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= 0006.0045.p (479 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313053|ref|YP_003777145.1| gluconate 2-dehydrogenase [Herb... 402 e-113 gi|300311001|ref|YP_003775093.1| cytochrome c subunit II protein... 339 2e-94 gi|300312638|ref|YP_003776730.1| cytochrome c precursor protein ... 287 1e-78 gi|300313847|ref|YP_003777939.1| membrane-bound D-gluconate 2-de... 285 5e-78 gi|300310653|ref|YP_003774745.1| cytochrome protein [Herbaspiril... 265 7e-72 >gi|300313053|ref|YP_003777145.1| gluconate 2-dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 499 Score = 402 bits (1032), Expect = e-113, Method: Compositional matrix adjust. Identities = 212/411 (51%), Positives = 266/411 (64%), Gaps = 6/411 (1%) Query: 37 IESGRYLAIAADCMACHTAPAGKPYAGGYAIESPLGTIYATNITPSKAAGIGNYSEAQFA 96 IE G YLAIA+DC+ACHTAP GKP AGG AI SP+G I ATNITPSK GIGNY+E QFA Sbjct: 53 IERGHYLAIASDCIACHTAPRGKPMAGGLAIASPVGEIIATNITPSKTHGIGNYTEEQFA 112 Query: 97 RALREGVRADGSHLYPAMPYTSYAMLTDSDVHKLYSYFMHAVEPVDTPAASRTQLPFPFN 156 ALR GVRADG++LYPAMPYT+YA L+D+DV LY+YFM V PVD A T LPFP N Sbjct: 113 AALRRGVRADGANLYPAMPYTAYAALSDADVQALYAYFMKGVAPVDV-ATRPTDLPFPMN 171 Query: 157 VRMSMLAWNAIFLDTKRFVPDAARSQQINRGQYLAEGLAHCSACHTPRNFLMGEKGGSAL 216 +R SM AWNA+FL + P RS Q RG+YLAEG AHCS CHTPR +LM EK L Sbjct: 172 LRWSMKAWNALFLKEQPLPPQPQRSAQWLRGRYLAEGPAHCSTCHTPRGWLMQEKPDLQL 231 Query: 217 AGAPLGSWHAPNITSDKVSGVGGWSDAELMQYLKTGHAEGKGQAGGAMAEAVTNSFQHLR 276 AGA +G W+APNITS +G+G WS +L+ YL+TG EG+ QA G+MAEA+T+SF L Sbjct: 232 AGAQVGPWYAPNITSHPSAGIGSWSQDDLVAYLRTGRLEGRAQAAGSMAEAITHSFSRLT 291 Query: 277 DDDVAAIVAYLRTVPPVR--DNAQAQPAYSYGKAASDEAVLRGTSGPNEHDSLNSGAVLF 334 ++D+ AI Y++ P + D + + GKA + A RG + E GA +F Sbjct: 292 EEDLRAIAVYIKDRPAIATGDAQGSGSRFDQGKAGNALAQFRGRTLSAESPEEIRGARIF 351 Query: 335 SGYCASCHAASGSGSSGQDYPSLFHNTTTGARNPANLVSAILFGVERKVGD-NEILMPRF 393 S CASCH +G GS YPSLF N+ T N NL++ IL+GV+R+ + MP F Sbjct: 352 SASCASCHGYNGQGSRDGYYPSLFRNSATAGVNANNLIATILYGVDRETEQGGHVFMPPF 411 Query: 394 -DGHSYVNPLTDKQIALIANYVLKQYGNPEVQVSEAYVAQARNGG-EQPVL 442 D + +N L++ +A ++NY+LK YG P V V R GG P+L Sbjct: 412 GDQPNALNKLSNADVAALSNYLLKYYGKPAATVKAEDVEVIRQGGPRSPLL 462 >gi|300311001|ref|YP_003775093.1| cytochrome c subunit II protein [Herbaspirillum seropedicae SmR1] Length = 453 Score = 339 bits (870), Expect = 2e-94, Method: