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= 0028.0041.p (372 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... 614 e-177 gi|300313813|ref|YP_003777905.1| transmembrane outer membrane po... 174 1e-44 gi|300309527|ref|YP_003773619.1| outer membrane protein (porin) ... 158 6e-40 gi|300310328|ref|YP_003774420.1| porin signal peptide protein [H... 157 2e-39 gi|300310663|ref|YP_003774755.1| outer membrane porin, OmpC fami... 154 1e-38 >gi|300311557|ref|YP_003775649.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 374 Score = 614 bits (1584), Expect = e-177, Method: Compositional matrix adjust. Identities = 302/357 (84%), Positives = 326/357 (91%), Gaps = 1/357 (0%) Query: 17 SAFAQSNVTIYGIVDTSIHYLSNANAQGNGNVRVDNGAIANSRIGFKGTEDLGGGLKAMF 76 +AFAQSNVTIYGIVDTSIHYLSNANAQGN NVR+DNGAIANSRIGFKGTEDLGGGLKAMF Sbjct: 18 AAFAQSNVTIYGIVDTSIHYLSNANAQGNSNVRMDNGAIANSRIGFKGTEDLGGGLKAMF 77 Query: 77 QLENGFSSDNGAMLQGGSLFGRQSWVGLQGGLGKIRVGRQNTPLFDLLADHFDPLTVGNY 136 QLENGFSSD GAM QGGSLFGRQSWVGLQGG GK+RVGRQNTPLFDLLADHFDPLTVGNY Sbjct: 78 QLENGFSSDTGAMQQGGSLFGRQSWVGLQGGFGKVRVGRQNTPLFDLLADHFDPLTVGNY 137 Query: 137 ASNSWLPAAGTLIRTPNMLRYDNDFGPLSASVSWAFGEQAGSLRTGSQFSSALRYTVGGF 196 ASNSWLPAA +L+R+PNMLRYD DFGP++AS SWAFGE+AGS+RTGSQFSSALRYT G Sbjct: 138 ASNSWLPAAASLVRSPNMLRYDGDFGPVAASASWAFGEKAGSVRTGSQFSSALRYTAGPL 197 Query: 197 AIGGGYQQTVSASNSSYKDKVWNLSASYDFGPAKVFGGWFNIKDQTGLTGAYMAADSDIS 256 A+GGGYQQTVS++NSS K WNLSASYDFG AKVFGGW NIKD +GLTG+ MAAD D+S Sbjct: 198 ALGGGYQQTVSSTNSSLKHTTWNLSASYDFGVAKVFGGWLNIKDDSGLTGSVMAADGDVS 257 Query: 257 TGWTTATTV-PATPGNQRKDNGFFLGSSYKATSALTLTGAFYYDKSKNVSYTTLGNVGDG 315 GWTTA + G +RKDNGFFLGSSYKAT+ALTLTGAFYYD+SKNVSY + GNVGDG Sbjct: 258 NGWTTAGAANNGSTGVKRKDNGFFLGSSYKATNALTLTGAFYYDRSKNVSYVSTGNVGDG 317 Query: 316 KRYAVVGWADYALSKRTQLYTTIDYNKARDAAVYELTNSASGKNSLTTVGVGIRHIF 372 KRY +VGWADYALSKRTQLYTTIDYNKA+DAAVYELTNSA+GKNSLTTVGVGIRHIF Sbjct: 318 KRYTLVGWADYALSKRTQLYTTIDYNKAKDAAVYELTNSANGKNSLTTVGVGIRHIF 374 >gi|300313813|ref|YP_003777905.1| transmembrane outer membrane porin signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 354 Score = 174 bits (441), Expect = 1e-44, Method: Compositional matrix adjust. Identities = 131/369 (35%), Positives = 195/369 (52%), Gaps = 45/369 (12%) Query: 17 SAFAQSNVTIYGIVDTSIHYLSNANAQGNGNV-RVDNGAIANSRIGFKGTEDLGGGLKAM 75 S AQS+VTIYG+VDT + YL+NA G G+V R+ +GA SRIGF+GTEDLGGGLKA+ Sbjct: 18 SVQAQSSVTIYGLVDTGVEYLNNAGPNGAGSVTRMTSGATNTSRIGFRGTEDLGGGLKAL 77 Query: 76 FQLENGFSSDNGAML-QGGSLFGRQSWVGLQGGLGKIRVGRQNTPLFDLLADHFDPLTVG 134 FQLENGF DNG+ LF RQS VGL+GG G++ GR + +D L FDP+ G Sbjct: 78 FQLENGFKLDNGSFDGDANQLFNRQSTVGLEGGFGRVVAGRSYSTTYDFLGP-FDPM--G 134 Query: 135 NYASNSWLPAAGTL--------IRTPNMLRYDNDFGPLSASVSWAFGEQAGSLRTGSQFS 186 A+ SW AG N+++Y +F + + FGE AG R G+++ Sbjct: 135 YSANYSWATTAGATGNRKDGMPTGVSNLVKYQGEFSGVKIGAMYGFGEVAGETRNGAKYG 194 Query: 187 SALRYTVGGFAIGGGYQQ--TVSASNSSYKDKVWNLSASYDFGPAKVFGGWFNIKDQTGL 244 L + G F++ Y + + +A+N+ Y D+ + + + P++ + FN+ Sbjct: 195 VGLGWGTGPFSVVATYDRNNSATATNTPY-DRATSAHLAAGYQPSEAWK--FNL------ 245 Query: 245 TGAYMAADSDISTGWTTATTVPATPGNQRKDNGFFLGSSYKATSALTLTGAFYYDKSKNV 304 G+ AT + + F+ G++YK T A+TL GA YY KNV Sbjct: 246 -------------GYRYYKKSLATGAADLRSDFFWGGAAYKFTPAMTLIGAIYYQNIKNV 292 Query: 305 SYTTLGNVGDGKRYAVVGWADYALSKRTQLYTTIDYNKARDAAVYELTNSASG-KNSLTT 363 + N D Y++ YA+SKRT LY + Y KA++ + L+ +G +S Sbjct: 293 A-----NDADPIMYSLR--LKYAMSKRTDLYLSTAYAKAKNGQLVGLSRDDAGYGSSQFG 345 Query: 364 VGVGIRHIF 372 + +G++H F Sbjct: 346 MTLGMQHRF 354 >gi|300309527|ref|YP_003773619.1| outer membrane protein (porin) signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 390 Score = 158 bits (400), Expect = 6e-40, Method: Compositional matrix adjust. Identities = 141/410 (34%), Positives = 196/410 (47%), Gaps = 58/410 (14%) Query: 1 MKKTYLALAIAGLTCTSAFAQSNVTIYGIVDTSIHYLSNANAQGNG---NVRVDNGAIAN 57 MKK+ LALA+ G +A AQS+VTIYGIVDT + Y S G +++G I Sbjct: 1 MKKSLLALAVLGAFAGAAQAQSSVTIYGIVDTGVVYQSKVATPTGGTGSKFSLNSGVIQG 60 Query: 58 SRIGFKGTEDLGGGLKAMFQLENGFSSDNGAM---LQGGSLFGRQSWVGLQGGLGKIRVG 114 SRIGFKGTEDLGGGL A+F LE GFS+D GA+ +LF R+S VGL G G + +G Sbjct: 61 SRIGFKGTEDLGGGLSAVFNLEAGFSNDTGALDDSKTSNTLFRRKSVVGLAGNFGSVLLG 120 Query: 115 RQNTPLFDLLADHFDPLTVGNYASNSWLPAAGTLI------RTPNMLRYDN-DFGPLSAS 167 RQ T D ++ + G W AAG + RT N + Y + + + Sbjct: 121 RQ-TDFADTISSYTSVQDFG-----GWTGAAGHNLDRLEGTRTNNSISYTTANLNGFTGN 174 Query: 168 VSWAFGEQAGSLRTGSQFSSALRYTVGGFAIGGGYQQTVSAS------------------ 209 + + FGE AG G F +Y G +G Y Q+ + S Sbjct: 175 LMYGFGETAGQTSAGQAFGVGGKYDNGPLGLGINYYQSKAGSTPADASLLAATGTNQFTN 234 Query: 210 ---NSSYKDKVWNLSASYDFGPAKVFGGWFNIKD----QTGLTGAYMAADSDISTGWTTA 262 N S KV N++ASY FGPA+V+G W +K Q LT A + + + IS A Sbjct: 235 GTNNGSTAQKVLNVAASYQFGPARVYGNWSRVKQDLNTQANLTAAGVGSLATISNRTLAA 294 Query: 263 TTVPATPGNQRKDNGFFLGSSYKATSALTLTGAFYYDKSKNVSYTTLGNVGDGKRYAVVG 322 + K + + +G++Y + +L L A + +++ G G K V Sbjct: 295 S---------NKADIYEIGTAYSLSPSLKLLAAVDHTRAQ-----FDGVSGKAKLTQVSL 340 Query: 323 WADYALSKRTQLYTTIDYNKARDAAVYELTNSASGKNSLTTVGVGIRHIF 372 DY LSKRT LY + Y+KA D + +S+ + V VGIRH F Sbjct: 341 GTDYWLSKRTDLYAFLAYSKATDLNNPGVADSSGTDGNQGAVAVGIRHKF 390 >gi|300310328|ref|YP_003774420.1| porin signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 405 Score = 157 bits (396), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 131/421 (31%), Positives = 191/421 (45%), Gaps = 65/421 (15%) Query: 1 MKKTYLALAIAGLTCTSAFAQSN-VTIYGIVDTSIHYLSNANAQGNGN---VRVDNGAIA 56 MKK+ LALA+ G +A AQS+ +TIYG +D S+ Y + G V++G + Sbjct: 1 MKKSLLALAVLGAFAGAAHAQSSSITIYGAIDASLTYTNKIATDGKNTGSLTAVESGLVK 60 Query: 57 NSRIGFKGTEDLGGGLKAMFQLENGFSSDNGAMLQGGSLFGRQSWVGLQGGLGKIRVGRQ 116 SR+G KG+EDLGGGLKA+F LENGF+ D G QG ++GRQ+ VGL G G + VGRQ Sbjct: 61 GSRLGIKGSEDLGGGLKAVFTLENGFNVDTGEAGQGKLMWGRQTTVGLSGNFGTVLVGRQ 120 Query: 117 NTPLFDLLADHFDPLTVGNYASNSWLPAAGTLI----------RTPNMLRYDN-DFGPLS 165 N PL D +G AS GT+ R N +RY++ +F LS Sbjct: 121 NDPLND----------IGGIASAGGFGVPGTVHSKGLDRTDGQRLNNSIRYNSPNFNGLS 170 Query: 166 ASVSWAFGEQAGSLRTGSQFSSALRYTVGGFAIGGGYQQT---------------VSASN 210 S + FGEQ G G +Y G ++G GY Q+ + + Sbjct: 171 FSGIYGFGEQVGRAVGGRSIGLGSQYVNGPLSLGLGYFQSKMGGGSDGSSDVNAKAACNG 230 Query: 211 SSYKD-------KVWNLSASYDFGPAKVFGGWFNIKDQTGLTGAYMAADSDISTGWTTAT 263 + KD K W L+A+Y FGPAKV+G + +++ + D++ + T Sbjct: 231 AGEKDHAGDTCLKTWTLAAAYQFGPAKVYGAFSHVRLPLAKLHTKVRKDNNFGAMYDAKT 290 Query: 264 TVPATP----------GNQRKDNGFFLGSSYKATSALTLTGAFYYDKSKNVSYTTLGNVG 313 P N + F +G SY+ +LTL A + ++K V + Sbjct: 291 GTGYNPSDATAFSIGGANHKSSQTFDIGMSYQLMPSLTLMSAVQHTRAKFVGAAS----- 345 Query: 314 DGKRYAVVGWADYALSKRTQLYTTIDYNKARDAAVYELTNSASG--KNSLTTVGVGIRHI 371 G+ + A Y LSKRT Y + ++ D L+ S T + G+ H Sbjct: 346 -GRLLQLNLGAKYDLSKRTSAYALVRNLRSSDMYNVGLSKDQEPGIDRSQTAISTGLIHT 404 Query: 372 F 372 F Sbjct: 405 F 405 >gi|300310663|ref|YP_003774755.1| outer membrane porin, OmpC family protein [Herbaspirillum seropedicae SmR1] Length = 346 Score = 154 bits (389), Expect = 1e-38, Method: Compositional matrix adjust. Identities = 138/394 (35%), Positives = 204/394 (51%), Gaps = 70/394 (17%) Query: 1 MKKTYLALAIAGLTCTS-AFAQSNVTIYGIVDTSIHYLSNANAQGNGNV-RVDNGAIANS 58 MKK + A+ +A L C A AQSNVT+YG++DT Y+ NA G G+V +D+G S Sbjct: 1 MKKAW-AVGVASLLCAGGALAQSNVTLYGVIDT---YMGYTNATGKGSVASLDSGGYQAS 56 Query: 59 RIGFKGTEDLGGGLKAMFQLENGFSSDNGAMLQGGSLFGRQSWVGLQGGLGKIRVGRQNT 118 R+GFKG+EDLGGGL+A FQ+ENGF+SD+GAM LF RQSWVGL LG++R+GRQN+ Sbjct: 57 RVGFKGSEDLGGGLRANFQMENGFASDSGAMHDSTRLFNRQSWVGLGNELGELRLGRQNS 116 Query: 119 PLFDLLA--DHFDPLTVGNYASNSWLPAAGTLIRTPNMLRYDNDFGPLSASVS------- 169 P F ++A D F T ++ +N TP RYDN G LS + Sbjct: 117 PGFLMIARLDAFAGATYASFLNN-------VSAYTP---RYDNVIGYLSPVMRGFRVQAY 166 Query: 170 WAFGEQAGSLRTGSQFSSALRYTVGGFAIGGGYQQTVSASNSSYKDKVWNLS----ASYD 225 + GEQ + R G S+A+ G + G Y S++ +S D + S +YD Sbjct: 167 YGLGEQT-APRNG--LSTAM--LAGEYESGPLYLGVSSSAQNSANDNITIRSTFAGGAYD 221 Query: 226 FGPAKVFGGWFNIKDQTGLTGAYMAADSDISTGWTTATTVPATPGNQRKDNGFFLGSSYK 285 +G KVF G++ + GA +A+ TPG+ + + L ++Y+ Sbjct: 222 YGSGKVFLGYYRGNN----LGAAASAN---------------TPGSYY--SAYSLSANYR 260 Query: 286 ATSALTLTGAFYYDKSKNVSYTTLGNVGDGKRYAVVGWADYALSKRTQLYTTIDYNKARD 345 T TL + + K + G + ++++++G Y LS+RT LY T + + Sbjct: 261 LTGQATLGAGYGWAKD------STGAGRNARQFSLIG--TYDLSRRTMLYATYAHLANNN 312 Query: 346 AAVYELTNSAS-GKNSLTT------VGVGIRHIF 372 A + L +A KN+ + V VGIRH+F Sbjct: 313 GASFSLAGAAPITKNAPVSGGTVNGVQVGIRHLF 346 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 0.132 0.394 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: 1,161,101 Number of extensions: 50437 Number of successful extensions: 218 Number of sequences better than 1.0e-08: 14 Number of HSP's gapped: 170 Number of HSP's successfully gapped: 14 Length of query: 372 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 285 Effective length of database: 1,207,925 Effective search space: 344258625 Effective search space used: 344258625 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)