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= 0030.0003.p (366 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313395|ref|YP_003777487.1| porin transmembrane protein [He... 154 9e-39 gi|300310676|ref|YP_003774768.1| outer membrane protein (porin) ... 152 5e-38 gi|300313580|ref|YP_003777672.1| outer membrane porin [Herbaspir... 127 1e-30 gi|300310328|ref|YP_003774420.1| porin signal peptide protein [H... 123 2e-29 gi|300309527|ref|YP_003773619.1| outer membrane protein (porin) ... 115 7e-27 >gi|300313395|ref|YP_003777487.1| porin transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 403 Score = 154 bits (390), Expect = 9e-39, Method: Compositional matrix adjust. Identities = 133/379 (35%), Positives = 184/379 (48%), Gaps = 41/379 (10%) Query: 21 AQENVTVYGSVDAGVSYVSNQRGGSSVREDAGNRSPDRIGFRGAEDLGSGYKALFVVESG 80 AQ +VT+YG+VD G++Y SNQ G S+ ++G + ++G G EDLG G ALF +E+G Sbjct: 33 AQSSVTLYGTVDLGLAYSSNQGGASNTYMNSGALAASKLGLTGTEDLGGGNMALFRLENG 92 Query: 81 FNLDDGSMKRAGVLFNRYSVVGLSTPA-GTVTMGHMPDFMYEYLRFQSNGN-LGSAYFFH 138 FN D G+ AGVLFNR S VGLS+ G VT+G ++Y+ N L A H Sbjct: 93 FNADTGAQSTAGVLFNRQSYVGLSSKDYGQVTVGRQYTPYFQYVGALGPTNVLTGATGAH 152 Query: 139 PGNLDNMANQFQLDNAVKYESPNFGGFTFGAMNGFGEQAGSFNKARTYSFGAKYIGSALN 198 PG++D + +++N++ Y P GG G G GEQAGS + S +Y A + Sbjct: 153 PGDIDALDTTLRMNNSITYTLPTLGGLQAGVQYGMGEQAGSAANGSSVSAALRYDYQAFS 212 Query: 199 AGLAYTVSHDRAI-NIGGTLG-VGRLLGQTLSANPVAPDAVYANFNADLTTSMGINASYK 256 YT + A N G+ G VG AN +A YA +AD T + A Y Sbjct: 213 WSAGYTRLKNLANGNTAGSFGNVGSF------ANNSPVNAGYA--SADSTQLLATAARYT 264 Query: 257 IGDFMPHAMYSRVKLENKVGSAAQANYEIGT-----DYNLSVADTV--GVSVSRSTFQN- 308 GD M YS V+ + SA T YN+S A + G S + +N Sbjct: 265 RGDLMLGLNYSNVQYKAGALSAFSQTAVFNTIGLIGSYNVSPALVLAAGYSYTAEKARNG 324 Query: 309 ----IRWNQFNLINMYRLSKRTTLYVAGAYQKASG--------GYAVINGF--------- 347 ++NQ +L +Y LSKRT LY AYQ+ASG G +++N Sbjct: 325 ISSPAKYNQLSLEEVYSLSKRTALYAIQAYQRASGQTLRAGGVGSSIVNAVASVGDSQNG 384 Query: 348 LPSNSQSQAVYRVGIHHLF 366 PS+ Q V +GI H F Sbjct: 385 TPSSGSGQFVAMLGIRHSF 403 >gi|300310676|ref|YP_003774768.1| outer membrane protein (porin) signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 352 Score = 152 bits (384), Expect = 5e-38, Method: Compositional matrix adjust. Identities = 130/386 (33%), Positives = 185/386 (47%), Gaps = 54/386 (13%) Query: 1 MKTTGIRLAAIALAASGAASAQENVTVYGSVDAGVSYVSN--QRGGSS---VREDAGNRS 55 MK T + +AA+ + A AQ +V++YG +D G++Y S+ + GG +R D+G Sbjct: 1 MKKT-LLVAAMLAGGATTAHAQSSVSIYGLIDLGLTYYSSAPKSGGGGARLLRMDSGIAQ 59 Query: 56 PDRIGFRGAEDLGSGYKALFVVESGFNLDDGSMKRAGVLFNRYSVVGL-STPAGTVTMGH 114 RIGF+G EDLG G A F +E+GF DDGS+ + G+LF R S VGL ST G++++G Sbjct: 60 GSRIGFKGTEDLGGGMNAFFTLETGFGADDGSLGQGGLLFGRQSFVGLGSTQWGSLSVGR 119 Query: 115 MPDFMYEYLRFQSNGNLGSAYFFHPGNLDNMANQFQL----------DNAVKYESPNFGG 164 DFM + G L A F G + A+ L +N++KY S FGG Sbjct: 120 QYDFMANIGGQYAMGALSPAGSFGWGLHADAAHGTALNNHIYAGDRTNNSIKYNSAKFGG 179 Query: 165 