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: swissprot
539,616 sequences; 191,569,459 total letters
Searching..................................................done
>sp|Q3ECD0|PUS2_ARATH RNA pseudourine synthase 2, chloroplastic OS=Arabidopsis thaliana
GN=At1g76050 PE=2 SV=1
Length = 430
Score = 429 bits (1104), Expect = e-119, 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
>sp|Q5Z8P2|PUS2_ORYSJ RNA pseudourine synthase 2, chloroplastic OS=Oryza sativa subsp.
japonica GN=Os06g0717400 PE=2 SV=1
Length = 445
Score = 380 bits (975), Expect = e-104, 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
>sp|P74346|Y1629_SYNY3 Uncharacterized RNA pseudouridine synthase slr1629 OS=Synechocystis
sp. (strain PCC 6803 / Kazusa) GN=slr1629 PE=3 SV=1
Length = 327
Score = 174 bits (442), Expect = 7e-43, 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
>sp|Q45480|YLYB_BACSU Uncharacterized RNA pseudouridine synthase YlyB OS=Bacillus
subtilis (strain 168) GN=ylyB PE=3 SV=3
Length = 303
Score = 172 bits (436), Expect = 3e-42, 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
>sp|O50310|Y723_CHLP8 Uncharacterized RNA pseudouridine synthase Cpar_0723
OS=Chlorobaculum parvum (strain NCIB 8327) GN=Cpar_0723
PE=3 SV=1
Length = 327
Score = 171 bits (434), Expect = 6e-42, 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
>sp|P50513|RLUD_ZYMMO Ribosomal large subunit pseudouridine synthase D OS=Zymomonas
mobilis subsp. mobilis (strain ATCC 31821 / ZM4 / CP4)
GN=rluD PE=3 SV=2
Length = 317
Score = 170 bits (431), Expect = 1e-41, Method: Compositional matrix adjust.
Identities = 107/255 (41%), Positives = 148/255 (58%), Gaps = 31/255 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVS-INGQVVSKVSHNVKGGDMVNCTISELQPLRA 130
RLD ++S I +SR R+++ I SG VS G +V + +K D I +P
Sbjct: 16 RLDRALASLITRLSRERLKNLISSGCVSNSQGALVRDPAFKIKSLDCFTVDIPLPRPAHN 75
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
E +DIPL+IV+ED+++LVVNKPA MVVHPA GN TLVN +L+HC+
Sbjct: 76 EPQDIPLEIVFEDEHLLVVNKPAGMVVHPAAGNYDNTLVNALLYHCAGKL---------- 125
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
S I G + RPGIVHR+DK TSGLLVVAK + +HA L+ QF H+I R
Sbjct: 126 ------------SGIGGVA-RPGIVHRIDKDTSGLLVVAKTDPAHAGLAAQFADHSINRR 172
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y ++ G PS G ++ P++R NR +MA + G+ + A + Y++I L +
Sbjct: 173 YRAIVDGHPSL-QGHVDAPLARSSVNRQKMAIV----SDGRGKRAVTHYRMITPLK--NA 225
Query: 311 ALVEWRLETGRTHQV 325
+L+E RLETGRTHQV
Sbjct: 226 SLIECRLETGRTHQV 240
>sp|Q45826|Y901_CHLAA Uncharacterized RNA pseudouridine synthase Caur_0901
OS=Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635
/ J-10-fl) GN=Caur_0901 PE=3 SV=2
Length = 316
Score = 167 bits (422), Expect = 1e-40, 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
>sp|O67638|Y1758_AQUAE Uncharacterized RNA pseudouridine synthase aq_1758 OS=Aquifex
aeolicus (strain VF5) GN=aq_1758 PE=3 SV=1
Length = 316
Score = 159 bits (403), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 89/254 (35%), Positives = 141/254 (55%), Gaps = 30/254 (11%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +++ SR+ ++ ++ GLV +NG+ V K S ++ G+ V + E +PL +
Sbjct: 17 RLDKFLARAYPDFSRSYIKKLVKEGLVYVNGEEVRKPSRKLREGERVILHVPEPEPLDVK 76
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E+IP++I+YED+++ VV KP +VVHP+PG +GTLVN +L+H
Sbjct: 77 PENIPINIIYEDEDIAVVEKPCGLVVHPSPGYTSGTLVNALLYH---------------- 120
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
I D SSI G RPGIVHRLDK T+G++V+AK+ +H +L QF+ E+ Y
Sbjct: 121 ---IKD----LSSIGGVE-RPGIVHRLDKETAGVMVIAKNNTAHRNLVRQFQERKTEKFY 172
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
L G+ + G I+ PI+R P +R R + + A + Y V++
Sbjct: 173 KVLVKGLVKKDYGAIDTPIARHPVDRKRFWV------RKEGKEALTEYWVLKRYEKYEIT 226
Query: 312 LVEWRLETGRTHQV 325
L++ ++ TGRTHQ+
Sbjct: 227 LLKVKIHTGRTHQI 240
>sp|Q8XYX8|RLUD_RALSO Ribosomal large subunit pseudouridine synthase D OS=Ralstonia
solanacearum (strain GMI1000) GN=rluD PE=3 SV=1
Length = 358
Score = 147 bits (371), Expect = 1e-34, Method: Compositional matrix adjust.
Identities = 104/298 (34%), Positives = 159/298 (53%), Gaps = 54/298 (18%)
Query: 41 SSSSGGNNREPIANYAGVQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSI 100
S+ G EPI V++ E + + RLD ++ + SR+R+Q I +G V +
Sbjct: 28 SAPGAGQAIEPII----VEIPEALHGE----RLDKALAKLLPDYSRSRLQQWIDAGAVRV 79
Query: 101 NGQVVSKVSHNVKGGDMVNCTISELQPLRAE------AEDIPLDIVYEDDNVLVVNKPAH 154
G V + V GGD + E+ P RA+ AE + LD+VYEDD +LV+NKPA
Sbjct: 80 GGAAV-RPRAAVCGGDRI-----EVVPQRADDENAFVAEPVDLDVVYEDDTLLVINKPAG 133
Query: 155 MVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGI 214
+VVHPA GN +GT++NG+LH + A + R GI
Sbjct: 134 LVVHPAAGNWSGTVLNGLLHR-------------YPQAAGLP--------------RAGI 166
Query: 215 VHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDP 274
VHRLDK TSGL+VVA+ + L Q + T++R Y++L G + +G I+ PI RDP
Sbjct: 167 VHRLDKETSGLMVVARTLPAQTDLVRQLQARTVKRTYLALVWG-ETPEAGTIDAPIGRDP 225
Query: 275 NNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS--ALVEWRLETGRTHQVLMLYK 330
+R RMA I + + A + +K ++++ G + +LV+ +LETGRTHQ+ + ++
Sbjct: 226 RDRTRMAII----ETASGKPARTHFKTLDVVDLGRAQVSLVQCQLETGRTHQIRVHFE 279
>sp|Q9K0B0|RLUD_NEIMB Ribosomal large subunit pseudouridine synthase D OS=Neisseria
meningitidis serogroup B (strain MC58) GN=rluD PE=3 SV=1
Length = 374
Score = 147 bits (370), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 100/255 (39%), Positives = 141/255 (55%), Gaps = 37/255 (14%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQP-LRA 130
RLDA ++ + SR+R+ S I+ G V +N + S+ + GG+ + T+ + L
Sbjct: 40 RLDAVLAKLLPDYSRSRLTSWIKEGAVIVNDKP-SQPKDKMIGGEQICVTVRPSEENLAF 98
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
E + LDIVYEDD V+VVNKPA +VVHPA GN TGTL+NG+L HC P L+
Sbjct: 99 VPEPMALDIVYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHC--PELSQVP----- 151
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
R GIVHRLDK TSGL+VVAK + L Q + T++R+
Sbjct: 152 --------------------RAGIVHRLDKETSGLMVVAKTLPAQNSLVRQLQERTVKRI 191
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y ++ +G+ G+IE I RDP+NR++MA + K G + A + KV+E
Sbjct: 192 YRAVANGI-VPFDGKIETQIGRDPHNRLKMAVV----KFG-GKPAVTHVKVLERYL--TH 243
Query: 311 ALVEWRLETGRTHQV 325
+ +E LETGRTHQ+
Sbjct: 244 SYIECSLETGRTHQI 258
>sp|P65836|RLUD_SALTY Ribosomal large subunit pseudouridine synthase D OS=Salmonella
typhimurium (strain LT2 / SGSC1412 / ATCC 700720)
GN=rluD PE=1 SV=2
Length = 326
Score = 146 bits (369), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 98/268 (36%), Positives = 137/268 (51%), Gaps = 36/268 (13%)
Query: 58 VQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDM 117
VQL TV RLD ++ SR+R++ I + V +NGQ+ K V GG+
Sbjct: 5 VQLTATVSENQLGQRLDQALAEMFPDYSRSRIKEWILNQRVLVNGQLCDKPKEKVLGGER 64
Query: 118 VNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCS 177
V + +R EA+DIPLDIVYEDD++LV+NKP +VVHP GN GT++N +LH+
Sbjct: 65 VAIDAEIDEEIRFEAQDIPLDIVYEDDDILVINKPRDLVVHPGAGNPDGTVLNALLHYY- 123
Query: 178 LPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAH 237
P +A D+ R GIVHRLDK T+GL+VVAK +
Sbjct: 124 -PPIA-----------DVP--------------RAGIVHRLDKDTTGLMVVAKTVPAQTR 157
Query: 238 LSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAAS 297
L E +L I R Y ++ G + + G + PISR P R M+ H + A +
Sbjct: 158 LVESLQLREITREYEAVAIGHMT-AGGTVNEPISRHPTKRTHMSV------HPMGKPAVT 210
Query: 298 RYKVIEILAGGGSALVEWRLETGRTHQV 325
Y+++E + RLETGRTHQ+
Sbjct: 211 HYRIMEHFR--VHTRLRLRLETGRTHQI 236
>sp|P65837|RLUD_SALTI Ribosomal large subunit pseudouridine synthase D OS=Salmonella
typhi GN=rluD PE=3 SV=2
Length = 326
Score = 146 bits (369), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 98/268 (36%), Positives = 137/268 (51%), Gaps = 36/268 (13%)
Query: 58 VQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDM 117
VQL TV RLD ++ SR+R++ I + V +NGQ+ K V GG+
Sbjct: 5 VQLTATVSENQLGQRLDQALAEMFPDYSRSRIKEWILNQRVLVNGQLCDKPKEKVLGGER 64
Query: 118 VNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCS 177
V + +R EA+DIPLDIVYEDD++LV+NKP +VVHP GN GT++N +LH+
Sbjct: 65 VAIDAEIDEEIRFEAQDIPLDIVYEDDDILVINKPRDLVVHPGAGNPDGTVLNALLHYY- 123
Query: 178 LPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAH 237
P +A D+ R GIVHRLDK T+GL+VVAK +
Sbjct: 124 -PPIA-----------DVP--------------RAGIVHRLDKDTTGLMVVAKTVPAQTR 157
Query: 238 LSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAAS 297
L E +L I R Y ++ G + + G + PISR P R M+ H + A +
Sbjct: 158 LVESLQLREITREYEAVAIGHMT-AGGTVNEPISRHPTKRTHMSV------HPMGKPAVT 210
Query: 298 RYKVIEILAGGGSALVEWRLETGRTHQV 325
Y+++E + RLETGRTHQ+
Sbjct: 211 HYRIMEHFR--VHTRLRLRLETGRTHQI 236
>sp|Q9JVB6|RLUD_NEIMA Ribosomal large subunit pseudouridine synthase D OS=Neisseria
meningitidis serogroup A / serotype 4A (strain Z2491)
GN=rluD PE=3 SV=1
Length = 374
Score = 145 bits (365), Expect = 6e-34, Method: Compositional matrix adjust.
