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= 0030.0023.p (431 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312638|ref|YP_003776730.1| cytochrome c precursor protein ... 394 e-111 gi|300313847|ref|YP_003777939.1| membrane-bound D-gluconate 2-de... 379 e-106 gi|300313762|ref|YP_003777854.1| cytochrome c precursor protein ... 365 e-102 gi|300310719|ref|YP_003774811.1| cytochrome c protein [Herbaspir... 326 3e-90 gi|300311001|ref|YP_003775093.1| cytochrome c subunit II protein... 311 8e-86 >gi|300312638|ref|YP_003776730.1| cytochrome c precursor protein [Herbaspirillum seropedicae SmR1] Length = 441 Score = 394 bits (1013), Expect = e-111, Method: Compositional matrix adjust. Identities = 210/427 (49%), Positives = 270/427 (63%), Gaps = 15/427 (3%) Query: 5 ATLSLSAI-AAAQTHPTPSSPQPQQIQRGEYLARAGDCMACHTVKGKAPFSGGLPMNTPF 63 A +SLSA+ AAAQ++P S Q +QRGEYLA+AGDC+ACHT KG PF+GGL + TP Sbjct: 12 AVMSLSALTAAAQSNPAAPSADQQLVQRGEYLAKAGDCVACHTAKGGKPFAGGLAIATPI 71 Query: 64 GTIYSTNITPDKQTGIGEYSYDDFASALRKGKGRNGVRLYPAMPYTSFAKLSDEDVSALY 123 GT+YS+NITPDK+ GIG YS +DF ALR G ++G LYPAMPY S+AK+ DV ALY Sbjct: 72 GTVYSSNITPDKENGIGNYSEEDFDRALRHGIRKDGASLYPAMPYPSYAKVKPADVKALY 131 Query: 124 AYFMQGVKPVQQDNPKTALPFPFNMRILMAGWNMLFFENKPFKADSTQSVSWNRGAYLVQ 183 AYFM GV+ N + +P +MR ++ W +F S RG YLV+ Sbjct: 132 AYFMHGVQADPAPNRGVDITWPLSMRWPLSIWRKVFAPAVAVDGPEDNS-PLVRGQYLVE 190 Query: 184 SLGHCGACHTPHGRFGQEKSLDGSDDGFLSGYTLDNWHAPSLRND-KDGLGRWNKEQIAS 242 LGHCGACHTP G QEK+L FLSG +D + A +LR D +DGLG W++ I + Sbjct: 191 GLGHCGACHTPRGVGMQEKALSNDSSQFLSGGVIDGYLANNLRGDGRDGLGNWSEADIVA 250 Query: 243 YLRTGRTTDGAAFGAMSQVINDSTQHLSDADLLAIGEYLSSLPGKKSADGAARAPVATAA 302 +L+TGR + AAFG M+ V+ +STQ++++ DL A+ +YL SL K DG Sbjct: 251 FLKTGRNSHSAAFGGMADVVANSTQYMTEEDLSAMAKYLKSL--KPVKDG---------- 298 Query: 303 SNAAGADQPATLELRSGKLQTAGALVYLNNCNACHRSDGTGAMKAFPALGKNAVVNVADP 362 + A D LR G Q+ GA+ +LNNC ACHRS G G + FP+L + VN +P Sbjct: 299 TPALAYDDKTHQALRKGSDQSPGAMAFLNNCAACHRSSGKGYDETFPSLALSPTVNAENP 358 Query: 363 TSLIHVVLAGSAMPSTKSDPSPMGMPAFGWRLSDQEVAEVVSFIRGNWGNHAGAVSAEQV 422 SLI +VL G+ MP T P+ MPAFG RLSDQEVAEVV+FIR +WGN A +VSA V Sbjct: 359 ASLIRIVLEGAEMPWTHKAPTQFAMPAFGSRLSDQEVAEVVTFIRSSWGNQASSVSASDV 418 Query: 423 AAVRKGI 429 A VRK + Sbjct: 419 AKVRKQL 425 >gi|300313847|ref|YP_003777939.1| membrane-bound D-gluconate 2-dehydrogenase cytochrome c subunit [Herbaspirillum seropedicae