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= 0029.0197.p (453 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311001|ref|YP_003775093.1| cytochrome c subunit II protein... 922 0.0 gi|300313053|ref|YP_003777145.1| gluconate 2-dehydrogenase [Herb... 353 2e-98 gi|300313847|ref|YP_003777939.1| membrane-bound D-gluconate 2-de... 326 2e-90 gi|300312638|ref|YP_003776730.1| cytochrome c precursor protein ... 253 2e-68 gi|300310653|ref|YP_003774745.1| cytochrome protein [Herbaspiril... 248 8e-67 >gi|300311001|ref|YP_003775093.1| cytochrome c subunit II protein [Herbaspirillum seropedicae SmR1] Length = 453 Score = 922 bits (2382), Expect = 0.0, Method: Compositional matrix adjust. Identities = 452/453 (99%), Positives = 453/453 (100%) Query: 1 MRKPFKRLLALVALLGAAGMSHLAHAADEGQLIKRGEYLAIAGDCAACHSQKGRAPFSGG 60 MRKPFKRLLALVALLGAAGMSHLAHAADEGQLIKRGEYLAIAGDCAACHSQKGRAPFSGG Sbjct: 1 MRKPFKRLLALVALLGAAGMSHLAHAADEGQLIKRGEYLAIAGDCAACHSQKGRAPFSGG 60 Query: 61 HPISSPLGTIYSTNITPSKTAGIGSYTRDQFAAALRQGVRADGSQLYPAMPYTAYARLND 120 HPISSPLGTIYSTNITPSKTAGIGSYTRDQFAAALRQGVRADGSQLYPAMPYTAYARLND Sbjct: 61 HPISSPLGTIYSTNITPSKTAGIGSYTRDQFAAALRQGVRADGSQLYPAMPYTAYARLND 120 Query: 121 DDVTALYTYFMQGVAAVDQAAPATDLPFPFNIRLSMKAWNWLFLDKKPFEPDPSQSAQWN 180 +DVTALYTYFMQGVAAVDQAAPATDLPFPFNIRLSMKAWNWLFLDKKPFEPDPSQSAQWN Sbjct: 121 EDVTALYTYFMQGVAAVDQAAPATDLPFPFNIRLSMKAWNWLFLDKKPFEPDPSQSAQWN 180 Query: 181 RGAYLVQGLAHCSTCHTPRNFLMAEQLERRLQGGSLGTWYAPDITPAALQAKPAWTREML 240 RGAYLVQGLAHCSTCHTPRNFLMAEQLERRLQGGSLGTWYAPDITPAALQAKPAWTREML Sbjct: 181 RGAYLVQGLAHCSTCHTPRNFLMAEQLERRLQGGSLGTWYAPDITPAALQAKPAWTREML 240 Query: 241 ADYLASGHAANGATAAGPMLEAIEMSFSRLRREDLEAMASYLLPPTAATAAPAVNKPPAG 300 ADYLASGHAANGATAAGPMLEAIEMSFSRLRREDLEAMASYLLPPTAATAAPAVNKPPAG Sbjct: 241 ADYLASGHAANGATAAGPMLEAIEMSFSRLRREDLEAMASYLLPPTAATAAPAVNKPPAG 300 Query: 301 LTPVQGDDTPQALAALSPGARVYMNNCASCHNTAGQGLNGLPPLQSHPVLRQPNGDNVVM 360 LTPVQGDDTPQALAALSPGARVYMNNCASCHNTAGQGLNGLPPLQSHPVLRQPNGDNVVM Sbjct: 301 LTPVQGDDTPQALAALSPGARVYMNNCASCHNTAGQGLNGLPPLQSHPVLRQPNGDNVVM 360 Query: 361 AILEGVLPEHGQGMIGFAHTLNDEQVAAVTNYLLQDIGGSKVSVTTQRVATLRAGGAASP 420 AILEGVLPEHGQGMIGFAHTLNDEQVAAVTNYLLQDIGGSKVSVTTQRVATLRAGGAASP Sbjct: 361 AILEGVLPEHGQGMIGFAHTLNDEQVAAVTNYLLQDIGGSKVSVTTQRVATLRAGGAASP 420 Query: 421 LLWLARAGMALAGLLVALLAWVLWRRRRARRVA 453 LLWLARAGMALAGLLVALLAWVLWRRRRARRVA Sbjct: 421 LLWLARAGMALAGLLVALLAWVLWRRRRARRVA 453 >gi|300313053|ref|YP_003777145.1| gluconate 