Identities = 101/255 (39%), Positives = 141/255 (55%), Gaps = 37/255 (14%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQP-LRA 130
RLDA ++ + SR+R+ I+ G V +N + S+ + GG+ + T+ + L
Sbjct: 40 RLDAVLAKLLPDYSRSRLTLWIKEGAVIVNDKP-SQPKDKMIGGEQIRVTVRPSEENLAF 98
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
E + LDIVYEDD V+VVNKPA +VVHPA GN TGTL+NG+L HC P L
Sbjct: 99 VPEPMALDIVYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHC--PEL--------- 147
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
S I R GIVHRLDK TSGL+VVAK + L Q + T++R+
Sbjct: 148 ------------SQIP----RAGIVHRLDKETSGLMVVAKTLPAQNSLVWQLQERTVKRI 191
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y ++ +G+ G+IE I RDP+NR++MA + K G + A + KV+E
Sbjct: 192 YRAVANGI-VPFDGKIETQIGRDPHNRLKMAVV----KFG-GKPAVTHVKVLERYL--AH 243
Query: 311 ALVEWRLETGRTHQV 325
+ +E LETGRTHQ+
Sbjct: 244 SYIECSLETGRTHQI 258
>sp|Q9CKA6|RLUD_PASMU Ribosomal large subunit pseudouridine synthase D OS=Pasteurella
multocida (strain Pm70) GN=rluD PE=3 SV=1
Length = 324
Score = 142 bits (357), Expect = 5e-33, Method: Compositional matrix adjust.
Identities = 86/254 (33%), Positives = 130/254 (51%), Gaps = 36/254 (14%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++ SR+R+++ I LV +NG VV+ V GG+ + + R E
Sbjct: 18 RLDQALAELFPDYSRSRLKTWIEQNLVHVNGDVVNVPRAKVYGGEQIEIVVEIDDDTRFE 77
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E++PL+IVYEDD++LV+NKP VVHP GNA+GT++N +L+H P +A
Sbjct: 78 PENLPLNIVYEDDDILVINKPKDFVVHPGAGNASGTVLNALLYHY--PAIAEVP------ 129
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
R GIVHRLDK T+GL+V+AK + L + I R Y
Sbjct: 130 -------------------RAGIVHRLDKDTTGLMVIAKTIPAQTKLVRDLQKRKITREY 170
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++ G+ ++ G ++ P++R P R MA H + A + Y+++E
Sbjct: 171 EAIACGIMTK-GGMVDQPMARHPTKRTHMAV------HPMGKPAVTHYRIMERFR--NYT 221
Query: 312 LVEWRLETGRTHQV 325
+ RLETGRTHQ+
Sbjct: 222 RLRLRLETGRTHQI 235
>sp|Q8DEV0|RLUD_VIBVU Ribosomal large subunit pseudouridine synthase D OS=Vibrio
vulnificus (strain CMCP6) GN=rluD PE=3 SV=1
Length = 325
Score = 141 bits (356), Expect = 6e-33, Method: Compositional matrix adjust.
Identities = 94/269 (34%), Positives = 137/269 (50%), Gaps = 38/269 (14%)
Query: 58 VQLEETV-DTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGD 116
++L TV D++ G+ RLD I+ SR+R++ + G V+++G VV+K V GG+
Sbjct: 5 IELTNTVKDSQLGQ-RLDQAIAELFADFSRSRLKEWLLDGKVTVDGNVVTKPRTKVMGGE 63
Query: 117 MVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC 176
++ +R EA+DIPLDIVYEDD++LV+NKP VVHP G GT++N +L HC
Sbjct: 64 VITVLAELEDEVRWEAQDIPLDIVYEDDDILVINKPRDFVVHPGAGTPDGTVLNALLFHC 123
Query: 177 SLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHA 236
P +A R GIVHRLDK T+GL+VVAK +
Sbjct: 124 --PEVAEVP-------------------------RAGIVHRLDKDTTGLMVVAKTVPAQT 156
Query: 237 HLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAA 296
L + I R Y ++ G + + G+++ PI R R MA P + A
Sbjct: 157 RLVRALQKRNITREYEAIAIGRMT-AGGKVDKPIGRHATKRTLMAVSP------MGKPAV 209
Query: 297 SRYKVIEILAGGGSALVEWRLETGRTHQV 325
+ ++V E + RLETGRTHQ+
Sbjct: 210 THFRVAEHFR--EHTRIRLRLETGRTHQI 236
>sp|P65835|RLUD_SHIFL Ribosomal large subunit pseudouridine synthase D OS=Shigella
flexneri GN=rluD PE=3 SV=2
Length = 326
Score = 140 bits (353), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 95/268 (35%), Positives = 134/268 (50%), Gaps = 36/268 (13%)
Query: 58 VQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDM 117
VQL TV RLD ++ SR+R++ I V +NG+V K V GG+
Sbjct: 5 VQLTATVSENQLGQRLDQALAEMFPDYSRSRIKEWILDQRVLVNGKVCDKPKEKVLGGEQ 64
Query: 118 VNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCS 177
V + R E +DIPLDIVYED++++V+NKP +VVHP GN GT++N +LH+
Sbjct: 65 VAINAEIEEEARFEPQDIPLDIVYEDEDIIVINKPRDLVVHPGAGNPDGTVLNALLHYY- 123
Query: 178 LPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAH 237
P +A D+ R GIVHRLDK T+GL+VVAK +
Sbjct: 124 -PPIA-----------DVP--------------RAGIVHRLDKDTTGLMVVAKTVPAQTR 157
Query: 238 LSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAAS 297
L E + I R Y ++ G + + G ++ PISR P R MA H + A +
Sbjct: 158 LVESLQRREITREYEAVAIGHMT-AGGTVDEPISRHPTKRTHMAV------HPMGKPAVT 210
Query: 298 RYKVIEILAGGGSALVEWRLETGRTHQV 325
Y+++E + RLETGRTHQ+
Sbjct: 211 HYRIMEHFR--VHTRLRLRLETGRTHQI 236
>sp|P65834|RLUD_ECOL6 Ribosomal large subunit pseudouridine synthase D OS=Escherichia
coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) GN=rluD
PE=3 SV=2
Length = 326
Score = 140 bits (353), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 95/268 (35%), Positives = 134/268 (50%), Gaps = 36/268 (13%)
Query: 58 VQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDM 117
VQL TV RLD ++ SR+R++ I V +NG+V K V GG+
Sbjct: 5 VQLTATVSENQLGQRLDQALAEMFPDYSRSRIKEWILDQRVLVNGKVCDKPKEKVLGGEQ 64
Query: 118 VNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCS 177
V + R E +DIPLDIVYED++++V+NKP +VVHP GN GT++N +LH+
Sbjct: 65 VAINAEIEEEARFEPQDIPLDIVYEDEDIIVINKPRDLVVHPGAGNPDGTVLNALLHYY- 123
Query: 178 LPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAH 237
P +A D+ R GIVHRLDK T+GL+VVAK +
Sbjct: 124 -PPIA-----------DVP--------------RAGIVHRLDKDTTGLMVVAKTVPAQTR 157
