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= 037167
(353 letters)
Database: swissprot
539,616 sequences; 191,569,459 total letters
Searching..................................................done
>sp|Q5M721|PUS5_ARATH RNA pseudourine synthase 5 OS=Arabidopsis thaliana GN=At3g52260
PE=2 SV=2
Length = 369
Score = 474 bits (1221), Expect = e-133, Method: Compositional matrix adjust.
Identities = 235/335 (70%), Positives = 277/335 (82%), Gaps = 5/335 (1%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV 61
T+ EFY TK+K+SAPL GW+QRIQNGQI +DG VV DPN +L +GS+LVY RLPWKEPD
Sbjct: 34 TVSEFYFTKYKSSAPLLGWIQRIQNGQIQIDGEVVKDPNTLLRSGSKLVYSRLPWKEPDT 93
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQAS-HPVP 120
PY LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVL QLQW K S + S+ S HPVP
Sbjct: 94 PYSLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLTQLQWCFGKNDSYIGSRESPHPVP 153
Query: 121 VHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMEL-SQRKITKIYRALVHG 179
VHRLGRGTSGILLCAKTKLAKT +A YFA+ TS++ + + E + RK++KIYRAL G
Sbjct: 154 VHRLGRGTSGILLCAKTKLAKTKLAAYFAEGTSLVGSGNLDQECGTGRKLSKIYRALADG 213
Query: 180 IVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSG 239
IV+ED+V+IKQPIG+VRYPGVA+GLYVASP GKPA SKV VLERD ++NC+LV+VEIQSG
Sbjct: 214 IVEEDEVVIKQPIGVVRYPGVAQGLYVASPEGKPAFSKVFVLERDREKNCSLVKVEIQSG 273
Query: 240 RPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFAD--GTFAQDGGYERPVNPVPGDCG 297
RPHQIRIHLA++GHPL+GDPLYVAGGQPK FD + D FA+DGGY RP VPGDCG
Sbjct: 274 RPHQIRIHLAYMGHPLVGDPLYVAGGQPKCFDPDLVDDAAAFAEDGGYRRPNQAVPGDCG 333
Query: 298 YYLHAYQLFLSH-PTTNEVIKITAPLPSVLKTREE 331
Y+LHA+Q+ L + T++V+KI APLP +L+TR E
Sbjct: 334 YHLHAHQVELPNLLNTHKVVKIVAPLPPILQTRCE 368
>sp|Q0DST9|PUS5_ORYSJ RNA pseudourine synthase 5 OS=Oryza sativa subsp. japonica
GN=Os03g0288500 PE=2 SV=2
Length = 397
Score = 449 bits (1156), Expect = e-125, Method: Compositional matrix adjust.
Identities = 229/348 (65%), Positives = 274/348 (78%), Gaps = 11/348 (3%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV 61
TLIEFYST +K+SAPL GW++RI++GQITVDG V DP++IL GS+LVYHRLPW+EP
Sbjct: 51 TLIEFYSTSYKSSAPLPGWIKRIRDGQITVDGEVATDPDMILREGSKLVYHRLPWQEPFA 110
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQ----ASH 117
P+LL+VLYEDDD+IALNKPSGLQVLP GLFQQRTVL QLQ + K SS S+ SH
Sbjct: 111 PHLLDVLYEDDDMIALNKPSGLQVLPKGLFQQRTVLAQLQLKDWKMPSSFCSKRKDAQSH 170
Query: 118 PVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQ-RKITKIYRAL 176
PVPVHRLGRGTSG+LLCAKTKLAK +A YFA+ + ++ + RKI+K YRAL
Sbjct: 171 PVPVHRLGRGTSGLLLCAKTKLAKAQLAAYFAEGATNAGKSRDETDICKARKISKFYRAL 230
Query: 177 VHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEI 236
V GI++ D+V+I QPIG+VRYPGVA+GLY A SGKPA+SKV VLER N TL+QVEI
Sbjct: 231 VTGILENDEVMITQPIGLVRYPGVAEGLYAACSSGKPAMSKVRVLERLKIHNHTLIQVEI 290
Query: 237 QSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFD----SEFADGTFAQDGGYERPVNPV 292
SGRPHQIRIHLA++GHPL+ DPLY GGQPK FD + AD +FA DGGYERP+ PV
Sbjct: 291 HSGRPHQIRIHLAYIGHPLVDDPLYGIGGQPK-FDEPEPTSTAD-SFAYDGGYERPLQPV 348
Query: 293 PGDCGYYLHAYQLFLSHPTTNEVIKITAPLPSVLKTREEGREVDKSVG 340
PGDCGY+LHA+ L L HPTTNE+IKITAPLP +L+TREE ++ K +G
Sbjct: 349 PGDCGYHLHAHWLVLCHPTTNEMIKITAPLPHILQTREEQQDTAKLLG 396
>sp|P72970|Y1592_SYNY3 Uncharacterized RNA pseudouridine synthase slr1592 OS=Synechocystis
sp. (strain PCC 6803 / Kazusa) GN=slr1592 PE=3 SV=1
Length = 291
Score = 205 bits (522), Expect = 4e-52, Method: Compositional matrix adjust.
Identities = 134/328 (40%), Positives = 179/328 (54%), Gaps = 48/328 (14%)
Query: 3 LIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVP 62
+++FYS ++ +S Q W +RI+ GQI VDG+ V DP L AG L Y R PW EP+VP
Sbjct: 1 MLDFYSQRYLHSE-RQAWQERIEQGQIEVDGKTV-DPTYPLQAGQTLTYWRSPWVEPEVP 58
Query: 63 YLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVH 122
L VL+ D+DL A++KPSGL VLPGG F TVL QL+ + ++S P+H
Sbjct: 59 LQLSVLHRDEDLWAIDKPSGLPVLPGGDFVYHTVLEQLKIQYPQESL---------FPLH 109
Query: 123 RLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVD 182
RLG GTSG+LL ++ L + ++ F + KIYR ++
Sbjct: 110 RLGTGTSGLLLLGRSTLGRRELSRQFREHIC----------------RKIYRTVIGPCDL 153
Query: 183 EDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPH 242
+K Q IG + YP + +Y AS GKPA S +L R ++ T ++VEI++GRPH
Sbjct: 154 PEKFECHQAIGKIPYPQLGY-IYAASSHGKPAQSYGRILARSPEK--TWLEVEIRTGRPH 210
Query: 243 QIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHA 302
QIRIHLA LG+PLLGD LY GG P + + P D GY LH+
Sbjct: 211 QIRIHLASLGYPLLGDRLYGPGGVPINCRTA------------------RPSDGGYTLHS 252
Query: 303 YQLFLSHPTTNEVIKITAPLPSVLKTRE 330
YQL H T + IK+TAPLP L T E
Sbjct: 253 YQLGFLHLHTQQAIKLTAPLPPELITPE 280
>sp|Q8DEV0|RLUD_VIBVU Ribosomal large subunit pseudouridine synthase D OS=Vibrio
vulnificus (strain CMCP6) GN=rluD PE=3 SV=1
Length = 325
Score = 125 bits (315), Expect = 4e-28, Method: Compositional matrix adjust.
Identities = 99/313 (31%), Positives = 152/313 (48%), Gaps = 50/313 (15%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPWKEPDVPYLLEVLYED 71
L+ WL +G++TVDG VV P + G + + + W+ D+P L+++YED
Sbjct: 36 LKEWLL---DGKVTVDGNVVTKPRTKVMGGEVITVLAELEDEVRWEAQDIP--LDIVYED 90
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DD++ +NKP V PG TVLN L + + ++ VHRL + T+G+
Sbjct: 91 DDILVINKPRDFVVHPGAGTPDGTVLNALLFHCPE-----VAEVPRAGIVHRLDKDTTGL 145
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AKT A+T + V L +R IT+ Y A+ G + + K P
Sbjct: 146 MVVAKTVPAQTRL----------------VRALQKRNITREYEAIAIGRMTAGGKVDK-P 188
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R+ + L SP GKPA++ V E R T +++ +++GR HQIR+H+++L
Sbjct: 189 IG--RH-ATKRTLMAVSPMGKPAVTHFRVAEH--FREHTRIRLRLETGRTHQIRVHMSYL 243
Query: 252 GHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPT 311
HPLLGD Y GG+ + D T A ++R LHA L HP
Sbjct: 244 QHPLLGDAAY--GGRARIPAGASEDVT-AMIRNFDRQA----------LHAVMLRFEHPI 290
Query: 312 TNEVIKITAPLPS 324
T E ++ AP+P
Sbjct: 291 TGEEMEFHAPVPD 303
>sp|Q9CKA6|RLUD_PASMU Ribosomal large subunit pseudouridine synthase D OS=Pasteurella
multocida (strain Pm70) GN=rluD PE=3 SV=1
Length = 324
Score = 123 bits (308), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 100/317 (31%), Positives = 157/317 (49%), Gaps = 58/317 (18%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPWKEPDVPYLLEVLYED 71
L+ W I+ + V+G VVN P + G ++ + ++ ++P L ++YED
Sbjct: 35 LKTW---IEQNLVHVNGDVVNVPRAKVYGGEQIEIVVEIDDDTRFEPENLP--LNIVYED 89
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP----VHRLGRG 127
DD++ +NKP V PG TVLN L + A VP VHRL +
Sbjct: 90 DDILVINKPKDFVVHPGAGNASGTVLNALLYHYP---------AIAEVPRAGIVHRLDKD 140
Query: 128 TSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVI 187
T+G+++ AKT A+T + V +L +RKIT+ Y A+ GI+ + +
Sbjct: 141 TTGLMVIAKTIPAQTKL----------------VRDLQKRKITREYEAIACGIMTKGG-M 183
Query: 188 IKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIH 247
+ QP+ R+P + V P GKPA++ ++ER RN T +++ +++GR HQIR+H
Sbjct: 184 VDQPMA--RHPTKRTHMAV-HPMGKPAVTHYRIMER--FRNYTRLRLRLETGRTHQIRVH 238
Query: 248 LAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFL 307
+A + HPLLGD Y +P SE T ++R LHA L L
Sbjct: 239 MAHIAHPLLGDQTYGGRPRPPKNASEELMQTLRD---FKRQA----------LHAIMLRL 285
Query: 308 SHPTTNEVIKITAPLPS 324
+HP T E+++ APLP+
Sbjct: 286 AHPITGELMEWHAPLPT 302
>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 = 122 bits (306), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 99/316 (31%), Positives = 148/316 (46%), Gaps = 56/316 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
L+ WL +G++ V+G VV P + G E+ W+ D+P L+++YED
Sbjct: 36 LKEWLL---DGKVQVNGEVVTKPRTKVMGGEEITLQAELEDEERWEAQDIP--LDIVYED 90
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DD+I +NKP V PG TVLN L ++ VHRL + T+G+
Sbjct: 91 DDIIVINKPRDFVVHPGAGTPDGTVLNALLHHYPD-----IAEVPRAGIVHRLDKDTTGL 145
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AKT A+T + V L +R IT+ Y A+ G + + QP
Sbjct: 146 MVVAKTVPAQTRL----------------VRALQKRNITREYEAIAIGRMTAGGKV-DQP 188
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R+ + L +P GKPA++ V E R T +++ +++GR HQIR+H+++L
Sbjct: 189 IG--RH-STKRTLMAVAPLGKPAVTHYRVAEH--FREHTRIRLRLETGRTHQIRVHMSYL 243
Query: 252 GHPLLGDPLYVAGGQ---PKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLS 308
HPLLGD Y GG+ P E D G++R LHA L
Sbjct: 244 QHPLLGDTAY--GGRARIPTGASQELTDMI----RGFDRQA----------LHAVMLRFE 287
Query: 309 HPTTNEVIKITAPLPS 324
HP T E ++ AP+P
Sbjct: 288 HPITGEELEFHAPVPD 303
>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 = 122 bits (306), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 95/311 (30%), Positives = 144/311 (46%), Gaps = 48/311 (15%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYEDDDLIAL 77
++ G + V+G V P+ L G ++ H +P EP ++P + ++YED+D+ +
Sbjct: 38 VKEGLVYVNGEEVRKPSRKLREGERVILH-VPEPEPLDVKPENIP--INIIYEDEDIAVV 94
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
KP GL V P + T++N L + SS P VHRL + T+G+++ AK
Sbjct: 95 EKPCGLVVHPSPGYTSGTLVNALLYHIKDLSSI--GGVERPGIVHRLDKETAGVMVIAKN 152
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
A + V + +RK K Y+ LV G+V +D I PI R+
Sbjct: 153 NTAHRNL----------------VRQFQERKTEKFYKVLVKGLVKKDYGAIDTPIA--RH 194
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
P K +V GK AL++ VL+R + TL++V+I +GR HQIR+H A +GHP+LG
Sbjct: 195 PVDRKRFWVRK-EGKEALTEYWVLKRYEKYEITLLKVKIHTGRTHQIRVHFASIGHPVLG 253
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
D Y G + S E + G+C L AY L HPT E +
Sbjct: 254 DRTY--GFKSSSVPKELLS---------------LMGECN-MLIAYHLGFYHPTKGEWMV 295
Query: 318 ITAPLPSVLKT 328
P K+
Sbjct: 296 FEIEEPETFKS 306
>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 = 122 bits (305), Expect = 6e-27, Method: Compositional matrix adjust.
