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= 0022.0006.p (454 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... 712 0.0 gi|300313053|ref|YP_003777145.1| gluconate 2-dehydrogenase [Herb... 360 e-100 gi|300313847|ref|YP_003777939.1| membrane-bound D-gluconate 2-de... 326 3e-90 gi|300312638|ref|YP_003776730.1| cytochrome c precursor protein ... 256 2e-69 gi|300313762|ref|YP_003777854.1| cytochrome c precursor protein ... 253 3e-68 >gi|300311001|ref|YP_003775093.1| cytochrome c subunit II protein [Herbaspirillum seropedicae SmR1] Length = 453 Score = 712 bits (1839), Expect = 0.0, Method: Compositional matrix adjust. Identities = 359/433 (82%), Positives = 384/433 (88%), Gaps = 7/433 (1%) Query: 1 MRKPFKRLMAMLSLLGVVA---LAHAADDAQLIKRGEYLAIAGDCAACHSEKGRAPFSGG 57 MRKPFKRL+A+++LLG LAHAAD+ QLIKRGEYLAIAGDCAACHS+KGRAPFSGG Sbjct: 1 MRKPFKRLLALVALLGAAGMSHLAHAADEGQLIKRGEYLAIAGDCAACHSQKGRAPFSGG 60 Query: 58 HPISSPLGTIYSTNITPSKTHGIGQYTPEQFAAALRRGVRADGSNLYPAMPYTAYARLND 117 HPISSPLGTIYSTNITPSKT GIG YT +QFAAALR+GVRADGS LYPAMPYTAYARLND Sbjct: 61 HPISSPLGTIYSTNITPSKTAGIGSYTRDQFAAALRQGVRADGSQLYPAMPYTAYARLND 120 Query: 118 EDVAALYAYFMQGVQPVDQAPPATALPFPFNIRMSMKAWNWLFLDTKPFEPDPAQSAQWN 177 EDV ALY YFMQGV VDQA PAT LPFPFNIR+SMKAWNWLFLD KPFEPDP+QSAQWN Sbjct: 121 EDVTALYTYFMQGVAAVDQAAPATDLPFPFNIRLSMKAWNWLFLDKKPFEPDPSQSAQWN 180 Query: 178 RGAYLVQGLAHCSTCHTPRNVLMAEQLERRLQGASLGTWYAPDISPAALQAKPAWTRAML 237 RGAYLVQGLAHCSTCHTPRN LMAEQLERRLQG SLGTWYAPDI+PAALQAKPAWTR ML Sbjct: 181 RGAYLVQGLAHCSTCHTPRNFLMAEQLERRLQGGSLGTWYAPDITPAALQAKPAWTREML 240 Query: 238 ADYLASGHAANGATAGGPMLEAIEKSFSRMTREDLDAMATYLLPASPAAAAPASATAPAA 297 ADYLASGHAANGATA GPMLEAIE SFSR+ REDL+AMA+YLLP + A AAPA PA Sbjct: 241 ADYLASGHAANGATAAGPMLEAIEMSFSRLRREDLEAMASYLLPPTAATAAPAVNKPPA- 299 Query: 298 AVPALTPVQGDDTPQALAAMSVGARVYMNNCASCHNTGGQGLNGLPSLQQHPLLRQPNAD 357 LTPVQGDDTPQALAA+S GARVYMNNCASCHNT GQGLNGLP LQ HP+LRQPN D Sbjct: 300 ---GLTPVQGDDTPQALAALSPGARVYMNNCASCHNTAGQGLNGLPPLQSHPVLRQPNGD 356 Query: 358 NVAMAILEGVLPEHGQGMIGFAHTLNDGEIAAVTNYLMQDLGGSKVSISAERVKALRAGG 417 NV MAILEGVLPEHGQGMIGFAHTLND ++AAVTNYL+QD+GGSKVS++ +RV LRAGG Sbjct: 357 NVVMAILEGVLPEHGQGMIGFAHTLNDEQVAAVTNYLLQDIGGSKVSVTTQRVATLRAGG 416 Query: 418 EPSPLLWVARGGM 430 SPLLW+AR GM Sbjct: 417 AASPLLWLARAGM 429 >gi|300313053|ref|YP_003777145.1| gluconate 2-dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 499 Score = 360 bits (924), Expect = e-100, Method: Compositional matrix adjust. Identities = 206/418 (49%), Positives = 255/418 (61%), Gaps = 16/418 (3%) Query: 29 LIKRGEYLAIAGDCAACHSEKGRAPFSGGHPISSPLGTIYSTNITPSKTHGIGQYTPEQF 88 LI+RG YLAIA DC ACH+ P +GG I+SP+G I +TNITPSKTHGIG YT EQF Sbjct: 52 LIERGHYLAIASDCIACHTAPRGKPMAGGLAIASPVGEIIATNITPSKTHGIGNYTEEQF 111 Query: 89 AAALRRGVRADGSNLYPAMPYTAYARLNDEDVAALYAYFMQGVQPVDQAPPATALPFPFN 148 AAALRRGVRADG+NLYPAMPYTAYA L+D DV ALYAYFM+GV PVD A T LPFP N Sbjct: 112 AAALRRGVRADGANLYPAMPYTAYAALSDADVQALYAYFMKGVAPVDVATRPTDLPFPMN 171 Query: 149 IRMSMKAWNWLFLDTKPFEPDPAQSAQWNRGAYLVQGLAHCSTCHTPRNVLMAEQLERRL 208 +R SMKAWN LFL +P P P +SAQW RG YL +G AHCSTCHTPR LM E+ + +L Sbjct: 172 LRWSMKAWNALFLKEQPLPPQPQRSAQWLRGRYLAEGPAHCSTCHTPRGWLMQEKPDLQL 231 Query: 209 QGASLGTWYAPDISPAALQAKPAWTRAMLADYLASGHAANGATAGGPMLEAIEKSFSRMT 268 GA +G WYAP+I+ +W++ L YL +G A A G M EAI SFSR+T Sbjct: 232 AGAQVGPWYAPNITSHPSAGIGSWSQDDLVAYLRTGRLEGRAQAAGSMAEAITHSFSRLT 291 Query: 269 REDLDAMATYLLP----ASPAAAAPASATAPAAAVPALTPVQGDDTPQALAAMSVGARVY 324 EDL A+A Y+ A+ A S A AL +G GAR++ Sbjct: 292 EEDLRAIAVYIKDRPAIATGDAQGSGSRFDQGKAGNALAQFRGRTLSAESPEEIRGARIF 351 Query: 325 MNNCASCHNTGGQGLNG--LPSLQQHPLLRQPNADNVAMAILEGVLPEHGQGMIGFA--- 379 +CASCH GQG PSL ++ NA+N+ IL GV E QG F Sbjct: 352 SASCASCHGYNGQGSRDGYYPSLFRNSATAGVNANNLIATILYGVDRETEQGGHVFMPPF 411 Query: 380 -------HTLNDGEIAAVTNYLMQDLGGSKVSISAERVKALRAGGEPSPLLWVARGGM 430 + L++ ++AA++NYL++ G ++ AE V+ +R GG SPLL +AR GM Sbjct: 412 GDQPNALNKLSNADVAALSNYLLKYYGKPAATVKAEDVEVIRQGGPRSPLLLMARIGM 469 >gi|300313847|ref|YP_003777939.1| membrane-bound D-gluconate 2-dehydrogenase cytochrome c subunit [Herbaspirillum seropedicae SmR1] Length = 423 Score = 326 bits (835), Expect = 3e-90, Method: Compositional matrix adjust. Identities = 187/427 (43%), Positives = 239/427 (55%), Gaps = 31/427 (7%) Query: 5 FKRLMAMLSLLGVVALAHAADDAQLIKRGEYLAIAGDCAACHSEKGRAPFSGGHPISSPL 64 F L L LG + A AAD L+ RG+YLA AGDC ACHS G+ +SGG I S Sbjct: 8 FAALAWSLGALGTLTTAQAADQ-DLVARGQYLARAGDCMACHSAAGKPAYSGGLAIDSGH 66 Query: 65 GTIYSTNITPSKTHGIGQYTPEQFAAALRRGVRADGSNLYPAMPYTAYARLNDEDVAALY 124 G IYSTNITP K HGIG Y+ QF+AA+R GVRADG+ LYPAMPY +YA+++DED+ ALY Sbjct: 67 GIIYSTNITPDKEHGIGNYSEAQFSAAVRHGVRADGTQLYPAMPYPSYAKVSDEDIHALY 126 Query: 125 AYFMQGVQPVDQAPPATALPFPFNIRMSMKAWNWLFLDTKPFEPDPAQSAQWNRGAYLVQ 184 YFMQGVQPV PPA+++ FPFNIR MK WN F + KPF SA+ RGAYLV+ Sbjct: 127 TYFMQGVQPVASTPPASSMSFPFNIRWGMKLWNVFFANDKPFREQDGWSAEIKRGAYLVE 