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= 0015.0121.p (358 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310614|ref|YP_003774706.1| outer membrane porin [Herbaspir... 150 1e-37 gi|300313291|ref|YP_003777383.1| porin transmembrane protein [He... 132 3e-32 gi|300313813|ref|YP_003777905.1| transmembrane outer membrane po... 109 3e-25 gi|300310676|ref|YP_003774768.1| outer membrane protein (porin) ... 108 9e-25 gi|300310376|ref|YP_003774468.1| outer membrane porin [Herbaspir... 96 7e-21 >gi|300310614|ref|YP_003774706.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 369 Score = 150 bits (380), Expect = 1e-37, Method: Compositional matrix adjust. Identities = 120/378 (31%), Positives = 183/378 (48%), Gaps = 29/378 (7%) Query: 1 MQSSKFNFAGFLIVSFSLSIEAHAEVTVYGVVDVGIEALSNAPVAGTKRGGTLIREQSAN 60 M++ K A L +S +LS +A + VT+YG++D G+E +SN G + G L Sbjct: 1 MKALKAIIAALLTMSATLS-QAQS-VTLYGIIDTGVEYVSNVSNVGAGQQGLLRVPNLTA 58 Query: 61 AQLSRIGFKGSETIDPCLKAIFKLDAAFFPDTGSLSPNGKLFHGSSYVGLSGCQGELTLG 120 SRIG +GSE + L+++F L++ F PD+G+L+ G++F +YVGLS G+++ G Sbjct: 59 TTPSRIGLRGSEDLGGGLRSVFMLESGFAPDSGALNQGGRMFGRIAYVGLSDHWGQVSFG 118 Query: 121 RHISLLYEEAYYFDPLSIFAYSLPSMDVTGFGGRADNSIKYRRSLGSWTLTGFYSTGY-- 178 R ++L D L Y ++D RADNSI YR S G++TL G YS G Sbjct: 119 RQATMLLWATLDSDILGANVYGANALDNYRPNARADNSIAYRGSFGAFTLGGTYSFGRDT 178 Query: 179 ---------SGAYEETAGSPRIAREMSMSINYDDRFLAGGIAIDHLNG----TTPDTKNQ 225 + E AG RE S+ + YD +A D L G + +Q Sbjct: 179 VNAGQNPAGTNCAGEQAGDSLACREWSLMVKYDTAAWGASLAYDTLRGGKGAAAGLSSSQ 238 Query: 226 ITD-RIFLAGSLTFEKDKIFAG--YQHYHQTALNAIPVATYDLIWAGAQHAWSAQLNSAV 282 ++D R+ L + ++ K+ G +H +AL + L +AG + + LN A Sbjct: 239 LSDSRMLLGAYIKADRLKVGIGGSLRHNQGSAL-----SKSQLYYAGLSYDLTPTLNLAG 293 Query: 283 GVFHQKYSTGQGSATLAAAYLDYFLSKRTDVYMNVGYMKNSGSLNLGVD--GQPGIIGPG 340 +++ Y A L A Y LS RT +Y+ G++ N G NL V G G P Sbjct: 294 QLYYLHYDDSANKAWLGALRATYSLSARTALYLTGGFIDNRGQSNLSVSAGGSVGTANPA 353 Query: 341 TLPGQAQAGLAIGVRHTF 358 PG Q G+ G+RH+F Sbjct: 354 --PGGNQFGMMAGIRHSF 369 >gi|300313291|ref|YP_003777383.1| porin transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 365 Score = 132 bits (333), Expect = 3e-32, Method: Compositional matrix adjust. Identities = 108/352 (30%), Positives = 166/352 (47%), Gaps = 26/352 (7%) Query: 23 HAEVTVYGVVDVGIEALSNAPVAGTKRGGTLIREQSANAQL-SRIGFKGSETIDPCLKAI 81 + VT+YG++D G+ +NA G ++ + S SRIGFKG+E + L+A+ Sbjct: 24 QSSVTIYGIIDTGVVYTTNA----NANGNSVFKMPSLTGSFPSRIGFKGTEDLGGGLQAM 79 Query: 82 FKLDAAFFPDTGSLSPNGKLFHGSSYVGLSGCQGELTLGRHISLLYEEAYYFDPLSIFAY 141 F L++ F PDTG++ G+LF SYVGL G+L LGR +++ Y D + + Sbjct: 80 FVLESGFAPDTGAMGQGGRLFGRQSYVGLKNSWGQLMLGRQVNMTYLSQLKTDVMGPNLF 139 Query: 142 SLPSMDVTGFGGRADNSIKYRRSLGSWTLTGFYSTG----------YSGAYEETAGSPRI 191 ++ S+D R+DN+I Y + +T+ YS G + E AG+ + Sbjct: 140 