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= 026613
(236 letters)
Database: swissprot
539,616 sequences; 191,569,459 total letters
Searching..................................................done
>sp|Q9LT72|PUS4_ARATH RNA pseudourine synthase 4, mitochondrial OS=Arabidopsis thaliana
GN=At3g19440 PE=2 SV=1
Length = 477
Score = 226 bits (575), Expect = 1e-58, Method: Compositional matrix adjust.
Identities = 117/198 (59%), Positives = 152/198 (76%), Gaps = 6/198 (3%)
Query: 39 LQRWYWALVVGTPRCSKGVISAPLGKVVVDNGKSDRITVVNNDQIMSAQHAVTRYQVIKP 98
L+R Y ALV+G P +G ISAPL KVVVD+GKS+RITV +N +++S QHA+T Y+VI+
Sbjct: 278 LKRKYMALVIGCPPRQRGQISAPLRKVVVDDGKSERITVNDNGELVSTQHAITEYRVIES 337
Query: 99 SCHGYTWLKLSPLTGRKHQLRVHCAEVLGTPIVGDYKYGWQTHRKWKQFHPSDLSKDSNE 158
S HGYTWL+L PLTGRKHQLRVHCAEVLGTPIVGDYKYGWQ H+ + F +S ++N
Sbjct: 338 SPHGYTWLELRPLTGRKHQLRVHCAEVLGTPIVGDYKYGWQAHKAREPF----VSSENNP 393
Query: 159 EIPKEKTLHFGLDLESGSILEKQPRLHLHCKEMTLPNVSQAIQKVQLSSGCDVSKLETLK 218
K+ + FGLDL+ G + KQP LHLH K++ LPN+SQ ++K+Q+SS D+S L++LK
Sbjct: 394 T--KQSSSPFGLDLDGGDVSSKQPHLHLHSKQIDLPNISQLLEKMQVSSDSDISDLDSLK 451
Query: 219 LVAPLPSHMQRSWDVLNS 236
APLPSHMQ S+++L S
Sbjct: 452 FDAPLPSHMQLSFNLLKS 469
>sp|Q0J4D4|PUS3_ORYSJ RNA pseudourine synthase 3, mitochondrial OS=Oryza sativa subsp.
japonica GN=Os08g0520100 PE=2 SV=1
Length = 475
Score = 202 bits (514), Expect = 1e-51, Method: Compositional matrix adjust.
Identities = 96/202 (47%), Positives = 140/202 (69%), Gaps = 7/202 (3%)
Query: 39 LQRWYWALVVGTPRCSKGVISAPLGKVVVDNGKSDRITVVNNDQIMSAQHAVTRYQVIKP 98
+QR YWALV+GTP+ +G+ISAPL KV++D+GK++R+ + + I AQ AVT Y+V+ P
Sbjct: 274 MQR-YWALVIGTPKEREGIISAPLSKVLLDDGKAERVILAHPSGIDGAQEAVTAYRVMGP 332
Query: 99 SCHGYTWLKLSPLTGRKHQLRVHCAEVLGTPIVGDYKYGWQTHRKWKQFHPSDLSKDSNE 158
+ HG +W++L PLTGRKHQLRVHCAE LGTPIVGDYKYGW H++WKQ D + E
Sbjct: 333 TIHGCSWIELRPLTGRKHQLRVHCAEALGTPIVGDYKYGWFVHQRWKQNPQPDFEPFTGE 392
Query: 159 EIPKEKTLHFGLDLESGSILEKQPRLHLHCKEMTLPNVSQAIQKV----QLSSGCDVSKL 214
P + GL+++ GS+L K P LHLHC+EM +PN+++ + + + K
Sbjct: 393 --PYKLRRPEGLEIQKGSVLSKVPLLHLHCREMVIPNIAKFLSSNGEWHENGAPWSKEKP 450
Query: 215 ETLKLVAPLPSHMQRSWDVLNS 236
L+ +AP+P+HM+ SW++++S
Sbjct: 451 NLLRFIAPMPAHMKISWNIMSS 472
>sp|Q5XET6|PUS3_ARATH RNA pseudourine synthase 3, mitochondrial OS=Arabidopsis thaliana
GN=At1g78910 PE=2 SV=1
Length = 478
Score = 197 bits (501), Expect = 5e-50, Method: Compositional matrix adjust.
Identities = 92/200 (46%), Positives = 138/200 (69%), Gaps = 9/200 (4%)
Query: 43 YWALVVGTPRCSKGVISAPLGKVVVDNGKSDRITVVNNDQIMSAQHAVTRYQVIKPSCHG 102
YWALV+G+P+ +G+ISAPL KV++D+GK+DR+ + ++Q A+T Y+V+ P +G
Sbjct: 279 YWALVIGSPKEKEGLISAPLSKVLLDDGKTDRVVLAQGSGFEASQDAITEYKVLGPKING 338
Query: 103 YTWLKLSPLTGRKHQLRVHCAEVLGTPIVGDYKYGWQTHRKWKQFHPSDLSKDSNEEIPK 162
+W++L P+T RKHQLRVHCAE LGTPIVGDYKYGW H++WKQ D+ + + P
Sbjct: 339 CSWVELRPITSRKHQLRVHCAEALGTPIVGDYKYGWFVHKRWKQMPQVDIEPTTGK--PY 396
Query: 163 EKTLHFGLDLESGSILEKQPRLHLHCKEMTLPNVSQAIQKVQ------LSSGCDVSKLET 216
+ GLD++ GS+L K P LHLHC+EM LPN+++ + + L +G + K +
Sbjct: 397 KLRRPEGLDVQKGSVLSKVPLLHLHCREMVLPNIAKFLHVMNQQETEPLHTGI-IDKPDL 455
Query: 217 LKLVAPLPSHMQRSWDVLNS 236
L+ VA +PSHM+ SW++++S
Sbjct: 456 LRFVASMPSHMKISWNLMSS 475
>sp|Q69K07|PUS4_ORYSJ RNA pseudourine synthase 4, mitochondrial OS=Oryza sativa subsp.
