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= 0028.0287.p (450 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311081|ref|YP_003775173.1| high-affinity gluconate transpo... 871 0.0 gi|300310424|ref|YP_003774516.1| high-affinity gluconate permeas... 469 e-133 gi|300311416|ref|YP_003775508.1| gluconate transporter family pr... 311 8e-86 >gi|300311081|ref|YP_003775173.1| high-affinity gluconate transporter (GNT-III system) transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 450 Score = 871 bits (2250), Expect = 0.0, Method: Compositional matrix adjust. Identities = 448/450 (99%), Positives = 448/450 (99%) Query: 1 MEAVQGSALLVYALVAVIALIVLIAKFKMNPFIVLIVVSLVLGLAVGMPMGNIVKAFETG 60 MEAVQGSALLVYALVAVIALIVLIAKFKMNPFIVLIVVSLVLGLAVGMPMGNIVKAFETG Sbjct: 1 MEAVQGSALLVYALVAVIALIVLIAKFKMNPFIVLIVVSLVLGLAVGMPMGNIVKAFETG 60 Query: 61 VGNALGHIALVVGLGTMLGKMMAESGGAERIANTMIKAFGEKNVHWAMMTVAFIVGLPVF 120 VGNALGHIALVVGLGTMLGKMMAESGGAERIANTMIKAFGEKNVHWAMMTVAFIVGLPVF Sbjct: 61 VGNALGHIALVVGLGTMLGKMMAESGGAERIANTMIKAFGEKNVHWAMMTVAFIVGLPVF 120 Query: 121 FEVGFVLLVPIAFNVAKRTGTNMVLVGIPMVAGLSVVHGLIPPHPAALLAVTAYSADIGR 180 FEVGFVLLVPIAFNVAKRTGTNMVLVGIPMVAGLSVVHGLIPPHPAALLAVTAYSADIGR Sbjct: 121 FEVGFVLLVPIAFNVAKRTGTNMVLVGIPMVAGLSVVHGLIPPHPAALLAVTAYSADIGR 180 Query: 181 TILYALIVGIPTAIIAGPIFGKLISKVVIPNPDNPLISQFVDESKKDRELPGFGITLFTI 240 TILYALIVGIPTAIIAGPIFGKLISKVVIPNPDNPLISQFVDE KKDRELPGFGITLFTI Sbjct: 181 TILYALIVGIPTAIIAGPIFGKLISKVVIPNPDNPLISQFVDEGKKDRELPGFGITLFTI 240 Query: 241 LLPVALMLIGSWADLFFAPKTFANDFLRLIGNSVIALLIATLVSFWTFGRARGFGADQIL 300 LLPVALMLIGSWADLFFAPKTFANDFLRLIGNSVIALLIATLVSFWTFGRARGFGADQIL Sbjct: 241 LLPVALMLIGSWADLFFAPKTFANDFLRLIGNSVIALLIATLVSFWTFGRARGFGADQIL 300 Query: 301 KFTNECLAPIAGITLVVGAGAGFGRILMDGGVSKAIVGIATDAHLSPLILGWFVAALIRV 360 KFTNECLAPIA ITLVVGAGAGFGRILMDGGVSKAIVGIATDAHLSPLILGWFVAALIRV Sbjct: 301 KFTNECLAPIASITLVVGAGAGFGRILMDGGVSKAIVGIATDAHLSPLILGWFVAALIRV 360 Query: 361 ATGSATVAMTTACGIVAPIVSTVGGVRPELMVLATGAGSLILSHVNDGGFWLVKEYFNMT 420 ATGSATVAMTTACGIVAPIVSTVGGVRPELMVLATGAGSLILSHVNDGGFWLVKEYFNMT Sbjct: 361 ATGSATVAMTTACGIVAPIVSTVGGVRPELMVLATGAGSLILSHVNDGGFWLVKEYFNMT 420 Query: 421 VPQTFKTWTVMETLVSVLALLFTLALATVV 450 VPQTFKTWTVMETLVSVLALLFTLALATVV Sbjct: 421 VPQTFKTWTVMETLVSVLALLFTLALATVV 450 >gi|300310424|ref|YP_003774516.1| high-affinity gluconate permease [Herbaspirillum seropedicae SmR1] Length = 450 Score = 469 bits (1207), Expect = e-133, Method: Compositional matrix adjust. Identities = 246/446 (55%), Positives = 330/446 (73%), Gaps = 1/446 (0%) Query: 5 QGSALLVYALVAVIALIVLIAKFKMNPFIVLIVVSLVLGLAVGMPMGNIVKAFETGVGNA 64 + LL A++A++ALI++I + +++PFI L + S +LGL GMP+ IVK+F+ G G Sbjct: 6 HDATLLFNAVIAILALILMITRLRIHPFIALTITSGLLGLISGMPLPKIVKSFQDGFGGV 65 Query: 65 LGHIALVVGLGTMLGKMMAESGGAERIANTMIKAFGEKNVHWAMMTVAFIVGLPVFFEVG 124 LG + +V+GLGTMLGK+MAESGGA++IA T+++AFG + VHWAMM AF+VG+P+FFE+G Sbjct: 66 LGFVGIVLGLGTMLGKLMAESGGADQIAQTLVRAFGRERVHWAMMMGAFLVGIPLFFEIG 125 Query: 125 FVLLVPIAFNVAKRTGTNMVLVGIPMVAGLSVVHGLIPPHPAALLAVTAYSADIGRTILY 184 FVLL+P+ F VA+R+G + +G+PM+A LSV+HGL+PPHP LLA+ + ADIG+TI Y Sbjct: 126 FVLLIPLVFIVARRSGVPLFKIGMPMLASLSVMHGLVPPHPGPLLAIGIFGADIGKTIFY 185 Query: 185 ALIVGIPTAIIAGPIFGKLISKVVIPNPDNPLISQFVDESKKDRELPGFGITLFTILLPV 