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= 026204
(241 letters)
Database: swissprot
539,616 sequences; 191,569,459 total letters
Searching..................................................done
>sp|Q3ECD0|PUS2_ARATH RNA pseudourine synthase 2, chloroplastic OS=Arabidopsis thaliana
GN=At1g76050 PE=2 SV=1
Length = 430
Score = 349 bits (896), Expect = 8e-96, Method: Compositional matrix adjust.
Identities = 175/221 (79%), Positives = 191/221 (86%), Gaps = 4/221 (1%)
Query: 25 VSHNVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGT 84
VSHNVK GD VNCTISELQPL+AEAEDIPLDIVYED +VLVVNKPAHMVVHPAPGN TGT
Sbjct: 119 VSHNVKSGDEVNCTISELQPLKAEAEDIPLDIVYEDKHVLVVNKPAHMVVHPAPGNPTGT 178
Query: 85 LVNGILHHCSLPTLASSNQEAFSDAE--DISDDEEFSSSIS--GASIRPGIVHRLDKGTS 140
LVNGILHHCSLP + SN E D++ SDDEE ++S S AS+RPGIVHRLDKGT+
Sbjct: 179 LVNGILHHCSLPCVDYSNSEEDDDSDEETFSDDEEMTTSPSSYAASVRPGIVHRLDKGTT 238
Query: 141 GLLVVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAI 200
GLLVVAKDEHSHAHL+EQFKLHTIERVY+SLT+GVPS GRIE+PI RD +NRIRMAAI
Sbjct: 239 GLLVVAKDEHSHAHLAEQFKLHTIERVYVSLTTGVPSPPQGRIEIPIGRDSSNRIRMAAI 298
Query: 201 PGSNKHGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQ 241
PG + G+ARHAASRYKVIE AGGGSALVEWRLETGRTHQ
Sbjct: 299 PGGVRGGRARHAASRYKVIETFAGGGSALVEWRLETGRTHQ 339
>sp|Q5Z8P2|PUS2_ORYSJ RNA pseudourine synthase 2, chloroplastic OS=Oryza sativa subsp.
japonica GN=Os06g0717400 PE=2 SV=1
Length = 445
Score = 317 bits (813), Expect = 4e-86, Method: Compositional matrix adjust.
Identities = 163/230 (70%), Positives = 179/230 (77%), Gaps = 14/230 (6%)
Query: 25 VSHNVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGT 84
VSH VKGGD+V+CT+ ELQPLRAE EDIPLDIVYEDD++LVVNKPAHMVVHPAPGNA GT
Sbjct: 111 VSHMVKGGDIVSCTVLELQPLRAEPEDIPLDIVYEDDHLLVVNKPAHMVVHPAPGNANGT 170
Query: 85 LVNGILHHCSLPTLASSNQEAFSDAEDISDDE-------------EFSSSISGASIRPGI 131
LVN ILHHC + T + + D S D+ E SS + A +RPGI
Sbjct: 171 LVNAILHHCKISTFTCLARNSIDDECPDSSDDDIDVFDIDQFTTGEVSSEVREALVRPGI 230
Query: 132 VHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDP 191
VHRLDKGTSGLLVVAKDEHSHA L+EQFKLHTI RVYISLT G P+ +SGRIEVPI+RDP
Sbjct: 231 VHRLDKGTSGLLVVAKDEHSHAQLAEQFKLHTIRRVYISLTCGAPNPNSGRIEVPIARDP 290
Query: 192 NNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQ 241
NNRIRM A PGS H ARHAASRYKV E+ AGGGSALVEWRLETGRTHQ
Sbjct: 291 NNRIRMIATPGSG-HRYARHAASRYKVREVFAGGGSALVEWRLETGRTHQ 339
>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 = 151 bits (381), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 91/214 (42%), Positives = 124/214 (57%), Gaps = 30/214 (14%)
Query: 28 NVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVN 87
+K D I +P E +DIPL+IV+ED+++LVVNKPA MVVHPA GN TLVN
Sbjct: 56 KIKSLDCFTVDIPLPRPAHNEPQDIPLEIVFEDEHLLVVNKPAGMVVHPAAGNYDNTLVN 115
Query: 88 GILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAK 147
+L+HC+ S I G + RPGIVHR+DK TSGLLVVAK
Sbjct: 116 ALLYHCAGKL----------------------SGIGGVA-RPGIVHRIDKDTSGLLVVAK 152
Query: 148 DEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHG 207
+ +HA L+ QF H+I R Y ++ G PS G ++ P++R NR +MA + G
Sbjct: 153 TDPAHAGLAAQFADHSINRRYRAIVDGHPSL-QGHVDAPLARSSVNRQKMAIV----SDG 207
Query: 208 QARHAASRYKVIEILAGGGSALVEWRLETGRTHQ 241
+ + A + Y++I L ++L+E RLETGRTHQ
Sbjct: 208 RGKRAVTHYRMITPLK--NASLIECRLETGRTHQ 239
>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 = 148 bits (374), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 87/216 (40%), Positives = 122/216 (56%), Gaps = 34/216 (15%)
Query: 26 SHNVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTL 85
S V+ G ++ TI P AE IPLD+VYED ++ V+NKPA MVVHPAPG+ GTL
Sbjct: 63 SQPVRPGAVIQLTIPPPIPTELVAEPIPLDVVYEDADIAVINKPAGMVVHPAPGHPRGTL 122
Query: 86 VNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVV 145
VN +L P LA G +RPGIVHRLD+ TSGLLV+
Sbjct: 123 VNALL--ARYPDLA-----------------------IGGELRPGIVHRLDRDTSGLLVI 157
Query: 146 AKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNK 205
A+ + + L +Q + + ++Y +L G P + +G I+ PI RDP +R+RMA +P
Sbjct: 158 ARHDQAMRSLVDQQQARRMRKIYQALVIGRPPE-TGTIDAPIGRDPRDRLRMAVVP---- 212
Query: 206 HGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQ 241
R A + Y++++ G +L+E +LETGRTHQ
Sbjct: 213 --DGRPARTHYRLLDTF--GDYSLLEVQLETGRTHQ 244
>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 = 148 bits (373), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 85/213 (39%), Positives = 122/213 (57%), Gaps = 29/213 (13%)
Query: 29 VKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNG 88
+K GD + I EL PL A++IPLDI+YED+ ++++NKPA +VVHP PG+ GT+VN
Sbjct: 73 LKTGDRLVVNIPELIPLDVVAQNIPLDILYEDEQLIIINKPAGLVVHPGPGHPDGTVVNA 132
Query: 89 ILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKD 148
+L HC P LA G RPGIVHRLDK T+G +VVAK
Sbjct: 133 LLAHC--PDLAG----------------------IGGVQRPGIVHRLDKDTTGAMVVAKT 168
Query: 149 EHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQ 208
E + +L Q K T R+Y + G P + G + +P+ R P +R +M +P K G
Sbjct: 169 ELALHNLQVQLKEKTARRLYWGIVYGSPKEIQGTVNLPVGRHPGDRQKMGIVP-VEKGG- 226
Query: 209 ARHAASRYKVIEILAGGGSALVEWRLETGRTHQ 241
R A + ++++E + G + +E++LETGRTHQ
Sbjct: 227 -REAVTHWRLLERI--GNHSWLEFQLETGRTHQ 256
>sp|Q45480|YLYB_BACSU Uncharacterized RNA pseudouridine synthase YlyB OS=Bacillus
subtilis (strain 168) GN=ylyB PE=3 SV=3
Length = 303
Score = 147 bits (371), Expect = 7e-35, Method: Compositional matrix adjust.
Identities = 89/219 (40%), Positives = 122/219 (55%), Gaps = 32/219 (14%)
Query: 23 LSVSHNVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNAT 82
+ ++ ++ GD V T+ E + L AE + LDI YED +VLVVNKP MVVHPAPG+ T
Sbjct: 49 VKANYKIQPGDQVTVTVPEPEALDVLAEPMDLDIYYEDQDVLVVNKPRGMVVHPAPGHLT 108
Query: 83 GTLVNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGL 142
GTLVNG++ HC+ D+ S I+G +RPGIVHR+DK TSGL
Sbjct: 109 GTLVNGLMAHCT----------------DL-------SGINGV-MRPGIVHRIDKDTSGL 144
Query: 143 LVVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPG 202
L+VAK++ +H L Q T+ R Y ++ G+ S G I+ PI RD +R M
Sbjct: 145 LMVAKNDMAHESLVNQLVNKTVTRKYTAVVHGLISHDDGTIDAPIGRDKKDRQSMTVT-- 202
Query: 203 SNKHGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQ 241
++A + + V+E LVE +LETGRTHQ
Sbjct: 203 ----RDGKNAVTHFHVLERFQ--DFTLVECQLETGRTHQ 235
>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 = 145 bits (365), Expect = 3e-34, Method: Compositional matrix adjust.
