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= 0001.3308.p (441 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312638|ref|YP_003776730.1| cytochrome c precursor protein ... 860 0.0 gi|300313762|ref|YP_003777854.1| cytochrome c precursor protein ... 430 e-122 gi|300313847|ref|YP_003777939.1| membrane-bound D-gluconate 2-de... 382 e-107 gi|300310719|ref|YP_003774811.1| cytochrome c protein [Herbaspir... 294 1e-80 gi|300313053|ref|YP_003777145.1| gluconate 2-dehydrogenase [Herb... 283 1e-77 >gi|300312638|ref|YP_003776730.1| cytochrome c precursor protein [Herbaspirillum seropedicae SmR1] Length = 441 Score = 860 bits (2223), Expect = 0.0, Method: Compositional matrix adjust. Identities = 410/441 (92%), Positives = 427/441 (96%) Query: 1 MIKHYFIAACAAVMSLSAFTAAAQSNPAAPSADQQLVQRGEYLAKAGDCVACHTAKGGKP 60 MIKHYFIAACAAVMSLSA TAAAQSNPAAPSADQQLVQRGEYLAKAGDCVACHTAKGGKP Sbjct: 1 MIKHYFIAACAAVMSLSALTAAAQSNPAAPSADQQLVQRGEYLAKAGDCVACHTAKGGKP 60 Query: 61 FAGGLPIATPVGTVYSSNITPDKENGIGNYSEEDFDNALRHGIRKDGASLYPAMPYPSYA 120 FAGGL IATP+GTVYSSNITPDKENGIGNYSEEDFD ALRHGIRKDGASLYPAMPYPSYA Sbjct: 61 FAGGLAIATPIGTVYSSNITPDKENGIGNYSEEDFDRALRHGIRKDGASLYPAMPYPSYA 120 Query: 121 KVKPADVKALYAYFMNGVQADPAPNRGVDITWPLSMRWPLSIWRKVFAPAVALDGPEDNS 180 KVKPADVKALYAYFM+GVQADPAPNRGVDITWPLSMRWPLSIWRKVFAPAVA+DGPEDNS Sbjct: 121 KVKPADVKALYAYFMHGVQADPAPNRGVDITWPLSMRWPLSIWRKVFAPAVAVDGPEDNS 180 Query: 181 PLVRGQYLVEGLGHCGACHTPRGVGMQEKALSNDSSLYLSGGVIDGYLANNLRGDARDGL 240 PLVRGQYLVEGLGHCGACHTPRGVGMQEKALSNDSS +LSGGVIDGYLANNLRGD RDGL Sbjct: 181 PLVRGQYLVEGLGHCGACHTPRGVGMQEKALSNDSSQFLSGGVIDGYLANNLRGDGRDGL 240 Query: 241 GNWSQADIVAFLKTGRNSHSAAFGGMADVVAQSTQYLSEADLSAMATYLKSLKPVKEGTA 300 GNWS+ADIVAFLKTGRNSHSAAFGGMADVVA STQY++E DLSAMA YLKSLKPVK+GT Sbjct: 241 GNWSEADIVAFLKTGRNSHSAAFGGMADVVANSTQYMTEEDLSAMAKYLKSLKPVKDGTP 300 Query: 301 ALAYDDKTHQALRKGSDQSPGAMTFLNNCAACHRSSGKGYEETFPTLALSPTVNADNPAS 360 ALAYDDKTHQALRKGSDQSPGAM FLNNCAACHRSSGKGY+ETFP+LALSPTVNA+NPAS Sbjct: 301 ALAYDDKTHQALRKGSDQSPGAMAFLNNCAACHRSSGKGYDETFPSLALSPTVNAENPAS 360 Query: 361 LIRIVLEGAEMPWTHKAPTQFAMPGFASRLSDQEVADVVTFIRSSWGNQAASVSASDVAK 420 LIRIVLEGAEMPWTHKAPTQFAMP F SRLSDQEVA+VVTFIRSSWGNQA+SVSASDVAK Sbjct: 361 LIRIVLEGAEMPWTHKAPTQFAMPAFGSRLSDQEVAEVVTFIRSSWGNQASSVSASDVAK 420 Query: 421 VRQQVPEKKTVEVGAVPLAKQ 441 VR+Q+PEKKTVE G+ P+AKQ Sbjct: 421 VRKQLPEKKTVEAGSAPVAKQ 441 >gi|300313762|ref|YP_003777854.1| cytochrome c precursor protein [Herbaspirillum seropedicae SmR1] Length = 482 Score = 430 bits (1106), Expect = e-122, Method: Compositional matrix adjust. Identities = 210/397 (52%), Positives = 276/397 (69%), Gaps = 5/397 (1%) Query: 31 SADQQLVQRGEYLAKAGDCVACHTAKGGKPFAGGLPIATPVGTVYSSNITPDKENGIGNY 90 SA+ Q + RG YLA+AGDCVACHT+KGG PFAGGL +A+P+G +YS+NITPDK++GIG++ Sbjct: 77 SAEDQQILRGAYLARAGDCVACHTSKGGAPFAGGLALASPIGAIYSTNITPDKQHGIGDW 136 Query: 91 SEEDFDNALRHGIRKDGASLYPAMPYPSYAKVKPADVKALYAYFMNGVQADPAPNRGVDI 150 S EDF +R G+ K G ++YPAMPYPSY+++ D++ALYAYF V NR DI Sbjct: 137 SYEDFARLMRTGVTKAGYTVYPAMPYPSYSRLTDEDMQALYAYFSKAVPPSAQENRANDI 196 Query: 151 TWPLSMRWPLSIWRKVFAPAVALDGPEDNS--PLVRGQYLVEGLGHCGACHTPRGVGMQE 208 WPLSMRWPL++WRKVFAP A P S L RG YLVEGLGHCG+CH+PR V MQE Sbjct: 197 PWPLSMRWPLALWRKVFAPTPAPYTPAAGSDQELARGAYLVEGLGHCGSCHSPRAVTMQE 256 Query: 209 KALSNDSS-LYLSGG-VIDGYLANNLRGDARDGLGNWSQADIVAFLKTGRNSHSAAFGGM 266 KAL D L+LSGG V+DG+ +LR + G+ WSQAD+V FL+TGRN ++A+FG M Sbjct: 257 KALKEDGGRLFLSGGQVVDGWSVPSLRNEHGGGIAGWSQADLVEFLRTGRNQYTASFGAM 316 Query: 267 ADVVAQSTQYLSEADLSAMATYLKSLKPVKEGTAALAYDDKTHQALRKGSDQSPGAMTFL 326 DV+ S QY+S+ADL+AMA YL SL P ++ A YD T QA G PGA +L Sbjct: 317 NDVIEDSMQYMSDADLNAMARYLLSLPP-RQQAAPYRYDSATAQAAYDGRPDGPGARIYL 375 Query: 327 NNCAACHRSSGKGYEETFPTLALSPTVNADNPASLIRIVLEGAEMPWTHKAPTQFAMPGF 386 + CAACHRS+G GY + FP LA +P + + S IRI+L+G P T A M + Sbjct: 376 DRCAACHRSNGTGYGKAFPALAGNPVLQTSDATSAIRIILQGGRQPSTASATAGLVMAPY 435 Query: 387 ASRLSDQEVADVVTFIRSSWGNQAASVSASDVAKVRQ 423 A L DQ+VA+V ++I+++WGN+ + +A++VAKVR+ Sbjct: 436 AQLLDDQQVAEVTSYIQTAWGNRGGTTTAAEVAKVRK 472 >gi|300313847|ref|YP_003777939.1| membrane-bound D-gluconate 2-dehydrogenase cytochrome c subunit [Herbaspirillum seropedicae SmR1] Length = 423 Score = 382 bits (980), Expect = e-107, Method: Compositional matrix adjust. Identities = 194/400 (48%), Positives = 255/400 (63%), Gaps = 13/400 (3%) Query: 29 APSADQQLVQRGEYLAKAGDCVACHTAKGGKPFAGGLPIATPVGTVYSSNITPDKENGIG 88 A +ADQ LV RG+YLA+AGDC+ACH+A G ++GGL I + G +YS+NITPDKE+GIG Sbjct: 24 AQAADQDLVARGQYLARAGDCMACHSAAGKPAYSGGLAIDSGHGIIYSTNITPDKEHGIG 83 Query: 89 NYSEEDFDNALRHGIRKDGASLYPAMPYPSYAKVKPADVKALYAYFMNGVQADPAPNRGV 148 NYSE F A+RHG+R DG LYPAMPYPSYAKV D+ ALY YFM GVQ + Sbjct: 84 NYSEAQFSAAVRHGVRADGTQLYPAMPYPSYAKVSDEDIHALYTYFMQGVQPVASTPPAS 143 Query: 149 