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= 022339
(298 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 = 376 bits (966), Expect = e-104, 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
>sp|Q5Z8P2|PUS2_ORYSJ RNA pseudourine synthase 2, chloroplastic OS=Oryza sativa subsp.
japonica GN=Os06g0717400 PE=2 SV=1
Length = 445
Score = 327 bits (838), Expect = 6e-89, Method: Compositional matrix adjust.
Identities = 170/259 (65%), Positives = 197/259 (76%), Gaps = 16/259 (6%)
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 MAAIPGSNKHGQARHAASR 298
M A PGS H ARHAASR
Sbjct: 296 MIATPGSG-HRYARHAASR 313
>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 = 156 bits (394), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 85/214 (39%), Positives = 120/214 (56%), Gaps = 24/214 (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 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIP 284
Y + G P + G + +P+ R P +R +M +P
Sbjct: 188 YWGIVYGSPKEIQGTVNLPVGRHPGDRQKMGIVP 221
>sp|Q45480|YLYB_BACSU Uncharacterized RNA pseudouridine synthase YlyB OS=Bacillus
subtilis (strain 168) GN=ylyB PE=3 SV=3
Length = 303
Score = 154 bits (389), Expect = 8e-37, Method: Compositional matrix adjust.
Identities = 90/224 (40%), Positives = 128/224 (57%), Gaps = 25/224 (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 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAA 282
Q T+ R Y ++ G+ S G I+ PI RD +R M
Sbjct: 158 VNQLVNKTVTRKYTAVVHGLISHDDGTIDAPIGRDKKDRQSMTV 201
>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 = 151 bits (381), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 87/223 (39%), Positives = 130/223 (58%), Gaps = 27/223 (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 RVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQ 291
+VY ++ GVP SG I+ I R NR MA P G+
Sbjct: 167 KVYKAIVWGVPKAESGTIKTNIGRSHKNRKVMANFPYEGAEGK 209
>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 = 148 bits (373), Expect = 6e-35, Method: Compositional matrix adjust.
Identities = 79/209 (37%), Positives = 121/209 (57%), Gaps = 24/209 (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 ISLTSGVPSQSSGRIEVPISRDPNNRIRM 280
L G+ + G I+ PI+R P +R R
Sbjct: 173 KVLVKGLVKKDYGAIDTPIARHPVDRKRF 201
>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 = 147 bits (372), Expect = 8e-35, Method: Compositional matrix adjust.
Identities = 84/213 (39%), Positives = 121/213 (56%), Gaps = 27/213 (12%)
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 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIP 284
+L G P + +G I+ PI RDP +R+RMA +P
Sbjct: 181 QALVIGRPPE-TGTIDAPIGRDPRDRLRMAVVP 212
>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 = 145 bits (366), Expect = 4e-34, Method: Compositional matrix adjust.
Identities = 90/213 (42%), Positives = 123/213 (57%), Gaps = 25/213 (11%)
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 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAI 283
Y ++ G PS G ++ P++R NR +MA +
Sbjct: 173 YRAIVDGHPSL-QGHVDAPLARSSVNRQKMAIV 204
>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 = 135 bits (340), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 87/214 (40%), Positives = 122/214 (57%), Gaps = 32/214 (14%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI--SELQPLR 129
RLDA ++ + SR+R+ S I+ G V +N + S+ + GG+ + T+ SE + L
Sbjct: 40 RLDAVLAKLLPDYSRSRLTSWIKEGAVIVNDKP-SQPKDKMIGGEQICVTVRPSE-ENLA 97
Query: 130 AEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAF 189
E + LDIVYEDD V+VVNKPA +VVHPA GN TGTL+NG+L HC P L+
Sbjct: 98 FVPEPMALDIVYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHC--PELSQVP---- 151
Query: 190 SDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIER 249
R GIVHRLDK TSGL+VVAK + L Q + T++R
Sbjct: 152 ---------------------RAGIVHRLDKETSGLMVVAKTLPAQNSLVRQLQERTVKR 190
Query: 250 VYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAI 283
+Y ++ +G+ G+IE I RDP+NR++MA +
Sbjct: 191 IYRAVANGI-VPFDGKIETQIGRDPHNRLKMAVV 223
>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 = 133 bits (334), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 88/214 (41%), Positives = 122/214 (57%), Gaps = 32/214 (14%)
Query: 72 RLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTI--SELQPLR 129
RLDA ++ + SR+R+ I+ G V +N + S+ + GG+ + T+ SE + L
Sbjct: 40 RLDAVLAKLLPDYSRSRLTLWIKEGAVIVNDKP-SQPKDKMIGGEQIRVTVRPSE-ENLA 97
Query: 130 AEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAF 189
E + LDIVYEDD V+VVNKPA +VVHPA GN TGTL+NG+L HC P L
Sbjct: 98 FVPEPMALDIVYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHC--PEL-------- 147
Query: 190 SDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIER 249
S I R GIVHRLDK TSGL+VVAK + L Q + T++R
Sbjct: 148 -------------SQIP----RAGIVHRLDKETSGLMVVAKTLPAQNSLVWQLQERTVKR 190
Query: 250 VYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAI 283
+Y ++ +G+ G+IE I RDP+NR++MA +
Sbjct: 191 IYRAVANGI-VPFDGKIETQIGRDPHNRLKMAVV 223
>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 = 132 bits (333), Expect = 3e-30, Method: Compositional matrix adjust.
