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= 0001.4443.p (421 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313847|ref|YP_003777939.1| membrane-bound D-gluconate 2-de... 781 0.0 gi|300312638|ref|YP_003776730.1| cytochrome c precursor protein ... 392 e-110 gi|300313762|ref|YP_003777854.1| cytochrome c precursor protein ... 350 1e-97 gi|300311001|ref|YP_003775093.1| cytochrome c subunit II protein... 318 8e-88 gi|300313053|ref|YP_003777145.1| gluconate 2-dehydrogenase [Herb... 285 6e-78 >gi|300313847|ref|YP_003777939.1| membrane-bound D-gluconate 2-dehydrogenase cytochrome c subunit [Herbaspirillum seropedicae SmR1] Length = 423 Score = 781 bits (2016), Expect = 0.0, Method: Compositional matrix adjust. Identities = 376/422 (89%), Positives = 394/422 (93%), Gaps = 3/422 (0%) Query: 1 MKKLTSLFATLALSLGAL---SMAHAADQDLVARGQYLARAGDCMACHSAAGKPAYSGGL 57 MKKLTSLFA LA SLGAL + A AADQDLVARGQYLARAGDCMACHSAAGKPAYSGGL Sbjct: 1 MKKLTSLFAALAWSLGALGTLTTAQAADQDLVARGQYLARAGDCMACHSAAGKPAYSGGL 60 Query: 58 AIDSGHGTIYSTNITPDKEHGIGNYSEAQFANAVRHGVRADGTQLYPAMPYPSYAKVSDE 117 AIDSGHG IYSTNITPDKEHGIGNYSEAQF+ AVRHGVRADGTQLYPAMPYPSYAKVSDE Sbjct: 61 AIDSGHGIIYSTNITPDKEHGIGNYSEAQFSAAVRHGVRADGTQLYPAMPYPSYAKVSDE 120 Query: 118 DIHALYTYFMQGVKPVASTPPASDMSFPFNIRWGMKLWNAFFANDKPFQEQAGWNDQIKR 177 DIHALYTYFMQGV+PVASTPPAS MSFPFNIRWGMKLWN FFANDKPF+EQ GW+ +IKR Sbjct: 121 DIHALYTYFMQGVQPVASTPPASSMSFPFNIRWGMKLWNVFFANDKPFREQDGWSAEIKR 180 Query: 178 GAYLVEGLGHCGSCHTPRGVAMNEKASDSSQAQFLSGGDLNGWAVPSLRGMPHWSAQDIV 237 GAYLVEGLGHCGSCHTPRGVAMNEKASDSSQAQFLSGGDLNGWAVPSLRGMPHWSAQDIV Sbjct: 181 GAYLVEGLGHCGSCHTPRGVAMNEKASDSSQAQFLSGGDLNGWAVPSLRGMPHWSAQDIV 240 Query: 238 DYLQTGRNKTASVAGEMSLVVEHSTAHLKSDDLQAIAAYLKTLSPVAASSSGGVTPQGAE 297 DYLQTGRNKTASVAGEMSLVVEHST+HLK +DLQA+AAYLKTLSPVA+S SG V PQG + Sbjct: 241 DYLQTGRNKTASVAGEMSLVVEHSTSHLKREDLQAMAAYLKTLSPVASSGSGRVIPQGVD 300 Query: 298 ATAKKLTAAKDLSLGERLYLDNCAACHFVTGRGAPGIFPALDGATVVNADNPSALLHVIL 357 AT KLTAAKDL+LGERLYLDNCAACHFVTGRGAPGIFP LDGATVVNA+NPSALLHVIL Sbjct: 301 ATVSKLTAAKDLTLGERLYLDNCAACHFVTGRGAPGIFPVLDGATVVNAENPSALLHVIL 360 Query: 358 AGARTPSTEKAPSILVMPGFAHRLSDQEAAELASFVRQGWGNHAGAVSASEVSRMRAGIA 417 AGARTPSTEKAPSILVMPGFAHRLSD+EAA LA+FVRQGWGNHAG VS EV ++RAG+ Sbjct: 361 AGARTPSTEKAPSILVMPGFAHRLSDEEAAALATFVRQGWGNHAGKVSEREVGKLRAGMD 420 Query: 418 KH 419 K Sbjct: 421 KQ 422 >gi|300312638|ref|YP_003776730.1| cytochrome