>gi|403667693|ref|ZP_10932993.1| RNA pseudouridine synthase ylyB [Kurthia sp. JC8E]
Length = 307
Score = 164 bits (416), Expect = 4e-38, Method: Compositional matrix adjust.
Identities = 106/254 (41%), Positives = 148/254 (58%), Gaps = 32/254 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
R+D I++ SR ++Q + G VS+N +VV+K VK D++ T E +PL
Sbjct: 17 RIDKAIATMQTEWSRTQIQGFVEGGHVSVNKEVVAKKY-KVKVEDVILVTPPEPEPLEIL 75
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AED+ L+IVYED++VLVVNKP MVVHPAPG+ATGTLVNG++ HC+
Sbjct: 76 AEDLQLEIVYEDEDVLVVNKPKGMVVHPAPGHATGTLVNGLMFHCN-------------- 121
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L +Q T+ R Y
Sbjct: 122 --DL-------SGINGV-VRPGIVHRIDKDTSGLLMVAKNDAAHESLVQQLVDKTVTRRY 171
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+L G G I+ PI R+ +R +MA + +HA + + V + G
Sbjct: 172 TALVHGHIPHDKGTIDAPIGRNTKDRQKMAVV------DNGKHAVTHFYVTDRF-GVDYT 224
Query: 312 LVEWRLETGRTHQV 325
L+E RLETGRTHQ+
Sbjct: 225 LIECRLETGRTHQI 238
>gi|298292656|ref|YP_003694595.1| pseudouridine synthase [Starkeya novella DSM 506]
gi|296929167|gb|ADH89976.1| pseudouridine synthase, RluA family [Starkeya novella DSM 506]
Length = 348
Score = 164 bits (416), Expect = 4e-38, Method: Compositional matrix adjust.
Identities = 106/274 (38%), Positives = 150/274 (54%), Gaps = 41/274 (14%)
Query: 64 VDTKAGK----LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
VD AG LRLD +++ + +SR R+Q+ I G V G+ V+ S V G++
Sbjct: 17 VDITAGPQDEGLRLDRVLANHLPELSRTRLQALIAEGRVLRAGRPVAGGSAKVAPGEVFT 76
Query: 120 CTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
+ +P E +DIPLDIV+EDD+++V++KPA +VVHPAPGN GTLVN +L HC
Sbjct: 77 VEVPPPEPAEPEPQDIPLDIVFEDDDLIVIDKPAGLVVHPAPGNPDGTLVNALLFHCGA- 135
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
S S G RPGIVHRLDK TSGL+VVAK++ +H L+
Sbjct: 136 ----------------------SLSGIGGVRRPGIVHRLDKDTSGLMVVAKNDRAHQKLA 173
Query: 240 EQFKLH----TIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHA 295
QF H +ER Y++ GVP SG ++ P++R P +R R+A R A
Sbjct: 174 AQFADHGRTGPLERAYLAFVWGVPELPSGTVDAPLARHPVSRERIAV------RANGRFA 227
Query: 296 ASRYKVIEILAGGG----SALVEWRLETGRTHQV 325
+ ++ +E ++LVE +LETGRTHQ+
Sbjct: 228 ITHWQRVEAYEDTQGRPVASLVECQLETGRTHQI 261
>gi|407718127|ref|YP_006795532.1| 23S RNA-specific pseudouridylate synthase [Leuconostoc carnosum
JB16]
gi|407241883|gb|AFT81533.1| pseudouridylate synthase, 23S RNA-specific [Leuconostoc carnosum
JB16]
Length = 304
Score = 164 bits (416), Expect = 4e-38, Method: Compositional matrix adjust.
Identities = 103/263 (39%), Positives = 148/263 (56%), Gaps = 34/263 (12%)
Query: 63 TVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI 122
T++ K + RLDA ++ SR + I+ G V +N + V + S+ V GD V T
Sbjct: 6 TINIKEQQGRLDAILAKEDIPYSRTVLADWIQDGTVLVNQKKVKR-SYKVVSGDTVTLTP 64
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
E+Q AEDIPL IVYED++++VVNKP MVVHPA G+ +GTLVN +L+H L
Sbjct: 65 PEVQNTAIVAEDIPLSIVYEDNDLIVVNKPQGMVVHPAAGHTSGTLVNALLYHAPL---- 120
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
S+I+G RPGIVHR+D+ TSGLL+VAK++ +H LS Q
Sbjct: 121 --------------------STING-EFRPGIVHRIDRDTSGLLMVAKNDEAHQALSAQL 159
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
K H +R+Y +L G ++ SG I PI+R +R + A G R A + ++V+
Sbjct: 160 KDHKNQRIYYALVRGEFTEESGTINAPIARHKVDRKKQAVQSG------GREAITHFEVL 213
Query: 303 EILAGGGSALVEWRLETGRTHQV 325
+ G L++ +LETGRTHQ+
Sbjct: 214 KRYV--GYTLLKVQLETGRTHQI 234
>gi|390954680|ref|YP_006418438.1| ribosomal large subunit pseudouridine synthase D [Aequorivita
sublithincola DSM 14238]
gi|390420666|gb|AFL81423.1| ribosomal large subunit pseudouridine synthase D [Aequorivita
sublithincola DSM 14238]
Length = 348
Score = 164 bits (416), Expect = 4e-38, Method: Compositional matrix adjust.