Identities = 104/317 (32%), Positives = 161/317 (50%), Gaps = 59/317 (18%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
L GW I++G++TVDG V+ P I+ +G++LV + W D+ LE++YED
Sbjct: 36 LAGW---IKDGRLTVDGAVLR-PRDIVHSGAQLVLEAEQEAQGEWLAQDIE--LEIVYED 89
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP----VHRLGRG 127
+ ++ ++KP+GL V P Q T+LN L + ++ VP VHRL +
Sbjct: 90 EHILVIDKPAGLVVHPAAGHQDGTLLNALLYHVPDIAN---------VPRAGIVHRLDKD 140
Query: 128 TSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVI 187
T+G+++ AKT A T + V +L R +++IY A+V G++ I
Sbjct: 141 TTGLMVVAKTLEAHTKL----------------VAQLQARSVSRIYEAIVIGVITSGGTI 184
Query: 188 IKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIH 247
PIG R+ GV + +GK A+S VLER R T +V++++GR HQIR+H
Sbjct: 185 -DAPIG--RH-GVQRQKMAVVDAGKVAVSHYRVLERF--RAHTHTRVKLETGRTHQIRVH 238
Query: 248 LAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFL 307
++ +G+PL+GDP+Y GG+ + A T Q + P LHA L L
Sbjct: 239 MSHIGYPLVGDPVY--GGRFRI--PPVASQTLVQ------TLREFPRQA---LHARFLEL 285
Query: 308 SHPTTNEVIKITAPLPS 324
HP T +K +PLP
Sbjct: 286 DHPATGVRMKWESPLPE 302
>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 = 121 bits (304), Expect = 8e-27, Method: Compositional matrix adjust.
Identities = 101/316 (31%), Positives = 151/316 (47%), Gaps = 56/316 (17%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYH-----RLPWKEPDVPYLLEVLYED 71
L+ WL G+I V+G V+ P + G + W+ D+P L ++YED
Sbjct: 36 LKEWLL---EGKIAVNGDVITKPRTKVMGGEVITVQAELEDEQRWEAQDLP--LNIVYED 90
Query: 72 DDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGI 131
DD+I +NKP V PG +TVLN L + S ++ VHRL + T+G+
Sbjct: 91 DDIIVINKPRDFVVHPGAGQADKTVLNALLFHYSP-----IAEVPRAGIVHRLDKDTTGL 145
Query: 132 LLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQP 191
++ AKT A+T + V L +R +T+ Y A+V G + +I K P
Sbjct: 146 MVVAKTVPAQTRL----------------VRALQKRDVTREYEAIVIGTMTAGGMIDK-P 188
Query: 192 IGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFL 251
IG R+ + L SP GK A++ V E R T +++ +++GR HQIR+H+A+L
Sbjct: 189 IG--RH-STKRTLMSVSPMGKHAVTHYRVAEH--FREHTRLRLRLETGRTHQIRVHMAYL 243
Query: 252 GHPLLGDPLYVAGGQ---PKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLS 308
HPLLGD Y GG+ PK E + +D ++R LHA L
Sbjct: 244 QHPLLGDTAY--GGRARIPKGATEELTE--MIRD--FDRQA----------LHAVMLKFE 287
Query: 309 HPTTNEVIKITAPLPS 324
HP T E ++ AP+P
Sbjct: 288 HPVTGEELEFHAPVPD 303
>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 = 120 bits (300), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 99/333 (29%), Positives = 159/333 (47%), Gaps = 62/333 (18%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPW 56
TL E + ++ L+ W I+ + ++ R+ N P + G + V +
Sbjct: 22 TLAELFPEYSRSR--LKTW---IEADLVKLNDRITNIPREKVLGGERIEIIVEVEDETRF 76
Query: 57 KEPDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQAS 116
+ ++P L ++YEDDD+I +NKP L V PG TVLN L + +
Sbjct: 77 EAENIP--LNIVYEDDDIIVINKPKDLVVHPGAGNPNGTVLNALLYHYPPIVEVPRAGI- 133
Query: 117 HPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRAL 176
VHRL + T+G+++ AKT A+T + V +L +RKIT+ Y A+
Sbjct: 134 ----VHRLDKDTTGLMVVAKTIPAQTKL----------------VRDLQKRKITREYEAV 173
Query: 177 VHGIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEI 236
GI+ + + QP+ R+ + L P GKPA++ ++E RN T +++ +
Sbjct: 174 ASGIMTKGGTV-DQPMA--RH-ATKRTLMAVHPMGKPAVTHYRIMEN--YRNYTRLRLRL 227
Query: 237 QSGRPHQIRIHLAFLGHPLLGDPLYVAGGQ---PKSFDSEFAD--GTFAQDGGYERPVNP 291
++GR HQIR+H+A + HPLLGD Y GG+ PK+ +F + F +
Sbjct: 228 ETGRTHQIRVHMAHIAHPLLGDQTY--GGRPRPPKNASEDFMEVLRNFKRQA-------- 277
Query: 292 VPGDCGYYLHAYQLFLSHPTTNEVIKITAPLPS 324
LHA L L+HP T E+++ APLP
Sbjct: 278 --------LHAVMLRLAHPITGEMMEWYAPLPD 302
>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 = 120 bits (300), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 96/309 (31%), Positives = 151/309 (48%), Gaps = 57/309 (18%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP------DVPYLLEVLYEDDDLIAL 77
I++GQ+ +G V D N+IL G LV + +P P ++P L++LYED+ LI +
Sbjct: 54 IESGQVQRNGLVCQDKNLILKTGDRLVVN-IPELIPLDVVAQNIP--LDILYEDEQLIII 110
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NKP+GL V PG TV+N L + Q P VHRL + T+G ++ AKT
Sbjct: 111 NKPAGLVVHPGPGHPDGTVVNALLAHCPDLAGIGGVQ--RPGIVHRLDKDTTGAMVVAKT 168
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
+LA + +KT+ ++Y +V+G E + + P+G R+
Sbjct: 169 ELALHNLQVQLKEKTA----------------RRLYWGIVYGSPKEIQGTVNLPVG--RH 210
Query: 198 PGVAK--GLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
PG + G+ G+ A++ +LER N + ++ ++++GR HQIR+H +GHPL
Sbjct: 211 PGDRQKMGIVPVEKGGREAVTHWRLLERI--GNHSWLEFQLETGRTHQIRVHSKQMGHPL 268
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
+GD LY + P S + G LHA+QL L HP + E+
Sbjct: 269 VGDNLYTS---PGSVNVNLP---------------------GQALHAHQLSLIHPVSGEI 304
Query: 316 IKITAPLPS 324
I AP+P+
Sbjct: 305 ITAIAPMPA 313
>sp|Q45480|YLYB_BACSU Uncharacterized RNA pseudouridine synthase YlyB OS=Bacillus
subtilis (strain 168) GN=ylyB PE=3 SV=3
Length = 303
Score = 119 bits (298), Expect = 4e-26, Method: Compositional matrix adjust.
