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= 0001.1199.p (430 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310719|ref|YP_003774811.1| cytochrome c protein [Herbaspir... 623 e-180 gi|300312638|ref|YP_003776730.1| cytochrome c precursor protein ... 298 6e-82 gi|300313762|ref|YP_003777854.1| cytochrome c precursor protein ... 285 6e-78 gi|300313847|ref|YP_003777939.1| membrane-bound D-gluconate 2-de... 250 2e-67 gi|300310653|ref|YP_003774745.1| cytochrome protein [Herbaspiril... 244 8e-66 >gi|300310719|ref|YP_003774811.1| cytochrome c protein [Herbaspirillum seropedicae SmR1] Length = 431 Score = 623 bits (1607), Expect = e-180, Method: Compositional matrix adjust. Identities = 303/408 (74%), Positives = 334/408 (81%), Gaps = 3/408 (0%) Query: 26 VIAWQSLRSEDPGVAVAVSDRQAQRLQGQYLARAGNCMGCHTMRGGAAYAGGRAIGTELG 85 VI WQ L E+ G A D Q QGQYLARAGNCM CHT RGGA YAGGRAI + G Sbjct: 24 VIGWQWLGPEERGAATPAPDPTRQLAQGQYLARAGNCMACHTARGGAPYAGGRAIASPFG 83 Query: 86 TLYTSNITPDKATGIGDWSADDFWRALHHGRGRDGRFLYPAFPYPNYTRLSRADSDALFA 145 TLYTSNITPDK TGIG WSADDFWRALHHGRG++G+FLYPAFPY +YTRLSRADSDALFA Sbjct: 84 TLYTSNITPDKTTGIGQWSADDFWRALHHGRGKEGQFLYPAFPYTSYTRLSRADSDALFA 143 Query: 146 YLQGLPAASQPNRSHALRFPYDQRPLLGLWRAFFFTSGVYQPDPARSAQWNRGAYLVQGA 205 YLQ LP ++ N++H LRFPYDQR LLGLWRA +FT YQPDP + AQWNRGAYLVQGA Sbjct: 144 YLQSLPPVARANQAHTLRFPYDQRMLLGLWRALYFTPQSYQPDPRQDAQWNRGAYLVQGA 203 Query: 206 GHCSACHSARNSLGASLAPLSLAGGMIPLQDWYAPPLHGGAQGLGSWSQEQVVALLKSGV 265 GHCSACHSARN LGAS+ PL+LAGG+IP WYAPPLHGGA GL WS + ALLK+GV Sbjct: 204 GHCSACHSARNRLGASIEPLALAGGVIPALQWYAPPLHGGADGLQDWSTADIAALLKTGV 263 Query: 266 SARGATLGPMSEVVGRSLQYLEEADLQAMALYLKSLPDAT---PTMPAQAEPVEADQLFR 322 S TLGPMSE+VGRSLQYL +AD+ AMA+YLKSLP + PA EP EA+++ + Sbjct: 264 SPHAVTLGPMSEIVGRSLQYLNDADVSAMAVYLKSLPASAADDAARPASVEPAEAERIMK 323 Query: 323 QGKKLYGELCVDCHGSKGQGSAPDYPPLAGNHAIAGPQAVNAIRAVLNGGFPPSTADNPY 382 QGK+LYG LCVDCHG KGQGSAPDYPPLAGN AIAGP NA+RAVLNGGFPPSTA NPY Sbjct: 324 QGKQLYGTLCVDCHGGKGQGSAPDYPPLAGNRAIAGPHPANAVRAVLNGGFPPSTAGNPY 383 Query: 383 PFGMPPFGPQLSDQEVAALVSFVRNSWGNQGSLVSASEVNRYRSVPLD 430 PFGMPPFGPQLSDQEVAA+VS+VRNSWGNQG LVSA+EVNRYRSVPLD Sbjct: 384 PFGMPPFGPQLSDQEVAAVVSYVRNSWGNQGGLVSAAEVNRYRSVPLD 431 >gi|300312638|ref|YP_003776730.1| cytochrome c precursor protein [Herbaspirillum seropedicae SmR1] Length = 441 