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= 0012.0053.p (171 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 ... 196 9e-52 gi|300312638|ref|YP_003776730.1| cytochrome c precursor protein ... 192 2e-50 gi|300311001|ref|YP_003775093.1| cytochrome c subunit II protein... 186 7e-49 gi|300313053|ref|YP_003777145.1| gluconate 2-dehydrogenase [Herb... 182 2e-47 gi|300313847|ref|YP_003777939.1| membrane-bound D-gluconate 2-de... 177 5e-46 >gi|300313762|ref|YP_003777854.1| cytochrome c precursor protein [Herbaspirillum seropedicae SmR1] Length = 482 Score = 196 bits (498), Expect = 9e-52, Method: Compositional matrix adjust. Identities = 89/155 (57%), Positives = 113/155 (72%), Gaps = 1/155 (0%) Query: 1 VACHSTPKSKPFAGGLEMATPLGAIYATNITPDRGSGIGDYSLAEFDRALRHGVARDGHR 60 VACH++ PFAGGL +A+P+GAIY+TNITPD+ GIGD+S +F R +R GV + G+ Sbjct: 96 VACHTSKGGAPFAGGLALASPIGAIYSTNITPDKQHGIGDWSYEDFARLMRTGVTKAGYT 155 Query: 61 LYPAMPYPSYAKMSDEDVSALYAYFMHGVKPVVQANQESDIPWPLNMRWPLAFWNLAFT- 119 +YPAMPYPSY++++DED+ ALYAYF V P Q N+ +DIPWPL+MRWPLA W F Sbjct: 156 VYPAMPYPSYSRLTDEDMQALYAYFSKAVPPSAQENRANDIPWPLSMRWPLALWRKVFAP 215 Query: 120 SPHPYQPDPKQDALWNRGAYLVQGAGHCGSCHTER 154 +P PY P D RGAYLV+G GHCGSCH+ R Sbjct: 216 TPAPYTPAAGSDQELARGAYLVEGLGHCGSCHSPR 250 >gi|300312638|ref|YP_003776730.1| cytochrome c precursor protein [Herbaspirillum seropedicae SmR1] Length = 441 Score = 192 bits (487), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 89/154 (57%), Positives = 112/154 (72%), Gaps = 1/154 (0%) Query: 1 VACHSTPKSKPFAGGLEMATPLGAIYATNITPDRGSGIGDYSLAEFDRALRHGVARDGHR 60 VACH+ KPFAGGL +ATP+G +Y++NITPD+ +GIG+YS +FDRALRHG+ +DG Sbjct: 50 VACHTAKGGKPFAGGLAIATPIGTVYSSNITPDKENGIGNYSEEDFDRALRHGIRKDGAS 109 Query: 61 LYPAMPYPSYAKMSDEDVSALYAYFMHGVKPVVQANQESDIPWPLNMRWPLAFWNLAFTS 120 LYPAMPYPSYAK+ DV ALYAYFMHGV+ N+ DI WPL+MRWPL+ W F + Sbjct: 110 LYPAMPYPSYAKVKPADVKALYAYFMHGVQADPAPNRGVDITWPLSMRWPLSIWRKVF-A 168 Query: 121 PHPYQPDPKQDALWNRGAYLVQGAGHCGSCHTER 154 P P+ ++ RG YLV+G GHCG+CHT R Sbjct: 169 PAVAVDGPEDNSPLVRGQYLVEGLGHCGACHTPR 202 >gi|300311001|ref|YP_003775093.1| cytochrome c subunit II protein [Herbaspirillum seropedicae SmR1] Length = 453 Score = 186 bits (473), Expect = 7e-49, Method: Compositional matrix adjust. Identities = 84/154 (54%), Positives = 107/154 (69%) Query: 2 ACHSTPKSKPFAGGLEMATPLGAIYATNITPDRGSGIGDYSLAEFDRALRHGVARDGHRL 61 ACHS PF+GG +++PLG IY+TNITP + +GIG Y+ +F ALR GV DG +L Sbjct: 47 ACHSQKGRAPFSGGHPISSPLGTIYSTNITPSKTAGIGSYTRDQFAAALRQGVRADGSQL 106 Query: 