Identities = 95/307 (30%), Positives = 146/307 (47%), Gaps = 55/307 (17%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP-DV---PYLLEVLYEDDDLIAL 77
Q +++GQ+ V+G V N + G ++ +P E DV P L++ YED D++ +
Sbjct: 35 QWVKDGQVVVNGSAVK-ANYKIQPGDQVTV-TVPEPEALDVLAEPMDLDIYYEDQDVLVV 92
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKT 137
NKP G+ V P T++N L + S + P VHR+ + TSG+L+ AK
Sbjct: 93 NKPRGMVVHPAPGHLTGTLVNGLMAHCTDLSGI--NGVMRPGIVHRIDKDTSGLLMVAKN 150
Query: 138 KLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRY 197
+A +S V +L + +T+ Y A+VHG++ D I PIG R
Sbjct: 151 DMAH----------------ESLVNQLVNKTVTRKYTAVVHGLISHDDGTIDAPIG--RD 192
Query: 198 PGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLG 257
+ + V + GK A++ VLER ++ TLV+ ++++GR HQIR+H+ ++G PL G
Sbjct: 193 KKDRQSMTV-TRDGKNAVTHFHVLER--FQDFTLVECQLETGRTHQIRVHMKYIGFPLAG 249
Query: 258 DPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIK 317
DP Y G K+ D G LHA L HP T E ++
Sbjct: 250 DPKY---GPRKTIDFN-----------------------GQALHAGVLGFDHPRTGEYVE 283
Query: 318 ITAPLPS 324
APLP
Sbjct: 284 FEAPLPE 290
>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 = 119 bits (297), Expect = 4e-26, Method: Compositional matrix adjust.
Identities = 86/262 (32%), Positives = 127/262 (48%), Gaps = 41/262 (15%)
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
P L+++YEDD +I +NKP+GL V P T+LN L + S Q V
Sbjct: 102 PMALDIVYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELS-----QIPRAGIV 156
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRL + TSG+++ AKT A+ +S V +L +R + +IYRA+ +GIV
Sbjct: 157 HRLDKETSGLMVVAKTLPAQ----------------NSLVWQLQERTVKRIYRAVANGIV 200
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
D I Q I R P + V GKPA++ V VLER + + ++ +++GR
Sbjct: 201 PFDGKIETQ---IGRDPHNRLKMAVVKFGGKPAVTHVKVLERYLAH--SYIECSLETGRT 255
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLH 301
HQIR+H+ HPL GDP+Y G P+ + G + LH
Sbjct: 256 HQIRVHMREANHPLAGDPVY---GNPRHPCGDTVKEAVKSLGARQ------------ALH 300
Query: 302 AYQLFLSHPTTNEVIKITAPLP 323
AY+L +HP + E + AP+P
Sbjct: 301 AYRLSFTHPESGETVSFEAPIP 322
>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 = 117 bits (294), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 85/263 (32%), Positives = 127/263 (48%), Gaps = 41/263 (15%)
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
P L+++YEDD +I +NKP+GL V P T+LN L + S Q V
Sbjct: 102 PMALDIVYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGLLAHCPELS-----QVPRAGIV 156
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRL + TSG+++ AKT A+ +S V +L +R + +IYRA+ +GIV
Sbjct: 157 HRLDKETSGLMVVAKTLPAQ----------------NSLVRQLQERTVKRIYRAVANGIV 200
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
D I Q I R P + V GKPA++ V VLER + + ++ +++GR
Sbjct: 201 PFDGKIETQ---IGRDPHNRLKMAVVKFGGKPAVTHVKVLERYLTH--SYIECSLETGRT 255
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLH 301
HQIR+H+ HPL DP+Y G P+ + G + LH
Sbjct: 256 HQIRVHMREANHPLAADPVY---GNPRHPCGDTVKEAVKSLGARQ------------ALH 300
Query: 302 AYQLFLSHPTTNEVIKITAPLPS 324
AY+L +HP + E + AP+P+
Sbjct: 301 AYRLSFTHPESGETVSFEAPIPN 323
>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 = 115 bits (288), Expect = 6e-25, Method: Compositional matrix adjust.
Identities = 83/260 (31%), Positives = 132/260 (50%), Gaps = 40/260 (15%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
L +++EDDD+I +NKP L V PG TVLN L + + + +HRL
Sbjct: 84 LNIVHEDDDIIIINKPKNLVVHPGAGNPDGTVLNALLYYYPPIAEVPRAGI-----IHRL 138
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ T+G+++ AK A+T + V L +R+IT+ Y A+ GI+ +
Sbjct: 139 DKDTTGLMVVAKNIPAQTHL----------------VTALQKRRITREYEAIASGIMTQG 182
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
+ +P+ R+P + V P GKPA++ ++ER RN T +++ +++GR HQI
Sbjct: 183 GKV-DEPMA--RHPTKRTAMAV-HPMGKPAITHYRIMERF--RNYTRLRLRLETGRTHQI 236
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H+A + HPLLGD LY GG+P+ ++ ++R LHA
Sbjct: 237 RVHMAHIAHPLLGDQLY--GGRPRPPKGS-SEAFLTVLRAFQRQA----------LHATM 283
Query: 305 LFLSHPTTNEVIKITAPLPS 324
L L HP E+I+ APLP+
Sbjct: 284 LRLEHPINGELIECHAPLPA 303
>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 = 112 bits (281), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 88/259 (33%), Positives = 131/259 (50%), Gaps = 45/259 (17%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
L++L+EDD LI ++KP+GL V PG T+LN L A + SQ VHRL
Sbjct: 109 LKILFEDDHLIIIDKPAGLVVHPGNGNWHGTLLNALLNHAPQ-----LSQVPRAGIVHRL 163
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ T+G+L+ AKT A+ +A +L QR + + Y ALV G +++D
Sbjct: 164 DKDTTGLLVVAKTIEAQFDLA----------------RQLQQRTVKRHYLALVLGKLEKD 207
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
V+ PIG R+P + + +GKPA + VLE+ TL+ +++GR HQI
Sbjct: 208 GVV-DAPIG--RHP-IHRTRMAVVQNGKPARTHYRVLEKFTA--STLLHCSLETGRTHQI 261
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+HL +GHPL GDP+Y G + D V +P LHA+Q
Sbjct: 262 RVHLLSIGHPLAGDPVY---------------GRTSPDPSTADAVVRLPRQA---LHAWQ 303
Query: 305 LFLSHPTTNEVIKITAPLP 323
L L+HP + +++ +PLP
Sbjct: 304 LELTHPHSGQILLWESPLP 322
>sp|P54604|YHCT_BACSU Uncharacterized RNA pseudouridine synthase YhcT OS=Bacillus
subtilis (strain 168) GN=yhcT PE=3 SV=2
Length = 302
Score = 109 bits (272), Expect = 3e-23, Method: Compositional matrix adjust.
Identities = 96/332 (28%), Positives = 157/332 (47%), Gaps = 63/332 (18%)
Query: 3 LIEFYSTKHKNSAP-LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD- 60
L T K S P +Q W+ + QI V+ V + N+I+ G V+ L E
Sbjct: 21 LFSVLKTALKASKPVIQDWMS---HQQIKVNHESVLN-NMIVKKGDR-VFIDLQESEASS 75
Query: 61 -VPYL--LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASH 117
+P L++L+ED+ ++ +NKP+G+ P Q T+ N + + Q + + + H
Sbjct: 76 VIPEYGELDILFEDNHMLIINKPAGIATHPNEDGQTGTLANLIAYHY--QINGETCKVRH 133
Query: 118 PVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALV 177
VHRL + TSG ++ AK +LA +++D +L ++ + + Y A+
Sbjct: 134 ---VHRLDQDTSGAIVFAKHRLAH-----------AILD-----QQLEKKTLKRTYTAIA 174
Query: 178 HGIVDEDKVIIKQPIGIVR-YPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEI 236
G + K I PIG R +P + SP G+ A++ V+ + + +LV++E+
Sbjct: 175 EGKLRTKKGTINSPIGRDRSHPTRRR----VSPGGQTAVTHFKVMASNAKERLSLVELEL 230
Query: 237 QSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDC 296
++GR HQIR+HLA LGHPL GD LY GG K + +
Sbjct: 231 ETGRTHQIRVHLASLGHPLTGDSLY--GGGSKLLNRQ----------------------- 265
Query: 297 GYYLHAYQLFLSHPTTNEVIKITAPLPSVLKT 328
LHA ++ HP T+E+I AP P+ +K
Sbjct: 266 --ALHANKVQAVHPITDELIVAEAPFPADMKN 295
>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 = 108 bits (271), Expect = 5e-23, Method: Compositional matrix adjust.
Identities = 92/309 (29%), Positives = 144/309 (46%), Gaps = 35/309 (11%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGS-ELVYHRLPWKE---PDVPYLLEVLYEDDDLIALNK 79
I+ G++ V+G+ V + S L + R P E D+P + +LYEDDDL+ ++K
Sbjct: 34 IEEGRVLVNGKPVKSNYRVKSCDHIHLTFLRPPAPELAPEDIP--ITILYEDDDLMVIDK 91
Query: 80 PSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKL 139
+G+ V P T+ N + K + L P VHRL + TSG+++ AK
Sbjct: 92 EAGMVVHPAFGNWTGTLANAILHHLGKDADELDKTEMRPGIVHRLDKDTSGLIIIAKNPT 151
Query: 140 AKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV-RYP 198
A +A FA+ R++ K+Y+A+V G+ + IK IG +
Sbjct: 152 ALHKLARQFAN----------------RQVEKVYKAIVWGVPKAESGTIKTNIGRSHKNR 195
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
V GK A++ V+E D+ +L+ V + +GR HQIR+HL LGH +LGD
Sbjct: 196 KVMANFPYEGAEGKHAITDYQVVE-DLGY-FSLMDVTLHTGRTHQIRVHLQHLGHSILGD 253
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
Y G P++ F++ + R N + LHA L PTT E +
Sbjct: 254 ETY-GGATPRTL-------PFSKSEPFTR--NLLELMSRQALHAQTLRFRQPTTGEPLSF 303
Query: 319 TAPLPSVLK 327
+APLP ++
Sbjct: 304 SAPLPEDME 312
>sp|Q8XYX8|RLUD_RALSO Ribosomal large subunit pseudouridine synthase D OS=Ralstonia
solanacearum (strain GMI1000) GN=rluD PE=3 SV=1
Length = 358
Score = 108 bits (270), Expect = 6e-23, Method: Compositional matrix adjust.