Query: 238 LSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAAS 297
L E + I R Y ++ G + + G ++ PISR P R MA H + A +
Sbjct: 158 LVESLQRREITREYEAVAIGHMT-AGGTVDEPISRHPTKRTHMAV------HPMGKPAVT 210
Query: 298 RYKVIEILAGGGSALVEWRLETGRTHQV 325
Y+++E + RLETGRTHQ+
Sbjct: 211 HYRIMEHFR--VHTRLRLRLETGRTHQI 236
>sp|Q87S65|RLUD_VIBPA Ribosomal large subunit pseudouridine synthase D OS=Vibrio
parahaemolyticus serotype O3:K6 (strain RIMD 2210633)
GN=rluD PE=3 SV=1
Length = 325
Score = 140 bits (352), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 91/261 (34%), Positives = 131/261 (50%), Gaps = 37/261 (14%)
Query: 65 DTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISE 124
D++ G+ RLD I+ SR+R++ + G V +NG+VV+K V GG+ +
Sbjct: 13 DSQLGQ-RLDQAIAELFADFSRSRLKEWLLDGKVQVNGEVVTKPRTKVMGGEEITLQAEL 71
Query: 125 LQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASS 184
R EA+DIPLDIVYEDD+++V+NKP VVHP G GT++N +LHH
Sbjct: 72 EDEERWEAQDIPLDIVYEDDDIIVINKPRDFVVHPGAGTPDGTVLNALLHH--------- 122
Query: 185 NQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKL 244
+ D ++ R GIVHRLDK T+GL+VVAK + L +
Sbjct: 123 ----YPDIAEVP--------------RAGIVHRLDKDTTGLMVVAKTVPAQTRLVRALQK 164
Query: 245 HTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEI 304
I R Y ++ G + + G+++ PI R R MA P + A + Y+V E
Sbjct: 165 RNITREYEAIAIGRMT-AGGKVDQPIGRHSTKRTLMAVAP------LGKPAVTHYRVAEH 217
Query: 305 LAGGGSALVEWRLETGRTHQV 325
+ RLETGRTHQ+
Sbjct: 218 FR--EHTRIRLRLETGRTHQI 236
>sp|P33643|RLUD_ECOLI Ribosomal large subunit pseudouridine synthase D OS=Escherichia
coli (strain K12) GN=rluD PE=1 SV=4
Length = 326
Score = 140 bits (352), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 94/268 (35%), Positives = 134/268 (50%), Gaps = 36/268 (13%)
Query: 58 VQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDM 117
VQL TV RLD ++ SR+R++ I V +NG+V K V GG+
Sbjct: 5 VQLTATVSENQLGQRLDQALAEMFPDYSRSRIKEWILDQRVLVNGKVCDKPKEKVLGGEQ 64
Query: 118 VNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCS 177
V + R E +DIPLDIVYED++++++NKP +VVHP GN GT++N +LH+
Sbjct: 65 VAINAEIEEEARFEPQDIPLDIVYEDEDIIIINKPRDLVVHPGAGNPDGTVLNALLHYY- 123
Query: 178 LPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAH 237
P +A D+ R GIVHRLDK T+GL+VVAK +
Sbjct: 124 -PPIA-----------DVP--------------RAGIVHRLDKDTTGLMVVAKTVPAQTR 157
Query: 238 LSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAAS 297
L E + I R Y ++ G + + G ++ PISR P R MA H + A +
Sbjct: 158 LVESLQRREITREYEAVAIGHMT-AGGTVDEPISRHPTKRTHMAV------HPMGKPAVT 210
Query: 298 RYKVIEILAGGGSALVEWRLETGRTHQV 325
Y+++E + RLETGRTHQ+
Sbjct: 211 HYRIMEHFR--VHTRLRLRLETGRTHQI 236
>sp|Q8X9F0|RLUD_ECO57 Ribosomal large subunit pseudouridine synthase D OS=Escherichia
coli O157:H7 GN=rluD PE=3 SV=3
Length = 326
Score = 139 bits (350), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 94/268 (35%), Positives = 134/268 (50%), Gaps = 36/268 (13%)
Query: 58 VQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDM 117
VQL TV RLD ++ SR+R++ I V +NG++ K V GG+
Sbjct: 5 VQLTATVSENQLGQRLDQALAEMFPDYSRSRIKEWILDQRVLVNGKLCDKPKEKVLGGEQ 64
Query: 118 VNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCS 177
V + R E +DIPLDIVYED++++V+NKP +VVHP GN GT++N +LH+
Sbjct: 65 VAINAEIEEEARFEPQDIPLDIVYEDEDIIVINKPRDLVVHPGAGNPDGTVLNALLHYY- 123
Query: 178 LPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAH 237
P +A D+ R GIVHRLDK T+GL+VVAK +
Sbjct: 124 -PPIA-----------DVP--------------RAGIVHRLDKDTTGLMVVAKTVPAQTR 157
Query: 238 LSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAAS 297
L E + I R Y ++ G + + G ++ PISR P R MA H + A +
Sbjct: 158 LVESLQRREITREYEAVAIGHMT-AGGTVDEPISRHPTKRTHMAV------HPMGKPAVT 210
Query: 298 RYKVIEILAGGGSALVEWRLETGRTHQV 325
Y+++E + RLETGRTHQ+
Sbjct: 211 HYRIMEHFR--VHTRLRLRLETGRTHQI 236
>sp|Q9L7A7|RLUD_HAEDU Ribosomal large subunit pseudouridine synthase D OS=Haemophilus
ducreyi (strain 35000HP / ATCC 700724) GN=rluD PE=3 SV=2
Length = 325
Score = 138 bits (348), Expect = 5e-32, Method: Compositional matrix adjust.
Identities = 87/269 (32%), Positives = 142/269 (52%), Gaps = 38/269 (14%)
Query: 59 QLEETVDTKAGKL--RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGD 116
Q+ T + A L RLD ++ SR+R++ I + LV +NG +V++ V GG+
Sbjct: 4 QMTLTAEISADLLGYRLDQALAQLFPDYSRSRIKVWIENDLVKVNGIIVNRARGKVFGGE 63
Query: 117 MVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC 176
+ + +R E ++IPL+IV+EDD+++++NKP ++VVHP GN GT++N +L++
Sbjct: 64 QIEIQAEIEEEIRFEPQNIPLNIVHEDDDIIIINKPKNLVVHPGAGNPDGTVLNALLYYY 123
Query: 177 SLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHA 236
P +A R GI+HRLDK T+GL+VVAK+ +
Sbjct: 124 --PPIAEVP-------------------------RAGIIHRLDKDTTGLMVVAKNIPAQT 156
Query: 237 HLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAA 296
HL + I R Y ++ SG+ +Q G+++ P++R P R MA H + A
Sbjct: 157 HLVTALQKRRITREYEAIASGIMTQ-GGKVDEPMARHPTKRTAMAV------HPMGKPAI 209
Query: 297 SRYKVIEILAGGGSALVEWRLETGRTHQV 325
+ Y+++E + RLETGRTHQ+
Sbjct: 210 THYRIMERFR--NYTRLRLRLETGRTHQI 236
>sp|Q8ZBV7|RLUD_YERPE Ribosomal large subunit pseudouridine synthase D OS=Yersinia pestis
GN=rluD PE=3 SV=1
Length = 325
Score = 138 bits (348), Expect = 5e-32, Method: Compositional matrix adjust.
