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= 0001.4462.p (405 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... 652 0.0 gi|300310676|ref|YP_003774768.1| outer membrane protein (porin) ... 157 1e-39 gi|300309527|ref|YP_003773619.1| outer membrane protein (porin) ... 136 3e-33 gi|300310663|ref|YP_003774755.1| outer membrane porin, OmpC fami... 125 4e-30 gi|300313813|ref|YP_003777905.1| transmembrane outer membrane po... 125 6e-30 >gi|300313395|ref|YP_003777487.1| porin transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 403 Score = 652 bits (1681), Expect = 0.0, Method: Compositional matrix adjust. Identities = 327/372 (87%), Positives = 349/372 (93%) Query: 34 WAQSAVTLYGTVDLGLAYSSNQGGASNTYMNSGALNASKLGFMGSEDLGGGTSALFRLEN 93 WAQS+VTLYGTVDLGLAYSSNQGGASNTYMNSGAL ASKLG G+EDLGGG ALFRLEN Sbjct: 32 WAQSSVTLYGTVDLGLAYSSNQGGASNTYMNSGALAASKLGLTGTEDLGGGNMALFRLEN 91 Query: 94 GFSADTGAMSSGGVLFNRQSYVGLASTQWGQVTVGRQYTPYFQYVGGLGPTGVLTGATGA 153 GF+ADTGA S+ GVLFNRQSYVGL+S +GQVTVGRQYTPYFQYVG LGPT VLTGATGA Sbjct: 92 GFNADTGAQSTAGVLFNRQSYVGLSSKDYGQVTVGRQYTPYFQYVGALGPTNVLTGATGA 151 Query: 154 HPGDIDALDTTLRMNNSIVYTLPTLGGLQAGIQYGMGEQAGSAANGSSVSAALRYDYQAF 213 HPGDIDALDTTLRMNNSI YTLPTLGGLQAG+QYGMGEQAGSAANGSSVSAALRYDYQAF Sbjct: 152 HPGDIDALDTTLRMNNSITYTLPTLGGLQAGVQYGMGEQAGSAANGSSVSAALRYDYQAF 211 Query: 214 SWSAGYTRIKNLASGNSAGNFGNVGSFANNSPINAGYASADSTQLLATAARYTWGDLMMG 273 SWSAGYTR+KNLA+GN+AG+FGNVGSFANNSP+NAGYASADSTQLLATAARYT GDLM+G Sbjct: 212 SWSAGYTRLKNLANGNTAGSFGNVGSFANNSPVNAGYASADSTQLLATAARYTRGDLMLG 271 Query: 274 LNYSNVQYKPGALSAFTQTATFNTVGLIASYNVNAALTLAAGYSYTAEKARNGISSPAKY 333 LNYSNVQYK GALSAF+QTA FNT+GLI SYNV+ AL LAAGYSYTAEKARNGISSPAKY Sbjct: 272 LNYSNVQYKAGALSAFSQTAVFNTIGLIGSYNVSPALVLAAGYSYTAEKARNGISSPAKY 331 Query: 334 NQLSLEQVYALSKRTALYAIQAYQRANGQTLRVGSSGTSIVDAVAVVGDSQNGTPSNGRG 393 NQLSLE+VY+LSKRTALYAIQAYQRA+GQTLR G G+SIV+AVA VGDSQNGTPS+G G Sbjct: 332 NQLSLEEVYSLSKRTALYAIQAYQRASGQTLRAGGVGSSIVNAVASVGDSQNGTPSSGSG 391 Query: 394 QFVAMLGIRHSF 405 QFVAMLGIRHSF Sbjct: 392 QFVAMLGIRHSF 403 >gi|300310676|ref|YP_003774768.1| outer membrane protein (porin) signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 352 Score = 157 bits (398), Expect = 1e-39, Method: Compositional