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= 0001.2091.p (373 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311557|ref|YP_003775649.1| outer membrane porin [Herbaspir... 653 0.0 gi|300313813|ref|YP_003777905.1| transmembrane outer membrane po... 180 2e-46 gi|300310328|ref|YP_003774420.1| porin signal peptide protein [H... 158 8e-40 gi|300310663|ref|YP_003774755.1| outer membrane porin, OmpC fami... 155 5e-39 gi|300309527|ref|YP_003773619.1| outer membrane protein (porin) ... 151 7e-38 >gi|300311557|ref|YP_003775649.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 374 Score = 653 bits (1685), Expect = 0.0, Method: Compositional matrix adjust. Identities = 333/374 (89%), Positives = 354/374 (94%), Gaps = 1/374 (0%) Query: 1 MKKSSMLLLAAGLTTGGAAFAQSNVTIYGIVDTSIHYLNNANAKGNSNVRMDNGAIANSR 60 MKKSS+LLLAAGLT+GGAAFAQSNVTIYGIVDTSIHYL+NANA+GNSNVRMDNGAIANSR Sbjct: 1 MKKSSLLLLAAGLTSGGAAFAQSNVTIYGIVDTSIHYLSNANAQGNSNVRMDNGAIANSR 60 Query: 61 LGFKGSEDLGGGLKAMFQLENGFSSDNGAMLQGGSLFGRQSWVGLQGAYGKVRVGRQNTP 120 +GFKG+EDLGGGLKAMFQLENGFSSD GAM QGGSLFGRQSWVGLQG +GKVRVGRQNTP Sbjct: 61 IGFKGTEDLGGGLKAMFQLENGFSSDTGAMQQGGSLFGRQSWVGLQGGFGKVRVGRQNTP 120 Query: 121 LFDLLADHFDPLTVGNYASNSWLPAAASLVRSPNMLRYDGQFGPVAASASWAFGEKAGSI 180 LFDLLADHFDPLTVGNYASNSWLPAAASLVRSPNMLRYDG FGPVAASASWAFGEKAGS+ Sbjct: 121 LFDLLADHFDPLTVGNYASNSWLPAAASLVRSPNMLRYDGDFGPVAASASWAFGEKAGSV 180 Query: 181 RTGSQFSSALRYTAGPLSLGGGYQQTVSGTDSSLKDTVWNLSASYDFGVAKIFGGWINIK 240 RTGSQFSSALRYTAGPL+LGGGYQQTVS T+SSLK T WNLSASYDFGVAK+FGGW+NIK Sbjct: 181 RTGSQFSSALRYTAGPLALGGGYQQTVSSTNSSLKHTTWNLSASYDFGVAKVFGGWLNIK 240 Query: 241 DRTGTTGAVMAADSDVSNTWTTASIPNNG-TSAERKDNGFFLGSSYKATSALTLTGAFYY 299 D +G TG+VMAAD DVSN WTTA NNG T +RKDNGFFLGSSYKAT+ALTLTGAFYY Sbjct: 241 DDSGLTGSVMAADGDVSNGWTTAGAANNGSTGVKRKDNGFFLGSSYKATNALTLTGAFYY 300 Query: 300 DRSKNVSYVSTGNVGDGKRYAVVGWADYALSKRTQLYTTVDYNKAKDAAVYELTSSPSGK 359 DRSKNVSYVSTGNVGDGKRY +VGWADYALSKRTQLYTT+DYNKAKDAAVYELT+S +GK Sbjct: 301 DRSKNVSYVSTGNVGDGKRYTLVGWADYALSKRTQLYTTIDYNKAKDAAVYELTNSANGK 360 Query: 360 TSVTTVGVGIRHIF 373 S+TTVGVGIRHIF Sbjct: 361 NSLTTVGVGIRHIF 374 >gi|300313813|ref|YP_003777905.1| transmembrane outer membrane porin signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 354 Score = 180 bits (456), Expect = 2e-46, Method: Compositional matrix adjust. Identities = 136/371 (36%), Positives = 194/371 (52%), Gaps = 47/371 (12%) Query: 17 GAAFAQSNVTIYGIVDTSIHYLNNANAKGNSNV-RMDNGAIANSRLGFKGSEDLGGGLKA 75 G+ AQS+VTIYG+VDT + YLNNA G +V RM +GA SR+GF+G+EDLGGGLKA Sbjct: 17 GSVQAQSSVTIYGLVDTGVEYLNNAGPNGAGSVTRMTSGATNTSRIGFRGTEDLGGGLKA 76 Query: 76 MFQLENGFSSDNGAML-QGGSLFGRQSWVGLQGAYGKVRVGRQNTPLFDLLADHFDPLTV 134 +FQLENGF DNG+ LF RQS VGL+G +G+V GR + +D L FDP+ Sbjct: 77 LFQLENGFKLDNGSFDGDANQLFNRQSTVGLEGGFGRVVAGRSYSTTYDFLGP-FDPM-- 133 Query: 135 GNYASNSWLPAAASLVRSP--------NMLRYDGQFGPVAASASWAFGEKAGSIRTGSQF 186 G A+ SW A + N+++Y G+F V A + FGE AG R G+++ Sbjct: 134 GYSANYSWATTAGATGNRKDGMPTGVSNLVKYQGEFSGVKIGAMYGFGEVAGETRNGAKY 193 Query: 187 SSALRYTAGPLSLGGGYQQTVSGTDSSL---KDTVWNLSASYDFGVAKIFGGWINIKDRT 243 L + GP S+ Y + S T ++ + T +L+A Y A F ++ Sbjct: 194 GVGLGWGTGPFSVVATYDRNNSATATNTPYDRATSAHLAAGYQPSEAWKFNLGYRYYKKS 253 Query: 244 GTTGAVMAADSDVSNTWTTASIPNNGTSAERKDNGFFLGSSYKATSALTLTGAFYYDRSK 303 TGA A+ + + F+ G++YK T A+TL GA YY K Sbjct: 254 LATGA-----------------------ADLRSDFFWGGAAYKFTPAMTLIGAIYYQNIK 290 Query: 304 NVSYVSTGNVGDGKRYAVVGWADYALSKRTQLYTTVDYNKAKDAAVYELTSSPSGK-TSV 362 NV+ N D Y++ YA+SKRT LY + Y KAK+ + L+ +G +S Sbjct: 291 NVA-----NDADPIMYSLR--LKYAMSKRTDLYLSTAYAKAKNGQLVGLSRDDAGYGSSQ 343 Query: 363 TTVGVGIRHIF 373 + +G++H F Sbjct: 344 FGMTLGMQHRF 354 >gi|300310328|ref|YP_003774420.1| porin signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 405 Score = 158 bits (399), Expect = 8e-40, Method: Compositional matrix adjust. Identities = 137/424 (32%), Positives = 190/424 (44%), Gaps = 70/424 (16%) Query: 1 MKKSSMLLLAAGLTTGGAAFAQSNVTIYGIVDTSIHYLNNANAKGN---SNVRMDNGAIA 57 MKKS + L G G A S++TIYG +D S+ Y N G S +++G + Sbjct: 1 MKKSLLALAVLGAFAGAAHAQSSSITIYGAIDASLTYTNKIATDGKNTGSLTAVESGLVK 60 Query: 58 NSRLGFKGSEDLGGGLKAMFQLENGFSSDNGAMLQGGSLFGRQSWVGLQGAYGKVRVGRQ 117 SRLG KGSEDLGGGLKA+F LENGF+ D G QG ++GRQ+ VGL G +G V VGRQ Sbjct: 61 GSRLGIKGSEDLGGGLKAVFTLENGFNVDTGEAGQGKLMWGRQTTVGLSGNFGTVLVGRQ 120 Query: 118 NTPLFDLLADHFDPLTVGNYASNSWLPAAASLVRSPNMLRYDGQ------------FGPV 165 N PL D +G AS + V S + R DGQ F + Sbjct: 121 NDPLND----------IGGIASAGGFGVPGT-VHSKGLDRTDGQRLNNSIRYNSPNFNGL 169 Query: 166 AASASWAFGEKAGSIRTGSQFSSALRYTAGPLSLGGGYQQTVSG---------------- 