Compositional matrix adjust. Identities = 187/401 (46%), Positives = 238/401 (59%), Gaps = 17/401 (4%) Query: 37 IESGRYLAIAADCMACHTAPAGKPYAGGYAIESPLGTIYATNITPSKAAGIGNYSEAQFA 96 I+ G YLAIA DC ACH+ P++GG+ I SPLGTIY+TNITPSK AGIG+Y+ QFA Sbjct: 33 IKRGEYLAIAGDCAACHSQKGRAPFSGGHPISSPLGTIYSTNITPSKTAGIGSYTRDQFA 92 Query: 97 RALREGVRADGSHLYPAMPYTSYAMLTDSDVHKLYSYFMHAVEPVDTPAASRTQLPFPFN 156 ALR+GVRADGS LYPAMPYT+YA L D DV LY+YFM V VD AA T LPFPFN Sbjct: 93 AALRQGVRADGSQLYPAMPYTAYARLNDEDVTALYTYFMQGVAAVDQ-AAPATDLPFPFN 151 Query: 157 VRMSMLAWNAIFLDTKRFVPDAARSQQINRGQYLAEGLAHCSACHTPRNFLMGEKGGSAL 216 +R+SM AWN +FLD K F PD ++S Q NRG YL +GLAHCS CHTPRNFLM E+ L Sbjct: 152 IRLSMKAWNWLFLDKKPFEPDPSQSAQWNRGAYLVQGLAHCSTCHTPRNFLMAEQLERRL 211 Query: 217 AGAPLGSWHAPNITSDKVSGVGGWSDAELMQYLKTGHAEGKGQAGGAMAEAVTNSFQHLR 276 G LG+W+AP+IT + W+ L YL +GHA A G M EA+ SF LR Sbjct: 212 QGGSLGTWYAPDITPAALQAKPAWTREMLADYLASGHAANGATAAGPMLEAIEMSFSRLR 271 Query: 277 DDDVAAIVAYLRTVPPVRDNAQAQPAYSYGKAASDEAVLRGTSGPNEHDSLNSGAVLFSG 336 +D+ A+ +YL A A + K + ++G P +L+ GA ++ Sbjct: 272 REDLEAMASYLLPP------TAATAAPAVNKPPAGLTPVQGDDTPQALAALSPGARVYMN 325 Query: 337 YCASCHAASGSGSSGQDYPSLFHNTTTGARNPANLVSAILFGVERKVGDNEILMPRFDGH 396 CASCH +G G +G P L + N N+V AIL GV + G I Sbjct: 326 NCASCHNTAGQGLNG--LPPLQSHPVLRQPNGDNVVMAILEGVLPEHGQGMI-------- 375 Query: 397 SYVNPLTDKQIALIANYVLKQYGNPEVQVSEAYVAQARNGG 437 + + L D+Q+A + NY+L+ G +V V+ VA R GG Sbjct: 376 GFAHTLNDEQVAAVTNYLLQDIGGSKVSVTTQRVATLRAGG 416 >gi|300312638|ref|YP_003776730.1| cytochrome c precursor protein [Herbaspirillum seropedicae SmR1] Length = 441 Score = 287 bits (734), Expect = 1e-78, Method: Compositional matrix adjust. Identities = 166/424 (39%), Positives = 242/424 (57%), Gaps = 30/424 (7%) Query: 21 ASPASSPAQAGSAQNDIESGRYLAIAADCMACHTAPAGKPYAGGYAIESPLGTIYATNIT 80 A+ S+PA + Q ++ G YLA A DC+ACHTA GKP+AGG AI +P+GT+Y++NIT Sbjct: 21 AAAQSNPAAPSADQQLVQRGEYLAKAGDCVACHTAKGGKPFAGGLAIATPIGTVYSSNIT 80 Query: 81 PSKAAGIGNYSEAQFARALREGVRADGSHLYPAMPYTSYAMLTDSDVHKLYSYFMHAVEP 140 P K GIGNYSE F RALR G+R DG+ LYPAMPY SYA + +DV LY+YFMH V+ Sbjct: 81 PDKENGIGNYSEEDFDRALRHGIRKDGASLYPAMPYPSYAKVKPADVKALYAYFMHGVQA 140 Query: 141 VDTPAASR-TQLPFPFNVRMSMLAWNAIFLDTKRFVPDAARSQQINRGQYLAEGLAHCSA 199 PA +R + +P ++R + W +F V + + RGQYL EGL HC A Sbjct: 141 --DPAPNRGVDITWPLSMRWPLSIWRKVFAPAVA-VDGPEDNSPLVRGQYLVEGLGHCGA 197 Query: 