62 YPAMPYPSYAKMSDEDVSALYAYFMHGVKPVVQANQESDIPWPLNMRWPLAFWNLAFTSP 121 YPAMPY +YA+++DEDV+ALY YFM GV V QA +D+P+P N+R + WN F Sbjct: 107 YPAMPYTAYARLNDEDVTALYTYFMQGVAAVDQAAPATDLPFPFNIRLSMKAWNWLFLDK 166 Query: 122 HPYQPDPKQDALWNRGAYLVQGAGHCGSCHTERE 155 P++PDP Q A WNRGAYLVQG HC +CHT R Sbjct: 167 KPFEPDPSQSAQWNRGAYLVQGLAHCSTCHTPRN 200 >gi|300313053|ref|YP_003777145.1| gluconate 2-dehydrogenase [Herbaspirillum seropedicae SmR1] Length = 499 Score = 182 bits (461), Expect = 2e-47, Method: Compositional matrix adjust. Identities = 82/154 (53%), Positives = 105/154 (68%) Query: 1 VACHSTPKSKPFAGGLEMATPLGAIYATNITPDRGSGIGDYSLAEFDRALRHGVARDGHR 60 +ACH+ P+ KP AGGL +A+P+G I ATNITP + GIG+Y+ +F ALR GV DG Sbjct: 66 IACHTAPRGKPMAGGLAIASPVGEIIATNITPSKTHGIGNYTEEQFAAALRRGVRADGAN 125 Query: 61 LYPAMPYPSYAKMSDEDVSALYAYFMHGVKPVVQANQESDIPWPLNMRWPLAFWNLAFTS 120 LYPAMPY +YA +SD DV ALYAYFM GV PV A + +D+P+P+N+RW + WN F Sbjct: 126 LYPAMPYTAYAALSDADVQALYAYFMKGVAPVDVATRPTDLPFPMNLRWSMKAWNALFLK 185 Query: 121 PHPYQPDPKQDALWNRGAYLVQGAGHCGSCHTER 154 P P P++ A W RG YL +G HC +CHT R Sbjct: 186 EQPLPPQPQRSAQWLRGRYLAEGPAHCSTCHTPR 219 >gi|300313847|ref|YP_003777939.1| membrane-bound D-gluconate 2-dehydrogenase cytochrome c subunit [Herbaspirillum seropedicae SmR1] Length = 423 Score = 177 bits (448), Expect = 5e-46, Method: Compositional matrix adjust. Identities = 82/154 (53%), Positives = 105/154 (68%) Query: 1 VACHSTPKSKPFAGGLEMATPLGAIYATNITPDRGSGIGDYSLAEFDRALRHGVARDGHR 60 +ACHS ++GGL + + G IY+TNITPD+ GIG+YS A+F A+RHGV DG + Sbjct: 45 MACHSAAGKPAYSGGLAIDSGHGIIYSTNITPDKEHGIGNYSEAQFSAAVRHGVRADGTQ 104 Query: 61 LYPAMPYPSYAKMSDEDVSALYAYFMHGVKPVVQANQESDIPWPLNMRWPLAFWNLAFTS 120 LYPAMPYPSYAK+SDED+ ALY YFM GV+PV S + +P N+RW + WN+ F + Sbjct: 105 LYPAMPYPSYAKVSDEDIHALYTYFMQGVQPVASTPPASSMSFPFNIRWGMKLWNVFFAN 164 Query: 121 PHPYQPDPKQDALWNRGAYLVQGAGHCGSCHTER 154 P++ A RGAYLV+G GHCGSCHT R Sbjct: 165 DKPFREQDGWSAEIKRGAYLVEGLGHCGSCHTPR 198 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 0.135 0.456 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: 638,191 Number of extensions: 27821 Number of successful extensions: 85 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 81 Number of HSP's successfully gapped: 7 Length of query: 171 Length of database: 1,619,870 Length adjustment: 79 Effective length of query: 92 Effective length of database: 1,245,805 Effective search space: 114614060 Effective search space used: 114614060 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: 127 (53.5 bits)