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= 0034.0024.p (366 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313847|ref|YP_003777939.1| membrane-bound D-gluconate 2-de... 273 2e-74 gi|300312638|ref|YP_003776730.1| cytochrome c precursor protein ... 261 4e-71 gi|300313762|ref|YP_003777854.1| cytochrome c precursor protein ... 260 1e-70 gi|300313053|ref|YP_003777145.1| gluconate 2-dehydrogenase [Herb... 230 1e-61 gi|300311001|ref|YP_003775093.1| cytochrome c subunit II protein... 218 6e-58 >gi|300313847|ref|YP_003777939.1| membrane-bound D-gluconate 2-dehydrogenase cytochrome c subunit [Herbaspirillum seropedicae SmR1] Length = 423 Score = 273 bits (697), Expect = 2e-74, Method: Compositional matrix adjust. Identities = 133/258 (51%), Positives = 169/258 (65%), Gaps = 5/258 (1%) Query: 41 ASTREQVLRGRYVARLGDCVACHTQDKRKPMAGGLALETPFGKLYSTNITPDRQTGIGQY 100 A+ ++ V RG+Y+AR GDC+ACH+ + +GGLA+++ G +YSTNITPD++ GIG Y Sbjct: 26 AADQDLVARGQYLARAGDCMACHSAAGKPAYSGGLAIDSGHGIIYSTNITPDKEHGIGNY 85 Query: 101 SFAQFDRVMREGVTADGRHLYPAMPYPSYAKMSEEDMRALYVYLMQAVTPLALPNRPLEM 160 S AQF +R GV ADG LYPAMPYPSYAK+S+ED+ ALY Y MQ V P+A M Sbjct: 86 SEAQFSAAVRHGVRADGTQLYPAMPYPSYAKVSDEDIHALYTYFMQGVQPVASTPPASSM 145 Query: 161 SFPFNQRWGMALWNMAFLQAGPFRPDPAQSAQWNRGAYIVQGPGHCGACHTPRGIGMQEK 220 SFPFN RWGM LWN+ F PFR SA+ RGAY+V+G GHCG+CHTPRG+ M EK Sbjct: 146 SFPFNIRWGMKLWNVFFANDKPFREQDGWSAEIKRGAYLVEGLGHCGSCHTPRGVAMNEK 205 Query: 221 TMSESGSNGPLFLSGETVENWRALDLRG--RWQPADVAGLLRTGSNRFGTVAGNMVDVVQ 278 S S+ FLSG + W LRG W D+ L+TG N+ +VAG M VV+ Sbjct: 206 A---SDSSQAQFLSGGDLNGWAVPSLRGMPHWSAQDIVDYLQTGRNKTASVAGEMSLVVE 262 Query: 279 HSTQYMSDEDLLAIGTYL 296 HST ++ EDL A+ YL Sbjct: 263 HSTSHLKREDLQAMAAYL 280 >gi|300312638|ref|YP_003776730.1| cytochrome c precursor protein [Herbaspirillum seropedicae SmR1] Length = 441 Score = 261 bits (668), Expect = 4e-71, Method: Compositional matrix adjust. Identities = 125/267 (46%), Positives = 168/267 (62%), Gaps = 11/267 (4%) Query: 41 ASTREQVLRGRYVARLGDCVACHTQDKRKPMAGGLALETPFGKLYSTNITPDRQTGIGQY 100 ++ ++ V RG Y+A+ GDCVACHT KP AGGLA+ TP G +YS+NITPD++ GIG Y Sbjct: 31 SADQQLVQRGEYLAKAGDCVACHTAKGGKPFAGGLAIATPIGTVYSSNITPDKENGIGNY 90 Query: 101 SFAQFDRVMREGVTADGRHLYPAMPYPSYAKMSEEDMRALYVYLMQAVTPLALPNRPLEM 160 S FDR +R G+ DG LYPAMPYPSYAK+ D++ALY Y M V PNR +++ Sbjct: 91 SEEDFDRALRHGIRKDGASLYPAMPYPSYAKVKPADVKALYAYFMHGVQADPAPNRGVDI 