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= 0178.0061.p (362 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309967|ref|YP_003774059.1| permease [Herbaspirillum serope... 491 e-140 gi|300312358|ref|YP_003776450.1| hypothetical protein Hsero_3054... 75 8e-15 gi|300309868|ref|YP_003773960.1| membrane transport protein [Her... 55 8e-09 >gi|300309967|ref|YP_003774059.1| permease [Herbaspirillum seropedicae SmR1] Length = 360 Score = 491 bits (1263), Expect = e-140, Method: Compositional matrix adjust. Identities = 264/359 (73%), Positives = 316/359 (88%) Query: 1 MPFSLTDEQKQSLLWLTLGLLLVGLLILLGPMLTPFVTAAILAYALNPGVDWLARRRIGP 60 MPFSL++EQKQ+L+WL +G LL+ LLI LGPML+PFV A I+ YALNPGVDW+A RR+GP Sbjct: 1 MPFSLSEEQKQNLVWLIVGFLLLALLIALGPMLSPFVAAGIIGYALNPGVDWIASRRLGP 60 Query: 61 FLLPRVMAVLIVILLLVLAGLALILIVVPVLVKEIPLLQQQIPNFLDKLNAKVAPRLSEF 120 +PR +AV I++LLL+LAGLAL+LIVVP+++++IPLLQ Q+P LDKLNA V+PRL + Sbjct: 61 VRVPRFVAVTIMVLLLILAGLALVLIVVPLVLRQIPLLQAQVPPLLDKLNAFVSPRLHQL 120 Query: 121 GIHVRLDITGIKRILTQQLATSGDEIWASVLASAKIGGTALLTWAANLLFIPMVLFYLLQ 180 GI VRLD+ GIK +LTQQ++TS DE+W SVLASAK+GGTALLTW ANLLF+PMVLFYLLQ Sbjct: 121 GIDVRLDLAGIKSLLTQQISTSSDEVWTSVLASAKVGGTALLTWLANLLFVPMVLFYLLQ 180 Query: 181 DWHPFIKRLRGMIPRRWVGKISAMTEEVDDLLAQYLRGQLLVMLILATYYSVALAIAGFD 240 DWH FIKR++ +IPRRW G+I+ M EVD LL QYLRGQLLVML+LA YYSVAL AGFD Sbjct: 181 DWHQFIKRMQILIPRRWAGRINTMAAEVDGLLGQYLRGQLLVMLVLAVYYSVALTAAGFD 240 Query: 241 IALPVGILTGLLVFIPYVGFGLGLVLALIAAVLQFTGLYGLVAVAIIYGIGQVLESFILT 300 ALPVG+LTGLLVFIPYVGFGLGLVLA++AA+LQF G GL+ VA+IYG+GQVLESFILT Sbjct: 241 SALPVGVLTGLLVFIPYVGFGLGLVLAILAAILQFDGAIGLLWVALIYGVGQVLESFILT 300 Query: 301 PQLVGERIGLHPLMVIFALLAFGQLFGFVGVLLALPASAIMSVVVRHLRQHYLSSSFYN 359 P+LVGERIGLHPL+VIFALLAFGQLFGFVGVLLALPASAI+SV+ H+R+ YL+S+FYN Sbjct: 301 PKLVGERIGLHPLVVIFALLAFGQLFGFVGVLLALPASAIVSVIALHVRREYLASNFYN 359 >gi|300312358|ref|YP_003776450.1| hypothetical protein Hsero_3054 [Herbaspirillum seropedicae SmR1] Length = 374 Score = 75.1 bits (183), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 85/313 (27%), Positives = 152/313 (48%), Gaps = 18/313 (5%) Query: 37 VTAAILAYALNPGVDWLARRRIGPFLLPRVMAVLIVILLLVLAGLALILIVVPVLVKEIP 96 V A +Y + P V+ + R R P +PR +++ +V +L +A +A + + ++E Sbjct: 36 VFAVFFSYLVYPLVELIERVR--PPRVPRTVSIALV-FVLAIAIVATVATIFGARIQEEA 92 Query: 97 L-LQQQIPNFLDKLNAKVAPRLSEFGIHVRLDITGIKRILTQQLATSGDEIWASVLASAK 155 L L +Q+P L +A L F +R I G R QLA D+ + AK Sbjct: 93 LRLSEQLPALLRSNDAVSRLPLPGFAEPLRARILGFVR---DQLAAGTDQ----AMPLAK 145 Query: 156 IGGTALLTWAANLLF---IPMVLFYLLQDWHPFIKRLRGMIPRRWVGKISAMTEEVDDLL 212 G ++ A+NL++ +P++ F L+++ + + + R + ++D LL Sbjct: 146 QFGVGVMHAASNLIYLVLVPVISFLLIKEAPAMREEMLSWMSRANRKLWDGIVTDLDVLL 205 Query: 213 AQYLRGQLLVMLILATYYSVALAIAGFDIALPVGILTGLLVFIPYVGFGLGLVLALIAAV 272 ++Y+R L + + YS+A ++ G A+ + L +L FIP+ G AL+ A Sbjct: 206 SRYVRALLFLSVATFVAYSIAFSLMGVPYAMLLAGLAAVLEFIPFAGPLAASAAALVVAG 265 Query: 273 LQ-FTGLYGLVAVAIIYGIGQVLESFILTPQLVGERIGLHPLMVIFALLAFGQLFGFVGV 331 + L LV + Y +V + ++L P L+ E + + PLMVI LLA QL G G+ Sbjct: 266 FSAYDHLLWLVGFIVAY---RVFQDYVLNPYLMSEGVEVSPLMVILGLLAGDQLGGVAGI 322 Query: 332 LLALPASAIMSVV 344 L++P A + ++ Sbjct: 323 FLSVPVMAALKII 335 >gi|300309868|ref|YP_003773960.1| membrane transport protein [Herbaspirillum seropedicae SmR1] Length = 626 Score = 55.5 bits (132), Expect = 8e-09, Method: Compositional matrix adjust. Identities = 42/138 (30%), Positives = 73/138 (52%), Gaps = 2/138 (1%) Query: 212 LAQYLRGQLLVMLILATYYSVALAIAGFDIALPVGILTGLLVFIPYVG-FGLGLVLALIA 270 ++++ Q LV L LA G A+ G L G+L F+PY+G G+++A+ Sbjct: 224 VSRFFFSQFLVNLAFGLIMGAVLAAGGVPHAVLWGTLAGVLRFVPYLGALASGVMIAIFI 283 Query: 271 AVLQFTGLYGLVAVAIIYGIGQVLESFILTPQLVGERIGLHPLMVIFALLAFGQLFGFVG 330 A + G + ++ YG +V+ + + P++ G GL PL VI + L +G L+G +G Sbjct: 284 AAID-PGWWLALSFLAFYGCLEVIVANFIEPRIYGHSSGLSPLAVIVSALFWGSLWGPIG 342 Query: 331 VLLALPASAIMSVVVRHL 348 +LL+ P + + V RH+ Sbjct: 343 LLLSTPLTLCLVVAGRHV 360 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 0.331 0.147 0.434 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: 831,303 Number of extensions: 27568 Number of successful extensions: 168 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 166 Number of HSP's successfully gapped: 3 Length of query: 362 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 276 Effective length of database: 1,212,660 Effective search space: 334694160 Effective search space used: 334694160 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.8 bits) S2: 131 (55.1 bits)