AIGSIDAYLPNARSDNAIGYLGNFSGFTVGATYSFGRDAAGPAGPAATNCPGEVAGNSKA 199 Query: 192 AREMSMSINYDDRFLAGGIAIDHLNGTTPD----TKNQITD-RIFLAGSLTFEKDKIFAG 246 R+++ + YD + + D L G T T + TD R+ L G KI G Sbjct: 200 CRQVTALLGYDGKGWGVTSSYDILYGNTGASNGMTSSDNTDQRVTLNGYFMLGDVKIGGG 259 Query: 247 YQHYHQTALNAIPVATYDLIWAGAQHAWSAQLNSAVGVFHQKYSTGQGSATLAAAYLDYF 306 +T A DL + G + S L V TL+ A L Y Sbjct: 260 VVD-RRTRAAANTNTDSDLYYLGVSYPLSVALVLDAQVSRLDVKNSPNDVTLSVARLTYN 318 Query: 307 LSKRTDVYMNVGYMKNSGSLNLGVDGQPGIIGPGTLPGQAQAGLAIGVRHTF 358 LSKRT VY ++GY+KN G+ ++ +D G +G G+ Q G+ G+RHTF Sbjct: 319 LSKRTAVYGSLGYIKNGGTSSVALD-AGGTVG----AGKNQLGVMTGIRHTF 365 >gi|300313813|ref|YP_003777905.1| transmembrane outer membrane porin signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 354 Score = 109 bits (273), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 95/352 (26%), Positives = 151/352 (42%), Gaps = 27/352 (7%) Query: 19 SIEAHAEVTVYGVVDVGIEALSNAPVAGTKRGGTLIREQSANAQLSRIGFKGSETIDPCL 78 S++A + VT+YG+VD G+E L+NA G G++ R S SRIGF+G+E + L Sbjct: 18 SVQAQSSVTIYGLVDTGVEYLNNA---GPNGAGSVTRMTSGATNTSRIGFRGTEDLGGGL 74 Query: 79 KAIFKLDAAFFPDTGSLSPNG-KLFHGSSYVGLSGCQGELTLGRHISLLYEEAYYFDPLS 137 KA+F+L+ F D GS + +LF+ S VGL G G + GR S Y+ FDP+ Sbjct: 75 KALFQLENGFKLDNGSFDGDANQLFNRQSTVGLEGGFGRVVAGRSYSTTYDFLGPFDPMG 134 Query: 138 IFAYSLPSMDVTGFGGRAD-------NSIKYRRSLGSWTLTGFYSTGYSGAYEETAGSPR 190 A + G R D N +KY+ + Y G E AG R Sbjct: 135 YSANYSWATTAGATGNRKDGMPTGVSNLVKYQGEFSGVKIGAMYGFG------EVAGETR 188 Query: 191 IAREMSMSINYDDRFLAGGIAIDHLNGTTPDTK--NQITDRIFLAGSLTFEKDKIFAGYQ 248 + + + + + D N T ++ T AG E K GY+ Sbjct: 189 NGAKYGVGLGWGTGPFSVVATYDRNNSATATNTPYDRATSAHLAAGYQPSEAWKFNLGYR 248 Query: 249 HYHQTALNAIPVATYDLIWAGAQHAWSAQLNSAVGVFHQ--KYSTGQGSATLAAAYLDYF 306 +Y ++ D W GA + ++ + +++Q K + + L Y Sbjct: 249 YYKKSLATGAADLRSDFFWGGAAYKFTPAMTLIGAIYYQNIKNVANDADPIMYSLRLKYA 308 Query: 307 LSKRTDVYMNVGYMKNSGSLNLGVDGQPGIIGPGTLPGQAQAGLAIGVRHTF 358 +SKRTD+Y++ Y K +G+ G +Q G+ +G++H F Sbjct: 309 MSKRTDLYLSTAYAKAKNGQLVGLSRDDAGY------GSSQFGMTLGMQHRF 354 >gi|300310676|ref|YP_003774768.1| outer membrane protein (porin) signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 352 Score = 108 bits (269), Expect = 9e-25, Method: Compositional matrix adjust. Identities = 105/366 (28%), Positives = 165/366 (45%), Gaps = 42/366 (11%) Query: 12 LIVSFSLSIEAHAEVTVYGVVDVGIEALSNAPVAGTKRGGTLIREQSANAQLSRIGFKGS 71 ++ + + A + V++YG++D+G+ S+AP +G G L+R S AQ SRIGFKG+ Sbjct: 10 MLAGGATTAHAQSSVSIYGLIDLGLTYYSSAPKSGGG-GARLLRMDSGIAQGSRIGFKGT 68 Query: 72 ETIDPCLKAIFKLDAAFFPDTGSLSPNGKLFHGSSYVGLSGCQ-GELTLGRHISLLYEEA 130 E + + A F L+ F D GSL G LF S+VGL Q G L++GR + Sbjct: 69 EDLGGGMNAFFTLETGFGADDGSLGQGGLLFGRQSFVGLGSTQWGSLSVGRQYDFMANIG 128 Query: 131 YYF-----DPLSIFAYSLPSMDVTGF--------GGRADNSIKYRRSLGSWTLTGFYSTG 177 + P F + L + G G R +NSIKY + G +S G Sbjct: 129 GQYAMGALSPAGSFGWGLHADAAHGTALNNHIYAGDRTNNSIKYNSA-----KFGGFSFG 183 Query: 178 YSGAYEETAGSPRIAREMSMSINYDDRFLAGGIAIDHLNGTTPDTKNQITDRIFLAGSL- 236 ETAG+ R +S + YD+ +G +A + D+ + RI+ G+ Sbjct: 184 AMVGLGETAGNNNAGRTVSATGQYDNGPFSGALAYTDI----KDSTGSFSTRIYGGGARY 239 Query: 237 ---TFEKDKIFAGYQHYHQTALNAIPVATYDLIWAGAQHAWSAQLNSAVGVFHQKYSTGQ 293 F + ++ + +A TY+L G +A + + A QK + G Sbjct: 240 QIGAFTPFGVVTQVKNTNTSA----KATTYEL---GTVYALTPLWDLAAAYQFQKRNQGV 292 Query: 294 GSATLAAAYLDYFLSKRTDVYMNVGYMKNSGSLNLGVDGQPGIIGPGTLPGQA-QAGLAI 352 G+A A +DY +SKRTD+Y+ Y ++ G + P + G G Q L + Sbjct: 293 GNAQALVATVDYKISKRTDLYVGAVYDRDK-----GYNAYP-VFGGGIQSATGNQTALRL 346 Query: 353 GVRHTF 358 G+RH F Sbjct: 347 GMRHRF 352 >gi|300310376|ref|YP_003774468.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 355 Score = 95.5 bits (236), Expect = 7e-21, Method: Compositional matrix adjust. Identities = 106/366 (28%), Positives = 167/366 (45%), Gaps = 35/366 (9%) Query: 15 SFSLSIEAH-AEVTVYGVVDVGIEALSNAP-VAGTKRGGTLIREQSANAQLSRIGFKGSE 72 +FS +A + VT+YG V G++ ++N P G+ GT IR S S IG KG+E Sbjct: 3 AFSAQAQAQTSSVTIYGRVVAGVDIMTNVPKTDGSGTTGTRIRAASNQWGTSMIGVKGTE 62 Query: 73 TIDPCLKAIFKLDAAFFPDTGSLSP---NG-KLFHGSSYVGLSGCQ-GELTLGRHISLLY 127 + A F L++ F TG L+ NG LF+ SYVGLS G L LG+++ + Sbjct: 63 DLGGGTNAFFLLESGFGSTTGGLNGTDINGTSLFNRRSYVGLSSANAGSLKLGKNL-FIN 121 Query: 128 EEAYYFDPLSIFAYSLPSMDVTGFGGR----ADNSIKYRR-SLGSWTLTGFYSTGYS-GA 181 + ++ DP ++ GR A N I+Y + G + T S G + G+ Sbjct: 122 NDVWFLDPTGQQWIGTANL----VRGRNWPGASNVIEYTTPTFGGFGATVQTSLGEAAGS 177 Query: 182 YEETAGSPRIAREMSMSINYDDRFLAGGIAIDHLNGTTPDTKNQITD------RIFLAGS 235 + + S + R+ +S+ Y + G+ + + D + TD + L G+ Sbjct: 178 FSKGGTSTKYGRKDGLSLVYQNN----GLELRGIYDVIRDANGRYTDVYDTSKELILGGT 233 Query: 236 LTFEKDKIFAGYQHYHQTALN---AIPVATYDLIWAGAQHAWSAQLNSAVGVFHQKYSTG 292 +K K+F GY++ N +P + W GA + + Q VFH + G Sbjct: 234 YKIDKLKMFLGYENLRAPDANTASGVP-DRVNHYWLGANYDVTPQFQLVGSVFHVNANNG 292 Query: 293 QGSATLAAAYLDYFLSKRTDVYMNVGYMKNSGSLNLGVDGQPGIIGPGTLPGQAQAGLAI 352 GSA L A ++YFLSKRT +Y+ G M+N + N ++ G G Q G Sbjct: 293 NGSANLFMAGVNYFLSKRTLLYVGGGTMRNGNNANYSLEADSSTGGG---KGTNQTGGYF 349 Query: 353 GVRHTF 358 G+ H+F Sbjct: 350 GIAHSF 355 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 0.318 0.135 0.401 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: 1,216,298 Number of extensions: 53494 Number of successful extensions: 162 Number of sequences better than 1.0e-08: 13 Number of HSP's gapped: 133 Number of HSP's successfully gapped: 13 Length of query: 358 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 272 Effective length of database: 1,212,660 Effective search space: 329843520 Effective search space used: 329843520 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 (21.7 bits) S2: 131 (55.1 bits)