Identities = 107/333 (32%), Positives = 153/333 (45%), Gaps = 55/333 (16%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGS--ELVYHRLPWKEPDV--PYLLEVLYEDD 72
LQ W I G + V G V P + G E+V R + V P L+V+YEDD
Sbjct: 68 LQQW---IDAGAVRVGGAAVR-PRAAVCGGDRIEVVPQRADDENAFVAEPVDLDVVYEDD 123
Query: 73 DLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGIL 132
L+ +NKP+GL V P TVLN L R Q++ L VHRL + TSG++
Sbjct: 124 TLLVINKPAGLVVHPAAGNWSGTVLNGLLHR-YPQAAGLPRAGI----VHRLDKETSGLM 178
Query: 133 LCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPI 192
+ A+T A+T + V +L R + + Y ALV G E I PI
Sbjct: 179 VVARTLPAQTDL----------------VRQLQARTVKRTYLALVWGETPEAGTI-DAPI 221
Query: 193 GIVRYP-GVAKGLYVASPSGKPALSKVDVLER-DVQR-NCTLVQVEIQSGRPHQIRIHLA 249
G R P + + + SGKPA + L+ D+ R +LVQ ++++GR HQIR+H
Sbjct: 222 G--RDPRDRTRMAIIETASGKPARTHFKTLDVVDLGRAQVSLVQCQLETGRTHQIRVHFE 279
Query: 250 FLGHPLLGDPLYVAG---GQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLF 306
GHPLLGDP+Y G+P++ + FA+ LHA +L
Sbjct: 280 SEGHPLLGDPVYTRNFRRGRPQTIKAPLP-APFARQA----------------LHAVRLG 322
Query: 307 LSHPTTNEVIKITAPLPSVLKTREEGREVDKSV 339
L HP + + + A +P L + E+D V
Sbjct: 323 LVHPASGQSVHWHAGVPDDLAELMDALEMDPDV 355
>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 = 107 bits (266), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 92/322 (28%), Positives = 154/322 (47%), Gaps = 61/322 (18%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEP-DVP--YLLEVLYEDDD 73
L+ W+ I N + ++G++ N P+ + G ++ + K P ++P L +YED +
Sbjct: 36 LKKWI--IMN-NVYINGKIENQPDKKILGGEKITIYSTDEKLPINLPQNIALNTIYEDSN 92
Query: 74 LIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP----VHRLGRGTS 129
++ +NKP GL V PG Q T+LN L +R + SS +P +HRL + TS
Sbjct: 93 ILIINKPPGLVVHPGAGNQDGTILNALLYRYTNISS---------IPRCGIIHRLDKDTS 143
Query: 130 GILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIK 189
G+++ AKT + + V L +RKI + Y+ ++ G +
Sbjct: 144 GLMVIAKT----------------IFSYNKLVTLLKKRKIIRKYQGIIKGNMISG----- 182
Query: 190 QPIGIVRYPGVA---KGLYVASPS-GKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIR 245
GIV YP + K + + + S GK +++ ++ R + T V +++GR HQIR
Sbjct: 183 ---GIVNYPIMRHPFKRICMTTDSLGKKSITHYKIINR--FKFHTHVSFRLETGRTHQIR 237
Query: 246 IHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQL 305
+H+ +G+PLLGDPLY GG ++ F ++ R N LHA +
Sbjct: 238 VHMLHIGYPLLGDPLY--GG------IDYGCNYFQENRNIYRKFNLFRQA----LHADYI 285
Query: 306 FLSHPTTNEVIKITAPLPSVLK 327
HP T +V+ +A LP +K
Sbjct: 286 EFIHPFTQKVMSWSASLPQDMK 307
>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 = 3e-21, Method: Compositional matrix adjust.
Identities = 88/302 (29%), Positives = 145/302 (48%), Gaps = 47/302 (15%)
Query: 27 GQITVDGRVVNDPNIILSAGSELVYHRLPWKEP---DVP--YLLEVLYEDDDLIALNKPS 81
Q+ V+ +VN P+ + G L H P+ + D+P L+++YED D++ +NKP+
Sbjct: 43 NQVLVNESIVNQPDKKILGGETLTIH--PFSKDLLVDIPENIFLDIVYEDSDILIINKPA 100
Query: 82 GLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLAK 141
GL V PG + T+LN L + K S L VHRL + TSG+++ AK
Sbjct: 101 GLVVHPGSGNKSGTILNALLYHY-KNSKDLPRAGI----VHRLDKDTSGLMVIAK----- 150
Query: 142 TCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGVA 201
++ + ++ L ++KI + Y +VHG + I K I+R+
Sbjct: 151 -----------NIFSYNHLLLLLKEKKIIREYEGIVHGKMIAGGTINKP---IMRHYNRR 196
Query: 202 KGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLY 261
+ V GKP+++ VL R + T + + +++GR HQIR+H+ + +PL+GDP Y
Sbjct: 197 TCMMVHH-LGKPSVTHYKVLSR--FKFHTHIAIRLETGRTHQIRVHMLHIKYPLVGDPCY 253
Query: 262 VAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITAP 321
+G + +S + +D + N + LHA L L HP V+ T P
Sbjct: 254 -SGFKIQS--------NYRKD----KKTNKIYKFPRQALHANHLSLHHPIKKNVMSWTVP 300
Query: 322 LP 323
LP
Sbjct: 301 LP 302
>sp|P65835|RLUD_SHIFL Ribosomal large subunit pseudouridine synthase D OS=Shigella
flexneri GN=rluD PE=3 SV=2
Length = 326
Score = 102 bits (254), Expect = 4e-21, Method: Compositional matrix adjust.
Identities = 88/305 (28%), Positives = 149/305 (48%), Gaps = 47/305 (15%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPWKEPDVPYLLEVLYEDDDLIALN 78
I + ++ V+G+V + P + G ++ + ++ D+P L+++YED+D+I +N
Sbjct: 40 ILDQRVLVNGKVCDKPKEKVLGGEQVAINAEIEEEARFEPQDIP--LDIVYEDEDIIVIN 97
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP L V PG TVLN L + + VHRL + T+G+++ AKT
Sbjct: 98 KPRDLVVHPGAGNPDGTVLNALLHYYPPIADVPRAGI-----VHRLDKDTTGLMVVAKTV 152
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A+T + V L +R+IT+ Y A+ G + + +PI R+P
Sbjct: 153 PAQTRL----------------VESLQRREITREYEAVAIGHMTAGGTV-DEPIS--RHP 193
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
+ V P GKPA++ ++E R T +++ +++GR HQIR+H+A + HPL+GD
Sbjct: 194 TKRTHMAV-HPMGKPAVTHYRIMEH--FRVHTRLRLRLETGRTHQIRVHMAHITHPLVGD 250
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
P+Y GG+P+ G E ++ + LHA L L HP + ++
Sbjct: 251 PVY--GGRPRP-----------PKGASEAFISTLRKFDRQALHATMLRLYHPISGIEMEW 297
Query: 319 TAPLP 323
AP+P
Sbjct: 298 HAPIP 302
>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 = 102 bits (254), Expect = 4e-21, Method: Compositional matrix adjust.
Identities = 88/305 (28%), Positives = 149/305 (48%), Gaps = 47/305 (15%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPWKEPDVPYLLEVLYEDDDLIALN 78
I + ++ V+G+V + P + G ++ + ++ D+P L+++YED+D+I +N
Sbjct: 40 ILDQRVLVNGKVCDKPKEKVLGGEQVAINAEIEEEARFEPQDIP--LDIVYEDEDIIVIN 97
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP L V PG TVLN L + + VHRL + T+G+++ AKT
Sbjct: 98 KPRDLVVHPGAGNPDGTVLNALLHYYPPIADVPRAGI-----VHRLDKDTTGLMVVAKTV 152
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A+T + V L +R+IT+ Y A+ G + + +PI R+P
Sbjct: 153 PAQTRL----------------VESLQRREITREYEAVAIGHMTAGGTV-DEPIS--RHP 193
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
+ V P GKPA++ ++E R T +++ +++GR HQIR+H+A + HPL+GD
Sbjct: 194 TKRTHMAV-HPMGKPAVTHYRIMEH--FRVHTRLRLRLETGRTHQIRVHMAHITHPLVGD 250
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
P+Y GG+P+ G E ++ + LHA L L HP + ++
Sbjct: 251 PVY--GGRPRP-----------PKGASEAFISTLRKFDRQALHATMLRLYHPISGIEMEW 297
Query: 319 TAPLP 323
AP+P
Sbjct: 298 HAPIP 302
>sp|P59838|RLUD_BLOFL Ribosomal large subunit pseudouridine synthase D OS=Blochmannia
floridanus GN=rluD PE=3 SV=1
Length = 321
Score = 102 bits (254), Expect = 5e-21, Method: Compositional matrix adjust.
Identities = 79/260 (30%), Positives = 125/260 (48%), Gaps = 38/260 (14%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
L ++YED+D++ +NK S + V PG Q TVLN L +R +S QA V RL
Sbjct: 86 LNIIYEDNDILVINKASNMVVHPGIGHYQGTVLNALLYRYP-SILKISKQAG---IVQRL 141
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
+ T+G+++ AKT ++ Y D+ + RK+ K Y A+V+G +
Sbjct: 142 DKDTTGLMIIAKT------VSAY----------DNLLRSFKLRKVVKEYDAIVYGKFTSN 185
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
++ QP+ R + +GK A++ V+E + + V++ +++GR HQI
Sbjct: 186 AGVVNQPM---RRHFAKRTFMSVHYTGKSAVTYYSVVEEF--KAHSRVRINLKTGRTHQI 240
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFD-SEFADGTFAQDGGYERPVNPVPGDCGYYLHAY 303
R+H+A++ HPL+GD Y G FD + +D + R LHA
Sbjct: 241 RVHMAYINHPLVGDQKY--KGNFSVFDIKKMSDELNNYLLDFNRQA----------LHAC 288
Query: 304 QLFLSHPTTNEVIKITAPLP 323
L L HP T +K APLP
Sbjct: 289 TLQLLHPITQVQMKWNAPLP 308
>sp|P33643|RLUD_ECOLI Ribosomal large subunit pseudouridine synthase D OS=Escherichia
coli (strain K12) GN=rluD PE=1 SV=4
Length = 326
Score = 102 bits (253), Expect = 6e-21, Method: Compositional matrix adjust.
Identities = 88/305 (28%), Positives = 149/305 (48%), Gaps = 47/305 (15%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPWKEPDVPYLLEVLYEDDDLIALN 78
I + ++ V+G+V + P + G ++ + ++ D+P L+++YED+D+I +N
Sbjct: 40 ILDQRVLVNGKVCDKPKEKVLGGEQVAINAEIEEEARFEPQDIP--LDIVYEDEDIIIIN 97
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP L V PG TVLN L + + VHRL + T+G+++ AKT
Sbjct: 98 KPRDLVVHPGAGNPDGTVLNALLHYYPPIADVPRAGI-----VHRLDKDTTGLMVVAKTV 152
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A+T + V L +R+IT+ Y A+ G + + +PI R+P
Sbjct: 153 PAQTRL----------------VESLQRREITREYEAVAIGHMTAGGTV-DEPIS--RHP 193
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
+ V P GKPA++ ++E R T +++ +++GR HQIR+H+A + HPL+GD
Sbjct: 194 TKRTHMAV-HPMGKPAVTHYRIMEH--FRVHTRLRLRLETGRTHQIRVHMAHITHPLVGD 250
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
P+Y GG+P+ G E ++ + LHA L L HP + ++
Sbjct: 251 PVY--GGRPRP-----------PKGASEAFISTLRKFDRQALHATMLRLYHPISGIEMEW 297
Query: 319 TAPLP 323
AP+P
Sbjct: 298 HAPIP 302
>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 = 101 bits (252), Expect = 7e-21, Method: Compositional matrix adjust.