186 Query: 185 GLAHCSTCHTPRNVLMAEQLE-----RRLQGASLGTWYAPDISPAALQAKPAWTRAMLAD 239 GL HC +CHTPR V M E+ + L G L W P +L+ P W+ + D Sbjct: 187 GLGHCGSCHTPRGVAMNEKASDSSQAQFLSGGDLNGWAVP-----SLRGMPHWSAQDIVD 241 Query: 240 YLASGHAANGATAGGPMLEAIEKSFSRMTREDLDAMATYLLPASPAAAAPASATAPA--- 296 YL +G A+ G M +E S S + REDL AMA YL SP A++ + P Sbjct: 242 YLQTGRNKT-ASVAGEMSLVVEHSTSHLKREDLQAMAAYLKTLSPVASSGSGRVIPQGVD 300 Query: 297 AAVPALTPVQGDDTPQALAAMSVGARVYMNNCASCHNTGGQGLNGL-PSLQQHPLLRQPN 355 A V LT A +++G R+Y++NCA+CH G+G G+ P L ++ N Sbjct: 301 ATVSKLT---------AAKDLTLGERLYLDNCAACHFVTGRGAPGIFPVLDGATVVNAEN 351 Query: 356 ADNVAMAILEGVLPEHGQG------MIGFAHTLNDGEIAAVTNYLMQDLGGSKVSISAER 409 + IL G + M GFAH L+D E AA+ ++ Q G +S Sbjct: 352 PSALLHVILAGARTPSTEKAPSILVMPGFAHRLSDEEAAALATFVRQGWGNHAGKVSERE 411 Query: 410 VKALRAG 416 V LRAG Sbjct: 412 VGKLRAG 418 >gi|300312638|ref|YP_003776730.1| cytochrome c precursor protein [Herbaspirillum seropedicae SmR1] Length = 441 Score = 256 bits (655), Expect = 2e-69, Method: Compositional matrix adjust. Identities = 161/426 (37%), Positives = 226/426 (53%), Gaps = 36/426 (8%) Query: 10 AMLSLLGVVALAHA-----ADDAQLIKRGEYLAIAGDCAACHSEKGRAPFSGGHPISSPL 64 A++SL + A A + + D QL++RGEYLA AGDC ACH+ KG PF+GG I++P+ Sbjct: 12 AVMSLSALTAAAQSNPAAPSADQQLVQRGEYLAKAGDCVACHTAKGGKPFAGGLAIATPI 71 Query: 65 GTIYSTNITPSKTHGIGQYTPEQFAAALRRGVRADGSNLYPAMPYTAYARLNDEDVAALY 124 GT+YS+NITP K +GIG Y+ E F ALR G+R DG++LYPAMPY +YA++ DV ALY Sbjct: 72 GTVYSSNITPDKENGIGNYSEEDFDRALRHGIRKDGASLYPAMPYPSYAKVKPADVKALY 131 Query: 125 AYFMQGVQPVDQAPP-ATALPFPFNIRMSMKAWNWLFLDTKPFEPDPAQSAQWNRGAYLV 183 AYFM GVQ D AP + +P ++R + W +F + P ++ RG YLV Sbjct: 132 AYFMHGVQ-ADPAPNRGVDITWPLSMRWPLSIWRKVFAPAVAVD-GPEDNSPLVRGQYLV 189 Query: 184 QGLAHCSTCHTPRNVLMAEQL-----ERRLQGASLGTWYAPDISPAALQAKPAWTRAMLA 238 +GL HC CHTPR V M E+ + L G + + A ++ W+ A + Sbjct: 190 EGLGHCGACHTPRGVGMQEKALSNDSSQFLSGGVIDGYLANNLRGDGRDGLGNWSEADIV 249 Query: 239 DYLASGHAANGATAGGPMLEAIEKSFSRMTREDLDAMATYLLPASPAAAAPASATAPAAA 298 +L +G ++ A GG M + + S MT EDL AMA YL P Sbjct: 250 AFLKTGRNSHSAAFGG-MADVVANSTQYMTEEDLSAMAKYLKSLKPV----------KDG 298 Query: 299 VPALTPVQGDDTPQAL---AAMSVGARVYMNNCASCHNTGGQGLN-GLPSLQQHPLLRQP 354 PAL D T QAL + S GA ++NNCA+CH + G+G + PSL P + Sbjct: 299 TPAL--AYDDKTHQALRKGSDQSPGAMAFLNNCAACHRSSGKGYDETFPSLALSPTVNAE 356 Query: 355 NADNVAMAILEGV-LPEHGQ-----GMIGFAHTLNDGEIAAVTNYLMQDLGGSKVSISAE 