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= psy4559
(336 letters)
Database: swissprot
539,616 sequences; 191,569,459 total letters
Searching..................................................done
>sp|Q5XGG2|TRUB2_XENTR Probable tRNA pseudouridine synthase 2 OS=Xenopus tropicalis
GN=trub2 PE=2 SV=1
Length = 325
Score = 99.0 bits (245), Expect = 5e-20, Method: Compositional matrix adjust.
Identities = 44/117 (37%), Positives = 74/117 (63%), Gaps = 3/117 (2%)
Query: 194 LNSQEAYDIARQGPIRPALLKEPVVYGLKCVHFKPPDFTIEVHCIGEYEEFLIRLIYDLG 253
L SQEAYD+A QG +RP + P++ G++C+ F PP+FT+E+ C+ E +++L ++I+++G
Sbjct: 187 LQSQEAYDLAVQGKLRPMVKSPPIILGIRCLEFSPPEFTLEIQCMHETQQYLRKMIHEIG 246
Query: 254 TKLRSAAICTSIQCIRFAQFGLEHSLLRKHW---RVQHVIENIAHNETLVDKMDPMR 307
+LRS+A+CT ++ R F ++ SLLR W +Q I V + +P R
Sbjct: 247 LELRSSAVCTQVRRSRDGPFTVDCSLLRTQWDLGSIQGAIRECRAQTEGVSRGNPDR 303
Score = 59.7 bits (143), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 24/63 (38%), Positives = 41/63 (65%)
Query: 95 LQKVLKIIDNNNCLFVHRQAGVRLNSQEAYDVACQGPIRPALLKEPVVYGLKCVHFKPPD 154
L+++L +I N + + + L SQEAYD+A QG +RP + P++ G++C+ F PP+
Sbjct: 164 LERILAVIQGTNQKALITHSHLDLQSQEAYDLAVQGKLRPMVKSPPIILGIRCLEFSPPE 223
Query: 155 FTI 157
FT+
Sbjct: 224 FTL 226
>sp|Q91WG3|TRUB2_MOUSE Probable tRNA pseudouridine synthase 2 OS=Mus musculus GN=Trub2
PE=2 SV=1
Length = 331
Score = 92.8 bits (229), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 39/100 (39%), Positives = 69/100 (69%)
Query: 194 LNSQEAYDIARQGPIRPALLKEPVVYGLKCVHFKPPDFTIEVHCIGEYEEFLIRLIYDLG 253
L SQEAY++A QG IRP ++ G++C+HF PP+F +EV C+ E ++ L +L++++G
Sbjct: 184 LKSQEAYEMAVQGVIRPMNKSPMLISGIRCLHFAPPEFLLEVQCMHETQQQLRKLVHEIG 243
Query: 254 TKLRSAAICTSIQCIRFAQFGLEHSLLRKHWRVQHVIENI 293
+L+++A+CT ++ R FGL+ +LLR W + ++ + I
Sbjct: 244 LELKTSAVCTQVRRTRDGFFGLDDALLRTQWDLHNIQDAI 283
Score = 50.1 bits (118), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 39/63 (61%)
Query: 95 LQKVLKIIDNNNCLFVHRQAGVRLNSQEAYDVACQGPIRPALLKEPVVYGLKCVHFKPPD 154
L ++L +I ++ + + + L SQEAY++A QG IRP ++ G++C+HF PP+
Sbjct: 161 LDRILAVIQGSHQKALVMYSNLDLKSQEAYEMAVQGVIRPMNKSPMLISGIRCLHFAPPE 220
Query: 155 FTI 157
F +
Sbjct: 221 FLL 223
>sp|Q5XFW2|TRUB2_RAT Probable tRNA pseudouridine synthase 2 OS=Rattus norvegicus
GN=Trub2 PE=2 SV=1
Length = 323
Score = 89.4 bits (220), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 39/100 (39%), Positives = 65/100 (65%)
Query: 194 LNSQEAYDIARQGPIRPALLKEPVVYGLKCVHFKPPDFTIEVHCIGEYEEFLIRLIYDLG 253
L SQEAY+ A QG IRP ++ G++C+HF PP+F +EV C+ E ++ L RL++++G
Sbjct: 184 LKSQEAYERAVQGVIRPMNKSPMLIAGIRCLHFAPPEFLLEVQCMHETQQQLRRLVHEIG 243
Query: 254 TKLRSAAICTSIQCIRFAQFGLEHSLLRKHWRVQHVIENI 293
+L++ A+C ++ R FGL+ +LLR W + + + I
Sbjct: 244 LELKTTAVCMQVRRTRDGFFGLDDALLRTQWDLHSIQDAI 283
Score = 48.5 bits (114), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 38/63 (60%)
Query: 95 LQKVLKIIDNNNCLFVHRQAGVRLNSQEAYDVACQGPIRPALLKEPVVYGLKCVHFKPPD 154
L ++L +I ++ + + + L SQEAY+ A QG IRP ++ G++C+HF PP+
Sbjct: 161 LDRILAMIQGSHQKALVMYSNLDLKSQEAYERAVQGVIRPMNKSPMLIAGIRCLHFAPPE 220
Query: 155 FTI 157
F +
Sbjct: 221 FLL 223
>sp|O95900|TRUB2_HUMAN Probable tRNA pseudouridine synthase 2 OS=Homo sapiens GN=TRUB2
PE=1 SV=1
Length = 331
Score = 83.2 bits (204), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 35/100 (35%), Positives = 67/100 (67%)
Query: 194 LNSQEAYDIARQGPIRPALLKEPVVYGLKCVHFKPPDFTIEVHCIGEYEEFLIRLIYDLG 253
L +QEAY++A +G IRP ++ G++C++F PP+F +EV C+ E ++ L +L++++G
Sbjct: 184 LKTQEAYEMAVRGLIRPMNKSPMLITGIRCLYFAPPEFLLEVQCMHETQKELRKLVHEIG 243
Query: 254 TKLRSAAICTSIQCIRFAQFGLEHSLLRKHWRVQHVIENI 293
+L++ A+CT ++ R F L+ +LLR W + ++ + I
Sbjct: 244 LELKTTAVCTQVRRTRDGFFTLDSALLRTQWDLTNIQDAI 283
Score = 44.7 bits (104), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 39/63 (61%)
Query: 95 LQKVLKIIDNNNCLFVHRQAGVRLNSQEAYDVACQGPIRPALLKEPVVYGLKCVHFKPPD 154
L ++L +I ++ + + + L +QEAY++A +G IRP ++ G++C++F PP+
Sbjct: 161 LDRILAVIQGSHQKALVMYSNLDLKTQEAYEMAVRGLIRPMNKSPMLITGIRCLYFAPPE 220
Query: 155 FTI 157
F +
Sbjct: 221 FLL 223
>sp|Q8WWH5|TRUB1_HUMAN Probable tRNA pseudouridine synthase 1 OS=Homo sapiens GN=TRUB1
PE=1 SV=1
Length = 349