matrix adjust. Identities = 144/412 (34%), Positives = 184/412 (44%), Gaps = 81/412 (19%) Query: 15 LHPLYLCAALLGAGAAMPAWAQSAVTLYGTVDLGLAY-----SSNQGGASNTYMNSGALN 69 + L AA+L AG A A AQS+V++YG +DLGL Y S GGA M+SG Sbjct: 1 MKKTLLVAAML-AGGATTAHAQSSVSIYGLIDLGLTYYSSAPKSGGGGARLLRMDSGIAQ 59 Query: 70 ASKLGFMGSEDLGGGTSALFRLENGFSADTGAMSSGGVLFNRQSYVGLASTQWGQVTVGR 129 S++GF G+EDLGGG +A F LE GF AD G++ GG+LF RQS+VGL STQWG ++VGR Sbjct: 60 GSRIGFKGTEDLGGGMNAFFTLETGFGADDGSLGQGGLLFGRQSFVGLGSTQWGSLSVGR 119 Query: 130 QYTPYFQYVGG------LGPTGVLTGATGAHPGDIDALDTTL----RMNNSIVYTLPTLG 179 QY + +GG L P G A AL+ + R NNSI Y G Sbjct: 120 QY-DFMANIGGQYAMGALSPAGSFGWGLHADAAHGTALNNHIYAGDRTNNSIKYNSAKFG 178 Query: 180 GLQAGIQYGMGEQAGSAANGSSVSAALRYDYQAFSWSAGYTRIKNLASGNSAGNFGNVGS 239 G G G+GE AG+ G +VSA +YD FS + YT IK+ + GS Sbjct: 179 GFSFGAMVGLGETAGNNNAGRTVSATGQYDNGPFSGALAYTDIKD-----------STGS 227 Query: 240 FANNSPINAGYASADSTQLLATAARYTWGDLMMGLNYSNVQYKPGALSAFTQTATFNTVG 299 F ST++ ARY G + P TQ NT Sbjct: 228 F--------------STRIYGGGARYQIG-----------AFTP--FGVVTQVKNTNTSA 260 Query: 300 LIASYNVNA--ALT----LAAGYSYTAEKARNGISSPAKYNQLSLEQVYALSKRTALYAI 353 +Y + ALT LAA Y + +K G+ + L Y +SKRT LY Sbjct: 261 KATTYELGTVYALTPLWDLAAAYQF--QKRNQGVGNA---QALVATVDYKISKRTDLYVG 315 Query: 354 QAYQRANGQTLRVGSSGTSIVDAVAVVGDSQNGTPSNGRGQFVAMLGIRHSF 405 Y R G +A V G N Q LG+RH F Sbjct: 316 AVYDRDKG------------YNAYPVFGGGIQSATGN---QTALRLGMRHRF 352 >gi|300309527|ref|YP_003773619.1| outer membrane protein (porin) signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 390 Score = 136 bits (343), Expect = 3e-33, Method: Compositional matrix adjust. Identities = 132/393 (33%), Positives = 188/393 (47%), Gaps = 48/393 (12%) Query: 37 SAVTLYGTVDLGLAYSSN----QGGASNTY-MNSGALNASKLGFMGSEDLGGGTSALFRL 91 S+VT+YG VD G+ Y S GG + + +NSG + S++GF G+EDLGGG SA+F L Sbjct: 22 SSVTIYGIVDTGVVYQSKVATPTGGTGSKFSLNSGVIQGSRIGFKGTEDLGGGLSAVFNL 81 Query: 92 ENGFSADTGAMS---SGGVLFNRQSYVGLASTQWGQVTVGRQYTPYFQYVGGLGPTGVLT 148 E GFS DTGA+ + LF R+S VGLA +G V +GRQ T + + Sbjct: 82 EAGFSNDTGALDDSKTSNTLFRRKSVVGLAG-NFGSVLLGRQ-TDFADTISSYTSVQDFG 139 Query: 149 GATGAHPGDIDALDTTLRMNNSIVYTLPTLGGLQAGIQYGMGEQAGSAANGSSVSAALRY 208 G TGA ++D L+ T R NNSI YT L G + YG GE AG + G + +Y