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= 0001.2311.p (370 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310676|ref|YP_003774768.1| outer membrane protein (porin) ... 179 3e-46 gi|300313813|ref|YP_003777905.1| transmembrane outer membrane po... 116 3e-27 gi|300312191|ref|YP_003776283.1| outer membrane porin [Herbaspir... 115 6e-27 gi|300313395|ref|YP_003777487.1| porin transmembrane protein [He... 115 6e-27 gi|300310328|ref|YP_003774420.1| porin signal peptide protein [H... 112 4e-26 >gi|300310676|ref|YP_003774768.1| outer membrane protein (porin) signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 352 Score = 179 bits (454), Expect = 3e-46, Method: Compositional matrix adjust. Identities = 132/375 (35%), Positives = 190/375 (50%), Gaps = 34/375 (9%) Query: 6 RQSAAIAALALWPAAT-WAQSSVSISGIMDGGVSYVSNQ-----AGSSNLRADNGIGAPN 59 +++ +AA+ A T AQSSVSI G++D G++Y S+ G+ LR D+GI + Sbjct: 2 KKTLLVAAMLAGGATTAHAQSSVSIYGLIDLGLTYYSSAPKSGGGGARLLRMDSGIAQGS 61 Query: 60 ILFIKGQEDLGGGTAAIFQLESQFNLSTGASLPGNNLIFGRQSLVGLKDKQWGTLTAGNQ 119 + KG EDLGGG A F LE+ F G SL L+FGRQS VGL QWG+L+ G Q Sbjct: 62 RIGFKGTEDLGGGMNAFFTLETGFGADDG-SLGQGGLLFGRQSFVGLGSTQWGSLSVGRQ 120 Query: 120 YEFMHDSLLFGGFDSALTYGGYYTF----RQGPFSALAIPNNPTGASDFDRVAGSSRVAN 175 Y+FM + GG Y G F + G + + + R N Sbjct: 121 YDFMAN------------IGGQYAMGALSPAGSFGWGLHADAAHGTALNNHIYAGDRTNN 168 Query: 176 SVKYLSPDVSGVTFGGMYGFGEVAGDTASSRTVSLGANYAEGPFGLGVAYTDARYSSMNS 235 S+KY S G +FG M G GE AG+ + RTVS Y GPF +AYTD + S + Sbjct: 169 SIKYNSAKFGGFSFGAMVGLGETAGNNNAGRTVSATGQYDNGPFSGALAYTDIKDS---T 225 Query: 236 GHDGIRNWGLGARYQIGDYKLNLLYTNTRNTQTAGQVNVYQAGVNWQMAVAWNLGLSYEY 295 G R +G GARYQIG + + T +NT T+ + Y+ G + + W+L +Y++ Sbjct: 226 GSFSTRIYGGGARYQIGAFTPFGVVTQVKNTNTSAKATTYELGTVYALTPLWDLAAAYQF 285 Query: 296 MQGNAQLANNYAHQGSATLQYWLSKRTDVYLQTVYQKAGGDNTNTQAWINGLYGPKAMSS 355 + N + N A AT+ Y +SKRTD+Y+ VY + G N ++G S+ Sbjct: 286 QKRNQGVGN--AQALVATVDYKISKRTDLYVGAVYDRDKGYNAYP------VFGGGIQSA 337 Query: 356 SSSQAIFRVGLVTRF 370 + +Q R+G+ RF Sbjct: 338 TGNQTALRLGMRHRF 352 >gi|300313813|ref|YP_003777905.1| transmembrane outer membrane porin signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 354 Score = 116 bits (291), Expect = 3e-27, Method: Compositional matrix adjust. Identities = 105/327 (32%), Positives = 157/327 (48%), Gaps = 39/327 (11%) Query: 23 AQSSVSISGIMDGGVSYVSN---QAGSSNLRADNGIGAPNILFIKGQEDLGGGTAAIFQL 79 AQSSV+I G++D GV Y++N S R +G + + +G EDLGGG A+FQL Sbjct: 21 AQSSVTIYGLVDTGVEYLNNAGPNGAGSVTRMTSGATNTSRIGFRGTEDLGGGLKALFQL 80 Query: 80 ESQFNLSTGASLPGNNLIFGRQSLVGLKDKQWGTLTAGNQYEFMHDSLLFGGFDSALTYG 139 E+ F L G+ N +F RQS VGL + +G + AG Y +D L Sbjct: 81 ENGFKLDNGSFDGDANQLFNRQSTVGL-EGGFGRVVAGRSYSTTYDFL------------ 127 Query: 140 GYYTFRQGPFSALAIPNN-----PTGASDFDRVAGSSRVANSVKYLSPDVSGVTFGGMYG 194 