Score = 49.7 bits (117), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 29/112 (25%), Positives = 56/112 (50%), Gaps = 4/112 (3%)
Query: 190 AGVRLNSQEAYDIARQGPIRPALLKEPV-VYGLKCVHFKPPDFTIEVHCIGEYEEFLIRL 248
+ ++ + Q + ++G + A PV VY + F+PP FT++V C G + ++ L
Sbjct: 201 SALKKDGQRLSTLMKRGEVVEAKPARPVTVYSISLQKFQPPFFTLDVECGGGF--YIRSL 258
Query: 249 IYDLGTKLRSAAICTSIQCIRFAQFGL-EHSLLRKHWRVQHVIENIAHNETL 299
+ D+G +L S A + + F L EH+L W + + +++ H +L
Sbjct: 259 VSDIGKELSSCANVLELTRTKQGPFTLEEHALPEDKWTIDDIAQSLEHCSSL 310
>sp|Q8C0D0|TRUB1_MOUSE Probable tRNA pseudouridine synthase 1 OS=Mus musculus GN=Trub1
PE=2 SV=1
Length = 338
Score = 44.7 bits (104), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 30/130 (23%), Positives = 66/130 (50%), Gaps = 5/130 (3%)
Query: 190 AGVRLNSQEAYDIARQGPIRPALLKEPV-VYGLKCVHFKPPDFTIEVHCIGEYEEFLIRL 248
+ ++ + Q + ++G + A PV V+ + + F+PP FT++V C G + ++ L
Sbjct: 189 SALKKDGQRLSTLMKKGKVVEARPARPVTVHSISLLKFQPPFFTLDVECGGGF--YIRSL 246
Query: 249 IYDLGTKLRSAAICTSIQCIRFAQFGL-EHSLLRKHWRVQHVIENIAHNETLVDKMDPMR 307
+ D+G +L S A + + F L +H+L W + + +++ +L+ + +
Sbjct: 247 VSDIGKELSSCASVLELTRTKQGPFTLAQHALPEDRWTIDDIEQSLERCTSLLPEELTFK 306
Query: 308 PQLQSVNMTD 317
+L+S N +D
Sbjct: 307 -KLKSDNSSD 315
>sp|Q5M934|TRUB1_RAT Probable tRNA pseudouridine synthase 1 OS=Rattus norvegicus
GN=Trub1 PE=2 SV=1
Length = 341
Score = 43.1 bits (100), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 25/113 (22%), Positives = 56/113 (49%), Gaps = 4/113 (3%)
Query: 190 AGVRLNSQEAYDIARQGPIRPALLKEPV-VYGLKCVHFKPPDFTIEVHCIGEYEEFLIRL 248
+ ++ + Q + ++G A PV V+ + + ++PP FT++V C G + ++ L
Sbjct: 192 SALKKDGQRLSTLMKRGETVEARPARPVTVHSISLLKYQPPFFTLDVECGGGF--YIRSL 249
Query: 249 IYDLGTKLRSAAICTSIQCIRFAQFGL-EHSLLRKHWRVQHVIENIAHNETLV 300
+ D+G +L S A + + F L +H+L W + + +++ +L+
Sbjct: 250 VSDIGKELSSCATVLELTRTKQGPFTLAQHALPEDRWTINDIAQSLKRCTSLL 302
>sp|Q3ZXU5|TRUB_DEHSC tRNA pseudouridine synthase B OS=Dehalococcoides sp. (strain CBDB1)
GN=truB PE=3 SV=1
Length = 300
Score = 42.4 bits (98), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 31/120 (25%), Positives = 57/120 (47%), Gaps = 13/120 (10%)
Query: 160 LYSALLPWQEAVLKITDNNCLFVCLFVHRQAGVRLNSQEAYDIARQGPIRPALLKEPVVY 219
+Y L+ +Q +++I HR G+RL Y++ARQG + + +Y
Sbjct: 99 IYKTLMDFQGEIIQIPP----MYSAVKHR--GMRL-----YNLARQGIEVERIPRVATIY 147
Query: 220 GLKCVHFKPPDFTIEVHCIGEYEEFLIRLIYDLGTKLRSAAICTSIQCIRFAQFGLEHSL 279
G++ +++ P + + C + ++ L +DLG KL A S+ + QF L +SL
Sbjct: 148 GIELLNYTSPVLRVRIEC--GHGTYIRSLAFDLGRKLGCGAYLKSLVREAYGQFNLANSL 205
>sp|A5FQR4|TRUB_DEHSB tRNA pseudouridine synthase B OS=Dehalococcoides sp. (strain BAV1)
GN=truB PE=3 SV=1
Length = 300
Score = 42.4 bits (98), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 31/120 (25%), Positives = 57/120 (47%), Gaps = 13/120 (10%)
Query: 160 LYSALLPWQEAVLKITDNNCLFVCLFVHRQAGVRLNSQEAYDIARQGPIRPALLKEPVVY 219
+Y L+ +Q +++I HR G+RL Y++ARQG + + +Y
Sbjct: 99 IYKTLMDFQGEIIQIPP----MYSAVKHR--GMRL-----YNLARQGIEVERIPRVATIY 147
Query: 220 GLKCVHFKPPDFTIEVHCIGEYEEFLIRLIYDLGTKLRSAAICTSIQCIRFAQFGLEHSL 279
G++ +++ P + + C + ++ L +DLG KL A S+ + QF L +SL
Sbjct: 148 GIELLNYTSPVLRVRIEC--GHGTYIRSLAFDLGRKLGCGAYLKSLVREAYGQFNLTNSL 205
>sp|Q1G9Q1|TRUB_LACDA tRNA pseudouridine synthase B OS=Lactobacillus delbrueckii subsp.
bulgaricus (strain ATCC 11842 / DSM 20081) GN=truB PE=3
SV=1
Length = 298
Score = 40.0 bits (92), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 33/133 (24%), Positives = 62/133 (46%), Gaps = 14/133 (10%)
Query: 190 AGVRLNSQEAYDIARQG-PI-RPALLKEPVVYGLKC-VHFKPPD----FTIEVHCIGEYE 242
+ VR+N + Y+ AR+G P+ RP + +Y L F P FT EV C
Sbjct: 120 SAVRVNGKRLYEYAREGIPVERPKRTVQVFLYDLTAPSQFDPEKGRQTFTYEVEC--SKG 177
Query: 243 EFLIRLIYDLGTKLRSAAICTSIQCIRFAQFGLEHSLLRKHWRVQHVIENIAHNETLVDK 302
++ L+ DLG +L A+ T ++ + + L+ ++ ++ + +N+ H E +
Sbjct: 178 TYVRSLVNDLGEELGLPAVMTKLRRTASSGYKLQDAVT-----LEELADNLDHAEDYIQP 232
Query: 303 MDPMRPQLQSVNM 315
+D Q V++
Sbjct: 233 IDSFFADYQQVDL 245
>sp|Q049V7|TRUB_LACDB tRNA pseudouridine synthase B OS=Lactobacillus delbrueckii subsp.
bulgaricus (strain ATCC BAA-365) GN=truB PE=3 SV=1
Length = 298
Score = 38.5 bits (88), Expect = 0.065, Method: Compositional matrix adjust.