Identities = 91/268 (33%), Positives = 135/268 (50%), Gaps = 36/268 (13%)
Query: 58 VQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDM 117
VQL TV RLD ++ SR+R++ I V++NG+ ++K V GG++
Sbjct: 5 VQLSATVAESQLGQRLDQALAELFPDYSRSRIKEWILDSRVTVNGKKINKPKEKVLGGEL 64
Query: 118 VNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCS 177
V + R ++IPLDIVYED+++LV+NKP +VVHP GN GT++N +LH+
Sbjct: 65 VAIDAQIEEDARWAPQEIPLDIVYEDNDILVINKPRGLVVHPGAGNPDGTVLNALLHY-- 122
Query: 178 LPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAH 237
+ + D+ R GIVHRLDK T+GL+VVAK +
Sbjct: 123 -----------YPEIMDVP--------------RAGIVHRLDKDTTGLMVVAKTVPAQTR 157
Query: 238 LSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAAS 297
L E + I R Y ++ G + + GR++ PISR R MA H + A +
Sbjct: 158 LVEALQAREITREYEAVAIGNMT-AGGRVDEPISRHSTKRTHMAV------HPMGKPATT 210
Query: 298 RYKVIEILAGGGSALVEWRLETGRTHQV 325
Y+++E + RLETGRTHQ+
Sbjct: 211 HYRIMEHFR--AHTRLRLRLETGRTHQI 236
>sp|Q8P682|RLUD_XANCP Ribosomal large subunit pseudouridine synthase D OS=Xanthomonas
campestris pv. campestris (strain ATCC 33913 / NCPPB 528
/ LMG 568) GN=rluD PE=3 SV=1
Length = 331
Score = 136 bits (343), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 88/261 (33%), Positives = 132/261 (50%), Gaps = 38/261 (14%)
Query: 65 DTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISE 124
D+ AG+ R DA ++ SR+R+ I+SG ++G+ ++ ++GG+ V +
Sbjct: 20 DSAAGR-RFDAVLAELFPEFSRSRLSEWIKSGDALLDGE-TARPRDTLRGGETVQVQVVL 77
Query: 125 LQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASS 184
A +DIPL+++YEDD+VLV++KPA +VVHP GN GTLVN +L
Sbjct: 78 ETQTHAAPQDIPLNVLYEDDHVLVIDKPAGLVVHPGAGNPDGTLVNALL----------- 126
Query: 185 NQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKL 244
F A R G+VHRLDK TSG++VVA+ + L EQ
Sbjct: 127 ----------------FRDPNLAAVPRAGVVHRLDKDTSGVMVVARTLQAQTALVEQLSA 170
Query: 245 HTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEI 304
+ R Y+++ G S G + PI R P +R++MA R A + Y++ E
Sbjct: 171 RDVHRQYLAVVVGA-LVSGGTADAPIDRHPRDRLKMAV------RDDGRDAVTHYRLRER 223
Query: 305 LAGGGSALVEWRLETGRTHQV 325
+ +E RLETGRTHQ+
Sbjct: 224 FRAHTA--LECRLETGRTHQI 242
>sp|Q9PET9|RLUD_XYLFA Ribosomal large subunit pseudouridine synthase D OS=Xylella
fastidiosa (strain 9a5c) GN=rluD PE=3 SV=1
Length = 331
Score = 135 bits (340), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 95/272 (34%), Positives = 135/272 (49%), Gaps = 37/272 (13%)
Query: 54 NYAGVQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVK 113
+ AG + TV A R DA ++ SR+R+ I+SG V +NG V+ + V
Sbjct: 8 DLAGFSRQTTVPDGAAGRRFDAVLAELFPEFSRSRLTEWIKSGDVLLNG-VLVRPRDPVY 66
Query: 114 GGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGIL 173
GG++V + A +DIPLDI+YED++V V+NKPA +VVHP GN GTLVN +L
Sbjct: 67 GGEVVRLQVVPDIRTDAVPQDIPLDILYEDEHVFVLNKPAGLVVHPGAGNPDGTLVNALL 126
Query: 174 HHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEH 233
H P LA A R G+VHRLDK TSG++VVA+
Sbjct: 127 HRD--PALA-------------------------AVPRAGVVHRLDKDTSGVMVVARTLQ 159
Query: 234 SHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQAR 293
+ L EQ + R Y+++ S G + I R P +R+RMA +
Sbjct: 160 AQTALVEQLSSRQVHRQYLAVVVSA-LVSGGTVNAAIERHPRDRLRMAV------SDTGK 212
Query: 294 HAASRYKVIEILAGGGSALVEWRLETGRTHQV 325
A + Y++ E + +E RL+TGRTHQ+
Sbjct: 213 EAVTHYRLRERFRAHTA--LECRLDTGRTHQI 242
>sp|Q9KU20|RLUD_VIBCH Ribosomal large subunit pseudouridine synthase D OS=Vibrio cholerae
serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)
GN=rluD PE=3 SV=1
Length = 324
Score = 135 bits (339), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 88/269 (32%), Positives = 137/269 (50%), Gaps = 38/269 (14%)
Query: 58 VQLEETV-DTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGD 116
++L +TV D++ G+ RLD ++ SR+R++ + G +++NG V++K V GG+
Sbjct: 5 IELTQTVKDSQLGQ-RLDQAVAELFTDFSRSRLKEWLLEGKIAVNGDVITKPRTKVMGGE 63
Query: 117 MVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHC 176
++ R EA+D+PL+IVYEDD+++V+NKP VVHP G A T++N +L H
Sbjct: 64 VITVQAELEDEQRWEAQDLPLNIVYEDDDIIVINKPRDFVVHPGAGQADKTVLNALLFH- 122
Query: 177 SLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHA 236
+S ++ R GIVHRLDK T+GL+VVAK +
Sbjct: 123 ------------YSPIAEVP--------------RAGIVHRLDKDTTGLMVVAKTVPAQT 156
Query: 237 HLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAA 296
L + + R Y ++ G + + G I+ PI R R M+ P +HA
Sbjct: 157 RLVRALQKRDVTREYEAIVIGTMT-AGGMIDKPIGRHSTKRTLMSVSP------MGKHAV 209
Query: 297 SRYKVIEILAGGGSALVEWRLETGRTHQV 325
+ Y+V E + RLETGRTHQ+
Sbjct: 210 THYRVAEHFR--EHTRLRLRLETGRTHQI 236
>sp|P44445|RLUD_HAEIN Ribosomal large subunit pseudouridine synthase D OS=Haemophilus
influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd)
GN=rluD PE=3 SV=1
Length = 324
Score = 134 bits (336), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 83/254 (32%), Positives = 129/254 (50%), Gaps = 36/254 (14%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++ SR+R+++ I + LV +N ++ + V GG+ + + R E
Sbjct: 18 RLDQTLAELFPEYSRSRLKTWIEADLVKLNDRITNIPREKVLGGERIEIIVEVEDETRFE 77
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AE+IPL+IVYEDD+++V+NKP +VVHP GN GT++N +L+H P +
Sbjct: 78 AENIPLNIVYEDDDIIVINKPKDLVVHPGAGNPNGTVLNALLYHY--PPIVEVP------ 129
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
R GIVHRLDK T+GL+VVAK + L + I R Y
Sbjct: 130 -------------------RAGIVHRLDKDTTGLMVVAKTIPAQTKLVRDLQKRKITREY 170
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++ SG+ ++ G ++ P++R R MA H + A + Y+++E
Sbjct: 171 EAVASGIMTK-GGTVDQPMARHATKRTLMAV------HPMGKPAVTHYRIME--NYRNYT 221
Query: 312 LVEWRLETGRTHQV 325
+ RLETGRTHQ+
Sbjct: 222 RLRLRLETGRTHQI 235
>sp|Q82WZ5|RLUD_NITEU Ribosomal large subunit pseudouridine synthase D OS=Nitrosomonas
europaea (strain ATCC 19718 / NBRC 14298) GN=rluD PE=3
SV=1
Length = 344
Score = 133 bits (334), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 95/290 (32%), Positives = 146/290 (50%), Gaps = 45/290 (15%)
Query: 37 ARCSSSSSGGNNREPIANYAGVQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSG 96
A+ SS++G E +E TV LRLD ++ + SR+R+Q I
Sbjct: 16 AKPDSSAAGSQENENT-------IELTVPDNLAGLRLDQALAQLLPQWSRSRLQGWIEQK 68
Query: 97 LVSINGQVVSKVSHNVKGGDMVNCTISELQPLRA-EAEDIPLDIVYEDDNVLVVNKPAHM 155
VS++ + V GG+ + + + ++ +AE IPL I++EDD++++++KPA +
Sbjct: 69 CVSVDS-AAATCKQKVWGGESIRVIAGQTENDQSHQAEAIPLKILFEDDHLIIIDKPAGL 127
Query: 156 VVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIV 215
VVHP GN GTL+N +L+H P L+ R GIV
Sbjct: 128 VVHPGNGNWHGTLLNALLNHA--PQLSQVP-------------------------RAGIV 160
Query: 216 HRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPN 275
HRLDK T+GLLVVAK + L+ Q + T++R Y++L G + G ++ PI R P
Sbjct: 161 HRLDKDTTGLLVVAKTIEAQFDLARQLQQRTVKRHYLALVLG-KLEKDGVVDAPIGRHPI 219
Query: 276 NRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQV 325
+R RMA + + A + Y+V+E S L+ LETGRTHQ+
Sbjct: 220 HRTRMAVV------QNGKPARTHYRVLEKFT--ASTLLHCSLETGRTHQI 261
>sp|Q87AR7|RLUD_XYLFT Ribosomal large subunit pseudouridine synthase D OS=Xylella
fastidiosa (strain Temecula1 / ATCC 700964) GN=rluD PE=3
SV=1
Length = 331
Score = 133 bits (334), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 95/274 (34%), Positives = 138/274 (50%), Gaps = 41/274 (14%)
Query: 54 NYAGVQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVK 113
+ AG + TV A R DA ++ SR+R+ I+SG V +NG V+ + V
Sbjct: 8 DLAGFSRQTTVPDGAAGRRFDAVLAELFPEFSRSRLTEWIKSGDVLLNG-VLVRPRDPVY 66
Query: 114 GGDMVNCTISELQPLRAEA--EDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNG 171
GG++V + + +R +A +DIPLDI+YED++V V+NKPA +VVHP GN GTLVN
Sbjct: 67 GGEVVWLQV--MPDIRTDAVPQDIPLDILYEDEHVFVINKPAGLVVHPGAGNPDGTLVNA 124
Query: 172 ILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKD 231
+LH P LA A R G+VHRLDK TSG++VVA+
Sbjct: 125 LLHRD--PALA-------------------------AVPRAGVVHRLDKDTSGVMVVART 157
Query: 232 EHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQ 291
+ L EQ + R Y+++ S G + I R P +R+RM
Sbjct: 158 LQAQTALVEQLSSRQVHRQYLAVVVSA-LVSGGTVNAAIERHPRDRLRMEV------SDT 210
Query: 292 ARHAASRYKVIEILAGGGSALVEWRLETGRTHQV 325
+ A + Y++ E + +E RL+TGRTHQ+
Sbjct: 211 GKEAVTHYRLRERFRAHTA--LECRLDTGRTHQI 242
>sp|Q9ZL98|Y745_HELPJ Uncharacterized RNA pseudouridine synthase jhp_0682 OS=Helicobacter
pylori (strain J99) GN=jhp_0682 PE=3 SV=1
Length = 327
Score = 132 bits (333), Expect = 3e-30, Method: Compositional matrix adjust.
