BLASTP 2.2.18 [Mar-02-2008] 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= 0188.0034.p (205 letters) Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF 2,715,099 sequences; 757,237,578 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value ref|ZP_00061912.1| COG0101: Pseudouridylate synthase [Clostridiu... 153 2e-36 ref|ZP_00180216.1| hypothetical protein Mther190301 [Moorella th... 145 5e-34 ref|NP_388029.1| pseudouridylate synthase I [Bacillus subtilis] ... 144 1e-33 ref|NP_691071.1| tRNA pseudouridine synthase A [Oceanobacillus i... 141 1e-32 ref|NP_654085.1| PseudoU_synth_1, tRNA pseudouridine synthase [B... 139 4e-32 >ref|ZP_00061912.1| COG0101: Pseudouridylate synthase [Clostridium thermocellum ATCC 27405] Length = 281 Score = 153 bits (387), Expect = 2e-36, Method: Compositional matrix adjust. Identities = 85/200 (42%), Positives = 115/200 (57%), Gaps = 10/200 (5%) Query: 1 VHAYGQPFNFLTASKIPLERWCLALNARLPQDIVVTEAREVPLEFHSRRGAKRKTYRYTI 60 VHA GQ NF+T S IP +R+ ALN LP DIV+ E++EV ++FH+R AK K YRY I Sbjct: 92 VHALGQVANFITNSGIPGDRFSYALNRMLPDDIVIKESQEVDMDFHARYKAKGKRYRYLI 151 Query: 61 NGNRFPDPFQRRLQYHHPVKLDLPAMQQGLAHIIGTHDFTSFASRKSTKTSHVRTIFEAH 120 ++FP R YH KLD +MQ+ ++ +GTHDF++F S S+ + VRTI + Sbjct: 152 YNSQFPSALLRHRTYHVSHKLDFESMQRAASYFLGTHDFSAFRSSGSSAKTSVRTITDVS 211 Query: 121 MEVDRSMCRNGTADQGVIDTYITGSGFLQHMVRIIMGTLIHVGEGKIRAEXXXXXXXXXX 180 +E + ++ I G GFL +MVRII+GTL+ VG GKIRA+ Sbjct: 212 LE----------REDKIVKFEIAGDGFLYNMVRIIVGTLMEVGIGKIRADEIPQIIESRK 261 Query: 181 XXXXGPTAVAQGLALWSVEY 200 G TA A+GL L V Y Sbjct: 262 RKRAGRTAPAEGLYLVEVYY 281 >ref|ZP_00180216.1| hypothetical protein Mther190301 [Moorella thermoacetica ATCC 39073] Length = 246 Score = 145 bits (367), Expect = 5e-34, Method: Compositional matrix adjust. Identities = 86/200 (43%), Positives = 111/200 (55%), Gaps = 10/200 (5%) Query: 1 VHAYGQPFNFLTASKIPLERWCLALNARLPQDIVVTEAREVPLEFHSRRGAKRKTYRYTI 60 VHA GQ +F T ++IP+ERW LALN+ LP DI EA EV +FH+R AKRK YRYTI Sbjct: 57 VHARGQVISFSTRARIPVERWPLALNSVLPADIAALEAVEVAPDFHARYCAKRKWYRYTI 116 Query: 61 NGNRFPDPFQRRLQYHHPVKLDLPAMQQGLAHIIGTHDFTSFASRKSTKTSHVRTIFEAH 120 NR PD F RR +H LD+ AM + A++ G HDF SF + S R + +A Sbjct: 117 YNNRVPDVFCRRYSWHLRQPLDVIAMARAAAYLQGCHDFRSFCAAGSPVRHFERQVQQA- 175 Query: 121 MEVDRSMCRNGTADQGVIDTYITGSGFLQHMVRIIMGTLIHVGEGKIRAEXXXXXXXXXX 180 S+ +NG I + GFL HMVRI++GTL+ +G ++ E Sbjct: 176 -----SVSQNGP----FIYFDVIADGFLYHMVRIMVGTLVEIGRRRLVPEAIPAILAARS 226 Query: 181 XXXXGPTAVAQGLALWSVEY 200 GPTA A+GL L VEY Sbjct: 227 REKAGPTAPARGLCLERVEY 246 >ref|NP_388029.1| pseudouridylate synthase I [Bacillus subtilis] sp|P70973|TRUA_BACSU tRNA pseudouridine synthase A (Pseudouridylate synthase I) (Pseudouridine synthase I) (Uracil hydrolyase) pir||F69726 pseudouridylate synthase I truA - Bacillus subtilis dbj|BAA10987.1| unknown [Bacillus subtilis] emb|CAB11924.1| pseudouridylate synthase I [Bacillus subtilis subsp. subtilis str. 168] Length = 247 Score = 144 bits (362), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 84/201 (41%), Positives = 107/201 (53%), Gaps = 10/201 (4%) Query: 1 VHAYGQPFNFLTASKIPLERWCLALNARLPQDIVVTEAREVPLEFHSRRGAKRKTYRYTI 60 VHA GQ +F T IP ERW ALNA LP DI V +A FH+R A +K YRY + Sbjct: 56 VHAAGQVIHFDTPLSIPAERWPYALNALLPDDIAVKQAEIADDGFHARFSAVKKEYRYFV 115 Query: 61 