Identities = 33/133 (24%), Positives = 61/133 (45%), Gaps = 14/133 (10%)
Query: 190 AGVRLNSQEAYDIARQG-PI-RPALLKEPVVYGLKC-VHFKPPD----FTIEVHCIGEYE 242
+ VR+N + Y+ AR+G P+ RP + Y L F P FT EV C
Sbjct: 120 SAVRVNGKRLYEYAREGIPVERPKRTVQVFRYDLTAPSQFDPEKGRQTFTYEVEC--SKG 177
Query: 243 EFLIRLIYDLGTKLRSAAICTSIQCIRFAQFGLEHSLLRKHWRVQHVIENIAHNETLVDK 302
++ L+ DLG +L A+ T ++ + + L+ ++ ++ + +N+ H E +
Sbjct: 178 TYVRSLVNDLGEELGLPAVMTKLRRTASSGYKLQDAVT-----LEELADNLDHAEDYIQP 232
Query: 303 MDPMRPQLQSVNM 315
+D Q V++
Sbjct: 233 IDSFFADYQQVDL 245
>sp|Q3A4A3|TRUB_PELCD tRNA pseudouridine synthase B OS=Pelobacter carbinolicus (strain
DSM 2380 / Gra Bd 1) GN=truB PE=3 SV=1
Length = 306
Score = 38.5 bits (88), Expect = 0.072, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 43/80 (53%), Gaps = 2/80 (2%)
Query: 200 YDIARQGPIRPALLKEPVVYGLKCVHFKPPDFTIEVHCIGEYEEFLIRLIYDLGTKLRSA 259
Y +ARQG + ++ L+ + +PP+ T +VHC ++ + +D+G KL
Sbjct: 128 YKLARQGVEVSRKPRRITIFDLQLLAVEPPNITFDVHC--SKGTYVRTICHDIGVKLGCG 185
Query: 260 AICTSIQCIRFAQFGLEHSL 279
A T+++ +R A F ++ ++
Sbjct: 186 AHLTALRRLRSAPFDVKEAV 205
>sp|Q73VW3|TRUB_MYCPA tRNA pseudouridine synthase B OS=Mycobacterium paratuberculosis
(strain ATCC BAA-968 / K-10) GN=truB PE=3 SV=1
Length = 293
Score = 37.7 bits (86), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 30/97 (30%), Positives = 44/97 (45%), Gaps = 18/97 (18%)
Query: 192 VRLNSQEAYDIARQG-----PIRPALLKEPVVYGLK----CVHFKPPDFTIEVHCI-GEY 241
+++ + AY + R+G P RP + V GL+ CV D +EV C G Y
Sbjct: 122 IKVAGKRAYKLVREGQAVELPARPVRIDRFEVRGLRAAGACV-----DVDVEVDCSSGTY 176
Query: 242 EEFLIRLIYDLGTKLRSAAICTSIQCIRFAQFGLEHS 278
L R DLG L T+++ R +FGLE +
Sbjct: 177 VRALAR---DLGAALGVGGHLTALRRTRVGRFGLEQA 210
>sp|A3N007|TRUB_ACTP2 tRNA pseudouridine synthase B OS=Actinobacillus pleuropneumoniae
serotype 5b (strain L20) GN=truB PE=3 SV=1
Length = 305
Score = 37.4 bits (85), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 25/103 (24%), Positives = 50/103 (48%), Gaps = 4/103 (3%)
Query: 190 AGVRLNSQEAYDIARQGPIRPALLKEPVVYGLKCVHFKPPDFTIEVHCIGEYEEFLIRLI 249
+ ++ N + Y+ ARQG + ++ L+ + + P T+EVHC ++ L+
Sbjct: 127 SALKHNGKPLYEYARQGITVEREARPITIFELRFIEYAAPYLTLEVHC--SKGTYIRTLV 184
Query: 250 YDLGTKLRSAAICTSIQCIRFAQFGLEHSLLRKHWRVQHVIEN 292
DLG L A T ++ + A + +E + + +Q++ EN
Sbjct: 185 DDLGEVLGCGAHVTVLRRLAVANYPIEAMM--SYADLQNLSEN 225
>sp|Q6KHH8|TRUB_MYCMO tRNA pseudouridine synthase B OS=Mycoplasma mobile (strain ATCC
43663 / 163K / NCTC 11711) GN=truB PE=3 SV=1
Length = 287
Score = 37.0 bits (84), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 24/104 (23%), Positives = 45/104 (43%)
Query: 188 RQAGVRLNSQEAYDIARQGPIRPALLKEPVVYGLKCVHFKPPDFTIEVHCIGEYEEFLIR 247
+ + +LN AYD+ARQ E + +K + + + + + ++
Sbjct: 116 KYSAKKLNGIRAYDLARQNIDFELNEVEINITKIKLLSYNEDENYFDFEVVVSRGTYIRS 175
Query: 248 LIYDLGTKLRSAAICTSIQCIRFAQFGLEHSLLRKHWRVQHVIE 291
LIYD+G KL S A S++ + LE + K + +I+
Sbjct: 176 LIYDIGIKLNSLAYMESLERTKIGNLFLEKNQDDKILNAKEIIQ 219
>sp|A0Q0Q4|TRUB_CLONN tRNA pseudouridine synthase B OS=Clostridium novyi (strain NT)
GN=truB PE=3 SV=1
Length = 289
Score = 36.2 bits (82), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 19/90 (21%), Positives = 42/90 (46%), Gaps = 2/90 (2%)
Query: 190 AGVRLNSQEAYDIARQGPIRPALLKEPVVYGLKCVHFKPPDFTIEVHCIGEYEEFLIRLI 249
+ +++N + Y++AR+G + +Y + +H P V C ++ L
Sbjct: 117 SALKVNGKRLYELAREGKSIEREARPITIYDINILHIDIPYVKFRVKC--SKGTYIRSLC 174
Query: 250 YDLGTKLRSAAICTSIQCIRFAQFGLEHSL 279
YD+G+ L+ A ++ ++ F E+S+
Sbjct: 175 YDIGSNLKCGATMWDLERVQSGAFTKENSI 204
>sp|Q5PLB2|TRUB_SALPA tRNA pseudouridine synthase B OS=Salmonella paratyphi A (strain
ATCC 9150 / SARB42) GN=truB PE=3 SV=1
Length = 314
Score = 35.4 bits (80), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 31/141 (21%), Positives = 63/141 (44%), Gaps = 13/141 (9%)
Query: 146 KCVHFKPPDFTIGNLYSALLPWQEAVLKITDNNCLFVCLFVHRQAGVRLNSQEAYDIARQ 205
+ V +P F+ L SAL ++ + +I ++ L + ++ Y+ ARQ
Sbjct: 94 QIVQERPVTFSAEQLASALETFRGDIEQIP---SMYSAL--------KYQGKKLYEYARQ 142
Query: 206 GPIRPALLKEPVVYGLKCVHFKPPDFTIEVHCIGEYEEFLIRLIYDLGTKLRSAAICTSI 265
G P + VY L + + + +EVHC ++ +I DLG KL A T +
Sbjct: 143 GIEVPREARPITVYELLFIRHEGNELELEVHC--SKGTYIRTIIDDLGEKLGCGAHVTYL 200
Query: 266 QCIRFAQFGLEHSLLRKHWRV 286
+ + +++ ++ + +H +
Sbjct: 201 RRLTVSKYPVDRMVTLEHLQT 221
>sp|A9N730|TRUB_SALPB tRNA pseudouridine synthase B OS=Salmonella paratyphi B (strain
ATCC BAA-1250 / SPB7) GN=truB PE=3 SV=1
Length = 314
Score = 35.0 bits (79), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 31/141 (21%), Positives = 63/141 (44%), Gaps = 13/141 (9%)
Query: 146 KCVHFKPPDFTIGNLYSALLPWQEAVLKITDNNCLFVCLFVHRQAGVRLNSQEAYDIARQ 205
+ V +P F+ L SAL ++ + +I ++ L + ++ Y+ ARQ
Sbjct: 94 QIVQERPVTFSAEQLASALETFRGDIEQIP---SMYSAL--------KYQGKKLYEYARQ 142
Query: 206 GPIRPALLKEPVVYGLKCVHFKPPDFTIEVHCIGEYEEFLIRLIYDLGTKLRSAAICTSI 265