Identities = 90/218 (41%), Positives = 124/218 (56%), Gaps = 30/218 (13%)
Query: 26 SHNVKGGDMVNCTISELQPLRAE--AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATG 83
++ VK D ++ T L+P E EDIP+ I+YEDD+++V++K A MVVHPA GN TG
Sbjct: 49 NYRVKSCDHIHLTF--LRPPAPELAPEDIPITILYEDDDLMVIDKEAGMVVHPAFGNWTG 106
Query: 84 TLVNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLL 143
TL N ILHH DA+++ E +RPGIVHRLDK TSGL+
Sbjct: 107 TLANAILHHLG------------KDADELDKTE----------MRPGIVHRLDKDTSGLI 144
Query: 144 VVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGS 203
++AK+ + L+ QF +E+VY ++ GVP SG I+ I R NR MA P
Sbjct: 145 IIAKNPTALHKLARQFANRQVEKVYKAIVWGVPKAESGTIKTNIGRSHKNRKVMANFPYE 204
Query: 204 NKHGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQ 241
G +HA + Y+V+E L G +L++ L TGRTHQ
Sbjct: 205 GAEG--KHAITDYQVVEDL--GYFSLMDVTLHTGRTHQ 238
>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 = 134 bits (336), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 77/216 (35%), Positives = 118/216 (54%), Gaps = 30/216 (13%)
Query: 26 SHNVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTL 85
S ++ G+ V + E +PL + E+IP++I+YED+++ VV KP +VVHP+PG +GTL
Sbjct: 54 SRKLREGERVILHVPEPEPLDVKPENIPINIIYEDEDIAVVEKPCGLVVHPSPGYTSGTL 113
Query: 86 VNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVV 145
VN +L+H I D SSI G RPGIVHRLDK T+G++V+
Sbjct: 114 VNALLYH-------------------IKD----LSSIGGVE-RPGIVHRLDKETAGVMVI 149
Query: 146 AKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNK 205
AK+ +H +L QF+ E+ Y L G+ + G I+ PI+R P +R R
Sbjct: 150 AKNNTAHRNLVRQFQERKTEKFYKVLVKGLVKKDYGAIDTPIARHPVDRKRFWV------ 203
Query: 206 HGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQ 241
+ + A + Y V++ L++ ++ TGRTHQ
Sbjct: 204 RKEGKEALTEYWVLKRYEKYEITLLKVKIHTGRTHQ 239
>sp|Q8XYX8|RLUD_RALSO Ribosomal large subunit pseudouridine synthase D OS=Ralstonia
solanacearum (strain GMI1000) GN=rluD PE=3 SV=1
Length = 358
Score = 133 bits (334), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 85/221 (38%), Positives = 123/221 (55%), Gaps = 45/221 (20%)
Query: 29 VKGGDMVNCTISELQPLRAE------AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNAT 82
V GGD + E+ P RA+ AE + LD+VYEDD +LV+NKPA +VVHPA GN +
Sbjct: 90 VCGGDRI-----EVVPQRADDENAFVAEPVDLDVVYEDDTLLVINKPAGLVVHPAAGNWS 144
Query: 83 GTLVNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGL 142
GT++NG+LH + A + R GIVHRLDK TSGL
Sbjct: 145 GTVLNGLLHR-------------YPQAAGLP--------------RAGIVHRLDKETSGL 177
Query: 143 LVVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPG 202
+VVA+ + L Q + T++R Y++L G + +G I+ PI RDP +R RMA I
Sbjct: 178 MVVARTLPAQTDLVRQLQARTVKRTYLALVWG-ETPEAGTIDAPIGRDPRDRTRMAII-- 234
Query: 203 SNKHGQARHAASRYKVIEILAGGGS--ALVEWRLETGRTHQ 241
+ + A + +K ++++ G + +LV+ +LETGRTHQ
Sbjct: 235 --ETASGKPARTHFKTLDVVDLGRAQVSLVQCQLETGRTHQ 273
>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 = 131 bits (330), Expect = 4e-30, Method: Compositional matrix adjust.
Identities = 89/212 (41%), Positives = 118/212 (55%), Gaps = 36/212 (16%)
Query: 31 GGDMVNCTISELQP-LRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGI 89
GG+ + T+ + L E + LDIVYEDD V+VVNKPA +VVHPA GN TGTL+NG+
Sbjct: 81 GGEQIRVTVRPSEENLAFVPEPMALDIVYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGL 140
Query: 90 LHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDE 149
L HC P L S I R GIVHRLDK TSGL+VVAK
Sbjct: 141 LAHC--PEL---------------------SQIP----RAGIVHRLDKETSGLMVVAKTL 173
Query: 150 HSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQA 209
+ L Q + T++R+Y ++ +G+ G+IE I RDP+NR++MA + K G
Sbjct: 174 PAQNSLVWQLQERTVKRIYRAVANGI-VPFDGKIETQIGRDPHNRLKMAVV----KFG-G 227
Query: 210 RHAASRYKVIEILAGGGSALVEWRLETGRTHQ 241
+ A + KV+E + +E LETGRTHQ
Sbjct: 228 KPAVTHVKVLERYL--AHSYIECSLETGRTHQ 257
>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 = 131 bits (329), Expect = 5e-30, Method: Compositional matrix adjust.
Identities = 87/212 (41%), Positives = 117/212 (55%), Gaps = 36/212 (16%)
Query: 31 GGDMVNCTISELQP-LRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGI 89
GG+ + T+ + L E + LDIVYEDD V+VVNKPA +VVHPA GN TGTL+NG+
Sbjct: 81 GGEQICVTVRPSEENLAFVPEPMALDIVYEDDTVIVVNKPAGLVVHPAAGNWTGTLLNGL 140
Query: 90 LHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDE 149
L HC P L+ R GIVHRLDK TSGL+VVAK
Sbjct: 141 LAHC--PELSQVP-------------------------RAGIVHRLDKETSGLMVVAKTL 173
Query: 150 HSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQA 209
+ L Q + T++R+Y ++ +G+ G+IE I RDP+NR++MA + K G
Sbjct: 174 PAQNSLVRQLQERTVKRIYRAVANGI-VPFDGKIETQIGRDPHNRLKMAVV----KFG-G 227
Query: 210 RHAASRYKVIEILAGGGSALVEWRLETGRTHQ 241
+ A + KV+E + +E LETGRTHQ
Sbjct: 228 KPAVTHVKVLERYL--THSYIECSLETGRTHQ 257
>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 = 121 bits (303), Expect = 5e-27, Method: Compositional matrix adjust.
Identities = 81/214 (37%), Positives = 111/214 (51%), Gaps = 36/214 (16%)
Query: 28 NVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVN 87
V GG+ V + +R EA+DIPLDIVYEDD++LV+NKP +VVHP GN GT++N
Sbjct: 58 KVLGGERVAIDAEIDEEIRFEAQDIPLDIVYEDDDILVINKPRDLVVHPGAGNPDGTVLN 117
Query: 88 GILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAK 147
+LH+ P +A D+ R GIVHRLDK T+GL+VVAK
Sbjct: 118 ALLHYY--PPIA-----------DVP--------------RAGIVHRLDKDTTGLMVVAK 150
Query: 148 DEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHG 207
+ L E +L I R Y ++ G + + G + PISR P R M+ H
Sbjct: 151 TVPAQTRLVESLQLREITREYEAVAIGHMT-AGGTVNEPISRHPTKRTHMSV------HP 203
Query: 208 QARHAASRYKVIEILAGGGSALVEWRLETGRTHQ 241
+ A + Y+++E + RLETGRTHQ
Sbjct: 204 MGKPAVTHYRIMEHFR--VHTRLRLRLETGRTHQ 235
>sp|P65837|RLUD_SALTI Ribosomal large subunit pseudouridine synthase D OS=Salmonella
typhi GN=rluD PE=3 SV=2
Length = 326
Score = 121 bits (303), Expect = 5e-27, Method: Compositional matrix adjust.
