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= 0007.0124.p (426 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... 622 e-179 gi|300313762|ref|YP_003777854.1| cytochrome c precursor protein ... 282 3e-77 gi|300312638|ref|YP_003776730.1| cytochrome c precursor protein ... 271 6e-74 gi|300313847|ref|YP_003777939.1| membrane-bound D-gluconate 2-de... 241 6e-65 gi|300310653|ref|YP_003774745.1| cytochrome protein [Herbaspiril... 239 5e-64 >gi|300310719|ref|YP_003774811.1| cytochrome c protein [Herbaspirillum seropedicae SmR1] Length = 431 Score = 622 bits (1604), Expect = e-179, Method: Compositional matrix adjust. Identities = 306/408 (75%), Positives = 339/408 (83%), Gaps = 7/408 (1%) Query: 26 VIAWQSLRSEDPGVVVPVTDRQAQLAKGQYLARAGNCMACHTVRGGAAYAGGRALPTPFG 85 VI WQ L E+ G P D QLA+GQYLARAGNCMACHT RGGA YAGGRA+ +PFG Sbjct: 24 VIGWQWLGPEERGAATPAPDPTRQLAQGQYLARAGNCMACHTARGGAPYAGGRAIASPFG 83 Query: 86 TIYTTNITPDRANGIGDWSADDFWRALHHGRGRDGRFLFPAFPYTSYTQLSREDSDALFA 145 T+YT+NITPD+ GIG WSADDFWRALHHGRG++G+FL+PAFPYTSYT+LSR DSDALFA Sbjct: 84 TLYTSNITPDKTTGIGQWSADDFWRALHHGRGKEGQFLYPAFPYTSYTRLSRADSDALFA 143 Query: 146 WLRTLPPVNQPNRSHDLRFPYDQRPLLGLWRAFFFTPAVYQPDPARSAQWNRGAYLVRGA 205 +L++LPPV + N++H LRFPYDQR LLGLWRA +FTP YQPDP + AQWNRGAYLV+GA Sbjct: 144 YLQSLPPVARANQAHTLRFPYDQRMLLGLWRALYFTPQSYQPDPRQDAQWNRGAYLVQGA 203 Query: 206 GHCSACHSARNVVAASIAPLDLAGGMIPALDWYAPPLHGGEHGLGGWSEADIAALLRTGV 265 GHCSACHSARN + ASI PL LAGG+IPAL WYAPPLHGG GL WS ADIAALL+TGV Sbjct: 204 GHCSACHSARNRLGASIEPLALAGGVIPALQWYAPPLHGGADGLQDWSTADIAALLKTGV 263 Query: 266 SPRGTSLGPMSEIVGRSLQYLNDEDINAMAVYLKSLPAQPLPAASAAAQPEPAEAERILK 325 SP +LGPMSEIVGRSLQYLND D++AMAVYLKSLPA A+ A EPAEAERI+K Sbjct: 264 SPHAVTLGPMSEIVGRSLQYLNDADVSAMAVYLKSLPASAADDAARPASVEPAEAERIMK 323 Query: 326 QGKKLYGELCVDCHGGKGQGSAPDYPPLAGNHAIGGPQXSPPPP-------PPSTAGNPY 378 QGK+LYG LCVDCHGGKGQGSAPDYPPLAGN AI GP + PPSTAGNPY Sbjct: 324 QGKQLYGTLCVDCHGGKGQGSAPDYPPLAGNRAIAGPHPANAVRAVLNGGFPPSTAGNPY 383 Query: 379 PFGMPPFGPQLSDQEVAALVSYVRNSWGNQGGFVSASEVNRYRSVPLD 426 PFGMPPFGPQLSDQEVAA+VSYVRNSWGNQGG VSA+EVNRYRSVPLD Sbjct: 384 PFGMPPFGPQLSDQEVAAVVSYVRNSWGNQGGLVSAAEVNRYRSVPLD 431 >gi|300313762|ref|YP_003777854.1| cytochrome c precursor protein [Herbaspirillum seropedicae SmR1] Length = 482 Score = 282 bits (722), Expect = 3e-77, Method: Compositional matrix adjust. Identities = 176/434 (40%), Positives = 238/434 (54%), Gaps = 50/434 (11%) Query: 18 AVVALAGGVIAWQSLRSEDPGVVVPVTDRQAQLAKGQYLARAGNCMACHTVRGGAAYAGG 77 A ALA + A S +ED Q+ +G YLARAG+C+ACHT +GGA +AGG Sbjct: 62 ADTALAQRIAAQGSASAED-----------QQILRGAYLARAGDCVACHTSKGGAPFAGG 110 Query: 78 RALPTPFGTIYTTNITPDRANGIGDWSADDFWRALHHGRGRDGRFLFPAFPYTSYTQLSR 137 AL +P G IY+TNITPD+ +GIGDWS +DF R + G + G ++PA PY SY++L+ Sbjct: 111 LALASPIGAIYSTNITPDKQHGIGDWSYEDFARLMRTGVTKAGYTVYPAMPYPSYSRLTD 170 Query: 138 EDSDALFAWL-RTLPPVNQPNRSHDLRFPYDQRPLLGLWRAFFF-TPAVYQPDPARSAQW 195 ED AL+A+ + +PP Q NR++D+ +P R L LWR F TPA Y P + Sbjct: 171 EDMQALYAYFSKAVPPSAQENRANDIPWPLSMRWPLALWRKVFAPTPAPYTPAAGSDQEL 230 Query: 196 NRGAYLVRGAGHCSACHSARNVVAASIA------PLDLAGGMIPALD-WYAPPL---HGG 245 RGAYLV G GHC +CHS R V A L L+GG + +D W P L HGG Sbjct: 231 ARGAYLVEGLGHCGSCHSPRAVTMQEKALKEDGGRLFLSGGQV--VDGWSVPSLRNEHGG 288 Query: 246 EHGLGGWSEADIAALLRTGVSPRGTSLGPMSEIVGRSLQYLNDEDINAMAVYLKSLP--A 303 G+ GWS+AD+ LRTG + S G M++++ S+QY++D D+NAMA YL SLP Sbjct: 289 --GIAGWSQADLVEFLRTGRNQYTASFGAMNDVIEDSMQYMSDADLNAMARYLLSLPPRQ 346 Query: 304 QPLPAASAAAQPEPAEAERILKQGKKLYGELCVDCHGGKGQGSAPDYPPLAGNHAI---- 359 Q P +A + A R G ++Y + C CH G G +P LAGN + Sbjct: 347 QAAPYRYDSATAQAAYDGRPDGPGARIYLDRCAACHRSNGTGYGKAFPALAGNPVLQTSD 406 Query: 360 ----------GGPQXSPPPPPPSTAGNPYPFGMPPFGPQLSDQEVAALVSYVRNSWGNQG 409 GG Q PSTA M P+ L DQ+VA + SY++ +WGN+G Sbjct: 407 ATSAIRIILQGGRQ-------PSTASATAGLVMAPYAQLLDDQQVAEVTSYIQTAWGNRG 459 Query: 410 GFVSASEVNRYRSV 423 G +A+EV + R Sbjct: 460 GTTTAAEVAKVRKT 473 >gi|300312638|ref|YP_003776730.1| cytochrome c precursor protein [Herbaspirillum seropedicae SmR1] Length = 441 Score = 271 bits (694), Expect = 6e-74, Method: Compositional matrix adjust. Identities = 168/429 (39%), Positives = 240/429 (55%), Gaps = 31/429 (7%) Query: 12 LLGSVLAVVALAGGVIAWQSLRSEDPGVVVPVTDRQAQLAKGQYLARAGNCMACHTVRGG 71 + + AV++L+ A QS +P P D+Q + +G+YLA+AG+C+ACHT +GG Sbjct: 6 FIAACAAVMSLSALTAAAQS----NPAA--PSADQQL-VQRGEYLAKAGDCVACHTAKGG 58 Query: 72 AAYAGGRALPTPFGTIYTTNITPDRANGIGDWSADDFWRALHHGRGRDGRFLFPAFPYTS 131 +AGG A+ TP GT+Y++NITPD+ NGIG++S +DF RAL HG +DG L+PA PY S Sbjct: 59 KPFAGGLAIATPIGTVYSSNITPDKENGIGNYSEEDFDRALRHGIRKDGASLYPAMPYPS 118 Query: 132 YTQLSREDSDALFAW-LRTLPPVNQPNRSHDLRFPYDQRPLLGLWRAFFFTPAVYQPDPA 190 Y ++ D AL+A+ + + PNR D+ +P R L +WR F PAV P Sbjct: 119 