Identities = 86/227 (37%), Positives = 118/227 (51%), Gaps = 28/227 (12%)
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 LSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIP 284
L E +L I R Y ++ G + + G + PISR P R M+ P
Sbjct: 158 LVESLQLREITREYEAVAIGHMT-AGGTVNEPISRHPTKRTHMSVHP 203
>sp|P65837|RLUD_SALTI Ribosomal large subunit pseudouridine synthase D OS=Salmonella
typhi GN=rluD PE=3 SV=2
Length = 326
Score = 132 bits (333), Expect = 3e-30, Method: Compositional matrix adjust.
Identities = 86/227 (37%), Positives = 118/227 (51%), Gaps = 28/227 (12%)
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 LSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIP 284
L E +L I R Y ++ G + + G + PISR P R M+ P
Sbjct: 158 LVESLQLREITREYEAVAIGHMT-AGGTVNEPISRHPTKRTHMSVHP 203
>sp|Q8XYX8|RLUD_RALSO Ribosomal large subunit pseudouridine synthase D OS=Ralstonia
solanacearum (strain GMI1000) GN=rluD PE=3 SV=1
Length = 358
Score = 131 bits (329), Expect = 8e-30, Method: Compositional matrix adjust.
Identities = 91/249 (36%), Positives = 130/249 (52%), Gaps = 48/249 (19%)
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 NNRIRMAAI 283
+R RMA I
Sbjct: 226 RDRTRMAII 234
>sp|Q8DEV0|RLUD_VIBVU Ribosomal large subunit pseudouridine synthase D OS=Vibrio
vulnificus (strain CMCP6) GN=rluD PE=3 SV=1
Length = 325
Score = 130 bits (327), Expect = 1e-29, Method: Compositional matrix adjust.
Identities = 84/229 (36%), Positives = 124/229 (54%), Gaps = 32/229 (13%)
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 MVNCTISELQ-PLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHH 175
++ ++EL+ +R EA+DIPLDIVYEDD++LV+NKP VVHP G GT++N +L H
Sbjct: 64 VITV-LAELEDEVRWEAQDIPLDIVYEDDDILVINKPRDFVVHPGAGTPDGTVLNALLFH 122
Query: 176 CSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSH 235
C P +A R GIVHRLDK T+GL+VVAK +
Sbjct: 123 C--PEVAEVP-------------------------RAGIVHRLDKDTTGLMVVAKTVPAQ 155
Query: 236 AHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIP 284
L + I R Y ++ G + + G+++ PI R R MA P
Sbjct: 156 TRLVRALQKRNITREYEAIAIGRMT-AGGKVDKPIGRHATKRTLMAVSP 203
>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 = 127 bits (320), Expect = 7e-29, Method: Compositional matrix adjust.
Identities = 78/220 (35%), Positives = 113/220 (51%), Gaps = 29/220 (13%)
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 HTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIP 284
I R Y ++ G + + G+++ PI R R MA P
Sbjct: 165 RNITREYEAIAIGRMT-AGGKVDQPIGRHSTKRTLMAVAP 203
>sp|Q9CKA6|RLUD_PASMU Ribosomal large subunit pseudouridine synthase D OS=Pasteurella
multocida (strain Pm70) GN=rluD PE=3 SV=1
Length = 324
Score = 127 bits (318), Expect = 1e-28, Method: Compositional matrix adjust.
