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= 0012.0007.p (356 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... 593 e-171 gi|300311557|ref|YP_003775649.1| outer membrane porin [Herbaspir... 185 6e-48 gi|300313291|ref|YP_003777383.1| porin transmembrane protein [He... 151 6e-38 gi|300309527|ref|YP_003773619.1| outer membrane protein (porin) ... 145 5e-36 gi|300313580|ref|YP_003777672.1| outer membrane porin [Herbaspir... 142 4e-35 >gi|300313813|ref|YP_003777905.1| transmembrane outer membrane porin signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 354 Score = 593 bits (1530), Expect = e-171, Method: Compositional matrix adjust. Identities = 287/338 (84%), Positives = 312/338 (92%), Gaps = 3/338 (0%) Query: 21 SVQAQTSVTVYGLIDSGVEYVTNA--NAAGNSLVRLSSGTMNTSRIGFRGTEDLGGGLKA 78 SVQAQ+SVT+YGL+D+GVEY+ NA N AG S+ R++SG NTSRIGFRGTEDLGGGLKA Sbjct: 18 SVQAQSSVTIYGLVDTGVEYLNNAGPNGAG-SVTRMTSGATNTSRIGFRGTEDLGGGLKA 76 Query: 79 IFQLENGFKLDNGAFDGDSNQLFNRQSNVGLEGGFGRVVVGRSFSTTYDFILPFDPMGYS 138 +FQLENGFKLDNG+FDGD+NQLFNRQS VGLEGGFGRVV GRS+STTYDF+ PFDPMGYS Sbjct: 77 LFQLENGFKLDNGSFDGDANQLFNRQSTVGLEGGFGRVVAGRSYSTTYDFLGPFDPMGYS 136 Query: 139 ANYSWVTSAGATGGRKDGMPTGVSNLVKYQGEFAGVKVGAMYGFGEVAGETSNGAKYGVG 198 ANYSW T+AGATG RKDGMPTGVSNLVKYQGEF+GVK+GAMYGFGEVAGET NGAKYGVG Sbjct: 137 ANYSWATTAGATGNRKDGMPTGVSNLVKYQGEFSGVKIGAMYGFGEVAGETRNGAKYGVG 196 Query: 199 LGWGSGPFSVAATYDRNNSVSTTNAPYDRATSAHLAAGYQLSDAWKFNLGYRYYKKTLAS 258 LGWG+GPFSV ATYDRNNS + TN PYDRATSAHLAAGYQ S+AWKFNLGYRYYKK+LA+ Sbjct: 197 LGWGTGPFSVVATYDRNNSATATNTPYDRATSAHLAAGYQPSEAWKFNLGYRYYKKSLAT 256 Query: 259 GAADQRSDFIWGGVTYKFTPAMSVIGAIYYQNIKNVANDADPIMYSLRLKYAMSKRTDLY 318 GAAD RSDF WGG YKFTPAM++IGAIYYQNIKNVANDADPIMYSLRLKYAMSKRTDLY Sbjct: 257 GAADLRSDFFWGGAAYKFTPAMTLIGAIYYQNIKNVANDADPIMYSLRLKYAMSKRTDLY 316 Query: 319 LSTAYAKAKNNQLVGLSRDDVGFSNSQFGMTLGMQHRF 356 LSTAYAKAKN QLVGLSRDD G+ +SQFGMTLGMQHRF Sbjct: 317 LSTAYAKAKNGQLVGLSRDDAGYGSSQFGMTLGMQHRF 354 >gi|300311557|ref|YP_003775649.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 374 Score = 185 bits (469), Expect = 6e-48, Method: Compositional matrix adjust. Identities = 138/370 (37%), Positives = 202/370 (54%), Gaps = 53/370 (14%) Query: 24 AQTSVTVYGLIDSGVEYVTNANAAGNSLVRLSSGTMNTSRIGFRGTEDLGGGLKAIFQLE 83 AQ++VT+YG++D+ + Y++NANA GNS VR+ +G + SRIGF+GTEDLGGGLKA+FQLE Sbjct: 21 AQSNVTIYGIVDTSIHYLSNANAQGNSNVRMDNGAIANSRIGFKGTEDLGGGLKAMFQLE 80 Query: 84 NGFKLDNGAFDGDSNQLFNRQSNVGLEGGFGRVVVGRSFSTTYDFILP-FDPM--GYSAN 140 NGF D GA LF RQS VGL+GGFG+V VGR + +D + FDP+ G A+ Sbjct: 81 NGFSSDTGAMQ-QGGSLFGRQSWVGLQGGFGKVRVGRQNTPLFDLLADHFDPLTVGNYAS 139 Query: 141 YSWVTSAGATGGRKDGMPTGVSNLVKYQGEFAGVKVGAMYGFGEVAGETSNGAKYGVGLG 200 SW+ +A + N+++Y G+F V A + FGE AG G+++ L Sbjct: 140 NSWLPAAASL--------VRSPNMLRYDGDFGPVAASASWAFGEKAGSVRTGSQFSSALR 191 Query: 201 