244 L+VG+PT IIAGP+FG IS+ V P L++Q V E + + LPGF TL T+L PV Sbjct: 186 GLLVGLPTVIIAGPMFGAFISRYVDIKPSEELMAQLVREPQTTK-LPGFATTLITVLAPV 244 Query: 245 ALMLIGSWADLFFAPKTFANDFLRLIGNSVIALLIATLVSFWTFGRARGFGADQILKFTN 304 LML+ + D+ D + IGN ++ALL A L++ WTFG ARGF Q+LKF + Sbjct: 245 FLMLLKTLVDVTLPEGHAMRDLMDFIGNPIVALLAALLLAIWTFGIARGFTRQQVLKFVD 304 Query: 305 ECLAPIAGITLVVGAGAGFGRILMDGGVSKAIVGIATDAHLSPLILGWFVAALIRVATGS 364 + LAP A I L++GAG GF ++L++ GV AI +A A +SPL+L WFVA +IRVATGS Sbjct: 305 QSLAPTAAIVLIIGAGGGFKQMLVNSGVGTAIGQLAVHAQISPLLLAWFVAGVIRVATGS 364 Query: 365 ATVAMTTACGIVAPIVSTVGGVRPELMVLATGAGSLILSHVNDGGFWLVKEYFNMTVPQT 424 ATVA T GIVAP+V+ + G EL+VLATGAGSLILSHVND GFWLVKEYFNM+V +T Sbjct: 365 ATVATITGAGIVAPLVALIPGTNKELLVLATGAGSLILSHVNDAGFWLVKEYFNMSVGET 424 Query: 425 FKTWTVMETLVSVLALLFTLALATVV 450 FKTWTVMETL+SV+A++F + L VV Sbjct: 425 FKTWTVMETLISVVAIIFIMLLNLVV 450 >gi|300311416|ref|YP_003775508.1| gluconate transporter family protein [Herbaspirillum seropedicae SmR1] Length = 456 Score = 311 bits (796), Expect = 8e-86, Method: Compositional matrix adjust. Identities = 179/428 (41%), Positives = 263/428 (61%), Gaps = 4/428 (0%) Query: 20 LIVLIAKFKMNPFIVLIVVSLVLGLAVGMPMGNIVKAFETGVGNALGHIALVVGLGTMLG 79 ++VLI+ + PF+ +++ + V G+ G+P+ +I KAF G G+ LG +++ LG MLG Sbjct: 27 IVVLISFLSIAPFLSILIGTFVAGIGAGLPLEDIAKAFSKGAGSLLGEAGIIIALGAMLG 86 Query: 80 KMMAESGGAERIANTMIKAFGEKNVHWAMMTVAFIVGLPVFFEVGFVLLVPIAFNVAKRT 139 +MAESG A+RI NT+++ + W M VA +VGLP+FFEVG V++ PI F +A+R+ Sbjct: 87 ALMAESGAADRIVNTLLRYARGSFIPWMMALVALVVGLPLFFEVGLVMMAPIIFVMARRS 146 Query: 140 GTNMVLVGIPMVAGLSVVHGLIPPHPAALLAVTAYSADIGRTILYALIVGIPTAIIAGPI 199 ++ V IP +AG++ +H L+PPHP L+AV+A AD+G T+L IV IP IIAGP+ Sbjct: 147 ELPIMRVAIPALAGMTTLHALLPPHPGPLIAVSALHADLGTTMLLGFIVAIPAVIIAGPL 206 Query: 200 FGKLIS-KVVIPNPDNPLISQFVDESKKDRELPGFGITLFTILLPVALMLIGSWADLFFA 258 +G I+ ++ + PD I + +++ + P F + L TILLPV LML + A ++ Sbjct: 207 YGNFIAPRLNLAEPDQ--IGKLFS-AREGQSQPSFLVALVTILLPVVLMLGRTVARIWVT 263 Query: 259 PKTFANDFLRLIGNSVIALLIATLVSFWTFGRARGFGADQILKFTNECLAPIAGITLVVG 318 PKT + L G +IAL + L + G +G ++ L PIAG+ L +G Sbjct: 264 PKTELFEMLNFFGEPIIALTVTVLFAVVVLGWGQGSSRFEVGATLRRALPPIAGLLLTIG 323 Query: 319 AGAGFGRILMDGGVSKAIVGIATDAHLSPLILGWFVAALIRVATGSATVAMTTACGIVAP 378 AG G + L+ G+S I IA H+ ++L W +A +R ATGSATVA T GIVAP Sbjct: 324 AGGGLKQTLLSAGISDTITKIADGTHMPLILLAWIIAVALRQATGSATVATTATAGIVAP 383 Query: 379 IVSTVGGVRPELMVLATGAGSLILSHVNDGGFWLVKEYFNMTVPQTFKTWTVMETLVSVL 438 +V+ + LM LA GAGS+ HVND GFW+VKEYF + + QT TW+V++TLVSV+ Sbjct: 384 LVAGLSATHNSLMALAIGAGSVFFCHVNDAGFWMVKEYFGLNLKQTLATWSVIQTLVSVI 443 Query: 439 ALLFTLAL 446 L TL L Sbjct: 444 GLGMTLVL 451 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 0.327 0.142 0.419 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: 1,312,723 Number of extensions: 59534 Number of successful extensions: 308 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 304 Number of HSP's successfully gapped: 3 Length of query: 450 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 362 Effective length of database: 1,203,190 Effective search space: 435554780 Effective search space used: 435554780 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 (21.7 bits) S2: 132 (55.5 bits)