FTFGAMNGFGEQAGSFNKARTYSFGAKYIGSALNAGLAYTVSHDRAINIGGTLGVGRLLG 224 F+FGAM G GE AG+ N RT S +Y + LAYT D Sbjct: 180 FSFGAMVGLGETAGNNNAGRTVSATGQYDNGPFSGALAYTDIKDST-------------- 225 Query: 225 QTLSANPVAPDAVYANFNADLTTSMGINASYKIGDFMPHAMYSRVKLENKVGSAAQANYE 284 +F+ T G A Y+IG F P + ++VK N SA YE Sbjct: 226 --------------GSFS---TRIYGGGARYQIGAFTPFGVVTQVKNTNT--SAKATTYE 266 Query: 285 IGTDYNLS-VADTVGVSVSRSTFQNIRWNQFNLINM-YRLSKRTTLYVAGAYQKASG--G 340 +GT Y L+ + D + Q + Q + + Y++SKRT LYV Y + G Sbjct: 267 LGTVYALTPLWDLAAAYQFQKRNQGVGNAQALVATVDYKISKRTDLYVGAVYDRDKGYNA 326 Query: 341 YAVINGFLPSNSQSQAVYRVGIHHLF 366 Y V G + S + +Q R+G+ H F Sbjct: 327 YPVFGGGIQSATGNQTALRLGMRHRF 352 >gi|300313580|ref|YP_003777672.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 387 Score = 127 bits (320), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 127/382 (33%), Positives = 173/382 (45%), Gaps = 54/382 (14%) Query: 23 ENVTVYGSVDAGVSYVS---------NQRGGSSVREDAGNRSPDRIGFRGAEDLGSGYKA 73 +VT+YG VD G++Y S N GS ++G RIGF+G EDLG G A Sbjct: 22 SSVTIYGIVDTGIAYSSKVGYTDANGNAATGSKFGINSGVIQGSRIGFKGVEDLGGGLSA 81 Query: 74 LFVVESGFNLDDGSMKRAGV-----LFNRYSVVGLSTPAGTVTMGHMPDFMYEYLRFQSN 128 +F +E+GF DDG ++ + LF R SVVGLS GTV +G DF + + Sbjct: 82 VFNLETGFTSDDGGLQGSDAVTSSNLFRRKSVVGLSGGFGTVLLGRQTDFADTISAYTAV 141 Query: 129 GNLGSAYFFHPGNLDNMANQFQLDNAVKYESPNFGGFTFGAMNGFGEQAGSFNKARTYSF 188 + G + G+ N + +N+V Y + N GFT + GFGEQAG + + Y Sbjct: 142 ADFG-GVVANSGSSLNRLQGTRTNNSVSYTTANLSGFTGNLIYGFGEQAGKTSAGQAYGI 200 Query: 189 GAKYIGSALNAGLAYTVSHDRAINIGGTLGVGRLLGQTLSANPVAPDAVYANFNADL--- 245 G KY L G+ Y S G T S + P A N N L Sbjct: 201 GGKYDNGPLGLGINYYQSK---------------AGSTPSDTSLIPAAGATNANTALGVA 245 Query: 246 ----TTSMGINASYKIGDFMPHAMYSRVKLENK----VGSAAQAN------YEIGTDYNL 291 S+ + ASY+ G +A YSRVK + K V +A AN YEIGT Y+L Sbjct: 246 GNTALKSLNVVASYQFGPARVYANYSRVKQDLKGTPTVATATLANAQKADTYEIGTAYSL 305 Query: 292 SVADTVGVSV--SRSTFQNI----RWNQFNLINMYRLSKRTTLYVAGAYQKASG-GYAVI 344 S + + +V SR+TF + + Q +L Y LSKRT LY + +AS + Sbjct: 306 SPSLKLLAAVDHSRATFNGVNTKGKLTQISLGADYFLSKRTDLYAFVSNMRASDIQNPGV 365 Query: 345 NGFLPSNSQSQAVYRVGIHHLF 366 G + SQ GI H F Sbjct: 366 TGGATGSDASQTAIITGIRHKF 387 >gi|300310328|ref|YP_003774420.1| porin signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 405 Score = 123 bits (309), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 118/416 (28%), Positives = 187/416 (44%), Gaps = 61/416 (14%) Query: 1 MKTTGIRLAAIALAASGAASAQEN-VTVYGSVDAGVSYVSN-----QRGGSSVREDAGNR 54 MK + + LA + A +GAA AQ + +T+YG++DA ++Y + + GS ++G Sbjct: 1 MKKSLLALAVLG-AFAGAAHAQSSSITIYGAIDASLTYTNKIATDGKNTGSLTAVESGLV 59 Query: 55 SPDRIGFRGAEDLGSGYKALFVVESGFNLDDGSMKRAGVLFNRYSVVGLSTPAGTVTMGH 114 R+G +G+EDLG G KA+F +E+GFN+D G + +++ R + VGLS GTV +G Sbjct: 60 KGSRLGIKGSEDLGGGLKAVFTLENGFNVDTGEAGQGKLMWGRQTTVGLSGNFGTVLVGR 119 Query: 115 MPDFMYEYLRFQSNGNLGSAYFFHPGNLDNMANQFQLDNAVKYESPNFGGFTFGAMNGFG 174 D + + S G G H LD Q +L+N+++Y SPNF G +F + GFG Sbjct: 120 