Identities = 105/273 (38%), Positives = 153/273 (56%), Gaps = 36/273 (13%)
Query: 59 QLEETVDTKAGK----LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKG 114
+L E KA K LR+D ++ + I+ +R ++Q + +G + +N V K ++ VKG
Sbjct: 17 ELYEHYRFKADKGQRALRVDKYLMNLIEKATRNKIQKAAVAGNIHVN-DVPVKSNYKVKG 75
Query: 115 GDMVNCTISELQPLR--AEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGI 172
D+V + E P E++P+DIVYEDD VLVVNK A MVVHP GN +GTL+N +
Sbjct: 76 NDVV-TVLFEHPPYEFLLVPENLPIDIVYEDDAVLVVNKAAGMVVHPGHGNYSGTLINAL 134
Query: 173 LHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDE 232
+H F + + +S RPG+VHR+DK TSGLLVVAK E
Sbjct: 135 TYH-------------------------FENHPNNSSNRPGLVHRIDKDTSGLLVVAKTE 169
Query: 233 HSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQA 292
+ HL++QF + ER Y++L G + G IE I R P NR++ + +++ +
Sbjct: 170 EAMTHLAKQFFDKSTEREYVALAWGNMEEDEGTIEGNIGRHPKNRLQ-NTVYENDEEEKG 228
Query: 293 RHAASRYKVIEILAGGGSALVEWRLETGRTHQV 325
+HA + YKV+E L+ LV RLETGRTHQ+
Sbjct: 229 KHAVTHYKVLERLS--YVTLVSCRLETGRTHQI 259
>gi|417936057|ref|ZP_12579374.1| pseudouridine synthase, RluA family [Streptococcus infantis X]
gi|343402966|gb|EGV15471.1| pseudouridine synthase, RluA family [Streptococcus infantis X]
Length = 297
Score = 164 bits (416), Expect = 4e-38, Method: Compositional matrix adjust.
Identities = 101/259 (38%), Positives = 148/259 (57%), Gaps = 34/259 (13%)
Query: 67 KAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQ 126
+ G LRLD +S + +SR+ I+SG V +NGQV K + V+ GDM+ I E +
Sbjct: 6 ETGGLRLDKALSDLTE-LSRSLANEQIKSGQVLVNGQV-KKAKYTVQEGDMITYQIPEPE 63
Query: 127 PLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQ 186
L AEDIPL+I+Y+D++V VVNKP MVVHP+ G+ +GTLVN +++H
Sbjct: 64 VLEYVAEDIPLEIIYQDEDVAVVNKPQGMVVHPSAGHTSGTLVNALMYHI---------- 113
Query: 187 EAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHT 246
+D+ S I+G +RPGIVHR+DK TSGLL+VAK++ +H L+++ K
Sbjct: 114 ------KDL-------SGINGV-LRPGIVHRIDKDTSGLLMVAKNDEAHLALAQELKDKK 159
Query: 247 IERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILA 306
R Y ++ G G IE PI R +R + A + + A +R++V+E
Sbjct: 160 SLRKYWAIVHGNLPNDRGVIEAPIGRSEKDRKKQAVT------AKGKPAVTRFQVLERF- 212
Query: 307 GGGSALVEWRLETGRTHQV 325
G L+E +LETGRTHQ+
Sbjct: 213 -GDYTLLELQLETGRTHQI 230
>gi|116511823|ref|YP_809039.1| ribosomal large subunit pseudouridine synthase D [Lactococcus
lactis subsp. cremoris SK11]
gi|116107477|gb|ABJ72617.1| ribosomal large subunit pseudouridine synthase D [Lactococcus
lactis subsp. cremoris SK11]
Length = 301
Score = 164 bits (416), Expect = 4e-38, Method: Compositional matrix adjust.
