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= 0008.0160.p (306 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... 85 6e-18 gi|300309527|ref|YP_003773619.1| outer membrane protein (porin) ... 73 3e-14 gi|300313545|ref|YP_003777637.1| porin precursor transmembrane p... 73 3e-14 gi|300310328|ref|YP_003774420.1| porin signal peptide protein [H... 72 6e-14 gi|300313580|ref|YP_003777672.1| outer membrane porin [Herbaspir... 69 4e-13 >gi|300313395|ref|YP_003777487.1| porin transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 403 Score = 85.1 bits (209), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 108/354 (30%), Positives = 162/354 (45%), Gaps = 63/354 (17%) Query: 3 SGNLQASRFGFRGAEDLGGGNSANFQLETGFSTDTGAGGGT-TLFNRGASVGLSSRSYGS 61 SG L AS+ G G EDLGGGN A F+LE GF+ DTGA LFNR + VGLSS+ YG Sbjct: 63 SGALAASKLGLTGTEDLGGGNMALFRLENGFNADTGAQSTAGVLFNRQSYVGLSSKDYGQ 122 Query: 62 IDAGLLYLPIYWVFLSSDVSTYGL-----ANPAAIMSLEHSSTLGTSGTGGFYPNALRYR 116 + G Y P Y+ ++ + T L A+P I +L+ + + N++ Y Sbjct: 123 VTVGRQYTP-YFQYVGALGPTNVLTGATGAHPGDIDALDTTLRMN---------NSITYT 172 Query: 117 TPVLFGGLTSEIGYSFGAENVGVQSEAGRNIGANVQYARDRYTLGYGYNRYR-------- 168 P L GGL + + Y G E G + G ++ A ++Y ++ GY R + Sbjct: 173 LPTL-GGLQAGVQYGMG-EQAGSAAN-GSSVSAALRYDYQAFSWSAGYTRLKNLANGNTA 229 Query: 169 -------YYAAASPA---VASSQITQVV--AATYKIGSNVVGANYLHST-RSDATGWFSS 215 +A SP AS+ TQ++ AA Y G ++G NY + ++ A FS Sbjct: 230 GSFGNVGSFANNSPVNAGYASADSTQLLATAARYTRGDLMLGLNYSNVQYKAGALSAFSQ 289 Query: 216 AVMLNARIAVGQGDVE----LGA-----ARRLQNGDAHAMAYD---VGYVYFLSKRTQLY 263 + N +G +V L A A + +NG + Y+ + VY LSKRT LY Sbjct: 290 TAVFNTIGLIGSYNVSPALVLAAGYSYTAEKARNGISSPAKYNQLSLEEVYSLSKRTALY 349 Query: 264 TYATTIRNNSRSTQ----GFALLN-------SASATVSPGFSPWAITAGLRTSF 306 R + ++ + G +++N S + T S G + G+R SF Sbjct: 350 AIQAYQRASGQTLRAGGVGSSIVNAVASVGDSQNGTPSSGSGQFVAMLGIRHSF 403 >gi|300309527|ref|YP_003773619.1| outer membrane protein (porin) signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 390 Score = 73.2 bits (178), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 99/314 (31%), Positives = 135/314 (42%), Gaps = 64/314 (20%) Query: 3 SGNLQASRFGFRGAEDLGGGNSANFQLETGFSTDTGA----GGGTTLFNRGASVGLSSRS 58 SG +Q SR GF+G EDLGGG SA F LE GFS DTGA TLF R + VGL+ + Sbjct: 55 SGVIQGSRIGFKGTEDLGGGLSAVFNLEAGFSNDTGALDDSKTSNTLFRRKSVVGLAG-N 113 Query: 59 YGSIDAGLLYLPIYWVFLSSDVSTYGLANPAAIMSLEHSSTLGTSGTGGFYPNALRYRTP 