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= 0241.0017.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|300313813|ref|YP_003777905.1| transmembrane outer membrane po... 339 1e-94 gi|300310376|ref|YP_003774468.1| outer membrane porin [Herbaspir... 70 2e-13 gi|300311557|ref|YP_003775649.1| outer membrane porin [Herbaspir... 66 3e-12 gi|300310614|ref|YP_003774706.1| outer membrane porin [Herbaspir... 62 5e-11 gi|300313291|ref|YP_003777383.1| porin transmembrane protein [He... 62 5e-11 >gi|300313813|ref|YP_003777905.1| transmembrane outer membrane porin signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 354 Score = 339 bits (869), Expect = 1e-94, Method: Compositional matrix adjust. Identities = 164/223 (73%), Positives = 188/223 (84%), Gaps = 1/223 (0%) Query: 1 MGYSAQYSWVTSAGATGGRKDGMPTGVSNLIKYQGDFGGVKLGAMYGFGEVAGSVNDSSK 60 MGYSA YSW T+AGATG RKDGMPTGVSNL+KYQG+F GVK+GAMYGFGEVAG + +K Sbjct: 133 MGYSANYSWATTAGATGNRKDGMPTGVSNLVKYQGEFSGVKIGAMYGFGEVAGETRNGAK 192 Query: 61 YGVGVAYGTGPFSLATTYDRVNGTAAVPGGSFDKTTTVHLAGGYQVMESLKFSLGYRYYK 120 YGVG+ +GTGPFS+ TYDR N +A +D+ T+ HLA GYQ E+ KF+LGYRYYK Sbjct: 193 YGVGLGWGTGPFSVVATYDR-NNSATATNTPYDRATSAHLAAGYQPSEAWKFNLGYRYYK 251 Query: 121 KSLASGATDLRSDFYWGGATYKFTPALSLIGTIYYQNQKNLVTDADPIMYSLRLKYALSK 180 KSLA+GA DLRSDF+WGGA YKFTPA++LIG IYYQN KN+ DADPIMYSLRLKYA+SK Sbjct: 252 KSLATGAADLRSDFFWGGAAYKFTPAMTLIGAIYYQNIKNVANDADPIMYSLRLKYAMSK 311 Query: 181 RTDLYASGAYAKAKNNQLVGLSRDDAGFGNSQVGVTLGMQHRF 223 RTDLY S AYAKAKN QLVGLSRDDAG+G+SQ G+TLGMQHRF Sbjct: 312 RTDLYLSTAYAKAKNGQLVGLSRDDAGYGSSQFGMTLGMQHRF 354 >gi|300310376|ref|YP_003774468.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 355 Score = 69.7 bits (169), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 74/229 (32%), Positives = 102/229 (44%), Gaps = 21/229 (9%) Query: 9 WVTSAGATGGRKDGMPTGVSNLIKYQGD-FGGVKLGAMYGFGEVAGSVND---SSKYG-- 62 W+ +A GR P G SN+I+Y FGG GE AGS + S+KYG Sbjct: 134 WIGTANLVRGRN--WP-GASNVIEYTTPTFGGFGATVQTSLGEAAGSFSKGGTSTKYGRK 190 Query: 63 --VGVAYGTGPFSLATTYDRVNGTAAVPGGSFDKTTTVHLAGGYQVMESLKFSLGY---R 117 + + Y L YD + +D + + L G Y++ + LK LGY R Sbjct: 191 DGLSLVYQNNGLELRGIYDVIRDANGRYTDVYDTSKELILGGTYKI-DKLKMFLGYENLR 249 Query: 118 YYKKSLASGATDLRSDFYWGGATYKFTPALSLIGTIYYQNQKNLVTDADPIMYSLRLKYA 177 + ASG D R + YW GA Y TP L+G++++ N N A+ M + Y Sbjct: 250 APDANTASGVPD-RVNHYWLGANYDVTPQFQLVGSVFHVNANNGNGSANLFMAG--VNYF 306 Query: 178 LSKRTDLYASGAYAKAKNNQLVGLSRDDA---GFGNSQVGVTLGMQHRF 223 LSKRT LY G + NN L D + G G +Q G G+ H F Sbjct: 307 LSKRTLLYVGGGTMRNGNNANYSLEADSSTGGGKGTNQTGGYFGIAHSF 355 >gi|300311557|ref|YP_003775649.