200 CHTPRNFLMGEKGGSA-----LAGAPLGSWHAPNITSDKVSGVGGWSDAELMQYLKTGHA 254 CHTPR M EK S L+G + + A N+ D G+G WS+A+++ +LKTG Sbjct: 198 CHTPRGVGMQEKALSNDSSQFLSGGVIDGYLANNLRGDGRDGLGNWSEADIVAFLKTGRN 257 Query: 255 EGKGQAGGAMAEAVTNSFQHLRDDDVAAIVAYLRTVPPVRDNAQAQPAYSYGKAASDEAV 314 GG MA+ V NS Q++ ++D++A+ YL+++ PV+D PA +Y + +A+ Sbjct: 258 SHSAAFGG-MADVVANSTQYMTEEDLSAMAKYLKSLKPVKDGT---PALAYDD-KTHQAL 312 Query: 315 LRGTSGPNEHDSLNSGAVLFSGYCASCHAASGSGSSGQDYPSLFHNTTTGARNPANLVSA 374 +G+ + GA+ F CA+CH +SG G + +PSL + T A NPA+L+ Sbjct: 313 RKGS-------DQSPGAMAFLNNCAACHRSSGKGYD-ETFPSLALSPTVNAENPASLIRI 364 Query: 375 ILFGVE---RKVGDNEILMPRFDGHSYVNPLTDKQIALIANYVLKQYGNPEVQVSEAYVA 431 +L G E + MP F L+D+++A + ++ +GN VS + VA Sbjct: 365 VLEGAEMPWTHKAPTQFAMPAFGSR-----LSDQEVAEVVTFIRSSWGNQASSVSASDVA 419 Query: 432 QARN 435 + R Sbjct: 420 KVRK 423 >gi|300313847|ref|YP_003777939.1| membrane-bound D-gluconate 2-dehydrogenase cytochrome c subunit [Herbaspirillum seropedicae SmR1] Length = 423 Score = 285 bits (729), Expect = 5e-78, Method: Compositional matrix adjust. Identities = 170/416 (40%), Positives = 235/416 (56%), Gaps = 33/416 (7%) Query: 34 QNDIESGRYLAIAADCMACHTAPAGKP-YAGGYAIESPLGTIYATNITPSKAAGIGNYSE 92 Q+ + G+YLA A DCMACH+A AGKP Y+GG AI+S G IY+TNITP K GIGNYSE Sbjct: 29 QDLVARGQYLARAGDCMACHSA-AGKPAYSGGLAIDSGHGIIYSTNITPDKEHGIGNYSE 87 Query: 93 AQFARALREGVRADGSHLYPAMPYTSYAMLTDSDVHKLYSYFMHAVEPV-DTPAASRTQL 151 AQF+ A+R GVRADG+ LYPAMPY SYA ++D D+H LY+YFM V+PV TP AS + Sbjct: 88 AQFSAAVRHGVRADGTQLYPAMPYPSYAKVSDEDIHALYTYFMQGVQPVASTPPAS--SM 145 Query: 152 PFPFNVRMSMLAWNAIFLDTKRFVPDAARSQQINRGQYLAEGLAHCSACHTPRNFLMGEK 211 FPFN+R M WN F + K F S +I RG YL EGL HC +CHTPR M EK Sbjct: 146 SFPFNIRWGMKLWNVFFANDKPFREQDGWSAEIKRGAYLVEGLGHCGSCHTPRGVAMNEK 205 Query: 212 GGSA-----LAGAPLGSWHAPNITSDKVSGVGGWSDAELMQYLKTGHAEGKGQAGGAMAE 266 + L+G L W P++ G+ WS +++ YL+TG + G M+ Sbjct: 206 ASDSSQAQFLSGGDLNGWAVPSL-----RGMPHWSAQDIVDYLQTGRNK-TASVAGEMSL 259 Query: 267 AVTNSFQHLRDDDVAAIVAYLRTVPPVRDNAQAQPAYSYGKAASDEAVLRGTSGPNEHDS 326 V +S HL+ +D+ A+ AYL+T+ PV + + D V + T+ + Sbjct: 260 VVEHSTSHLKREDLQAMAAYLKTLSPVASSGSGRVI----PQGVDATVSKLTAAKD---- 311 Query: 327 LNSGAVLFSGYCASCHAASGSGSSGQDYPSLFHNTTTGARNPANLVSAILFGVERKVGDN 386 L G L+ CA+CH +G G+ G +P L T A NP+ L+ IL G + Sbjct: 312 LTLGERLYLDNCAACHFVTGRGAPGI-FPVLDGATVVNAENPSALLHVILAGARTPSTEK 370 Query: 