GPF + N GA+ + + V+N VKY + SGV G MYG Sbjct: 128 -------GPFDPMGYSANYSWATTAGATGNRKDGMPTGVSNLVKY-QGEFSGVKIGAMYG 179 Query: 195 FGEVAGDTASSRTVSLGANYAEGPFGLGVAYT-DARYSSMNSGHDGIRNWGLGARYQIGD 253 FGEVAG+T + +G + GPF + Y + ++ N+ +D + L A YQ + Sbjct: 180 FGEVAGETRNGAKYGVGLGWGTGPFSVVATYDRNNSATATNTPYDRATSAHLAAGYQPSE 239 Query: 254 -YKLNLLYTNTRNTQTAGQVNV----YQAGVNWQMAVAWNL--GLSYEYMQGNAQLANNY 306 +K NL Y + + G ++ + G ++ A L + Y+ ++ A A+ Sbjct: 240 AWKFNLGYRYYKKSLATGAADLRSDFFWGGAAYKFTPAMTLIGAIYYQNIKNVANDADPI 299 Query: 307 AHQGSATLQYWLSKRTDVYLQTVYQKA 333 + S L+Y +SKRTD+YL T Y KA Sbjct: 300 MY--SLRLKYAMSKRTDLYLSTAYAKA 324 >gi|300312191|ref|YP_003776283.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 372 Score = 115 bits (288), Expect = 6e-27, Method: Compositional matrix adjust. Identities = 115/376 (30%), Positives = 182/376 (48%), Gaps = 61/376 (16%) Query: 27 VSISGIMDGGVSYVSNQAGSSNLRA--DNGIGAPNILFIKGQEDLGGGTAAIFQLESQFN 84 V++ G++D + Y S + RA D+G + + ++G+E+LG G AAIFQLE+ F Sbjct: 26 VTVYGVIDMSLVYTSKVGPDNGSRASLDSGDAMASRIGLRGREELGDGLAAIFQLETGFA 85 Query: 85 LSTGA-SLPGNNLIFGRQSLVGLKDKQWGTLTAGNQYEFMHDS-------LLFGGFDSAL 136 GA + PG +F R+S+VGL + +GTLT G Q +++ + +FGG Sbjct: 86 GDDGAMATPGT--LFDRKSVVGLAGR-FGTLTVGRQTDYLEEIGQQYTSFQIFGG----- 137 Query: 137 TYGGYYTFRQGPFSALAIPNNPTGASDFDRVAGSSRVANSVKYLSPDVSGVTFGGMYGFG 196 GG R F++L DR+ G+ R NS+++ + + G+ YG G Sbjct: 138 --GG---VRAAHFNSL------------DRITGA-RSNNSLRFDTAEYGGLRGSFYYGAG 179 Query: 197 EVAGDTASSRTVSLGANYAEGPFGLGVAYTDARYSS----MNSGHDGIRNWGLGARYQIG 252 EVAG T S +++ +G N+ G G+G AY ++ +S +G ++ + LGA YQ G Sbjct: 180 EVAGSTRSGQSLGVGGNFRRGNVGVGAAYFQSKLASDALPARAGDTELKTFTLGASYQAG 239 Query: 253 DYKLNLLYTNTRN-TQ------------TAGQVNVYQAGVNWQMAVAWNLGLSYEYMQGN 299 KL ++ R TQ +A + NV GV++ + +L S + + + Sbjct: 240 PAKLFAAWSQIRRPTQQPLASSGLVAITSATRANVLDVGVDYALDSKLHLLASVIHDRAD 299 Query: 300 AQLANNYAHQGSAT-----LQYWLSKRTDVYLQTVYQKAGGDNTNTQAWINGLYGPKAMS 354 A A +GS T + LSKRTDVY Q+A + I+ Y A + Sbjct: 300 LSRAAGGATRGSTTQVNLGVDLLLSKRTDVYAMASRQQA--RDVLNPGIISAAY-SSAPA 356 Query: 355 SSSSQAIFRVGLVTRF 370 SSQ + RVGL +F Sbjct: 357 DDSSQNVLRVGLRHKF 372 >gi|300313395|ref|YP_003777487.1| porin transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 403 Score = 115 bits (288), Expect = 6e-27, Method: Compositional matrix adjust. Identities = 115/353 (32%), Positives = 158/353 (44%), Gaps = 64/353 (18%) Query: 22 WAQSSVSISGIMDGGVSYVSNQAGSSNLRADNGIGAPNILFIKGQEDLGGGTAAIFQLES 81 WAQSSV++ G +D G++Y SNQ G+SN ++G A + L + G EDLGGG A+F+LE+ Sbjct: 32 WAQSSVTLYGTVDLGLAYSSNQGGASNTYMNSGALAASKLGLTGTEDLGGGNMALFRLEN 91 Query: 82 QFNLSTGASLPGNNLIFGRQSLVGLKDKQWGTLTAGNQYEFMHDSLLFGGFDSALTYGGY 141 FN TGA ++F RQS VGL K +G +T G QY Sbjct: 92 GFNADTGAQSTA-GVLFNRQSYVGLSSKDYGQVTVGRQYTPYFQ---------------- 134 Query: 142 YTFRQGPFSALAIPNNPTGAS--DFDRVAGSSRVANSVKYLSPDVSGVTFGGMYGFGEVA 