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= 0034.0038.p (386 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... 173 2e-44 gi|300310676|ref|YP_003774768.1| outer membrane protein (porin) ... 145 5e-36 gi|300310328|ref|YP_003774420.1| porin signal peptide protein [H... 135 6e-33 gi|300313580|ref|YP_003777672.1| outer membrane porin [Herbaspir... 132 6e-32 gi|300309527|ref|YP_003773619.1| outer membrane protein (porin) ... 130 2e-31 >gi|300313395|ref|YP_003777487.1| porin transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 403 Score = 173 bits (439), Expect = 2e-44, Method: Compositional matrix adjust. Identities = 138/376 (36%), Positives = 182/376 (48%), Gaps = 31/376 (8%) Query: 37 AQSKVEIYGLISGGVGYLTNQGGPHNFEALSGTNQNPRIGFRGQEDLGGGTRAIFTLENG 96 AQS V +YG + G+ Y +NQGG N SG ++G G EDLGGG A+F LENG Sbjct: 33 AQSSVTLYGTVDLGLAYSSNQGGASNTYMNSGALAASKLGLTGTEDLGGGNMALFRLENG 92 Query: 97 FNMMTGAASQSGRLFGRQSWVGLASNSMGTVTLGRQYEAVKDY---LGP--VVIASNGVH 151 FN TGA S +G LF RQS+VGL+S G VT+GRQY Y LGP V+ + G H Sbjct: 93 FNADTGAQSTAGVLFNRQSYVGLSSKDYGQVTVGRQYTPYFQYVGALGPTNVLTGATGAH 152 Query: 152 IGDNDNGYNNLRVQNSVKYVSPMFNDFNVTALYGFGEAAGDASVNRVMSIGSGYKGGNFR 211 GD D LR+ NS+ Y P YG GE AG A+ +S Y F Sbjct: 153 PGDIDALDTTLRMNNSITYTLPTLGGLQAGVQYGMGEQAGSAANGSSVSAALRYDYQAFS 212 Query: 212 WAVAFTQMDQPNSTKSPDGAMGNDYASSLLIFNKSAVNSS-AGVRRQRIAGTGGFYTVGK 270 W+ +T++ + + G+ GN + N S VN+ A ++ T YT G Sbjct: 213 WSAGYTRLKNL-ANGNTAGSFGNVGS----FANNSPVNAGYASADSTQLLATAARYTRGD 267 Query: 271 TDFGAMYSNVKYE--YLDNTKLTLQNFDINLVHHY--TPALNLGASYFYTTGK-YDTINK 325 G YSNV+Y+ L T I L+ Y +PAL L A Y YT K + I+ Sbjct: 268 LMLGLNYSNVQYKAGALSAFSQTAVFNTIGLIGSYNVSPALVLAAGYSYTAEKARNGISS 327 Query: 326 NPKWHQINLQADYFLSKRTDVAITYSYQLAAGDATKATIFGFP---------------SS 370 K++Q++L+ Y LSKRT + +YQ A+G +A G S Sbjct: 328 PAKYNQLSLEEVYSLSKRTALYAIQAYQRASGQTLRAGGVGSSIVNAVASVGDSQNGTPS 387 Query: 371 SDKKQAVLMLGMRHVF 386 S Q V MLG+RH F Sbjct: 388 SGSGQFVAMLGIRHSF 403 >gi|300310676|ref|YP_003774768.1| outer membrane protein (porin) signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 352 Score = 145 bits (366), Expect = 5e-36, Method: Compositional matrix adjust. Identities = 128/393 (32%), Positives = 173/393 (44%), Gaps = 62/393 (15%) Query: 15 MKKHWMIGALAIPAALAGAQAQAQSKVEIYGLISGGVGYLTNQ-----GGPHNFEALSGT 69 MKK ++ A+ A A AQS V IYGLI G+ Y ++ GG SG Sbjct: 1 MKKTLLVAAMLAGGA---TTAHAQSSVSIYGLIDLGLTYYSSAPKSGGGGARLLRMDSGI 57 Query: 70 NQNPRIGFRGQEDLGGGTRAIFTLENGFNMMTGAASQSGRLFGRQSWVGLASNSMGTVTL 129 Q RIGF+G EDLGGG A FTLE GF G+ Q G LFGRQS+VGL S G++++ Sbjct: 58 AQGSRIGFKGTEDLGGGMNAFFTLETGFGADDGSLGQGGLLFGRQSFVGLGSTQWGSLSV 117 Query: 130 GRQYEAVKDY--------LGPVVIASNGVH------IGDNDNGYNNLRVQNSVKYVSPMF 175 GRQY+ + + L P G+H N++ Y R NS+KY S F Sbjct: 118 GRQYDFMANIGGQYAMGALSPAGSFGWGLHADAAHGTALNNHIYAGDRTNNSIKYNSAKF 177 Query: 176 NDFNVTALYGFGEAAGDASVNRVMSIGSGYKGGNFRWAVAFTQMDQPNSTKSPDGAMGND 