Identities = 79/261 (30%), Positives = 120/261 (45%), Gaps = 51/261 (19%)
Query: 67 VLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGR 126
++YEDD L+ LNKPSG V G + L + A + +L QA VHR+ R
Sbjct: 97 IVYEDDHLLILNKPSGTAVHGG---------SGLHFGAIEALRALRPQARFLELVHRIDR 147
Query: 127 GTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKV 186
TSGILL AK + A + F +KT + K Y ALV G D +
Sbjct: 148 DTSGILLVAKKRSALRHLQAQFREKT----------------VQKYYYALVMGHWDAECK 191
Query: 187 IIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRI 246
++ P+ + +P+GKP+ ++ +LE+ + TLVQ +GR HQIR+
Sbjct: 192 VVNAPL----LKNEVNSIVRVNPNGKPSETRFRILEKFAE--ATLVQASPVTGRTHQIRV 245
Query: 247 HLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLF 306
H ++GHP+ D Y + FD+ + G ER +LHA +
Sbjct: 246 HTQYMGHPIAWDDRY----GDRRFDA------YTAQFGIER----------LFLHAANIQ 285
Query: 307 LSHPTTNEVIKITAPLPSVLK 327
HP + + ++I APL + L+
Sbjct: 286 FVHPASEKKLEIHAPLEAHLE 306
>sp|Q8X9F0|RLUD_ECO57 Ribosomal large subunit pseudouridine synthase D OS=Escherichia
coli O157:H7 GN=rluD PE=3 SV=3
Length = 326
Score = 101 bits (251), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 87/305 (28%), Positives = 149/305 (48%), Gaps = 47/305 (15%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPWKEPDVPYLLEVLYEDDDLIALN 78
I + ++ V+G++ + P + G ++ + ++ D+P L+++YED+D+I +N
Sbjct: 40 ILDQRVLVNGKLCDKPKEKVLGGEQVAINAEIEEEARFEPQDIP--LDIVYEDEDIIVIN 97
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP L V PG TVLN L + + VHRL + T+G+++ AKT
Sbjct: 98 KPRDLVVHPGAGNPDGTVLNALLHYYPPIADVPRAGI-----VHRLDKDTTGLMVVAKTV 152
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A+T + V L +R+IT+ Y A+ G + + +PI R+P
Sbjct: 153 PAQTRL----------------VESLQRREITREYEAVAIGHMTAGGTV-DEPIS--RHP 193
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
+ V P GKPA++ ++E R T +++ +++GR HQIR+H+A + HPL+GD
Sbjct: 194 TKRTHMAV-HPMGKPAVTHYRIMEH--FRVHTRLRLRLETGRTHQIRVHMAHITHPLVGD 250
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
P+Y GG+P+ G E ++ + LHA L L HP + ++
Sbjct: 251 PVY--GGRPRP-----------PKGASEAFISTLRKFDRQALHATMLRLYHPISGIEMEW 297
Query: 319 TAPLP 323
AP+P
Sbjct: 298 HAPIP 302
>sp|Q8IZ73|RUSD2_HUMAN RNA pseudouridylate synthase domain-containing protein 2 OS=Homo
sapiens GN=RPUSD2 PE=1 SV=2
Length = 545
Score = 100 bits (250), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 81/263 (30%), Positives = 126/263 (47%), Gaps = 37/263 (14%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSEL--VYHRLPWKEP 59
+L+ +ST+ + + PL + ++ G++ ++ + V D NI+L L HR EP
Sbjct: 161 SLLHVFSTEFR-AQPLAYYEAAVRAGRLQLNEKPVQDLNIVLKDNDFLRNTVHR---HEP 216
Query: 60 DVPYL-LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHP 118
V + +L E++D++ ++KPS + V P G F+ TV+ L Q
Sbjct: 217 PVTAEPIRLLAENEDVVVVDKPSSIPVHPCGRFRHNTVIFIL---------GKEHQLKEL 267
Query: 119 VPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVH 178
P+HRL R TSG+L+ AKT I D R++ K Y V
Sbjct: 268 HPLHRLDRLTSGVLMFAKTAAVSERIHEQVRD----------------RQLEKEYVCRVE 311
Query: 179 GIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQS 238
G ++V K+PI +V Y G+ P GKP + L + Q ++V+ +
Sbjct: 312 GEFPTEEVTCKEPILVVSY---KVGVCRVDPRGKPCETVFQRLSYNGQ--SSVVRCRPLT 366
Query: 239 GRPHQIRIHLAFLGHPLLGDPLY 261
GR HQIR+HL FLGHP+L DP+Y
Sbjct: 367 GRTHQIRVHLQFLGHPILNDPIY 389
>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 = 100 bits (250), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 77/261 (29%), Positives = 119/261 (45%), Gaps = 51/261 (19%)
Query: 67 VLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGR 126
++YEDD ++ LNKPSG V G + L++ A + +L QA VHR+ R
Sbjct: 96 IIYEDDHMLILNKPSGTAVHGG---------SGLKFGAIEALRALRPQARFLELVHRIDR 146
Query: 127 GTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKV 186
TSGILL AK + A + F +KT + K Y ALV G
Sbjct: 147 DTSGILLVAKKRSALRHLQAQFREKT----------------VKKFYFALVMGQWKSSCK 190
Query: 187 IIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRI 246
++ P+ + +P+GKP+ ++ +LE+ Q TL+Q +GR HQIR+
Sbjct: 191 VVNAPL----LKNEVNSIVRVNPNGKPSETRFKILEKFEQ--ATLIQASPITGRTHQIRV 244
Query: 247 HLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLF 306
H + GHP+ D Y + FD+ + G +R +LHA +
Sbjct: 245 HTQYTGHPIAWDDRY----GDRRFDA------YTGQLGLDR----------LFLHAANIK 284
Query: 307 LSHPTTNEVIKITAPLPSVLK 327
HP+ +E ++I AP+ S L+
Sbjct: 285 FQHPSNDEWMEINAPMESKLE 305
>sp|Q149F1|RUSD2_MOUSE RNA pseudouridylate synthase domain-containing protein 2 OS=Mus
musculus GN=Rpusd2 PE=2 SV=2
Length = 553
Score = 100 bits (249), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 82/263 (31%), Positives = 126/263 (47%), Gaps = 37/263 (14%)
Query: 2 TLIEFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSEL--VYHRLPWKEP 59
+L+ +ST+ + S PL + ++ G++ ++ V D +I+L L HR EP
Sbjct: 174 SLLHVFSTEFR-SQPLSYYEAAVRAGRLHLNEEPVQDLSIVLKDNDFLRNTVHR---HEP 229
Query: 60 DVPYL-LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHP 118
V + +L E++D++ ++KPS + V P G F+ TV+ L Q
Sbjct: 230 PVTAEPIHLLAENNDVVVIDKPSSIPVHPCGRFRHNTVIFIL---------GKEHQLKEL 280
Query: 119 VPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVH 178
P+HRL R TSG+L+ AKT I D R++ K Y V
Sbjct: 281 HPLHRLDRLTSGVLMFAKTAAVSEKIHEQVRD----------------RQLEKEYVCRVA 324
Query: 179 GIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQS 238
G + +VI K+PI +V Y G+ P GKP + L + + ++VQ +
Sbjct: 325 GEFPDKEVICKEPILVVSY---KVGVCRVDPRGKPCETVFQRLSYNGR--SSVVQCRPLT 379
Query: 239 GRPHQIRIHLAFLGHPLLGDPLY 261
GR HQIR+HL FLGHP+L DP+Y
Sbjct: 380 GRTHQIRVHLQFLGHPILNDPIY 402
>sp|O16686|YK27_CAEEL Uncharacterized protein K07E8.7 OS=Caenorhabditis elegans
GN=K07E8.7 PE=3 SV=1
Length = 432
Score = 100 bits (249), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 94/301 (31%), Positives = 144/301 (47%), Gaps = 53/301 (17%)
Query: 5 EFYSTKHKNSAPLQGWLQRIQNGQITVDGRVVNDPNIILSAGSELVY--HRLPWKEPDVP 62
EF ST ++N A + + G+I V+G + D + ++ G + + HR D+P
Sbjct: 94 EFLST-NRNYAKIA-----CKMGRIYVNGEQMTDVDYVMRNGDRVEHWAHRHEHPIRDLP 147
Query: 63 YLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVH 122
+ V+ E DDL + KP L V G + TVL QL R ++ + L +H
Sbjct: 148 --IRVISETDDLFVVEKPPSLPVHTCGQYAIHTVLGQL--RVNEGRTGLRV-------LH 196
Query: 123 RLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVD 182
RL R TSG+LL AK Y D ++ +T L Q + +K Y V G+
Sbjct: 197 RLDRATSGVLLFAK---------NYETD----LEFKTT---LKQGEWSKEYICKVDGVFP 240
Query: 183 EDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPH 242
+++ + +QPIG + ++ G+ P GK A S+ L D + ++VQV I++GR H
Sbjct: 241 DEEQVCEQPIGPL---VISMGIQCVRPDGKDAKSRFRKLWSDGTQ--SVVQVHIETGRTH 295