2-dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 499 Score = 353 bits (905), Expect = 2e-98, Method: Compositional matrix adjust. Identities = 206/422 (48%), Positives = 259/422 (61%), Gaps = 28/422 (6%) Query: 32 LIKRGEYLAIAGDCAACHSQKGRAPFSGGHPISSPLGTIYSTNITPSKTAGIGSYTRDQF 91 LI+RG YLAIA DC ACH+ P +GG I+SP+G I +TNITPSKT GIG+YT +QF Sbjct: 52 LIERGHYLAIASDCIACHTAPRGKPMAGGLAIASPVGEIIATNITPSKTHGIGNYTEEQF 111 Query: 92 AAALRQGVRADGSQLYPAMPYTAYARLNDDDVTALYTYFMQGVAAVDQAAPATDLPFPFN 151 AAALR+GVRADG+ LYPAMPYTAYA L+D DV ALY YFM+GVA VD A TDLPFP N Sbjct: 112 AAALRRGVRADGANLYPAMPYTAYAALSDADVQALYAYFMKGVAPVDVATRPTDLPFPMN 171 Query: 152 IRLSMKAWNWLFLDKKPFEPDPSQSAQWNRGAYLVQGLAHCSTCHTPRNFLMAEQLERRL 211 +R SMKAWN LFL ++P P P +SAQW RG YL +G AHCSTCHTPR +LM E+ + +L Sbjct: 172 LRWSMKAWNALFLKEQPLPPQPQRSAQWLRGRYLAEGPAHCSTCHTPRGWLMQEKPDLQL 231 Query: 212 QGGSLGTWYAPDITPAALQAKPAWTREMLADYLASGHAANGATAAGPMLEAIEMSFSRLR 271 G +G WYAP+IT +W+++ L YL +G A AAG M EAI SFSRL Sbjct: 232 AGAQVGPWYAPNITSHPSAGIGSWSQDDLVAYLRTGRLEGRAQAAGSMAEAITHSFSRLT 291 Query: 272 REDLEAMASYLLP-PTAAT-----AAPAVNKPPAG--LTPVQGDDTPQALAALSP----G 319 EDL A+A Y+ P AT + ++ AG L +G + L+A SP G Sbjct: 292 EEDLRAIAVYIKDRPAIATGDAQGSGSRFDQGKAGNALAQFRG----RTLSAESPEEIRG 347 Query: 320 ARVYMNNCASCHNTAGQGLNG--LPPLQSHPVLRQPNGDNVVMAILEGVLPEHGQGMIGF 377 AR++ +CASCH GQG P L + N +N++ IL GV E QG F Sbjct: 348 ARIFSASCASCHGYNGQGSRDGYYPSLFRNSATAGVNANNLIATILYGVDRETEQGGHVF 407 Query: 378 A----------HTLNDEQVAAVTNYLLQDIGGSKVSVTTQRVATLRAGGAASPLLWLARA 427 + L++ VAA++NYLL+ G +V + V +R GG SPLL +AR Sbjct: 408 MPPFGDQPNALNKLSNADVAALSNYLLKYYGKPAATVKAEDVEVIRQGGPRSPLLLMARI 467 Query: 428 GM 429 GM Sbjct: 468 GM 469 >gi|300313847|ref|YP_003777939.1| membrane-bound D-gluconate 2-dehydrogenase cytochrome c subunit [Herbaspirillum seropedicae SmR1] Length = 423 Score = 326 bits (836), Expect = 2e-90, Method: Compositional matrix adjust. Identities = 189/430 (43%), Positives = 246/430 (57%), Gaps = 27/430 (6%) Query: 1 MRKPFKRLLALVALLGAAGMSHLAHAADEGQLIKRGEYLAIAGDCAACHSQKGRAPFSGG 60 M+K AL LGA G A AAD+ L+ RG+YLA AGDC ACHS G+ +SGG Sbjct: 1 MKKLTSLFAALAWSLGALGTLTTAQAADQ-DLVARGQYLARAGDCMACHSAAGKPAYSGG 59 Query: 61 HPISSPLGTIYSTNITPSKTAGIGSYTRDQFAAALRQGVRADGSQLYPAMPYTAYARLND 120 I S G IYSTNITP K GIG+Y+ QF+AA+R GVRADG+QLYPAMPY +YA+++D Sbjct: 60 LAIDSGHGIIYSTNITPDKEHGIGNYSEAQFSAAVRHGVRADGTQLYPAMPYPSYAKVSD 119 Query: 121 