Identities = 74/213 (34%), Positives = 111/213 (52%), Gaps = 28/213 (13%)
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 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIP 284
++ G+ ++ G ++ P++R P R MA P
Sbjct: 171 EAIACGIMTK-GGMVDQPMARHPTKRTHMAVHP 202
>sp|P65835|RLUD_SHIFL Ribosomal large subunit pseudouridine synthase D OS=Shigella
flexneri GN=rluD PE=3 SV=2
Length = 326
Score = 126 bits (317), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 83/227 (36%), Positives = 115/227 (50%), Gaps = 28/227 (12%)
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 LSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIP 284
L E + I R Y ++ G + + G ++ PISR P R MA P
Sbjct: 158 LVESLQRREITREYEAVAIGHMT-AGGTVDEPISRHPTKRTHMAVHP 203
>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 = 126 bits (317), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 83/227 (36%), Positives = 115/227 (50%), Gaps = 28/227 (12%)
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 LSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIP 284
L E + I R Y ++ G + + G ++ PISR P R MA P
Sbjct: 158 LVESLQRREITREYEAVAIGHMT-AGGTVDEPISRHPTKRTHMAVHP 203
>sp|P33643|RLUD_ECOLI Ribosomal large subunit pseudouridine synthase D OS=Escherichia
coli (strain K12) GN=rluD PE=1 SV=4
Length = 326
Score = 125 bits (315), Expect = 3e-28, Method: Compositional matrix adjust.
Identities = 82/227 (36%), Positives = 115/227 (50%), Gaps = 28/227 (12%)
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 LSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIP 284
L E + I R Y ++ G + + G ++ PISR P R MA P
Sbjct: 158 LVESLQRREITREYEAVAIGHMT-AGGTVDEPISRHPTKRTHMAVHP 203
>sp|Q8X9F0|RLUD_ECO57 Ribosomal large subunit pseudouridine synthase D OS=Escherichia
coli O157:H7 GN=rluD PE=3 SV=3
Length = 326
Score = 125 bits (314), Expect = 4e-28, Method: Compositional matrix adjust.
Identities = 82/227 (36%), Positives = 115/227 (50%), Gaps = 28/227 (12%)
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 LSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIP 284
L E + I R Y ++ G + + G ++ PISR P R MA P
Sbjct: 158 LVESLQRREITREYEAVAIGHMT-AGGTVDEPISRHPTKRTHMAVHP 203
>sp|Q8ZBV7|RLUD_YERPE Ribosomal large subunit pseudouridine synthase D OS=Yersinia pestis
GN=rluD PE=3 SV=1
Length = 325
Score = 124 bits (310), Expect = 1e-27, Method: Compositional matrix adjust.
Identities = 79/227 (34%), Positives = 116/227 (51%), Gaps = 28/227 (12%)
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 LSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIP 284
L E + I R Y ++ G + + GR++ PISR R MA P
Sbjct: 158 LVEALQAREITREYEAVAIGNMT-AGGRVDEPISRHSTKRTHMAVHP 203
>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 = 123 bits (309), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 75/228 (32%), Positives = 123/228 (53%), Gaps = 30/228 (13%)
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 HLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIP 284
HL + I R Y ++ SG+ +Q G+++ P++R P R MA P
Sbjct: 157 HLVTALQKRRITREYEAIASGIMTQ-GGKVDEPMARHPTKRTAMAVHP 203
>sp|Q9PET9|RLUD_XYLFA Ribosomal large subunit pseudouridine synthase D OS=Xylella
fastidiosa (strain 9a5c) GN=rluD PE=3 SV=1
Length = 331
Score = 122 bits (306), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 83/228 (36%), Positives = 115/228 (50%), Gaps = 29/228 (12%)
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 SHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMA 281
+ L EQ + R Y+++ S G + I R P +R+RMA
Sbjct: 160 AQTALVEQLSSRQVHRQYLAVVVSA-LVSGGTVNAAIERHPRDRLRMA 206
>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 = 121 bits (304), Expect = 5e-27, Method: Compositional matrix adjust.
Identities = 83/229 (36%), Positives = 118/229 (51%), Gaps = 33/229 (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 EHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRM 280
+ L EQ + R Y+++ S G + I R P +R+RM
Sbjct: 158 LQAQTALVEQLSSRQVHRQYLAVVVSA-LVSGGTVNAAIERHPRDRLRM 205
>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 = 121 bits (303), Expect = 8e-27, Method: Compositional matrix adjust.