YAKVKPADVKALYAYFMHGVQADPAPNRGVDITWPLSMRWPLSIWRK-VFAPAVAVDGPE 177 Query: 191 RSAQWNRGAYLVRGAGHCSACHSARNVVAASIAPLD-----LAGGMIPALDWYAPPLHG- 244 ++ RG YLV G GHC ACH+ R V A + L+GG+I + A L G Sbjct: 178 DNSPLVRGQYLVEGLGHCGACHTPRGVGMQEKALSNDSSQFLSGGVIDG--YLANNLRGD 235 Query: 245 GEHGLGGWSEADIAALLRTGVSPRGTSLGPMSEIVGRSLQYLNDEDINAMAVYLKSLPAQ 304 G GLG WSEADI A L+TG + + G M+++V S QY+ +ED++AMA YLKSL + Sbjct: 236 GRDGLGNWSEADIVAFLKTGRNSHSAAFGGMADVVANSTQYMTEEDLSAMAKYLKSL--K 293 Query: 305 PLPAASAAAQPEPAEAERILKQGKKLYGEL-----CVDCHGGKGQGSAPDYPPLAGNHAI 359 P+ + A + + + K + G + C CH G+G +P LA + + Sbjct: 294 PVKDGTPALAYDDKTHQALRKGSDQSPGAMAFLNNCAACHRSSGKGYDETFPSLALSPTV 353 Query: 360 GGPQXS-------PPPPPPSTAGNPYPFGMPPFGPQLSDQEVAALVSYVRNSWGNQGGFV 412 + P T P F MP FG +LSDQEVA +V+++R+SWGNQ V Sbjct: 354 NAENPASLIRIVLEGAEMPWTHKAPTQFAMPAFGSRLSDQEVAEVVTFIRSSWGNQASSV 413 Query: 413 SASEVNRYR 421 SAS+V + R Sbjct: 414 SASDVAKVR 422 >gi|300313847|ref|YP_003777939.1| membrane-bound D-gluconate 2-dehydrogenase cytochrome c subunit [Herbaspirillum seropedicae SmR1] Length = 423 Score = 241 bits (616), Expect = 6e-65, Method: Compositional matrix adjust. Identities = 149/397 (37%), Positives = 203/397 (51%), Gaps = 29/397 (7%) Query: 47 QAQLAKGQYLARAGNCMACHTVRGGAAYAGGRALPTPFGTIYTTNITPDRANGIGDWSAD 106 Q +A+GQYLARAG+CMACH+ G AY+GG A+ + G IY+TNITPD+ +GIG++S Sbjct: 29 QDLVARGQYLARAGDCMACHSAAGKPAYSGGLAIDSGHGIIYSTNITPDKEHGIGNYSEA 88 Query: 107 DFWRALHHGRGRDGRFLFPAFPYTSYTQLSREDSDALFAW-LRTLPPVNQPNRSHDLRFP 165 F A+ HG DG L+PA PY SY ++S ED AL+ + ++ + PV + + FP Sbjct: 89 QFSAAVRHGVRADGTQLYPAMPYPSYAKVSDEDIHALYTYFMQGVQPVASTPPASSMSFP 148 Query: 166 YDQRPLLGLWRAFFFTPAVYQPDPARSAQWNRGAYLVRGAGHCSACHSARNVVAASIAPL 225 ++ R + LW FF ++ SA+ RGAYLV G GHC +CH+ R V A Sbjct: 149 FNIRWGMKLWNVFFANDKPFREQDGWSAEIKRGAYLVEGLGHCGSCHTPRGVAMNEKASD 208 Query: 226 DLAGGMIPALD---WYAPPLHGGEHGLGGWSEADIAALLRTGVSPRGTSLGPMSEIVGRS 282 + D W P L G H WS DI L+TG + + G MS +V S Sbjct: 209 SSQAQFLSGGDLNGWAVPSLRGMPH----WSAQDIVDYLQTGRNKTASVAGEMSLVVEHS 264 Query: 283 LQYLNDEDINAMAVYLKSLPAQPLPAASAA----------AQPEPAEAERILKQGKKLYG 332 +L ED+ AMA YLK+L P AS+ A A + L G++LY Sbjct: 265 TSHLKREDLQAMAAYLKTLS----PVASSGSGRVIPQGVDATVSKLTAAKDLTLGERLYL 320 Query: 333 ELCVDCHGGKGQGSAPDYPPLAGNHAIGGPQXS-------PPPPPPSTAGNPYPFGMPPF 385 + C CH G+G+ +P L G + S PST P MP F Sbjct: 321 