SmR1] Length = 423 Score = 379 bits (974), Expect = e-106, Method: Compositional matrix adjust. Identities = 200/434 (46%), Positives = 262/434 (60%), Gaps = 22/434 (5%) Query: 1 LLATATLSLSAIAAAQTHPTPSSPQPQQIQRGEYLARAGDCMACHTVKGKAPFSGGLPMN 60 L A SL A+ T T + + RG+YLARAGDCMACH+ GK +SGGL ++ Sbjct: 7 LFAALAWSLGALG---TLTTAQAADQDLVARGQYLARAGDCMACHSAAGKPAYSGGLAID 63 Query: 61 TPFGTIYSTNITPDKQTGIGEYSYDDFASALRKGKGRNGVRLYPAMPYTSFAKLSDEDVS 120 + G IYSTNITPDK+ GIG YS F++A+R G +G +LYPAMPY S+AK+SDED+ Sbjct: 64 SGHGIIYSTNITPDKEHGIGNYSEAQFSAAVRHGVRADGTQLYPAMPYPSYAKVSDEDIH 123 Query: 121 ALYAYFMQGVKPVQQDNPKTALPFPFNMRILMAGWNMLFFENKPFKADSTQSVSWNRGAY 180 ALY YFMQGV+PV P +++ FPFN+R M WN+ F +KPF+ S RGAY Sbjct: 124 ALYTYFMQGVQPVASTPPASSMSFPFNIRWGMKLWNVFFANDKPFREQDGWSAEIKRGAY 183 Query: 181 LVQSLGHCGACHTPHGRFGQEKSLDGSDDGFLSGYTLDNWHAPSLRNDKDGLGRWNKEQI 240 LV+ LGHCG+CHTP G EK+ D S FLSG L+ W PSLR G+ W+ + I Sbjct: 184 LVEGLGHCGSCHTPRGVAMNEKASDSSQAQFLSGGDLNGWAVPSLR----GMPHWSAQDI 239 Query: 241 ASYLRTGRTTDGAAFGAMSQVINDSTQHLSDADLLAIGEYLSSLPGKKSADGAARAPVAT 300 YL+TGR + G MS V+ ST HL DL A+ YL +L +PVA+ Sbjct: 240 VDYLQTGRNKTASVAGEMSLVVEHSTSHLKREDLQAMAAYLKTL-----------SPVAS 288 Query: 301 AASNAA---GADQPATLELRSGKLQTAGALVYLNNCNACHRSDGTGAMKAFPALGKNAVV 357 + S G D + +L + K T G +YL+NC ACH G GA FP L VV Sbjct: 289 SGSGRVIPQGVDATVS-KLTAAKDLTLGERLYLDNCAACHFVTGRGAPGIFPVLDGATVV 347 Query: 358 NVADPTSLIHVVLAGSAMPSTKSDPSPMGMPAFGWRLSDQEVAEVVSFIRGNWGNHAGAV 417 N +P++L+HV+LAG+ PST+ PS + MP F RLSD+E A + +F+R WGNHAG V Sbjct: 348 NAENPSALLHVILAGARTPSTEKAPSILVMPGFAHRLSDEEAAALATFVRQGWGNHAGKV 407 Query: 418 SAEQVAAVRKGIEK 431 S +V +R G++K Sbjct: 408 SEREVGKLRAGMDK 421 >gi|300313762|ref|YP_003777854.1| cytochrome c precursor protein [Herbaspirillum seropedicae SmR1] Length = 482 Score = 365 bits (936), Expect = e-102, Method: Compositional matrix adjust. Identities = 195/412 (47%), Positives = 258/412 (62%), Gaps = 21/412 (5%) Query: 22 SSPQPQQIQRGEYLARAGDCMACHTVKGKAPFSGGLPMNTPFGTIYSTNITPDKQTGIGE 81 +S + QQI RG YLARAGDC+ACHT KG APF+GGL + +P G IYSTNITPDKQ GIG+ Sbjct: 76 ASAEDQQILRGAYLARAGDCVACHTSKGGAPFAGGLALASPIGAIYSTNITPDKQHGIGD 135 Query: 82 YSYDDFASALRKGKGRNGVRLYPAMPYTSFAKLSDEDVSALYAYFMQGVKPVQQDNPKTA 141 +SY+DFA +R G + G +YPAMPY S+++L+DED+ ALYAYF + V P Q+N Sbjct: 136 WSYEDFARLMRTGVTKAGYTVYPAMPYPSYSRLTDEDMQALYAYFSKAVPPSAQENRAND 195 Query: 142 LPFPFNMRILMAGWNMLFFEN-KPFKADSTQSVSWNRGAYLVQSLGHCGACHTPHGRFGQ 