Identities = 74/217 (34%), Positives = 112/217 (51%), Gaps = 30/217 (13%)
Query: 65 DTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISE 124
D+ AG+ R DA ++ SR+R+ I+SG ++G+ ++ ++GG+ V +
Sbjct: 20 DSAAGR-RFDAVLAELFPEFSRSRLSEWIKSGDALLDGET-ARPRDTLRGGETVQVQVVL 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 HTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMA 281
+ R Y+++ G S G + PI R P +R++MA
Sbjct: 171 RDVHRQYLAVVVGA-LVSGGTADAPIDRHPRDRLKMA 206
>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 = 119 bits (298), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 76/228 (33%), Positives = 124/228 (54%), Gaps = 29/228 (12%)
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 VYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAAS 297
YI+L S + +E ++R+PNNR++M A+ + K ++R++ S
Sbjct: 167 YYIALLSTPLKEEKMSVECYLTRNPNNRLKMIALKAAKKE-KSRYSKS 213
>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 = 119 bits (298), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 71/213 (33%), Positives = 110/213 (51%), Gaps = 28/213 (13%)
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 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIP 284
++ SG+ ++ G ++ P++R R MA P
Sbjct: 171 EAVASGIMTK-GGTVDQPMARHATKRTLMAVHP 202
>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 = 119 bits (297), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 74/228 (32%), Positives = 118/228 (51%), Gaps = 30/228 (13%)
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 HLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIP 284
L + + R Y ++ G + + G I+ PI R R M+ P
Sbjct: 157 RLVRALQKRDVTREYEAIVIGTMT-AGGMIDKPIGRHSTKRTLMSVSP 203
>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 = 118 bits (295), Expect = 6e-26, Method: Compositional matrix adjust.
Identities = 74/228 (32%), Positives = 122/228 (53%), Gaps = 29/228 (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-DLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLV-------------------- 110
Query: 190 SDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIER 249
D + + + S G R GIVHRLDK TSG +V+AK+ +H HLSEQ K + R
Sbjct: 111 ----DWLEFKNYELSNLGLKERYGIVHRLDKDTSGGIVIAKNNFTHVHLSEQLKTKMMGR 166
Query: 250 VYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAAS 297
YI+L S + +E ++R+PNNR++M A+ K ++R++ S
Sbjct: 167 YYIALLSTPLKEEKMSVECYLTRNPNNRLKMIALKAVKKE-KSRYSKS 213
>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 = 118 bits (295), Expect = 7e-26, Method: Compositional matrix adjust.
Identities = 81/248 (32%), Positives = 126/248 (50%), Gaps = 37/248 (14%)
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 NRIRMAAI 283
+R RMA +
Sbjct: 220 HRTRMAVV 227
>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 = 114 bits (285), Expect = 9e-25, Method: Compositional matrix adjust.
Identities = 74/217 (34%), Positives = 110/217 (50%), Gaps = 30/217 (13%)
Query: 65 DTKAGKLRLDAWISSRIDGISRARVQSSIRSGLVSINGQVVSKVSHNVKGGDMVNCTISE 124
D AG+ R DA ++ SR+R+ I+SG ++G++ ++ ++GG+ V +
Sbjct: 20 DNAAGR-RFDAVLAELFPEFSRSRLSEWIKSGDALLDGEM-ARPRDTLRGGESVQVQVVL 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 HTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMA 281
+ R Y+++ G S G PI R P +R++MA
Sbjct: 171 REVHRQYLAVVVGA-LVSGGTANAPIDRHPRDRLKMA 206
>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 = 111 bits (278), Expect = 5e-24, Method: Compositional matrix adjust.
Identities = 77/226 (34%), Positives = 116/226 (51%), Gaps = 29/226 (12%)
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 LSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAI 283
L Q + ++ R+Y ++ GV + S G I+ PI R R +MA +
Sbjct: 157 LVAQLQARSVSRIYEAIVIGVIT-SGGTIDAPIGRHGVQRQKMAVV 201
>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 = 105 bits (263), Expect = 3e-22, Method: Compositional matrix adjust.