japonica GN=Os09g0103500 PE=2 SV=1
Length = 448
Score = 95.1 bits (235), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 44/85 (51%), Positives = 61/85 (71%)
Query: 33 DNEKRILQRWYWALVVGTPRCSKGVISAPLGKVVVDNGKSDRITVVNNDQIMSAQHAVTR 92
D + +LQR Y ALV+GTPR KG++SAPL K+++ +GKS+R+T+ + S Q A+T
Sbjct: 261 DGTQHVLQRKYVALVIGTPRHPKGLLSAPLAKILLQDGKSERLTIRASSNAASVQDALTE 320
Query: 93 YQVIKPSCHGYTWLKLSPLTGRKHQ 117
Y+VI+ GYTWL+L P TGRKHQ
Sbjct: 321 YRVIESCPQGYTWLELFPRTGRKHQ 345
>sp|Q28C59|RUSD4_XENTR RNA pseudouridylate synthase domain-containing protein 4 OS=Xenopus
tropicalis GN=rpusd4 PE=2 SV=1
Length = 324
Score = 74.3 bits (181), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 59/192 (30%), Positives = 87/192 (45%), Gaps = 46/192 (23%)
Query: 23 TVERVMYKDNDNEKRILQRWYWALVVGTPRCSKGVISAPLGK------------------ 64
ERV + E + R YWAL +GTP +G++ P+ +
Sbjct: 120 AAERVQQALRERE---VHRVYWALCLGTPSPREGILDIPIMEKETSGPQKHYKMALSPRF 176
Query: 65 VVVDNGKSDRITVVNNDQIMSAQHAVTRYQVIKPSCHGYTWLKLSPLTGRKHQLRVHCAE 124
V + G +R+ V SA AVTRY+ + + G + ++L P+TG KHQLRVH A
Sbjct: 177 RVSEEGAVERVRVPR-----SAHEAVTRYRTLG-AASGASLVELHPITGVKHQLRVHLAL 230
Query: 125 VLGTPIVGDYKYG-WQTHRKWKQFHPSDLSKDSNEEIPKEKTLHFGLDLESGSILEKQPR 183
L PI+GD+KY W R Q P + + +P+ +TL
Sbjct: 231 GLNCPILGDHKYSHWG--RLAPQKPPDSVLRALGLTVPQARTLS---------------- 272
Query: 184 LHLHCKEMTLPN 195
LHLH ++TLP+
Sbjct: 273 LHLHAVQLTLPS 284
>sp|Q4QQT0|RUSD4_RAT RNA pseudouridylate synthase domain-containing protein 4 OS=Rattus
norvegicus GN=Rpusd4 PE=2 SV=1
Length = 377
Score = 72.0 bits (175), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 62/216 (28%), Positives = 91/216 (42%), Gaps = 54/216 (25%)
Query: 37 RILQRWYWALVVGTPRCSKGVISAPLGKVVV-----------------DNGKSDRITVVN 79
R +++ YWA+ V P S GV+ P+ + V DNGK ++
Sbjct: 179 RQVEKKYWAITVRVPLPSAGVVDIPIMEKEVAGQQQHHKMTLRPSYRMDNGKMVKVRASR 238
Query: 80 NDQIMSAQHAVTRYQVIKPSCHGYTWLKLSPLTGRKHQLRVHCAEVLGTPIVGDYKYGWQ 139
+ + AVT+YQV+ S ++L P+TG KHQLRVH A L PI+GD+KY
Sbjct: 239 DAHV-----AVTQYQVLS-STPSSALVELQPVTGIKHQLRVHLAFGLDCPILGDHKYS-- 290
Query: 140 THRKWKQFHPSDLSKDSNEEIPKEKTLHFGLDLESGSILEKQPRLHLHCKEMTLPNVSQA 199
W + P LS + +++ GL + LHLH +++ LP +
Sbjct: 291 ---DWNRLAPQKLSAGTLKKL--------GLQQSKARYIP----LHLHARQLILPALG-- 333
Query: 200 IQKVQLSSGCDVSKLETLKLVAPLPSHMQRSWDVLN 235
S+ E L L LP RS L
Sbjct: 334 ------------SRTEELLLACKLPHFFARSLRRLG 357
>sp|Q68XB2|RLUC_RICTY Ribosomal large subunit pseudouridine synthase C OS=Rickettsia
typhi (strain ATCC VR-144 / Wilmington) GN=rluC PE=3
SV=1
Length = 303
Score = 68.9 bits (167), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 42/143 (29%), Positives = 83/143 (58%), Gaps = 16/143 (11%)
Query: 18 SSGIITVER-----VMYKDNDNEKRILQRWYWALVVGTPRCSKGVISAPLGKVVVDNGKS 72
+SG++ + + V D EK ++++ Y+A+ G P + G++ + +GK G+
Sbjct: 143 TSGLLLIAKNYLSSVKLHDAFKEKLVIKK-YFAITYGRPVKNVGIVKSNIGK---SKGRM 198
Query: 73 DRITVVNNDQIMSAQHAVTRYQVIKPSCHGYTWLKLSPLTGRKHQLRVHCAEVLGTPIVG 132
+IT +++D + + A+T Y+++K + ++ P+TGR HQLR+H A++LG PI+G
Sbjct: 199 FKITDIDSD---NGKLAITYYKLLKSLNNNLFLIEFMPVTGRMHQLRLH-AQLLGCPILG 254
Query: 133 DYKYGWQT---HRKWKQFHPSDL 152
D KYG + + K+ H +++
Sbjct: 255 DDKYGNKEVMPYSKYMFLHANNI 277
>sp|Q96CM3|RUSD4_HUMAN RNA pseudouridylate synthase domain-containing protein 4 OS=Homo
sapiens GN=RPUSD4 PE=2 SV=1
Length = 377
Score = 67.8 bits (164), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 52/180 (28%), Positives = 83/180 (46%), Gaps = 40/180 (22%)
Query: 43 YWALVVGTPRCSKGVISAPLGK-----------------VVVDNGKSDRITVVNNDQIMS 85
YWA+ V P S GV+ P+ + +D+GK ++ N Q+
Sbjct: 185 YWAITVHVPMPSAGVVDIPIVEKEAQGQQQHHKMTLSPSYRMDDGKMVKVRRSRNAQV-- 242
Query: 86 AQHAVTRYQVIKPSCHGYTWLKLSPLTGRKHQLRVHCAEVLGTPIVGDYKYGWQTHRKWK 145
AVT+YQV+ S ++L P+TG KHQLRVH + L PI+GD+KY W
Sbjct: 243 ---AVTQYQVLS-STLSSALVELQPITGIKHQLRVHLSFGLDCPILGDHKYS-----DWN 293
Query: 146 QFHPSDLSKDSNEEIPKEKTLHFGLDLESGSILEKQPRLHLHCKEMTLPNVSQAIQKVQL 205
+ P LS + +++ GL+ + LHLH +++ LP + +++ L
Sbjct: 294 RLAPQKLSVGTLKKL--------GLEQSKARYIP----LHLHARQLILPALGSGKEELNL 341
>sp|Q6DBR0|RUSD4_DANRE RNA pseudouridylate synthase domain-containing protein 4 OS=Danio
rerio GN=rpusd4 PE=2 SV=1
Length = 358
Score = 67.8 bits (164), Expect = 7e-11, Method: Compositional matrix adjust.