199 Y GP + L TGA D D + + R+ NS+ Y P + G+ G YG GE A Sbjct: 135 YVGALGPTNVL---TGATGAHPGDIDALDTTLRMNNSITYTLPTLGGLQAGVQYGMGEQA 191 Query: 200 GDTASSRTVSLGANYAEGPFGLGVAYTD-------------------ARYSSMNSGH--- 237 G A+ +VS Y F YT A S +N+G+ Sbjct: 192 GSAANGSSVSAALRYDYQAFSWSAGYTRLKNLANGNTAGSFGNVGSFANNSPVNAGYASA 251 Query: 238 DGIRNWGLGARYQIGDYKLNLLYTNTRNTQTAGQVNVY-QAGV--------NWQMAVAWN 288 D + ARY GD L L Y+N + AG ++ + Q V ++ ++ A Sbjct: 252 DSTQLLATAARYTRGDLMLGLNYSNVQ--YKAGALSAFSQTAVFNTIGLIGSYNVSPALV 309 Query: 289 LGLSYEYMQGNAQLANN------YAHQGSATLQYWLSKRTDVYLQTVYQKAGG 335 L Y Y A+ A N +Q S Y LSKRT +Y YQ+A G Sbjct: 310 LAAGYSY---TAEKARNGISSPAKYNQLSLEEVYSLSKRTALYAIQAYQRASG 359 >gi|300310328|ref|YP_003774420.1| porin signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 405 Score = 112 bits (281), Expect = 4e-26, Method: Compositional matrix adjust. Identities = 115/392 (29%), Positives = 176/392 (44%), Gaps = 98/392 (25%) Query: 5 RRQSAAIAALALWPAATWAQSS-VSISGIMDGGVSYVSNQA----GSSNLRA-DNGIGAP 58 ++ A+A L + A AQSS ++I G +D ++Y + A + +L A ++G+ Sbjct: 2 KKSLLALAVLGAFAGAAHAQSSSITIYGAIDASLTYTNKIATDGKNTGSLTAVESGLVKG 61 Query: 59 NILFIKGQEDLGGGTAAIFQLESQFNLSTGASLPGNNLIFGRQSLVGLKDKQWGTLTAGN 118 + L IKG EDLGGG A+F LE+ FN+ TG + G L++GRQ+ VGL +GT+ G Sbjct: 62 SRLGIKGSEDLGGGLKAVFTLENGFNVDTGEAGQGK-LMWGRQTTVGLSG-NFGTVLVGR 119 Query: 119 QYEFMHDSLLFGGFDSALTYGGYYTFRQGPFSALAIPNNPTGASDFDRVAGSSRVANSVK 178 Q + ++D GG SA +G +P + DR G R+ NS++ Sbjct: 120 QNDPLND---IGGIASAGGFG--------------VPGT-VHSKGLDRTDGQ-RLNNSIR 160 Query: 179 YLSPDVSGVTFGGMYGFGEVAGDTASSRTVSLGANYAEGPFGLGVAYTDARYSSMNSGHD 238 Y SP+ +G++F G+YGFGE G R++ LG+ Y GP LG+ Y ++ M G D Sbjct: 161 YNSPNFNGLSFSGIYGFGEQVGRAVGGRSIGLGSQYVNGPLSLGLGYFQSK---MGGGSD 217 Query: 239 G-----------------------IRNWGLGARYQIGDYK-----------LNLLYTNTR 264 G ++ W L A YQ G K L L+T R Sbjct: 218 GSSDVNAKAACNGAGEKDHAGDTCLKTWTLAAAYQFGPAKVYGAFSHVRLPLAKLHTKVR 277 Query: 265 NTQTAGQVNVYQA-----------------GVNWQMAVAWNLGLSYEYMQGNAQLANNYA 307 G +Y A G N + + +++G+SY+ M + L + Sbjct: 278 KDNNFGA--MYDAKTGTGYNPSDATAFSIGGANHKSSQTFDIGMSYQLMP-SLTLMSAVQ 334 Query: 308 HQ-----GSAT---------LQYWLSKRTDVY 325 H G+A+ +Y LSKRT Y Sbjct: 335 HTRAKFVGAASGRLLQLNLGAKYDLSKRTSAY 366 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 0.315 0.131 0.393 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: 1,190,887 Number of extensions: 54511 Number of successful extensions: 175 Number of sequences better than 1.0e-08: 14 Number of HSP's gapped: 132 Number of HSP's successfully gapped: 14 Length of query: 370 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 283 Effective length of database: 1,207,925 Effective search space: 341842775 Effective search space used: 341842775 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)