209 + S + FGE+ G G +Y GPLSLG GY Q+ G Sbjct: 170 SFSGIYGFGEQVGRAVGGRSIGLGSQYVNGPLSLGLGYFQSKMGGGSDGSSDVNAKAACN 229 Query: 210 --------TDSSLKDTVWNLSASYDFGVAKIFGGWINIK----------DRTGTTGAVMA 251 D+ LK W L+A+Y FG AK++G + +++ + GA+ Sbjct: 230 GAGEKDHAGDTCLK--TWTLAAAYQFGPAKVYGAFSHVRLPLAKLHTKVRKDNNFGAMYD 287 Query: 252 ADSDVSNTWTTASIPNNGTSAERKDNGFFLGSSYKATSALTLTGAFYYDRSKNVSYVSTG 311 A + + A+ + G + + F +G SY+ +LTL A + R+K V S Sbjct: 288 AKTGTGYNPSDATAFSIGGANHKSSQTFDIGMSYQLMPSLTLMSAVQHTRAKFVGAAS-- 345 Query: 312 NVGDGKRYAVVGWADYALSKRTQLYTTVDYNKAKDAAVYELT--SSPSGKTSVTTVGVGI 369 G+ + A Y LSKRT Y V ++ D L+ P S T + G+ Sbjct: 346 ----GRLLQLNLGAKYDLSKRTSAYALVRNLRSSDMYNVGLSKDQEPGIDRSQTAISTGL 401 Query: 370 RHIF 373 H F Sbjct: 402 IHTF 405 >gi|300310663|ref|YP_003774755.1| outer membrane porin, OmpC family protein [Herbaspirillum seropedicae SmR1] Length = 346 Score = 155 bits (392), Expect = 5e-39, Method: Compositional matrix adjust. Identities = 134/387 (34%), Positives = 199/387 (51%), Gaps = 55/387 (14%) Query: 1 MKKSSMLLLAAGLTTGGAAFAQSNVTIYGIVDTSIHYLNNANAKGNSNVRMDNGAIANSR 60 MKK+ + +A+ L GGA AQSNVT+YG++DT + Y NA KG S +D+G SR Sbjct: 1 MKKAWAVGVASLLCAGGA-LAQSNVTLYGVIDTYMGY-TNATGKG-SVASLDSGGYQASR 57 Query: 61 LGFKGSEDLGGGLKAMFQLENGFSSDNGAMLQGGSLFGRQSWVGLQGAYGKVRVGRQNTP 120 +GFKGSEDLGGGL+A FQ+ENGF+SD+GAM LF RQSWVGL G++R+GRQN+P Sbjct: 58 VGFKGSEDLGGGLRANFQMENGFASDSGAMHDSTRLFNRQSWVGLGNELGELRLGRQNSP 117 Query: 121 LFDLLA--DHFDPLTVGNYASNSWLPAAASLVRSPNMLRYDGQFGPVA----ASASWAFG 174 F ++A D F T ++ +N +A R N++ Y PV A + G Sbjct: 118 GFLMIARLDAFAGATYASFLNN----VSAYTPRYDNVIGY---LSPVMRGFRVQAYYGLG 170 Query: 175 EKAGSIRTGSQFSSALRYTAGPLSLGGGYQQTVSGTDS-SLKDTVWNLSASYDFGVAKIF 233 E+ S A Y +GPL LG S D+ +++ T +YD+G K+F Sbjct: 171 EQTAPRNGLSTAMLAGEYESGPLYLGVSSSAQNSANDNITIRSTF--AGGAYDYGSGKVF 228 Query: 234 GGWINIKDRTGTTGAVMAADSDVSNTWTTASIPNNGTSAERKDNGFFLGSSYKATSALTL 293 G+ R GA AA ++ ++ +A + L ++Y+ T TL Sbjct: 229 LGYY----RGNNLGA--AASANTPGSYYSA---------------YSLSANYRLTGQATL 267 Query: 294 TGAFYYDRSKNVSYVSTGNVGDGKRYAVVGWADYALSKRTQLYTTVDYNKAKDAAVYELT 353 + + + STG + ++++++G Y LS+RT LY T + + A + L Sbjct: 268 GAGYGWAKD------STGAGRNARQFSLIG--TYDLSRRTMLYATYAHLANNNGASFSLA 319 Query: 354 -------SSPSGKTSVTTVGVGIRHIF 373 ++P +V