Identities = 85/256 (33%), Positives = 140/256 (54%), Gaps = 30/256 (11%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISEL--QPLR 129
R+D +++ + IS+ +V + I+ GLV + V K +K GD + ++ +PL+
Sbjct: 13 RIDEFLAKELQ-ISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDAITLLTPKIVPKPLK 71
Query: 130 AEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAF 189
E D+ +++++ED+++LV+NKP ++VVH AP TLV+ L S N E
Sbjct: 72 KEL-DLEIEVIFEDEDLLVLNKPPNLVVHKAPSVKEPTLVDW---------LKSQNYEL- 120
Query: 190 SDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIER 249
S G R GIVHRLDK TSG +V+AK+ +H LSEQ K + R
Sbjct: 121 --------------SNLGLKERYGIVHRLDKDTSGGIVIAKNNFTHVCLSEQLKTKMMGR 166
Query: 250 VYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGG 309
YI+L S + +E ++R+PNNR++M A+ + K ++R++ S + + + + G
Sbjct: 167 YYIALLSTPLKEEKMSVECYLTRNPNNRLKMIALKAAKKE-KSRYSKSEFTSL-LTSQNG 224
Query: 310 SALVEWRLETGRTHQV 325
L+ +L TGRTHQ+
Sbjct: 225 MDLIGAKLFTGRTHQI 240
>sp|Q8PHN2|RLUD_XANAC Ribosomal large subunit pseudouridine synthase D OS=Xanthomonas
axonopodis pv. citri (strain 306) GN=rluD PE=3 SV=1
Length = 331
Score = 129 bits (325), Expect = 3e-29, Method: Compositional matrix adjust.
Identities = 88/261 (33%), Positives = 130/261 (49%), Gaps = 38/261 (14%)
Query: 65 DTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISE 124
D AG+ R DA ++ SR+R+ I+SG ++G+ +++ ++GG+ V +
Sbjct: 20 DNAAGR-RFDAVLAELFPEFSRSRLSEWIKSGDALLDGE-MARPRDTLRGGESVQVQVVL 77
Query: 125 LQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASS 184
A +DIPL ++YED+ VLV++KPA +VVHP GN TLVN +L P LAS
Sbjct: 78 ETQTHAAPQDIPLSVLYEDEQVLVIDKPAGLVVHPGAGNPDRTLVNALLFRD--PALASV 135
Query: 185 NQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKL 244
R G+VHRLDK TSG++VVA+ + L EQ
Sbjct: 136 P-------------------------RAGVVHRLDKDTSGVMVVARTVQAQTALVEQLSA 170
Query: 245 HTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEI 304
+ R Y+++ G S G PI R P +R++MA R A + Y++ E
Sbjct: 171 REVHRQYLAVVVGA-LVSGGTANAPIDRHPRDRLKMAV------RDDGRDAVTHYRLRER 223
Query: 305 LAGGGSALVEWRLETGRTHQV 325
+ +E RLETGRTHQ+
Sbjct: 224 FRAHTA--LECRLETGRTHQI 242
>sp|O25441|Y745_HELPY Uncharacterized RNA pseudouridine synthase HP_0745 OS=Helicobacter
pylori (strain ATCC 700392 / 26695) GN=HP_0745 PE=3 SV=1
Length = 327
Score = 129 bits (323), Expect = 4e-29, Method: Compositional matrix adjust.
Identities = 83/257 (32%), Positives = 139/257 (54%), Gaps = 32/257 (12%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISEL--QPLR 129
RLD +++ + IS+ +V + I+ GLV + V K +K GD + ++ +PL+
Sbjct: 13 RLDEFLAKELQ-ISKNQVLNLIKEGLVFCQKKEVKKGGLALKEGDEITLLTPKITPKPLK 71
Query: 130 AEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAF 189
E D+ +++++ED+++LV+NKP ++VVH A TLV+ +
Sbjct: 72 KEL-DLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLVDWL----------------- 113
Query: 190 SDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIER 249
+ + + S G R GIVHRLDK TSG +V+AK+ +H HLSEQ K + R
Sbjct: 114 -------EFKNYELSNLGLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGR 166
Query: 250 VYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGG 309
YI+L S + +E ++R+PNNR++M A+ K ++R++ S + I +L
Sbjct: 167 YYIALLSTPLKEEKMSVECYLTRNPNNRLKMIALKAVKKE-KSRYSKSEF--ISLLTSQN 223
Query: 310 SA-LVEWRLETGRTHQV 325
+ L+ +L TGRTHQ+
Sbjct: 224 NLNLIGAKLFTGRTHQI 240
>sp|P33640|RLUD_PSEAE Ribosomal large subunit pseudouridine synthase D OS=Pseudomonas
aeruginosa (strain ATCC 15692 / PAO1 / 1C / PRS 101 /
LMG 12228) GN=rluD PE=3 SV=2
Length = 320
Score = 125 bits (313), Expect = 6e-28, Method: Compositional matrix adjust.
Identities = 91/268 (33%), Positives = 134/268 (50%), Gaps = 37/268 (13%)
Query: 58 VQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDM 117
+Q V + G RLD + SR+R+ I+ G ++++G V+ G +
Sbjct: 5 IQRAAEVPFELGGQRLDQIAAQLFPEHSRSRLAGWIKDGRLTVDGAVLRPRDIVHSGAQL 64
Query: 118 VNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCS 177
V E Q A+DI L+IVYED+++LV++KPA +VVHPA G+ GTL+N +L+H
Sbjct: 65 VLEAEQEAQG-EWLAQDIELEIVYEDEHILVIDKPAGLVVHPAAGHQDGTLLNALLYHV- 122
Query: 178 LPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAH 237
P +A+ R GIVHRLDK T+GL+VVAK +H
Sbjct: 123 -PDIANVP-------------------------RAGIVHRLDKDTTGLMVVAKTLEAHTK 156
Query: 238 LSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAAS 297
L Q + ++ R+Y ++ GV + S G I+ PI R R +MA + A S
Sbjct: 157 LVAQLQARSVSRIYEAIVIGVIT-SGGTIDAPIGRHGVQRQKMAVVDAGKV------AVS 209
Query: 298 RYKVIEILAGGGSALVEWRLETGRTHQV 325
Y+V+E V +LETGRTHQ+
Sbjct: 210 HYRVLERFRAHTHTRV--KLETGRTHQI 235
>sp|P70870|RLUD_BORBU Ribosomal large subunit pseudouridine synthase D OS=Borrelia
burgdorferi (strain ATCC 35210 / B31 / CIP 102532 / DSM
4680) GN=rluD PE=3 SV=2
Length = 326
Score = 119 bits (298), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 84/283 (29%), Positives = 141/283 (49%), Gaps = 36/283 (12%)
Query: 58 VQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVS-KVSHNVKGGD 116
++++ K LRLD ++S + +R++++ NG+ + K+S V D
Sbjct: 2 IRVKREFTVKENALRLDLYLSGNFEVFTRSQIKRRNVEAFKKSNGKFLKIKLSKPVFKDD 61
Query: 117 MVNCTI----SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGI 172
+ S++ LR +IP+ I+YED NV+V+NKP ++ HP + T+VN +
Sbjct: 62 EILIEFDEESSQIDCLRPS--NIPIAIIYEDSNVIVLNKPQGILSHPGISHWDDTVVNFL 119
Query: 173 LHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDE 232
L+H + I+ +EE IRPGIVHRLDK TSG+L+ AK+
Sbjct: 120 LYHIK--------------SLKINFNEE--------KIRPGIVHRLDKDTSGVLICAKNI 157
Query: 233 HSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQA 292
+ L++QFK +VYI++ G + G IE I RD +NR + + +
Sbjct: 158 STLRFLAQQFKDKRTNKVYIAIVKGNFNSFFGSIESFIDRDKHNRKKFSV-----SKDRG 212
Query: 293 RHAASRYKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
+ A + Y++ +L G +L+ + +TGRTHQ+ + K P
Sbjct: 213 KKALTEYRL--LLNFGEYSLLALKPKTGRTHQLRVHMKYLNFP 253
>sp|P75485|Y292_MYCPN Uncharacterized RNA pseudouridine synthase MG209 homolog
OS=Mycoplasma pneumoniae (strain ATCC 29342 / M129)
GN=MPN_292 PE=3 SV=1
Length = 309
Score = 118 bits (296), Expect = 5e-26, Method: Compositional matrix adjust.