387 E---ILMPRFDGHSYVNPLTDKQIALIANYVLKQYGNPEVQVSEAYVAQARNGGEQ 439 ++MP F + L+D++ A +A +V + +GN +VSE V + R G ++ Sbjct: 371 APSILVMPGF-----AHRLSDEEAAALATFVRQGWGNHAGKVSEREVGKLRAGMDK 421 >gi|300310653|ref|YP_003774745.1| cytochrome protein [Herbaspirillum seropedicae SmR1] Length = 974 Score = 265 bits (677), Expect = 7e-72, Method: Compositional matrix adjust. Identities = 164/401 (40%), Positives = 214/401 (53%), Gaps = 21/401 (5%) Query: 37 IESGRYLAIAADCMACHTAPAGKPYAGGYAIESPLGTIYATNITPSKAAGIGNYSEAQFA 96 IE GR +A+A DC CHTAP G AGG+A+++P GT+Y+TNITP + GIGN+S A F Sbjct: 587 IERGRRVALAGDCAVCHTAPGGATNAGGHALQTPFGTVYSTNITPDEHTGIGNWSYAAFE 646 Query: 97 RALREGVRADGSHLYPAMPYTSYAMLTDSDVHKLYSYFMHAVEPVDTPAASRTQLPFPFN 156 RA+REG+ DG HLYPA PYT++A ++++D+ LY+Y M TP A+ L FPFN Sbjct: 647 RAMREGIHRDGRHLYPAFPYTAFAKISEADMQSLYAYLMAQPAVASTPPAN--DLRFPFN 704 Query: 157 VRMSMLAWNAIFLDTKRFVPDAARSQQINRGQYLAEGLAHCSACHTPRNFLMGEKGGSA- 215 +R + WN +F D + F PD ARS NRG YL EG HC+ACH+PRN L EKGG Sbjct: 705 LRPLLAGWNTLFHDPQVFQPDPARSDLWNRGAYLVEGAGHCAACHSPRNALGAEKGGRHY 764 Query: 216 LAGAPLGSWHAPNITSDKVSGVGGWSDAELMQYLKTGHAEGKGQAGGAMAEAVTNSFQHL 275 L G + W AP +T+ S W++ EL YL+TG + G A G MA V Q L Sbjct: 765 LGGGMVDGWEAPALTALSKSPT-PWTEEELFAYLRTGFSARHGIAAGPMAPVVAELAQ-L 822 Query: 276 RDDDVAAIVAYLRTVPPVRDNAQAQPAYSYGKAASDEAVLRGTSGPNEHDSLNSGAVLFS 335 DV AI YL A Q + AA A P E S +G LF+ Sbjct: 823 PPGDVRAIAHYL---------ASFQSGAASSPAAPVPASAAQAPSPAELRSRANGQRLFA 873 Query: 336 GYCASCHAASGSGSSGQDYPSLFHNTTTGARNPANLVSAILFGVERKVGDNEILMPRFDG 395 G CA+CH + PSL NT + P NLV IL G+ MP F Sbjct: 874 GACAACHQEGTGPTLFGVKPSLRVNTNLHSDTPDNLVHVILHGIREPANPALGYMPGF-- 931 Query: 396 HSYVNPLTDKQIALIANYVLKQY--GNPEVQVSEAYVAQAR 434 N +D Q+ + Y+ ++ G P Q EA +A++R Sbjct: 932 ---ANSFSDAQMVDLLAYLRSEFAAGKPAWQGVEAAIARSR 969 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 0.316 0.131 0.388 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: 1,229,542 Number of extensions: 46175 Number of successful extensions: 178 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 138 Number of HSP's successfully gapped: 7 Length of query: 479 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 390 Effective length of database: 1,198,455 Effective search space: 467397450 Effective search space used: 467397450 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: 132 (55.5 bits)