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= 0001.1582.p (240 letters) Database: BlastDatabases/690/690 3295 sequences; 1,000,347 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|134094904|ref|YP_001099979.1| 16S rRNA pseudouridylate 516 sy... 392 e-111 gi|134095624|ref|YP_001100699.1| putative pseudouridylate syntha... 76 2e-15 gi|134095614|ref|YP_001100689.1| putative pseudouridine synthase... 70 9e-14 gi|134094557|ref|YP_001099632.1| putative pseudouridylate syntha... 69 2e-13 >gi|134094904|ref|YP_001099979.1| 16S rRNA pseudouridylate 516 synthase [Herminiimonas arsenicoxydans] Length = 244 Score = 392 bits (1008), Expect = e-111, Method: Compositional matrix adjust. Identities = 186/239 (77%), Positives = 204/239 (85%) Query: 1 MAKLTLDRILQSQGFGSRKYCRELIDDGEVSINGEVVDDYRATPDTSGLVLTIFEEEWEY 60 M+KLTLDRILQSQGFG+RKYCR LI+DGEVSING VVD+++ DT+ L TIF+E W Y Sbjct: 1 MSKLTLDRILQSQGFGTRKYCRGLIEDGEVSINGVVVDNFKTAVDTTDLEFTIFDEVWRY 60 Query: 61 REHVYIAINKPPNIECSRKPSHHPGVLTLLPEQFTWRDVQPVGRLDHDTTGLLLMSDDGA 120 REHVYI +NKP N ECSRKPSHHPGVLTLLPEQFTWRD+QPVGRLDHDTTG+LLMSDDG Sbjct: 61 REHVYIVLNKPANFECSRKPSHHPGVLTLLPEQFTWRDLQPVGRLDHDTTGMLLMSDDGP 120 Query: 121 FIHAQSSPKRHVPKVYAATTAEPVTEALIAQLKAGVQLHDEPAPLAATRCRQLGEKLLEI 180 FIHAQSSPKRH+PK+Y ATT +PVT LIAQL GVQLHDEPAPLAA CR L E +EI Sbjct: 121 FIHAQSSPKRHIPKIYVATTHDPVTPELIAQLLGGVQLHDEPAPLAAQTCRMLAEHQIEI 180 Query: 181 VLEQGKYHQVKRMLAAAGNHCSALRRTAIGGLQLDVLELEEGEWTYLDAQQMALLVPDA 239 VLEQGKYHQVKRMLAAAGNHCSAL R IG L L+ L LEEGEWTYLDA+Q+ALL P A Sbjct: 181 VLEQGKYHQVKRMLAAAGNHCSALNRAEIGELTLESLGLEEGEWTYLDAEQLALLRPSA 239 >gi|134095624|ref|YP_001100699.1| putative pseudouridylate synthase [Herminiimonas arsenicoxydans] Length = 186 Score = 75.9 bits (185), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 68/187 (36%), Positives = 86/187 (45%), Gaps = 22/187 (11%) Query: 66 IAINKPPNIECSRKPSHHPGVLTLLPEQFTWRDVQPVGRLDHDTTGLLLMSDDGAFIHAQ 125 I NKP + C P HP +L + D+ P GRLD D+ GLLL++DDG HA Sbjct: 4 ILFNKPFQVMCQFSP--HPTRASLA-DYLDIPDIYPAGRLDADSEGLLLLTDDGKLQHAI 60 Query: 126 SSPKRHVPKVYAATT-AEPVTEALIAQLKAGVQLHD------------EPAPL----AAT 168 S P K Y A P TEAL A+L+A + L D EP L Sbjct: 61 SHPDHKQTKTYLAQVEGIPHTEAL-ARLRAPLNLGDFITQGCEVKRVQEPDWLWPRNPPI 119 Query: 169 RCR-QLGEKLLEIVLEQGKYHQVKRMLAAAGNHCSALRRTAIGGLQLDVLELEEGEWTYL 227 R R Q+ L I L +GK QV+RM A G L R AIG + L L G+W + Sbjct: 120 RERAQVPTSWLAITLAEGKNRQVRRMTGAVGLPTLRLIRIAIGPISLQSHPLLPGQWREV 179 Query: 228 DAQQMAL 234 A ++ L Sbjct: 180 SAAELRL 186 >gi|134095614|ref|YP_001100689.1| putative pseudouridine synthase (Uracil hydrolyase) [Herminiimonas arsenicoxydans] Length = 538 Score = 70.1 bits (170), Expect = 9e-14, Method: Compositional matrix adjust. Identities = 67/228 (29%), Positives = 102/228 (44%), Gaps = 7/228 (3%) Query: 6 LDRILQSQGFGSRKYCRELIDDGEVSINGEVVD-DYRATP-DTSGLVLTIFEEEWEYREH 63 L ++L G GSR+ ELI G VS+NGE R P D + + + + + Sbjct: 179 LHKVLAEAGLGSRRDMEELIIAGRVSVNGEPAHIGQRILPADQVRINGKLIQRKVSNKPP 238 Query: 64 VYIAINKPPN-IECSRKPSHHPGVLTLLPEQFTWRDVQPVGRLDHDTTGLLLMSDDGAFI 122 + +KP I + P P V LP + + VGRLD +T GLLL + G Sbjct: 239 RVLVYHKPAGEIVSTNDPEGRPSVFERLPTMKAAKWLA-VGRLDFNTEGLLLFTTSGDLA 297 Query: 123 HAQSSPKRHVPKVYAATTAEPVTEALIAQLKAGVQLHDEPAPLA--ATRCRQLGEKLLEI 180 + P+ + + YA T + E + +L AGV+L D A + A + K + Sbjct: 298 NRLMHPRYGIDREYAVRTLGELEEGMRQKLLAGVELEDGLAQFSKIADGGGEGVNKWYRV 357 Query: 181 VLEQGKYHQVKRMLAAAGNHCSALRRTAIGGLQLDVLELEEGEWTYLD 228 + +G+ +V+RM A G S L RT G L L L+ G W ++ Sbjct: 358 TIGEGRNREVRRMFEAIGLTVSRLIRTRYGTLTL-PKNLKRGRWEEME 404 >gi|134094557|ref|YP_001099632.1| putative pseudouridylate synthase [Herminiimonas arsenicoxydans] Length = 248 Score = 68.9 bits (167), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 64/242 (26%), Positives = 100/242 (41%), Gaps = 22/242 (9%) Query: 4 LTLDRILQSQGFGSRKYCRELIDDGEVSINGEVVDDYRATPDTSGLVLTIFEEEWEYREH 63 L L + + G SR+ E I G V ++G+VV + + V + E + Sbjct: 5 LRLSKRMSELGLCSRREADEWIARGWVRVDGKVVSELGTKILPTQRVTVERQAAAEQSKR 64 Query: 64 VYIAINKPPNIECSRKPSHHPGVLTLLPEQFTW--------------RDVQPVGRLDHDT 109 V I INKP + + + L+ + W R + P GRLD D+ Sbjct: 65 VTILINKPMGYVSGQAEDGYKPAVALVKAESRWKEDTSPTQFHPTQLRSLVPAGRLDIDS 124 Query: 110 TGLLLMSDDGAFIHAQSSPKRHVPKVYAATTA--EP--VTEALIAQLKAGVQLHDEPAPL 165 GLL+++ DG V K Y +P + EA + +L G+ L + L Sbjct: 125 VGLLVLTQDGRIAKHLIGENSSVEKEYLVRVQYIKPGKLPEADLQRLNHGLMLDGK--KL 182 Query: 166 AATRCRQLGEKLLEIVLEQGKYHQVKRMLAAAGNHCSALRRTAIGGLQLDVLELEEGEWT 225 + + E L +L +GK Q++RM G L+R IG ++L +L GEW Sbjct: 183 LPAQVKWQNEDQLSFILREGKKRQIRRMCDIVGLKVVGLKRVRIGRVKLG--DLPVGEWR 240 Query: 226 YL 227 YL Sbjct: 241 YL 242 Database: BlastDatabases/690/690 Posted date: Apr 9, 2011 4:48 AM Number of letters in database: 1,000,347 Number of sequences in database: 3295 Lambda K H 0.318 0.135 0.401 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 3295 Number of Hits to DB: 474,387 Number of extensions: 19504 Number of successful extensions: 65 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 61 Number of HSP's successfully gapped: 4 Length of query: 240 Length of database: 1,000,347 Length adjustment: 79 Effective length of query: 161 Effective length of database: 740,042 Effective search space: 119146762 Effective search space used: 119146762 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 127 (53.5 bits)