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= 0012.0071.p (483 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313762|ref|YP_003777854.1| cytochrome c precursor protein ... 814 0.0 gi|300312638|ref|YP_003776730.1| cytochrome c precursor protein ... 454 e-129 gi|300313847|ref|YP_003777939.1| membrane-bound D-gluconate 2-de... 344 8e-96 gi|300310719|ref|YP_003774811.1| cytochrome c protein [Herbaspir... 290 2e-79 gi|300313053|ref|YP_003777145.1| gluconate 2-dehydrogenase [Herb... 262 6e-71 >gi|300313762|ref|YP_003777854.1| cytochrome c precursor protein [Herbaspirillum seropedicae SmR1] Length = 482 Score = 814 bits (2102), Expect = 0.0, Method: Compositional matrix adjust. Identities = 391/454 (86%), Positives = 419/454 (92%) Query: 30 DESLSVPAPPKPPVGARLLNRETAPLRPLATPPADAALAQRVAKKDSPSADDQLLLRGAY 89 + SLSVP PP+PPVGARLLNRE PLRP ATP AD ALAQR+A + S SA+DQ +LRGAY Sbjct: 29 EPSLSVPIPPQPPVGARLLNREIKPLRPHATPAADTALAQRIAAQGSASAEDQQILRGAY 88 Query: 90 LARAGDCVACHTSKGGAPFAGGLALASPIGAIYSTNITPDKEHGIGDWSYEDFARLMRTG 149 LARAGDCVACHTSKGGAPFAGGLALASPIGAIYSTNITPDK+HGIGDWSYEDFARLMRTG Sbjct: 89 LARAGDCVACHTSKGGAPFAGGLALASPIGAIYSTNITPDKQHGIGDWSYEDFARLMRTG 148 Query: 150 VTKAGYTVYPAMPYPSYSRLTDEDMQALYAYFTKAVPPSAQANRANDIPWPLSMRWPLAI 209 VTKAGYTVYPAMPYPSYSRLTDEDMQALYAYF+KAVPPSAQ NRANDIPWPLSMRWPLA+ Sbjct: 149 VTKAGYTVYPAMPYPSYSRLTDEDMQALYAYFSKAVPPSAQENRANDIPWPLSMRWPLAL 208 Query: 210 WRKLFAPTPAPYAAPAGTDAQLARGAYLVEGLGHCGSCHTPRSTTMQEKSLRDDSSRLYL 269 WRK+FAPTPAPY AG+D +LARGAYLVEGLGHCGSCH+PR+ TMQEK+L++D RL+L Sbjct: 209 WRKVFAPTPAPYTPAAGSDQELARGAYLVEGLGHCGSCHSPRAVTMQEKALKEDGGRLFL 268 Query: 270 SGGQVVDGWSVPSLRNEHGGGIAGWSQADLVEFLRTGRNQYTASFGAMNDVIEHSMQYMT 329 SGGQVVDGWSVPSLRNEHGGGIAGWSQADLVEFLRTGRNQYTASFGAMNDVIE SMQYM+ Sbjct: 269 SGGQVVDGWSVPSLRNEHGGGIAGWSQADLVEFLRTGRNQYTASFGAMNDVIEDSMQYMS 328 Query: 330 EADLNAMSRYLLSLAPRNGAEPYRYDEATATAAYEGRPQTPGAALYLDRCAACHRSNGTG 389 +ADLNAM+RYLLSL PR A PYRYD ATA AAY+GRP PGA +YLDRCAACHRSNGTG Sbjct: 329 DADLNAMARYLLSLPPRQQAAPYRYDSATAQAAYDGRPDGPGARIYLDRCAACHRSNGTG 388 Query: 390 YGKAFPALAGNPVLQTGDATSAIRIILQGGRQPSTDSATAGLVMAPYAQLLNDQQVAEVT 449 YGKAFPALAGNPVLQT DATSAIRIILQGGRQPST SATAGLVMAPYAQLL+DQQVAEVT Sbjct: 389 YGKAFPALAGNPVLQTSDATSAIRIILQGGRQPSTASATAGLVMAPYAQLLDDQQVAEVT 448 Query: 450 SYIQTAWGNRGATVSAADVAKIRKTAKPVEDRAP 483 SYIQTAWGNRG T +AA+VAK+RKTA PV +RAP Sbjct: 449 SYIQTAWGNRGGTTTAAEVAKVRKTAVPVAERAP 