Identities = 83/270 (30%), Positives = 140/270 (51%), Gaps = 42/270 (15%)
Query: 60 LEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN 119
+E+T + RLD ++++ ++ +SR +V I GLVS+NG+ ++K V+ D V+
Sbjct: 1 MEQTFSVTTAQ-RLDTFLATLLN-LSRVKVAKLIVDGLVSVNGKKITKNGWLVQPEDRVH 58
Query: 120 CTISE----LQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHH 175
SE P+ + D PLDI+YED+ ++VVNKP ++ HP N + +L+ L H
Sbjct: 59 VNWSEELFEKVPVEVQPYDFPLDILYEDEQIMVVNKPNGLISHPTSFNESESLLGAALFH 118
Query: 176 CSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSH 235
C+ +Q F +VHRLD+ TSG++++AK++ S
Sbjct: 119 CN-------HQPVF------------------------LVHRLDRDTSGVIMLAKNQSSL 147
Query: 236 AHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHA 295
HL +Q + ++R Y++L SG I P+ R NN++ SNK A++A
Sbjct: 148 LHLQKQLQQRVMKRYYLALVHFPLDSLSGTISAPLERVGNNKVMWKVGNSSNK---AKNA 204
Query: 296 ASRYKVIEILAGGGSALVEWRLETGRTHQV 325
+++ V+ +AL++ L TGRTHQ+
Sbjct: 205 FTKFTVLN--QNEKAALIKCELLTGRTHQI 232
>sp|P57481|RLUD_BUCAI Ribosomal large subunit pseudouridine synthase D OS=Buchnera
aphidicola subsp. Acyrthosiphon pisum (strain APS)
GN=rluD PE=3 SV=1
Length = 312
Score = 116 bits (291), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 84/254 (33%), Positives = 123/254 (48%), Gaps = 36/254 (14%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD +S SR+ ++ I V +N +V++ + GG+ + L
Sbjct: 19 RLDLVLSKLFREYSRSYLKKLIIMNQVLVNESIVNQPDKKILGGETLTIHPFSKDLLVDI 78
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
E+I LDIVYED ++L++NKPA +VVHP GN +GT++N +L+H + +
Sbjct: 79 PENIFLDIVYEDSDILIINKPAGLVVHPGSGNKSGTILNALLYH-------------YKN 125
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
++D+ R GIVHRLDK TSGL+V+AK+ S+ HL K I R Y
Sbjct: 126 SKDLP--------------RAGIVHRLDKDTSGLMVIAKNIFSYNHLLLLLKEKKIIREY 171
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
+ G + G I PI R N R M H + + + YKV+
Sbjct: 172 EGIVHG-KMIAGGTINKPIMRHYNRRTCMMV------HHLGKPSVTHYKVLSRFKFHTH- 223
Query: 312 LVEWRLETGRTHQV 325
+ RLETGRTHQ+
Sbjct: 224 -IAIRLETGRTHQI 236
>sp|Q89AD9|RLUD_BUCBP Ribosomal large subunit pseudouridine synthase D OS=Buchnera
aphidicola subsp. Baizongia pistaciae (strain Bp)
GN=rluD PE=3 SV=1
Length = 317
Score = 115 bits (289), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 85/260 (32%), Positives = 130/260 (50%), Gaps = 38/260 (14%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE 131
RLD ++S SR ++ I S V +NG+++ + V D+++ + +
Sbjct: 20 RLDQVLASLFKKHSRTILKRHILSKDVCVNGRILDQPDAKVLYKDIISINLKFKAKNDYQ 79
Query: 132 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 191
AE+I L+++YEDD++LV+NK + VVHP GN +GTL+N +LH
Sbjct: 80 AENIFLNVIYEDDDILVINKQDNFVVHPGAGNTSGTLLNALLH----------------- 122
Query: 192 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 251
D F+ R GIVHRLDK T+GL+V+AK+ S+ L +Q K + R Y
Sbjct: 123 ----RDSTFFNIP------RAGIVHRLDKDTTGLMVIAKNNLSYMALIDQIKCKKVIREY 172
Query: 252 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 311
++ G S G I I R+P R M NK G + A + Y++++
Sbjct: 173 QAIVYG-KVISGGTIVKSIIRNPIKRTTMIV----NKCG--KRAITHYRILKRFTHHTH- 224
Query: 312 LVEWRLETGRTHQVL--MLY 329
++ LETGRTHQ+ MLY
Sbjct: 225 -LKIILETGRTHQIRTHMLY 243
>sp|Q8K9E9|RLUD_BUCAP Ribosomal large subunit pseudouridine synthase D OS=Buchnera
aphidicola subsp. Schizaphis graminum (strain Sg)
GN=rluD PE=3 SV=1
Length = 315
Score = 109 bits (273), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 80/255 (31%), Positives = 120/255 (47%), Gaps = 38/255 (14%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNC-TISELQPLRA 130
RLD +S SR+ ++ I V ING++ ++ + GG+ + + E P+
Sbjct: 19 RLDQILSKLFMQYSRSCLKKWIIMNNVYINGKIENQPDKKILGGEKITIYSTDEKLPINL 78
Query: 131 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 190
++I L+ +YED N+L++NKP +VVHP GN GT++N +L+ ++
Sbjct: 79 -PQNIALNTIYEDSNILIINKPPGLVVHPGAGNQDGTILNALLYR-------------YT 124
Query: 191 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 250
+ I R GI+HRLDK TSGL+V+AK S+ L K I R
Sbjct: 125 NISSIP--------------RCGIIHRLDKDTSGLMVIAKTIFSYNKLVTLLKKRKIIRK 170
Query: 251 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 310
Y + G S G + PI R P RI M + + + YK+I
Sbjct: 171 YQGIIKG-NMISGGIVNYPIMRHPFKRICMTT------DSLGKKSITHYKIINRFK--FH 221
Query: 311 ALVEWRLETGRTHQV 325
V +RLETGRTHQ+
Sbjct: 222 THVSFRLETGRTHQI 236
>sp|P59838|RLUD_BLOFL Ribosomal large subunit pseudouridine synthase D OS=Blochmannia
floridanus GN=rluD PE=3 SV=1
Length = 321
Score = 108 bits (271), Expect = 4e-23, Method: Compositional matrix adjust.
Identities = 74/263 (28%), Positives = 131/263 (49%), Gaps = 48/263 (18%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVN---------CTI 122
RLD +S + SR++++ I + V +N QV + V G+++ C
Sbjct: 17 RLDYILSKLLPQYSRSQIKHWILNKKVVVNNQVSTLPRKKVVYGELIEIKYINNNDICKS 76
Query: 123 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 182
++ P ++IPL+I+YED+++LV+NK ++MVVHP G+ GT++N +L+ P++
Sbjct: 77 EDIVP-----QNIPLNIIYEDNDILVINKASNMVVHPGIGHYQGTVLNALLY--RYPSIL 129
Query: 183 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 242
+++A GIV RLDK T+GL+++AK ++ +L F
Sbjct: 130 KISKQA------------------------GIVQRLDKDTTGLMIIAKTVSAYDNLLRSF 165
Query: 243 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 302
KL + + Y ++ G + ++G + P+ R R M+ H + A + Y V+
Sbjct: 166 KLRKVVKEYDAIVYGKFTSNAGVVNQPMRRHFAKRTFMSV------HYTGKSAVTYYSVV 219
Query: 303 EILAGGGSALVEWRLETGRTHQV 325
E + V L+TGRTHQ+
Sbjct: 220 E--EFKAHSRVRINLKTGRTHQI 240
>sp|P54604|YHCT_BACSU Uncharacterized RNA pseudouridine synthase YhcT OS=Bacillus
subtilis (strain 168) GN=yhcT PE=3 SV=2
Length = 302
Score = 105 bits (262), Expect = 5e-22, Method: Compositional matrix adjust.