Identities = 81/214 (37%), Positives = 111/214 (51%), Gaps = 36/214 (16%)
Query: 28 NVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVN 87
V GG+ V + +R EA+DIPLDIVYEDD++LV+NKP +VVHP GN GT++N
Sbjct: 58 KVLGGERVAIDAEIDEEIRFEAQDIPLDIVYEDDDILVINKPRDLVVHPGAGNPDGTVLN 117
Query: 88 GILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAK 147
+LH+ P +A D+ R GIVHRLDK T+GL+VVAK
Sbjct: 118 ALLHYY--PPIA-----------DVP--------------RAGIVHRLDKDTTGLMVVAK 150
Query: 148 DEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHG 207
+ L E +L I R Y ++ G + + G + PISR P R M+ H
Sbjct: 151 TVPAQTRLVESLQLREITREYEAVAIGHMT-AGGTVNEPISRHPTKRTHMSV------HP 203
Query: 208 QARHAASRYKVIEILAGGGSALVEWRLETGRTHQ 241
+ A + Y+++E + RLETGRTHQ
Sbjct: 204 MGKPAVTHYRIMEHFR--VHTRLRLRLETGRTHQ 235
>sp|Q9CKA6|RLUD_PASMU Ribosomal large subunit pseudouridine synthase D OS=Pasteurella
multocida (strain Pm70) GN=rluD PE=3 SV=1
Length = 324
Score = 120 bits (300), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 73/214 (34%), Positives = 108/214 (50%), Gaps = 36/214 (16%)
Query: 28 NVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVN 87
V GG+ + + R E E++PL+IVYEDD++LV+NKP VVHP GNA+GT++N
Sbjct: 57 KVYGGEQIEIVVEIDDDTRFEPENLPLNIVYEDDDILVINKPKDFVVHPGAGNASGTVLN 116
Query: 88 GILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAK 147
+L+H P +A R GIVHRLDK T+GL+V+AK
Sbjct: 117 ALLYHY--PAIAEVP-------------------------RAGIVHRLDKDTTGLMVIAK 149
Query: 148 DEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHG 207
+ L + I R Y ++ G+ ++ G ++ P++R P R MA H
Sbjct: 150 TIPAQTKLVRDLQKRKITREYEAIACGIMTK-GGMVDQPMARHPTKRTHMAV------HP 202
Query: 208 QARHAASRYKVIEILAGGGSALVEWRLETGRTHQ 241
+ A + Y+++E + RLETGRTHQ
Sbjct: 203 MGKPAVTHYRIMERFR--NYTRLRLRLETGRTHQ 234
>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 = 119 bits (299), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 77/214 (35%), Positives = 108/214 (50%), Gaps = 36/214 (16%)
Query: 28 NVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVN 87
++GG+ V + A +DIPL+++YEDD+VLV++KPA +VVHP GN GTLVN
Sbjct: 64 TLRGGETVQVQVVLETQTHAAPQDIPLNVLYEDDHVLVIDKPAGLVVHPGAGNPDGTLVN 123
Query: 88 GILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAK 147
+L P LA A R G+VHRLDK TSG++VVA+
Sbjct: 124 ALLFRD--PNLA-------------------------AVPRAGVVHRLDKDTSGVMVVAR 156
Query: 148 DEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHG 207
+ L EQ + R Y+++ G S G + PI R P +R++MA
Sbjct: 157 TLQAQTALVEQLSARDVHRQYLAVVVGA-LVSGGTADAPIDRHPRDRLKMAV------RD 209
Query: 208 QARHAASRYKVIEILAGGGSALVEWRLETGRTHQ 241
R A + Y++ E + +E RLETGRTHQ
Sbjct: 210 DGRDAVTHYRLRERFRAHTA--LECRLETGRTHQ 241
>sp|Q9ZL98|Y745_HELPJ Uncharacterized RNA pseudouridine synthase jhp_0682 OS=Helicobacter
pylori (strain J99) GN=jhp_0682 PE=3 SV=1
Length = 327
Score = 119 bits (297), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 74/215 (34%), Positives = 118/215 (54%), Gaps = 29/215 (13%)
Query: 29 VKGGDMVNCTISEL--QPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLV 86
+K GD + ++ +PL+ E D+ +++++ED+++LV+NKP ++VVH AP TLV
Sbjct: 52 LKEGDAITLLTPKIVPKPLKKEL-DLEIEVIFEDEDLLVLNKPPNLVVHKAPSVKEPTLV 110
Query: 87 NGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVA 146
+ L S N E S G R GIVHRLDK TSG +V+A
Sbjct: 111 DW---------LKSQNYEL---------------SNLGLKERYGIVHRLDKDTSGGIVIA 146
Query: 147 KDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKH 206
K+ +H LSEQ K + R YI+L S + +E ++R+PNNR++M A+ + K
Sbjct: 147 KNNFTHVCLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNRLKMIALKAAKKE 206
Query: 207 GQARHAASRYKVIEILAGGGSALVEWRLETGRTHQ 241
++R++ S + + + + G L+ +L TGRTHQ
Sbjct: 207 -KSRYSKSEFTSL-LTSQNGMDLIGAKLFTGRTHQ 239
>sp|Q8DEV0|RLUD_VIBVU Ribosomal large subunit pseudouridine synthase D OS=Vibrio
vulnificus (strain CMCP6) GN=rluD PE=3 SV=1
Length = 325
Score = 117 bits (292), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 78/215 (36%), Positives = 109/215 (50%), Gaps = 38/215 (17%)
Query: 28 NVKGGDMVNCTISELQ-PLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLV 86
V GG+++ ++EL+ +R EA+DIPLDIVYEDD++LV+NKP VVHP G GT++
Sbjct: 58 KVMGGEVITV-LAELEDEVRWEAQDIPLDIVYEDDDILVINKPRDFVVHPGAGTPDGTVL 116
Query: 87 NGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVA 146
N +L HC P +A R GIVHRLDK T+GL+VVA
Sbjct: 117 NALLFHC--PEVAEVP-------------------------RAGIVHRLDKDTTGLMVVA 149
Query: 147 KDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKH 206
K + L + I R Y ++ G + + G+++ PI R R MA P
Sbjct: 150 KTVPAQTRLVRALQKRNITREYEAIAIGRMT-AGGKVDKPIGRHATKRTLMAVSP----- 203
Query: 207 GQARHAASRYKVIEILAGGGSALVEWRLETGRTHQ 241
+ A + ++V E + RLETGRTHQ
Sbjct: 204 -MGKPAVTHFRVAEHFR--EHTRIRLRLETGRTHQ 235
>sp|Q82WZ5|RLUD_NITEU Ribosomal large subunit pseudouridine synthase D OS=Nitrosomonas
europaea (strain ATCC 19718 / NBRC 14298) GN=rluD PE=3
SV=1
Length = 344
Score = 115 bits (289), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 76/219 (34%), Positives = 115/219 (52%), Gaps = 37/219 (16%)
Query: 24 SVSHNVKGGDMVNCTISELQPLRA-EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNAT 82
+ V GG+ + + + ++ +AE IPL I++EDD++++++KPA +VVHP GN
Sbjct: 78 TCKQKVWGGESIRVIAGQTENDQSHQAEAIPLKILFEDDHLIIIDKPAGLVVHPGNGNWH 137
Query: 83 GTLVNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGL 142
GTL+N +L+H P L+ R GIVHRLDK T+GL
Sbjct: 138 GTLLNALLNHA--PQLSQVP-------------------------RAGIVHRLDKDTTGL 170
Query: 143 LVVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPG 202
LVVAK + L+ Q + T++R Y++L G + G ++ PI R P +R RMA +
Sbjct: 171 LVVAKTIEAQFDLARQLQQRTVKRHYLALVLG-KLEKDGVVDAPIGRHPIHRTRMAVV-- 227
Query: 203 SNKHGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQ 241
+ A + Y+V+E S L+ LETGRTHQ
Sbjct: 228 ----QNGKPARTHYRVLEKFT--ASTLLHCSLETGRTHQ 260
>sp|Q8X9F0|RLUD_ECO57 Ribosomal large subunit pseudouridine synthase D OS=Escherichia
coli O157:H7 GN=rluD PE=3 SV=3
Length = 326
Score = 115 bits (289), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 78/214 (36%), Positives = 109/214 (50%), Gaps = 36/214 (16%)
Query: 28 NVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVN 87
V GG+ V + R E +DIPLDIVYED++++V+NKP +VVHP GN GT++N
Sbjct: 58 KVLGGEQVAINAEIEEEARFEPQDIPLDIVYEDEDIIVINKPRDLVVHPGAGNPDGTVLN 117