150 Query: 161 SFPFNQRWGMALWNMAFLQAGPFRPDPAQSAQWNRGAYIVQGPGHCGACHTPRGIGMQEK 220 ++P + RW +++W F A P ++ RG Y+V+G GHCGACHTPRG+GMQEK Sbjct: 151 TWPLSMRWPLSIWRKVFAPAVAVD-GPEDNSPLVRGQYLVEGLGHCGACHTPRGVGMQEK 209 Query: 221 TMSESGSNGPLFLSGETVENWRALDLR-------GRWQPADVAGLLRTGSNRFGTVAGNM 273 +S S FLSG ++ + A +LR G W AD+ L+TG N G M Sbjct: 210 ALSNDSSQ---FLSGGVIDGYLANNLRGDGRDGLGNWSEADIVAFLKTGRNSHSAAFGGM 266 Query: 274 VDVVQHSTQYMSDEDLLAIGTYLANTR 300 DVV +STQYM++EDL A+ YL + + Sbjct: 267 ADVVANSTQYMTEEDLSAMAKYLKSLK 293 >gi|300313762|ref|YP_003777854.1| cytochrome c precursor protein [Herbaspirillum seropedicae SmR1] Length = 482 Score = 260 bits (665), Expect = 1e-70, Method: Compositional matrix adjust. Identities = 129/261 (49%), Positives = 167/261 (63%), Gaps = 11/261 (4%) Query: 45 EQVLRGRYVARLGDCVACHTQDKRKPMAGGLALETPFGKLYSTNITPDRQTGIGQYSFAQ 104 +Q+LRG Y+AR GDCVACHT P AGGLAL +P G +YSTNITPD+Q GIG +S+ Sbjct: 81 QQILRGAYLARAGDCVACHTSKGGAPFAGGLALASPIGAIYSTNITPDKQHGIGDWSYED 140 Query: 105 FDRVMREGVTADGRHLYPAMPYPSYAKMSEEDMRALYVYLMQAVTPLALPNRPLEMSFPF 164 F R+MR GVT G +YPAMPYPSY+++++EDM+ALY Y +AV P A NR ++ +P Sbjct: 141 FARLMRTGVTKAGYTVYPAMPYPSYSRLTDEDMQALYAYFSKAVPPSAQENRANDIPWPL 200 Query: 165 NQRWGMALWNMAFLQA-GPFRPDPAQSAQWNRGAYIVQGPGHCGACHTPRGIGMQEKTMS 223 + RW +ALW F P+ P + RGAY+V+G GHCG+CH+PR + MQEK + Sbjct: 201 SMRWPLALWRKVFAPTPAPYTPAAGSDQELARGAYLVEGLGHCGSCHSPRAVTMQEKALK 260 Query: 224 ESGSNGPLFLS-GETVENWRALDLRGR-------WQPADVAGLLRTGSNRFGTVAGNMVD 275 E G G LFLS G+ V+ W LR W AD+ LRTG N++ G M D Sbjct: 261 EDG--GRLFLSGGQVVDGWSVPSLRNEHGGGIAGWSQADLVEFLRTGRNQYTASFGAMND 318 Query: 276 VVQHSTQYMSDEDLLAIGTYL 296 V++ S QYMSD DL A+ YL Sbjct: 319 VIEDSMQYMSDADLNAMARYL 339 >gi|300313053|ref|YP_003777145.1| gluconate 2-dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 499 Score = 230 bits (587), Expect = 1e-61, Method: Compositional matrix adjust. Identities = 115/260 (44%), Positives = 154/260 (59%), Gaps = 16/260 (6%) Query: 47 VLRGRYVARLGDCVACHTQDKRKPMAGGLALETPFGKLYSTNITPDRQTGIGQYSFAQFD 106 + RG Y+A DC+ACHT + KPMAGGLA+ +P G++ +TNITP + GIG Y+ QF Sbjct: 53 IERGHYLAIASDCIACHTAPRGKPMAGGLAIASPVGEIIATNITPSKTHGIGNYTEEQFA 112 Query: 107 RVMREGVTADGRHLYPAMPYPSYAKMSEEDMRALYVYLMQAVTPLALPNRPLEMSFPFNQ 166 +R GV ADG +LYPAMPY +YA +S+ D++ALY Y M+ V P+ + RP ++ FP N Sbjct: 113 AALRRGVRADGANLYPAMPYTAYAALSDADVQALYAYFMKGVAPVDVATRPTDLPFPMNL 