Identities = 55/168 (32%), Positives = 75/168 (44%), Gaps = 36/168 (21%)
Query: 43 YWALVVGTPRCSKGVISAP----------------LGKVVVDNGKSDRITVVNNDQIMSA 86
Y A+ VG P S+GVI P L + N D +T V + A
Sbjct: 178 YLAITVGVPVPSEGVIDIPVIERAVVGPQPHFKMALSPLFKVNEDGDGVTRVRAHR--QA 235
Query: 87 QHAVTRYQVIKPSCHGYTWLKLSPLTGRKHQLRVHCAEVLGTPIVGDYKYGWQTHRKWKQ 146
AVTRYQV+ + G + ++L PLTG K+QLRVH A L PI+GD+KY W +
Sbjct: 236 HAAVTRYQVLD-NTSGCSLVELQPLTGVKNQLRVHMALALTCPILGDHKYSH-----WSK 289
Query: 147 FHPSDLSKDSNEEIPKEKTLHFGLDLESGSILEKQPRLHLHCKEMTLP 194
P +++P+ GL L LHLH + + LP
Sbjct: 290 LAP--------QKLPEGTLRRLGLVQSKTRYLP----LHLHSRRIVLP 325
>sp|O66114|Y505_ZYMMO Uncharacterized RNA pseudouridine synthase ZMO0505 OS=Zymomonas
mobilis subsp. mobilis (strain ATCC 31821 / ZM4 / CP4)
GN=ZMO0505 PE=3 SV=2
Length = 219
Score = 63.5 bits (153), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 36/99 (36%), Positives = 57/99 (57%), Gaps = 7/99 (7%)
Query: 39 LQRWYWALVVGTPRCSKGVISAPLGKVVVDNGKSDRITVVNNDQIMSAQHAVTRYQVIKP 98
+++ YWA++ G P ++G+I PL K+ + +V +D+ + AVT ++++
Sbjct: 86 VKKCYWAILEGVPEKNEGIIDLPLLKI---SSPKSGWRIVADDK---GKRAVTHWEILAK 139
Query: 99 SCHGYTWLKLSPLTGRKHQLRVHCAEVLGTPIVGDYKYG 137
+ G + + P TGR HQLRVH A LG PIVGD YG
Sbjct: 140 N-KGRSLVAFRPETGRTHQLRVHAATGLGLPIVGDPFYG 177
>sp|Q9CWX4|RUSD4_MOUSE RNA pseudouridylate synthase domain-containing protein 4 OS=Mus
musculus GN=Rpusd4 PE=2 SV=1
Length = 377
Score = 63.2 bits (152), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 60/211 (28%), Positives = 90/211 (42%), Gaps = 54/211 (25%)
Query: 37 RILQRWYWALVVGTPRCSKGVISAPLGKVVV-----------------DNGKSDRITVVN 79
R +++ YWA+ V P S GV+ P+ + V DNGK ++
Sbjct: 179 RQVEKKYWAITVRVPLPSAGVVDIPIKEKEVQGPQQHHKMTLSPSYRLDNGKMVKVRASR 238
Query: 80 NDQIMSAQHAVTRYQVIKPSCHGYTWLKLSPLTGRKHQLRVHCAEVLGTPIVGDYKYGWQ 139
+ + AVT+YQV+ S ++L P+TG KHQLRVH + L PI+GD+KY
Sbjct: 239 DAHV-----AVTQYQVLS-SASSSALVELQPVTGIKHQLRVHLSFGLDCPILGDHKYS-- 290
Query: 140 THRKWKQFHPSDLSKDSNEEIPKEKTLHFGLDLESGSILEKQPRLHLHCKEMTLPNVSQA 199
W + P LS + +++ GL + LHLH +++ LP +
Sbjct: 291 ---DWTRLAPQKLSAGTLKKL--------GLQQSKARYIP----LHLHARQLILPALG-- 333
Query: 200 IQKVQLSSGCDVSKLETLKLVAPLPSHMQRS 230
S+ E L L LP RS
Sbjct: 334 ------------SRTEELLLTCKLPHFFARS 352
>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 = 62.8 bits (151), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 35/121 (28%), Positives = 68/121 (56%), Gaps = 10/121 (8%)
Query: 35 EKRILQRWYWALVVGTPRCSKGVISAPLGKVVVDNGKSDRITVVNNDQIMSAQHAVTRYQ 94
+++++++ Y A+ G P +G + + K G +IT +N++ + + A+T Y+
Sbjct: 164 KEKLVEKTYLAVTYGKPIKDQGEVKTNIEK---SKGSIPKITDINDN---NGKLAITYYK 217
Query: 95 VIKPSCHGYTWLKLSPLTGRKHQLRVHCAEVLGTPIVGDYKYG---WQTHRKWKQFHPSD 151
++K + ++ P+TGR HQLR+H A++LG PI GD KYG + K+ H ++
Sbjct: 218 LLKSLTNNLFLVEFIPITGRMHQLRLH-AKLLGCPIFGDNKYGNDKLMPYSKYMFLHANN 276
Query: 152 L 152
+
Sbjct: 277 I 277
>sp|Q9ZDR7|RLUC_RICPR Ribosomal large subunit pseudouridine synthase C OS=Rickettsia
prowazekii (strain Madrid E) GN=rluC PE=3 SV=1
Length = 303
Score = 62.8 bits (151), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 35/124 (28%), Positives = 69/124 (55%), Gaps = 10/124 (8%)
Query: 32 NDNEKRILQRWYWALVVGTPRCSKGVISAPLGKVVVDNGKSDRITVVNNDQIMSAQHAVT 91
N +++++ + Y+A+ G P + G + + +GK R++ + N + A+T
Sbjct: 161 NAFKEKLVIKKYFAITYGRPVKNVGTVKSNIGK------SKRRLSKIANIDSDDGKLAIT 214
Query: 92 RYQVIKPSCHGYTWLKLSPLTGRKHQLRVHCAEVLGTPIVGDYKYGWQT---HRKWKQFH 148
Y+++K + ++ P+TGR HQLR+H A++LG PI+GD KYG + + K+ H
Sbjct: 215 YYKLLKSLNNNLFLIEFMPVTGRMHQLRLH-AQLLGCPILGDDKYGNKEIMPYSKYMFLH 273
Query: 149 PSDL 152
+++
Sbjct: 274 ANNI 277
>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 = 62.4 bits (150), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 36/124 (29%), Positives = 74/124 (59%), Gaps = 10/124 (8%)
Query: 32 NDNEKRILQRWYWALVVGTPRCSKGVISAPLGKVVVDNGKSDRITVVNNDQIMSAQHAVT 91
N +++++ + Y+A+ G P + G + + + K G + +IT ++++ + + A+T
Sbjct: 161 NAFKEKLVVKTYFAVTYGKPIKNVGEVRSNIEK---SKGSTPKITDIDSE---NGKLAIT 214
Query: 92 RYQVIKPSCHGYTWLKLSPLTGRKHQLRVHCAEVLGTPIVGDYKYGWQT---HRKWKQFH 148
Y+V+K + ++ +P+TGR HQLR+H A++LG PI+GD KYG + + K+ H
Sbjct: 215 YYKVLKSLDNNLFLIEFTPVTGRMHQLRLH-AKLLGCPILGDDKYGNKEIMPYSKYMFLH 273
Query: 149 PSDL 152
+++
Sbjct: 274 ANNI 277
>sp|Q5E9Z1|RUSD4_BOVIN RNA pseudouridylate synthase domain-containing protein 4 OS=Bos
taurus GN=RPUSD4 PE=2 SV=1
Length = 377
Score = 62.0 bits (149), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 66/212 (31%), Positives = 91/212 (42%), Gaps = 47/212 (22%)
Query: 37 RILQRWYWALVVGTPRCSKGVISAPL-----------------GKVVVDNGKSDRITVVN 79
R + + YWA+ V P GV+ P+ +D+GK R+
Sbjct: 179 RQVTKKYWAITVRVPVPEAGVVDIPIVEKEAQGQQHHHKMTLSPSYRMDDGKMVRVRSSR 238
Query: 80 NDQIMSAQHAVTRYQVIKPSCHGYTWLKLSPLTGRKHQLRVHCAEVLGTPIVGDYKYGWQ 139
N AQ AVT+YQV+ S L+L P+TG KHQLRVH + L PI+GD+KY
Sbjct: 239 N-----AQLAVTQYQVLS-SSLSAALLELQPITGIKHQLRVHMSFGLDCPILGDHKYS-- 290
Query: 140 THRKWKQFHPSDLSKDSNEEIPKEKTLHFGLDLESGSILEKQPRLHLHCKEMTLPNVSQA 199
W + P LS +++ GL L LHLH ++TLP +
Sbjct: 291 ---DWNRLAPQKLSAGILKKL--------GLQQSKARHLP----LHLHACQLTLPALQP- 334
Query: 200 IQKVQLSSGCD-----VSKLETLKLVAPLPSH 226