Query: 88 GILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAK 147
+LH+ P +A D+ R GIVHRLDK T+GL+VVAK
Sbjct: 118 ALLHY--YPPIA-----------DVP--------------RAGIVHRLDKDTTGLMVVAK 150
Query: 148 DEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHG 207
+ L E + I R Y ++ G + + G ++ PISR P R MA H
Sbjct: 151 TVPAQTRLVESLQRREITREYEAVAIGHMT-AGGTVDEPISRHPTKRTHMAV------HP 203
Query: 208 QARHAASRYKVIEILAGGGSALVEWRLETGRTHQ 241
+ A + Y+++E + RLETGRTHQ
Sbjct: 204 MGKPAVTHYRIMEHFR--VHTRLRLRLETGRTHQ 235
>sp|P65835|RLUD_SHIFL Ribosomal large subunit pseudouridine synthase D OS=Shigella
flexneri GN=rluD PE=3 SV=2
Length = 326
Score = 115 bits (289), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 78/214 (36%), Positives = 109/214 (50%), Gaps = 36/214 (16%)
Query: 28 NVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVN 87
V GG+ V + R E +DIPLDIVYED++++V+NKP +VVHP GN GT++N
Sbjct: 58 KVLGGEQVAINAEIEEEARFEPQDIPLDIVYEDEDIIVINKPRDLVVHPGAGNPDGTVLN 117
Query: 88 GILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAK 147
+LH+ P +A D+ R GIVHRLDK T+GL+VVAK
Sbjct: 118 ALLHY--YPPIA-----------DVP--------------RAGIVHRLDKDTTGLMVVAK 150
Query: 148 DEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHG 207
+ L E + I R Y ++ G + + G ++ PISR P R MA H
Sbjct: 151 TVPAQTRLVESLQRREITREYEAVAIGHMT-AGGTVDEPISRHPTKRTHMAV------HP 203
Query: 208 QARHAASRYKVIEILAGGGSALVEWRLETGRTHQ 241
+ A + Y+++E + RLETGRTHQ
Sbjct: 204 MGKPAVTHYRIMEHFR--VHTRLRLRLETGRTHQ 235
>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 = 115 bits (289), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 78/214 (36%), Positives = 109/214 (50%), Gaps = 36/214 (16%)
Query: 28 NVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVN 87
V GG+ V + R E +DIPLDIVYED++++V+NKP +VVHP GN GT++N
Sbjct: 58 KVLGGEQVAINAEIEEEARFEPQDIPLDIVYEDEDIIVINKPRDLVVHPGAGNPDGTVLN 117
Query: 88 GILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAK 147
+LH+ P +A D+ R GIVHRLDK T+GL+VVAK
Sbjct: 118 ALLHY--YPPIA-----------DVP--------------RAGIVHRLDKDTTGLMVVAK 150
Query: 148 DEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHG 207
+ L E + I R Y ++ G + + G ++ PISR P R MA H
Sbjct: 151 TVPAQTRLVESLQRREITREYEAVAIGHMT-AGGTVDEPISRHPTKRTHMAV------HP 203
Query: 208 QARHAASRYKVIEILAGGGSALVEWRLETGRTHQ 241
+ A + Y+++E + RLETGRTHQ
Sbjct: 204 MGKPAVTHYRIMEHFR--VHTRLRLRLETGRTHQ 235
>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 (289), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 71/214 (33%), Positives = 113/214 (52%), Gaps = 36/214 (16%)
Query: 28 NVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVN 87
V GG+ + + +R E ++IPL+IV+EDD+++++NKP ++VVHP GN GT++N
Sbjct: 58 KVFGGEQIEIQAEIEEEIRFEPQNIPLNIVHEDDDIIIINKPKNLVVHPGAGNPDGTVLN 117
Query: 88 GILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAK 147
+L++ P +A R GI+HRLDK T+GL+VVAK
Sbjct: 118 ALLYYY--PPIAEVP-------------------------RAGIIHRLDKDTTGLMVVAK 150
Query: 148 DEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHG 207
+ + HL + I R Y ++ SG+ +Q G+++ P++R P R MA H
Sbjct: 151 NIPAQTHLVTALQKRRITREYEAIASGIMTQ-GGKVDEPMARHPTKRTAMAV------HP 203
Query: 208 QARHAASRYKVIEILAGGGSALVEWRLETGRTHQ 241
+ A + Y+++E + RLETGRTHQ
Sbjct: 204 MGKPAITHYRIMERFR--NYTRLRLRLETGRTHQ 235
>sp|P33643|RLUD_ECOLI Ribosomal large subunit pseudouridine synthase D OS=Escherichia
coli (strain K12) GN=rluD PE=1 SV=4
Length = 326
Score = 115 bits (288), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 77/214 (35%), Positives = 109/214 (50%), Gaps = 36/214 (16%)
Query: 28 NVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVN 87
V GG+ V + R E +DIPLDIVYED++++++NKP +VVHP GN GT++N
Sbjct: 58 KVLGGEQVAINAEIEEEARFEPQDIPLDIVYEDEDIIIINKPRDLVVHPGAGNPDGTVLN 117
Query: 88 GILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAK 147
+LH+ P +A D+ R GIVHRLDK T+GL+VVAK
Sbjct: 118 ALLHY--YPPIA-----------DVP--------------RAGIVHRLDKDTTGLMVVAK 150
Query: 148 DEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHG 207
+ L E + I R Y ++ G + + G ++ PISR P R MA H
Sbjct: 151 TVPAQTRLVESLQRREITREYEAVAIGHMT-AGGTVDEPISRHPTKRTHMAV------HP 203
Query: 208 QARHAASRYKVIEILAGGGSALVEWRLETGRTHQ 241
+ A + Y+++E + RLETGRTHQ
Sbjct: 204 MGKPAVTHYRIMEHFR--VHTRLRLRLETGRTHQ 235
>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 = 115 bits (287), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 73/214 (34%), Positives = 107/214 (50%), Gaps = 36/214 (16%)
Query: 28 NVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVN 87
V GG+ + + R EAE+IPL+IVYEDD+++V+NKP +VVHP GN GT++N
Sbjct: 57 KVLGGERIEIIVEVEDETRFEAENIPLNIVYEDDDIIVINKPKDLVVHPGAGNPNGTVLN 116
Query: 88 GILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAK 147
+L+H P + R GIVHRLDK T+GL+VVAK
Sbjct: 117 ALLYHY--PPIVEVP-------------------------RAGIVHRLDKDTTGLMVVAK 149
Query: 148 DEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHG 207
+ L + I R Y ++ SG+ ++ G ++ P++R R MA H
Sbjct: 150 TIPAQTKLVRDLQKRKITREYEAVASGIMTK-GGTVDQPMARHATKRTLMAV------HP 202
Query: 208 QARHAASRYKVIEILAGGGSALVEWRLETGRTHQ 241
+ A + Y+++E + RLETGRTHQ
Sbjct: 203 MGKPAVTHYRIME--NYRNYTRLRLRLETGRTHQ 234
>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 = 114 bits (286), Expect = 4e-25, Method: Compositional matrix adjust.
Identities = 74/193 (38%), Positives = 104/193 (53%), Gaps = 36/193 (18%)
Query: 49 AEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSD 108
A+DI L+IVYED+++LV++KPA +VVHPA G+ GTL+N +L+H P +A+
Sbjct: 78 AQDIELEIVYEDEHILVIDKPAGLVVHPAAGHQDGTLLNALLYHV--PDIANVP------ 129
Query: 109 AEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVY 168
R GIVHRLDK T+GL+VVAK +H L Q + ++ R+Y
Sbjct: 130 -------------------RAGIVHRLDKDTTGLMVVAKTLEAHTKLVAQLQARSVSRIY 170
Query: 169 ISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSA 228
++ GV + S G I+ PI R R +MA + A S Y+V+E
Sbjct: 171 EAIVIGVIT-SGGTIDAPIGRHGVQRQKMAVVDAGKV------AVSHYRVLERFRAHTHT 223
Query: 229 LVEWRLETGRTHQ 241
V +LETGRTHQ
Sbjct: 224 RV--KLETGRTHQ 234
>sp|Q8ZBV7|RLUD_YERPE Ribosomal large subunit pseudouridine synthase D OS=Yersinia pestis
GN=rluD PE=3 SV=1
Length = 325
Score = 114 bits (286), Expect = 5e-25, Method: Compositional matrix adjust.