482 >gi|300312638|ref|YP_003776730.1| cytochrome c precursor protein [Herbaspirillum seropedicae SmR1] Length = 441 Score = 454 bits (1167), Expect = e-129, Method: Compositional matrix adjust. Identities = 218/399 (54%), Positives = 291/399 (72%), Gaps = 5/399 (1%) Query: 76 SPSADDQLLLRGAYLARAGDCVACHTSKGGAPFAGGLALASPIGAIYSTNITPDKEHGIG 135 +PSAD QL+ RG YLA+AGDCVACHT+KGG PFAGGLA+A+PIG +YS+NITPDKE+GIG Sbjct: 29 APSADQQLVQRGEYLAKAGDCVACHTAKGGKPFAGGLAIATPIGTVYSSNITPDKENGIG 88 Query: 136 DWSYEDFARLMRTGVTKAGYTVYPAMPYPSYSRLTDEDMQALYAYFTKAVPPSAQANRAN 195 ++S EDF R +R G+ K G ++YPAMPYPSY+++ D++ALYAYF V NR Sbjct: 89 NYSEEDFDRALRHGIRKDGASLYPAMPYPSYAKVKPADVKALYAYFMHGVQADPAPNRGV 148 Query: 196 DIPWPLSMRWPLAIWRKLFAPTPAPYAAPAGTDAQLARGAYLVEGLGHCGSCHTPRSTTM 255 DI WPLSMRWPL+IWRK+FAP A P ++ L RG YLVEGLGHCG+CHTPR M Sbjct: 149 DITWPLSMRWPLSIWRKVFAPAVA-VDGPE-DNSPLVRGQYLVEGLGHCGACHTPRGVGM 206 Query: 256 QEKSLRDDSSRLYLSGGQVVDGWSVPSLRNEHGGGIAGWSQADLVEFLRTGRNQYTASFG 315 QEK+L +DSS+ +LSGG V+DG+ +LR + G+ WS+AD+V FL+TGRN ++A+FG Sbjct: 207 QEKALSNDSSQ-FLSGG-VIDGYLANNLRGDGRDGLGNWSEADIVAFLKTGRNSHSAAFG 264 Query: 316 AMNDVIEHSMQYMTEADLNAMSRYLLSLAP-RNGAEPYRYDEATATAAYEGRPQTPGAAL 374 M DV+ +S QYMTE DL+AM++YL SL P ++G YD+ T A +G Q+PGA Sbjct: 265 GMADVVANSTQYMTEEDLSAMAKYLKSLKPVKDGTPALAYDDKTHQALRKGSDQSPGAMA 324 Query: 375 YLDRCAACHRSNGTGYGKAFPALAGNPVLQTGDATSAIRIILQGGRQPSTDSATAGLVMA 434 +L+ CAACHRS+G GY + FP+LA +P + + S IRI+L+G P T A M Sbjct: 325 FLNNCAACHRSSGKGYDETFPSLALSPTVNAENPASLIRIVLEGAEMPWTHKAPTQFAMP 384 Query: 435 PYAQLLNDQQVAEVTSYIQTAWGNRGATVSAADVAKIRK 473 + L+DQ+VAEV ++I+++WGN+ ++VSA+DVAK+RK Sbjct: 385 AFGSRLSDQEVAEVVTFIRSSWGNQASSVSASDVAKVRK 423 >gi|300313847|ref|YP_003777939.1| membrane-bound D-gluconate 2-dehydrogenase cytochrome c subunit [Herbaspirillum seropedicae SmR1] Length = 423 Score = 344 bits (883), Expect = 8e-96, Method: Compositional matrix adjust. Identities = 177/399 (44%), Positives = 248/399 (62%), Gaps = 12/399 (3%) Query: 78 SADDQLLLRGAYLARAGDCVACHTSKGGAPFAGGLALASPIGAIYSTNITPDKEHGIGDW 137 +AD L+ RG YLARAGDC+ACH++ G ++GGLA+ S G IYSTNITPDKEHGIG++ Sbjct: 26 AADQDLVARGQYLARAGDCMACHSAAGKPAYSGGLAIDSGHGIIYSTNITPDKEHGIGNY 85 Query: 138 SYEDFARLMRTGVTKAGYTVYPAMPYPSYSRLTDEDMQALYAYFTKAVPPSAQANRANDI 197 S F+ +R GV G +YPAMPYPSY++++DED+ ALY YF + V P A A+ + Sbjct: 86 SEAQFSAAVRHGVRADGTQLYPAMPYPSYAKVSDEDIHALYTYFMQGVQPVASTPPASSM 145 Query: 198 