QK +L+ C V+ L L L P H
Sbjct: 335 -QKEELTLLCRPPRYFVNSLRRLGLKMPSRDH 365
>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 = 61.6 bits (148), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 41/140 (29%), Positives = 79/140 (56%), Gaps = 13/140 (9%)
Query: 35 EKRILQRWYWALVVGTPRCSKGVISAPLGKVVVDNGKSDRITVVNNDQIMSAQHAVTRYQ 94
+++++ + Y+A+ G P + G + + + K G + +IT + ++ + + A+T Y+
Sbjct: 164 KEKLVVKTYFAVTYGKPIKNVGEVRSNIEK---SKGSTPKITDIYSE---NGKLAITYYK 217
Query: 95 VIKPSCHGYTWLKLSPLTGRKHQLRVHCAEVLGTPIVGDYKYGWQT---HRKWKQFHPSD 151
++K + ++ +P+TGR HQLR+H A++LG PIVGD KYG + + K+ H ++
Sbjct: 218 LLKSLDNNLFLIEFTPVTGRMHQLRLH-AKLLGCPIVGDDKYGNKEIMPYSKYMFLHANN 276
Query: 152 L---SKDSNEEIPKEKTLHF 168
+ K +EI E L F
Sbjct: 277 ICLSEKIFGKEINLEAKLPF 296
>sp|P54604|YHCT_BACSU Uncharacterized RNA pseudouridine synthase YhcT OS=Bacillus
subtilis (strain 168) GN=yhcT PE=3 SV=2
Length = 302
Score = 58.2 bits (139), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 38/108 (35%), Positives = 54/108 (50%), Gaps = 10/108 (9%)
Query: 31 DNDNEKRILQRWYWALVVGTPRCSKGVISAPLGKVVVDNGKSDRITVVNNDQIMSAQHAV 90
D EK+ L+R Y A+ G R KG I++P+G+ DR Q AV
Sbjct: 158 DQQLEKKTLKRTYTAIAEGKLRTKKGTINSPIGR--------DRSHPTRRRVSPGGQTAV 209
Query: 91 TRYQVIKPSC-HGYTWLKLSPLTGRKHQLRVHCAEVLGTPIVGDYKYG 137
T ++V+ + + ++L TGR HQ+RVH A LG P+ GD YG
Sbjct: 210 THFKVMASNAKERLSLVELELETGRTHQIRVHLAS-LGHPLTGDSLYG 256
>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 = 55.8 bits (133), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 30/102 (29%), Positives = 60/102 (58%), Gaps = 7/102 (6%)
Query: 35 EKRILQRWYWALVVGTPRCSKGVISAPLGKVVVDNGKSDRITVVNNDQIMSAQHAVTRYQ 94
+++ +R YW +V G+P+ +G ++ P+G+ G ++ +V ++ + AVT ++
Sbjct: 180 KEKTARRLYWGIVYGSPKEIQGTVNLPVGR---HPGDRQKMGIVPVEK--GGREAVTHWR 234
Query: 95 VIKPSCHGYTWLKLSPLTGRKHQLRVHCAEVLGTPIVGDYKY 136
+++ ++WL+ TGR HQ+RVH + +G P+VGD Y
Sbjct: 235 LLE-RIGNHSWLEFQLETGRTHQIRVHSKQ-MGHPLVGDNLY 274
>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 = 55.5 bits (132), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 38/113 (33%), Positives = 59/113 (52%), Gaps = 10/113 (8%)
Query: 37 RILQRWYWALVVGTPRCSKGVISAPLGKVVVDNGKSDRITVVNNDQIMSAQHAVTRYQVI 96
R L+R+Y ALV G I+APL +V +N K + Q A+ A+T+++VI
Sbjct: 157 RTLKRYYVALVHFPFNALTGSINAPLARV--NNNK----VMFKIAQTAKAKQAITKFKVI 210
Query: 97 KPSCHGYTWLKLSPLTGRKHQLRVHCAEVLGTPIVGDYKYGWQTHRK--WKQF 147
+ + L LTGR HQ+RVH + + P+ D YG ++ +K + QF
Sbjct: 211 NQN-EKAALISLELLTGRTHQIRVHL-KFIQHPVYNDPLYGIKSEKKDSYGQF 261
>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 = 55.1 bits (131), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 43/124 (34%), Positives = 66/124 (53%), Gaps = 15/124 (12%)
Query: 18 SSGIITVER---VMYKDNDNEK-RILQRWYWALVVGTPRCSKGVISAPLGKVVVDNGKSD 73
+SG++ + R M D ++ R +++ Y ALV+G P G I AP+G+ D
Sbjct: 151 TSGLLVIARHDQAMRSLVDQQQARRMRKIYQALVIGRP-PETGTIDAPIGR---DPRDRL 206
Query: 74 RITVVNNDQIMSAQHAVTRYQVIKPSCHGYTWLKLSPLTGRKHQLRVHCAEVLGTPIVGD 133
R+ VV + + A T Y+++ + Y+ L++ TGR HQ+RVH LG PIVGD
Sbjct: 207 RMAVVPD-----GRPARTHYRLLD-TFGDYSLLEVQLETGRTHQIRVHLRH-LGYPIVGD 259
Query: 134 YKYG 137
YG
Sbjct: 260 PVYG 263
>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 = 55.1 bits (131), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 45/140 (32%), Positives = 67/140 (47%), Gaps = 15/140 (10%)
Query: 2 LSSITASHVYEKCIAVSSGIITVERVMYKDN----DNEKRILQRWYWALVVGTPRCSKGV 57
L+S+ + V + +SG++ V R + R + R Y A+VVG S G
Sbjct: 132 LASVPRAGVVHRLDKDTSGVMVVARTVQAQTALVEQLSAREVHRQYLAVVVGA-LVSGGT 190
Query: 58 ISAPLGKVVVDNGKSDRITVVNNDQIMSAQHAVTRYQVIKPSCHGYTWLKLSPLTGRKHQ 117
+AP +D DR+ + D + AVT Y+ ++ +T L+ TGR HQ
Sbjct: 191 ANAP-----IDRHPRDRLKMAVRD---DGRDAVTHYR-LRERFRAHTALECRLETGRTHQ 241
Query: 118 LRVHCAEVLGTPIVGDYKYG 137
+RVH A L +PIVGD YG
Sbjct: 242 IRVHMAH-LKSPIVGDPLYG 260
>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 = 54.7 bits (130), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 51/192 (26%), Positives = 86/192 (44%), Gaps = 42/192 (21%)
Query: 37 RILQRWYWALVVGTPRCSKGVISAPLGKVVVDNGKSDRITVVNNDQIMSAQHAVTRYQVI 96
R +++ Y A+V G P+ G I +G+ + K+ ++ + +HA+T YQV+
Sbjct: 163 RQVEKVYKAIVWGVPKAESGTIKTNIGR----SHKNRKVMANFPYEGAEGKHAITDYQVV 218
Query: 97 KPSCHGYTWLKLSPLTGRKHQLRVHCAEVLGTPIVGDYKYGWQTHRKWKQFHPSDLSKDS 156
+ + ++ + ++ TGR HQ+RVH LG I+GD YG T R
Sbjct: 219 EDLGY-FSLMDVTLHTGRTHQIRVHLQH-LGHSILGDETYGGATPRT------------- 263
Query: 157 NEEIPKEKTLHFGLDLESGSILEKQPRLHLHCKEMTLPNVSQAIQKVQLSSGCDVSKLET 216
+P K+ F + ++LE R LH +Q ++ Q ++G E
Sbjct: 264 ---LPFSKSEPF-----TRNLLELMSRQALH---------AQTLRFRQPTTG------EP 300
Query: 217 LKLVAPLPSHMQ 228
L APLP M+
Sbjct: 301 LSFSAPLPEDME 312
>sp|Q3ECD0|PUS2_ARATH RNA pseudourine synthase 2, chloroplastic OS=Arabidopsis thaliana
GN=At1g76050 PE=2 SV=1
Length = 430
Score = 54.7 bits (130), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 39/126 (30%), Positives = 62/126 (49%), Gaps = 11/126 (8%)
Query: 39 LQRWYWALVVGTPRCSKGVISAPLGKVVVDNGKSDRITVVNND-QIMSAQHAVTRYQVIK 97
++R Y +L G P +G I P+G+ D+ R+ + + A+HA +RY+VI+
Sbjct: 262 IERVYVSLTTGVPSPPQGRIEIPIGR---DSSNRIRMAAIPGGVRGGRARHAASRYKVIE 318