Identities = 75/214 (35%), Positives = 108/214 (50%), Gaps = 36/214 (16%)
Query: 28 NVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVN 87
V GG++V + R ++IPLDIVYED+++LV+NKP +VVHP GN GT++N
Sbjct: 58 KVLGGELVAIDAQIEEDARWAPQEIPLDIVYEDNDILVINKPRGLVVHPGAGNPDGTVLN 117
Query: 88 GILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAK 147
+LH+ + + D+ R GIVHRLDK T+GL+VVAK
Sbjct: 118 ALLHY-------------YPEIMDVP--------------RAGIVHRLDKDTTGLMVVAK 150
Query: 148 DEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHG 207
+ L E + I R Y ++ G + + GR++ PISR R MA H
Sbjct: 151 TVPAQTRLVEALQAREITREYEAVAIGNMT-AGGRVDEPISRHSTKRTHMAV------HP 203
Query: 208 QARHAASRYKVIEILAGGGSALVEWRLETGRTHQ 241
+ A + Y+++E + RLETGRTHQ
Sbjct: 204 MGKPATTHYRIMEHFR--AHTRLRLRLETGRTHQ 235
>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 = 114 bits (284), Expect = 7e-25, Method: Compositional matrix adjust.
Identities = 75/214 (35%), Positives = 103/214 (48%), Gaps = 36/214 (16%)
Query: 28 NVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVN 87
V GG+ + R EA+DIPLDIVYEDD+++V+NKP VVHP G GT++N
Sbjct: 58 KVMGGEEITLQAELEDEERWEAQDIPLDIVYEDDDIIVINKPRDFVVHPGAGTPDGTVLN 117
Query: 88 GILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAK 147
+LHH + D ++ R GIVHRLDK T+GL+VVAK
Sbjct: 118 ALLHH-------------YPDIAEVP--------------RAGIVHRLDKDTTGLMVVAK 150
Query: 148 DEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHG 207
+ L + I R Y ++ G + + G+++ PI R R MA P
Sbjct: 151 TVPAQTRLVRALQKRNITREYEAIAIGRMT-AGGKVDQPIGRHSTKRTLMAVAP------ 203
Query: 208 QARHAASRYKVIEILAGGGSALVEWRLETGRTHQ 241
+ A + Y+V E + RLETGRTHQ
Sbjct: 204 LGKPAVTHYRVAEHFR--EHTRIRLRLETGRTHQ 235
>sp|O25441|Y745_HELPY Uncharacterized RNA pseudouridine synthase HP_0745 OS=Helicobacter
pylori (strain ATCC 700392 / 26695) GN=HP_0745 PE=3 SV=1
Length = 327
Score = 114 bits (284), Expect = 8e-25, Method: Compositional matrix adjust.
Identities = 72/216 (33%), Positives = 116/216 (53%), Gaps = 31/216 (14%)
Query: 29 VKGGDMVNCTISEL--QPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLV 86
+K GD + ++ +PL+ E D+ +++++ED+++LV+NKP ++VVH A TLV
Sbjct: 52 LKEGDEITLLTPKITPKPLKKEL-DLEIEVIFEDEDLLVLNKPPNLVVHKALSVKEPTLV 110
Query: 87 NGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVA 146
D + + + S G R GIVHRLDK TSG +V+A
Sbjct: 111 ------------------------DWLEFKNYELSNLGLKERYGIVHRLDKDTSGGIVIA 146
Query: 147 KDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKH 206
K+ +H HLSEQ K + R YI+L S + +E ++R+PNNR++M A+ K
Sbjct: 147 KNNFTHVHLSEQLKTKMMGRYYIALLSTPLKEEKMSVECYLTRNPNNRLKMIALKAVKKE 206
Query: 207 GQARHAASRYKVIEILAGGGSA-LVEWRLETGRTHQ 241
++R++ S + I +L + L+ +L TGRTHQ
Sbjct: 207 -KSRYSKSEF--ISLLTSQNNLNLIGAKLFTGRTHQ 239
>sp|Q9PET9|RLUD_XYLFA Ribosomal large subunit pseudouridine synthase D OS=Xylella
fastidiosa (strain 9a5c) GN=rluD PE=3 SV=1
Length = 331
Score = 113 bits (283), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 77/213 (36%), Positives = 106/213 (49%), Gaps = 36/213 (16%)
Query: 29 VKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNG 88
V GG++V + A +DIPLDI+YED++V V+NKPA +VVHP GN GTLVN
Sbjct: 65 VYGGEVVRLQVVPDIRTDAVPQDIPLDILYEDEHVFVLNKPAGLVVHPGAGNPDGTLVNA 124
Query: 89 ILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKD 148
+LH P LA A R G+VHRLDK TSG++VVA+
Sbjct: 125 LLHRD--PALA-------------------------AVPRAGVVHRLDKDTSGVMVVART 157
Query: 149 EHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQ 208
+ L EQ + R Y+++ S G + I R P +R+RMA
Sbjct: 158 LQAQTALVEQLSSRQVHRQYLAVVVSA-LVSGGTVNAAIERHPRDRLRMAV------SDT 210
Query: 209 ARHAASRYKVIEILAGGGSALVEWRLETGRTHQ 241
+ A + Y++ E + +E RL+TGRTHQ
Sbjct: 211 GKEAVTHYRLRERFRAHTA--LECRLDTGRTHQ 241
>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 = 113 bits (282), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 75/214 (35%), Positives = 104/214 (48%), Gaps = 36/214 (16%)
Query: 28 NVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVN 87
++GG+ V + A +DIPL ++YED+ VLV++KPA +VVHP GN TLVN
Sbjct: 64 TLRGGESVQVQVVLETQTHAAPQDIPLSVLYEDEQVLVIDKPAGLVVHPGAGNPDRTLVN 123
Query: 88 GILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAK 147
+L P LAS R G+VHRLDK TSG++VVA+
Sbjct: 124 ALLFRD--PALASVP-------------------------RAGVVHRLDKDTSGVMVVAR 156
Query: 148 DEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHG 207
+ L EQ + R Y+++ G S G PI R P +R++MA
Sbjct: 157 TVQAQTALVEQLSAREVHRQYLAVVVGA-LVSGGTANAPIDRHPRDRLKMAV------RD 209
Query: 208 QARHAASRYKVIEILAGGGSALVEWRLETGRTHQ 241
R A + Y++ E + +E RLETGRTHQ
Sbjct: 210 DGRDAVTHYRLRERFRAHTA--LECRLETGRTHQ 241
>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 = 111 bits (277), Expect = 6e-24, Method: Compositional matrix adjust.