Score = 298 bits (763), Expect = 6e-82, Method: Compositional matrix adjust. Identities = 178/420 (42%), Positives = 238/420 (56%), Gaps = 18/420 (4%) Query: 20 LAAAGGVIAWQSLRSEDPGVAVAVSDRQAQRLQGQYLARAGNCMGCHTMRGGAAYAGGRA 79 +AA V++ +L + A S Q +G+YLA+AG+C+ CHT +GG +AGG A Sbjct: 7 IAACAAVMSLSALTAAAQSNPAAPSADQQLVQRGEYLAKAGDCVACHTAKGGKPFAGGLA 66 Query: 80 IGTELGTLYTSNITPDKATGIGDWSADDFWRALHHGRGRDGRFLYPAFPYPNYTRLSRAD 139 I T +GT+Y+SNITPDK GIG++S +DF RAL HG +DG LYPA PYP+Y ++ AD Sbjct: 67 IATPIGTVYSSNITPDKENGIGNYSEEDFDRALRHGIRKDGASLYPAMPYPSYAKVKPAD 126 Query: 140 SDALFAY-LQGLPAASQPNRSHALRFPYDQRPLLGLWRAFFFTSGVYQPDPARSAQWNRG 198 AL+AY + G+ A PNR + +P R L +WR F V P ++ RG Sbjct: 127 VKALYAYFMHGVQADPAPNRGVDITWPLSMRWPLSIWRK-VFAPAVAVDGPEDNSPLVRG 185 Query: 199 AYLVQGAGHCSACHSARNSLGASLAPLS------LAGGMIPLQDWYAPPLHG-GAQGLGS 251 YLV+G GHC ACH+ R +G LS L+GG+I + A L G G GLG+ Sbjct: 186 QYLVEGLGHCGACHTPRG-VGMQEKALSNDSSQFLSGGVI--DGYLANNLRGDGRDGLGN 242 Query: 252 WSQEQVVALLKSGVSARGATLGPMSEVVGRSLQYLEEADLQAMALYLKSLPDATPTMPAQ 311 WS+ +VA LK+G ++ A G M++VV S QY+ E DL AMA YLKSL PA Sbjct: 243 WSEADIVAFLKTGRNSHSAAFGGMADVVANSTQYMTEEDLSAMAKYLKSLKPVKDGTPAL 302 Query: 312 AEPVEADQLFRQGKK------LYGELCVDCHGSKGQGSAPDYPPLAGNHAIAGPQAVNAI 365 A + Q R+G + C CH S G+G +P LA + + + I Sbjct: 303 AYDDKTHQALRKGSDQSPGAMAFLNNCAACHRSSGKGYDETFPSLALSPTVNAENPASLI 362 Query: 366 RAVLNGGFPPSTADNPYPFGMPPFGPQLSDQEVAALVSFVRNSWGNQGSLVSASEVNRYR 425 R VL G P T P F MP FG +LSDQEVA +V+F+R+SWGNQ S VSAS+V + R Sbjct: 363 RIVLEGAEMPWTHKAPTQFAMPAFGSRLSDQEVAEVVTFIRSSWGNQASSVSASDVAKVR 422 >gi|300313762|ref|YP_003777854.1| cytochrome c precursor protein [Herbaspirillum seropedicae SmR1] Length = 482 Score = 285 bits (728), Expect = 6e-78, Method: Compositional matrix adjust. Identities = 160/402 (39%), Positives = 228/402 (56%), Gaps = 19/402 (4%) Query: 42 AVSDRQAQRLQGQYLARAGNCMGCHTMRGGAAYAGGRAIGTELGTLYTSNITPDKATGIG 101 + S Q L+G YLARAG+C+ CHT +GGA +AGG A+ + +G +Y++NITPDK GIG Sbjct: 75 SASAEDQQILRGAYLARAGDCVACHTSKGGAPFAGGLALASPIGAIYSTNITPDKQHGIG 134 Query: 102 DWSADDFWRALHHGRGRDGRFLYPAFPYPNYTRLSRADSDALFAYL-QGLPAASQPNRSH 160 DWS +DF R + G + G +YPA PYP+Y+RL+ D AL+AY + +P ++Q NR++ Sbjct: 135 DWSYEDFARLMRTGVTKAGYTVYPAMPYPSYSRLTDEDMQALYAYFSKAVPPSAQENRAN 194 Query: 161 ALRFPYDQRPLLGLWRAFFF-TSGVYQPDPARSAQWNRGAYLVQGAGHCSACHSAR---- 215 + +P R L LWR F T Y P + RGAYLV+G GHC +CHS R Sbjct: 195 DIPWPLSMRWPLALWRKVFAPTPAPYTPAAGSDQELARGAYLVEGLGHCGSCHSPRAVTM 254 Query: 216 --NSLGASLAPLSLAGGMIPLQDWYAPPL---HGGAQGLGSWSQEQVVALLKSGVSARGA 270 +L L L+GG + + W P L HGG G+ WSQ +V L++G + A Sbjct: 255 QEKALKEDGGRLFLSGGQV-VDGWSVPSLRNEHGG--GIAGWSQADLVEFLRTGRNQYTA 311 Query: 271 TLGPMSEVVGRSLQYLEEADLQAMALYLKSLPDATPTMPAQAEPVEADQLFR-----QGK 325 + G M++V+ S+QY+ +ADL AMA YL SLP P + + A + G Sbjct: 312 SFGAMNDVIEDSMQYMSDADLNAMARYLLSLPPRQQAAPYRYDSATAQAAYDGRPDGPGA 371 Query: 326 KLYGELCVDCHGSKGQGSAPDYPPLAGNHAIAGPQAVNAIRAVLNGGFPPSTADNPYPFG 385 ++Y + C CH S G G +P LAGN + A +AIR +L GG PSTA Sbjct: 372 RIYLDRCAACHRSNGTGYGKAFPALAGNPVLQTSDATSAIRIILQGGRQPSTASATAGLV 431 Query: 386 MPPFGPQLSDQEVAALVSFVRNSWGNQGSLVSASEVNRYRSV 427 M P+ L DQ+VA + S+++ +WGN+G +A+EV + R Sbjct: 432 MAPYAQLLDDQQVAEVTSYIQTAWGNRGGTTTAAEVAKVRKT 473 >gi|300313847|ref|YP_003777939.1| membrane-bound D-gluconate 2-dehydrogenase cytochrome c subunit [Herbaspirillum seropedicae SmR1] Length = 423 Score = 250 bits (638), Expect = 2e-67, Method: Compositional matrix adjust. Identities = 151/391 (38%), Positives = 209/391 (53%), Gaps = 23/391 (5%) Query: 52 QGQYLARAGNCMGCHTMRGGAAYAGGRAIGTELGTLYTSNITPDKATGIGDWSADDFWRA 111 +GQYLARAG+CM CH+ G AY+GG AI + G +Y++NITPDK GIG++S F A Sbjct: 34 RGQYLARAGDCMACHSAAGKPAYSGGLAIDSGHGIIYSTNITPDKEHGIGNYSEAQFSAA 93 Query: 112 LHHGRGRDGRFLYPAFPYPNYTRLSRADSDALFAY-LQGL-PAASQPNRSHALRFPYDQR 169 + HG DG LYPA PYP+Y ++S D AL+ Y +QG+ P AS P S ++ FP++ R Sbjct: 94 VRHGVRADGTQLYPAMPYPSYAKVSDEDIHALYTYFMQGVQPVASTPPAS-SMSFPFNIR 152 Query: 170 PLLGLWRAFFFTSGVYQPDPARSAQWNRGAYLVQGAGHCSACHSARNSLGASLAPLS--- 226 + LW FF ++ SA+ RGAYLV+G GHC +CH+ R A S Sbjct: 153 WGMKLWNVFFANDKPFREQDGWSAEIKRGAYLVEGLGHCGSCHTPRGVAMNEKASDSSQA 212 Query: 227 --LAGGMIPLQDWYAPPLHGGAQGLGSWSQEQVVALLKSGVSARGATLGPMSEVVGRSLQ 284 L+GG L W P L +G+ WS + +V L++G + + G MS VV S Sbjct: 213 QFLSGG--DLNGWAVPSL----RGMPHWSAQDIVDYLQTGRNKTASVAGEMSLVVEHSTS 266 Query: 285 YLEEADLQAMALYLKSLPDATPT---------MPAQAEPVEADQLFRQGKKLYGELCVDC 335 +L+ DLQAMA YLK+L + + A + A + G++LY + C C Sbjct: 267 HLKREDLQAMAAYLKTLSPVASSGSGRVIPQGVDATVSKLTAAKDLTLGERLYLDNCAAC 326 Query: 336 HGSKGQGSAPDYPPLAGNHAIAGPQAVNAIRAVLNGGFPPSTADNPYPFGMPPFGPQLSD 395 H G+G+ +P L G + + +L G PST P MP F +LSD Sbjct: 327 