Query: 98 PSCHGYTWL---KLSPLTGRKHQLRVHCAEVLGTPIVGDYKYGWQTHRKWKQFHPSDLSK 154
G + L +L TGR HQ+R H A+ +G P++GD YG +S+
Sbjct: 319 TFAGGGSALVEWRLE--TGRTHQIRAH-AKYMGVPLLGDEVYGGTKSMALSLLQ-KRVSR 374
Query: 155 DSNEEI 160
EEI
Sbjct: 375 SDQEEI 380
>sp|P59840|TRUC_HAEDU tRNA pseudouridine synthase C OS=Haemophilus ducreyi (strain
35000HP / ATCC 700724) GN=truC PE=3 SV=1
Length = 243
Score = 54.7 bits (130), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 45/113 (39%), Positives = 60/113 (53%), Gaps = 19/113 (16%)
Query: 35 EKRILQRWYWALVVGTPRCSKGVISAPLGKVVVDNGKSDRITVVNNDQIMSAQHAVTRYQ 94
E+ +++ Y A+V G KG I PL KV++D +D+ + Q +AQ AVT YQ
Sbjct: 79 EQHKVEKEYLAIVRGYI-AEKGEIDYPL-KVILDK-IADKFS-----QPKAAQQAVTFYQ 130
Query: 95 ----VIKPSCHG------YTWLKLSPLTGRKHQLRVHCAEVLGTPIVGDYKYG 137
V P G Y+ + LSP TGRKHQLR H + PI+GD KYG
Sbjct: 131 NLAKVEMPYSTGKYATTRYSLVALSPKTGRKHQLRRHMKHLFH-PIMGDTKYG 182
>sp|Q17QT4|RUSD1_BOVIN RNA pseudouridylate synthase domain-containing protein 1 OS=Bos
taurus GN=RPUSD1 PE=2 SV=1
Length = 308
Score = 54.3 bits (129), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 42/130 (32%), Positives = 65/130 (50%), Gaps = 16/130 (12%)
Query: 14 CIAVSSGIITVERVMYKDNDNEKRILQRWYWALVVGTPRCSKGVISAPLGKVVVDNGKSD 73
C+A++ +KD R + + Y ALV G + S+ IS +GK + G++
Sbjct: 75 CVALNKAAAGSAYRCFKD-----RRVTKAYLALVRGHVQESRMTISYAIGKNSTE-GRTH 128
Query: 74 RITVVNNDQIMSAQHAVTRYQVIKPSCHGY------TWLKLSPLTGRKHQLRVHCAEVLG 127
+ + + + ++T V++ HG + + L PLTGR HQLRVHC+ LG
Sbjct: 129 TMCIEGTQGCENPKPSLTELVVLE---HGLYAGDPVSKVLLQPLTGRTHQLRVHCS-ALG 184
Query: 128 TPIVGDYKYG 137
PIVGD YG
Sbjct: 185 HPIVGDLTYG 194
>sp|Q8ZIK1|RLUA_YERPE Ribosomal large subunit pseudouridine synthase A OS=Yersinia pestis
GN=rluA PE=3 SV=1
Length = 206
Score = 54.3 bits (129), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 49/145 (33%), Positives = 66/145 (45%), Gaps = 31/145 (21%)
Query: 6 TASHVYEKCIAVSSGIITVERVMYKDNDNEKRILQR----WYWALVVGTPRCSKGVISAP 61
TA V+ +A +SG+I V + + +++ +R Y A V G +G+I P
Sbjct: 43 TAESVHRLDMA-TSGVIVVALTKAAERELKRQFREREPKKTYIARVWGHLAQDEGLIDLP 101
Query: 62 L---------GKVVVDNGKSDRITVVNNDQIMSAQHAVTRYQVIKPSCHGYTWLKLSPLT 112
L KV + GKS A T YQVI G T +KLSP+T
Sbjct: 102 LICDWPNRPKQKVCYETGKS----------------AQTEYQVISRDDDGSTRVKLSPIT 145
Query: 113 GRKHQLRVHCAEVLGTPIVGDYKYG 137
GR HQLRVH +G PI+GD Y
Sbjct: 146 GRSHQLRVHML-AMGHPILGDGFYA 169
>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 = 54.3 bits (129), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 44/140 (31%), Positives = 66/140 (47%), Gaps = 15/140 (10%)
Query: 2 LSSITASHVYEKCIAVSSGIITVERVMYKDN----DNEKRILQRWYWALVVGTPRCSKGV 57
L+++ + V + +SG++ V R + R + R Y A+VVG S G
Sbjct: 132 LAAVPRAGVVHRLDKDTSGVMVVARTLQAQTALVEQLSARDVHRQYLAVVVGA-LVSGGT 190
Query: 58 ISAPLGKVVVDNGKSDRITVVNNDQIMSAQHAVTRYQVIKPSCHGYTWLKLSPLTGRKHQ 117
AP +D DR+ + D + AVT Y+ ++ +T L+ TGR HQ
Sbjct: 191 ADAP-----IDRHPRDRLKMAVRD---DGRDAVTHYR-LRERFRAHTALECRLETGRTHQ 241
Query: 118 LRVHCAEVLGTPIVGDYKYG 137
+RVH A L +PIVGD YG
Sbjct: 242 IRVHMAH-LKSPIVGDPLYG 260
>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 = 54.3 bits (129), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 38/103 (36%), Positives = 59/103 (57%), Gaps = 11/103 (10%)
Query: 35 EKRILQRWYWALVVGTPRCSKGVISAPLGKVVVDNGKSDRITVVNNDQIMSAQHAVTRYQ 94
+KR + R Y A+V+GT + G+I P+G+ S + T+++ + +HAVT Y+
Sbjct: 163 QKRDVTREYEAIVIGT-MTAGGMIDKPIGR------HSTKRTLMSVSPM--GKHAVTHYR 213
Query: 95 VIKPSCHGYTWLKLSPLTGRKHQLRVHCAEVLGTPIVGDYKYG 137
V + +T L+L TGR HQ+RVH A L P++GD YG
Sbjct: 214 VAE-HFREHTRLRLRLETGRTHQIRVHMA-YLQHPLLGDTAYG 254
>sp|Q8D8G1|RLUC_VIBVU Ribosomal large subunit pseudouridine synthase C OS=Vibrio
vulnificus (strain CMCP6) GN=rluC PE=3 SV=1
Length = 315
Score = 53.9 bits (128), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 37/102 (36%), Positives = 61/102 (59%), Gaps = 11/102 (10%)
Query: 36 KRILQRWYWALVVGTPRCSKGVISAPLGKVVVDNGKSDRITVVNNDQIMSAQHAVTRYQV 95
++ +Q++Y+ALV+G + S V++APL K V++ I VN + + + TR++V
Sbjct: 170 EKTVQKYYFALVMGEWKNSCKVVNAPLLKNEVNS-----IVRVNPN----GKPSETRFKV 220
Query: 96 IKPSCHGYTWLKLSPLTGRKHQLRVHCAEVLGTPIVGDYKYG 137
I+ T ++ SP+TGR HQ+RVH + G PI D +YG
Sbjct: 221 IEKFPQA-TLVQASPITGRTHQIRVHT-QYSGHPIAWDDRYG 260
>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 = 53.5 bits (127), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 39/104 (37%), Positives = 59/104 (56%), Gaps = 13/104 (12%)
Query: 35 EKRILQRWYWALVVGTPRCSKGVISAPLGKVVVDNGKSDRITVVNNDQIMSAQHAVTRYQ 94
+ R + R Y A+V+G S G I AP+G+ V K + VV+ ++ AV+ Y+
Sbjct: 162 QARSVSRIYEAIVIGVI-TSGGTIDAPIGRHGVQRQK---MAVVDAGKV-----AVSHYR 212
Query: 95 VI-KPSCHGYTWLKLSPLTGRKHQLRVHCAEVLGTPIVGDYKYG 137
V+ + H +T +KL TGR HQ+RVH + + G P+VGD YG
Sbjct: 213 VLERFRAHTHTRVKLE--TGRTHQIRVHMSHI-GYPLVGDPVYG 253
>sp|Q08C69|RUSD1_DANRE RNA pseudouridylate synthase domain-containing protein 1 OS=Danio
rerio GN=rpusd1 PE=2 SV=1
Length = 293
Score = 53.1 bits (126), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 40/130 (30%), Positives = 61/130 (46%), Gaps = 10/130 (7%)
Query: 14 CIAVSSGIITVERVMYKDNDNEKRILQRWYWALVVGTPRCSKGVISAPLGKVVVDNGKSD 73