Identities = 77/215 (35%), Positives = 109/215 (50%), Gaps = 40/215 (18%)
Query: 29 VKGGDMVNCTISELQPLRAEA--EDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLV 86
V GG++V + + +R +A +DIPLDI+YED++V V+NKPA +VVHP GN GTLV
Sbjct: 65 VYGGEVVWLQV--MPDIRTDAVPQDIPLDILYEDEHVFVINKPAGLVVHPGAGNPDGTLV 122
Query: 87 NGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVA 146
N +LH P LA A R G+VHRLDK TSG++VVA
Sbjct: 123 NALLHRD--PALA-------------------------AVPRAGVVHRLDKDTSGVMVVA 155
Query: 147 KDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKH 206
+ + L EQ + R Y+++ S G + I R P +R+RM
Sbjct: 156 RTLQAQTALVEQLSSRQVHRQYLAVVVSA-LVSGGTVNAAIERHPRDRLRMEV------S 208
Query: 207 GQARHAASRYKVIEILAGGGSALVEWRLETGRTHQ 241
+ A + Y++ E + +E RL+TGRTHQ
Sbjct: 209 DTGKEAVTHYRLRERFRAHTA--LECRLDTGRTHQ 241
>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 = 109 bits (272), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 72/214 (33%), Positives = 103/214 (48%), Gaps = 36/214 (16%)
Query: 28 NVKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVN 87
V GG+++ R EA+D+PL+IVYEDD+++V+NKP VVHP G A T++N
Sbjct: 58 KVMGGEVITVQAELEDEQRWEAQDLPLNIVYEDDDIIVINKPRDFVVHPGAGQADKTVLN 117
Query: 88 GILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAK 147
+L H +S ++ R GIVHRLDK T+GL+VVAK
Sbjct: 118 ALLFH-------------YSPIAEVP--------------RAGIVHRLDKDTTGLMVVAK 150
Query: 148 DEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHG 207
+ L + + R Y ++ G + + G I+ PI R R M+ P
Sbjct: 151 TVPAQTRLVRALQKRDVTREYEAIVIGTMT-AGGMIDKPIGRHSTKRTLMSVSP------ 203
Query: 208 QARHAASRYKVIEILAGGGSALVEWRLETGRTHQ 241
+HA + Y+V E + RLETGRTHQ
Sbjct: 204 MGKHAVTHYRVAEHFR--EHTRLRLRLETGRTHQ 235
>sp|P70870|RLUD_BORBU Ribosomal large subunit pseudouridine synthase D OS=Borrelia
burgdorferi (strain ATCC 35210 / B31 / CIP 102532 / DSM
4680) GN=rluD PE=3 SV=2
Length = 326
Score = 108 bits (269), Expect = 4e-23, Method: Compositional matrix adjust.
Identities = 69/202 (34%), Positives = 108/202 (53%), Gaps = 31/202 (15%)
Query: 40 SELQPLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLA 99
S++ LR +IP+ I+YED NV+V+NKP ++ HP + T+VN +L+H
Sbjct: 72 SQIDCLRPS--NIPIAIIYEDSNVIVLNKPQGILSHPGISHWDDTVVNFLLYHIK----- 124
Query: 100 SSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQF 159
+ I+ +EE IRPGIVHRLDK TSG+L+ AK+ + L++QF
Sbjct: 125 ---------SLKINFNEE--------KIRPGIVHRLDKDTSGVLICAKNISTLRFLAQQF 167
Query: 160 KLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVI 219
K +VYI++ G + G IE I RD +NR + + + + A + Y++
Sbjct: 168 KDKRTNKVYIAIVKGNFNSFFGSIESFIDRDKHNRKKFSV-----SKDRGKKALTEYRL- 221
Query: 220 EILAGGGSALVEWRLETGRTHQ 241
+L G +L+ + +TGRTHQ
Sbjct: 222 -LLNFGEYSLLALKPKTGRTHQ 242
>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 = 105 bits (262), Expect = 3e-22, Method: Compositional matrix adjust.
Identities = 71/192 (36%), Positives = 98/192 (51%), Gaps = 36/192 (18%)
Query: 50 EDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSDA 109
E+I LDIVYED ++L++NKPA +VVHP GN +GT++N +L+H + ++
Sbjct: 80 ENIFLDIVYEDSDILIINKPAGLVVHPGSGNKSGTILNALLYH-------------YKNS 126
Query: 110 EDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVYI 169
+D+ R GIVHRLDK TSGL+V+AK+ S+ HL K I R Y
Sbjct: 127 KDLP--------------RAGIVHRLDKDTSGLMVIAKNIFSYNHLLLLLKEKKIIREYE 172
Query: 170 SLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSAL 229
+ G + G I PI R N R M H + + + YKV+
Sbjct: 173 GIVHG-KMIAGGTINKPIMRHYNRRTCMMV------HHLGKPSVTHYKVLSRFKFHTH-- 223
Query: 230 VEWRLETGRTHQ 241
+ RLETGRTHQ
Sbjct: 224 IAIRLETGRTHQ 235
>sp|P54604|YHCT_BACSU Uncharacterized RNA pseudouridine synthase YhcT OS=Bacillus
subtilis (strain 168) GN=yhcT PE=3 SV=2
Length = 302
Score = 105 bits (262), Expect = 3e-22, Method: Compositional matrix adjust.
Identities = 77/236 (32%), Positives = 112/236 (47%), Gaps = 40/236 (16%)
Query: 13 VLALFLSMDKLSVSHN-------VKGGDMVNCTISELQPLRAEAEDIPLDIVYEDDNVLV 65
V+ ++S ++ V+H VK GD V + E + E LDI++ED+++L+
Sbjct: 35 VIQDWMSHQQIKVNHESVLNNMIVKKGDRVFIDLQESEASSVIPEYGELDILFEDNHMLI 94
Query: 66 VNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGA 125
+NKPA + HP TGTL N I +H I+G
Sbjct: 95 INKPAGIATHPNEDGQTGTLANLIAYHYQ---------------------------INGE 127
Query: 126 SIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEV 185
+ + VHRLD+ TSG +V AK +HA L +Q + T++R Y ++ G G I
Sbjct: 128 TCKVRHVHRLDQDTSGAIVFAKHRLAHAILDQQLEKKTLKRTYTAIAEGKLRTKKGTINS 187
Query: 186 PISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQ 241
PI RD ++ R PG GQ A + +KV+ A +LVE LETGRTHQ
Sbjct: 188 PIGRDRSHPTRRRVSPG----GQT--AVTHFKVMASNAKERLSLVELELETGRTHQ 237
>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 = 102 bits (254), Expect = 3e-21, Method: Compositional matrix adjust.
Identities = 69/194 (35%), Positives = 100/194 (51%), Gaps = 36/194 (18%)
Query: 48 EAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFS 107
+AE+I L+++YEDD++LV+NK + VVHP GN +GTL+N +LH
Sbjct: 79 QAENIFLNVIYEDDDILVINKQDNFVVHPGAGNTSGTLLNALLH---------------- 122
Query: 108 DAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERV 167
D F+ R GIVHRLDK T+GL+V+AK+ S+ L +Q K + R
Sbjct: 123 -----RDSTFFNIP------RAGIVHRLDKDTTGLMVIAKNNLSYMALIDQIKCKKVIRE 171
Query: 168 YISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGS 227
Y ++ G S G I I R+P R M NK G + A + Y++++
Sbjct: 172 YQAIVYG-KVISGGTIVKSIIRNPIKRTTMIV----NKCG--KRAITHYRILKRFTHHTH 224
Query: 228 ALVEWRLETGRTHQ 241
++ LETGRTHQ
Sbjct: 225 --LKIILETGRTHQ 236
>sp|P59838|RLUD_BLOFL Ribosomal large subunit pseudouridine synthase D OS=Blochmannia
floridanus GN=rluD PE=3 SV=1
Length = 321
Score = 98.6 bits (244), Expect = 4e-20, Method: Compositional matrix adjust.
Identities = 59/192 (30%), Positives = 101/192 (52%), Gaps = 34/192 (17%)
Query: 50 EDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSDA 109
++IPL+I+YED+++LV+NK ++MVVHP G+ GT++N +L+ P++ +++A
Sbjct: 82 QNIPLNIIYEDNDILVINKASNMVVHPGIGHYQGTVLNALLY--RYPSILKISKQA---- 135
Query: 110 EDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVYI 169
GIV RLDK T+GL+++AK ++ +L FKL + + Y
Sbjct: 136 --------------------GIVQRLDKDTTGLMIIAKTVSAYDNLLRSFKLRKVVKEYD 175
Query: 170 SLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSAL 229
++ G + ++G + P+ R R M+ H + A + Y V+E +
Sbjct: 176 AIVYGKFTSNAGVVNQPMRRHFAKRTFMSV------HYTGKSAVTYYSVVE--EFKAHSR 227
Query: 230 VEWRLETGRTHQ 241
V L+TGRTHQ
Sbjct: 228 VRINLKTGRTHQ 239
>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 = 98.2 bits (243), Expect = 5e-20, Method: Compositional matrix adjust.
