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= 0034.0066.p (360 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313291|ref|YP_003777383.1| porin transmembrane protein [He... 303 1e-83 gi|300310614|ref|YP_003774706.1| outer membrane porin [Herbaspir... 279 3e-76 gi|300311557|ref|YP_003775649.1| outer membrane porin [Herbaspir... 130 1e-31 gi|300310676|ref|YP_003774768.1| outer membrane protein (porin) ... 124 1e-29 gi|300313813|ref|YP_003777905.1| transmembrane outer membrane po... 114 1e-26 >gi|300313291|ref|YP_003777383.1| porin transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 365 Score = 303 bits (777), Expect = 1e-83, Method: Compositional matrix adjust. Identities = 171/349 (48%), Positives = 226/349 (64%), Gaps = 14/349 (4%) Query: 19 QSGVTIYGIIDNGVEYVSNVNAAGQSVVKMPANT-SITSRLGFKGTEDLGGGMTANFVLE 77 QS VTIYGIID GV Y +N NA G SV KMP+ T S SR+GFKGTEDLGGG+ A FVLE Sbjct: 24 QSSVTIYGIIDTGVVYTTNANANGNSVFKMPSLTGSFPSRIGFKGTEDLGGGLQAMFVLE 83 Query: 78 NGFTPDTGGLAQGGRLFGRQSNVSLGTPYGSFILGRQYSMLFYSMLSADVLGPNLFGSGA 137 +GF PDTG + QGGRLFGRQS V L +G +LGRQ +M + S L DV+GPNLF G+ Sbjct: 84 SGFAPDTGAMGQGGRLFGRQSYVGLKNSWGQLMLGRQVNMTYLSQLKTDVMGPNLFAIGS 143 Query: 138 LDSYIPNTRVDNTVGYMHKIANTAFGATYSLGRDTSAAGGPAATNCAGETASDTKACKEW 197 +D+Y+PN R DN +GY+ + GATYS GRD + GPAATNC GE A ++KAC++ Sbjct: 144 IDAYLPNARSDNAIGYLGNFSGFTVGATYSFGRDAAGPAGPAATNCPGEVAGNSKACRQV 203 Query: 198 SLYAKYDVPGWGVSVGYDKLYGAPGVVFGGTSALRLSDYYDARTNISGYVDIGNLRLGIG 257 + YD GWGV+ YD LYG G G TS SD D R ++GY +G++++G G Sbjct: 204 TALLGYDGKGWGVTSSYDILYGNTGASNGMTS----SDNTDQRVTLNGYFMLGDVKIGGG 259 Query: 258 WIGRKNVSAASYK--QDLAFIGASYWTGPWS----YEAELFSYTKRNSPDDSMMLASRIT 311 + R+ +AA+ DL ++G SY P S +A++ +NSP+D + +R+T Sbjct: 260 VVDRRTRAAANTNTDSDLYYLGVSY---PLSVALVLDAQVSRLDVKNSPNDVTLSVARLT 316 Query: 312 YYLSKRTALYVTGGYLINKGNAANTVDGVTGAGVGMNQVGIASGIRHTF 360 Y LSKRTA+Y + GY+ N G ++ +D G G NQ+G+ +GIRHTF Sbjct: 317 YNLSKRTAVYGSLGYIKNGGTSSVALDAGGTVGAGKNQLGVMTGIRHTF 365 >gi|300310614|ref|YP_003774706.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 369 Score = 279 bits (713), Expect = 3e-76, Method: Compositional matrix adjust. Identities = 163/371 (43%), Positives = 222/371 (59%), Gaps = 16/371 (4%) Query: 1 MKKFIAAIPLLIALPAVAQSGVTIYGIIDNGVEYVSNVNAAG---QSVVKMPANTSIT-S 56 +K IAA+ + A + AQS VT+YGIID GVEYVSNV+ G Q ++++P T+ T S Sbjct: 4 LKAIIAALLTMSATLSQAQS-VTLYGIIDTGVEYVSNVSNVGAGQQGLLRVPNLTATTPS 62 Query: 57 RLGFKGTEDLGGGMTANFVLENGFTPDTGGLAQGGRLFGRQSNVSLGTPYGSFILGRQYS 116 R+G +G+EDLGGG+ + F+LE+GF PD+G L QGGR+FGR + V L +G GRQ + Sbjct: 63 RIGLRGSEDLGGGLRSVFMLESGFAPDSGALNQGGRMFGRIAYVGLSDHWGQVSFGRQAT 122 Query: 117 MLFYSMLSADVLGPNLFGSGALDSYIPNTRVDNTVGYMHKIANTAFGATYSLGRDTSAAG 176 ML ++ L +D+LG N++G+ ALD+Y PN R DN++ Y G TYS GRDT AG Sbjct: 123 MLLWATLDSDILGANVYGANALDNYRPNARADNSIAYRGSFGAFTLGGTYSFGRDTVNAG 182 Query: 177 -GPAATNCAGETASDTKACKEWSLYAKYDVPGWGVSVGYDKLYGAPGVVFGGTSALRLSD 235 PA TNCAGE A D+ AC+EWSL KYD WG S+ YD L G G G L S Sbjct: 183 QNPAGTNCAGEQAGDSLACREWSLMVKYDTAAWGASLAYDTLRGGKGAAAG----LSSSQ 238 Query: 236 YYDARTNISGYVDIGNLRLGIGWIGRKNVSAASYKQDLAFIGASYWTGP-WSYEAELFSY 294 D+R + Y+ L++GIG R N +A K L + G SY P + +L+ Sbjct: 239 LSDSRMLLGAYIKADRLKVGIGGSLRHNQGSALSKSQLYYAGLSYDLTPTLNLAGQLYYL 298 Query: 295 TKRNSPDDSMMLASRITYYLSKRTALYVTGGYLINKGNAANTVD-----GVTGAGVGMNQ 349 +S + + + A R TY LS RTALY+TGG++ N+G + +V G G NQ Sbjct: 299 HYDDSANKAWLGALRATYSLSARTALYLTGGFIDNRGQSNLSVSAGGSVGTANPAPGGNQ 358 Query: 350 VGIASGIRHTF 360 G+ +GIRH+F Sbjct: 359 FGMMAGIRHSF 369 >gi|300311557|ref|YP_003775649.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 374 Score = 130 bits (328), Expect = 1e-31, Method: Compositional matrix adjust. Identities = 136/381 (35%), Positives = 181/381 (47%), Gaps = 61/381 (16%) Query: 16 AVAQSGVTIYGIIDNGVEYVSNVNAAGQSVVKMPANTSITSRLGFKGTEDLGGGMTANFV 75 A AQS VTIYGI+D + Y+SN NA G S V+M SR+GFKGTEDLGGG+ A F Sbjct: 19 AFAQSNVTIYGIVDTSIHYLSNANAQGNSNVRMDNGAIANSRIGFKGTEDLGGGLKAMFQ 78 Query: 76 LENGFTPDTGGLAQGGRLFGRQSNVSLGTPYGSFILGRQYSMLFYSMLSADVLGPNLFGS 135 LENGF+ DTG + QGG LFGRQS V L +G +GRQ + LF L AD P G+ Sbjct: 79 LENGFSSDTGAMQQGGSLFGRQSWVGLQGGFGKVRVGRQNTPLF--DLLADHFDPLTVGN 136 Query: 136 GALDSYIPNT----------RVDNTVGYMHKIANTAFGA---TYSLGRDTSAA----GGP 178 A +S++P R D G + A+ AFG + G S+A GP Sbjct: 137 YASNSWLPAAASLVRSPNMLRYDGDFGPVAASASWAFGEKAGSVRTGSQFSSALRYTAGP 196 Query: 179 AATNCA-GETASDTKACKE---WSLYAKYDVPGWGVSVGYDKLYGAPGVVFGGTSALRLS 234 A +T S T + + W+L A YD +GV+ VFGG L + Sbjct: 197 LALGGGYQQTVSSTNSSLKHTTWNLSASYD---FGVA-----------KVFGGW--LNIK 240 Query: 235 DYYDARTNISGYVDIGNLRLGIGWI---GRKNVSAASYKQDLA-FIGASY-------WTG 283 D + ++G V + + GW N S ++D F+G+SY TG Sbjct: 241 D----DSGLTGSVMAADGDVSNGWTTAGAANNGSTGVKRKDNGFFLGSSYKATNALTLTG 296 Query: 284 PWSYE-AELFSYTKRNSPDDSM--MLASRITYYLSKRTALYVTGGYLINKGNAANTVDGV 340 + Y+ ++ SY + D L Y LSKRT LY T Y NK A + + Sbjct: 297 AFYYDRSKNVSYVSTGNVGDGKRYTLVGWADYALSKRTQLYTTIDY--NKAKDAAVYE-L 353 Query: 341 TGAGVGMNQV-GIASGIRHTF 360 T + G N + + GIRH F Sbjct: 354 TNSANGKNSLTTVGVGIRHIF 374 >gi|300310676|ref|YP_003774768.1| outer membrane protein (porin) signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 352 Score = 124 bits (310), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 127/387 (32%), Positives = 176/387 (45%), Gaps = 62/387 (16%) Query: 1 MKKFIAAIPLLI--ALPAVAQSGVTIYGIIDNGVEYVSNV---NAAGQSVVKMPANTSIT 55 MKK + +L A A AQS V+IYG+ID G+ Y S+ G +++M + + Sbjct: 1 MKKTLLVAAMLAGGATTAHAQSSVSIYGLIDLGLTYYSSAPKSGGGGARLLRMDSGIAQG 60 Query: 56 SRLGFKGTEDLGGGMTANFVLENGFTPDTGGLAQGGRLFGRQSNVSLG-TPYGSFILGRQ 114 SR+GFKGTEDLGGGM A F LE GF D G L QGG LFGRQS V LG T +GS +GRQ Sbjct: 61 SRIGFKGTEDLGGGMNAFFTLETGFGADDGSLGQGGLLFGRQSFVGLGSTQWGSLSVGRQ 120 Query: 115 YSMLF-----YSMLSADVLGPNLFGSG---------ALDSYI-PNTRVDNTVGYMH-KIA 