c precursor protein [Herbaspirillum seropedicae SmR1] Length = 441 Score = 392 bits (1007), Expect = e-110, Method: Compositional matrix adjust. Identities = 199/404 (49%), Positives = 266/404 (65%), Gaps = 21/404 (5%) Query: 21 AHAADQDLVARGQYLARAGDCMACHSAAGKPAYSGGLAIDSGHGTIYSTNITPDKEHGIG 80 A +ADQ LV RG+YLA+AGDC+ACH+A G ++GGLAI + GT+YS+NITPDKE+GIG Sbjct: 29 APSADQQLVQRGEYLAKAGDCVACHTAKGGKPFAGGLAIATPIGTVYSSNITPDKENGIG 88 Query: 81 NYSEAQFANAVRHGVRADGTQLYPAMPYPSYAKVSDEDIHALYTYFMQGVKPVASTPPAS 140 NYSE F A+RHG+R DG LYPAMPYPSYAKV D+ ALY YFM GV+ + Sbjct: 89 NYSEEDFDRALRHGIRKDGASLYPAMPYPSYAKVKPADVKALYAYFMHGVQADPAPNRGV 148 Query: 141 DMSFPFNIRWGMKLWNAFFAN----DKPFQEQAGWNDQIKRGAYLVEGLGHCGSCHTPRG 196 D+++P ++RW + +W FA D P N + RG YLVEGLGHCG+CHTPRG Sbjct: 149 DITWPLSMRWPLSIWRKVFAPAVAVDGPED-----NSPLVRGQYLVEGLGHCGACHTPRG 203 Query: 197 VAMNEKASDSSQAQFLSGGDLNGWAVPSLR-----GMPHWSAQDIVDYLQTGRNKTASVA 251 V M EKA + +QFLSGG ++G+ +LR G+ +WS DIV +L+TGRN ++ Sbjct: 204 VGMQEKALSNDSSQFLSGGVIDGYLANNLRGDGRDGLGNWSEADIVAFLKTGRNSHSAAF 263 Query: 252 GEMSLVVEHSTAHLKSDDLQAIAAYLKTLSPVAASSSGGVTPQGA--EATAKKLTAAKDL 309 G M+ VV +ST ++ +DL A+A YLK+L PV TP A + T + L D Sbjct: 264 GGMADVVANSTQYMTEEDLSAMAKYLKSLKPVKDG-----TPALAYDDKTHQALRKGSDQ 318 Query: 310 SLGERLYLDNCAACHFVTGRGAPGIFPALDGATVVNADNPSALLHVILAGARTPSTEKAP 369 S G +L+NCAACH +G+G FP+L + VNA+NP++L+ ++L GA P T KAP Sbjct: 319 SPGAMAFLNNCAACHRSSGKGYDETFPSLALSPTVNAENPASLIRIVLEGAEMPWTHKAP 378 Query: 370 SILVMPGFAHRLSDQEAAELASFVRQGWGNHAGAVSASEVSRMR 413 + MP F RLSDQE AE+ +F+R WGN A +VSAS+V+++R Sbjct: 379 TQFAMPAFGSRLSDQEVAEVVTFIRSSWGNQASSVSASDVAKVR 422 >gi|300313762|ref|YP_003777854.1| cytochrome c precursor protein [Herbaspirillum seropedicae SmR1] Length = 482 Score = 350 bits (898), Expect = 1e-97, Method: Compositional matrix adjust. Identities = 185/411 (45%), Positives = 256/411 (62%), Gaps = 13/411 (3%) Query: 11 LALSLGALSMAHAADQDLVARGQYLARAGDCMACHSAAGKPAYSGGLAIDSGHGTIYSTN 70 LA + A A A DQ ++ RG YLARAGDC+ACH++ G ++GGLA+ S G IYSTN Sbjct: 66 LAQRIAAQGSASAEDQQIL-RGAYLARAGDCVACHTSKGGAPFAGGLALASPIGAIYSTN 124 Query: 71 ITPDKEHGIGNYSEAQFANAVRHGVRADGTQLYPAMPYPSYAKVSDEDIHALYTYFMQGV 130 ITPDK+HGIG++S FA +R GV G +YPAMPYPSY++++DED+ ALY YF + V Sbjct: 125 ITPDKQHGIGDWSYEDFARLMRTGVTKAGYTVYPAMPYPSYSRLTDEDMQALYAYFSKAV 184 Query: 131 KPVASTPPASDMSFPFNIRWGMKLWNAFFA-NDKPFQEQAGWNDQIKRGAYLVEGLGHCG 