Sbjct: 140 GWTGAAGHNLDRLEGT-RTNNSISYTTANLNGFTGNLMYGFGETAGQTSAGQAFGVGGKY 198 Query: 209 DYQAFSWSAGYTRIKNLASGNSAGNFGNVGSFANNSPINAGYASADSTQLLATAARYTWG 268 D Y + K +G++ + + + N N + + ++L AA Y +G Sbjct: 199 DNGPLGLGINYYQSK---AGSTPADASLLAATGTNQFTNGTNNGSTAQKVLNVAASYQFG 255 Query: 269 DLMMGLNYSNVQYKPGALSAFT-----QTATFNTVGLIAS-----------YNVNAALTL 312 + N+S V+ + T AT + L AS Y+++ +L L Sbjct: 256 PARVYGNWSRVKQDLNTQANLTAAGVGSLATISNRTLAASNKADIYEIGTAYSLSPSLKL 315 Query: 313 AAGYSYTAEKARNGISSPAKYNQLSLEQVYALSKRTALYAIQAYQRANGQTLRVGSSGTS 372 A +T + +G+S AK Q+SL Y LSKRT LYA AY +A + + G Sbjct: 316 LAAVDHTRAQF-DGVSGKAKLTQVSLGTDYWLSKRTDLYAFLAYSKAT----DLNNPG-- 368 Query: 373 IVDAVAVVGDSQNGTPSNGRGQFVAMLGIRHSF 405 V DS +GT N Q +GIRH F Sbjct: 369 -------VADS-SGTDGN---QGAVAVGIRHKF 390 >gi|300310663|ref|YP_003774755.1| outer membrane porin, OmpC family protein [Herbaspirillum seropedicae SmR1] Length = 346 Score = 125 bits (315), Expect = 4e-30, Method: Compositional matrix adjust. Identities = 130/389 (33%), Positives = 187/389 (48%), Gaps = 55/389 (14%) Query: 21 CAALLGAGAAMPAWAQSAVTLYGTVDLGLAYSSNQGGASNTYMNSGALNASKLGFMGSED 80 A+LL AG A+ AQS VTLYG +D + Y++ G S ++SG AS++GF GSED Sbjct: 9 VASLLCAGGAL---AQSNVTLYGVIDTYMGYTNATGKGSVASLDSGGYQASRVGFKGSED 65 Query: 81 LGGGTSALFRLENGFSADTGAMSSGGVLFNRQSYVGLASTQWGQVTVGRQYTPYFQYVGG 140 LGGG A F++ENGF++D+GAM LFNRQS+VGL + + G++ +GRQ +P F + Sbjct: 66 LGGGLRANFQMENGFASDSGAMHDSTRLFNRQSWVGLGN-ELGELRLGRQNSPGFLMIAR 124 Query: 141 LGPTGVLTGAT-GAHPGDIDALDTTLRMNNSIVYTLPTLGGLQAGIQYGMGEQAGSAANG 199 L GAT + ++ A T R +N I Y P + G + YG+GEQ + NG Sbjct: 125 LD---AFAGATYASFLNNVSAY--TPRYDNVIGYLSPVMRGFRVQAYYGLGEQT-APRNG 178 Query: 200 SSVSAALRYDYQAFSWSAGYTRIKNLASGNSAGNFGNVGSFANNSPINAGYASADSTQLL 259 S +A L +Y++ G V S A NS + D+ + Sbjct: 179 LS-TAMLAGEYESGPLYLG------------------VSSSAQNS-------ANDNITIR 212 Query: 260 ATAA--RYTWGDLMMGLNYSNVQYKPGALSAFTQTATFNTVGLIASYNVNAALTLAAGYS 317 +T A Y +G + L Y A SA T + ++ L A+Y + TL AGY Sbjct: 213 STFAGGAYDYGSGKVFLGYYRGNNLGAAASANTPGSYYSAYSLSANYRLTGQATLGAGYG 272 Query: 318 YTAEKARNGISSPAKYNQLSLEQVYALSKRTALYAIQAY-QRANGQTLRVGSSGTSIVDA 376 + A++ + Q SL Y LS+RT LYA A+ NG + + + I Sbjct: 273 W----AKDSTGAGRNARQFSLIGTYDLSRRTMLYATYAHLANNNGASFSL-AGAAPITKN 