NGNRFPDPFQRRLQYHHPVKLDLPAMQQGLAHIIGTHDFTSFASRKSTKTSHVRTIFEAH 120 + PD F+R YH +L++ M++ H IGTHDFTSF + K+ VRTI+ Sbjct: 116 YTEKHPDVFKRHYAYHFSYRLNVQDMREAAKHPIGTHDFTSFCAAKTEVQDKVRTIY--- 172 Query: 121 MEVDRSMCRNGTADQGVIDTYITGSGFLQHMVRIIMGTLIHVGEGKIRAEXXXXXXXXXX 180 E+D + +G + ITGSGFL +MVRII GTL+ G GKI + Sbjct: 173 -ELDWTETADG------LQMRITGSGFLYNMVRIIAGTLLDAGIGKISPDEVKSMLEAKD 225 Query: 181 XXXXGPTAVAQGLALWSVEYD 201 TA GL LW+V YD Sbjct: 226 REAAERTAPGHGLYLWNVYYD 246 >ref|NP_691071.1| tRNA pseudouridine synthase A [Oceanobacillus iheyensis HTE831] sp|Q8CXP1|TRUA_OCEIH tRNA pseudouridine synthase A (Pseudouridylate synthase I) (Pseudouridine synthase I) (Uracil hydrolyase) dbj|BAC12106.1| tRNA pseudouridine synthase A [Oceanobacillus iheyensis HTE831] Length = 253 Score = 141 bits (355), Expect = 1e-32, Method: Compositional matrix adjust. Identities = 84/205 (40%), Positives = 107/205 (52%), Gaps = 11/205 (5%) Query: 1 VHAYGQPFNFLTASKIPLERWCLALNARLPQDIVVTEAREVPLEFHSRRGAKRKTYRYTI 60 VHA GQ +F + +IP W ALN LP D+ + + + EFH+R K K Y Y + Sbjct: 56 VHAVGQVIHFDSPLEIPERNWKQALNTLLPDDVRIQKVEKKTEEFHARYSVKEKEYHYFV 115 Query: 61 NGNRFPDPFQRRLQYHHPVKLDLPAMQQGLAHIIGTHDFTSFASRKST-KTSHVRTIFEA 119 P+ FQR YH P KLDL MQ+ ++ GTHDFTSF+S KS+ K S VRT++ Sbjct: 116 LNEEDPNVFQRGYVYHEPRKLDLERMQEACQYLEGTHDFTSFSSAKSSVKGSKVRTLYHV 175 Query: 120 HMEVDRSMCRNGTADQGVIDTYITGSGFLQHMVRIIMGTLIHVGEGKIRAEXXXXXXXXX 179 S + GT I+ GSGFL +MVRI+M LI VG+GK E Sbjct: 176 ------SCHQTGTN----IEFIFRGSGFLYNMVRIMMSVLIDVGKGKRNPEDIIDLLASK 225 Query: 180 XXXXXGPTAVAQGLALWSVEYDEAG 204 G T QGL LW V Y+E G Sbjct: 226 NRQQIGKTMAPQGLYLWRVSYEENG 250 >ref|NP_654085.1| PseudoU_synth_1, tRNA pseudouridine synthase [Bacillus anthracis A2012] Length = 252 Score = 139 bits (350), Expect = 4e-32, Method: Compositional matrix adjust. Identities = 76/201 (37%), Positives = 112/201 (55%), Gaps = 10/201 (4%) Query: 1 VHAYGQPFNFLTASKIPLERWCLALNARLPQDIVVTEAREVPLEFHSRRGAKRKTYRYTI 60 VHA GQ +F T + +W ALN LP DIV+T+ + EFH+R G +RK YRY + Sbjct: 61 VHAKGQVIHFDTPLSLEEWQWSNALNTMLPDDIVITQVEKKTEEFHARYGVERKEYRYRV 120 Query: 61 NGNRFPDPFQRRLQYHHPVKLDLPAMQQGLAHIIGTHDFTSFASRKSTKTSHVRTIFEAH 120 ++ D F+R Y +P L++ ++++ + + IGTHDFTSF S K+ K VRTI+E Sbjct: 121 LVSKTADVFRRNYVYQYPYPLEVNSIRKAIPYFIGTHDFTSFCSAKTDKKDKVRTIYEIE 180 Query: 121 MEVDRSMCRNGTADQGVIDTYITGSGFLQHMVRIIMGTLIHVGEGKIRAEXXXXXXXXXX 180 + D +I ++ G+GFL +MVRII+GTL++VG+GK+ + Sbjct: 181 L---------IEQDDELIFRFV-GNGFLYNMVRIIVGTLLNVGQGKLDPDSIPEILAKQN 230 Query: 181 XXXXGPTAVAQGLALWSVEYD 201 G A GL LW V Y+ Sbjct: 231 RQFAGKMAPGHGLYLWQVNYN 251 Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF Posted date: Mar 24, 2004 1:53 AM Number of letters in database: 757,237,578 Number of sequences in database: 2,715,099 Lambda K H 0.323 0.137 0.419 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 2715099 Number of Hits to DB: 279,254,337 Number of extensions: 10589985 Number of successful extensions: 17264 Number of sequences better than 1.0e-05: 469 Number of HSP's gapped: 16763 Number of HSP's successfully gapped: 469 Length of query: 205 Length of database: 757,237,578 Length adjustment: 120 Effective length of query: 85 Effective length of database: 431,425,698 Effective search space: 36671184330 Effective search space used: 36671184330 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 123 (52.0 bits)