Identities = 71/230 (30%), Positives = 116/230 (50%), Gaps = 29/230 (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 HSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAA 282
+ L++QFK +VYI++ G + G IE I RD +NR + +
Sbjct: 158 STLRFLAQQFKDKRTNKVYIAIVKGNFNSFFGSIESFIDRDKHNRKKFSV 207
>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 = 103 bits (257), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 69/209 (33%), Positives = 105/209 (50%), Gaps = 28/209 (13%)
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 ISLTSGVPSQSSGRIEVPISRDPNNRIRM 280
++ G S G I I R+P R M
Sbjct: 173 QAIVYG-KVISGGTIVKSIIRNPIKRTTM 200
>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 = 103 bits (256), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 71/211 (33%), Positives = 104/211 (49%), Gaps = 28/211 (13%)
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 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAA 282
+ G + G I PI R N R M
Sbjct: 172 EGIVHG-KMIAGGTINKPIMRHYNRRTCMMV 201
>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 = 102 bits (254), Expect = 3e-21, Method: Compositional matrix adjust.
Identities = 72/237 (30%), Positives = 119/237 (50%), Gaps = 37/237 (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 AHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQA 292
HL +Q + ++R Y++L SG I P+ R NN++ SNK A
Sbjct: 148 LHLQKQLQQRVMKRYYLALVHFPLDSLSGTISAPLERVGNNKVMWKVGNSSNKAKNA 204
>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 = 95.5 bits (236), Expect = 4e-19, Method: Compositional matrix adjust.
Identities = 67/212 (31%), Positives = 101/212 (47%), Gaps = 30/212 (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 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAA 282
Y + G S G + PI R P RI M
Sbjct: 171 YQGIIKG-NMISGGIVNYPIMRHPFKRICMTT 201
>sp|P59838|RLUD_BLOFL Ribosomal large subunit pseudouridine synthase D OS=Blochmannia
floridanus GN=rluD PE=3 SV=1
Length = 321
Score = 95.1 bits (235), Expect = 6e-19, Method: Compositional matrix adjust.
Identities = 61/220 (27%), Positives = 112/220 (50%), Gaps = 40/220 (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 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAA 282
KL + + Y ++ G + ++G + P+ R R M+
Sbjct: 166 KLRKVVKEYDAIVYGKFTSNAGVVNQPMRRHFAKRTFMSV 205
>sp|P54604|YHCT_BACSU Uncharacterized RNA pseudouridine synthase YhcT OS=Bacillus
subtilis (strain 168) GN=yhcT PE=3 SV=2
Length = 302
Score = 85.9 bits (211), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 56/174 (32%), Positives = 81/174 (46%), Gaps = 27/174 (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 EHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPG 285
+HA L +Q + T++R Y ++ G G I PI RD ++ R PG
Sbjct: 151 RLAHAILDQQLEKKTLKRTYTAIAEGKLRTKKGTINSPIGRDRSHPTRRRVSPG 204
>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 = 82.0 bits (201), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 66/213 (30%), Positives = 104/213 (48%), Gaps = 28/213 (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 RVYISLTSGVPSQSSGRIEVPISRDPNNRIRMA 281
+ Y +L G P SSG I+ PI R + + A
Sbjct: 169 KRYHALVQGHPDPSSGTIDAPIGRHRGHEWKFA 201
>sp|P0A5T2|Y1540_MYCTU Uncharacterized RNA pseudouridine synthase Rv1540/MT1592
OS=Mycobacterium tuberculosis GN=Rv1540 PE=3 SV=1
Length = 308
Score = 82.0 bits (201), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 66/213 (30%), Positives = 104/213 (48%), Gaps = 28/213 (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 RVYISLTSGVPSQSSGRIEVPISRDPNNRIRMA 281
+ Y +L G P SSG I+ PI R + + A
Sbjct: 169 KRYHALVQGHPDPSSGTIDAPIGRHRGHEWKFA 201
>sp|O31613|YJBO_BACSU Uncharacterized RNA pseudouridine synthase YjbO OS=Bacillus
subtilis (strain 168) GN=yjbO PE=3 SV=1
Length = 283
Score = 81.6 bits (200), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 63/209 (30%), Positives = 104/209 (49%), Gaps = 32/209 (15%)
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 SQSSGRIEVPISRDPNNRIRMAAIPGSNK 288
+Q G ++ PI R P++ I P K
Sbjct: 162 AQMEGTVDAPIGRHPDSIIERTVTPDGQK 190
>sp|Q8D8G1|RLUC_VIBVU Ribosomal large subunit pseudouridine synthase C OS=Vibrio
vulnificus (strain CMCP6) GN=rluC PE=3 SV=1
Length = 315
Score = 73.2 bits (178), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 61/233 (26%), Positives = 108/233 (46%), Gaps = 48/233 (20%)
