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= 0002.0208.p (221 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309866|ref|YP_003773958.1| major facilitator superfamily p... 410 e-116 gi|300313744|ref|YP_003777836.1| D-glucarate permease [Herbaspir... 202 2e-53 gi|300312451|ref|YP_003776543.1| D-galactonate transporter prote... 70 1e-13 gi|300313658|ref|YP_003777750.1| transport transmembrane protein... 56 3e-09 >gi|300309866|ref|YP_003773958.1| major facilitator superfamily protein [Herbaspirillum seropedicae SmR1] Length = 484 Score = 410 bits (1055), Expect = e-116, Method: Compositional matrix adjust. Identities = 214/221 (96%), Positives = 218/221 (98%) Query: 1 VAPMPWLDGINRTRRVPRLETLRQVFTSWNVIGVAIGYGCMIGISNIFMSWIPTYLVTVK 60 V PMPWLDGINRTRRVPRLETLRQVFTSWNVIGVAIGYGCMIGISNIFMSWIPTYLVTVK Sbjct: 264 VTPMPWLDGINRTRRVPRLETLRQVFTSWNVIGVAIGYGCMIGISNIFMSWIPTYLVTVK 323 Query: 61 GFASVKMGFLASAPFIGAVAGNMLGGVISDRLLGGRRKPMMLLGALGTAVMTLMLVEAPD 120 GFASVKMGFLASAPFIGAVAGNMLGGVISDRLLGGRRKPMMLLGALGTA+MTL+LVEAPD Sbjct: 324 GFASVKMGFLASAPFIGAVAGNMLGGVISDRLLGGRRKPMMLLGALGTALMTLLLVEAPD 383 Query: 121 SVLYLGAMLMLSGLMLGIGFAGYSAYPMGLATKSTYPTAFGIVNSLGQIGGACAPLAVGM 180 SVLYLGAMLMLSGLMLGIGFAGYSAYPMGLATK+TYP AFGIVNSLGQIGGACAPLAVGM Sbjct: 384 SVLYLGAMLMLSGLMLGIGFAGYSAYPMGLATKATYPAAFGIVNSLGQIGGACAPLAVGM 443 Query: 181 LLDRYDWTSVFLYMVGTSLLCLVLLLSVVEPITVRKAGEEA 221 LLDRYDW+SVFLYMVGTSLLCL LLLSVVEPITVRKAGEEA Sbjct: 444 LLDRYDWSSVFLYMVGTSLLCLALLLSVVEPITVRKAGEEA 484 >gi|300313744|ref|YP_003777836.1| D-glucarate permease [Herbaspirillum seropedicae SmR1] Length = 441 Score = 202 bits (513), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 99/206 (48%), Positives = 147/206 (71%) Query: 7 LDGINRTRRVPRLETLRQVFTSWNVIGVAIGYGCMIGISNIFMSWIPTYLVTVKGFASVK 66 LD I R +V +ET + VF SWN++G A+GY M I N+ ++WIPTYL++VKG++ Sbjct: 234 LDRIIRRSKVATIETTKGVFCSWNIMGAALGYFFMTAIVNVLLAWIPTYLISVKGYSIAN 293 Query: 67 MGFLASAPFIGAVAGNMLGGVISDRLLGGRRKPMMLLGALGTAVMTLMLVEAPDSVLYLG 126 MG +A+AP++GAV GN+LGG ++DR L RRKP M++ A T +M ++L+ +P L G Sbjct: 294 MGMVAAAPWVGAVIGNLLGGAMTDRWLEKRRKPAMMMSAFFTTIMMVILINSPADPLLYG 353 Query: 127 AMLMLSGLMLGIGFAGYSAYPMGLATKSTYPTAFGIVNSLGQIGGACAPLAVGMLLDRYD 186 A+L+L+G++L IG++ Y YPMG+ +K YP A +VN+LGQ+GGACAPLA G LLD Y Sbjct: 354 ALLLLTGILLNIGYSTYMVYPMGMTSKKVYPMACAMVNTLGQLGGACAPLAAGFLLDSYS 413 Query: 187 WTSVFLYMVGTSLLCLVLLLSVVEPI 212 W V+++M S+LC + +L++ EP+ Sbjct: 414 WNHVWIFMAVCSILCFITILTIREPV 439 >gi|300312451|ref|YP_003776543.1| D-galactonate transporter protein [Herbaspirillum seropedicae SmR1] Length = 439 Score = 70.1 bits (170), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 66/226 (29%), Positives = 108/226 (47%), Gaps = 33/226 (14%) Query: 7 LDGINRTRRVPRLE---TLRQVFTSWNVIGVAIGYGCMIGISNIFMSWIPTYLVTVKGFA 63 +D NR P + +RQ+ ++ ++GV IG C+ I+ F++W P YLV +G + Sbjct: 219 VDMDNRKVAAPSTKGRGYIRQLLSNRMLLGVYIGQYCINVITYFFLTWFPVYLVQERGMS 278 Query: 64 SVKMGFLASAPFIGAVAGNMLGGVISDRLLG-------GRRKPM---MLLGALGTAVMTL 113 +K GF+AS P + G ++GG+ISDRL+ R+ P+ MLL MT+ Sbjct: 279 ILKAGFVASIPAVCGFIGGVVGGLISDRLIKRGLSVTWARKIPIVGGMLLS------MTM 332 Query: 114 MLVEAPDSVLYLGAMLMLSGLMLGIGFAGYSAYPMGLA-TKSTYPTAF-----GIVNSLG 167 +L Y+ A M+ G+M + F G +G A T P G+ N G Sbjct: 333 ILCN------YVEAQWMVVGIM-ALAFFGKGVGALGWAVVADTAPKQIVGLSGGLFNMFG 385 Query: 168 QIGGACAPLAVGMLLDRYDWTSVFLYMVG-TSLLCLVLLLSVVEPI 212 + G P+ +G ++ S L VG +L+ ++ L +V+ I Sbjct: 386 NVAGITTPIVIGYIVKETGSFSGALVFVGINALVTVISYLVIVKEI 431 >gi|300313658|ref|YP_003777750.1| transport transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 404 Score = 55.8 bits (133), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 50/181 (27%), Positives = 87/181 (48%), Gaps = 5/181 (2%) Query: 29 WNVIGVAIGYGCMIGISNIFMSWIPTYLVTVKGFASVKMGFLASAPFIGAVAGNMLGGVI 88 W + VA+ +G I I+ +W+PTYL+TV+G +G L P+I A +GG + Sbjct: 216 WQI--VAVWFGLSI-INKGLDTWMPTYLMTVRGLNLKAVGLLLPLPYIMAGLSTAIGGWV 272 Query: 89 SDRLLGGRRKPMMLLGALGTAVMTLMLVEAPDSVLYLGAMLMLSGLMLGIGFAGYSAYPM 148 R GR K +++ +L TAV + A SV + A L+ A A P Sbjct: 273 MVRFFDGREKLLLIGSSLLTAVFVYCMYSAA-SVEGVIAWQCLAYFFKSFVLATCIALPT 331 Query: 149 GLATKSTYPTAFGIVNSLGQIGGACAPLAVGMLLDRY-DWTSVFLYMVGTSLLCLVLLLS 207 + + G+VN GQ+ G +PL +G L+ + ++ F +++G + +++ L Sbjct: 332 KMLQAQLVGSGVGMVNLGGQLAGFISPLVIGFLVSAFANYDYAFSFLIGAAFFSVLVSLF 391 Query: 208 V 208 + Sbjct: 392 I 392 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 0.326 0.142 0.432 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: 656,820 Number of extensions: 25018 Number of successful extensions: 199 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 204 Number of HSP's successfully gapped: 6 Length of query: 221 Length of database: 1,619,870 Length adjustment: 82 Effective length of query: 139 Effective length of database: 1,231,600 Effective search space: 171192400 Effective search space used: 171192400 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 129 (54.3 bits)