235 F+ A+ G GE AG+ + R +S Y G F A+A+T Sbjct: 178 GGFSFGAMVGLGETAGNNNAGRTVSATGQYDNGPFSGALAYTD----------------- 220 Query: 236 YASSLLIFNKSAVNSSAGVRRQRIAGTGGFYTVGK-TDFGAMYSNVKYEYLDNTKLTLQN 294 + S G RI G G Y +G T FG + + VK NT Sbjct: 221 ------------IKDSTGSFSTRIYGGGARYQIGAFTPFGVV-TQVKNT---NTSAKATT 264 Query: 295 FDINLVHHYTPALNLGASYFYTTGKYDTINKNPKWHQ-INLQADYFLSKRTDVAITYSYQ 353 +++ V+ TP +L A+Y ++ N+ Q + DY +SKRTD+ + Y Sbjct: 265 YELGTVYALTPLWDLAAAY-----QFQKRNQGVGNAQALVATVDYKISKRTDLYVGAVYD 319 Query: 354 LAAGDATKATIFGFPSSSDKKQAVLMLGMRHVF 386 G G S+ Q L LGMRH F Sbjct: 320 RDKGYNAYPVFGGGIQSATGNQTALRLGMRHRF 352 >gi|300310328|ref|YP_003774420.1| porin signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 405 Score = 135 bits (340), Expect = 6e-33, Method: Compositional matrix adjust. Identities = 121/378 (32%), Positives = 173/378 (45%), Gaps = 63/378 (16%) Query: 15 MKKHWMIGALAIPAALAGAQAQAQSKVEIYGLISGGVGYLT-------NQGGPHNFEALS 67 MKK + ALA+ A AGA S + IYG I + Y N G E S Sbjct: 1 MKKSLL--ALAVLGAFAGAAHAQSSSITIYGAIDASLTYTNKIATDGKNTGSLTAVE--S 56 Query: 68 GTNQNPRIGFRGQEDLGGGTRAIFTLENGFNMMTGAASQSGRLFGRQSWVGLASNSMGTV 127 G + R+G +G EDLGGG +A+FTLENGFN+ TG A Q ++GRQ+ VGL+ N GTV Sbjct: 57 GLVKGSRLGIKGSEDLGGGLKAVFTLENGFNVDTGEAGQGKLMWGRQTTVGLSGN-FGTV 115 Query: 128 TLGRQYEAVKDYLG---------PVVIASNGVHIGDNDNGYNNLRVQNSVKYVSPMFNDF 178 +GRQ + + D G P + S G+ D R+ NS++Y SP FN Sbjct: 116 LVGRQNDPLNDIGGIASAGGFGVPGTVHSKGLDRTDGQ------RLNNSIRYNSPNFNGL 169 Query: 179 NVTALYGFGEAAGDASVNRVMSIGSGYKGGNFRWAVAFTQ---------MDQPNSTKSPD 229 + + +YGFGE G A R + +GS Y G + + Q N+ + + Sbjct: 170 SFSGIYGFGEQVGRAVGGRSIGLGSQYVNGPLSLGLGYFQSKMGGGSDGSSDVNAKAACN 229 Query: 230 GAMGNDYASSLLI----------FNKSAVNSSAGVRRQRIAGTGGFYTVGKTD--FGAMY 277 GA D+A + F + V + R +A +T + D FGAMY Sbjct: 230 GAGEKDHAGDTCLKTWTLAAAYQFGPAKVYGAFSHVRLPLA---KLHTKVRKDNNFGAMY 286 Query: 278 ---SNVKYEYLDNTKLTL--------QNFDINLVHHYTPALNLGASYFYTTGKYDTINKN 326 + Y D T ++ Q FDI + + P+L L ++ +T K+ + Sbjct: 287 DAKTGTGYNPSDATAFSIGGANHKSSQTFDIGMSYQLMPSLTLMSAVQHTRAKF-VGAAS 345 Query: 327 PKWHQINLQADYFLSKRT 344 + Q+NL A Y LSKRT Sbjct: 346 GRLLQLNLGAKYDLSKRT 363 >gi|300313580|ref|YP_003777672.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 387 Score = 132 bits (331), Expect = 6e-32, Method: Compositional matrix adjust. Identities = 134/407 (32%), Positives = 183/407 (44%), Gaps = 55/407 (13%) Query: 15 MKKHWMIGALAIPAALAGAQAQAQSKVEIYGLISGGVGYLT---------NQGGPHNFEA 65 MKK + ALA+ A A AQAQS V IYG++ G+ Y + N F Sbjct: 1 MKKSLL--ALAVLGAFA-GAAQAQSSVTIYGIVDTGIAYSSKVGYTDANGNAATGSKFGI 57 Query: 66 LSGTNQNPRIGFRGQEDLGGGTRAIFTLENGFNMMTGA-----ASQSGRLFGRQSWVGLA 120 SG Q RIGF+G EDLGGG A+F LE GF G A S LF R+S VGL Sbjct: 58 NSGVIQGSRIGFKGVEDLGGGLSAVFNLETGFTSDDGGLQGSDAVTSSNLFRRKSVVGL- 116 Query: 121 SNSMGTVTLGRQ---------YEAVKDYLGPVVIASNGVHIGDNDNGYNNLRVQNSVKYV 171 S GTV LGRQ Y AV D+ G V+A++G + N R NSV Y Sbjct: 117 