Identities = 65/192 (33%), Positives = 91/192 (47%), Gaps = 36/192 (18%)
Query: 50 EDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSDA 109
++I L+ +YED N+L++NKP +VVHP GN GT++N +L+ +++
Sbjct: 80 QNIALNTIYEDSNILIINKPPGLVVHPGAGNQDGTILNALLYR-------------YTNI 126
Query: 110 EDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVYI 169
I R GI+HRLDK TSGL+V+AK S+ L K I R Y
Sbjct: 127 SSIP--------------RCGIIHRLDKDTSGLMVIAKTIFSYNKLVTLLKKRKIIRKYQ 172
Query: 170 SLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSAL 229
+ G S G + PI R P RI M + + + YK+I
Sbjct: 173 GIIKG-NMISGGIVNYPIMRHPFKRICMTT------DSLGKKSITHYKIINRFK--FHTH 223
Query: 230 VEWRLETGRTHQ 241
V +RLETGRTHQ
Sbjct: 224 VSFRLETGRTHQ 235
>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 = 95.5 bits (236), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 62/198 (31%), Positives = 101/198 (51%), Gaps = 36/198 (18%)
Query: 44 PLRAEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQ 103
P+ + D PLDI+YED+ ++VVNKP ++ HP N + +L+ L HC+ +Q
Sbjct: 70 PVEVQPYDFPLDILYEDEQIMVVNKPNGLISHPTSFNESESLLGAALFHCN-------HQ 122
Query: 104 EAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHT 163
F +VHRLD+ TSG++++AK++ S HL +Q +
Sbjct: 123 PVF------------------------LVHRLDRDTSGVIMLAKNQSSLLHLQKQLQQRV 158
Query: 164 IERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILA 223
++R Y++L SG I P+ R NN++ SNK A++A +++ V+
Sbjct: 159 MKRYYLALVHFPLDSLSGTISAPLERVGNNKVMWKVGNSSNK---AKNAFTKFTVLN--Q 213
Query: 224 GGGSALVEWRLETGRTHQ 241
+AL++ L TGRTHQ
Sbjct: 214 NEKAALIKCELLTGRTHQ 231
>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 = 93.6 bits (231), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 66/200 (33%), Positives = 101/200 (50%), Gaps = 37/200 (18%)
Query: 47 AEAEDIPLDI-----VYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASS 101
A ++ P+DI +Y DD+++ V+KPA + H + G T++ G LA++
Sbjct: 69 APLQNTPIDIEGMTILYSDDDIVAVDKPAAVAAHASVGWTGPTVLGG---------LAAA 119
Query: 102 NQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKL 161
+ + SG R GIVHRLD GTSG++VVA E ++ L FK
Sbjct: 120 G---------------YRITTSGVHERQGIVHRLDVGTSGVMVVAISERAYTVLKRAFKY 164
Query: 162 HTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEI 221
T+++ Y +L G P SSG I+ PI R + + A K+G RH+ + Y +E
Sbjct: 165 RTVDKRYHALVQGHPDPSSGTIDAPIGRHRGHEWKFAI----TKNG--RHSLTHYDTLEA 218
Query: 222 LAGGGSALVEWRLETGRTHQ 241
++L++ LETGRTHQ
Sbjct: 219 FV--AASLLDVHLETGRTHQ 236
>sp|P0A5T2|Y1540_MYCTU Uncharacterized RNA pseudouridine synthase Rv1540/MT1592
OS=Mycobacterium tuberculosis GN=Rv1540 PE=3 SV=1
Length = 308
Score = 93.6 bits (231), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 66/200 (33%), Positives = 101/200 (50%), Gaps = 37/200 (18%)
Query: 47 AEAEDIPLDI-----VYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASS 101
A ++ P+DI +Y DD+++ V+KPA + H + G T++ G LA++
Sbjct: 69 APLQNTPIDIEGMTILYSDDDIVAVDKPAAVAAHASVGWTGPTVLGG---------LAAA 119
Query: 102 NQEAFSDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKL 161
+ + SG R GIVHRLD GTSG++VVA E ++ L FK
Sbjct: 120 G---------------YRITTSGVHERQGIVHRLDVGTSGVMVVAISERAYTVLKRAFKY 164
Query: 162 HTIERVYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEI 221
T+++ Y +L G P SSG I+ PI R + + A K+G RH+ + Y +E
Sbjct: 165 RTVDKRYHALVQGHPDPSSGTIDAPIGRHRGHEWKFAI----TKNG--RHSLTHYDTLEA 218
Query: 222 LAGGGSALVEWRLETGRTHQ 241
++L++ LETGRTHQ
Sbjct: 219 FV--AASLLDVHLETGRTHQ 236
>sp|O31613|YJBO_BACSU Uncharacterized RNA pseudouridine synthase YjbO OS=Bacillus
subtilis (strain 168) GN=yjbO PE=3 SV=1
Length = 283
Score = 86.3 bits (212), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 66/227 (29%), Positives = 108/227 (47%), Gaps = 36/227 (15%)
Query: 16 LFLSMDKLSVSHNVKGGDMVNCTISELQPLRAE-AEDIPLDIVYEDDNVLVVNKPAHMVV 74
L ++ + ++V + +K GD++ E Q AE +PLDI+YED++VLV+NK ++
Sbjct: 27 LQINGEHVTVKYVLKEGDLLIVKFPEEQVSETLLAEPVPLDILYEDEHVLVINKQPYVSS 86
Query: 75 HPAPGNATGTLVNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIRPGIVHR 134
P+ + +G++ NGI+ H +G +V R
Sbjct: 87 IPSREHPSGSIANGIIDHYQ---------------------------TTGVRATVHLVTR 119
Query: 135 LDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPISRDPNNR 194
LD+ TSG+++VAK +H+ LS K ++R Y ++ G +Q G ++ PI R P++
Sbjct: 120 LDRDTSGIMLVAKHRFAHSILSSAQKNGLVKRRYAAVVHGRMAQMEGTVDAPIGRHPDSI 179
Query: 195 IRMAAIPGSNKHGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQ 241
I P K A + + V A V +LETGRTHQ
Sbjct: 180 IERTVTPDGQK------AVTHFYV--TCANDDMTSVALQLETGRTHQ 218
>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 = 80.1 bits (196), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 54/195 (27%), Positives = 97/195 (49%), Gaps = 37/195 (18%)
Query: 47 AEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAF 106
E ++ L++++ED +++V+NKP+ ++ HP N +L+ + H +N+
Sbjct: 73 VEPYNLKLEVLFEDKDLMVINKPSGLLTHPTTFNEKASLLAACIFH--------NNKNPV 124
Query: 107 SDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIER 166
+VHRLD+ TSG +VV K++ S +L Q + T++R
Sbjct: 125 Y-----------------------LVHRLDRDTSGAIVVCKNQASLLNLQNQLQNRTLKR 161
Query: 167 VYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGG 226
Y++L + +G I P++R NN++ M I + +A+ A +++KVI
Sbjct: 162 YYVALVHFPFNALTGSINAPLARVNNNKV-MFKIAQT---AKAKQAITKFKVIN--QNEK 215
Query: 227 SALVEWRLETGRTHQ 241
+AL+ L TGRTHQ
Sbjct: 216 AALISLELLTGRTHQ 230
>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 = 72.8 bits (177), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 46/133 (34%), Positives = 73/133 (54%), Gaps = 12/133 (9%)
Query: 112 ISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVYISL 171
+S + +S G P IVHRLD+ TSG L++A++ H LSE F +++ Y ++
Sbjct: 34 LSLENYLASLCFGFKRWPSIVHRLDRDTSGCLLLARNPKMHRRLSEAFSQGQVKKCYWAI 93
Query: 172 TSGVPSQSSGRIEVPISR--DPNNRIRMAAIPGSNKHGQARHAASRYKVIEILA-GGGSA 228
GVP ++ G I++P+ + P + R+ A + + A + + EILA G +
Sbjct: 94 LEGVPEKNEGIIDLPLLKISSPKSGWRIVA------DDKGKRAVTHW---EILAKNKGRS 144
Query: 229 LVEWRLETGRTHQ 241
LV +R ETGRTHQ
Sbjct: 145 LVAFRPETGRTHQ 157
>sp|Q6DBR0|RUSD4_DANRE RNA pseudouridylate synthase domain-containing protein 4 OS=Danio
rerio GN=rpusd4 PE=2 SV=1
Length = 358
Score = 70.9 bits (172), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 60/205 (29%), Positives = 97/205 (47%), Gaps = 51/205 (24%)