G P + VY L + + + +EVHC ++ +I DLG KL A T +
Sbjct: 143 GIEVPREARPITVYELLFIRHEGNELELEVHC--SKGTYIRTIIDDLGEKLGCGAHVTYL 200
Query: 266 QCIRFAQFGLEHSLLRKHWRV 286
+ + +++ ++ + +H +
Sbjct: 201 RRLTVSKYPVDRMVTLEHLQT 221
>sp|Q8ZLT2|TRUB_SALTY tRNA pseudouridine synthase B OS=Salmonella typhimurium (strain LT2
/ SGSC1412 / ATCC 700720) GN=truB PE=3 SV=1
Length = 314
Score = 35.0 bits (79), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 31/141 (21%), Positives = 63/141 (44%), Gaps = 13/141 (9%)
Query: 146 KCVHFKPPDFTIGNLYSALLPWQEAVLKITDNNCLFVCLFVHRQAGVRLNSQEAYDIARQ 205
+ V +P F+ L SAL ++ + +I ++ L + ++ Y+ ARQ
Sbjct: 94 QIVQERPVTFSAEQLASALETFRGDIEQIP---SMYSAL--------KYQGKKLYEYARQ 142
Query: 206 GPIRPALLKEPVVYGLKCVHFKPPDFTIEVHCIGEYEEFLIRLIYDLGTKLRSAAICTSI 265
G P + VY L + + + +EVHC ++ +I DLG KL A T +
Sbjct: 143 GIEVPREARPITVYELLFIRHEGNELELEVHC--SKGTYIRTIIDDLGEKLGCGAHVTYL 200
Query: 266 QCIRFAQFGLEHSLLRKHWRV 286
+ + +++ ++ + +H +
Sbjct: 201 RRLTVSKYPVDRMVTLEHLQT 221
>sp|Q57JI1|TRUB_SALCH tRNA pseudouridine synthase B OS=Salmonella choleraesuis (strain
SC-B67) GN=truB PE=3 SV=1
Length = 314
Score = 35.0 bits (79), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 31/141 (21%), Positives = 63/141 (44%), Gaps = 13/141 (9%)
Query: 146 KCVHFKPPDFTIGNLYSALLPWQEAVLKITDNNCLFVCLFVHRQAGVRLNSQEAYDIARQ 205
+ V +P F+ L SAL ++ + +I ++ L + ++ Y+ ARQ
Sbjct: 94 QIVQERPVTFSAEQLASALETFRGDIEQIP---SMYSAL--------KYQGKKLYEYARQ 142
Query: 206 GPIRPALLKEPVVYGLKCVHFKPPDFTIEVHCIGEYEEFLIRLIYDLGTKLRSAAICTSI 265
G P + VY L + + + +EVHC ++ +I DLG KL A T +
Sbjct: 143 GIEVPREARPITVYELLFIRHEGNELELEVHC--SKGTYIRTIIDDLGEKLGCGAHVTYL 200
Query: 266 QCIRFAQFGLEHSLLRKHWRV 286
+ + +++ ++ + +H +
Sbjct: 201 RRLTVSKYPVDRMVTLEHLQT 221
>sp|Q8Z3H9|TRUB_SALTI tRNA pseudouridine synthase B OS=Salmonella typhi GN=truB PE=3 SV=1
Length = 314
Score = 35.0 bits (79), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 31/141 (21%), Positives = 63/141 (44%), Gaps = 13/141 (9%)
Query: 146 KCVHFKPPDFTIGNLYSALLPWQEAVLKITDNNCLFVCLFVHRQAGVRLNSQEAYDIARQ 205
+ V +P F+ L SAL ++ + +I ++ L + ++ Y+ ARQ
Sbjct: 94 QIVQERPVTFSAEQLASALETFRGDIEQIP---SMYSAL--------KYQGRKLYEYARQ 142
Query: 206 GPIRPALLKEPVVYGLKCVHFKPPDFTIEVHCIGEYEEFLIRLIYDLGTKLRSAAICTSI 265
G P + VY L + + + +EVHC ++ +I DLG KL A T +
Sbjct: 143 GIEVPREARPITVYELLFIRHEGNELELEVHC--SKGTYIRTIIDDLGEKLGCGAHVTYL 200
Query: 266 QCIRFAQFGLEHSLLRKHWRV 286
+ + +++ ++ + +H +
Sbjct: 201 RRLTVSKYPVDRMVTLEHLQT 221
>sp|C3LSQ0|TRUB_VIBCM tRNA pseudouridine synthase B OS=Vibrio cholerae serotype O1
(strain M66-2) GN=truB PE=3 SV=1
Length = 312
Score = 35.0 bits (79), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 31/141 (21%), Positives = 60/141 (42%), Gaps = 14/141 (9%)
Query: 176 DNNCLFVCLFVHRQ---------AGVRLNSQEAYDIARQGPIRPALLKEPVVYGLKCVHF 226
D + L C+ R + ++ + Y+ ARQG P ++ VY ++ F
Sbjct: 103 DYDTLLACIAKFRGETDQVPSMFSALKYQGRPLYEYARQGIEVPREARKITVYEIELHRF 162
Query: 227 KPPDFTIEVHCIGEYEEFLIRLIYDLGTKLRSAAICTSIQCIRFAQFGLEHSLLRKHWRV 286
+ + +EVHC ++ ++ DLG L A T ++ + A + E + +
Sbjct: 163 EGDEVEMEVHC--SKGTYIRTIVDDLGEMLGCGAHVTMLRRVGVANYPYERMVTLEQLNA 220
Query: 287 QHVIENIAHNETLV-DKMDPM 306
++E +E V D +DP+
Sbjct: 221 --LVEQAHRDEKAVADVLDPL 239
>sp|Q9KU78|TRUB_VIBCH tRNA pseudouridine synthase B OS=Vibrio cholerae serotype O1
(strain ATCC 39315 / El Tor Inaba N16961) GN=truB PE=3
SV=1
Length = 312
Score = 35.0 bits (79), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 31/141 (21%), Positives = 60/141 (42%), Gaps = 14/141 (9%)
Query: 176 DNNCLFVCLFVHRQ---------AGVRLNSQEAYDIARQGPIRPALLKEPVVYGLKCVHF 226
D + L C+ R + ++ + Y+ ARQG P ++ VY ++ F
Sbjct: 103 DYDTLLACIAKFRGETDQVPSMFSALKYQGRPLYEYARQGIEVPREARKITVYEIELHRF 162
Query: 227 KPPDFTIEVHCIGEYEEFLIRLIYDLGTKLRSAAICTSIQCIRFAQFGLEHSLLRKHWRV 286
+ + +EVHC ++ ++ DLG L A T ++ + A + E + +
Sbjct: 163 EGDEVEMEVHC--SKGTYIRTIVDDLGEMLGCGAHVTMLRRVGVANYPYERMVTLEQLNA 220
Query: 287 QHVIENIAHNETLV-DKMDPM 306
++E +E V D +DP+
Sbjct: 221 --LVEQAHRDEKAVADVLDPL 239
>sp|A5F928|TRUB_VIBC3 tRNA pseudouridine synthase B OS=Vibrio cholerae serotype O1
(strain ATCC 39541 / Ogawa 395 / O395) GN=truB PE=3 SV=1
Length = 312
Score = 35.0 bits (79), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 31/141 (21%), Positives = 60/141 (42%), Gaps = 14/141 (9%)
Query: 176 DNNCLFVCLFVHRQ---------AGVRLNSQEAYDIARQGPIRPALLKEPVVYGLKCVHF 226
D + L C+ R + ++ + Y+ ARQG P ++ VY ++ F
Sbjct: 103 DYDTLLACIAKFRGETDQVPSMFSALKYQGRPLYEYARQGIEVPREARKITVYEIELHRF 162
Query: 227 KPPDFTIEVHCIGEYEEFLIRLIYDLGTKLRSAAICTSIQCIRFAQFGLEHSLLRKHWRV 286
+ + +EVHC ++ ++ DLG L A T ++ + A + E + +
Sbjct: 163 EGDEVEMEVHC--SKGTYIRTIVDDLGEMLGCGAHVTMLRRVGVANYPYERMVTLEQLNA 220
Query: 287 QHVIENIAHNETLV-DKMDPM 306
++E +E V D +DP+
Sbjct: 221 --LVEQAHRDEKAVADVLDPL 239
>sp|Q6D9A3|TRUB_ERWCT tRNA pseudouridine synthase B OS=Erwinia carotovora subsp.