C+A++ +KD R + + Y ALV GT + +GK + GK+
Sbjct: 75 CVALNKAAAGQAYRCFKD-----RRVTKAYLALVRGTVTEENLSLDFAIGKNTTE-GKTH 128
Query: 74 RITVVNNDQIMSAQHAVTRYQVIKPSCHG---YTWLKLSPLTGRKHQLRVHCAEVLGTPI 130
+ + + + T V++ + T + L PLTGR HQLRVHC+ +G PI
Sbjct: 129 MMCTEGTEGCENPKPCQTEVTVLEYGTYDGDQVTKVLLQPLTGRTHQLRVHCS-AIGHPI 187
Query: 131 VGDYKYGWQT 140
VGDY Y +T
Sbjct: 188 VGDYTYSLRT 197
>sp|Q8ZFU1|RLUC_YERPE Ribosomal large subunit pseudouridine synthase C OS=Yersinia pestis
GN=rluC PE=3 SV=1
Length = 320
Score = 52.8 bits (125), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 35/101 (34%), Positives = 58/101 (57%), Gaps = 8/101 (7%)
Query: 39 LQRWYWALVVGTPRCSKGVISAPLGKVVVDNGKSDRITVVNNDQIMSAQHAVTRYQVIKP 98
+Q+ Y ALV G + I APL K ++ +G +R+ V+++ + + TR+++ +
Sbjct: 172 MQKDYLALVRGQWQSHCKAIQAPLLKNIMQSG--ERVVKVSSE----GKPSETRFKIEER 225
Query: 99 SCHGYTWLKLSPLTGRKHQLRVHCAEVLGTPIVGDYKYGWQ 139
H T +K SP+TGR HQ+RVH G PI D +YG++
Sbjct: 226 FEHA-TLVKASPVTGRTHQIRVHALHA-GHPIAFDDRYGYR 264
>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 = 52.8 bits (125), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 51/184 (27%), Positives = 86/184 (46%), Gaps = 26/184 (14%)
Query: 2 LSSITASHVYEKCIAVSSGIITVERVMYKDNDN----EKRILQRWYWALVVGTPRCSKGV 57
LS + + + + ++G++ V + + D ++R ++R Y ALV+G GV
Sbjct: 151 LSQVPRAGIVHRLDKDTTGLLVVAKTIEAQFDLARQLQQRTVKRHYLALVLGKLE-KDGV 209
Query: 58 ISAPLGKVVVDNGKSDRITVVNNDQIMSAQHAVTRYQVIKPSCHGYTWLKLSPLTGRKHQ 117
+ AP+G+ + R+ VV N + A T Y+V++ T L S TGR HQ
Sbjct: 210 VDAPIGRHPI---HRTRMAVVQN-----GKPARTHYRVLE-KFTASTLLHCSLETGRTHQ 260
Query: 118 LRVHCAEVLGTPIVGDYKYGWQTHRKWKQFHPSDLSKDSNEEIPKEKTLHFGLDL---ES 174
+RVH + G P+ GD YG + P + D+ +P++ + L+L S
Sbjct: 261 IRVHLLSI-GHPLAGDPVYG--------RTSPDPSTADAVVRLPRQALHAWQLELTHPHS 311
Query: 175 GSIL 178
G IL
Sbjct: 312 GQIL 315
>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 = 52.8 bits (125), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 34/102 (33%), Positives = 60/102 (58%), Gaps = 11/102 (10%)
Query: 36 KRILQRWYWALVVGTPRCSKGVISAPLGKVVVDNGKSDRITVVNNDQIMSAQHAVTRYQV 95
++ +Q++Y+ALV+G V++APL K V++ I VN + + + TR+++
Sbjct: 171 EKTVQKYYYALVMGHWDAECKVVNAPLLKNEVNS-----IVRVNPN----GKPSETRFRI 221
Query: 96 IKPSCHGYTWLKLSPLTGRKHQLRVHCAEVLGTPIVGDYKYG 137
++ T ++ SP+TGR HQ+RVH + +G PI D +YG
Sbjct: 222 LEKFAEA-TLVQASPVTGRTHQIRVHT-QYMGHPIAWDDRYG 261
>sp|P59835|RLUC_HAEDU Ribosomal large subunit pseudouridine synthase C OS=Haemophilus
ducreyi (strain 35000HP / ATCC 700724) GN=rluC PE=3 SV=1
Length = 320
Score = 52.4 bits (124), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 38/105 (36%), Positives = 57/105 (54%), Gaps = 8/105 (7%)
Query: 36 KRILQRWYWALVVGTPRCSKGVISAPLGKVVVDNGKSDRITVVNNDQIMSAQHAVTRYQV 95
++++Q+ Y ALV G + VI APL K + +G +RI V+ + + TR+
Sbjct: 172 EKVVQKDYLALVRGQWQAHINVIKAPLLKNELQSG--ERIVKVSE----QGKPSETRFS- 224
Query: 96 IKPSCHGYTWLKLSPLTGRKHQLRVHCAEVLGTPIVGDYKYGWQT 140
I+ T +K SP+TGR HQ+RVH + G PI D +YG Q
Sbjct: 225 IEERYPNATLIKASPITGRTHQIRVHT-QYAGHPIACDDRYGDQA 268
>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 = 52.0 bits (123), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 34/102 (33%), Positives = 61/102 (59%), Gaps = 11/102 (10%)
Query: 36 KRILQRWYWALVVGTPRCSKGVISAPLGKVVVDNGKSDRITVVNNDQIMSAQHAVTRYQV 95
++ ++++Y+ALV+G + S V++APL K V++ I VN + + + TR+++
Sbjct: 170 EKTVKKFYFALVMGQWKSSCKVVNAPLLKNEVNS-----IVRVNPN----GKPSETRFKI 220
Query: 96 IKPSCHGYTWLKLSPLTGRKHQLRVHCAEVLGTPIVGDYKYG 137
++ T ++ SP+TGR HQ+RVH + G PI D +YG
Sbjct: 221 LE-KFEQATLIQASPITGRTHQIRVHT-QYTGHPIAWDDRYG 260
>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 = 51.6 bits (122), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 45/147 (30%), Positives = 70/147 (47%), Gaps = 21/147 (14%)
Query: 36 KRILQRWYWALVVGTPRCSKGVISAPLGKVVVDNGKSDRITVVNNDQIMSAQHAVTRYQV 95
++I+ + Y ALV G K + APL K + +G +R+ VN + + A+T ++V
Sbjct: 172 EKIVDKRYHALVRGHWPAGKKNVRAPLLKNNLRSG--ERMVEVN----VEGKDALTEFRV 225
Query: 96 IKPSCHGYTWLKLSPLTGRKHQLRVHCAEVLGTPIVGDYKYGWQTHRKWKQFHPSDLSKD 155
++ T ++ P+TGR HQ+RVH G I GD KYG + D S++
Sbjct: 226 LRRFGDFATLVEARPITGRTHQIRVHAKHA-GHAIAGDPKYGDE-----------DFSRE 273
Query: 156 SNEEIPKEKTLHFG---LDLESGSILE 179
E K LH + L G +LE
Sbjct: 274 IRELGGKRLFLHAAQLRVPLPDGQVLE 300
>sp|Q9UJJ7|RUSD1_HUMAN RNA pseudouridylate synthase domain-containing protein 1 OS=Homo
sapiens GN=RPUSD1 PE=2 SV=1
Length = 312
Score = 51.2 bits (121), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 40/140 (28%), Positives = 71/140 (50%), Gaps = 16/140 (11%)
Query: 14 CIAVSSGIITVERVMYKDNDNEKRILQRWYWALVVGTPRCSKGVISAPLGKVVVDNGKSD 73
C+A++ +K+ R + + Y AL+ G + S+ IS +G+ + G++
Sbjct: 75 CVALNKAAAGSAYRCFKE-----RRVTKAYLALLRGHIQESRVTISHAIGRNSTE-GRAH 128
Query: 74 RITVVNNDQIMSAQHAVTRYQVIKPSCHGY------TWLKLSPLTGRKHQLRVHCAEVLG 127
+ + + + + ++T V++ HG + + L PLTGR HQLRVHC+ LG
Sbjct: 129 TMCIEGSQGCENPKPSLTDLVVLE---HGLYAGDPVSKVLLKPLTGRTHQLRVHCS-ALG 184
Query: 128 TPIVGDYKYGWQTHRKWKQF 147
P+VGD YG + R+ + F
Sbjct: 185 HPVVGDLTYGEVSGREDRPF 204
>sp|Q5Z8P2|PUS2_ORYSJ RNA pseudourine synthase 2, chloroplastic OS=Oryza sativa subsp.