DDVTALYTYFMQGVAAVDQAAPATDLPFPFNIRLSMKAWNWLFLDKKPFEPDPSQSAQWN 180 +D+ ALYTYFMQGV V PA+ + FPFNIR MK WN F + KPF SA+ Sbjct: 120 EDIHALYTYFMQGVQPVASTPPASSMSFPFNIRWGMKLWNVFFANDKPFREQDGWSAEIK 179 Query: 181 RGAYLVQGLAHCSTCHTPRNFLMAEQLE-----RRLQGGSLGTWYAPDITPAALQAKPAW 235 RGAYLV+GL HC +CHTPR M E+ + L GG L W P +L+ P W Sbjct: 180 RGAYLVEGLGHCGSCHTPRGVAMNEKASDSSQAQFLSGGDLNGWAVP-----SLRGMPHW 234 Query: 236 TREMLADYLASGHAANGATAAGPMLEAIEMSFSRLRREDLEAMASYLLPPTAATAAPAVN 295 + + + DYL +G A+ AG M +E S S L+REDL+AMA+YL T +P + Sbjct: 235 SAQDIVDYLQTGRNKT-ASVAGEMSLVVEHSTSHLKREDLQAMAAYL-----KTLSPVAS 288 Query: 296 KPPAGLTPVQGDDTPQALAA---LSPGARVYMNNCASCHNTAGQGLNGL-PPLQSHPVLR 351 + P D T L A L+ G R+Y++NCA+CH G+G G+ P L V+ Sbjct: 289 SGSGRVIPQGVDATVSKLTAAKDLTLGERLYLDNCAACHFVTGRGAPGIFPVLDGATVVN 348 Query: 352 QPNGDNVVMAILEGVLPEHGQG------MIGFAHTLNDEQVAAVTNYLLQDIGGSKVSVT 405 N ++ IL G + M GFAH L+DE+ AA+ ++ Q G V+ Sbjct: 349 AENPSALLHVILAGARTPSTEKAPSILVMPGFAHRLSDEEAAALATFVRQGWGNHAGKVS 408 Query: 406 TQRVATLRAG 415 + V LRAG Sbjct: 409 EREVGKLRAG 418 >gi|300312638|ref|YP_003776730.1| cytochrome c precursor protein [Herbaspirillum seropedicae SmR1] Length = 441 Score = 253 bits (646), Expect = 2e-68, Method: Compositional matrix adjust. Identities = 155/421 (36%), Positives = 227/421 (53%), Gaps = 26/421 (6%) Query: 8 LLALVALLGAAGMSHLAHAADEGQLIKRGEYLAIAGDCAACHSQKGRAPFSGGHPISSPL 67 +++L AL AA + A +AD+ QL++RGEYLA AGDC ACH+ KG PF+GG I++P+ Sbjct: 13 VMSLSALTAAAQSNPAAPSADQ-QLVQRGEYLAKAGDCVACHTAKGGKPFAGGLAIATPI 71 Query: 68 GTIYSTNITPSKTAGIGSYTRDQFAAALRQGVRADGSQLYPAMPYTAYARLNDDDVTALY 127 GT+YS+NITP K GIG+Y+ + F ALR G+R DG+ LYPAMPY +YA++ DV ALY Sbjct: 72 GTVYSSNITPDKENGIGNYSEEDFDRALRHGIRKDGASLYPAMPYPSYAKVKPADVKALY 131 Query: 128 TYFMQGVAAVDQAAPATDLPFPFNIRLSMKAWNWLFLDKKPFEPDPSQSAQWNRGAYLVQ 187 YFM GV A D+ +P ++R + W +F + P ++ RG YLV+ Sbjct: 132 AYFMHGVQADPAPNRGVDITWPLSMRWPLSIWRKVFAPAVAVD-GPEDNSPLVRGQYLVE 190 Query: 188 GLAHCSTCHTPRNFLMAEQL-----ERRLQGGSLGTWYAPDITPAALQAKPAWTREMLAD 242 GL HC CHTPR M E+ + L GG + + A ++ W+ + Sbjct: 191 GLGHCGACHTPRGVGMQEKALSNDSSQFLSGGVIDGYLANNLRGDGRDGLGNWSEADIVA 250 Query: 243 YLASGHAANGATAAGPMLEAIEMSFSRLRREDLEAMASYLLPPTAATAAPAVNKPPAGLT 302 +L +G ++ A A G M + + S + EDL AMA YL + P + PA Sbjct: 251 FLKTGRNSHSA-AFGGMADVVANSTQYMTEEDLSAMAKYL-----KSLKPVKDGTPA--- 301 Query: 303 PVQGDDTPQAL---AALSPGARVYMNNCASCHNTAGQGLN-GLPPLQSHPVLRQPNGDNV 358 D T QAL + SPGA ++NNCA+CH ++G+G + P L P + N ++ Sbjct: 302 LAYDDKTHQALRKGSDQSPGAMAFLNNCAACHRSSGKGYDETFPSLALSPTVNAENPASL 361 Query: 359 VMAILEGV-LPEHGQ-----GMIGFAHTLNDEQVAAVTNYLLQDIGGSKVSVTTQRVATL 412 + +LEG +P + M F L+D++VA V ++ G SV+ VA + Sbjct: 362 IRIVLEGAEMPWTHKAPTQFAMPAFGSRLSDQEVAEVVTFIRSSWGNQASSVSASDVAKV 421 Query: 413 R 413 R Sbjct: 422 R 422 >gi|300310653|ref|YP_003774745.1| cytochrome protein [Herbaspirillum seropedicae SmR1] Length = 974 Score = 248 bits (633), Expect = 8e-67, Method: Compositional matrix adjust. Identities = 151/377 (40%), Positives = 212/377 (56%), Gaps = 16/377 (4%) Query: 33 IKRGEYLAIAGDCAACHSQKGRAPFSGGHPISSPLGTIYSTNITPSKTAGIGSYTRDQFA 92 I+RG +A+AGDCA CH+ G A +GGH + +P GT+YSTNITP + GIG+++ F Sbjct: 587 IERGRRVALAGDCAVCHTAPGGATNAGGHALQTPFGTVYSTNITPDEHTGIGNWSYAAFE 646 Query: 93 AALRQGVRADGSQLYPAMPYTAYARLNDDDVTALYTYFMQGVAAVDQAAPATDLPFPFNI 152 A+R+G+ DG LYPA PYTA+A++++ D+ +LY Y M AV PA DL FPFN+ Sbjct: 647 RAMREGIHRDGRHLYPAFPYTAFAKISEADMQSLYAYLM-AQPAVASTPPANDLRFPFNL 705 Query: 153 RLSMKAWNWLFLDKKPFEPDPSQSAQWNRGAYLVQGLAHCSTCHTPRNFLMAEQLERR-L 211 R + WN LF D + F+PDP++S WNRGAYLV+G HC+ CH+PRN L AE+ R L Sbjct: 706 RPLLAGWNTLFHDPQVFQPDPARSDLWNRGAYLVEGAGHCAACHSPRNALGAEKGGRHYL 765 Query: 212 QGGSLGTWYAPDITPAALQAKPA-WTREMLADYLASGHAANGATAAGPMLEAIEMSFSRL 270 GG + W AP +T AL P WT E L YL +G +A AAGPM + ++L Sbjct: 766 GGGMVDGWEAPALT--ALSKSPTPWTEEELFAYLRTGFSARHGIAAGPMAPVV-AELAQL 822 Query: 271 RREDLEAMASYLLPPTAATAAPAVNKPPAGLTPVQGDDTPQALAALSPGARVYMNNCASC 330 D+ A+A YL + + A + +P L + + G R++ CA+C Sbjct: 823 PPGDVRAIAHYL---ASFQSGAASSPAAPVPASAAQAPSPAELRSRANGQRLFAGACAAC 879 Query: 331 HNTA-GQGLNGLPP-LQSHPVLRQPNGDNVVMAILEGVL----PEHGQGMIGFAHTLNDE 384 H G L G+ P L+ + L DN+V IL G+ P G M GFA++ +D Sbjct: 880 HQEGTGPTLFGVKPSLRVNTNLHSDTPDNLVHVILHGIREPANPALGY-MPGFANSFSDA 938 Query: 385 QVAAVTNYLLQDIGGSK 401 Q+ + YL + K Sbjct: 939 QMVDLLAYLRSEFAAGK 955 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 0.319 0.133 0.406 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: 1,296,738 Number of extensions: 54228 Number of successful extensions: 194 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 160 Number of HSP's successfully gapped: 7 Length of query: 453 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 365 Effective length of database: 1,203,190 Effective search space: 439164350 Effective search space used: 439164350 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: 132 (55.5 bits)