atroseptica (strain SCRI 1043 / ATCC BAA-672) GN=truB
PE=3 SV=1
Length = 314
Score = 35.0 bits (79), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 21/88 (23%), Positives = 44/88 (50%), Gaps = 2/88 (2%)
Query: 190 AGVRLNSQEAYDIARQGPIRPALLKEPVVYGLKCVHFKPPDFTIEVHCIGEYEEFLIRLI 249
+ ++ ++ Y+ ARQG P +E VY L+ + ++ + +E+HC ++ +I
Sbjct: 127 SALKYQGRKLYEYARQGLTVPREAREITVYELQFIRWEGDELELEIHC--SKGTYIRTII 184
Query: 250 YDLGTKLRSAAICTSIQCIRFAQFGLEH 277
DLG +L A ++ ++ A + E
Sbjct: 185 DDLGEQLGCGAHVIYLRRLQVAIYPTER 212
>sp|A0LHM2|TRUB_SYNFM tRNA pseudouridine synthase B OS=Syntrophobacter fumaroxidans
(strain DSM 10017 / MPOB) GN=truB PE=3 SV=1
Length = 306
Score = 35.0 bits (79), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 22/93 (23%), Positives = 44/93 (47%), Gaps = 2/93 (2%)
Query: 186 VHRQAGVRLNSQEAYDIARQGPIRPALLKEPVVYGLKCVHFKPPDFTIEVHCIGEYEEFL 245
V R A V++ + Y++AR+G +E ++ + ++ P+ +E C ++
Sbjct: 119 VPRYAAVKVQGKRLYELARKGIDVELPRREVHIHRFDLISYRYPEVVLETKC--SKGTYV 176
Query: 246 IRLIYDLGTKLRSAAICTSIQCIRFAQFGLEHS 278
+L DLG +L A ++ + FGLE +
Sbjct: 177 RQLAADLGRRLGCGAHVMHLRRLACGPFGLERA 209
>sp|P59880|TRUB_PROMA tRNA pseudouridine synthase B OS=Prochlorococcus marinus (strain
SARG / CCMP1375 / SS120) GN=truB PE=3 SV=1
Length = 313
Score = 34.7 bits (78), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 28/96 (29%), Positives = 45/96 (46%), Gaps = 12/96 (12%)
Query: 190 AGVRLNSQEAYDIARQG---PIRPALLKEPVVYGLKCVHFKPPDFTI--EVHCI-GEYEE 243
+ V +N + AY AR+G + P L+K +Y +K +++ D TI EVHC G Y
Sbjct: 121 SSVHINGERAYKKARRGEFFELPPKLIK---IYRIKLINWNKKDGTIDLEVHCSPGTYIR 177
Query: 244 FLIRLIYDLGTKLRSAAICTSIQCIRFAQFGLEHSL 279
L R D+G KL + F ++ ++
Sbjct: 178 SLAR---DIGKKLGCGGALAKLNRTMALGFNIDQAI 210
>sp|Q97I48|TRUB_CLOAB tRNA pseudouridine synthase B OS=Clostridium acetobutylicum (strain
ATCC 824 / DSM 792 / JCM 1419 / LMG 5710 / VKM B-1787)
GN=truB PE=3 SV=1
Length = 289
Score = 34.7 bits (78), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 30/148 (20%), Positives = 64/148 (43%), Gaps = 13/148 (8%)
Query: 159 NLYSALLPWQEAVLKITDNNCLFVCLFVHRQAGVRLNSQEAYDIARQGPIRPALLKEPVV 218
N+ A++ +Q +L++ + +++N + YD+ARQG ++ +
Sbjct: 97 NIVEAIMSFQGEILQVP-----------PMYSALKVNGIKLYDLARQGIEIERASRKIHI 145
Query: 219 YGLKCVHFKPPDFTIEVHCIGEYEEFLIRLIYDLGTKLRSAAICTSIQCIRFAQFGLEHS 278
Y +K + P V C ++ L YD+G KL A+ ++ + F S
Sbjct: 146 YAIKILSIDIPFVKFRVEC--SKGTYIRSLCYDIGNKLGCGALMYNLTRVSSGNFNSSFS 203
Query: 279 LLRKHWRVQHVIENIAHNETLVDKMDPM 306
+ + Q++ ENI + + ++ D +
Sbjct: 204 IPLEDLNEQNITENIINVDKCLENYDEI 231
>sp|Q89AF6|TRUB_BUCBP tRNA pseudouridine synthase B OS=Buchnera aphidicola subsp.