japonica GN=Os06g0717400 PE=2 SV=1
Length = 445
Score = 51.2 bits (121), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 36/119 (30%), Positives = 54/119 (45%), Gaps = 9/119 (7%)
Query: 39 LQRWYWALVVGTPRCSKGVISAPLGKVVVDNGKSDRITVVNNDQIMSAQHAVTRYQVIKP 98
++R Y +L G P + G I P+ + D R+ A+HA +RY+V +
Sbjct: 263 IRRVYISLTCGAPNPNSGRIEVPIAR---DPNNRIRMIATPGSGHRYARHAASRYKVREV 319
Query: 99 SCHGYTWL---KLSPLTGRKHQLRVHCAEVLGTPIVGDYKYGWQTHRKWKQFHPSDLSK 154
G + L +L TGR HQ+R H A+ LG P++GD YG P S+
Sbjct: 320 FAGGGSALVEWRLE--TGRTHQIRAH-AKYLGIPLLGDETYGGTKSMALSLLRPRTPSR 375
>sp|Q8VCZ8|RUSD1_MOUSE RNA pseudouridylate synthase domain-containing protein 1 OS=Mus
musculus GN=Rpusd1 PE=2 SV=1
Length = 306
Score = 50.8 bits (120), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 40/140 (28%), Positives = 69/140 (49%), Gaps = 16/140 (11%)
Query: 14 CIAVSSGIITVERVMYKDNDNEKRILQRWYWALVVGTPRCSKGVISAPLGKVVVDNGKSD 73
C+A++ +K+ R + + Y ALV G + S+ I+ +G+ + G++
Sbjct: 75 CVALNKAAAGSAYKCFKE-----RRVTKAYLALVRGHVQESQVTINYAIGRNSTE-GRTH 128
Query: 74 RITVVNNDQIMSAQHAVTRYQVIKPSCHGY------TWLKLSPLTGRKHQLRVHCAEVLG 127
+ + + + ++T V++ HG + + L PLTGR HQLRVHC+ LG
Sbjct: 129 TMCIEGTHGCENPKPSLTELLVLE---HGLYAGDPVSKVLLKPLTGRTHQLRVHCS-ALG 184
Query: 128 TPIVGDYKYGWQTHRKWKQF 147
PIVGD YG ++ + F
Sbjct: 185 HPIVGDLTYGQAEDQEDQPF 204
>sp|Q45480|YLYB_BACSU Uncharacterized RNA pseudouridine synthase YlyB OS=Bacillus
subtilis (strain 168) GN=ylyB PE=3 SV=3
Length = 303
Score = 50.1 bits (118), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 35/103 (33%), Positives = 54/103 (52%), Gaps = 14/103 (13%)
Query: 37 RILQRWYWALVVGTPRCSKGVISAPLGKVVVDNGKSDR--ITVVNNDQIMSAQHAVTRYQ 94
+ + R Y A+V G G I AP+G+ K DR +TV + ++AVT +
Sbjct: 164 KTVTRKYTAVVHGLISHDDGTIDAPIGR-----DKKDRQSMTVTRD-----GKNAVTHFH 213
Query: 95 VIKPSCHGYTWLKLSPLTGRKHQLRVHCAEVLGTPIVGDYKYG 137
V++ +T ++ TGR HQ+RVH + +G P+ GD KYG
Sbjct: 214 VLE-RFQDFTLVECQLETGRTHQIRVHM-KYIGFPLAGDPKYG 254
>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 = 50.1 bits (118), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 44/146 (30%), Positives = 72/146 (49%), Gaps = 19/146 (13%)
Query: 37 RILQRWYWALVVGTPRCSKGVISAPLGKVVVDNGKSDRITVVNNDQIMSAQHAVTRYQVI 96
R+++R+Y ALV G ISAPL +V G + + V N A++A T++ V+
Sbjct: 157 RVMKRYYLALVHFPLDSLSGTISAPLERV----GNNKVMWKVGNSS-NKAKNAFTKFTVL 211
Query: 97 KPSCHGYTWLKLSPLTGRKHQLRVHCAEVLGTPIVGDYKYGWQTHR--KWKQF------- 147
+ +K LTGR HQ+RVH + + P+ D YG ++ + ++ Q+
Sbjct: 212 NQNEKA-ALIKCELLTGRTHQIRVHL-QFIKHPVYNDPLYGLKSEQATEYGQYLHAQQIS 269
Query: 148 --HPSDLSKDSNEEIPKEKTLHFGLD 171
HP+ L+K+ E +KT LD
Sbjct: 270 FIHPT-LNKEMGFEAQLDKTFSDKLD 294
>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 = 49.3 bits (116), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 35/107 (32%), Positives = 55/107 (51%), Gaps = 10/107 (9%)
Query: 35 EKRILQRWYWALVVGTPRCSKGVISAPLGKVVVDNGKSDRITVVNNDQIMSAQHAVTRYQ 94
++R +++Y LV G + G I P+ + VD R V + A+T Y
Sbjct: 164 QERKTEKFYKVLVKGLVKKDYGAIDTPIARHPVDR---KRFWVRKE-----GKEALTEYW 215
Query: 95 VIKP-SCHGYTWLKLSPLTGRKHQLRVHCAEVLGTPIVGDYKYGWQT 140
V+K + T LK+ TGR HQ+RVH A + G P++GD YG+++
Sbjct: 216 VLKRYEKYEITLLKVKIHTGRTHQIRVHFASI-GHPVLGDRTYGFKS 261
>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 = 48.9 bits (115), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 45/152 (29%), Positives = 63/152 (41%), Gaps = 29/152 (19%)
Query: 14 CIAVSSGIITVERVMYKDNDNEKRILQRWYWALVVGTPRCSKGVISAPLGKVVVDNGKSD 73
+A+S TV + +K +KR Y ALV G P S G I AP+G+ G
Sbjct: 147 VVAISERAYTVLKRAFKYRTVDKR-----YHALVQGHPDPSSGTIDAPIGR---HRGHEW 198
Query: 74 RITVVNNDQIMSAQHAVTRYQVIKPSCHGYTWLKLSPLTGRKHQLRVHCAEVLGTPIVGD 133
+ + N +H++T Y ++ + L + TGR HQ+RVH A L P GD
Sbjct: 199 KFAITKN-----GRHSLTHYDTLEAFV-AASLLDVHLETGRTHQIRVHFA-ALHHPCCGD 251
Query: 134 YKYG--------------WQTHRKWKQFHPSD 151
YG W R HP+D
Sbjct: 252 LVYGADPKLAKRLGLDRQWLHARSLAFAHPAD 283
>sp|P0A5T2|Y1540_MYCTU Uncharacterized RNA pseudouridine synthase Rv1540/MT1592
OS=Mycobacterium tuberculosis GN=Rv1540 PE=3 SV=1
Length = 308
Score = 48.9 bits (115), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 45/152 (29%), Positives = 63/152 (41%), Gaps = 29/152 (19%)
Query: 14 CIAVSSGIITVERVMYKDNDNEKRILQRWYWALVVGTPRCSKGVISAPLGKVVVDNGKSD 73
+A+S TV + +K +KR Y ALV G P S G I AP+G+ G
Sbjct: 147 VVAISERAYTVLKRAFKYRTVDKR-----YHALVQGHPDPSSGTIDAPIGR---HRGHEW 198
Query: 74 RITVVNNDQIMSAQHAVTRYQVIKPSCHGYTWLKLSPLTGRKHQLRVHCAEVLGTPIVGD 133
+ + N +H++T Y ++ + L + TGR HQ+RVH A L P GD