DNCAACHFVTGRGAPGIFPVLDGATVVNAENPSALLHVILAGARTPSTEKAPSILVMPGF 380 Query: 386 GPQLSDQEVAALVSYVRNSWGNQGGFVSASEVNRYRS 422 +LSD+E AAL ++VR WGN G VS EV + R+ Sbjct: 381 AHRLSDEEAAALATFVRQGWGNHAGKVSEREVGKLRA 417 >gi|300310653|ref|YP_003774745.1| cytochrome protein [Herbaspirillum seropedicae SmR1] Length = 974 Score = 239 bits (609), Expect = 5e-64, Method: Compositional matrix adjust. Identities = 158/412 (38%), Positives = 216/412 (52%), Gaps = 25/412 (6%) Query: 33 RSEDPGVVVPVTD--RQAQLAKGQYLARAGNCMACHTVRGGAAYAGGRALPTPFGTIYTT 90 RSE + P D A + +G+ +A AG+C CHT GGA AGG AL TPFGT+Y+T Sbjct: 568 RSEIAPIARPDPDLYSAATIERGRRVALAGDCAVCHTAPGGATNAGGHALQTPFGTVYST 627 Query: 91 NITPDRANGIGDWSADDFWRALHHGRGRDGRFLFPAFPYTSYTQLSREDSDALFAWLRTL 150 NITPD GIG+WS F RA+ G RDGR L+PAFPYT++ ++S D +L+A+L Sbjct: 628 NITPDEHTGIGNWSYAAFERAMREGIHRDGRHLYPAFPYTAFAKISEADMQSLYAYLMAQ 687 Query: 151 PPVNQPNRSHDLRFPYDQRPLLGLWRAFFFTPAVYQPDPARSAQWNRGAYLVRGAGHCSA 210 P V ++DLRFP++ RPLL W F P V+QPDPARS WNRGAYLV GAGHC+A Sbjct: 688 PAVASTPPANDLRFPFNLRPLLAGWNTLFHDPQVFQPDPARSDLWNRGAYLVEGAGHCAA 747 Query: 211 CHSARNVVAASIAPLD-LAGGMIPALDWYAPPLHGGEHGLGGWSEADIAALLRTGVSPR- 268 CHS RN + A L GGM+ W AP L W+E ++ A LRTG S R Sbjct: 748 CHSPRNALGAEKGGRHYLGGGMVDG--WEAPALTALSKSPTPWTEEELFAYLRTGFSARH 805 Query: 269 GTSLGPMSEIVGRSLQYLNDEDINAMAVYLKSLPAQPLPAASAAAQPEPAEAE-----RI 323 G + GPM+ +V L L D+ A+A YL S + + +A A+A R Sbjct: 806 GIAAGPMAPVVAE-LAQLPPGDVRAIAHYLASFQSGAASSPAAPVPASAAQAPSPAELRS 864 Query: 324 LKQGKKLYGELCVDCHGGKGQGSAPDYPPLAGNHAIGGPQXSPPPPPPSTA--------G 375 G++L+ C CH +G+ P + + + S P Sbjct: 865 RANGQRLFAGACAACH---QEGTGPTLFGVKPSLRVNTNLHSDTPDNLVHVILHGIREPA 921 Query: 376 NPYPFGMPPFGPQLSDQEVAALVSYVRNSW--GNQGGFVSASEVNRYRSVPL 425 NP MP F SD ++ L++Y+R+ + G + + R R++P+ Sbjct: 922 NPALGYMPGFANSFSDAQMVDLLAYLRSEFAAGKPAWQGVEAAIARSRAMPM 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 0.319 0.137 0.439 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: 1,302,143 Number of extensions: 53864 Number of successful extensions: 228 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 183 Number of HSP's successfully gapped: 8 Length of query: 426 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 338 Effective length of database: 1,203,190 Effective search space: 406678220 Effective search space used: 406678220 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)