QNDPLNDIGGIASAGGFGVPGTVHSKGLDRTDGQ-RLNNSIRYNSPNFNGLSFSGIYGFG 178 Query: 175 EQAGSFNKARTYSFGAKYIGSALNAGLAYTVSHDRAINIGGTLGVGRLLGQTLSANPVAP 234 EQ G R+ G++Y+ L+ GL Y S +G G ++A Sbjct: 179 EQVGRAVGGRSIGLGSQYVNGPLSLGLGYFQSK---------MGGGSDGSSDVNAKAACN 229 Query: 235 DAVYANFNADLT-TSMGINASYKIGDF----------MPHA-MYSRVKLENKVGSAAQAN 282 A + D + + A+Y+ G +P A ++++V+ +N G+ A Sbjct: 230 GAGEKDHAGDTCLKTWTLAAAYQFGPAKVYGAFSHVRLPLAKLHTKVRKDNNFGAMYDAK 289 Query: 283 -------------------------YEIGTDYNLSVADTV--GVSVSRSTFQNI---RWN 312 ++IG Y L + T+ V +R+ F R Sbjct: 290 TGTGYNPSDATAFSIGGANHKSSQTFDIGMSYQLMPSLTLMSAVQHTRAKFVGAASGRLL 349 Query: 313 QFNLINMYRLSKRTTLYVAGAYQKASGGYAV--INGFLPSNSQSQAVYRVGIHHLF 366 Q NL Y LSKRT+ Y ++S Y V P +SQ G+ H F Sbjct: 350 QLNLGAKYDLSKRTSAYALVRNLRSSDMYNVGLSKDQEPGIDRSQTAISTGLIHTF 405 >gi|300309527|ref|YP_003773619.1| outer membrane protein (porin) signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 390 Score = 115 bits (287), Expect = 7e-27, Method: Compositional matrix adjust. Identities = 123/386 (31%), Positives = 175/386 (45%), Gaps = 59/386 (15%) Query: 23 ENVTVYGSVDAGVSY---VSNQRGG--SSVREDAGNRSPDRIGFRGAEDLGSGYKALFVV 77 +VT+YG VD GV Y V+ GG S ++G RIGF+G EDLG G A+F + Sbjct: 22 SSVTIYGIVDTGVVYQSKVATPTGGTGSKFSLNSGVIQGSRIGFKGTEDLGGGLSAVFNL 81 Query: 78 ESGFNLDDGSM---KRAGVLFNRYSVVGLSTPAGTVTMGHMPDFMYEYLRFQSNGNLGSA 134 E+GF+ D G++ K + LF R SVVGL+ G+V +G DF + S + G Sbjct: 82 EAGFSNDTGALDDSKTSNTLFRRKSVVGLAGNFGSVLLGRQTDFADTISSYTSVQDFGGW 141 Query: 135 YFFHPGNLDNMANQFQLDNAVKYESPNFGGFTFGAMNGFGEQAGSFNKARTYSFGAKYIG 194 NLD + + +N++ Y + N GFT M GFGE AG + + + G KY Sbjct: 142 TGAAGHNLDRLEGT-RTNNSISYTTANLNGFTGNLMYGFGETAGQTSAGQAFGVGGKYDN 200 Query: 195 SALNAGLAYTVSHDRAINIGGTLGVGRLLGQTLSANPVAPDAVYANFNADLTTS---MGI 251 L G+ Y S G T LL T + + N + +T+ + + Sbjct: 201 GPLGLGINYYQSK-----AGSTPADASLLAATGTNQ-------FTNGTNNGSTAQKVLNV 248 Query: 252 NASYKIGDFMPHAMYSRVKLE---------NKVGSAAQAN------------YEIGTDYN 290 ASY+ G + +SRVK + VGS A + YEIGT Y+ Sbjct: 249 AASYQFGPARVYGNWSRVKQDLNTQANLTAAGVGSLATISNRTLAASNKADIYEIGTAYS 308 Query: 291 LSVADTVGVSV--SRSTFQNI----RWNQFNLINMYRLSKRTTLYVAGAYQKASG----G 340 LS + + +V +R+ F + + Q +L Y LSKRT LY AY KA+ G Sbjct: 309 LSPSLKLLAAVDHTRAQFDGVSGKAKLTQVSLGTDYWLSKRTDLYAFLAYSKATDLNNPG 368 Query: 341 YAVINGFLPSNSQSQAVYRVGIHHLF 366 A +G +Q VGI H F Sbjct: 369 VADSSG----TDGNQGAVAVGIRHKF 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 0.317 0.133 0.383 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: 1,126,504 Number of extensions: 49957 Number of successful extensions: 190 Number of sequences better than 1.0e-08: 14 Number of HSP's gapped: 144 Number of HSP's successfully gapped: 15 Length of query: 366 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 280 Effective length of database: 1,212,660 Effective search space: 339544800 Effective search space used: 339544800 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 (21.7 bits) S2: 131 (55.1 bits)