Identities = 99/255 (38%), Positives = 148/255 (58%), Gaps = 34/255 (13%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
LRLD ++++ + SR+ + I++ V +N + K + VK GD + I + + L
Sbjct: 13 LRLDKALANQTE-YSRSLLTELIKNDKVFVNNEA-KKAKYKVKTGDRIEFEIPQAEVLDV 70
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
AED+PL+I+YED +V VVNKP MVVHPA G+A+GTLVN I++H
Sbjct: 71 AAEDLPLEIIYEDSDVAVVNKPQGMVVHPAAGHASGTLVNAIMYHI-------------- 116
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
+D+ SSI+G IRPGIVHR+DK TSGLL++AK++ +H L+ Q K T +R
Sbjct: 117 --KDL-------SSINGV-IRPGIVHRIDKDTSGLLMIAKNDKAHESLAAQLKDKTSKRR 166
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y+++ G + G IE PI R+ +R + A + G + A + ++V+E G
Sbjct: 167 YLAIVHGELANDKGTIEAPIGRNLKDRKKQAVVSG------GKPAVTHFEVLERFV--GY 218
Query: 311 ALVEWRLETGRTHQV 325
L+ RLETGRTHQ+
Sbjct: 219 TLIALRLETGRTHQI 233
>gi|90961803|ref|YP_535719.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
salivarius UCC118]
gi|385840423|ref|YP_005863747.1| Pseudouridine synthase [Lactobacillus salivarius CECT 5713]
gi|90820997|gb|ABD99636.1| Ribosomal large subunit pseudouridine synthase D [Lactobacillus
salivarius UCC118]
gi|300214544|gb|ADJ78960.1| Pseudouridine synthase [Lactobacillus salivarius CECT 5713]
Length = 298
Score = 164 bits (416), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 97/254 (38%), Positives = 145/254 (57%), Gaps = 34/254 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +++ +R++++ I G + +NG V K ++ V GD + E++ L E
Sbjct: 13 RLDKVVTNIFTDYTRSQLKKMIDDGNIKVNGDV-KKANYKVNLGDEITFDKPEVKKLSLE 71
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E+IPLDIVYEDD+V+VVNKP MVVHP+PG+ TLVN +L+H L
Sbjct: 72 PENIPLDIVYEDDDVIVVNKPQGMVVHPSPGHFEHTLVNALLYHSPL------------- 118
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
S+I+G + RPGIVHR+DK TSGLL+VAK++ +H L++Q K T R Y
Sbjct: 119 -----------STING-TYRPGIVHRIDKDTSGLLMVAKNDMAHQSLAKQLKDKTNTREY 166
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++L G + SG I+ P+ R +R + A + R+A + ++V++ G
Sbjct: 167 VALVHGNIKEDSGTIDAPLGRSKVDRKKQAVVK------DGRNAVTHFEVLK--RYGDYT 218
Query: 312 LVEWRLETGRTHQV 325
LV+ LETGRTHQ+
Sbjct: 219 LVKCVLETGRTHQI 232
>gi|418961352|ref|ZP_13513239.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
salivarius SMXD51]
gi|380345019|gb|EIA33365.1| ribosomal large subunit pseudouridine synthase D [Lactobacillus
salivarius SMXD51]
Length = 298
Score = 164 bits (416), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 97/254 (38%), Positives = 145/254 (57%), Gaps = 34/254 (13%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +++ +R++++ I G + +NG V K ++ V GD + E++ L E
Sbjct: 13 RLDKVVTNIFTDYTRSQLKKMIDDGNIKVNGDV-KKANYKVNLGDEITFDKPEVKKLSLE 71
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E+IPLDIVYEDD+V+VVNKP MVVHP+PG+ TLVN +L+H L
Sbjct: 72 PENIPLDIVYEDDDVIVVNKPQGMVVHPSPGHFEHTLVNALLYHSPL------------- 118
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
S+I+G + RPGIVHR+DK TSGLL+VAK++ +H L++Q K T R Y
Sbjct: 119 -----------STING-TYRPGIVHRIDKDTSGLLMVAKNDMAHQSLAKQLKDKTNTREY 166
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++L G + SG I+ P+ R +R + A + R+A + ++V++ G
Sbjct: 167 VALVHGNIKEDSGTIDAPLGRSKVDRKKQAVVK------DGRNAVTHFEVLK--RYGDYT 218
Query: 312 LVEWRLETGRTHQV 325
LV+ LETGRTHQ+
Sbjct: 219 LVKCVLETGRTHQI 232
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
0.316 0.131 0.377
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,228,572,175
Number of Sequences: 23463169
Number of extensions: 213788337
Number of successful extensions: 610390
Number of sequences better than 100.0: 1000
Number of HSP's better than 100.0 without gapping: 9620
Number of HSP's successfully gapped in prelim test: 2619
Number of HSP's that attempted gapping in prelim test: 576221
Number of HSP's gapped (non-prelim): 19553
length of query: 341
length of database: 8,064,228,071
effective HSP length: 143
effective length of query: 198
effective length of database: 9,003,962,200
effective search space: 1782784515600
effective search space used: 1782784515600
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 77 (34.3 bits)