408 N ++ +LEG +P + M F L+D E+A V ++ G S+SA Sbjct: 357 NPASLIRIVLEGAEMPWTHKAPTQFAMPAFGSRLSDQEVAEVVTFIRSSWGNQASSVSAS 416 Query: 409 RVKALR 414 V +R Sbjct: 417 DVAKVR 422 >gi|300313762|ref|YP_003777854.1| cytochrome c precursor protein [Herbaspirillum seropedicae SmR1] Length = 482 Score = 253 bits (645), Expect = 3e-68, Method: Compositional matrix adjust. Identities = 162/422 (38%), Positives = 223/422 (52%), Gaps = 34/422 (8%) Query: 17 VVALAHAADDAQLIKRGEYLAIAGDCAACHSEKGRAPFSGGHPISSPLGTIYSTNITPSK 76 + A A+ + Q I RG YLA AGDC ACH+ KG APF+GG ++SP+G IYSTNITP K Sbjct: 70 IAAQGSASAEDQQILRGAYLARAGDCVACHTSKGGAPFAGGLALASPIGAIYSTNITPDK 129 Query: 77 THGIGQYTPEQFAAALRRGVRADGSNLYPAMPYTAYARLNDEDVAALYAYFMQGVQPVDQ 136 HGIG ++ E FA +R GV G +YPAMPY +Y+RL DED+ ALYAYF + V P Q Sbjct: 130 QHGIGDWSYEDFARLMRTGVTKAGYTVYPAMPYPSYSRLTDEDMQALYAYFSKAVPPSAQ 189 Query: 137 APPATALPFPFNIRMSMKAWNWLFLDT-KPFEPDPAQSAQWNRGAYLVQGLAHCSTCHTP 195 A +P+P ++R + W +F T P+ P + RGAYLV+GL HC +CH+P Sbjct: 190 ENRANDIPWPLSMRWPLALWRKVFAPTPAPYTPAAGSDQELARGAYLVEGLGHCGSCHSP 249 Query: 196 RNVLMAEQLER----RL---QGASLGTWYAPDISPAALQAKPAWTRAMLADYLASGHAAN 248 R V M E+ + RL G + W P + W++A L ++L +G Sbjct: 250 RAVTMQEKALKEDGGRLFLSGGQVVDGWSVPSLRNEHGGGIAGWSQADLVEFLRTGRNQY 309 Query: 249 GATAGGPMLEAIEKSFSRMTREDLDAMATYLLPASP-AAAAP---ASATAPAAAVPALTP 304 A+ G M + IE S M+ DL+AMA YLL P AAP SATA AA Sbjct: 310 TASFGA-MNDVIEDSMQYMSDADLNAMARYLLSLPPRQQAAPYRYDSATAQAAY------ 362 Query: 305 VQGDDTPQALAAMSVGARVYMNNCASCHNTGGQGL-NGLPSLQQHPLLRQPNADNVAMAI 363 D P GAR+Y++ CA+CH + G G P+L +P+L+ +A + I Sbjct: 363 ---DGRPDG-----PGARIYLDRCAACHRSNGTGYGKAFPALAGNPVLQTSDATSAIRII 414 Query: 364 LEG------VLPEHGQGMIGFAHTLNDGEIAAVTNYLMQDLGGSKVSISAERVKALRAGG 417 L+G G M +A L+D ++A VT+Y+ G + +A V +R Sbjct: 415 LQGGRQPSTASATAGLVMAPYAQLLDDQQVAEVTSYIQTAWGNRGGTTTAAEVAKVRKTA 474 Query: 418 EP 419 P Sbjct: 475 VP 476 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 0.132 0.404 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: 1,415,920 Number of extensions: 60979 Number of successful extensions: 247 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 205 Number of HSP's successfully gapped: 7 Length of query: 454 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 366 Effective length of database: 1,203,190 Effective search space: 440367540 Effective search space used: 440367540 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)