Baizongia pistaciae (strain Bp) GN=truB PE=3 SV=1
Length = 302
Score = 34.7 bits (78), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 25/128 (19%), Positives = 53/128 (41%), Gaps = 11/128 (8%)
Query: 146 KCVHFKPPDFTIGNLYSALLPWQEAVLKITDNNCLFVCLFVHRQAGVRLNSQEAYDIARQ 205
+ +H +P FT L L + + +I + ++ + Y ARQ
Sbjct: 91 QIIHVRPITFTNLQLQKVLKSFHGKIKQIPS-----------MYSAIKYHGHALYKYARQ 139
Query: 206 GPIRPALLKEPVVYGLKCVHFKPPDFTIEVHCIGEYEEFLIRLIYDLGTKLRSAAICTSI 265
G + +++ ++Y LK + + +E+ I ++ LI D+G KL A S+
Sbjct: 140 GIVISRKVRDAIIYELKVLGYSYKHKYLELDIICSKGTYIRTLIEDVGEKLNCGAHVISL 199
Query: 266 QCIRFAQF 273
+ ++ +
Sbjct: 200 RRLQVGNY 207
>sp|A0QIX1|TRUB_MYCA1 tRNA pseudouridine synthase B OS=Mycobacterium avium (strain 104)
GN=truB PE=3 SV=1
Length = 309
Score = 34.7 bits (78), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 27/93 (29%), Positives = 42/93 (45%), Gaps = 10/93 (10%)
Query: 192 VRLNSQEAYDIARQG-----PIRPALLKEPVVYGLKCVHFKPPDFTIEVHCI-GEYEEFL 245
+++ + AY + R+G P RP + V L+ + D +EV C G Y L
Sbjct: 122 IKVAGKRAYKLVREGQAVELPARPVRIDRFEVRDLRAAG-ECVDVDVEVDCSSGTYVRAL 180
Query: 246 IRLIYDLGTKLRSAAICTSIQCIRFAQFGLEHS 278
R DLG L T+++ R +FGLE +
Sbjct: 181 AR---DLGAALGVGGHLTALRRTRVGRFGLEQA 210
>sp|A6UF31|TRUB_SINMW tRNA pseudouridine synthase B OS=Sinorhizobium medicae (strain
WSM419) GN=truB PE=3 SV=1
Length = 310
Score = 34.3 bits (77), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 29/116 (25%), Positives = 48/116 (41%), Gaps = 4/116 (3%)
Query: 162 SALLPWQEAVLKITDNNCLFVCLFVHRQAGVRLNSQEAYDIARQGPIRPALLKEPVVYGL 221
SA P +EA+ + + + + +++ + AYD+AR+G +E V+ L
Sbjct: 100 SADRPAEEAIRALLPKYTGVIAQVPPQFSAIKIGGERAYDLAREGETVDIPAREVEVFRL 159
Query: 222 KCVHFKPPDFTIEVHC-IGEYEEFLIRLIYDLGTKLRSAAICTSIQCIRFAQFGLE 276
+ P E+ C G Y L R D+G L S++ A FG E
Sbjct: 160 SLIGSAPSLAQFEIECGKGTYVRSLAR---DMGRDLGCFGHIASLRRTFVAPFGEE 212
>sp|A9MP38|TRUB_SALAR tRNA pseudouridine synthase B OS=Salmonella arizonae (strain ATCC
BAA-731 / CDC346-86 / RSK2980) GN=truB PE=3 SV=1
Length = 314
Score = 34.3 bits (77), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 31/138 (22%), Positives = 61/138 (44%), Gaps = 13/138 (9%)
Query: 146 KCVHFKPPDFTIGNLYSALLPWQEAVLKITDNNCLFVCLFVHRQAGVRLNSQEAYDIARQ 205
+ V +P F+ G L SAL ++ + +I ++ L + ++ Y+ AR
Sbjct: 94 QIVQERPVTFSAGQLASALETFRGDIEQIP---SMYSAL--------KYQGKKLYEYARL 142
Query: 206 GPIRPALLKEPVVYGLKCVHFKPPDFTIEVHCIGEYEEFLIRLIYDLGTKLRSAAICTSI 265
G P + VY L + + + +EVHC ++ +I DLG KL A +
Sbjct: 143 GIEVPREARPITVYELLFIRHEGNELELEVHC--SKGTYIRTIIDDLGEKLGCGAHVIYL 200
Query: 266 QCIRFAQFGLEHSLLRKH 283
+ + +++ +E + +H
Sbjct: 201 RRLTVSKYPVERMVTLEH 218
>sp|P53686|HST2_YEAST NAD-dependent protein deacetylase HST2 OS=Saccharomyces cerevisiae
(strain ATCC 204508 / S288c) GN=HST2 PE=1 SV=1
Length = 357
Score = 34.3 bits (77), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 24/94 (25%), Positives = 43/94 (45%), Gaps = 7/94 (7%)
Query: 242 EEFLIRLIYDLGTKLRSAAICTSIQCIRFAQFGLEHSLLRKHWRVQHVIENIAHNETLVD 301
+EF +L+ +LG + I T AQ G+ + + + H +EN++ +++ +
Sbjct: 271 DEFAEQLVEELGWQEDFEKILT-------AQGGMGDNSKEQLLEIVHDLENLSLDQSEHE 323
Query: 302 KMDPMRPQLQSVNMTDSDSTDGSNVSDGNRTVLE 335
D +LQ +N DSD SN S + E
Sbjct: 324 SADKKDKKLQRLNGHDSDEDGASNSSSSQKAAKE 357
>sp|Q32BG7|TRUB_SHIDS tRNA pseudouridine synthase B OS=Shigella dysenteriae serotype 1
(strain Sd197) GN=truB PE=3 SV=1
Length = 314
Score = 33.9 bits (76), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 22/96 (22%), Positives = 46/96 (47%), Gaps = 2/96 (2%)
Query: 190 AGVRLNSQEAYDIARQGPIRPALLKEPVVYGLKCVHFKPPDFTIEVHCIGEYEEFLIRLI 249
+ ++ ++ Y+ ARQG P + VY L + + + +E+HC ++ +I
Sbjct: 127 SALKYQGKKLYEYARQGIEVPREARPITVYELLFIRHEGNELELEIHC--SKGTYIRTII 184
Query: 250 YDLGTKLRSAAICTSIQCIRFAQFGLEHSLLRKHWR 285
DLG KL A ++ + +++ +E + +H R
Sbjct: 185 DDLGEKLGCGAHVIYLRRLAVSKYPVERMVTLEHLR 220
>sp|A7ZS63|TRUB_ECO24 tRNA pseudouridine synthase B OS=Escherichia coli O139:H28 (strain
E24377A / ETEC) GN=truB PE=3 SV=1
Length = 314
Score = 33.9 bits (76), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 22/96 (22%), Positives = 46/96 (47%), Gaps = 2/96 (2%)
Query: 190 AGVRLNSQEAYDIARQGPIRPALLKEPVVYGLKCVHFKPPDFTIEVHCIGEYEEFLIRLI 249
+ ++ ++ Y+ ARQG P + VY L + + + +E+HC ++ +I
Sbjct: 127 SALKYQGKKLYEYARQGIEVPREARPITVYELLFIRHEGNELELEIHC--SKGTYIRTII 184
Query: 250 YDLGTKLRSAAICTSIQCIRFAQFGLEHSLLRKHWR 285
DLG KL A ++ + +++ +E + +H R
Sbjct: 185 DDLGEKLGCGAHVIYLRRLAVSKYPVERMVTLEHLR 220
>sp|Q3YX75|TRUB_SHISS tRNA pseudouridine synthase B OS=Shigella sonnei (strain Ss046)
GN=truB PE=3 SV=1
Length = 314
Score = 33.9 bits (76), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 22/96 (22%), Positives = 46/96 (47%), Gaps = 2/96 (2%)
Query: 190 AGVRLNSQEAYDIARQGPIRPALLKEPVVYGLKCVHFKPPDFTIEVHCIGEYEEFLIRLI 249
+ ++ ++ Y+ ARQG P + VY L + + + +E+HC ++ +I
Sbjct: 127 SALKYQGKKLYEYARQGIEVPREARPITVYELLFIRHEGNELELEIHC--SKGTYIRTII 184