172 Query: 167 RWGMALWNMAFLQAGPFRPDPAQSAQWNRGAYIVQGPGHCGACHTPRGIGMQEKTMSESG 226 RW M WN FL+ P P P +SAQW RG Y+ +GP HC CHTPRG MQEK Sbjct: 173 RWSMKAWNALFLKEQPLPPQPQRSAQWLRGRYLAEGPAHCSTCHTPRGWLMQEKP----- 227 Query: 227 SNGPLFLSGETVENWRALDLR-------GRWQPADVAGLLRTGS-NRFGTVAGNMVDVVQ 278 L L+G V W A ++ G W D+ LRTG AG+M + + Sbjct: 228 ---DLQLAGAQVGPWYAPNITSHPSAGIGSWSQDDLVAYLRTGRLEGRAQAAGSMAEAIT 284 Query: 279 HSTQYMSDEDLLAIGTYLAN 298 HS +++EDL AI Y+ + Sbjct: 285 HSFSRLTEEDLRAIAVYIKD 304 >gi|300311001|ref|YP_003775093.1| cytochrome c subunit II protein [Herbaspirillum seropedicae SmR1] Length = 453 Score = 218 bits (555), Expect = 6e-58, Method: Compositional matrix adjust. Identities = 113/264 (42%), Positives = 150/264 (56%), Gaps = 16/264 (6%) Query: 41 ASTREQVLRGRYVARLGDCVACHTQDKRKPMAGGLALETPFGKLYSTNITPDRQTGIGQY 100 A + + RG Y+A GDC ACH+Q R P +GG + +P G +YSTNITP + GIG Y Sbjct: 27 ADEGQLIKRGEYLAIAGDCAACHSQKGRAPFSGGHPISSPLGTIYSTNITPSKTAGIGSY 86 Query: 101 SFAQFDRVMREGVTADGRHLYPAMPYPSYAKMSEEDMRALYVYLMQAVTPLALPNRPLEM 160 + QF +R+GV ADG LYPAMPY +YA++++ED+ ALY Y MQ V + ++ Sbjct: 87 TRDQFAAALRQGVRADGSQLYPAMPYTAYARLNDEDVTALYTYFMQGVAAVDQAAPATDL 146 Query: 161 SFPFNQRWGMALWNMAFLQAGPFRPDPAQSAQWNRGAYIVQGPGHCGACHTPRGIGMQEK 220 FPFN R M WN FL PF PDP+QSAQWNRGAY+VQG HC CHTPR M E+ Sbjct: 147 PFPFNIRLSMKAWNWLFLDKKPFEPDPSQSAQWNRGAYLVQGLAHCSTCHTPRNFLMAEQ 206 Query: 221 TMSESGSNGPLFLSGETVENWRALDL-------RGRWQPADVAGLLRTGSNRFG-TVAGN 272 L G ++ W A D+ + W +A L +G G T AG Sbjct: 207 LERR--------LQGGSLGTWYAPDITPAALQAKPAWTREMLADYLASGHAANGATAAGP 258 Query: 273 MVDVVQHSTQYMSDEDLLAIGTYL 296 M++ ++ S + EDL A+ +YL Sbjct: 259 MLEAIEMSFSRLRREDLEAMASYL 282 Database: BlastDatabases/689/689 Posted date: Apr 10, 2011 12:15 AM Number of letters in database: 1,619,870 Number of sequences in database: 4735 Lambda K H 0.320 0.133 0.420 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 4735 Number of Hits to DB: 1,034,715 Number of extensions: 43034 Number of successful extensions: 128 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 107 Number of HSP's successfully gapped: 7 Length of query: 366 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 280 Effective length of database: 1,212,660 Effective search space: 339544800 Effective search space used: 339544800 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.8 bits) S2: 131 (55.1 bits)