Identities = 73/214 (34%), Positives = 103/214 (48%), Gaps = 33/214 (15%)
Query: 112 VKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNG 171
VK GD V + E + E LDI++ED+++L++NKPA + HP TGTL N
Sbjct: 58 VKKGDRVFIDLQESEASSVIPEYGELDILFEDNHMLIINKPAGIATHPNEDGQTGTLANL 117
Query: 172 ILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKD 231
I +H I+G + + VHRLD+ TSG +V AK
Sbjct: 118 IAYHYQ---------------------------INGETCKVRHVHRLDQDTSGAIVFAKH 150
Query: 232 EHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQ 291
+HA L +Q + T++R Y ++ G G I PI RD ++ R PG GQ
Sbjct: 151 RLAHAILDQQLEKKTLKRTYTAIAEGKLRTKKGTINSPIGRDRSHPTRRRVSPG----GQ 206
Query: 292 ARHAASRYKVIEILAGGGSALVEWRLETGRTHQV 325
A + +KV+ A +LVE LETGRTHQ+
Sbjct: 207 T--AVTHFKVMASNAKERLSLVELELETGRTHQI 238
>sp|P0A5T3|Y1567_MYCBO Uncharacterized RNA pseudouridine synthase Mb1567 OS=Mycobacterium
bovis (strain ATCC BAA-935 / AF2122/97) GN=Mb1567 PE=3
SV=1
Length = 308
Score = 100 bits (249), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 82/267 (30%), Positives = 132/267 (49%), Gaps = 36/267 (13%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISEL-QPLR 129
+R+D ++ R+ G+SR + G V +NG K S + G ++ + E PL+
Sbjct: 15 MRVDTGLA-RLLGLSRTAAAALAEEGAVELNGVPAGK-SDRLVSGALLQVRLPEAPAPLQ 72
Query: 130 AEAEDIP-LDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEA 188
DI + I+Y DD+++ V+KPA + H + G T++ G LA++
Sbjct: 73 NTPIDIEGMTILYSDDDIVAVDKPAAVAAHASVGWTGPTVLGG---------LAAAG--- 120
Query: 189 FSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIE 248
+ + SG R GIVHRLD GTSG++VVA E ++ L FK T++
Sbjct: 121 ------------YRITTSGVHERQGIVHRLDVGTSGVMVVAISERAYTVLKRAFKYRTVD 168
Query: 249 RVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGG 308
+ Y +L G P SSG I+ PI R + + A K+G RH+ + Y +E
Sbjct: 169 KRYHALVQGHPDPSSGTIDAPIGRHRGHEWKFAI----TKNG--RHSLTHYDTLEAFV-- 220
Query: 309 GSALVEWRLETGRTHQVLMLYKLFYIP 335
++L++ LETGRTHQ+ + + + P
Sbjct: 221 AASLLDVHLETGRTHQIRVHFAALHHP 247
>sp|P0A5T2|Y1540_MYCTU Uncharacterized RNA pseudouridine synthase Rv1540/MT1592
OS=Mycobacterium tuberculosis GN=Rv1540 PE=3 SV=1
Length = 308
Score = 100 bits (249), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 82/267 (30%), Positives = 132/267 (49%), Gaps = 36/267 (13%)
Query: 71 LRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISEL-QPLR 129
+R+D ++ R+ G+SR + G V +NG K S + G ++ + E PL+
Sbjct: 15 MRVDTGLA-RLLGLSRTAAAALAEEGAVELNGVPAGK-SDRLVSGALLQVRLPEAPAPLQ 72
Query: 130 AEAEDIP-LDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEA 188
DI + I+Y DD+++ V+KPA + H + G T++ G LA++
Sbjct: 73 NTPIDIEGMTILYSDDDIVAVDKPAAVAAHASVGWTGPTVLGG---------LAAAG--- 120
Query: 189 FSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIE 248
+ + SG R GIVHRLD GTSG++VVA E ++ L FK T++
Sbjct: 121 ------------YRITTSGVHERQGIVHRLDVGTSGVMVVAISERAYTVLKRAFKYRTVD 168
Query: 249 RVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGG 308
+ Y +L G P SSG I+ PI R + + A K+G RH+ + Y +E
Sbjct: 169 KRYHALVQGHPDPSSGTIDAPIGRHRGHEWKFAI----TKNG--RHSLTHYDTLEAFV-- 220
Query: 309 GSALVEWRLETGRTHQVLMLYKLFYIP 335
++L++ LETGRTHQ+ + + + P
Sbjct: 221 AASLLDVHLETGRTHQIRVHFAALHHP 247
>sp|O31613|YJBO_BACSU Uncharacterized RNA pseudouridine synthase YjbO OS=Bacillus
subtilis (strain 168) GN=yjbO PE=3 SV=1
Length = 283
Score = 92.0 bits (227), Expect = 6e-18, Method: Compositional matrix adjust.
Identities = 75/246 (30%), Positives = 120/246 (48%), Gaps = 40/246 (16%)
Query: 83 GISRARVQSSIR--SGLVSINGQVVSKVSHNVKGGDMVNCTISELQPLRAE-AEDIPLDI 139
GIS+ R+ + I+ G + ING+ V+ V + +K GD++ E Q AE +PLDI
Sbjct: 11 GISK-RLLTDIKFGGGDLQINGEHVT-VKYVLKEGDLLIVKFPEEQVSETLLAEPVPLDI 68
Query: 140 VYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSDAEDISDDE 199
+YED++VLV+NK ++ P+ + +G++ NGI+ H
Sbjct: 69 LYEDEHVLVINKQPYVSSIPSREHPSGSIANGIIDHYQ---------------------- 106
Query: 200 EFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVYISLTSGVP 259
+G +V RLD+ TSG+++VAK +H+ LS K ++R Y ++ G
Sbjct: 107 -----TTGVRATVHLVTRLDRDTSGIMLVAKHRFAHSILSSAQKNGLVKRRYAAVVHGRM 161
Query: 260 SQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSALVEWRLET 319
+Q G ++ PI R P++ I P K A + + V A V +LET
Sbjct: 162 AQMEGTVDAPIGRHPDSIIERTVTPDGQK------AVTHFYV--TCANDDMTSVALQLET 213
Query: 320 GRTHQV 325
GRTHQ+
Sbjct: 214 GRTHQI 219
>sp|P47451|Y209_MYCGE Uncharacterized RNA pseudouridine synthase MG209 OS=Mycoplasma
genitalium (strain ATCC 33530 / G-37 / NCTC 10195)
GN=MG209 PE=3 SV=1
Length = 308
Score = 85.9 bits (211), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 64/244 (26%), Positives = 117/244 (47%), Gaps = 41/244 (16%)
Query: 86 RARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISELQP----LRAEAEDIPLDIVY 141
R +V I +G + +N ++ K S V D++ I + E ++ L++++
Sbjct: 25 RVKVVKLIMNGQIKVNEKLTFKNSLIVAKDDVIKVEIHDETTSDFITSVEPYNLKLEVLF 84
Query: 142 EDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSDAEDISDDEEF 201
ED +++V+NKP+ ++ HP N +L+ + H +N+
Sbjct: 85 EDKDLMVINKPSGLLTHPTTFNEKASLLAACIFH--------NNKNPVY----------- 125
Query: 202 SSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQ 261
+VHRLD+ TSG +VV K++ S +L Q + T++R Y++L +
Sbjct: 126 ------------LVHRLDRDTSGAIVVCKNQASLLNLQNQLQNRTLKRYYVALVHFPFNA 173
Query: 262 SSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSALVEWRLETGR 321
+G I P++R NN++ M I + +A+ A +++KVI +AL+ L TGR
Sbjct: 174 LTGSINAPLARVNNNKV-MFKIAQT---AKAKQAITKFKVIN--QNEKAALISLELLTGR 227
Query: 322 THQV 325
THQ+
Sbjct: 228 THQI 231
>sp|Q8D8G1|RLUC_VIBVU Ribosomal large subunit pseudouridine synthase C OS=Vibrio
vulnificus (strain CMCP6) GN=rluC PE=3 SV=1
Length = 315
Score = 83.2 bits (204), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 76/285 (26%), Positives = 132/285 (46%), Gaps = 67/285 (23%)
Query: 58 VQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDM 117
VQ+ + + AG+ R+D ++ +++ + ++ + +R G V +N + V K + + GD+
Sbjct: 8 VQIVDIDEDMAGQ-RIDNFLRNQLKDVPKSMIYRIVRKGEVRVNKKRV-KAEYKLAAGDV 65
Query: 118 VN---CTISELQPLRA---------EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNAT 165
V T+ + P A E +D+ I+YEDD++LV+NKP+ VH G
Sbjct: 66 VRIPPVTLEKKDPETAPSTKLNKVAELQDL---IIYEDDHLLVLNKPSGTAVHGGSGLKF 122
Query: 166 GTLVNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPG-----IVHRLDK 220
G + EA ++RP +VHR+D+
Sbjct: 123 GAI------------------EALR------------------ALRPEARFLELVHRIDR 146
Query: 221 GTSGLLVVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRM 280
TSG+L+VAK + HL QF+ T+++ Y +L G S + P+ ++ N
Sbjct: 147 DTSGILLVAKKRSALRHLQAQFREKTVQKYYFALVMGEWKNSCKVVNAPLLKNEVN---- 202
Query: 281 AAIPGSNKHGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQV 325
+I N +G+ + +R+KVIE + LV+ TGRTHQ+
Sbjct: 203 -SIVRVNPNGKP--SETRFKVIEKFP--QATLVQASPITGRTHQI 242
>sp|Q4UKQ3|RLUC_RICFE Ribosomal large subunit pseudouridine synthase C OS=Rickettsia
felis (strain ATCC VR-1525 / URRWXCal2) GN=rluC PE=3
SV=1
Length = 305
Score = 82.0 bits (201), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 68/277 (24%), Positives = 125/277 (45%), Gaps = 50/277 (18%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV------NCTISEL 125
RLD ++ +++ ++ ++R +++N Q ++ S VKGGD + N + +
Sbjct: 12 RLDKYLKRLYPLLTQGVIEKALRQKQITVNSQK-AEASLRVKGGDKIFINDKFNLPVKQP 70
Query: 126 QPLRAEAEDIPLD-------IVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
+ L +I L ++YEDDN++ +NKPA + G+ ++ L + +
Sbjct: 71 EKLVFTDAEIKLAKKITTDYLIYEDDNLIAINKPAGLATQG--GSKINLSIDSALKYLNY 128
Query: 179 PTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHL 238
GA + +VHRLDK TSGLL++AK+ S+ L