Query: 250 YDLGTKLRSAAICTSIQCIRFAQFGLEHSLLRKHWR 285
DLG KL A ++ + +++ +E + +H R
Sbjct: 185 DDLGEKLGCGAHVIYLRRLAVSKYPVERMVTLEHLR 220
>sp|Q0T0B5|TRUB_SHIF8 tRNA pseudouridine synthase B OS=Shigella flexneri serotype 5b
(strain 8401) GN=truB PE=3 SV=1
Length = 314
Score = 33.9 bits (76), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 22/96 (22%), Positives = 46/96 (47%), Gaps = 2/96 (2%)
Query: 190 AGVRLNSQEAYDIARQGPIRPALLKEPVVYGLKCVHFKPPDFTIEVHCIGEYEEFLIRLI 249
+ ++ ++ Y+ ARQG P + VY L + + + +E+HC ++ +I
Sbjct: 127 SALKYQGKKLYEYARQGIEVPREARPITVYELLFIRHEGNELELEIHC--SKGTYIRTII 184
Query: 250 YDLGTKLRSAAICTSIQCIRFAQFGLEHSLLRKHWR 285
DLG KL A ++ + +++ +E + +H R
Sbjct: 185 DDLGEKLGCGAHVIYLRRLAVSKYPVERMVTLEHLR 220
>sp|Q1R6H2|TRUB_ECOUT tRNA pseudouridine synthase B OS=Escherichia coli (strain UTI89 /
UPEC) GN=truB PE=3 SV=1
Length = 314
Score = 33.9 bits (76), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 22/96 (22%), Positives = 46/96 (47%), Gaps = 2/96 (2%)
Query: 190 AGVRLNSQEAYDIARQGPIRPALLKEPVVYGLKCVHFKPPDFTIEVHCIGEYEEFLIRLI 249
+ ++ ++ Y+ ARQG P + VY L + + + +E+HC ++ +I
Sbjct: 127 SALKYQGKKLYEYARQGIEVPREARPITVYELLFIRHEGNELELEIHC--SKGTYIRTII 184
Query: 250 YDLGTKLRSAAICTSIQCIRFAQFGLEHSLLRKHWR 285
DLG KL A ++ + +++ +E + +H R
Sbjct: 185 DDLGEKLGCGAHVIYLRRLAVSKYPVERMVTLEHLR 220
>sp|P60340|TRUB_ECOLI tRNA pseudouridine synthase B OS=Escherichia coli (strain K12)
GN=truB PE=1 SV=1
Length = 314
Score = 33.9 bits (76), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 22/96 (22%), Positives = 46/96 (47%), Gaps = 2/96 (2%)
Query: 190 AGVRLNSQEAYDIARQGPIRPALLKEPVVYGLKCVHFKPPDFTIEVHCIGEYEEFLIRLI 249
+ ++ ++ Y+ ARQG P + VY L + + + +E+HC ++ +I
Sbjct: 127 SALKYQGKKLYEYARQGIEVPREARPITVYELLFIRHEGNELELEIHC--SKGTYIRTII 184
Query: 250 YDLGTKLRSAAICTSIQCIRFAQFGLEHSLLRKHWR 285
DLG KL A ++ + +++ +E + +H R
Sbjct: 185 DDLGEKLGCGAHVIYLRRLAVSKYPVERMVTLEHLR 220
>sp|B1IQV5|TRUB_ECOLC tRNA pseudouridine synthase B OS=Escherichia coli (strain ATCC 8739
/ DSM 1576 / Crooks) GN=truB PE=3 SV=1
Length = 314
Score = 33.9 bits (76), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 22/96 (22%), Positives = 46/96 (47%), Gaps = 2/96 (2%)
Query: 190 AGVRLNSQEAYDIARQGPIRPALLKEPVVYGLKCVHFKPPDFTIEVHCIGEYEEFLIRLI 249
+ ++ ++ Y+ ARQG P + VY L + + + +E+HC ++ +I
Sbjct: 127 SALKYQGKKLYEYARQGIEVPREARPITVYELLFIRHEGNELELEIHC--SKGTYIRTII 184
Query: 250 YDLGTKLRSAAICTSIQCIRFAQFGLEHSLLRKHWR 285
DLG KL A ++ + +++ +E + +H R
Sbjct: 185 DDLGEKLGCGAHVIYLRRLAVSKYPVERMVTLEHLR 220
>sp|P60341|TRUB_ECOL6 tRNA pseudouridine synthase B OS=Escherichia coli O6:H1 (strain
CFT073 / ATCC 700928 / UPEC) GN=truB PE=3 SV=1
Length = 314
Score = 33.9 bits (76), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 22/96 (22%), Positives = 46/96 (47%), Gaps = 2/96 (2%)
Query: 190 AGVRLNSQEAYDIARQGPIRPALLKEPVVYGLKCVHFKPPDFTIEVHCIGEYEEFLIRLI 249
+ ++ ++ Y+ ARQG P + VY L + + + +E+HC ++ +I
Sbjct: 127 SALKYQGKKLYEYARQGIEVPREARPITVYELLFIRHEGNELELEIHC--SKGTYIRTII 184
Query: 250 YDLGTKLRSAAICTSIQCIRFAQFGLEHSLLRKHWR 285
DLG KL A ++ + +++ +E + +H R
Sbjct: 185 DDLGEKLGCGAHVIYLRRLAVSKYPVERMVTLEHLR 220
>sp|Q0TCU3|TRUB_ECOL5 tRNA pseudouridine synthase B OS=Escherichia coli O6:K15:H31
(strain 536 / UPEC) GN=truB PE=3 SV=1
Length = 314
Score = 33.9 bits (76), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 22/96 (22%), Positives = 46/96 (47%), Gaps = 2/96 (2%)
Query: 190 AGVRLNSQEAYDIARQGPIRPALLKEPVVYGLKCVHFKPPDFTIEVHCIGEYEEFLIRLI 249
+ ++ ++ Y+ ARQG P + VY L + + + +E+HC ++ +I
Sbjct: 127 SALKYQGKKLYEYARQGIEVPREARPITVYELLFIRHEGNELELEIHC--SKGTYIRTII 184
Query: 250 YDLGTKLRSAAICTSIQCIRFAQFGLEHSLLRKHWR 285
DLG KL A ++ + +++ +E + +H R
Sbjct: 185 DDLGEKLGCGAHVIYLRRLAVSKYPVERMVTLEHLR 220
>sp|A1AG71|TRUB_ECOK1 tRNA pseudouridine synthase B OS=Escherichia coli O1:K1 / APEC
GN=truB PE=3 SV=1
Length = 314
Score = 33.9 bits (76), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 22/96 (22%), Positives = 46/96 (47%), Gaps = 2/96 (2%)
Query: 190 AGVRLNSQEAYDIARQGPIRPALLKEPVVYGLKCVHFKPPDFTIEVHCIGEYEEFLIRLI 249
+ ++ ++ Y+ ARQG P + VY L + + + +E+HC ++ +I
Sbjct: 127 SALKYQGKKLYEYARQGIEVPREARPITVYELLFIRHEGNELELEIHC--SKGTYIRTII 184
Query: 250 YDLGTKLRSAAICTSIQCIRFAQFGLEHSLLRKHWR 285
DLG KL A ++ + +++ +E + +H R
Sbjct: 185 DDLGEKLGCGAHVIYLRRLAVSKYPVERMVTLEHLR 220
>sp|A8A4Y2|TRUB_ECOHS tRNA pseudouridine synthase B OS=Escherichia coli O9:H4 (strain HS)
GN=truB PE=3 SV=1
Length = 314
Score = 33.9 bits (76), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 22/96 (22%), Positives = 46/96 (47%), Gaps = 2/96 (2%)
Query: 190 AGVRLNSQEAYDIARQGPIRPALLKEPVVYGLKCVHFKPPDFTIEVHCIGEYEEFLIRLI 249
+ ++ ++ Y+ ARQG P + VY L + + + +E+HC ++ +I
Sbjct: 127 SALKYQGKKLYEYARQGIEVPREARPITVYELLFIRHEGNELELEIHC--SKGTYIRTII 184
Query: 250 YDLGTKLRSAAICTSIQCIRFAQFGLEHSLLRKHWR 285