Query: 243 QIRIHLAFLGHPLLGDPLYVA----------GGQPKSFDSEFAD--GTFAQDGGYERPVN 290
QIR+H FLGHP+ GD +Y + KSFD D T + +E+P N
Sbjct: 296 QIRVHSQFLGHPIAGDQIYNSAVWGPTKGKNADYQKSFDELCEDVRNTHKCENWHEKP-N 354
Query: 291 P 291
P
Sbjct: 355 P 355
>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 = 100 bits (249), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 87/305 (28%), Positives = 147/305 (48%), Gaps = 47/305 (15%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPWKEPDVPYLLEVLYEDDDLIALN 78
I N ++ V+G++ + P + G + + + ++ D+P L+++YEDDD++ +N
Sbjct: 40 ILNQRVLVNGQLCDKPKEKVLGGERVAIDAEIDEEIRFEAQDIP--LDIVYEDDDILVIN 97
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP L V PG TVLN L + + VHRL + T+G+++ AKT
Sbjct: 98 KPRDLVVHPGAGNPDGTVLNALLHYYPPIADVPRAGI-----VHRLDKDTTGLMVVAKTV 152
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A+T + V L R+IT+ Y A+ G + + +PI R+P
Sbjct: 153 PAQTRL----------------VESLQLREITREYEAVAIGHMTAGGTV-NEPIS--RHP 193
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
+ V P GKPA++ ++E R T +++ +++GR HQIR+H+A + HPL+GD
Sbjct: 194 TKRTHMSV-HPMGKPAVTHYRIMEH--FRVHTRLRLRLETGRTHQIRVHMAHITHPLVGD 250
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
+Y GG+P+ G E ++ + LHA L L HP + ++
Sbjct: 251 QVY--GGRPRP-----------PKGASEEFISTLRKFDRQALHATMLRLYHPVSGIEMEW 297
Query: 319 TAPLP 323
AP+P
Sbjct: 298 HAPIP 302
>sp|P65837|RLUD_SALTI Ribosomal large subunit pseudouridine synthase D OS=Salmonella
typhi GN=rluD PE=3 SV=2
Length = 326
Score = 100 bits (249), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 87/305 (28%), Positives = 147/305 (48%), Gaps = 47/305 (15%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSEL-----VYHRLPWKEPDVPYLLEVLYEDDDLIALN 78
I N ++ V+G++ + P + G + + + ++ D+P L+++YEDDD++ +N
Sbjct: 40 ILNQRVLVNGQLCDKPKEKVLGGERVAIDAEIDEEIRFEAQDIP--LDIVYEDDDILVIN 97
Query: 79 KPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTK 138
KP L V PG TVLN L + + VHRL + T+G+++ AKT
Sbjct: 98 KPRDLVVHPGAGNPDGTVLNALLHYYPPIADVPRAGI-----VHRLDKDTTGLMVVAKTV 152
Query: 139 LAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYP 198
A+T + V L R+IT+ Y A+ G + + +PI R+P
Sbjct: 153 PAQTRL----------------VESLQLREITREYEAVAIGHMTAGGTV-NEPIS--RHP 193
Query: 199 GVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGD 258
+ V P GKPA++ ++E R T +++ +++GR HQIR+H+A + HPL+GD
Sbjct: 194 TKRTHMSV-HPMGKPAVTHYRIMEH--FRVHTRLRLRLETGRTHQIRVHMAHITHPLVGD 250
Query: 259 PLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKI 318
+Y GG+P+ G E ++ + LHA L L HP + ++
Sbjct: 251 QVY--GGRPRP-----------PKGASEEFISTLRKFDRQALHATMLRLYHPVSGIEMEW 297
Query: 319 TAPLP 323
AP+P
Sbjct: 298 HAPIP 302
>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 = 99.4 bits (246), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 83/302 (27%), Positives = 133/302 (44%), Gaps = 52/302 (17%)
Query: 21 LQRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYLLEVLYEDDDLIALNKP 80
L + +IT +G +V + + SE ++ ++P + + L++LYED+ ++ +NKP
Sbjct: 36 LVSVNGKKITKNGWLVQPEDRVHVNWSEELFEKVPVEVQPYDFPLDILYEDEQIMVVNKP 95
Query: 81 SGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLA 140
+GL P + ++L + + Q L VHRL R TSG+++ AK + +
Sbjct: 96 NGLISHPTSFNESESLLGAALFHCNHQPVFL---------VHRLDRDTSGVIMLAKNQSS 146
Query: 141 KTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGV 200
+L QR + + Y ALVH +D I P+ V V
Sbjct: 147 LL----------------HLQKQLQQRVMKRYYLALVHFPLDSLSGTISAPLERVGNNKV 190
Query: 201 AKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPL 260
+ +S K A +K VL ++ L++ E+ +GR HQIR+HL F+ HP+ DPL
Sbjct: 191 MWKVGNSSNKAKNAFTKFTVLNQN--EKAALIKCELLTGRTHQIRVHLQFIKHPVYNDPL 248
Query: 261 YVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITA 320
Y SE A + G YLHA Q+ HPT N+ + A
Sbjct: 249 Y-------GLKSEQA------------------TEYGQYLHAQQISFIHPTLNKEMGFEA 283
Query: 321 PL 322
L
Sbjct: 284 QL 285
>sp|Q8ZBV7|RLUD_YERPE Ribosomal large subunit pseudouridine synthase D OS=Yersinia pestis
GN=rluD PE=3 SV=1
Length = 325
Score = 99.4 bits (246), Expect = 4e-20, Method: Compositional matrix adjust.
Identities = 93/311 (29%), Positives = 146/311 (46%), Gaps = 57/311 (18%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVY------HRLPWKEPDVPYLLEVLYEDDDLIAL 77
I + ++TV+G+ +N P + G ELV W ++P L+++YED+D++ +
Sbjct: 40 ILDSRVTVNGKKINKPKEKV-LGGELVAIDAQIEEDARWAPQEIP--LDIVYEDNDILVI 96
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP----VHRLGRGTSGILL 133
NKP GL V PG TVLN L + VP VHRL + T+G+++
Sbjct: 97 NKPRGLVVHPGAGNPDGTVLNALLHYYPEIMD---------VPRAGIVHRLDKDTTGLMV 147
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AKT A+T + V L R+IT+ Y A+ G + + +PI
Sbjct: 148 VAKTVPAQTRL----------------VEALQAREITREYEAVAIGNMTAGGRV-DEPIS 190
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
R+ + P GKPA + ++E R T +++ +++GR HQIR+H++ + H
Sbjct: 191 --RH-STKRTHMAVHPMGKPATTHYRIMEH--FRAHTRLRLRLETGRTHQIRVHMSHINH 245
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL+GD LY GG+P+ +D A G++R LHA L L HP
Sbjct: 246 PLVGDQLY--GGRPRPPKGA-SDSFIAILRGFDRQA----------LHATMLRLYHPIRG 292
Query: 314 EVIKITAPLPS 324
++ A LP
Sbjct: 293 IQMEWHAALPE 303
>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 = 98.6 bits (244), Expect = 7e-20, Method: Compositional matrix adjust.
Identities = 101/337 (29%), Positives = 153/337 (45%), Gaps = 57/337 (16%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGS--------ELVYHRLPWKEPDVPYLLEVL 68
L W I++G +DG P L G E H P D+P L VL
Sbjct: 43 LSEW---IKSGDALLDGETAR-PRDTLRGGETVQVQVVLETQTHAAPQ---DIP--LNVL 93
Query: 69 YEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGT 128
YEDD ++ ++KP+GL V PG T++N L +R +L++ V VHRL + T
Sbjct: 94 YEDDHVLVIDKPAGLVVHPGAGNPDGTLVNALLFR----DPNLAAVPRAGV-VHRLDKDT 148
Query: 129 SGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVII 188
SG+++ A+T A+T + V +LS R + + Y A+V G +
Sbjct: 149 SGVMVVARTLQAQTAL----------------VEQLSARDVHRQYLAVVVGALVSGGTA- 191
Query: 189 KQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHL 248
PI R+P + V G+ A++ + ER R T ++ +++GR HQIR+H+
Sbjct: 192 DAPID--RHPRDRLKMAVRD-DGRDAVTHYRLRER--FRAHTALECRLETGRTHQIRVHM 246
Query: 249 AFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLS 308
A L P++GDPLY GG K D A+ G++R LHA L
Sbjct: 247 AHLKSPIVGDPLY--GGALK-LPKGATDTLVAELRGFKR----------QALHAETLEFL 293
Query: 309 HPTTNEVIKITAPLPSVLKTREEGREVDKSVGSERIR 345
HP + E I+ +AP+P L+ D + +E R
Sbjct: 294 HPVSGEPIRASAPVPEDLQRLMSALREDSARAAELAR 330
>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 = 98.2 bits (243), Expect = 9e-20, Method: Compositional matrix adjust.