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---IIYEDDHLLVLNKPSGTAVHGGSG--- 119
Query: 166 GTLVNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGL 225
L ++ L + EA F +VHR+D+ TSG+
Sbjct: 120 -------LKFGAIEALRALRPEA-----------RFLE----------LVHRIDRDTSGI 151
Query: 226 LVVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRI 278
L+VAK + HL QF+ T+++ Y +L G S + P+ ++ N I
Sbjct: 152 LLVAKKRSALRHLQAQFREKTVQKYYFALVMGEWKNSCKVVNAPLLKNEVNSI 204
>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 = 72.0 bits (175), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 58/235 (24%), Positives = 107/235 (45%), Gaps = 52/235 (22%)
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 GLLVVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRI 278
G+L+VAK + HL QF+ T+++ Y +L G S + P+ ++ N I
Sbjct: 150 GILLVAKKRSALRHLQAQFREKTVKKFYFALVMGQWKSSCKVVNAPLLKNEVNSI 204
>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 = 70.5 bits (171), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 60/232 (25%), Positives = 107/232 (46%), Gaps = 45/232 (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 VVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRI 278
+VAK + HL QF+ T+++ Y +L G + P+ ++ N I
Sbjct: 154 LVAKKRSALRHLQAQFREKTVQKYYYALVMGHWDAECKVVNAPLLKNEVNSI 205
>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 = 69.7 bits (169), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 54/229 (23%), Positives = 102/229 (44%), Gaps = 45/229 (19%)
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 SEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSN 287
+ FK + + Y ++T G P ++ G + I + + ++ I N
Sbjct: 160 HDAFKEKLVVKTYFAVTYGKPIKNVGEVRSNIEKSKGSTPKITDIYSEN 208
>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 = 68.2 bits (165), Expect = 7e-11, Method: Compositional matrix adjust.
Identities = 63/221 (28%), Positives = 96/221 (43%), Gaps = 53/221 (23%)
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-ERVYISLTSG 257
LD+ TSGLL++AK HL E + I ++ Y +L G
Sbjct: 145 LDRDTSGLLMIAKKRSMLRHLHEALRGEKIVDKRYHALVRG 185
>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 = 67.4 bits (163), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 53/211 (25%), Positives = 98/211 (46%), Gaps = 36/211 (17%)
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 SSGRIEVPISRDPNNRIRMAAIPGSNKHGQA 292
+G I P++R NN++ M I + K QA
Sbjct: 174 LTGSINAPLARVNNNKV-MFKIAQTAKAKQA 203
>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 = 67.4 bits (163), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 56/230 (24%), Positives = 100/230 (43%), Gaps = 47/230 (20%)
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 LSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSN 287
L FK + + Y ++T G P ++ G + I + + ++ I N
Sbjct: 159 LHNAFKEKLVVKTYFAVTYGKPIKNVGEVRSNIEKSKGSTPKITDIDSEN 208
>sp|Q87LD3|RLUA_VIBPA Ribosomal large subunit pseudouridine synthase A OS=Vibrio
parahaemolyticus serotype O3:K6 (strain RIMD 2210633)
GN=rluA PE=3 SV=1
Length = 250
Score = 66.6 bits (161), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 45/140 (32%), Positives = 69/140 (49%), Gaps = 32/140 (22%)
Query: 138 DIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSDAEDISD 197
DIV+EDD++L VNKP+ ++ P G L HH S+ S QE + D +
Sbjct: 15 DIVFEDDHILAVNKPSGLLSVP------GRLAE---HHDSM---WSRLQEEYPDIQ---- 58
Query: 198 DEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVYISLTSG 257
+VHRLD TSGL+V+AK++ + + L +QF+ ++Y + G
Sbjct: 59 ----------------VVHRLDMSTSGLMVLAKNKRAESALKKQFQFRLTHKIYYARVWG 102
Query: 258 VPSQSSGRIEVPISRDPNNR 277
Q G I++P+ D NR
Sbjct: 103 HVEQEEGEIDLPLICDWPNR 122
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
0.314 0.129 0.367
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 107,687,703
Number of Sequences: 539616
Number of extensions: 4402619
Number of successful extensions: 10441
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 130
Number of HSP's successfully gapped in prelim test: 21
Number of HSP's that attempted gapping in prelim test: 10120
Number of HSP's gapped (non-prelim): 248
length of query: 298
length of database: 191,569,459
effective HSP length: 117
effective length of query: 181
effective length of database: 128,434,387
effective search space: 23246624047
effective search space used: 23246624047
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 61 (28.1 bits)