DLG KL A ++ + +++ +E + +H R
Sbjct: 185 DDLGEKLGCGAHVIYLRRLAVSKYPVERMVTLEHLR 220
>sp|P60342|TRUB_ECO57 tRNA pseudouridine synthase B OS=Escherichia coli O157:H7 GN=truB
PE=3 SV=1
Length = 314
Score = 33.9 bits (76), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 22/96 (22%), Positives = 46/96 (47%), Gaps = 2/96 (2%)
Query: 190 AGVRLNSQEAYDIARQGPIRPALLKEPVVYGLKCVHFKPPDFTIEVHCIGEYEEFLIRLI 249
+ ++ ++ Y+ ARQG P + VY L + + + +E+HC ++ +I
Sbjct: 127 SALKYQGKKLYEYARQGIEVPREARPITVYELLFIRHEGNELELEIHC--SKGTYIRTII 184
Query: 250 YDLGTKLRSAAICTSIQCIRFAQFGLEHSLLRKHWR 285
DLG KL A ++ + +++ +E + +H R
Sbjct: 185 DDLGEKLGCGAHVIYLRRLAVSKYPVERMVTLEHLR 220
>sp|A4SJR7|TRUB_AERS4 tRNA pseudouridine synthase B OS=Aeromonas salmonicida (strain
A449) GN=truB PE=3 SV=1
Length = 319
Score = 33.9 bits (76), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 42/177 (23%), Positives = 75/177 (42%), Gaps = 21/177 (11%)
Query: 146 KCVHFKPPDFTIGNLYSALLPWQEAVLKITDNNCLFVCLFVHRQAGVRLNSQEAYDIARQ 205
+ V +P + +G L +L ++ ++++ ++ L + N + Y+ AR+
Sbjct: 95 EVVSTRPVNVALGTLIESLDQFRGPIMQVP---SMYSAL--------KHNGRPLYEYARE 143
Query: 206 GPIRPALLKEPV-VYGLKCVHFKPPDFTIEVHCIGEYEEFLIRLIYDLGTKLRSAAICTS 264
G I P+ V+ LK + F+ + +EVHC ++ L+ DLG L A T
Sbjct: 144 G-IEIEREARPITVFELKLISFEGDEVKLEVHC--SKGTYIRSLVDDLGEVLGCGAHVTQ 200
Query: 265 IQCIRFAQFGLEHSLLRKHWRV---QHVIENIAHNET---LVDKMDPMRPQLQSVNM 315
++ + A + E L + Q E+I E L+ MD L VNM
Sbjct: 201 LRRTQVATYPYERMLTLEQLECIFEQAKAESIPPREQLDPLLLPMDTAVAALPEVNM 257
>sp|Q92SW2|TRUB_RHIME tRNA pseudouridine synthase B OS=Rhizobium meliloti (strain 1021)
GN=truB PE=3 SV=1
Length = 311
Score = 33.9 bits (76), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 33/141 (23%), Positives = 54/141 (38%), Gaps = 4/141 (2%)
Query: 162 SALLPWQEAVLKITDNNCLFVCLFVHRQAGVRLNSQEAYDIARQGPIRPALLKEPVVYGL 221
SA P +EA+ + + + + +++ + AYD+AR G +E V+ L
Sbjct: 100 SAARPEEEAIRALLPKYTGVIAQVPPQFSAIKIGGERAYDLARDGETVEIPAREVEVFRL 159
Query: 222 KCVHFKPPDFTIEVHC-IGEYEEFLIRLIYDLGTKLRSAAICTSIQCIRFAQFGLEHSLL 280
+ P E+ C G Y L R D+G L S++ A FG E +
Sbjct: 160 SLIGSAPNLAHFEIECGKGTYVRSLAR---DMGRDLGCFGHIASLRRTFVAPFGEEDMVP 216
Query: 281 RKHWRVQHVIENIAHNETLVD 301
IE+ A +D
Sbjct: 217 LADLVALEAIEDDAERLAALD 237
>sp|Q68WN3|TRUB_RICTY tRNA pseudouridine synthase B OS=Rickettsia typhi (strain ATCC
VR-144 / Wilmington) GN=truB PE=3 SV=1
Length = 292
Score = 33.5 bits (75), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 26/147 (17%), Positives = 58/147 (39%), Gaps = 9/147 (6%)
Query: 190 AGVRLNSQEAYDIARQGPIRPALLKEPVVYGLKCVHFKPPDFTIEVHCIGEYEEFLIRLI 249
+ +++N AY +AR+G + + +Y LKC++F + ++ L
Sbjct: 118 SAIKVNGIRAYKLAREGKVVELKPRNVTIYDLKCLNFDKEKAIATYYTECSKGTYIRTLT 177
Query: 250 YDLGTKLRSAAICTSIQCIRFAQFGLEHSLLRKHWRVQHVIENIAHNETLVDKMD-PMRP 308
DL L+S ++ + F E+++ H+ + A + +DK +
Sbjct: 178 EDLALSLQSLGFVIELRRTQVGIFKEENAI--------HIKASDAITKNFIDKKSIKIEA 229
Query: 309 QLQSVNMTDSDSTDGSNVSDGNRTVLE 335
L + + D+ + G + V +
Sbjct: 230 ILDDILVLDATDDQAQKIKYGQKCVFD 256
>sp|P59878|TRUB_HAEDU tRNA pseudouridine synthase B OS=Haemophilus ducreyi (strain
35000HP / ATCC 700724) GN=truB PE=3 SV=1
Length = 305
Score = 33.5 bits (75), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 25/95 (26%), Positives = 44/95 (46%), Gaps = 4/95 (4%)
Query: 200 YDIARQGPIRPALLKEPVVYGLKCVHFKPPDFTIEVHCIGEYEEFLIRLIYDLGTKLRSA 259
Y+ ARQ + ++ LK + ++ P T+EVHC ++ LI DLG KL
Sbjct: 137 YEYARQSITIEREARPITIFELKFISYEAPYLTLEVHC--SKGTYIRTLIDDLGEKLGCG 194
Query: 260 AICTSIQCIRFAQFGLEHSLLRKHWRVQHVIENIA 294
A ++ + A + + + + +QH+ E A
Sbjct: 195 AHVAILRRLAVADYPADAMM--NYASLQHLSETEA 227
>sp|Q83MJ8|TRUB_SHIFL tRNA pseudouridine synthase B OS=Shigella flexneri GN=truB PE=3
SV=1
Length = 314
Score = 33.5 bits (75), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 22/96 (22%), Positives = 46/96 (47%), Gaps = 2/96 (2%)
Query: 190 AGVRLNSQEAYDIARQGPIRPALLKEPVVYGLKCVHFKPPDFTIEVHCIGEYEEFLIRLI 249
+ ++ ++ Y+ ARQG P + VY L + + + +E+HC ++ +I
Sbjct: 127 SALKYQGKKLYEYARQGIEVPREARPITVYELLFIRHEGNELELEIHC--SKGTYIRTII 184
Query: 250 YDLGTKLRSAAICTSIQCIRFAQFGLEHSLLRKHWR 285
DLG KL A ++ + +++ +E + +H R
Sbjct: 185 DDLGEKLGCGAHVIYLRRLAVSKYPVERIVTLEHLR 220
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
0.323 0.138 0.429
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 126,700,074
Number of Sequences: 539616
Number of extensions: 5171953
Number of successful extensions: 10081
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 75
Number of HSP's that attempted gapping in prelim test: 10060
Number of HSP's gapped (non-prelim): 91
length of query: 336
length of database: 191,569,459
effective HSP length: 118
effective length of query: 218
effective length of database: 127,894,771
effective search space: 27881060078
effective search space used: 27881060078
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 61 (28.1 bits)