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= 0011.0002.p (223 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309527|ref|YP_003773619.1| outer membrane protein (porin) ... 320 4e-89 gi|300313580|ref|YP_003777672.1| outer membrane porin [Herbaspir... 291 3e-80 gi|300310328|ref|YP_003774420.1| porin signal peptide protein [H... 197 6e-52 gi|300312191|ref|YP_003776283.1| outer membrane porin [Herbaspir... 155 2e-39 gi|300310676|ref|YP_003774768.1| outer membrane protein (porin) ... 129 2e-31 >gi|300309527|ref|YP_003773619.1| outer membrane protein (porin) signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 390 Score = 320 bits (821), Expect = 4e-89, Method: Compositional matrix adjust. Identities = 173/218 (79%), Positives = 187/218 (85%), Gaps = 2/218 (0%) Query: 1 MKKSLLALAVFGAFAGAAQAQTSSVSIYGILDTGVVYTSKAINGTANGTGSKFGLNSAVI 60 MKKSLLALAV GAFA A SSV+IYGI+DTGVVY SK T GTGSKF LNS VI Sbjct: 1 MKKSLLALAVLGAFA-GAAQAQSSVTIYGIVDTGVVYQSKVATPTG-GTGSKFSLNSGVI 58 Query: 61 QGSRIGFKGVEDLGGGLSAVFNLETGFKNDTGALDDSKTTNTLFRRKSVVGLSGGFGTVL 120 QGSRIGFKG EDLGGGLSAVFNLE GF NDTGALDDSKT+NTLFRRKSVVGL+G FG+VL Sbjct: 59 QGSRIGFKGTEDLGGGLSAVFNLEAGFSNDTGALDDSKTSNTLFRRKSVVGLAGNFGSVL 118 Query: 121 LGRQTDFADSISYLTSVGDFGFMTGSVGHNLDRLEGTRSNNSISYTTTSMNGFTGNLFYG 180 LGRQTDFAD+IS TSV DFG TG+ GHNLDRLEGTR+NNSISYTT ++NGFTGNL YG Sbjct: 119 LGRQTDFADTISSYTSVQDFGGWTGAAGHNLDRLEGTRTNNSISYTTANLNGFTGNLMYG 178 Query: 181 FGEQAGRTSAGQAFGIGGKYDNGPLGVGINYFQSKQGC 218 FGE AG+TSAGQAFG+GGKYDNGPLG+GINY+QSK G Sbjct: 179 FGETAGQTSAGQAFGVGGKYDNGPLGLGINYYQSKAGS 216 >gi|300313580|ref|YP_003777672.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 387 Score = 291 bits (745), Expect = 3e-80, Method: Compositional matrix adjust. Identities = 161/223 (72%), Positives = 186/223 (83%), Gaps = 6/223 (2%) Query: 1 MKKSLLALAVFGAFAGAAQAQTSSVSIYGILDTGVVYTSKAINGTANG---TGSKFGLNS 57 MKKSLLALAV GAFA A SSV+IYGI+DTG+ Y+SK ANG TGSKFG+NS Sbjct: 1 MKKSLLALAVLGAFA-GAAQAQSSVTIYGIVDTGIAYSSKVGYTDANGNAATGSKFGINS 59 Query: 58 AVIQGSRIGFKGVEDLGGGLSAVFNLETGFKNDTGALD--DSKTTNTLFRRKSVVGLSGG 115 VIQGSRIGFKGVEDLGGGLSAVFNLETGF +D G L D+ T++ LFRRKSVVGLSGG Sbjct: 60 GVIQGSRIGFKGVEDLGGGLSAVFNLETGFTSDDGGLQGSDAVTSSNLFRRKSVVGLSGG 119 Query: 116 FGTVLLGRQTDFADSISYLTSVGDFGFMTGSVGHNLDRLEGTRSNNSISYTTTSMNGFTG 175 FGTVLLGRQTDFAD+IS T+V DFG + + G +L+RL+GTR+NNS+SYTT +++GFTG Sbjct: 120 FGTVLLGRQTDFADTISAYTAVADFGGVVANSGSSLNRLQGTRTNNSVSYTTANLSGFTG 179 Query: 176 NLFYGFGEQAGRTSAGQAFGIGGKYDNGPLGVGINYFQSKQGC 218 NL YGFGEQAG+TSAGQA+GIGGKYDNGPLG+GINY+QSK G Sbjct: 180 NLIYGFGEQAGKTSAGQAYGIGGKYDNGPLGLGINYYQSKAGS 222 >gi|300310328|ref|YP_003774420.1| porin signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 405 Score = 197 bits (501), Expect = 6e-52, Method: Compositional matrix adjust. Identities = 112/217 (51%), Positives = 141/217 (64%), Gaps = 4/217 (1%) Query: 1 MKKSLLALAVFGAFAGAAQAQTSSVSIYGILDTGVVYTSKAINGTANGTGSKFGLNSAVI 60 MKKSLLALAV GAFAGAA AQ+SS++IYG +D + YT+K N TGS + S ++ Sbjct: 1 MKKSLLALAVLGAFAGAAHAQSSSITIYGAIDASLTYTNKIATDGKN-TGSLTAVESGLV 59 Query: 61 