SGGFGTVLLGRQTDFADTISAYTAVADFGG--VVANSGSSL----NRLQGTRTNNSVSYT 170 Query: 172 SPMFNDFNVTALYGFGEAAGDASVNRVMSIGSGYKGGNFRWAVAFTQM---DQPNSTKSP 228 + + F +YGFGE AG S + IG Y G + + Q P+ T Sbjct: 171 TANLSGFTGNLIYGFGEQAGKTSAGQAYGIGGKYDNGPLGLGINYYQSKAGSTPSDTSLI 230 Query: 229 DGAMGNDYASSLLIFNKSAVNSSAGVRRQRIAGTGGFYTVGKTDFGAMYSNVKYEYLDNT 288 A + ++L + +A+ S V Y G A YS VK + Sbjct: 231 PAAGATNANTALGVAGNTALKSLNVVAS---------YQFGPARVYANYSRVKQDLKGTP 281 Query: 289 KL---TLQN------FDINLVHHYTPALNLGASYFYTTGKYDTINKNPKWHQINLQADYF 339 + TL N ++I + +P+L L A+ ++ ++ +N K QI+L ADYF Sbjct: 282 TVATATLANAQKADTYEIGTAYSLSPSLKLLAAVDHSRATFNGVNTKGKLTQISLGADYF 341 Query: 340 LSKRTDVAITYSYQLAAGDATKATIFGFPSSSDKKQAVLMLGMRHVF 386 LSKRTD+ + + A D + G + SD Q ++ G+RH F Sbjct: 342 LSKRTDL-YAFVSNMRASDIQNPGVTGGATGSDASQTAIITGIRHKF 387 >gi|300309527|ref|YP_003773619.1| outer membrane protein (porin) signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 390 Score = 130 bits (327), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 121/393 (30%), Positives = 172/393 (43%), Gaps = 69/393 (17%) Query: 39 SKVEIYGLISGGVGYLTNQGGP-----HNFEALSGTNQNPRIGFRGQEDLGGGTRAIFTL 93 S V IYG++ GV Y + P F SG Q RIGF+G EDLGGG A+F L Sbjct: 22 SSVTIYGIVDTGVVYQSKVATPTGGTGSKFSLNSGVIQGSRIGFKGTEDLGGGLSAVFNL 81 Query: 94 ENGFNMMTGA---ASQSGRLFGRQSWVGLASNSMGTVTLGRQ---------YEAVKDYLG 141 E GF+ TGA + S LF R+S VGLA N G+V LGRQ Y +V+D+ G Sbjct: 82 EAGFSNDTGALDDSKTSNTLFRRKSVVGLAGN-FGSVLLGRQTDFADTISSYTSVQDFGG 140 Query: 142 PVVIASNGVHIGDNDNGYNNLRVQNSVKYVSPMFNDFNVTALYGFGEAAGDASVNRVMSI 201 A G N + R NS+ Y + N F +YGFGE AG S + + Sbjct: 141 WTGAA------GHNLDRLEGTRTNNSISYTTANLNGFTGNLMYGFGETAGQTSAGQAFGV 194 Query: 202 GSGYKGGNFRWAVAFTQMDQPNSTKSPDGAMGNDYASSLLI---FNKSAVNSSAGVRRQR 258 G Y G + + Q S G+ D +SLL N+ ++ G Q+ Sbjct: 195 GGKYDNGPLGLGINYYQ--------SKAGSTPAD--ASLLAATGTNQFTNGTNNGSTAQK 244 Query: 259 IAGTGGFYTVGKTDFGAMYSNVKYEY----------------LDNTKLTLQN----FDIN 298 + Y G +S VK + + N L N ++I Sbjct: 245 VLNVAASYQFGPARVYGNWSRVKQDLNTQANLTAAGVGSLATISNRTLAASNKADIYEIG 304 Query: 299 LVHHYTPALNLGASYFYTTGKYDTINKNPKWHQINLQADYFLSKRTDVAITYSYQLAAGD 358 + +P+L L A+ +T ++D ++ K Q++L DY+LSKRTD+ +Y Sbjct: 305 TAYSLSPSLKLLAAVDHTRAQFDGVSGKAKLTQVSLGTDYWLSKRTDLYAFLAY------ 358 Query: 359 ATKATIFGFP-----SSSDKKQAVLMLGMRHVF 386 +KAT P S +D Q + +G+RH F Sbjct: 359 -SKATDLNNPGVADSSGTDGNQGAVAVGIRHKF 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 0.393 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: 1,196,264 Number of extensions: 50389 Number of successful extensions: 198 Number of sequences better than 1.0e-08: 14 Number of HSP's gapped: 164 Number of HSP's successfully gapped: 14 Length of query: 386 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 299 Effective length of database: 1,207,925 Effective search space: 361169575 Effective search space used: 361169575 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)