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 374 Score = 65.9 bits (159), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 69/227 (30%), Positives = 103/227 (45%), Gaps = 38/227 (16%) Query: 29 NLIKYQGDFGGVKLGAMYGFGEVAGSVNDSSKYGVGVAYGTGPFSLATTYDRVNGTAAVP 88 N+++Y GDFG V A + FGE AGSV S++ + Y GP +L Y + T + Sbjct: 154 NMLRYDGDFGPVAASASWAFGEKAGSVRTGSQFSSALRYTAGPLALGGGYQQ---TVSST 210 Query: 89 GGSFDKTTTVHLAGGYQVMESLKFSLGYRYYKK-----------------------SLAS 125 S K TT +L+ Y + F G+ K + + Sbjct: 211 NSSL-KHTTWNLSASYDFGVAKVFG-GWLNIKDDSGLTGSVMAADGDVSNGWTTAGAANN 268 Query: 126 GATDLR--SDFYWGGATYKFTPALSLIGTIYYQNQKNLV-----TDADPIMYSL--RLKY 176 G+T ++ + ++ G++YK T AL+L G YY KN+ D Y+L Y Sbjct: 269 GSTGVKRKDNGFFLGSSYKATNALTLTGAFYYDRSKNVSYVSTGNVGDGKRYTLVGWADY 328 Query: 177 ALSKRTDLYASGAYAKAKNNQLVGLSRDDAGFGNSQVGVTLGMQHRF 223 ALSKRT LY + Y KAK+ + L+ G NS V +G++H F Sbjct: 329 ALSKRTQLYTTIDYNKAKDAAVYELTNSANG-KNSLTTVGVGIRHIF 374 >gi|300310614|ref|YP_003774706.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 369 Score = 61.6 bits (148), Expect = 5e-11, Method: Compositional matrix adjust. Identities = 60/222 (27%), Positives = 93/222 (41%), Gaps = 34/222 (15%) Query: 29 NLIKYQGDFGGVKLGAMYGFG-----------------EVAGSVNDSSKYGVGVAYGTGP 71 N I Y+G FG LG Y FG E AG ++ + V Y T Sbjct: 155 NSIAYRGSFGAFTLGGTYSFGRDTVNAGQNPAGTNCAGEQAGDSLACREWSLMVKYDTAA 214 Query: 72 FSLATTYDRVNGTAAVPGG--SFDKTTTVHLAGGYQVMESLKFSLG--YRYYKKSLASGA 127 + + YD + G G S + + L G Y + LK +G R+ + S S Sbjct: 215 WGASLAYDTLRGGKGAAAGLSSSQLSDSRMLLGAYIKADRLKVGIGGSLRHNQGSALS-- 272 Query: 128 TDLRSDFYWGGATYKFTPALSLIGTIYYQNQKNLVTDADPIMYSLRLKYALSKRTDLYAS 187 +S Y+ G +Y TP L+L G +YY + + A + +LR Y+LS RT LY + Sbjct: 273 ---KSQLYYAGLSYDLTPTLNLAGQLYYLHYDDSANKA--WLGALRATYSLSARTALYLT 327 Query: 188 GAYAKAKNNQLVGLS------RDDAGFGNSQVGVTLGMQHRF 223 G + + + +S + G +Q G+ G++H F Sbjct: 328 GGFIDNRGQSNLSVSAGGSVGTANPAPGGNQFGMMAGIRHSF 369 >gi|300313291|ref|YP_003777383.1| porin transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 365 Score = 61.6 bits (148), Expect = 5e-11, Method: Compositional matrix adjust. Identities = 62/214 (28%), Positives = 92/214 (42%), Gaps = 22/214 (10%) Query: 29 NLIKYQGDFGGVKLGAMYGF----------------GEVAGSVNDSSKYGVGVAYGTGPF 72 N I Y G+F G +GA Y F GEVAG+ + + Y + Sbjct: 155 NAIGYLGNFSGFTVGATYSFGRDAAGPAGPAATNCPGEVAGNSKACRQVTALLGYDGKGW 214 Query: 73 SLATTYDRVNGTAAVPGG--SFDKTTTVHLAGGYQVMESLKFSLGYRYYKKSLASGATDL 130 + ++YD + G G S D T GY ++ +K G +++ A+ T+ Sbjct: 215 GVTSSYDILYGNTGASNGMTSSDNTDQRVTLNGYFMLGDVKIGGGV-VDRRTRAAANTNT 273 Query: 131 RSDFYWGGATYKFTPALSLIGTIYYQNQKNLVTDADPIMYSLRLKYALSKRTDLYASGAY 190 SD Y+ G +Y + AL L + + KN + D + RL Y LSKRT +Y S Y Sbjct: 274 DSDLYYLGVSYPLSVALVLDAQVSRLDVKN--SPNDVTLSVARLTYNLSKRTAVYGSLGY 331 Query: 191 AKAKNNQLVGLSR-DDAGFGNSQVGVTLGMQHRF 223 K V L G G +Q+GV G++H F Sbjct: 332 IKNGGTSSVALDAGGTVGAGKNQLGVMTGIRHTF 365 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 0.134 0.394 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: 767,776 Number of extensions: 34028 Number of successful extensions: 127 Number of sequences better than 1.0e-08: 9 Number of HSP's gapped: 116 Number of HSP's successfully gapped: 9 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)