Sbjct: 199 KFAITKN-----GRHSLTHYDTLEAFV-AASLLDVHLETGRTHQIRVHFA-ALHHPCCGD 251
Query: 134 YKYG--------------WQTHRKWKQFHPSD 151
YG W R HP+D
Sbjct: 252 LVYGADPKLAKRLGLDRQWLHARSLAFAHPAD 283
>sp|P0AA38|RLUA_SHIFL Ribosomal large subunit pseudouridine synthase A OS=Shigella
flexneri GN=rluA PE=3 SV=2
Length = 219
Score = 48.9 bits (115), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 39/134 (29%), Positives = 59/134 (44%), Gaps = 30/134 (22%)
Query: 17 VSSGIITVERVMYKDNDNEKRILQR----WYWALVVGTPRCSKGVISAPL---------G 63
+SG+I V + + +++ +R Y A V G P ++G++ PL
Sbjct: 66 ATSGVIVVALTKAAERELKRQFREREPKKQYVARVWGHPSPAEGLVDLPLICDWPNRPKQ 125
Query: 64 KVVVDNGKSDRITVVNNDQIMSAQHAVTRYQVIKPSCHGYTWLKLSPLTGRKHQLRVHCA 123
KV + GK A T Y+V++ + + L P+TGR HQLRVH
Sbjct: 126 KVCYETGKP----------------AQTEYEVVEYAADNTARVVLKPITGRSHQLRVHML 169
Query: 124 EVLGTPIVGDYKYG 137
LG PI+GD Y
Sbjct: 170 -ALGHPILGDRFYA 182
>sp|P0AA37|RLUA_ECOLI Ribosomal large subunit pseudouridine synthase A OS=Escherichia
coli (strain K12) GN=rluA PE=1 SV=2
Length = 219
Score = 48.9 bits (115), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 39/134 (29%), Positives = 59/134 (44%), Gaps = 30/134 (22%)
Query: 17 VSSGIITVERVMYKDNDNEKRILQR----WYWALVVGTPRCSKGVISAPL---------G 63
+SG+I V + + +++ +R Y A V G P ++G++ PL
Sbjct: 66 ATSGVIVVALTKAAERELKRQFREREPKKQYVARVWGHPSPAEGLVDLPLICDWPNRPKQ 125
Query: 64 KVVVDNGKSDRITVVNNDQIMSAQHAVTRYQVIKPSCHGYTWLKLSPLTGRKHQLRVHCA 123
KV + GK A T Y+V++ + + L P+TGR HQLRVH
Sbjct: 126 KVCYETGKP----------------AQTEYEVVEYAADNTARVVLKPITGRSHQLRVHML 169
Query: 124 EVLGTPIVGDYKYG 137
LG PI+GD Y
Sbjct: 170 -ALGHPILGDRFYA 182
>sp|P44782|RLUA_HAEIN Ribosomal large subunit pseudouridine synthase A OS=Haemophilus
influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd)
GN=rluA PE=3 SV=1
Length = 219
Score = 48.9 bits (115), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 39/126 (30%), Positives = 62/126 (49%), Gaps = 16/126 (12%)
Query: 17 VSSGIITVERVMYKDNDNEKRILQR----WYWALVVGTPRCSKGVISAPLGKVVVD--NG 70
+SGII D + +++ +R Y A+V G G ++ P+ + D N
Sbjct: 66 ATSGIIVFALSKAADRELKRQFREREPKKHYQAIVWGHLENDYGEVNLPM---ICDWENR 122
Query: 71 KSDRITVVNNDQIMSAQHAVTRYQVIKPSCHGYTWLKLSPLTGRKHQLRVHCAEVLGTPI 130
R+ V + AVT+++V+ + T +KL+P+TGR HQLR+H LG PI
Sbjct: 123 PRQRLDFV------LGKRAVTKFEVLARLPNNSTRVKLTPVTGRSHQLRLHML-ALGHPI 175
Query: 131 VGDYKY 136
+GD Y
Sbjct: 176 LGDKFY 181
>sp|Q8FL93|RLUA_ECOL6 Ribosomal large subunit pseudouridine synthase A OS=Escherichia
coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) GN=rluA
PE=3 SV=3
Length = 219
Score = 48.9 bits (115), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 39/134 (29%), Positives = 59/134 (44%), Gaps = 30/134 (22%)
Query: 17 VSSGIITVERVMYKDNDNEKRILQR----WYWALVVGTPRCSKGVISAPL---------G 63
+SG+I V + + +++ +R Y A V G P ++G++ PL
Sbjct: 66 ATSGVIVVALTKAAERELKRQFREREPKKQYVARVWGHPSPAEGLVDLPLICDWPNRPKQ 125
Query: 64 KVVVDNGKSDRITVVNNDQIMSAQHAVTRYQVIKPSCHGYTWLKLSPLTGRKHQLRVHCA 123
KV + GK A T Y+V++ + + L P+TGR HQLRVH
Sbjct: 126 KVCYETGKP----------------AQTEYEVVEYAADNTARVVLKPITGRSHQLRVHML 169
Query: 124 EVLGTPIVGDYKYG 137
LG PI+GD Y
Sbjct: 170 -ALGHPILGDRFYA 182
>sp|Q8Z7J7|RLUC_SALTI Ribosomal large subunit pseudouridine synthase C OS=Salmonella
typhi GN=rluC PE=3 SV=1
Length = 319
Score = 48.5 bits (114), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 34/99 (34%), Positives = 55/99 (55%), Gaps = 8/99 (8%)
Query: 39 LQRWYWALVVGTPRCSKGVISAPLGKVVVDNGKSDRITVVNNDQIMSAQHAVTRYQVIKP 98
+Q+ Y ALV G + + APL K ++ +G +RI V+ + + + TR++V +
Sbjct: 172 MQKDYLALVRGQWQSHVKTVQAPLLKNILQSG--ERIVRVSQE----GKPSETRFKVEER 225
Query: 99 SCHGYTWLKLSPLTGRKHQLRVHCAEVLGTPIVGDYKYG 137
T ++ SP+TGR HQ+RVH + G PI D +YG
Sbjct: 226 YAFA-TLVRCSPVTGRTHQIRVHT-QYAGHPIAFDDRYG 262
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
0.318 0.132 0.406
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 91,368,543
Number of Sequences: 539616
Number of extensions: 3823663
Number of successful extensions: 7800
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 45
Number of HSP's successfully gapped in prelim test: 98
Number of HSP's that attempted gapping in prelim test: 7699
Number of HSP's gapped (non-prelim): 146
length of query: 236
length of database: 191,569,459
effective HSP length: 114
effective length of query: 122
effective length of database: 130,053,235
effective search space: 15866494670
effective search space used: 15866494670
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 59 (27.3 bits)