Identities = 98/324 (30%), Positives = 150/324 (46%), Gaps = 67/324 (20%)
Query: 17 LQGWLQRIQNGQITVDGRVVNDPNIILSAGS--------ELVYHRLPWKEPDVPYLLEVL 68
L W I++G +DG + P L G E H P D+P L VL
Sbjct: 43 LSEW---IKSGDALLDGEMAR-PRDTLRGGESVQVQVVLETQTHAAPQ---DIP--LSVL 93
Query: 69 YEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGT 128
YED+ ++ ++KP+GL V PG RT++N L +R +L+S V VHRL + T
Sbjct: 94 YEDEQVLVIDKPAGLVVHPGAGNPDRTLVNALLFR----DPALASVPRAGV-VHRLDKDT 148
Query: 129 SGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVII 188
SG+++ A+T A+T + V +LS R++ + Y A+V G +
Sbjct: 149 SGVMVVARTVQAQTAL----------------VEQLSAREVHRQYLAVVVGALVSGGTA- 191
Query: 189 KQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHL 248
PI R+P + V G+ A++ + ER R T ++ +++GR HQIR+H+
Sbjct: 192 NAPID--RHPRDRLKMAVRD-DGRDAVTHYRLRER--FRAHTALECRLETGRTHQIRVHM 246
Query: 249 AFLGHPLLGDPLYVAGGQ---PKSFDSEFADG--TFAQDGGYERPVNPVPGDCGYYLHAY 303
A L P++GDPLY GG PK E TF + LHA
Sbjct: 247 AHLKSPIVGDPLY--GGALKLPKGATDELVHELRTFKRQA----------------LHAE 288
Query: 304 QLFLSHPTTNEVIKITAPLPSVLK 327
L HP + E ++ +AP+P+ L+
Sbjct: 289 TLEFLHPVSGEPVRASAPVPADLQ 312
>sp|Q12069|PUS9_YEAST tRNA pseudouridine(32) synthase, mitochondrial OS=Saccharomyces
cerevisiae (strain ATCC 204508 / S288c) GN=PUS9 PE=1
SV=1
Length = 462
Score = 97.4 bits (241), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 88/317 (27%), Positives = 144/317 (45%), Gaps = 68/317 (21%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDVPYL-LEVLYEDDDLIALNKPSG 82
I+NG + ++ + +I + +L+ H++ EP V ++V++EDD+++ ++KPSG
Sbjct: 148 IENGDVHINDETADLSTVIRNG--DLITHQVHRHEPPVTSRPIKVIFEDDNIMVIDKPSG 205
Query: 83 LQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTSGILLCAKTKLAKT 142
+ V P G ++ T+ LQ ++L + P +RL R TSG++ AKT
Sbjct: 206 IPVHPTGRYRFNTITKMLQ-------NNLGFVVN---PCNRLDRLTSGLMFLAKTPKG-- 253
Query: 143 CIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIVRYPGVAK 202
AD+ +L R++TK Y A V G E +VI+++P+ ++ P +A
Sbjct: 254 --------------ADNIGDQLKAREVTKEYVAKVVGEFPETEVIVEKPLKLIE-PRLAL 298
Query: 203 GLYVASPSGKPALSKVDVLER-DVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLY 261
V K A V R ++V+ + +GR HQIR+HL +LGHP+ DP+Y
Sbjct: 299 NA-VCQMDEKGAKHAKTVFNRISYDGKTSIVKCKPLTGRSHQIRVHLQYLGHPIANDPIY 357
Query: 262 V----------AGGQPKSFD-----------SEFADGTFAQDGGY--------------E 286
GGQ FD + A F +GGY +
Sbjct: 358 SNDEVWGNNLGKGGQA-DFDIVITKLDEIGKRKPAKSWFHSNGGYGEVLRQEKCSICESD 416
Query: 287 RPVNPVPGDCGYYLHAY 303
+P P D +LHAY
Sbjct: 417 LYTDPGPNDLDLWLHAY 433
>sp|Q8D8G1|RLUC_VIBVU Ribosomal large subunit pseudouridine synthase C OS=Vibrio
vulnificus (strain CMCP6) GN=rluC PE=3 SV=1
Length = 315
Score = 97.4 bits (241), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 84/277 (30%), Positives = 125/277 (45%), Gaps = 60/277 (21%)
Query: 67 VLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGR 126
++YEDD L+ LNKPSG V G + L++ A + +L +A VHR+ R
Sbjct: 96 IIYEDDHLLVLNKPSGTAVHGG---------SGLKFGAIEALRALRPEARFLELVHRIDR 146
Query: 127 GTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKV 186
TSGILL AK + A + F +KT + K Y ALV G
Sbjct: 147 DTSGILLVAKKRSALRHLQAQFREKT----------------VQKYYFALVMGEWKNSCK 190
Query: 187 IIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRI 246
++ P+ + +P+GKP+ ++ V+E+ Q TLVQ +GR HQIR+
Sbjct: 191 VVNAPL----LKNEVNSIVRVNPNGKPSETRFKVIEKFPQ--ATLVQASPITGRTHQIRV 244
Query: 247 HLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLF 306
H + GHP+ D Y D F D AQ G +N + +LHA +
Sbjct: 245 HTQYSGHPIAWDDRY--------GDRRF-DAYTAQHG-----LNRL------FLHAANIR 284
Query: 307 LSHPTTNEVIKITAPLPSVLKTREEGREVDKSVGSER 343
+HP T + ++I AP+ G +++K V S R
Sbjct: 285 FTHPATEQPMEINAPM---------GEQLEKVVQSLR 312
>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 = 96.7 bits (239), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 78/276 (28%), Positives = 130/276 (47%), Gaps = 50/276 (18%)
Query: 53 RLPWKEP-DVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSL 111
R EP D+P LE+++ED+ L+ +NKP+G+ V P T++N L + + + S +
Sbjct: 71 RPAHNEPQDIP--LEIVFEDEHLLVVNKPAGMVVHPAAGNYDNTLVNALLYHCAGKLSGI 128
Query: 112 SSQASHPVPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITK 171
A P VHR+ + TSG+L+ AKT A +A FAD + I +
Sbjct: 129 GGVAR-PGIVHRIDKDTSGLLVVAKTDPAHAGLAAQFADHS----------------INR 171
Query: 172 IYRALVHGIVD----EDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQR 227
YRA+V G D + + + + V+ G GK A++ ++ +
Sbjct: 172 RYRAIVDGHPSLQGHVDAPLARSSVNRQKMAIVSDG------RGKRAVTHYRMIT--PLK 223
Query: 228 NCTLVQVEIQSGRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYER 287
N +L++ +++GR HQ+R+H++ +GH LLGDP+Y G+ K A Q ++R
Sbjct: 224 NASLIECRLETGRTHQVRVHMSSIGHSLLGDPVY---GRSKK-----AHHALLQSLAFQR 275
Query: 288 PVNPVPGDCGYYLHAYQLFLSHPTTNEVIKITAPLP 323
LHA L HP + + + A +P
Sbjct: 276 QA----------LHAAHLGFIHPISGKQVDFDAEMP 301
>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 = 95.9 bits (237), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 82/310 (26%), Positives = 144/310 (46%), Gaps = 53/310 (17%)
Query: 22 QRIQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPD----VPYLLEVLYEDDDLIAL 77
+ I + + V+GR+++ P+ + +++ L +K + L V+YEDDD++ +
Sbjct: 39 RHILSKDVCVNGRILDQPDAKV-LYKDIISINLKFKAKNDYQAENIFLNVIYEDDDILVI 97
Query: 78 NKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVP----VHRLGRGTSGILL 133
NK V PG T+LN L R S +P VHRL + T+G+++
Sbjct: 98 NKQDNFVVHPGAGNTSGTLLNALLHRDS---------TFFNIPRAGIVHRLDKDTTGLMV 148
Query: 134 CAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIG 193
AK L+ Y A +ID ++ +K+ + Y+A+V+G V I+K
Sbjct: 149 IAKNNLS------YMA----LID------QIKCKKVIREYQAIVYGKVISGGTIVK---S 189
Query: 194 IVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGH 253
I+R P + + + + GK A++ +L+R T +++ +++GR HQIR H+ ++
Sbjct: 190 IIRNP-IKRTTMIVNKCGKRAITHYRILKRFTHH--THLKIILETGRTHQIRTHMLYINF 246
Query: 254 PLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTN 313
PL+GD Y G F + Q + R LHA +L L HP T
Sbjct: 247 PLVGDKTY---GNKFKFYKNISLTLLEQVKKFPRQA----------LHASRLCLYHPVTK 293
Query: 314 EVIKITAPLP 323
+++ + LP
Sbjct: 294 HLMEWNSTLP 303
>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 = 95.1 bits (235), Expect = 6e-19, Method: Compositional matrix adjust.
Identities = 82/262 (31%), Positives = 120/262 (45%), Gaps = 48/262 (18%)
Query: 67 VLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGR 126
+LYEDD ++ LNKPSG+ V G + L + + +L QA VHR+ R
Sbjct: 98 ILYEDDVMLVLNKPSGIGVHGG---------SGLSFGVIEALRALRPQARFLELVHRIDR 148
Query: 127 GTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKV 186
TSGILL AK + A + +L ++ + K Y ALV G
Sbjct: 149 DTSGILLVAKKRSALRALHE----------------QLREKVVQKDYLALVRGQWQAHIN 192
Query: 187 IIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRI 246
+IK P+ + + + S GKP+ ++ + ER N TL++ +GR HQIR+
Sbjct: 193 VIKAPL-LKNELQSGERIVKVSEQGKPSETRFSIEER--YPNATLIKASPITGRTHQIRV 249
Query: 247 HLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLF 306
H + GHP+ D Y G Q +FD++ + G R +LHA+ +
Sbjct: 250 HTQYAGHPIACDDRY--GDQ--AFDAKL------KQAGLNR----------LFLHAHSIR 289
Query: 307 LSHPTTNEVIKITAPLPSVLKT 328
HP T E + ITAPL LKT
Sbjct: 290 FEHPKTAEQMFITAPLDHHLKT 311
>sp|Q9CK02|RLUA_PASMU Ribosomal large subunit pseudouridine synthase A OS=Pasteurella
multocida (strain Pm70) GN=rluA PE=3 SV=1
Length = 219
Score = 94.7 bits (234), Expect = 8e-19, Method: Compositional matrix adjust.
