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= 0001.2174.p (433 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311827|ref|YP_003775919.1| sugar permease of the major fac... 628 0.0 gi|300310790|ref|YP_003774882.1| major facilitator superfamily p... 587 e-169 gi|300312423|ref|YP_003776515.1| proline/betaine transporter pro... 293 2e-80 gi|300309575|ref|YP_003773667.1| proline/betaine transporter pro... 273 2e-74 gi|300309357|ref|YP_003773449.1| major facilitator superfamily (... 272 4e-74 >gi|300311827|ref|YP_003775919.1| sugar permease of the major facilitator superfamily protein [Herbaspirillum seropedicae SmR1] Length = 428 Score = 628 bits (1619), Expect = 0.0, Method: Compositional matrix adjust. Identities = 304/420 (72%), Positives = 357/420 (85%) Query: 10 SRAGAVLRVTSGNFLEQFDFFLFGFYATHISKVFFPASSEFASLMLTFAVFGAGFLMRPL 69 S+ VLRVTSGNF+E FDFFLFGFYATHISK FFP+ +EFASLMLTF FGAGFLMRPL Sbjct: 9 SKFSTVLRVTSGNFMEMFDFFLFGFYATHISKAFFPSDNEFASLMLTFMTFGAGFLMRPL 68 Query: 70 GAIILGAYIDEVGRRKGLIVTLSIMASGTILIACVPGYASIGLLAPLLVLAGRLLQGFSA 129 GAIILGAY+D VGRR+GLIVTL++MA GT+LIA VP YA+IG LAPLLVL GRLLQGFSA Sbjct: 69 GAIILGAYVDRVGRRQGLIVTLALMALGTMLIAFVPSYATIGALAPLLVLIGRLLQGFSA 128 Query: 130 GAELGGVSVYLAEMATPGRKGFYTAWQSASQQIAIVVAALMGYALNAWLDAAQIAAWGWR 189 G ELGGVSVYLAEMATPG KGFY +WQSASQQ+AI+VAA +GY L+ L A+++ WGWR Sbjct: 129 GVELGGVSVYLAEMATPGNKGFYVSWQSASQQVAIIVAAAIGYLLSTSLTPAEVSGWGWR 188 Query: 190 IPFFVGCLIVPFIFLLRRSLQETEAFQARAHRPALGEVYRTMLANWKTVIAGMLLVAMTT 249 IPFF+GCLIVP +F++RRSLQETE F R HRP+ G+++R+M+ NWK VIAGM+LV+MTT Sbjct: 189 IPFFIGCLIVPVLFVIRRSLQETEEFMRRKHRPSTGQIFRSMIENWKLVIAGMMLVSMTT 248 Query: 250 TTFYLITVYTPTFGRAVLKLSTQASLVVTLLVGLSNFCWLPIGGMVSDRIGRRPVLLAIT 309 +FYLITVYTPTFG+ VLKLST+ASL+VTL VGLSNF WLPI G +SDR+GRRP+L+ T Sbjct: 249 VSFYLITVYTPTFGKNVLKLSTEASLIVTLCVGLSNFIWLPIMGALSDRVGRRPLLVTFT 308 Query: 310 VLAILTAYPALSWLAAAPSVERMLLVLLWLSFFFGMYNGAMVAALTEIMPEQIRVAGFSL 369 VL ILTAYPA++WL S +ML+V LWLSF + YNGAMV ALTE+MP +R AGFSL Sbjct: 309 VLTILTAYPAVNWLVHDASFAKMLIVELWLSFLYASYNGAMVVALTEVMPADVRTAGFSL 368 Query: 370 AFSLATAVFGGFTPAISTWLIELTGDKAAPGLWLTFAALCGLLATLILYRGQAVAMRATA 429 A+SLATAVFGGFTPAI+T LIE T DKAAPG+W++ AA+CGL+ATLILYR +AV ATA Sbjct: 369 AYSLATAVFGGFTPAIATGLIEYTHDKAAPGIWMSTAAVCGLIATLILYRNKAVRQAATA 428 >gi|300310790|ref|YP_003774882.1| major facilitator superfamily permease [Herbaspirillum seropedicae SmR1] Length = 432 Score = 587 bits (1513), Expect = e-169, Method: Compositional matrix adjust. Identities = 286/423 (67%), Positives = 348/423 (82%) Query: 2 STHPHVRGSRAGAVLRVTSGNFLEQFDFFLFGFYATHISKVFFPASSEFASLMLTFAVFG 61 +T + + S+ VLRVTSGNFLE FDFFL+GFYA++ISK FFP+ +EF SL+LTF FG Sbjct: 3 TTTTNAKHSKLSTVLRVTSGNFLEMFDFFLYGFYASYISKTFFPSDNEFVSLILTFGTFG 62 Query: 62 AGFLMRPLGAIILGAYIDEVGRRKGLIVTLSIMASGTILIACVPGYASIGLLAPLLVLAG 121 AGFLMRPLGAIILG+YID VGRR+GLIVTL+IMA GT+LIA VPGYA+IG+ AP+LVL G Sbjct: 63 AGFLMRPLGAIILGSYIDRVGRRQGLIVTLAIMAIGTLLIAFVPGYATIGVAAPILVLTG 122 Query: 122 RLLQGFSAGAELGGVSVYLAEMATPGRKGFYTAWQSASQQIAIVVAALMGYALNAWLDAA 181 RLLQGFSAG ELGGVSVYLAEMATPG KGFY +WQSASQQ AI+ +AL+GY ++ L Sbjct: 123 RLLQGFSAGVELGGVSVYLAEMATPGNKGFYVSWQSASQQAAIMASALIGYLVSQSLSPV 182 Query: 182 QIAAWGWRIPFFVGCLIVPFIFLLRRSLQETEAFQARAHRPALGEVYRTMLANWKTVIAG 241 QI+ WGWRIPFF+GC+IVP IF++RRSLQET+ F AR P+ GE+ ++ NWK V+AG Sbjct: 183 QISDWGWRIPFFIGCMIVPAIFIIRRSLQETDEFLARKRHPSFGEIMSSIAQNWKIVVAG 242 Query: 242 MLLVAMTTTTFYLITVYTPTFGRAVLKLSTQASLVVTLLVGLSNFCWLPIGGMVSDRIGR 301 M++V MTT +FYLITVYTPTFG+ VLKLS SL+VT VGLSNFCWLPI G +SDR+GR Sbjct: 243 MMMVVMTTVSFYLITVYTPTFGKNVLKLSASDSLIVTFCVGLSNFCWLPIMGALSDRVGR 302 Query: 302 RPVLLAITVLAILTAYPALSWLAAAPSVERMLLVLLWLSFFFGMYNGAMVAALTEIMPEQ 361 RPVL+A T+L +LTAYP +SWL + S + +L+ LWLSF + YNGA V ALTE+MP Sbjct: 303 RPVLVAFTLLTLLTAYPVMSWLVSDISFKNLLITELWLSFLYASYNGAAVVALTEVMPAH 362 Query: 362 IRVAGFSLAFSLATAVFGGFTPAISTWLIELTGDKAAPGLWLTFAALCGLLATLILYRGQ 421 +R GFSLA+SLATA+FGGFTP +STWLIE +GDKAAPG W++FAA+CGLLATL+LYRG+ Sbjct: 363 VRTVGFSLAYSLATAIFGGFTPLVSTWLIETSGDKAAPGYWMSFAAVCGLLATLVLYRGK 422 Query: 422 AVA 424 + A Sbjct: 423 SAA 425 >gi|300312423|ref|YP_003776515.1| proline/betaine transporter protein [Herbaspirillum seropedicae SmR1] Length = 427 Score = 293 bits (750), Expect = 2e-80, Method: Compositional matrix adjust. Identities = 168/414 (40%), Positives = 242/414 (58%), Gaps = 9/414 (2%) Query: 3 THPHVRGSRAGAVLRVTSGNFLEQFDFFLFGFYATHISKVFFPASSEFASLMLTFAVFGA 62 THP R A++ + GN LE FD ++G +A I+K FFP + SL+LTFA FG Sbjct: 13 THPQARR----AIISSSIGNALEWFDILIYGAFAVVIAKQFFPTGDDSVSLLLTFATFGV 68 Query: 63 GFLMRPLGAIILGAYIDEVGRRKGLIVTLSIMASGTILIACVPGYASIGLLAPLLVLAGR 122 F MRPLGA++LGAY D GR+ L++++ +M GT +IA +P YASIGLLAP + G+ Sbjct: 69 SFFMRPLGAVVLGAYSDRAGRKAALMLSIMLMTVGTAMIAFMPSYASIGLLAPAGIALGK 128 Query: 123 LLQGFSAGAELGGVSVYLAEMATPGRKGFYTAWQSASQQIAIVVAALMGYALNAWLDAAQ 182 ++QGFSAG E G + +L E A P R+GF+++WQ ASQ I++++AAL G LN L Q Sbjct: 129 