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= 0001.0042.p (186 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310376|ref|YP_003774468.1| outer membrane porin [Herbaspir... 200 7e-53 gi|300313813|ref|YP_003777905.1| transmembrane outer membrane po... 86 1e-18 gi|300309527|ref|YP_003773619.1| outer membrane protein (porin) ... 83 1e-17 gi|300313580|ref|YP_003777672.1| outer membrane porin [Herbaspir... 79 3e-16 gi|300310676|ref|YP_003774768.1| outer membrane protein (porin) ... 78 4e-16 >gi|300310376|ref|YP_003774468.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 355 Score = 200 bits (508), Expect = 7e-53, Method: Compositional matrix adjust. Identities = 111/153 (72%), Positives = 121/153 (79%), Gaps = 11/153 (7%) Query: 20 MGAFSAQAQAQ-SSVTIYGRVVAGVDFQTNA----GTNGQGSKWSAANNQWGTSMIGFKG 74 MGAFSAQAQAQ SSVTIYGRVVAGVD TN G+ G++ AA+NQWGTSMIG KG Sbjct: 1 MGAFSAQAQAQTSSVTIYGRVVAGVDIMTNVPKTDGSGTTGTRIRAASNQWGTSMIGVKG 60 Query: 75 TEDLGGGTNAFFLLESGFNSTKGSFNGSDTSNGTALFNRRSYVGLSSATAGSVKFGKNLF 134 TEDLGGGTNAFFLLESGF ST G NG+D NGT+LFNRRSYVGLSSA AGS+K GKNLF Sbjct: 61 TEDLGGGTNAFFLLESGFGSTTGGLNGTDI-NGTSLFNRRSYVGLSSANAGSLKLGKNLF 119 Query: 135 INNDVWYLDPTGQQAIGTSTLVTHLXRWYQRWP 167 INNDVW+LDPTGQQ IGT+ LV + WP Sbjct: 120 INNDVWFLDPTGQQWIGTANLVRG-----RNWP 147 >gi|300313813|ref|YP_003777905.1| transmembrane outer membrane porin signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 354 Score = 86.3 bits (212), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 59/123 (47%), Positives = 70/123 (56%), Gaps = 6/123 (4%) Query: 28 QAQSSVTIYGRVVAGVDFQTNAGTNGQGSKWSAANNQWGTSMIGFKGTEDLGGGTNAFFL 87 QAQSSVTIYG V GV++ NAG NG GS + TS IGF+GTEDLGGG A F Sbjct: 20 QAQSSVTIYGLVDTGVEYLNNAGPNGAGSVTRMTSGATNTSRIGFRGTEDLGGGLKALFQ 79 Query: 88 LESGFNSTKGSFNGSDTSNGTALFNRRSYVGLSSATAGSVKFGKNLFINND-VWYLDPTG 146 LE+GF GSF+G + LFNR+S VGL G V G++ D + DP G Sbjct: 80 LENGFKLDNGSFDG----DANQLFNRQSTVGLEGGF-GRVVAGRSYSTTYDFLGPFDPMG 134 Query: 147 QQA 149 A Sbjct: 135 YSA 137 >gi|300309527|ref|YP_003773619.1| outer membrane protein (porin) signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 390 Score = 82.8 bits (203), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 64/122 (52%), Positives = 81/122 (66%), Gaps = 5/122 (4%) Query: 12 KTLCALALMGAFSAQAQAQSSVTIYGRVVAGVDFQTNAGT--NGQGSKWSAANNQWGTSM 69 K+L ALA++GAF+ AQAQSSVTIYG V GV +Q+ T G GSK+S + S Sbjct: 3 KSLLALAVLGAFAGAAQAQSSVTIYGIVDTGVVYQSKVATPTGGTGSKFSLNSGVIQGSR 62 Query: 70 IGFKGTEDLGGGTNAFFLLESGFNSTKGSFNGSDTSNGTALFNRRSYVGLSSATAGSVKF 129 IGFKGTEDLGGG +A F LE+GF++ G+ + S TSN LF R+S VGL + GSV Sbjct: 63 IGFKGTEDLGGGLSAVFNLEAGFSNDTGALDDSKTSN--TLFRRKSVVGL-AGNFGSVLL 119 Query: 130 GK 131 G+ Sbjct: 120 GR 121 >gi|300313580|ref|YP_003777672.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 387 Score = 78.6 bits (192), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 58/115 (50%), Positives = 71/115 (61%), Gaps = 6/115 (5%) Query: 12 KTLCALALMGAFSAQAQAQSSVTIYGRVVAGVDFQTNAG---TNGQ---GSKWSAANNQW 65 K+L ALA++GAF+ AQAQSSVTIYG V G+ + + G NG GSK+ + Sbjct: 3 KSLLALAVLGAFAGAAQAQSSVTIYGIVDTGIAYSSKVGYTDANGNAATGSKFGINSGVI 62 Query: 66 GTSMIGFKGTEDLGGGTNAFFLLESGFNSTKGSFNGSDTSNGTALFNRRSYVGLS 120 S IGFKG EDLGGG +A F LE+GF S G GSD + LF R+S VGLS Sbjct: 63 QGSRIGFKGVEDLGGGLSAVFNLETGFTSDDGGLQGSDAVTSSNLFRRKSVVGLS 117 >gi|300310676|ref|YP_003774768.1| outer membrane protein (porin) signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 352 Score = 78.2 bits (191), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 53/124 (42%), Positives = 71/124 (57%), Gaps = 11/124 (8%) Query: 12 KTLCALALMGAFSAQAQAQSSVTIYGRVVAGVDFQTNAGTNGQGS----KWSAANNQWGT 67 KTL A++ + A AQSSV+IYG + G+ + ++A +G G + + Q Sbjct: 3 KTLLVAAMLAGGATTAHAQSSVSIYGLIDLGLTYYSSAPKSGGGGARLLRMDSGIAQG-- 60 Query: 68 SMIGFKGTEDLGGGTNAFFLLESGFNSTKGSFNGSDTSNGTALFNRRSYVGLSSATAGSV 127 S IGFKGTEDLGGG NAFF LE+GF + GS G LF R+S+VGL S GS+ Sbjct: 61 SRIGFKGTEDLGGGMNAFFTLETGFGADDGSLG-----QGGLLFGRQSFVGLGSTQWGSL 115 Query: 128 KFGK 131 G+ Sbjct: 116 SVGR 119 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 0.131 0.400 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: 612,074 Number of extensions: 26120 Number of successful extensions: 94 Number of sequences better than 1.0e-08: 14 Number of HSP's gapped: 74 Number of HSP's successfully gapped: 14 Length of query: 186 Length of database: 1,619,870 Length adjustment: 80 Effective length of query: 106 Effective length of database: 1,241,070 Effective search space: 131553420 Effective search space used: 131553420 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: 128 (53.9 bits)