HFVTGRGAPGIFPVLDGATVVNAENPSALLHVILAGARTPSTEKAPSILVMPGFAHRLSD 386 Query: 396 QEVAALVSFVRNSWGNQGSLVSASEVNRYRS 426 +E AAL +FVR WGN VS EV + R+ Sbjct: 387 EEAAALATFVRQGWGNHAGKVSEREVGKLRA 417 >gi|300310653|ref|YP_003774745.1| cytochrome protein [Herbaspirillum seropedicae SmR1] Length = 974 Score = 244 bits (624), Expect = 8e-66, Method: Compositional matrix adjust. Identities = 156/394 (39%), Positives = 218/394 (55%), Gaps = 25/394 (6%) Query: 52 QGQYLARAGNCMGCHTMRGGAAYAGGRAIGTELGTLYTSNITPDKATGIGDWSADDFWRA 111 +G+ +A AG+C CHT GGA AGG A+ T GT+Y++NITPD+ TGIG+WS F RA Sbjct: 589 RGRRVALAGDCAVCHTAPGGATNAGGHALQTPFGTVYSTNITPDEHTGIGNWSYAAFERA 648 Query: 112 LHHGRGRDGRFLYPAFPYPNYTRLSRADSDALFAYLQGLPAASQPNRSHALRFPYDQRPL 171 + G RDGR LYPAFPY + ++S AD +L+AYL PA + ++ LRFP++ RPL Sbjct: 649 MREGIHRDGRHLYPAFPYTAFAKISEADMQSLYAYLMAQPAVASTPPANDLRFPFNLRPL 708 Query: 172 LGLWRAFFFTSGVYQPDPARSAQWNRGAYLVQGAGHCSACHSARNSLGASLAPLS-LAGG 230 L W F V+QPDPARS WNRGAYLV+GAGHC+ACHS RN+LGA L GG Sbjct: 709 LAGWNTLFHDPQVFQPDPARSDLWNRGAYLVEGAGHCAACHSPRNALGAEKGGRHYLGGG 768 Query: 231 MIPLQDWYAPPLHGGAQGLGSWSQEQVVALLKSGVSAR-GATLGPMSEVVGRSLQYLEEA 289 M+ W AP L ++ W++E++ A L++G SAR G GPM+ VV L L Sbjct: 769 MV--DGWEAPALTALSKSPTPWTEEELFAYLRTGFSARHGIAAGPMAPVVAE-LAQLPPG 825 Query: 290 DLQAMALYLKSLPDATPTMPAQAEPVEADQLFR--------QGKKLYGELCVDCHGSKGQ 341 D++A+A YL S + PA P A Q G++L+ C CH + Sbjct: 826 DVRAIAHYLASFQSGAASSPAAPVPASAAQAPSPAELRSRANGQRLFAGACAACH---QE 882 Query: 342 GSAPDY----PPLAGNHAIAGPQAVNAIRAVLNGGFPPSTADNPYPFGMPPFGPQLSDQE 397 G+ P P L N + N + +L+G P+ NP MP F SD + Sbjct: 883 GTGPTLFGVKPSLRVNTNLHSDTPDNLVHVILHGIREPA---NPALGYMPGFANSFSDAQ 939 Query: 398 VAALVSFVRNSW--GNQGSLVSASEVNRYRSVPL 429 + L++++R+ + G + + R R++P+ Sbjct: 940 MVDLLAYLRSEFAAGKPAWQGVEAAIARSRAMPM 973 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 0.318 0.135 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: 1,386,531 Number of extensions: 61252 Number of successful extensions: 237 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 191 Number of HSP's successfully gapped: 8 Length of query: 430 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 342 Effective length of database: 1,203,190 Effective search space: 411490980 Effective search space used: 411490980 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 (21.7 bits) S2: 132 (55.5 bits)