MIQGFSAGGEFGSSTAFLVEHA-PHRRGFFSSWQVASQGISLLLAALFGAVLNNMLTPEQ 187 Query: 183 IAAWGWRIPFFVGCLIVPFIFLLRRSLQETEAFQARAHRPALGEVYRTMLANWKT-VIAG 241 +A+WGWR+PF G LI P +RR L E F+ + + R A+ K ++ G Sbjct: 188 LASWGWRVPFIFGLLIAPAGIYIRRHLDEAPEFKESSEK--TNAPLRDTFAHQKMRLLIG 245 Query: 242 MLLVAMTTTTFYLITVYTPTFGRAVLKLSTQASLVVTLLVGLSNFCWLPIGGMVSDRIGR 301 V M T + YL ++Y PT+ L L +S + GL F P+ G +SD+IGR Sbjct: 246 AGSVIMATVSVYL-SLYIPTYAVKQLGLPAWSSFAAMSVAGLIMFIGSPLVGALSDKIGR 304 Query: 302 RPVLLAITVLAILTAYPALSWLAAAPSVERMLLVLLWLSFFFGMYNGAMVAALTEIMPEQ 361 P ++ + L I+ YP +L +P ++LL+ + MY AM A L +I P Sbjct: 305 TPFMITSSALYIVLTYPMFVFLTNSPGFLQLLLLQTVIGVLMTMYFAAMPALLADIFPVA 364 Query: 362 IRVAGFSLAFSLATAVFGGFTPAISTWLIELTGDKAAPGLWLTFAALCGLLATL 415 R G SLA+++A +FGGF I TWLI+ TGDK + ++ F A+ L+A+L Sbjct: 365 TRGTGMSLAYNIAVTIFGGFAGLIITWLIDFTGDKLSVSYFVIFGAVLSLIASL 418 >gi|300309575|ref|YP_003773667.1| proline/betaine transporter protein [Herbaspirillum seropedicae SmR1] Length = 433 Score = 273 bits (697), Expect = 2e-74, Method: Compositional matrix adjust. Identities = 158/414 (38%), Positives = 234/414 (56%), Gaps = 5/414 (1%) Query: 10 SRAGAVLRVTSGNFLEQFDFFLFGFYATHISKVFFPASSEFASLMLTFAVFGAGFLMRPL 69 R A++ GN LE FDF ++ F+A I+K+FFP ++ SL+L A FG GF MRP+ Sbjct: 18 QRRRAIVATVIGNGLEWFDFTVYSFFAVIIAKLFFPTGNDLTSLLLAVATFGVGFFMRPV 77 Query: 70 GAIILGAYIDEVGRRKGLIVTLSIMASGTILIACVPGYASIGLLAPLLVLAGRLLQGFSA 129 G I+LG Y D VGR+ L VT+ +MA GT +I P Y SIGL APL+++ RLLQGFSA Sbjct: 78 GGILLGIYADRVGRKAALSVTILLMAVGTTMIGLAPTYESIGLFAPLIIVVARLLQGFSA 137 Query: 130 GAELGGVSVYLAEMATPGRKGFYTAWQSASQQIAIVVAALMGYALNAWLDAAQIAAWGWR 189 G E+G + +L E A + +Y++W AS +A+++ A +G + A LDAA +A+WGWR Sbjct: 138 GGEMGSATAFLTEYAPERERAYYSSWIQASIGVAVLLGAAVGTFVTASLDAAALASWGWR 197 Query: 190 IPFFVGCLIVPFIFLLRRSLQETEAFQARAHR--PALGEVYRTMLANWKTVIAGMLLVAM 247 +PF +G +I P + +R L+ET F + L EV R + A +V + Sbjct: 198 LPFLLGIIIGPVGYYIRHHLEETPTFLEEKDKTDSPLKEVIRNFP---RETSASFSMVIL 254 Query: 248 TTTTFYLITVYTPTFGRAVLKLSTQASLVVTLLVGLSNFCWLPIGGMVSDRIGRRPVLLA 307 T Y++ Y PT+ VLKL + ++ GL PI G ++DRIGRRP+L Sbjct: 255 WTVCTYVLLFYMPTYSVKVLKLPQTTGFIAGMVGGLCIMVLAPIVGRLADRIGRRPLLSG 314 Query: 308 ITVLAILTAYPALSWLAAAPSVERMLLVLLWLSFFFGMYNGAMVAALTEIMPEQIRVAGF 367 L ++ AYP +++ +APS+ +L+ L Y G ++AA +E+ P ++ G Sbjct: 315 SAALILMLAYPMFAYINSAPSLSTLLIFQLVFGTLIAAYTGPILAAFSELFPAKVLSTGL 374 Query: 368 SLAFSLATAVFGGFTPAISTWLIELTGDKAAPGLWLTFAALCGLLATLILYRGQ 421 S+A++LA +FGGF TWLI TG AP ++ AA + T + Q Sbjct: 375 SVAYNLAVTIFGGFASFFITWLIAATGSTMAPAFYVMIAAAISFVGTRFVREPQ 428 >gi|300309357|ref|YP_003773449.1| major facilitator superfamily (MFS) transporter protein [Herbaspirillum seropedicae SmR1] Length = 437 Score = 272 bits (696), Expect = 4e-74, Method: Compositional matrix adjust. Identities = 153/428 (35%), Positives = 239/428 (55%), Gaps = 11/428 (2%) Query: 4 HPHVRGSRAGAVLRVTSGNFLEQFDFFLFGFYATHISKVFFPASSEFASLMLTFAVFGAG 63 P + R V+ GN LE +DF ++GF++ I+++FFPA +E+ SL++ A FG G Sbjct: 2 QPQLNKQRQ--VIAAIVGNALEWYDFIVYGFFSAIIARLFFPADNEYTSLLVALATFGIG 59 Query: 64 FLMRPLGAIILGAYIDEVGRRKGLIVTLSIMASGTILIACVPGYASIGLLAPLLVLAGRL 123 F MRP+G ++LG Y D GR+ + V + +M +IA P YA+IG+ AP++++ R+ Sbjct: 60 FFMRPVGGVLLGLYADRKGRKAAMQVIIVLMTLAIAIIAFTPTYATIGIAAPIMIVVARM 119 Query: 124 LQGFSAGAELGGVSVYLAEMATPGRKGFYTAWQSASQQIAIVVAALMGYALNAWLDAAQI 183 LQGF+ G E + +L E A ++G Y +WQ Q +A+ A MG + L + Sbjct: 120 LQGFATGGEYSSSTAFLVESAPAHKRGLYGSWQLVGQCLAVFCGAGMGALVTRNLSPEAL 179 Query: 184 AAWGWRIPFFVGCLIVPFIFLLRRSLQETEAFQARAHRP-----ALGEVYRTMLANWKTV 238 +WGWR+PF +G LI P +RR + ET+ F A++P L +V +T N + V Sbjct: 180 DSWGWRLPFVLGLLIGPVGLWIRRHMHETDDFLESANKPNAAPIKLLDVVKT---NLRGV 236 Query: 239 IAGMLLVAMTTTTFYLITVYTPTFGRAVLKLSTQASLVVTLLVGLSNFCWLPIGGMVSDR 298 + M V T FY++ V PTF L L + +V ++ +P G +SDR Sbjct: 237 LVSMGQVINGTVAFYVVLVNMPTFANKQLGLPLDQAFMVQMIAVALLTAVIPFAGALSDR 296 Query: 299 IGRRPVLLAITVLAILTAYPALSWLAAAPSVERMLLVLLWLSFFFGMYNGAMVAALTEIM 358 +GRR VLL ++ +L YP W++AAPS+ R+L++ + L G G M AL+E Sbjct: 297 LGRRTVLLYSSLAFLLMVYPLFVWVSAAPSLPRLLVMQVLLCIVIGANFGPMPTALSEQF 356 Query: 359 PEQIRVAGFSLAFSLATAVFGGFTPAISTWLIELTGDKAAPGLWLTFAALCGLLATLILY 418 P ++R G ++A++LA +FGGF P I TWL + +G AP ++ FAA G+ A + Sbjct: 357 PTRVRSTGLAVAYNLAAMLFGGFAPFIVTWLTKTSGSPVAPAWYVLFAACIGVSAAWAM- 415 Query: 419 RGQAVAMR 426 R Q+ A + Sbjct: 416 RDQSPAAK 423 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 0.329 0.140 0.427 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: 1,192,765 Number of extensions: 43611 Number of successful extensions: 353 Number of sequences better than 1.0e-08: 14 Number of HSP's gapped: 333 Number of HSP's successfully gapped: 14 Length of query: 433 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 345 Effective length of database: 1,203,190 Effective search space: 415100550 Effective search space used: 415100550 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 (21.8 bits) S2: 132 (55.5 bits)