200 +P+P +MR +A W +F P+ + RGAYLV+ LGHCG+CH+P Q Sbjct: 196 IPWPLSMRWPLALWRKVFAPTPAPYTPAAGSDQELARGAYLVEGLGHCGSCHSPRAVTMQ 255 Query: 201 EKSLDGSDDG---FLS-GYTLDNWHAPSLRNDK-DGLGRWNKEQIASYLRTGRTTDGAAF 255 EK+L +DG FLS G +D W PSLRN+ G+ W++ + +LRTGR A+F Sbjct: 256 EKAL--KEDGGRLFLSGGQVVDGWSVPSLRNEHGGGIAGWSQADLVEFLRTGRNQYTASF 313 Query: 256 GAMSQVINDSTQHLSDADLLAIGEYLSSLPGKKSADGAARAPVATAASNAAGADQPATLE 315 GAM+ VI DS Q++SDADL A+ YL SLP ++ A AP ++ A A Sbjct: 314 GAMNDVIEDSMQYMSDADLNAMARYLLSLPPRQQA-----APYRYDSATAQAA------- 361 Query: 316 LRSGKLQTAGALVYLNNCNACHRSDGTGAMKAFPALGKNAVVNVADPTSLIHVVLAGSAM 375 G+ GA +YL+ C ACHRS+GTG KAFPAL N V+ +D TS I ++L G Sbjct: 362 -YDGRPDGPGARIYLDRCAACHRSNGTGYGKAFPALAGNPVLQTSDATSAIRIILQGGRQ 420 Query: 376 PSTKSDPSPMGMPAFGWRLSDQEVAEVVSFIRGNWGNHAGAVSAEQVAAVRK 427 PST S + + M + L DQ+VAEV S+I+ WGN G +A +VA VRK Sbjct: 421 PSTASATAGLVMAPYAQLLDDQQVAEVTSYIQTAWGNRGGTTTAAEVAKVRK 472 >gi|300310719|ref|YP_003774811.1| cytochrome c protein [Herbaspirillum seropedicae SmR1] Length = 431 Score = 326 bits (835), Expect = 3e-90, Method: Compositional matrix adjust. Identities = 171/407 (42%), Positives = 233/407 (57%), Gaps = 19/407 (4%) Query: 20 TPSSPQPQQIQRGEYLARAGDCMACHTVKGKAPFSGGLPMNTPFGTIYSTNITPDKQTGI 79 TP+ +Q+ +G+YLARAG+CMACHT +G AP++GG + +PFGT+Y++NITPDK TGI Sbjct: 39 TPAPDPTRQLAQGQYLARAGNCMACHTARGGAPYAGGRAIASPFGTLYTSNITPDKTTGI 98 Query: 80 GEYSYDDFASALRKGKGRNGVRLYPAMPYTSFAKLSDEDVSALYAYFMQGVKPVQQDNPK 139 G++S DDF AL G+G+ G LYPA PYTS+ +LS D AL+AY +Q + PV + N Sbjct: 99 GQWSADDFWRALHHGRGKEGQFLYPAFPYTSYTRLSRADSDALFAY-LQSLPPVARANQA 157 Query: 140 TALPFPFNMRILMAGWNMLFFENKPFKADSTQSVSWNRGAYLVQSLGHCGACHTPHGRFG 199 L FP++ R+L+ W L+F + ++ D Q WNRGAYLVQ GHC ACH+ R G Sbjct: 158 HTLRFPYDQRMLLGLWRALYFTPQSYQPDPRQDAQWNRGAYLVQGAGHCSACHSARNRLG 217 Query: 200 QEKSLDGSDDGFLSGYTLDNWHAPSLRNDKDGLGRWNKEQIASYLRTGRTTDGAAFGAMS 259 G + W+AP L DGL W+ IA+ L+TG + G MS Sbjct: 218 ASIEPLALAGGVIPAL---QWYAPPLHGGADGLQDWSTADIAALLKTGVSPHAVTLGPMS 274 Query: 260 QVINDSTQHLSDADLLAIGEYLSSLPGKKSADGAARAPVATAASNAAGADQPATLELRSG 319 +++ S Q+L+DAD+ A+ YL SLP + D A A V +PA E Sbjct: 275 EIVGRSLQYLNDADVSAMAVYLKSLPASAADDAARPASV-----------EPAEAE---- 319 Query: 320 KLQTAGALVYLNNCNACHRSDGTGAMKAFPALGKNAVVNVADPTSLIHVVLAGSAMPSTK 379 ++ G +Y C CH G G+ +P L N + P + + VL G PST Sbjct: 320 RIMKQGKQLYGTLCVDCHGGKGQGSAPDYPPLAGNRAIAGPHPANAVRAVLNGGFPPSTA 