Query: 57 VYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSDAEDISDDE 116
+YED N++ +NKP + +H N G + + C LP LA I+D+
Sbjct: 92 LYEDQNIIAINKPYDVPLH----NING--IRNSIAEC-LPLLAK-----------ITDN- 132
Query: 117 EFSSSISGASIRPG----IVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVYISLT 172
+RPG + H+L+K T+G+L++AK E + H+ + H +E Y+++T
Sbjct: 133 ----------MRPGSQLHLCHKLEKETTGVLILAKTEEAAEHVQTLIQSHKVEMKYLAIT 182
Query: 173 SGVPSQSSGRIEVPISRD----PNNRIRMAAIP---------GSNK---HGQARHAASRY 216
GVP S G I++P+ P +MA P G + H QA A +RY
Sbjct: 183 VGVPVPSEGVIDIPVIERAVVGPQPHFKMALSPLFKVNEDGDGVTRVRAHRQAHAAVTRY 242
Query: 217 KVIEILAGGGSALVEWRLETGRTHQ 241
+V++ G +LVE + TG +Q
Sbjct: 243 QVLD--NTSGCSLVELQPLTGVKNQ 265
>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 = 70.5 bits (171), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 52/186 (27%), Positives = 87/186 (46%), Gaps = 36/186 (19%)
Query: 56 IVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSDAEDISDD 115
++YEDDN++ +NKPA + G+ V+ L + +
Sbjct: 91 LIYEDDNIIAINKPAGLATQG--GSKINLSVDSALKYLN--------------------- 127
Query: 116 EEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVYISLTSGV 175
GA + +VHRLDK TSGLL++AK+ S L + FK +E+ Y+++T G
Sbjct: 128 ------SQGADFK--LVHRLDKETSGLLLIAKNYVSSVKLHDAFKEKLVEKTYLAVTYGK 179
Query: 176 PSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSALVEWRLE 235
P + G ++ I + + ++ I +N + A + YK+++ L LVE+
Sbjct: 180 PIKDQGEVKTNIEKSKGSIPKITDINDNN----GKLAITYYKLLKSLT-NNLFLVEFIPI 234
Query: 236 TGRTHQ 241
TGR HQ
Sbjct: 235 TGRMHQ 240
>sp|Q8D8G1|RLUC_VIBVU Ribosomal large subunit pseudouridine synthase C OS=Vibrio
vulnificus (strain CMCP6) GN=rluC PE=3 SV=1
Length = 315
Score = 70.1 bits (170), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 59/195 (30%), Positives = 92/195 (47%), Gaps = 43/195 (22%)
Query: 47 AEAEDIPLDIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAF 106
AE +D+ I+YEDD++LV+NKP+ VH G L ++ L + EA
Sbjct: 90 AELQDL---IIYEDDHLLVLNKPSGTAVHGGSG----------LKFGAIEALRALRPEA- 135
Query: 107 SDAEDISDDEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIER 166
F +VHR+D+ TSG+L+VAK + HL QF+ T+++
Sbjct: 136 ----------RFLE----------LVHRIDRDTSGILLVAKKRSALRHLQAQFREKTVQK 175
Query: 167 VYISLTSGVPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGG 226
Y +L G S + P+ ++ N +I N +G+ + +R+KVIE
Sbjct: 176 YYFALVMGEWKNSCKVVNAPLLKNEVN-----SIVRVNPNGKP--SETRFKVIEKFP--Q 226
Query: 227 SALVEWRLETGRTHQ 241
+ LV+ TGRTHQ
Sbjct: 227 ATLVQASPITGRTHQ 241
>sp|Q4UKQ3|RLUC_RICFE Ribosomal large subunit pseudouridine synthase C OS=Rickettsia
felis (strain ATCC VR-1525 / URRWXCal2) GN=rluC PE=3
SV=1
Length = 305
Score = 69.7 bits (169), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 60/233 (25%), Positives = 101/233 (43%), Gaps = 49/233 (21%)
Query: 22 KLSVSHNVKGGDMV------NCTISELQPLRAEAEDIPLD-------IVYEDDNVLVVNK 68
K S VKGGD + N + + + L +I L ++YEDDN++ +NK
Sbjct: 44 KAEASLRVKGGDKIFINDKFNLPVKQPEKLVFTDAEIKLAKKITTDYLIYEDDNLIAINK 103
Query: 69 PAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSSSISGASIR 128
PA + G+ ++ L + + GA +
Sbjct: 104 PAGLATQG--GSKINLSIDSALKYLNY---------------------------KGADFK 134
Query: 129 PGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPIS 188
+VHRLDK TSGLL++AK+ S+ L + FK + + Y ++T G P ++ G + I
Sbjct: 135 --LVHRLDKETSGLLLIAKNYLSNVKLHDAFKEKLVVKTYFAVTYGKPIKNVGEVRSNIE 192
Query: 189 RDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQ 241
+ + ++ I N + A + YK+++ L L+E+ TGR HQ
Sbjct: 193 KSKGSTPKITDIYSEN----GKLAITYYKLLKSL-DNNLFLIEFTPVTGRMHQ 240
>sp|Q8DCG0|RLUA_VIBVU Ribosomal large subunit pseudouridine synthase A OS=Vibrio
vulnificus (strain CMCP6) GN=rluA PE=3 SV=1
Length = 250
Score = 68.6 bits (166), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 56/188 (29%), Positives = 87/188 (46%), Gaps = 36/188 (19%)
Query: 55 DIVYEDDNVLVVNKPAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSDAEDISD 114
+I++EDD++L VNKP+ ++ P G L HH S+ S QE + + +
Sbjct: 15 EIIFEDDHILAVNKPSGLLSVP------GRLPE---HHDSM---WSRLQEQYPEIQ---- 58
Query: 115 DEEFSSSISGASIRPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVYISLTSG 174
+VHRLD TSGL+V AK++ + A L +QF+ +VY + G
Sbjct: 59 ----------------VVHRLDMSTSGLMVFAKNKRAEAALKKQFQYRLTHKVYYARVWG 102
Query: 175 VPSQSSGRIEVPISRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSALVEWRL 234
SG I++P+ D NR ++HG+ A + E+ A G + L
Sbjct: 103 HVEADSGMIDLPLICDWPNRPMQKV---CHEHGKPSQTAFQVAKREVHANGAQTTIMRLL 159
Query: 235 E-TGRTHQ 241
TGR+HQ
Sbjct: 160 PVTGRSHQ 167
>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 = 68.2 bits (165), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 63/234 (26%), Positives = 99/234 (42%), Gaps = 51/234 (21%)
Query: 22 KLSVSHNVKGGDMV------NCTISELQPLRAEAEDIPLD-------IVYEDDNVLVVNK 68
K S VKGGD + N + + + L +I L ++Y DDN++ +NK
Sbjct: 44 KAEASLRVKGGDKIFINDKFNLPVKQPEKLVFTDAEIKLAKKITTDYLIYADDNLIAINK 103
Query: 69 PAHMVVHPAPGNATGTLVNGILHHCSLPTLASSNQEAFSDAEDISDDEEFSS-SISGASI 127
PA + GT +N +S D + GA
Sbjct: 104 PAGLATQ------GGTKIN------------------------LSIDSALKYLNYKGADF 133
Query: 128 RPGIVHRLDKGTSGLLVVAKDEHSHAHLSEQFKLHTIERVYISLTSGVPSQSSGRIEVPI 187
+ +VHRLDK TSGLL++AK+ S L FK + + Y ++T G P ++ G + I
Sbjct: 134 K--LVHRLDKKTSGLLLIAKNYLSSVKLHNAFKEKLVVKTYFAVTYGKPIKNVGEVRSNI 191
Query: 188 SRDPNNRIRMAAIPGSNKHGQARHAASRYKVIEILAGGGSALVEWRLETGRTHQ 241
+ + ++ I N + A + YKV++ L L+E+ TGR HQ
Sbjct: 192 EKSKGSTPKITDIDSEN----GKLAITYYKVLKSL-DNNLFLIEFTPVTGRMHQ 240
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
0.315 0.131 0.371
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 90,063,899
Number of Sequences: 539616
Number of extensions: 3741851
Number of successful extensions: 8067
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 122
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 7744
Number of HSP's gapped (non-prelim): 231
length of query: 241
length of database: 191,569,459
effective HSP length: 114
effective length of query: 127
effective length of database: 130,053,235
effective search space: 16516760845
effective search space used: 16516760845
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 59 (27.3 bits)