Identities = 83/263 (31%), Positives = 121/263 (46%), Gaps = 55/263 (20%)
Query: 59 PDVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHP 118
P PYL ++++ DD + +NKPSGL +PG NQ Q+ S S + +
Sbjct: 9 PTDPYL-DIVHYDDHFVVINKPSGLLSVPG---------NQPQYYDSAMSR-VKEKYGFC 57
Query: 119 VPVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVH 178
P HRL TSG++L A +K+A + F +R+ K Y+ALV
Sbjct: 58 EPAHRLDMSTSGLILFALSKVADRELKRQF----------------REREPKKHYQALVW 101
Query: 179 GIVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQS 238
G ++ED+ + P+ I + + + GKPAL+ +VL R N T V++ +
Sbjct: 102 GHLEEDQGEVNLPL-ICDWENRPRQ-KICFERGKPALTLYEVLAR-YPNNTTRVKLTPIT 158
Query: 239 GRPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGY 298
GR HQ+R+H+ LGHP+LGD Y A Q K+ P C
Sbjct: 159 GRSHQLRLHMLALGHPILGDKFY-APPQAKALS---------------------PRLC-- 194
Query: 299 YLHAYQLFLSHPTTNEVIKITAP 321
LHA QL HP T E + +AP
Sbjct: 195 -LHAEQLAFRHPITQEWLSFSAP 216
>sp|Q8ZQ16|RLUC_SALTY Ribosomal large subunit pseudouridine synthase C OS=Salmonella
typhimurium (strain LT2 / SGSC1412 / ATCC 700720)
GN=rluC PE=3 SV=1
Length = 319
Score = 94.4 bits (233), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 89/318 (27%), Positives = 137/318 (43%), Gaps = 64/318 (20%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLP-------WKEPDVPYLLEV-------LY 69
++ G++ V+ + + P L AG E+ R+P +E P+L +V LY
Sbjct: 42 LRKGEVRVNKKRIK-PEYKLEAGDEV---RIPPVRVAEREEEAVSPHLQKVAALADVILY 97
Query: 70 EDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLGRGTS 129
EDD ++ LNKPSG V G + L + + +L +A VHRL R TS
Sbjct: 98 EDDHILVLNKPSGTAVHGG---------SGLSFGVIEGLRALRPEARFLELVHRLDRDTS 148
Query: 130 GILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIK 189
G+LL AK + A + +K D + V Q + + L+ I+ + I++
Sbjct: 149 GVLLVAKKRSALRSLHEQLREKGMQKDYLALVRGQWQSHVKTVQAPLLKNILQSGERIVR 208
Query: 190 QPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLA 249
S GKP+ ++ V ER TLV+ +GR HQIR+H
Sbjct: 209 -----------------VSQEGKPSETRFKVEERYA--FATLVRCSPVTGRTHQIRVHTQ 249
Query: 250 FLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSH 309
+ GHP+ +FD + D F Q + G +LHA L +H
Sbjct: 250 YAGHPI-------------AFDDRYGDREFDQ-----QLTEAGTGLKRLFLHAAALKFTH 291
Query: 310 PTTNEVIKITAPLPSVLK 327
P T EV++I AP+ + LK
Sbjct: 292 PGTGEVMRIEAPMDNALK 309
>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 = 94.0 bits (232), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 84/266 (31%), Positives = 124/266 (46%), Gaps = 50/266 (18%)
Query: 62 PYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPV 121
P L+V+YED D+ +NKP+G+ V P + T++N L R + + P V
Sbjct: 88 PIPLDVVYEDADIAVINKPAGMVVHPAPGHPRGTLVNALLARYPDLAIGGELR---PGIV 144
Query: 122 HRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIV 181
HRL R TSG+L+ A+ A S V + R++ KIY+ALV G
Sbjct: 145 HRLDRDTSGLLVIARHDQAMR----------------SLVDQQQARRMRKIYQALVIGRP 188
Query: 182 DEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRP 241
E I PIG R P + V P G+PA + +L D + +L++V++++GR
Sbjct: 189 PETGTI-DAPIG--RDPRDRLRMAVV-PDGRPARTHYRLL--DTFGDYSLLEVQLETGRT 242
Query: 242 HQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLH 301
HQIR+HL LG+P++GDP+Y +F LH
Sbjct: 243 HQIRVHLRHLGYPIVGDPVYGPRRSHLHLSRQF-------------------------LH 277
Query: 302 AYQLFLSHPTTNEVIKITAPLPSVLK 327
A L L HP + + TAPLP+ L+
Sbjct: 278 AAYLGLVHPRSGRWQEFTAPLPADLQ 303
>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 = 93.6 bits (231), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 87/314 (27%), Positives = 136/314 (43%), Gaps = 62/314 (19%)
Query: 24 IQNGQITVDGRVVNDPNIILSAGSELVYHRLPWKEPDV-----PY--LLEVLYEDDDLIA 76
I NGQI V+ ++ ++I++ + D PY LEVL+ED DL+
Sbjct: 32 IMNGQIKVNEKLTFKNSLIVAKDDVIKVEIHDETTSDFITSVEPYNLKLEVLFEDKDLMV 91
Query: 77 LNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPV-PVHRLGRGTSGILLCA 135
+NKPSGL P T N+ +AS ++ + +PV VHRL R TSG ++
Sbjct: 92 INKPSGLLTHP-------TTFNE---KASLLAACIFHNNKNPVYLVHRLDRDTSGAIVVC 141
Query: 136 KTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDEDKVIIKQPIGIV 195
K + + + +L R + + Y ALVH + I P+ V
Sbjct: 142 KNQAS----------------LLNLQNQLQNRTLKRYYVALVHFPFNALTGSINAPLARV 185
Query: 196 RYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQIRIHLAFLGHPL 255
V + + K A++K V+ ++ L+ +E+ +GR HQIR+HL F+ HP+
Sbjct: 186 NNNKVMFKI-AQTAKAKQAITKFKVINQN--EKAALISLELLTGRTHQIRVHLKFIQHPV 242
Query: 256 LGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQLFLSHPTTNEV 315
DPLY G + + DS G +LHA ++ HPT N+
Sbjct: 243 YNDPLY--GIKSEKKDSY-----------------------GQFLHANRICFIHPTLNKP 277
Query: 316 IKITAPLPSVLKTR 329
+ APL T+
Sbjct: 278 MDFHAPLEPKFSTK 291
>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 = 92.8 bits (229), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 78/263 (29%), Positives = 120/263 (45%), Gaps = 45/263 (17%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
+ +LY DDD++A++KP+ + + TVL L A+ + S VHRL
Sbjct: 81 MTILYSDDDIVAVDKPAAVAAHASVGWTGPTVLGGLA--AAGYRITTSGVHERQGIVHRL 138
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
GTSG+++ A ++ A T + F R + K Y ALV G D
Sbjct: 139 DVGTSGVMVVAISERAYTVLKRAF----------------KYRTVDKRYHALVQGHPDPS 182
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
I PIG R+ G + + + +G+ +L+ D LE V +L+ V +++GR HQI
Sbjct: 183 SGTIDAPIG--RHRG-HEWKFAITKNGRHSLTHYDTLEAFVA--ASLLDVHLETGRTHQI 237
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H A L HP GD +Y G PK A+ G +R +LHA
Sbjct: 238 RVHFAALHHPCCGDLVY--GADPK----------LAKRLGLDR----------QWLHARS 275
Query: 305 LFLSHPTTNEVIKITAPLPSVLK 327
L +HP ++I +P P+ L+
Sbjct: 276 LAFAHPADGRRVEIVSPYPADLQ 298
>sp|P0A5T2|Y1540_MYCTU Uncharacterized RNA pseudouridine synthase Rv1540/MT1592
OS=Mycobacterium tuberculosis GN=Rv1540 PE=3 SV=1
Length = 308
Score = 92.8 bits (229), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 78/263 (29%), Positives = 120/263 (45%), Gaps = 45/263 (17%)
Query: 65 LEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRL 124
+ +LY DDD++A++KP+ + + TVL L A+ + S VHRL
Sbjct: 81 MTILYSDDDIVAVDKPAAVAAHASVGWTGPTVLGGLA--AAGYRITTSGVHERQGIVHRL 138
Query: 125 GRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHGIVDED 184
GTSG+++ A ++ A T + F R + K Y ALV G D
Sbjct: 139 DVGTSGVMVVAISERAYTVLKRAF----------------KYRTVDKRYHALVQGHPDPS 182
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSGRPHQI 244
I PIG R+ G + + + +G+ +L+ D LE V +L+ V +++GR HQI
Sbjct: 183 SGTIDAPIG--RHRG-HEWKFAITKNGRHSLTHYDTLEAFVA--ASLLDVHLETGRTHQI 237
Query: 245 RIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYYLHAYQ 304
R+H A L HP GD +Y G PK A+ G +R +LHA
Sbjct: 238 RVHFAALHHPCCGDLVY--GADPK----------LAKRLGLDR----------QWLHARS 275
Query: 305 LFLSHPTTNEVIKITAPLPSVLK 327
L +HP ++I +P P+ L+
Sbjct: 276 LAFAHPADGRRVEIVSPYPADLQ 298
>sp|Q8DCG0|RLUA_VIBVU Ribosomal large subunit pseudouridine synthase A OS=Vibrio
vulnificus (strain CMCP6) GN=rluA PE=3 SV=1
Length = 250
Score = 92.0 bits (227), Expect = 6e-18, Method: Compositional matrix adjust.
Identities = 66/203 (32%), Positives = 101/203 (49%), Gaps = 33/203 (16%)
Query: 66 EVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPVPVHRLG 125
E+++EDD ++A+NKPSGL +PG L + + W S L Q VHRL
Sbjct: 15 EIIFEDDHILAVNKPSGLLSVPGRLPEHHDSM----W------SRLQEQYPEIQVVHRLD 64
Query: 126 RGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKIT-KIYRALVHGIVDED 184
TSG+++ AK K A+ + F Q ++T K+Y A V G V+ D
Sbjct: 65 MSTSGLMVFAKNKRAEAALKKQF-----------------QYRLTHKVYYARVWGHVEAD 107
Query: 185 KVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRN---CTLVQVEIQSGRP 241
+I P+ I +P V GKP+ + V +R+V N T++++ +GR
Sbjct: 108 SGMIDLPL-ICDWPNRPMQ-KVCHEHGKPSQTAFQVAKREVHANGAQTTIMRLLPVTGRS 165
Query: 242 HQIRIHLAFLGHPLLGDPLYVAG 264
HQ+R+H+ LGHP++GD Y G
Sbjct: 166 HQLRVHMQALGHPIVGDEFYAQG 188
>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 = 91.7 bits (226), Expect = 7e-18, Method: Compositional matrix adjust.
Identities = 84/267 (31%), Positives = 129/267 (48%), Gaps = 42/267 (15%)
Query: 60 DVPYLLEVLYEDDDLIALNKPSGLQVLPGGLFQQRTVLNQLQWRASKQSSSLSSQASHPV 119
D+P L++LYED+ + +NKP+GL V PG T++N L R +L++ V
Sbjct: 87 DIP--LDILYEDEHVFVINKPAGLVVHPGAGNPDGTLVNALLHR----DPALAAVPRAGV 140
Query: 120 PVHRLGRGTSGILLCAKTKLAKTCIAGYFADKTSVIDADSTVMELSQRKITKIYRALVHG 179
VHRL + TSG+++ A+T A+T + V +LS R++ + Y A+V
Sbjct: 141 -VHRLDKDTSGVMVVARTLQAQTAL----------------VEQLSSRQVHRQYLAVVVS 183
Query: 180 IVDEDKVIIKQPIGIVRYPGVAKGLYVASPSGKPALSKVDVLERDVQRNCTLVQVEIQSG 239
+ + I R+P + V S +GK A++ + ER R T ++ + +G
Sbjct: 184 ALVSGGTV---NAAIERHPRDRLRMEV-SDTGKEAVTHYRLRER--FRAHTALECRLDTG 237
Query: 240 RPHQIRIHLAFLGHPLLGDPLYVAGGQPKSFDSEFADGTFAQDGGYERPVNPVPGDCGYY 299
R HQIR+H+A L HP++GD LY GG K D A G++R
Sbjct: 238 RTHQIRVHMAHLRHPIVGDRLY--GGSLK-LPKGGTDALVAMLRGFKRQA---------- 284
Query: 300 LHAYQLFLSHPTTNEVIKITAPLPSVL 326
LHA L HP ++I AP+P L
Sbjct: 285 LHAEVLEFLHPVRALPVRIVAPVPEDL 311
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 0.137 0.406
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 139,745,539
Number of Sequences: 539616
Number of extensions: 6341299
Number of successful extensions: 15302
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 124
Number of HSP's successfully gapped in prelim test: 22
Number of HSP's that attempted gapping in prelim test: 14787
Number of HSP's gapped (non-prelim): 177
length of query: 353
length of database: 191,569,459
effective HSP length: 118
effective length of query: 235
effective length of database: 127,894,771
effective search space: 30055271185
effective search space used: 30055271185
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: 62 (28.5 bits)