PWPLSMRWPLAIWRKLFAPTPAPYAAPAGTDAQLARGAYLVEGLGHCGSCHTPRSTTMQE 257 +P ++RW + +W FA P+ G A++ RGAYLVEGLGHCGSCHTPR M E Sbjct: 146 SFPFNIRWGMKLWNVFFA-NDKPFREQDGWSAEIKRGAYLVEGLGHCGSCHTPRGVAMNE 204 Query: 258 KSLRDDSSRLYLSGGQVVDGWSVPSLRNEHGGGIAGWSQADLVEFLRTGRNQYTASFGAM 317 K+ D S +LSGG ++GW+VPSLR G+ WS D+V++L+TGRN+ + G M Sbjct: 205 KA-SDSSQAQFLSGGD-LNGWAVPSLR-----GMPHWSAQDIVDYLQTGRNKTASVAGEM 257 Query: 318 NDVIEHSMQYMTEADLNAMSRYLLSLAPRNGAEPYRYD----EATATAAYEGRPQTPGAA 373 + V+EHS ++ DL AM+ YL +L+P + R +AT + + T G Sbjct: 258 SLVVEHSTSHLKREDLQAMAAYLKTLSPVASSGSGRVIPQGVDATVSKLTAAKDLTLGER 317 Query: 374 LYLDRCAACHRSNGTGYGKAFPALAGNPVLQTGDATSAIRIILQGGRQPSTDSATAGLVM 433 LYLD CAACH G G FP L G V+ + ++ + +IL G R PST+ A + LVM Sbjct: 318 LYLDNCAACHFVTGRGAPGIFPVLDGATVVNAENPSALLHVILAGARTPSTEKAPSILVM 377 Query: 434 APYAQLLNDQQVAEVTSYIQTAWGNRGATVSAADVAKIR 472 +A L+D++ A + ++++ WGN VS +V K+R Sbjct: 378 PGFAHRLSDEEAAALATFVRQGWGNHAGKVSEREVGKLR 416 >gi|300310719|ref|YP_003774811.1| cytochrome c protein [Herbaspirillum seropedicae SmR1] Length = 431 Score = 290 bits (741), Expect = 2e-79, Method: Compositional matrix adjust. Identities = 171/412 (41%), Positives = 237/412 (57%), Gaps = 23/412 (5%) Query: 69 QRVAKKDSPSADDQLLLRGAYLARAGDCVACHTSKGGAPFAGGLALASPIGAIYSTNITP 128 +R A +P QL +G YLARAG+C+ACHT++GGAP+AGG A+ASP G +Y++NITP Sbjct: 34 ERGAATPAPDPTRQLA-QGQYLARAGNCMACHTARGGAPYAGGRAIASPFGTLYTSNITP 92 Query: 129 DKEHGIGDWSYEDFARLMRTGVTKAGYTVYPAMPYPSYSRLTDEDMQALYAYFTKAVPPS 188 DK GIG WS +DF R + G K G +YPA PY SY+RL+ D AL+AY +++PP Sbjct: 93 DKTTGIGQWSADDFWRALHHGRGKEGQFLYPAFPYTSYTRLSRADSDALFAYL-QSLPPV 151 Query: 189 AQANRANDIPWPLSMRWPLAIWRKLFAPTPAPYAAPAGTDAQLARGAYLVEGLGHCGSCH 248 A+AN+A+ + +P R L +WR L+ TP Y DAQ RGAYLV+G GHC +CH Sbjct: 152 ARANQAHTLRFPYDQRMLLGLWRALYF-TPQSYQPDPRQDAQWNRGAYLVQGAGHCSACH 210 Query: 249 TPRSTTMQEKSLRDDSSRLYLSGGQV-VDGWSVPSLRNEHGG--GIAGWSQADLVEFLRT 305 + R+ L L L+GG + W P L HGG G+ WS AD+ L+T Sbjct: 211 SARN------RLGASIEPLALAGGVIPALQWYAPPL---HGGADGLQDWSTADIAALLKT 261 Query: 306 GRNQYTASFGAMNDVIEHSMQYMTEADLNAMSRYLLSL---APRNGAEPYRYDEATATAA 362 G + + + G M++++ S+QY+ +AD++AM+ YL SL A + A P + A A Sbjct: 262 GVSPHAVTLGPMSEIVGRSLQYLNDADVSAMAVYLKSLPASAADDAARPASVEPAEAE-- 319 Query: 363 YEGRPQTPGAALYLDRCAACHRSNGTGYGKAFPALAGNPVLQTGDATSAIRIILQGGRQP 422 R G LY C CH G G +P LAGN + +A+R +L GG P Sbjct: 320 ---RIMKQGKQLYGTLCVDCHGGKGQGSAPDYPPLAGNRAIAGPHPANAVRAVLNGGFPP 