V VGIRH+F Sbjct: 320 GAAPITKNAPVSGGTVNGVQVGIRHLF 346 >gi|300309527|ref|YP_003773619.1| outer membrane protein (porin) signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 390 Score = 151 bits (382), Expect = 7e-38, Method: Compositional matrix adjust. Identities = 142/407 (34%), Positives = 195/407 (47%), Gaps = 51/407 (12%) Query: 1 MKKSSMLLLAAGLTTGGAAFAQSNVTIYGIVDTSIHYLNN-ANAKGN--SNVRMDNGAIA 57 MKKS +L LA GAA AQS+VTIYGIVDT + Y + A G S +++G I Sbjct: 1 MKKS-LLALAVLGAFAGAAQAQSSVTIYGIVDTGVVYQSKVATPTGGTGSKFSLNSGVIQ 59 Query: 58 NSRLGFKGSEDLGGGLKAMFQLENGFSSDNGAM---LQGGSLFGRQSWVGLQGAYGKVRV 114 SR+GFKG+EDLGGGL A+F LE GFS+D GA+ +LF R+S VGL G +G V + Sbjct: 60 GSRIGFKGTEDLGGGLSAVFNLEAGFSNDTGALDDSKTSNTLFRRKSVVGLAGNFGSVLL 119 Query: 115 GRQNTPLFDLLADHFDPLTVGNYASNSWLPAAASLV------RSPNMLRY-DGQFGPVAA 167 GRQ T D ++ + G W AA + R+ N + Y Sbjct: 120 GRQ-TDFADTISSYTSVQDFG-----GWTGAAGHNLDRLEGTRTNNSISYTTANLNGFTG 173 Query: 168 SASWAFGEKAGSIRTGSQFSSALRYTAGPLSLGGGYQQTVSGT---DSSL---------- 214 + + FGE AG G F +Y GPL LG Y Q+ +G+ D+SL Sbjct: 174 NLMYGFGETAGQTSAGQAFGVGGKYDNGPLGLGINYYQSKAGSTPADASLLAATGTNQFT 233 Query: 215 --------KDTVWNLSASYDFGVAKIFGGWINIKDRTGTTGAVMAADSDVSNTWTTASIP 266 V N++ASY FG A+++G W +K T + AA + A+I Sbjct: 234 NGTNNGSTAQKVLNVAASYQFGPARVYGNWSRVKQDLNTQANLTAA-----GVGSLATIS 288 Query: 267 NNGTSAERKDNGFFLGSSYKATSALTLTGAFYYDRSKNVSYVSTGNVGDGKRYAVVGWAD 326 N +A K + + +G++Y + +L L A + R++ G G K V D Sbjct: 289 NRTLAASNKADIYEIGTAYSLSPSLKLLAAVDHTRAQ-----FDGVSGKAKLTQVSLGTD 343 Query: 327 YALSKRTQLYTTVDYNKAKDAAVYELTSSPSGKTSVTTVGVGIRHIF 373 Y LSKRT LY + Y+KA D + S + V VGIRH F Sbjct: 344 YWLSKRTDLYAFLAYSKATDLNNPGVADSSGTDGNQGAVAVGIRHKF 390 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 0.314 0.130 0.380 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: 1,167,733 Number of extensions: 51812 Number of successful extensions: 180 Number of sequences better than 1.0e-08: 14 Number of HSP's gapped: 128 Number of HSP's successfully gapped: 14 Length of query: 373 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 286 Effective length of database: 1,207,925 Effective search space: 345466550 Effective search space used: 345466550 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 42 (22.0 bits) S2: 131 (55.1 bits)