DITWPLSMRWPLSIWRKVFA---PAVALDGPEDNSPLVRGQYLVEGLGHCGACHTPRGVG 205 +++P ++RW + +W FA P DG ++ + RG YLVEGLGHCG+CHTPRGV Sbjct: 144 SMSFPFNIRWGMKLWNVFFANDKPFREQDGW--SAEIKRGAYLVEGLGHCGSCHTPRGVA 201 Query: 206 MQEKALSNDSSLYLSGGVIDGYLANNLRGDARDGLGNWSQADIVAFLKTGRNSHSAAFGG 265 M EKA + + +LSGG ++G+ +LR G+ +WS DIV +L+TGRN ++ G Sbjct: 202 MNEKASDSSQAQFLSGGDLNGWAVPSLR-----GMPHWSAQDIVDYLQTGRNKTASVAGE 256 Query: 266 MADVVAQSTQYLSEADLSAMATYLKSLKPVKEGTAALAYD---DKTHQALRKGSDQSPGA 322 M+ VV ST +L DL AMA YLK+L PV + D T L D + G Sbjct: 257 MSLVVEHSTSHLKREDLQAMAAYLKTLSPVASSGSGRVIPQGVDATVSKLTAAKDLTLGE 316 Query: 323 MTFLNNCAACHRSSGKGYEETFPTLALSPTVNADNPASLIRIVLEGAEMPWTHKAPTQFA 382 +L+NCAACH +G+G FP L + VNA+NP++L+ ++L GA P T KAP+ Sbjct: 317 RLYLDNCAACHFVTGRGAPGIFPVLDGATVVNAENPSALLHVILAGARTPSTEKAPSILV 376 Query: 383 MPGFASRLSDQEVADVVTFIRSSWGNQAASVSASDVAKVR 422 MPGFA RLSD+E A + TF+R WGN A VS +V K+R Sbjct: 377 MPGFAHRLSDEEAAALATFVRQGWGNHAGKVSEREVGKLR 416 >gi|300310719|ref|YP_003774811.1| cytochrome c protein [Herbaspirillum seropedicae SmR1] Length = 431 Score = 294 bits (752), Expect = 1e-80, Method: Compositional matrix adjust. Identities = 173/397 (43%), Positives = 232/397 (58%), Gaps = 14/397 (3%) Query: 29 APSADQQLVQRGEYLAKAGDCVACHTAKGGKPFAGGLPIATPVGTVYSSNITPDKENGIG 88 AP +QL Q G+YLA+AG+C+ACHTA+GG P+AGG IA+P GT+Y+SNITPDK GIG Sbjct: 41 APDPTRQLAQ-GQYLARAGNCMACHTARGGAPYAGGRAIASPFGTLYTSNITPDKTTGIG 99 Query: 89 NYSEEDFDNALRHGIRKDGASLYPAMPYPSYAKVKPADVKALYAYFMNGVQADPAPNRGV 148 +S +DF AL HG K+G LYPA PY SY ++ AD AL+AY + A N+ Sbjct: 100 QWSADDFWRALHHGRGKEGQFLYPAFPYTSYTRLSRADSDALFAYLQSLPPVARA-NQAH 158 Query: 149 DITWPLSMRWPLSIWRKV-FAPAVALDGPEDNSPLVRGQYLVEGLGHCGACHTPRGVGMQ 207 + +P R L +WR + F P P ++ RG YLV+G GHC ACH+ R Sbjct: 159 TLRFPYDQRMLLGLWRALYFTPQSYQPDPRQDAQWNRGAYLVQGAGHCSACHSAR----- 213 Query: 208 EKALSNDSSLYLSGGVIDG--YLANNLRGDARDGLGNWSQADIVAFLKTGRNSHSAAFGG 265 + ++ L L+GGVI + A L G A DGL +WS ADI A LKTG + H+ G Sbjct: 214 NRLGASIEPLALAGGVIPALQWYAPPLHGGA-DGLQDWSTADIAALLKTGVSPHAVTLGP 272 Query: 266 MADVVAQSTQYLSEADLSAMATYLKSLKPVKEGTAALAYDDKTHQALRKGSDQSPGAMTF 325 M+++V +S QYL++AD+SAMA YLKSL AA + +A R G + Sbjct: 273 MSEIVGRSLQYLNDADVSAMAVYLKSLPASAADDAARPASVEPAEAERI---MKQGKQLY 329 Query: 326 LNNCAACHRSSGKGYEETFPTLALSPTVNADNPASLIRIVLEGAEMPWTHKAPTQFAMPG 385 C CH G+G +P LA + + +PA+ +R VL G P T P F MP Sbjct: 330 GTLCVDCHGGKGQGSAPDYPPLAGNRAIAGPHPANAVRAVLNGGFPPSTAGNPYPFGMPP 389 