327 Query: 377 VAVVGDSQNGTPSNGRGQFVAMLGIRHSF 405 V G + NG +GIRH F Sbjct: 328 APVSGGTVNGV----------QVGIRHLF 346 >gi|300313813|ref|YP_003777905.1| transmembrane outer membrane porin signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 354 Score = 125 bits (314), Expect = 6e-30, Method: Compositional matrix adjust. Identities = 131/384 (34%), Positives = 167/384 (43%), Gaps = 63/384 (16%) Query: 35 AQSAVTLYGTVDLGLAYSSN---QGGASNTYMNSGALNASKLGFMGSEDLGGGTSALFRL 91 AQS+VT+YG VD G+ Y +N G S T M SGA N S++GF G+EDLGGG ALF+L Sbjct: 21 AQSSVTIYGLVDTGVEYLNNAGPNGAGSVTRMTSGATNTSRIGFRGTEDLGGGLKALFQL 80 Query: 92 ENGFSADTGAMS-SGGVLFNRQSYVGLASTQWGQVTVGRQYTPYFQYVGGLGPTG----- 145 ENGF D G+ LFNRQS VGL +G+V GR Y+ + ++G P G Sbjct: 81 ENGFKLDNGSFDGDANQLFNRQSTVGLEGG-FGRVVAGRSYSTTYDFLGPFDPMGYSANY 139 Query: 146 ---VLTGATGAHPGDIDALDTTLRMNNSIVYTLPTLGGLQAGIQYGMGEQAGSAANGSSV 202 GATG D + T + +++V G++ G YG GE AG NG+ Sbjct: 140 SWATTAGATGNRK---DGMPTGV---SNLVKYQGEFSGVKIGAMYGFGEVAGETRNGAKY 193 Query: 203 SAALRYDYQAFSWSAGYTRIKNLASGNSAGNFGNVGSFANNSPINAGYASADSTQLLATA 262 L + FS A Y R N + A N+P Y A S L A Sbjct: 194 GVGLGWGTGPFSVVATYDR--------------NNSATATNTP----YDRATSAHLAAGY 235 Query: 263 ARYTWGDLMMGLNYSNVQYKPGALSAFTQTATFNTVGLIASYNVNAALTLAAGYSYTAEK 322 +G Y GA + F G A+Y A+TL Y K Sbjct: 236 QPSEAWKFNLGYRYYKKSLATGAADL---RSDFFWGG--AAYKFTPAMTLIGAIYYQNIK 290 Query: 323 ARNGISSPAKYNQLSLEQVYALSKRTALYAIQAYQRA-NGQTLRVGSSGTSIVDAVAVVG 381 + P Y SL YA+SKRT LY AY +A NGQ + G S DA Sbjct: 291 NVANDADPIMY---SLRLKYAMSKRTDLYLSTAYAKAKNGQLV-----GLSRDDA----- 337 Query: 382 DSQNGTPSNGRGQFVAMLGIRHSF 405 G QF LG++H F Sbjct: 338 -------GYGSSQFGMTLGMQHRF 354 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 0.313 0.128 0.369 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: 1,139,811 Number of extensions: 43489 Number of successful extensions: 175 Number of sequences better than 1.0e-08: 14 Number of HSP's gapped: 135 Number of HSP's successfully gapped: 14 Length of query: 405 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 318 Effective length of database: 1,207,925 Effective search space: 384120150 Effective search space used: 384120150 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: 132 (55.5 bits)