189 P A A+D+ +P ++RW + LW FA P+ AG + ++ RGAYLVEGLGHCG Sbjct: 185 PPSAQENRANDIPWPLSMRWPLALWRKVFAPTPAPYTPAAGSDQELARGAYLVEGLGHCG 244 Query: 190 SCHTPRGVAMNEKASDSSQAQ-FLSGGD-LNGWAVPSLR-----GMPHWSAQDIVDYLQT 242 SCH+PR V M EKA + FLSGG ++GW+VPSLR G+ WS D+V++L+T Sbjct: 245 SCHSPRAVTMQEKALKEDGGRLFLSGGQVVDGWSVPSLRNEHGGGIAGWSQADLVEFLRT 304 Query: 243 GRNKTASVAGEMSLVVEHSTAHLKSDDLQAIAAYLKTLSPVAASSSGGVTPQGAEATAKK 302 GRN+ + G M+ V+E S ++ DL A+A YL +L P ++ ATA+ Sbjct: 305 GRNQYTASFGAMNDVIEDSMQYMSDADLNAMARYLLSLPPRQQAAPYRYD----SATAQA 360 Query: 303 LTAAKDLSLGERLYLDNCAACHFVTGRGAPGIFPALDGATVVNADNPSALLHVILAGART 362 + G R+YLD CAACH G G FPAL G V+ + ++ + +IL G R Sbjct: 361 AYDGRPDGPGARIYLDRCAACHRSNGTGYGKAFPALAGNPVLQTSDATSAIRIILQGGRQ 420 Query: 363 PSTEKAPSILVMPGFAHRLSDQEAAELASFVRQGWGNHAGAVSASEVSRMR 413 PST A + LVM +A L DQ+ AE+ S+++ WGN G +A+EV+++R Sbjct: 421 PSTASATAGLVMAPYAQLLDDQQVAEVTSYIQTAWGNRGGTTTAAEVAKVR 471 >gi|300311001|ref|YP_003775093.1| cytochrome c subunit II protein [Herbaspirillum seropedicae SmR1] Length = 453 Score = 318 bits (814), Expect = 8e-88, Method: Compositional matrix adjust. Identities = 178/408 (43%), Positives = 243/408 (59%), Gaps = 27/408 (6%) Query: 20 MAHAADQ-DLVARGQYLARAGDCMACHSAAGKPAYSGGLAIDSGHGTIYSTNITPDKEHG 78 +AHAAD+ L+ RG+YLA AGDC ACHS G+ +SGG I S GTIYSTNITP K G Sbjct: 23 LAHAADEGQLIKRGEYLAIAGDCAACHSQKGRAPFSGGHPISSPLGTIYSTNITPSKTAG 82 Query: 79 IGNYSEAQFANAVRHGVRADGTQLYPAMPYPSYAKVSDEDIHALYTYFMQGVKPVASTPP 138 IG+Y+ QFA A+R GVRADG+QLYPAMPY +YA+++DED+ ALYTYFMQGV V P Sbjct: 83 IGSYTRDQFAAALRQGVRADGSQLYPAMPYTAYARLNDEDVTALYTYFMQGVAAVDQAAP 142 Query: 139 ASDMSFPFNIRWGMKLWNAFFANDKPFQEQAGWNDQIKRGAYLVEGLGHCGSCHTPRGVA 198 A+D+ FPFNIR MK WN F + KPF+ + Q RGAYLV+GL HC +CHTPR Sbjct: 143 ATDLPFPFNIRLSMKAWNWLFLDKKPFEPDPSQSAQWNRGAYLVQGLAHCSTCHTPRNFL 202 Query: 199 MNEKASDSSQAQFLSGGDLNGWAVP-----SLRGMPHWSAQDIVDYLQTGRNKT-ASVAG 252 M E+ + L GG L W P +L+ P W+ + + DYL +G A+ AG Sbjct: 203 MAEQLE-----RRLQGGSLGTWYAPDITPAALQAKPAWTREMLADYLASGHAANGATAAG 257 Query: 253 EMSLVVEHSTAHLKSDDLQAIAAYLKTLSPVAASSS-----GGVTPQGAEATAKKLTAAK 307 M +E S + L+ +DL+A+A+YL + A+ + G+TP + T + L A Sbjct: 258 PMLEAIEMSFSRLRREDLEAMASYLLPPTAATAAPAVNKPPAGLTPVQGDDTPQALAA-- 315 Query: 308 DLSLGERLYLDNCAACHFVTGRGAPGIFPALDGATVVNADNPSALLHVILAGARTPSTEK 367 LS G R+Y++NCA+CH G+G G+ P L V+ N ++ IL G + Sbjct: 316 -LSPGARVYMNNCASCHNTAGQGLNGL-PPLQSHPVLRQPNGDNVVMAILEGVLPEHGQG 