Query: 386 FASRLSDQEVADVVTFIRSSWGNQAASVSASDVAKVR 422 F +LSDQEVA VV+++R+SWGNQ VSA++V + R Sbjct: 390 FGPQLSDQEVAAVVSYVRNSWGNQGGLVSAAEVNRYR 426 >gi|300313053|ref|YP_003777145.1| gluconate 2-dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 499 Score = 283 bits (725), Expect = 1e-77, Method: Compositional matrix adjust. Identities = 170/414 (41%), Positives = 237/414 (57%), Gaps = 29/414 (7%) Query: 36 LVQRGEYLAKAGDCVACHTAKGGKPFAGGLPIATPVGTVYSSNITPDKENGIGNYSEEDF 95 L++RG YLA A DC+ACHTA GKP AGGL IA+PVG + ++NITP K +GIGNY+EE F Sbjct: 52 LIERGHYLAIASDCIACHTAPRGKPMAGGLAIASPVGEIIATNITPSKTHGIGNYTEEQF 111 Query: 96 DNALRHGIRKDGASLYPAMPYPSYAKVKPADVKALYAYFMNGVQADPAPNRGVDITWPLS 155 ALR G+R DGA+LYPAMPY +YA + ADV+ALYAYFM GV R D+ +P++ Sbjct: 112 AAALRRGVRADGANLYPAMPYTAYAALSDADVQALYAYFMKGVAPVDVATRPTDLPFPMN 171 Query: 156 MRWPLSIWRKVFAPAVAL-DGPEDNSPLVRGQYLVEGLGHCGACHTPRGVGMQEKALSND 214 +RW + W +F L P+ ++ +RG+YL EG HC CHTPRG MQEK Sbjct: 172 LRWSMKAWNALFLKEQPLPPQPQRSAQWLRGRYLAEGPAHCSTCHTPRGWLMQEK----- 226 Query: 215 SSLYLSGGVIDGYLANNLRGDARDGLGNWSQADIVAFLKTGR-NSHSAAFGGMADVVAQS 273 L L+G + + A N+ G+G+WSQ D+VA+L+TGR + A G MA+ + S Sbjct: 227 PDLQLAGAQVGPWYAPNITSHPSAGIGSWSQDDLVAYLRTGRLEGRAQAAGSMAEAITHS 286 Query: 274 TQYLSEADLSAMATYLKSLKPVKEGTAALA---YDD-KTHQAL-----RKGSDQSP---- 320 L+E DL A+A Y+K + G A + +D K AL R S +SP Sbjct: 287 FSRLTEEDLRAIAVYIKDRPAIATGDAQGSGSRFDQGKAGNALAQFRGRTLSAESPEEIR 346 Query: 321 GAMTFLNNCAACHRSSGKGYEE-TFPTLALSPTVNADNPASLIRIVLEGAEMPWTHKAPT 379 GA F +CA+CH +G+G + +P+L + N +LI +L G + T + Sbjct: 347 GARIFSASCASCHGYNGQGSRDGYYPSLFRNSATAGVNANNLIATILYGVDRE-TEQGGH 405 Query: 380 QFAMPGFA------SRLSDQEVADVVTFIRSSWGNQAASVSASDVAKVRQQVPE 427 F MP F ++LS+ +VA + ++ +G AA+V A DV +RQ P Sbjct: 406 VF-MPPFGDQPNALNKLSNADVAALSNYLLKYYGKPAATVKAEDVEVIRQGGPR 458 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 0.315 0.130 0.390 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: 1,387,026 Number of extensions: 60044 Number of successful extensions: 232 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 187 Number of HSP's successfully gapped: 8 Length of query: 441 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 353 Effective length of database: 1,203,190 Effective search space: 424726070 Effective search space used: 424726070 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 (21.6 bits) S2: 132 (55.5 bits)