158 Y + Y+M + G FG G AL+++I R +N++ Y K Sbjct: 121 YDFMANIGGQYAMGALSPAGS--FGWGLHADAAHGTALNNHIYAGDRTNNSIKYNSAKFG 178 Query: 159 NTAFGATYSLGRDTSAAGGPAATNCAGETASDTKACKEWSLYAKYDVPGWGVSVGYDKLY 218 +FGA L GETA + A + S +YD + ++ Y + Sbjct: 179 GFSFGAMVGL----------------GETAGNNNAGRTVSATGQYDNGPFSGALAYTDIK 222 Query: 219 GAPGV----VFGGTSALRLSDYYDARTNISGYVDIGNLRLGIGWIGRKNVSAASYKQDLA 274 + G ++GG AR I + G + + N SA + +L Sbjct: 223 DSTGSFSTRIYGG----------GARYQIGAFTPFGV----VTQVKNTNTSAKATTYEL- 267 Query: 275 FIGASYWTGPWSYEAELFSYTKRNS-PDDSMMLASRITYYLSKRTALYVTGGYLINKGNA 333 G Y P A + + KRN ++ L + + Y +SKRT LYV Y +KG Sbjct: 268 --GTVYALTPLWDLAAAYQFQKRNQGVGNAQALVATVDYKISKRTDLYVGAVYDRDKGYN 325 Query: 334 ANTVDGVTGAGVGMNQVGIASGIRHTF 360 A V G NQ + G+RH F Sbjct: 326 AYPVFGGGIQSATGNQTALRLGMRHRF 352 >gi|300313813|ref|YP_003777905.1| transmembrane outer membrane porin signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 354 Score = 114 bits (285), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 122/374 (32%), Positives = 168/374 (44%), Gaps = 71/374 (18%) Query: 18 AQSGVTIYGIIDNGVEYVSNV--NAAGQSVVKMPANTSITSRLGFKGTEDLGGGMTANFV 75 AQS VTIYG++D GVEY++N N AG SV +M + + TSR+GF+GTEDLGGG+ A F Sbjct: 21 AQSSVTIYGLVDTGVEYLNNAGPNGAG-SVTRMTSGATNTSRIGFRGTEDLGGGLKALFQ 79 Query: 76 LENGFTPDTGGL-AQGGRLFGRQSNVSLGTPYGSFILGRQYSMLFYSMLSADVLGP-NLF 133 LENGF D G +LF RQS V L +G + GR YS + D LGP + Sbjct: 80 LENGFKLDNGSFDGDANQLFNRQSTVGLEGGFGRVVAGRSYSTTY------DFLGPFDPM 133 Query: 134 GSGALDSYIPN------------TRVDNTVGYMHKIANTAFGATYSLGRDTSAAGGPAAT 181 G A S+ T V N V Y + + GA Y G Sbjct: 134 GYSANYSWATTAGATGNRKDGMPTGVSNLVKYQGEFSGVKIGAMYGFGE----------- 182 Query: 182 NCAGETASDTKACKEWSLYAKYDVP-GWG-----VSVGYDKLYGAPGVVFGGTSALRLSD 235 AGET + AKY V GWG V YD+ SA + Sbjct: 183 -VAGETRNG----------AKYGVGLGWGTGPFSVVATYDR----------NNSATATNT 221 Query: 236 YYDARTN---ISGYVDIGNLRLGIGWIGRKN---VSAASYKQDLAFIGASY-WTGPWSYE 288 YD T+ +GY + +G+ K AA + D + GA+Y +T + Sbjct: 222 PYDRATSAHLAAGYQPSEAWKFNLGYRYYKKSLATGAADLRSDFFWGGAAYKFTPAMTLI 281 Query: 289 AELFSYTKRNSPDDS--MMLASRITYYLSKRTALYVTGGYLINKGNAANTVDGVTGAGVG 346 ++ +N +D+ +M + R+ Y +SKRT LY++ Y K N AG G Sbjct: 282 GAIYYQNIKNVANDADPIMYSLRLKYAMSKRTDLYLSTAYAKAK-NGQLVGLSRDDAGYG 340 Query: 347 MNQVGIASGIRHTF 360 +Q G+ G++H F Sbjct: 341 SSQFGMTLGMQHRF 354 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 0.135 0.403 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: 1,175,119 Number of extensions: 52615 Number of successful extensions: 191 Number of sequences better than 1.0e-08: 14 Number of HSP's gapped: 159 Number of HSP's successfully gapped: 14 Length of query: 360 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 274 Effective length of database: 1,212,660 Effective search space: 332268840 Effective search space used: 332268840 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)