373 Query: 368 APSILVMPGFAHRLSDQEAAELASFVRQGWGNHAGAVSASEVSRMRAG 415 M GFAH L+D++ A + +++ Q G +V+ V+ +RAG Sbjct: 374 ------MIGFAHTLNDEQVAAVTNYLLQDIGGSKVSVTTQRVATLRAG 415 >gi|300313053|ref|YP_003777145.1| gluconate 2-dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 499 Score = 285 bits (728), Expect = 6e-78, Method: Compositional matrix adjust. Identities = 176/415 (42%), Positives = 233/415 (56%), Gaps = 38/415 (9%) Query: 28 LVARGQYLARAGDCMACHSAA-GKPAYSGGLAIDSGHGTIYSTNITPDKEHGIGNYSEAQ 86 L+ RG YLA A DC+ACH+A GKP +GGLAI S G I +TNITP K HGIGNY+E Q Sbjct: 52 LIERGHYLAIASDCIACHTAPRGKP-MAGGLAIASPVGEIIATNITPSKTHGIGNYTEEQ 110 Query: 87 FANAVRHGVRADGTQLYPAMPYPSYAKVSDEDIHALYTYFMQGVKPVASTPPASDMSFPF 146 FA A+R GVRADG LYPAMPY +YA +SD D+ ALY YFM+GV PV +D+ FP Sbjct: 111 FAAALRRGVRADGANLYPAMPYTAYAALSDADVQALYAYFMKGVAPVDVATRPTDLPFPM 170 Query: 147 NIRWGMKLWNAFFANDKPFQEQAGWNDQIKRGAYLVEGLGHCGSCHTPRGVAMNEKASDS 206 N+RW MK WNA F ++P Q + Q RG YL EG HC +CHTPRG M EK Sbjct: 171 NLRWSMKAWNALFLKEQPLPPQPQRSAQWLRGRYLAEGPAHCSTCHTPRGWLMQEKPDLQ 230 Query: 207 SQAQFLSGGDLNGWAVPSLRGMP-----HWSAQDIVDYLQTGR-NKTASVAGEMSLVVEH 260 L+G + W P++ P WS D+V YL+TGR A AG M+ + H Sbjct: 231 -----LAGAQVGPWYAPNITSHPSAGIGSWSQDDLVAYLRTGRLEGRAQAAGSMAEAITH 285 Query: 261 STAHLKSDDLQAIAAYLKTLSPVA---ASSSGGVTPQGAEATAKKLTAAKDLS------- 310 S + L +DL+AIA Y+K +A A SG QG A + LS Sbjct: 286 SFSRLTEEDLRAIAVYIKDRPAIATGDAQGSGSRFDQGKAGNALAQFRGRTLSAESPEEI 345 Query: 311 LGERLYLDNCAACHFVTGRGA-PGIFPAL--DGATV-VNADNPSALLHVILAGARTPSTE 366 G R++ +CA+CH G+G+ G +P+L + AT VNA+N L+ IL G TE Sbjct: 346 RGARIFSASCASCHGYNGQGSRDGYYPSLFRNSATAGVNANN---LIATILYGVDR-ETE 401 Query: 367 KAPSILVMPGFA------HRLSDQEAAELASFVRQGWGNHAGAVSASEVSRMRAG 415 + + MP F ++LS+ + A L++++ + +G A V A +V +R G Sbjct: 402 QGGHVF-MPPFGDQPNALNKLSNADVAALSNYLLKYYGKPAATVKAEDVEVIRQG 455 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 0.390 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: 1,301,370 Number of extensions: 55386 Number of successful extensions: 246 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 204 Number of HSP's successfully gapped: 8 Length of query: 421 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 333 Effective length of database: 1,203,190 Effective search space: 400662270 Effective search space used: 400662270 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)