WGSGPFSVAATYDRNNSVSTTNAPYDRATSAHLAAGYQLSDAWKFNLGYRYYKKT----- 255 + +GP ++ Y + +VS+TN+ + T+ +L+A Y A F G+ K Sbjct: 192 YTAGPLALGGGYQQ--TVSSTNSSL-KHTTWNLSASYDFGVAKVFG-GWLNIKDDSGLTG 247 Query: 256 -------------LASGAAD------QRSD---FIWGGVTYKFTPAMSVIGAIYYQNIKN 293 +GAA+ +R D F+ G +YK T A+++ GA YY KN Sbjct: 248 SVMAADGDVSNGWTTAGAANNGSTGVKRKDNGFFL--GSSYKATNALTLTGAFYYDRSKN 305 Query: 294 VA-----NDADPIMYSL--RLKYAMSKRTDLYLSTAYAKAKNNQLVGLSRDDVGFSNSQF 346 V+ N D Y+L YA+SKRT LY + Y KAK+ + L+ G NS Sbjct: 306 VSYVSTGNVGDGKRYTLVGWADYALSKRTQLYTTIDYNKAKDAAVYELTNSANG-KNSLT 364 Query: 347 GMTLGMQHRF 356 + +G++H F Sbjct: 365 TVGVGIRHIF 374 >gi|300313291|ref|YP_003777383.1| porin transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 365 Score = 151 bits (382), Expect = 6e-38, Method: Compositional matrix adjust. Identities = 124/353 (35%), Positives = 173/353 (49%), Gaps = 32/353 (9%) Query: 25 QTSVTVYGLIDSGVEYVTNANAAGNSLVRLSSGTMN-TSRIGFRGTEDLGGGLKAIFQLE 83 Q+SVT+YG+ID+GV Y TNANA GNS+ ++ S T + SRIGF+GTEDLGGGL+A+F LE Sbjct: 24 QSSVTIYGIIDTGVVYTTNANANGNSVFKMPSLTGSFPSRIGFKGTEDLGGGLQAMFVLE 83 Query: 84 NGFKLDNGAFDGDSNQLFNRQSNVGLEGGFGRVVVGRSFSTTYDFILPFDPMGYSANYSW 143 +GF D GA G +LF RQS VGL+ +G++++GR + TY L D MG + Sbjct: 84 SGFAPDTGAM-GQGGRLFGRQSYVGLKNSWGQLMLGRQVNMTYLSQLKTDVMGPNLFAIG 142 Query: 144 VTSAGATGGRKDGMPTGVSNLVKYQGEFAGVKVGAMYGF----------------GEVAG 187 A R D N + Y G F+G VGA Y F GEVAG Sbjct: 143 SIDAYLPNARSD-------NAIGYLGNFSGFTVGATYSFGRDAAGPAGPAATNCPGEVAG 195 Query: 188 ETSNGAKYGVGLGWGSGPFSVAATYDR---NNSVSTTNAPYDRATSAHLAAGYQLSDAWK 244 + + LG+ + V ++YD N S D GY + K Sbjct: 196 NSKACRQVTALLGYDGKGWGVTSSYDILYGNTGASNGMTSSDNTDQRVTLNGYFMLGDVK 255 Query: 245 FNLGYRYYKKTLASGAADQRSDFIWGGVTYKFTPAMSVIGAIYYQNIKNVANDADPIMYS 304 G ++T A+ + SD + GV+Y + A+ + + ++KN ND + Sbjct: 256 IGGGV-VDRRTRAAANTNTDSDLYYLGVSYPLSVALVLDAQVSRLDVKNSPNDV--TLSV 312 Query: 305 LRLKYAMSKRTDLYLSTAYAKAKNNQLVGLSR-DDVGFSNSQFGMTLGMQHRF 356 RL Y +SKRT +Y S Y K V L VG +Q G+ G++H F Sbjct: 313 ARLTYNLSKRTAVYGSLGYIKNGGTSSVALDAGGTVGAGKNQLGVMTGIRHTF 365 >gi|300309527|ref|YP_003773619.1| outer membrane protein (porin) signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 390 Score = 145 bits (366), Expect = 5e-36, Method: Compositional matrix adjust. Identities = 126/378 (33%), Positives = 182/378 (48%), Gaps = 56/378 (14%) Query: 26 TSVTVYGLIDSGVEY---VTNANAAGNSLVRLSSGTMNTSRIGFRGTEDLGGGLKAIFQL 82 +SVT+YG++D+GV Y V S L+SG + SRIGF+GTEDLGGGL A+F L Sbjct: 22 SSVTIYGIVDTGVVYQSKVATPTGGTGSKFSLNSGVIQGSRIGFKGTEDLGGGLSAVFNL 81 Query: 83 ENGFKLDNGAFDGD--SNQLFNRQSNVGLEGGFGRVVVGRS--FSTTYDFILPFDPMGYS 138 E GF D GA D SN LF R+S VGL G FG V++GR F+ T G Sbjct: 82 EAGFSNDTGALDDSKTSNTLFRRKSVVGLAGNFGSVLLGRQTDFADTISSYTSVQDFG-- 139 Query: 139 ANYSWVTSAGATGGRKDGMPTGVSNLVKY-QGEFAGVKVGAMYGFGEVAGETSNGAKYGV 197 W +AG R +G T +N + Y