379 Query: 380 SDPSPMGMPAFGWRLSDQEVAEVVSFIRGNWGNHAGAVSAEQVAAVR 426 +P P GMP FG +LSDQEVA VVS++R +WGN G VSA +V R Sbjct: 380 GNPYPFGMPPFGPQLSDQEVAAVVSYVRNSWGNQGGLVSAAEVNRYR 426 >gi|300311001|ref|YP_003775093.1| cytochrome c subunit II protein [Herbaspirillum seropedicae SmR1] Length = 453 Score = 311 bits (796), Expect = 8e-86, Method: Compositional matrix adjust. Identities = 174/414 (42%), Positives = 237/414 (57%), Gaps = 21/414 (5%) Query: 17 THPTPSSPQPQQIQRGEYLARAGDCMACHTVKGKAPFSGGLPMNTPFGTIYSTNITPDKQ 76 +H ++ + Q I+RGEYLA AGDC ACH+ KG+APFSGG P+++P GTIYSTNITP K Sbjct: 21 SHLAHAADEGQLIKRGEYLAIAGDCAACHSQKGRAPFSGGHPISSPLGTIYSTNITPSKT 80 Query: 77 TGIGEYSYDDFASALRKGKGRNGVRLYPAMPYTSFAKLSDEDVSALYAYFMQGVKPVQQD 136 GIG Y+ D FA+ALR+G +G +LYPAMPYT++A+L+DEDV+ALY YFMQGV V Q Sbjct: 81 AGIGSYTRDQFAAALRQGVRADGSQLYPAMPYTAYARLNDEDVTALYTYFMQGVAAVDQA 140 Query: 137 NPKTALPFPFNMRILMAGWNMLFFENKPFKADSTQSVSWNRGAYLVQSLGHCGACHTPHG 196 P T LPFPFN+R+ M WN LF + KPF+ D +QS WNRGAYLVQ L HC CHTP Sbjct: 141 APATDLPFPFNIRLSMKAWNWLFLDKKPFEPDPSQSAQWNRGAYLVQGLAHCSTCHTPRN 200 Query: 197 RFGQEKSLDGSDDGFLSGYTLDNWHAPSLRNDK-DGLGRWNKEQIASYLRTGRTTDGA-A 254 E+ + L G +L W+AP + W +E +A YL +G +GA A Sbjct: 201 FLMAEQL-----ERRLQGGSLGTWYAPDITPAALQAKPAWTREMLADYLASGHAANGATA 255 Query: 255 FGAMSQVINDSTQHLSDADLLAIGEYLSSLPGKKSADGAARAPVATAASNAAGADQPATL 314 G M + I S L DL A+ YL +A + P + G D P L Sbjct: 256 AGPMLEAIEMSFSRLRREDLEAMASYLLPPTAATAAPAVNKPPAGL--TPVQGDDTPQAL 313 Query: 315 ELRSGKLQTAGALVYLNNCNACHRSDGTGAMKAFPALGKNAVVNVADPTSLIHVVLAGSA 374 S GA VY+NNC +CH + G G + P L + V+ + +++ +L G Sbjct: 314 AALS-----PGARVYMNNCASCHNTAGQG-LNGLPPLQSHPVLRQPNGDNVVMAILEG-V 366 Query: 375 MPSTKSDPSPMGMPAFGWRLSDQEVAEVVSFIRGNWGNHAGAVSAEQVAAVRKG 428 +P GM F L+D++VA V +++ + G +V+ ++VA +R G Sbjct: 367 LPEHGQ-----GMIGFAHTLNDEQVAAVTNYLLQDIGGSKVSVTTQRVATLRAG 415 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 0.315 0.130 0.393 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: 1,358,507 Number of extensions: 60148 Number of successful extensions: 251 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 211 Number of HSP's successfully gapped: 8 Length of query: 431 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 343 Effective length of database: 1,203,190 Effective search space: 412694170 Effective search space used: 412694170 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)