376 Query: 423 STDSATAGLVMAPYAQLLNDQQVAEVTSYIQTAWGNRGATVSAADVAKIRKT 474 ST M P+ L+DQ+VA V SY++ +WGN+G VSAA+V + R Sbjct: 377 STAGNPYPFGMPPFGPQLSDQEVAAVVSYVRNSWGNQGGLVSAAEVNRYRSV 428 >gi|300313053|ref|YP_003777145.1| gluconate 2-dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 499 Score = 262 bits (669), Expect = 6e-71, Method: Compositional matrix adjust. Identities = 163/414 (39%), Positives = 224/414 (54%), Gaps = 34/414 (8%) Query: 83 LLLRGAYLARAGDCVACHTSKGGAPFAGGLALASPIGAIYSTNITPDKEHGIGDWSYEDF 142 L+ RG YLA A DC+ACHT+ G P AGGLA+ASP+G I +TNITP K HGIG+++ E F Sbjct: 52 LIERGHYLAIASDCIACHTAPRGKPMAGGLAIASPVGEIIATNITPSKTHGIGNYTEEQF 111 Query: 143 ARLMRTGVTKAGYTVYPAMPYPSYSRLTDEDMQALYAYFTKAVPPSAQANRANDIPWPLS 202 A +R GV G +YPAMPY +Y+ L+D D+QALYAYF K V P A R D+P+P++ Sbjct: 112 AAALRRGVRADGANLYPAMPYTAYAALSDADVQALYAYFMKGVAPVDVATRPTDLPFPMN 171 Query: 203 MRWPLAIWRKLFAPTPAPYAAPAGTDAQLARGAYLVEGLGHCGSCHTPRSTTMQEKSLRD 262 +RW + W LF P AQ RG YL EG HC +CHTPR MQEK Sbjct: 172 LRWSMKAWNALFL-KEQPLPPQPQRSAQWLRGRYLAEGPAHCSTCHTPRGWLMQEK---- 226 Query: 263 DSSRLYLSGGQVVDGWSVPSLRNEHGGGIAGWSQADLVEFLRTGRNQYTA-SFGAMNDVI 321 L L+G Q V W P++ + GI WSQ DLV +LRTGR + A + G+M + I Sbjct: 227 --PDLQLAGAQ-VGPWYAPNITSHPSAGIGSWSQDDLVAYLRTGRLEGRAQAAGSMAEAI 283 Query: 322 EHSMQYMTEADLNAMSRYL-----LSLAPRNGAEPYRYDE---ATATAAYEGR------- 366 HS +TE DL A++ Y+ ++ G+ R+D+ A A + GR Sbjct: 284 THSFSRLTEEDLRAIAVYIKDRPAIATGDAQGSGS-RFDQGKAGNALAQFRGRTLSAESP 342 Query: 367 PQTPGAALYLDRCAACHRSNGTGYGKA-FPALAGNPVLQTGDATSAIRIILQGGRQPSTD 425 + GA ++ CA+CH NG G +P+L N +A + I IL G + + Sbjct: 343 EEIRGARIFSASCASCHGYNGQGSRDGYYPSLFRNSATAGVNANNLIATILYGVDRETEQ 402 Query: 426 SATAGLVMAPYA------QLLNDQQVAEVTSYIQTAWGNRGATVSAADVAKIRK 473 + M P+ L++ VA +++Y+ +G ATV A DV IR+ Sbjct: 403 GGH--VFMPPFGDQPNALNKLSNADVAALSNYLLKYYGKPAATVKAEDVEVIRQ 454 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 0.130 0.394 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: 1,283,325 Number of extensions: 49525 Number of successful extensions: 235 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 196 Number of HSP's successfully gapped: 8 Length of query: 483 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 394 Effective length of database: 1,198,455 Effective search space: 472191270 Effective search space used: 472191270 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)