118 +GS+ G + + V +G AA +L+ T+ N++ Y T Sbjct: 114 FGSVLLGRQTDFADTISSYTSVQDFGGWTGAAGHNLDRLEGTRTN-------NSISYTTA 166 Query: 119 VLFGGLTSEIGYSFGAENVGVQSEAGRNIGANVQYARDRYTLGYGYNRYRYYAAASPAVA 178 L G T + Y FG E G Q+ AG+ G +Y D LG G N Y+ A ++PA A Sbjct: 167 NL-NGFTGNLMYGFG-ETAG-QTSAGQAFGVGGKY--DNGPLGLGINYYQSKAGSTPADA 221 Query: 179 S-------------------SQITQVVAATYKIGSNVVGANYLHSTRS-------DATGW 212 S +Q VAA+Y+ G V N+ + A G Sbjct: 222 SLLAATGTNQFTNGTNNGSTAQKVLNVAASYQFGPARVYGNWSRVKQDLNTQANLTAAGV 281 Query: 213 FSSAVMLNARIAV-GQGDV-ELGAARRLQ-------------------NGDAHAMAYDVG 251 S A + N +A + D+ E+G A L +G A +G Sbjct: 282 GSLATISNRTLAASNKADIYEIGTAYSLSPSLKLLAAVDHTRAQFDGVSGKAKLTQVSLG 341 Query: 252 YVYFLSKRTQLYTY 265 Y+LSKRT LY + Sbjct: 342 TDYWLSKRTDLYAF 355 >gi|300313545|ref|YP_003777637.1| porin precursor transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 360 Score = 72.8 bits (177), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 94/309 (30%), Positives = 132/309 (42%), Gaps = 44/309 (14%) Query: 1 VASGNLQASRFGFRGAEDLGGGNSANFQLETGFSTDTGA---GGGTTLFNRGASVGLSSR 57 V SG + S GF+G EDLGGG A F L + F DTGA GG LF+R A+VGL+ Sbjct: 50 VGSGGMTTSWIGFKGIEDLGGGLRAEFALTSFFQADTGAYGRFGGDNLFSRDANVGLAG- 108 Query: 58 SYGSIDAGL----LYLPIYWVFLSSDVSTYGLANPAAIMSLEHSSTLGT------SGTGG 107 +G + G +LP D T+ +P + S G+ + Sbjct: 109 DFGRVSLGRGLAPSFLPTVLFNPFGDSFTF---SPLVLHVYTPSGNFGSRTWTQANAADS 165 Query: 108 FYPNALRYRTPVLFGGLTSEIGYSFGAENVGVQSEAG-RNIGANVQYARDRYTLGYGYNR 166 + N + Y TP FGGL + + Y FG V ++G +NIG N Y L Y Sbjct: 166 GWSNQVIYTTPK-FGGLQANVHYQFGE----VAGQSGKKNIGVNALYFNGGLALTGLYFD 220 Query: 167 YR---------YYAAASP-AVASSQITQVVAATYKIGSNVVGANYLHSTRSDATGWFSSA 216 + A SP + + Q T ++ ATY + Y +S + A + Sbjct: 221 AQVSNPNSGAAIIDATSPFSSITRQKTWMLGATYDFQVVKLYGTYQNSKDTTAGNPQAKD 280 Query: 217 VMLNARIA--VGQGDVELGAARR------LQNGDAHAMAYDVGYVYFLSKRTQLYTYATT 268 + + ++ VG G + G AR L GD VGY YF+SKRT LY Sbjct: 281 KLFSLGLSAPVGNGSILAGFARTKRTGDLLAGGDVSRNTTSVGYDYFMSKRTDLY---AI 337 Query: 269 IRNNSRSTQ 277 + N+ STQ Sbjct: 338 VMNDKISTQ 346 >gi|300310328|ref|YP_003774420.1| porin signal peptide protein [Herbaspirillum seropedicae SmR1] Length = 405 Score = 72.0 bits (175), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 62/165 (37%), Positives = 87/165 (52%), Gaps = 12/165 (7%) Query: 1 VASGNLQASRFGFRGAEDLGGGNSANFQLETGFSTDTG-AGGGTTLFNRGASVGLSSRSY 59 V SG ++ SR G +G+EDLGGG A F LE GF+ DTG AG G ++ R +VGLS ++ Sbjct: 54 VESGLVKGSRLGIKGSEDLGGGLKAVFTLENGFNVDTGEAGQGKLMWGRQTTVGLSG-NF 112 Query: 60 GSIDAGLLYLPIYWVFLSSDVSTYGLANPAAIMSLEHSSTLGTSGTGGFYPNALRYRTPV 119 G++ G P+ +D+ A + HS L + G N++RY +P Sbjct: 113 GTVLVGRQNDPL------NDIGGIASAGGFGVPGTVHSKGLDRT-DGQRLNNSIRYNSPN 165 Query: 120 LFGGLTSEIGYSFGAENVGVQSEAGRNIGANVQYARDRYTLGYGY 164 F GL+ Y FG E VG ++ GR+IG QY +LG GY Sbjct: 166 -FNGLSFSGIYGFG-EQVG-RAVGGRSIGLGSQYVNGPLSLGLGY 207 >gi|300313580|ref|YP_003777672.1| outer membrane porin [Herbaspirillum seropedicae SmR1] Length = 387 Score = 68.9 bits (167), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 106/354 (29%), Positives = 151/354 (42%), Gaps = 71/354 (20%) Query: 1 VASGNLQASRFGFRGAEDLGGGNSANFQLETGFSTDTGAGGG------TTLFNRGASVGL 54 + SG +Q SR GF+G EDLGGG SA F LETGF++D G G + LF R + VGL Sbjct: 57 INSGVIQGSRIGFKGVEDLGGGLSAVFNLETGFTSDDGGLQGSDAVTSSNLFRRKSVVGL 116 Query: 55 SSRSYGSIDAGLLYLPIYWVFLSSDVSTY-GLANPAAIMSLEHSSTLGTSGTGGFYPNAL 113 S +G++ G + +S Y +A+ +++ SS GT N++ Sbjct: 117 SG-GFGTVLLG------RQTDFADTISAYTAVADFGGVVANSGSSLNRLQGT--RTNNSV 167 Query: 114 RYRTPVLFGGLTSEIGYSFGAENVGVQSEAGRNIGANVQYARDRYTLGYGYNRYRYYAAA 173 Y T L G T + Y FG E G ++ AG+ G +Y D LG G N Y+ A + Sbjct: 168 SYTTANL-SGFTGNLIYGFG-EQAG-KTSAGQAYGIGGKY--DNGPLGLGINYYQSKAGS 222 Query: 174 SPA------------------VASSQITQV--VAATYKIGSNVVGANYLHSTRSDATG-- 211 +P+ VA + + V A+Y+ G V ANY + D G Sbjct: 223 TPSDTSLIPAAGATNANTALGVAGNTALKSLNVVASYQFGPARVYANY-SRVKQDLKGTP 281 Query: 212 WFSSAVMLNARIAVGQGDVELGAARRLQ-------------------NGDAHAMAYDVGY 252 ++A + NA+ A E+G A L N +G Sbjct: 282 TVATATLANAQKA---DTYEIGTAYSLSPSLKLLAAVDHSRATFNGVNTKGKLTQISLGA 338 Query: 253 VYFLSKRTQLYTYATTIRNNSRSTQGFALLNSASATVSPGFSPWAITAGLRTSF 306 YFLSKRT LY + + +R + G + AT S S AI G+R F Sbjct: 339 DYFLSKRTDLYAFVSNMRASDIQNPGV----TGGATGSDA-SQTAIITGIRHKF 387 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 0.316 0.131 0.381 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: 876,760 Number of extensions: 34218 Number of successful extensions: 143 Number of sequences better than 1.0e-08: 14 Number of HSP's gapped: 126 Number of HSP's successfully gapped: 14 Length of query: 306 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 221 Effective length of database: 1,217,395 Effective search space: 269044295 Effective search space used: 269044295 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: 130 (54.7 bits)