QGSRIGFKGVEDLGGGLSAVFNLETGFKNDTGALDDSKTTNTLFRRKSVVGLSGGFGTVL 120 +GSR+G KG EDLGGGL AVF LE GF DTG K ++ R++ VGLSG FGTVL Sbjct: 60 KGSRLGIKGSEDLGGGLKAVFTLENGFNVDTGEAGQGKL---MWGRQTTVGLSGNFGTVL 116 Query: 121 LGRQTDFADSISYLTSVGDFGFMTGSVGHNLDRLEGTRSNNSISYTTTSMNGFTGNLFYG 180 +GRQ D + I + S G FG LDR +G R NNSI Y + + NG + + YG Sbjct: 117 VGRQNDPLNDIGGIASAGGFGVPGTVHSKGLDRTDGQRLNNSIRYNSPNFNGLSFSGIYG 176 Query: 181 FGEQAGRTSAGQAFGIGGKYDNGPLGVGINYFQSKQG 217 FGEQ GR G++ G+G +Y NGPL +G+ YFQSK G Sbjct: 177 FGEQVGRAVGGRSIGLGSQYVNGPLSLGLGYFQSKMG 213 >gi|300312191|ref|YP_003776283.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 372 Score = 155 bits (393), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 94/194 (48%), Positives = 122/194 (62%), Gaps = 10/194 (5%) Query: 25 VSIYGILDTGVVYTSKAINGTANGTGSKFGLNSAVIQGSRIGFKGVEDLGGGLSAVFNLE 84 V++YG++D +VYTSK G NG S+ L+S SRIG +G E+LG GL+A+F LE Sbjct: 26 VTVYGVIDMSLVYTSKV--GPDNG--SRASLDSGDAMASRIGLRGREELGDGLAAIFQLE 81 Query: 85 TGFKNDTGALDDSKTTNTLFRRKSVVGLSGGFGTVLLGRQTDFADSI-SYLTSVGDFGFM 143 TGF D GA+ T TLF RKSVVGL+G FGT+ +GRQTD+ + I TS FG Sbjct: 82 TGFAGDDGAM---ATPGTLFDRKSVVGLAGRFGTLTVGRQTDYLEEIGQQYTSFQIFGGG 138 Query: 144 TGSVGH--NLDRLEGTRSNNSISYTTTSMNGFTGNLFYGFGEQAGRTSAGQAFGIGGKYD 201 H +LDR+ G RSNNS+ + T G G+ +YG GE AG T +GQ+ G+GG + Sbjct: 139 GVRAAHFNSLDRITGARSNNSLRFDTAEYGGLRGSFYYGAGEVAGSTRSGQSLGVGGNFR 198 Query: 202 NGPLGVGINYFQSK 215 G +GVG YFQSK Sbjct: 199 RGNVGVGAAYFQSK 212 >gi|300310676|ref|YP_003774768.1| outer membrane protein (porin) signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 352 Score = 129 bits (324), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 93/223 (41%), Positives = 121/223 (54%), Gaps = 17/223 (7%) Query: 1 MKKSLLALAVFGAFAGAAQAQTSSVSIYGILDTGVVYTSKAINGTANGTGSKFGLNSAVI 60 MKK+LL A+ A A AQ SSVSIYG++D G+ Y S A + G ++S + Sbjct: 1 MKKTLLVAAMLAGGATTAHAQ-SSVSIYGLIDLGLTYYSSAPK-SGGGGARLLRMDSGIA 58 Query: 61 QGSRIGFKGVEDLGGGLSAVFNLETGFKNDTGALDDSKTTNTLFRRKSVVGL-SGGFGTV 119 QGSRIGFKG EDLGGG++A F LETGF D G+L LF R+S VGL S +G++ Sbjct: 59 QGSRIGFKGTEDLGGGMNAFFTLETGFGADDGSLGQG---GLLFGRQSFVGLGSTQWGSL 115 Query: 120 LLGRQTDFADSI------SYLTSVGDFGF-MTGSVGH----NLDRLEGTRSNNSISYTTT 168 +GRQ DF +I L+ G FG+ + H N G R+NNSI Y + Sbjct: 116 SVGRQYDFMANIGGQYAMGALSPAGSFGWGLHADAAHGTALNNHIYAGDRTNNSIKYNSA 175 Query: 169 SMNGFTGNLFYGFGEQAGRTSAGQAFGIGGKYDNGPLGVGINY 211 GF+ G GE AG +AG+ G+YDNGP + Y Sbjct: 176 KFGGFSFGAMVGLGETAGNNNAGRTVSATGQYDNGPFSGALAY 218 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 0.317 0.136 0.392 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: 680,980 Number of extensions: 31421 Number of successful extensions: 127 Number of sequences better than 1.0e-08: 14 Number of HSP's gapped: 97 Number of HSP's successfully gapped: 14 Length of query: 223 Length of database: 1,619,870 Length adjustment: 82 Effective length of query: 141 Effective length of database: 1,231,600 Effective search space: 173655600 Effective search space used: 173655600 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: 129 (54.3 bits)