G MYGFGE AG+TS G +GV Sbjct: 140 ---GWTGAAGHNLDRLEGTRT--NNSISYTTANLNGFTGNLMYGFGETAGQTSAGQAFGV 194 Query: 198 GLGWGSGPFSVAATYDRNNSVST---------------TNAPYDRATSA---HLAAGYQL 239 G + +GP + Y ++ + ST TN + +T+ ++AA YQ Sbjct: 195 GGKYDNGPLGLGINYYQSKAGSTPADASLLAATGTNQFTNGTNNGSTAQKVLNVAASYQF 254 Query: 240 SDAWKFNLGYRYYKKTL-------ASG------------AADQRSDFIWGGVTYKFTPAM 280 A + + K+ L A+G AA ++D G Y +P++ Sbjct: 255 GPARVYG-NWSRVKQDLNTQANLTAAGVGSLATISNRTLAASNKADIYEIGTAYSLSPSL 313 Query: 281 SVIGAIYYQNIK--NVANDADPIMYSLRLKYAMSKRTDLYLSTAYAKAKNNQLVGLSRDD 338 ++ A+ + + V+ A SL Y +SKRTDLY AY+KA + G++ D Sbjct: 314 KLLAAVDHTRAQFDGVSGKAKLTQVSLGTDYWLSKRTDLYAFLAYSKATDLNNPGVA-DS 372 Query: 339 VGFSNSQFGMTLGMQHRF 356 G +Q + +G++H+F Sbjct: 373 SGTDGNQGAVAVGIRHKF 390 >gi|300313580|ref|YP_003777672.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 387 Score = 142 bits (358), Expect = 4e-35, Method: Compositional matrix adjust. Identities = 120/376 (31%), Positives = 179/376 (47%), Gaps = 55/376 (14%) Query: 26 TSVTVYGLIDSGVEYVT-------NANAAGNSLVRLSSGTMNTSRIGFRGTEDLGGGLKA 78 +SVT+YG++D+G+ Y + N NAA S ++SG + SRIGF+G EDLGGGL A Sbjct: 22 SSVTIYGIVDTGIAYSSKVGYTDANGNAATGSKFGINSGVIQGSRIGFKGVEDLGGGLSA 81 Query: 79 IFQLENGFKLDNGAFDGD----SNQLFNRQSNVGLEGGFGRVVVGRSFSTTYDFILPFDP 134 +F LE GF D+G G S+ LF R+S VGL GGFG V++GR DF Sbjct: 82 VFNLETGFTSDDGGLQGSDAVTSSNLFRRKSVVGLSGGFGTVLLGRQ----TDFADTISA 137 Query: 135 MGYSANYSWVTS-AGATGGRKDGMPTGVSNLVKY-QGEFAGVKVGAMYGFGEVAGETSNG 192 A++ V + +G++ R G T +N V Y +G +YGFGE AG+TS G Sbjct: 138 YTAVADFGGVVANSGSSLNRLQGTRT--NNSVSYTTANLSGFTGNLIYGFGEQAGKTSAG 195 Query: 193 AKYGVGLGWGSGPFSVAATYDRNNSVSTTNAPYDRA----------------------TS 230 YG+G + +GP + Y ++ + ST P D + S Sbjct: 196 QAYGIGGKYDNGPLGLGINYYQSKAGST---PSDTSLIPAAGATNANTALGVAGNTALKS 252 Query: 231 AHLAAGYQLSDAWKFNLGYRYYKKTL--------ASGAADQRSDFIWGGVTYKFTPAMSV 282 ++ A YQ A + Y K+ L A+ A Q++D G Y +P++ + Sbjct: 253 LNVVASYQFGPARVY-ANYSRVKQDLKGTPTVATATLANAQKADTYEIGTAYSLSPSLKL 311 Query: 283 IGAIYYQ--NIKNVANDADPIMYSLRLKYAMSKRTDLYLSTAYAKAKNNQLVGLSRDDVG 340 + A+ + V SL Y +SKRTDLY + +A + Q G++ G Sbjct: 312 LAAVDHSRATFNGVNTKGKLTQISLGADYFLSKRTDLYAFVSNMRASDIQNPGVTGGATG 371 Query: 341 FSNSQFGMTLGMQHRF 356 SQ + G++H+F Sbjct: 372 SDASQTAIITGIRHKF 387 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 0.132 0.388 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: 1,028,304 Number of extensions: 43385 Number of successful extensions: 187 Number of sequences better than 1.0e-08: 14 Number of HSP's gapped: 141 Number of HSP's successfully gapped: 14 Length of query: 356 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 270 Effective length of database: 1,212,660 Effective search space: 327418200 Effective search space used: 327418200 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: 131 (55.1 bits)