Sbjct: 129 ---------------------------KGADFK--LVHRLDKETSGLLLIAKNYLSNVKL 159
Query: 239 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASR 298
+ FK + + Y ++T G P ++ G + I + + ++ I N + A +
Sbjct: 160 HDAFKEKLVVKTYFAVTYGKPIKNVGEVRSNIEKSKGSTPKITDIYSEN----GKLAITY 215
Query: 299 YKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
YK+++ L L+E+ TGR HQ+ + KL P
Sbjct: 216 YKLLKSL-DNNLFLIEFTPVTGRMHQLRLHAKLLGCP 251
>sp|Q92IS6|RLUC_RICCN Ribosomal large subunit pseudouridine synthase C OS=Rickettsia
conorii (strain ATCC VR-613 / Malish 7) GN=rluC PE=3
SV=1
Length = 303
Score = 80.5 bits (197), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 71/278 (25%), Positives = 123/278 (44%), Gaps = 52/278 (18%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMV------NCTISEL 125
RLD ++ +++ ++ ++R +++N Q ++ S VKGGD + N + +
Sbjct: 12 RLDKYLKRLYPLLTQGVIEKALRQKQITVNAQK-AEASLRVKGGDKIFINDKFNLPVKQP 70
Query: 126 QPLRAEAEDIPLD-------IVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSL 178
+ L +I L ++Y DDN++ +NKPA + GT +N
Sbjct: 71 EKLVFTDAEIKLAKKITTDYLIYADDNLIAINKPAGLATQ------GGTKIN-------- 116
Query: 179 PTLASSNQEAFSDAEDISDDEEFSS-SISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAH 237
+S D + GA + +VHRLDK TSGLL++AK+ S
Sbjct: 117 ----------------LSIDSALKYLNYKGADFK--LVHRLDKKTSGLLLIAKNYLSSVK 158
Query: 238 LSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAAS 297
L FK + + Y ++T G P ++ G + I + + ++ I N + A +
Sbjct: 159 LHNAFKEKLVVKTYFAVTYGKPIKNVGEVRSNIEKSKGSTPKITDIDSEN----GKLAIT 214
Query: 298 RYKVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
YKV++ L L+E+ TGR HQ+ + KL P
Sbjct: 215 YYKVLKSL-DNNLFLIEFTPVTGRMHQLRLHAKLLGCP 251
>sp|Q87N15|RLUC_VIBPA Ribosomal large subunit pseudouridine synthase C OS=Vibrio
parahaemolyticus serotype O3:K6 (strain RIMD 2210633)
GN=rluC PE=3 SV=1
Length = 315
Score = 80.5 bits (197), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 70/282 (24%), Positives = 131/282 (46%), Gaps = 61/282 (21%)
Query: 58 VQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDM 117
VQ + + AG+ R+D ++ +++ I ++ + +R G V +N + + K + +K GD+
Sbjct: 8 VQFVDIDEDMAGQ-RIDNFLRNQLKDIPKSMIYRIVRKGEVRVNKKRI-KAEYKLKAGDL 65
Query: 118 VN---CTISELQPLRA------EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTL 168
V T+ + + A + ++ I+YEDD++L++NKP+ VH G G +
Sbjct: 66 VRIPPVTVEKKEEDVAPSTKLNKVAELEHMIIYEDDHMLILNKPSGTAVHGGSGLKFGAI 125
Query: 169 VNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPG-----IVHRLDKGTS 223
EA ++RP +VHR+D+ TS
Sbjct: 126 ------------------EALR------------------ALRPQARFLELVHRIDRDTS 149
Query: 224 GLLVVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAI 283
G+L+VAK + HL QF+ T+++ Y +L G S + P+ ++ N +I
Sbjct: 150 GILLVAKKRSALRHLQAQFREKTVKKFYFALVMGQWKSSCKVVNAPLLKNEVN-----SI 204
Query: 284 PGSNKHGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQV 325
N +G+ + +R+K++E + L++ TGRTHQ+
Sbjct: 205 VRVNPNGKP--SETRFKILEKFE--QATLIQASPITGRTHQI 242
>sp|Q9KQH0|RLUC_VIBCH Ribosomal large subunit pseudouridine synthase C OS=Vibrio cholerae
serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)
GN=rluC PE=3 SV=1
Length = 315
Score = 80.1 bits (196), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 73/279 (26%), Positives = 132/279 (47%), Gaps = 54/279 (19%)
Query: 58 VQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDM 117
VQ + + AG+ R+D ++ +++ I ++ V +R G V +N + V K + ++ GD+
Sbjct: 8 VQFIDIDEDMAGQ-RIDNFLRNQLKNIPKSVVYRILRKGEVRVNKKRV-KAEYKLEAGDV 65
Query: 118 V-----NCTISELQPL-----RAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGT 167
V + E +P ++ ++ IVYEDD++L++NKP+ VH G
Sbjct: 66 VRVPPVTVEVKENEPAPPSTKLSKVAELEHCIVYEDDHLLILNKPSGTAVHGGSG----- 120
Query: 168 LVNGILHHCSLPTL-ASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLL 226
LH ++ L A Q F + +VHR+D+ TSG+L
Sbjct: 121 -----LHFGAIEALRALRPQARFLE----------------------LVHRIDRDTSGIL 153
Query: 227 VVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGS 286
+VAK + HL QF+ T+++ Y +L G + P+ ++ N +I
Sbjct: 154 LVAKKRSALRHLQAQFREKTVQKYYYALVMGHWDAECKVVNAPLLKNEVN-----SIVRV 208
Query: 287 NKHGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQV 325
N +G+ + +R++++E A + LV+ TGRTHQ+
Sbjct: 209 NPNGKP--SETRFRILEKFA--EATLVQASPVTGRTHQI 243
>sp|Q9HZM9|RLUC_PSEAE Ribosomal large subunit pseudouridine synthase C OS=Pseudomonas
aeruginosa (strain ATCC 15692 / PAO1 / 1C / PRS 101 /
LMG 12228) GN=rluC PE=3 SV=1
Length = 318
Score = 77.8 bits (190), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 81/291 (27%), Positives = 128/291 (43%), Gaps = 62/291 (21%)
Query: 51 PIANYAGVQLEETVDTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSIN-GQVVSKVS 109
P + GVQL + AG+ R+D ++ +R+ G + + +R G V +N G++ K
Sbjct: 4 PASPTTGVQLLDVPPELAGQ-RIDNFLIARLKGAPKTLIYRILRKGEVRVNKGRI--KPD 60
Query: 110 HNVKGGDMVNCTISELQPLRAEAEDIPLD------------IVYEDDNVLVVNKPAHMVV 157
+ ++ GD V PLR D P IVYED ++VVNKPA + V
Sbjct: 61 YRLQAGDQVRVP-----PLRLAERDEPAPLAQGLLERMEAAIVYEDKALIVVNKPAGIAV 115
Query: 158 HPAPGNATGTLVNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHR 217
H G + G + ++ DA+DI +VHR
Sbjct: 116 HGGSGVSAGVI--------------EVFRQLRPDAKDIE-----------------LVHR 144
Query: 218 LDKGTSGLLVVAKDEHSHAHLSEQFKLHTI-ERVYISLTSGVPSQSSGRIEVPISRDPNN 276
LD+ TSGLL++AK HL E + I ++ Y +L G + P+ ++ N
Sbjct: 145 LDRDTSGLLMIAKKRSMLRHLHEALRGEKIVDKRYHALVRGHWPAGKKNVRAPLLKN-NL 203
Query: 277 RI--RMAAIPGSNKHGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQV 325
R RM + + + + A + ++V+ G + LVE R TGRTHQ+
Sbjct: 204 RSGERMVEV-----NVEGKDALTEFRVLRRF-GDFATLVEARPITGRTHQI 248
>sp|Q1RJX7|RLUC_RICBR Ribosomal large subunit pseudouridine synthase C OS=Rickettsia
bellii (strain RML369-C) GN=rluC PE=3 SV=1
Length = 301
Score = 76.3 bits (186), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 68/276 (24%), Positives = 121/276 (43%), Gaps = 48/276 (17%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGG-----DMVNCTISELQ 126
RLD ++ +++ ++ ++R + +N + V+G D N I++
Sbjct: 12 RLDKYLRRLYPLLTQGVIEKALRQKQIIVNSKKAEASLRVVEGDEIFIHDKFNLPIAQPT 71
Query: 127 PLRAEAEDIPLD-------IVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLP 179
L +I L ++YEDDN++ +NKPA + G+ V+ L + +
Sbjct: 72 KLVFTDAEITLAKKITTEYLIYEDDNIIAINKPAGLATQG--GSKINLSVDSALKYLN-- 127
Query: 180 TLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLS 239
GA + +VHRLDK TSGLL++AK+ S L
Sbjct: 128 -------------------------SQGADFK--LVHRLDKETSGLLLIAKNYVSSVKLH 160
Query: 240 EQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRY 299
+ FK +E+ Y+++T G P + G ++ I + + ++ I +N + A + Y
Sbjct: 161 DAFKEKLVEKTYLAVTYGKPIKDQGEVKTNIEKSKGSIPKITDINDNN----GKLAITYY 216
Query: 300 KVIEILAGGGSALVEWRLETGRTHQVLMLYKLFYIP 335
K+++ L LVE+ TGR HQ+ + KL P
Sbjct: 217 KLLKSLT-NNLFLVEFIPITGRMHQLRLHAKLLGCP 251
Database: swissprot
Posted date: Mar 23, 2013 2:32 AM
Number of letters in database: 191,569,459
Number of sequences in database: 539,616
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: 123,695,765
Number of Sequences: 539616
Number of extensions: 5114829
Number of successful extensions: 15169
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 129
Number of HSP's successfully gapped in prelim test: 21
Number of HSP's that attempted gapping in prelim test: 14784
Number of HSP's gapped (non-prelim): 247
length of query: 341
length of database: 191,569,459
effective HSP length: 118
effective length of query: 223
effective length of database: 127,894,771
effective search space: 28520533933
effective search space used: 28520533933
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: 61 (28.1 bits)