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= 0001.3086.p (427 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312423|ref|YP_003776515.1| proline/betaine transporter pro... 805 0.0 gi|300309575|ref|YP_003773667.1| proline/betaine transporter pro... 380 e-106 gi|300309357|ref|YP_003773449.1| major facilitator superfamily (... 364 e-102 gi|300310160|ref|YP_003774252.1| major facilitator superfamily p... 299 3e-82 gi|300310790|ref|YP_003774882.1| major facilitator superfamily p... 295 3e-81 >gi|300312423|ref|YP_003776515.1| proline/betaine transporter protein [Herbaspirillum seropedicae SmR1] Length = 427 Score = 805 bits (2080), Expect = 0.0, Method: Compositional matrix adjust. Identities = 406/427 (95%), Positives = 417/427 (97%) Query: 1 MTSNTTAPGAGTTHPQARRAIISSSIGNALEWFDILIYGAFAVVIAKQFFPTGDDSVSLL 60 M+SNT APGA THPQARRAIISSSIGNALEWFDILIYGAFAVVIAKQFFPTGDDSVSLL Sbjct: 1 MSSNTAAPGADITHPQARRAIISSSIGNALEWFDILIYGAFAVVIAKQFFPTGDDSVSLL 60 Query: 61 LTFATFGVSFFMRPLGAVVLGAYSDRAGRKAALMLSITLMTIGTAMIAFMPSYASIGLLA 120 LTFATFGVSFFMRPLGAVVLGAYSDRAGRKAALMLSI LMT+GTAMIAFMPSYASIGLLA Sbjct: 61 LTFATFGVSFFMRPLGAVVLGAYSDRAGRKAALMLSIMLMTVGTAMIAFMPSYASIGLLA 120 Query: 121 PAGIALGKMIQGFSAGGEFGSSTAFLVEHAPHRRGFFSSWQVASQGISLLLAAVFGAVLN 180 PAGIALGKMIQGFSAGGEFGSSTAFLVEHAPHRRGFFSSWQVASQGISLLLAA+FGAVLN Sbjct: 121 PAGIALGKMIQGFSAGGEFGSSTAFLVEHAPHRRGFFSSWQVASQGISLLLAALFGAVLN 180 Query: 181 NLLTPEQLASWGWRVPFIFGLLIAPAGIYIRRNLEEAPEFEQASEKTKAPLRDTFAHQKM 240 N+LTPEQLASWGWRVPFIFGLLIAPAGIYIRR+L+EAPEF+++SEKT APLRDTFAHQKM Sbjct: 181 NMLTPEQLASWGWRVPFIFGLLIAPAGIYIRRHLDEAPEFKESSEKTNAPLRDTFAHQKM 240 Query: 241 RLLIGAGSVIMATVSVYLSLYIPTYAVKQLGLPAWSSFAAMSVAGLIMFIGSPLVGALSD 300 RLLIGAGSVIMATVSVYLSLYIPTYAVKQLGLPAWSSFAAMSVAGLIMFIGSPLVGALSD Sbjct: 241 RLLIGAGSVIMATVSVYLSLYIPTYAVKQLGLPAWSSFAAMSVAGLIMFIGSPLVGALSD 300 Query: 301 KIGRTPFMIASSALYIVLTYPMFVFLTNSPGFLQLLLLQTVIGVLMTMYFAAMPALLADI 360 KIGRTPFMI SSALYIVLTYPMFVFLTNSPGFLQLLLLQTVIGVLMTMYFAAMPALLADI Sbjct: 301 KIGRTPFMITSSALYIVLTYPMFVFLTNSPGFLQLLLLQTVIGVLMTMYFAAMPALLADI 360 Query: 361 FPVATRGTGMSLAYNIAVTLFGGFAGLIITWLIDVTGDKLSVSYFVIFGAVLSLAASTAA 420 FPVATRGTGMSLAYNIAVT+FGGFAGLIITWLID TGDKLSVSYFVIFGAVLSL AS +A Sbjct: 361 FPVATRGTGMSLAYNIAVTIFGGFAGLIITWLIDFTGDKLSVSYFVIFGAVLSLIASLSA 420 Query: 421 RYVLRLR 427 R VLRLR Sbjct: 421 RLVLRLR 427 >gi|300309575|ref|YP_003773667.1| proline/betaine transporter protein [Herbaspirillum seropedicae SmR1] Length = 433 Score = 380 bits (975), Expect = e-106, Method: Compositional matrix adjust. Identities = 199/422 (47%), Positives = 276/422 (65%), Gaps = 5/422 (1%) Query: 5 TTAPGAG---TTHPQARRAIISSSIGNALEWFDILIYGAFAVVIAKQFFPTGDDSVSLLL 61 +T P G ++ Q RRAI+++ IGN LEWFD +Y FAV+IAK FFPTG+D SLLL Sbjct: 4 STLPADGIVSVSNQQRRRAIVATVIGNGLEWFDFTVYSFFAVIIAKLFFPTGNDLTSLLL 63 Query: 62 TFATFGVSFFMRPLGAVVLGAYSDRAGRKAALMLSITLMTIGTAMIAFMPSYASIGLLAP 121 ATFGV FFMRP+G ++LG Y+DR GRKAAL ++I LM +GT MI P+Y SIGL AP Sbjct: 64 AVATFGVGFFMRPVGGILLGIYADRVGRKAALSVTILLMAVGTTMIGLAPTYESIGLFAP 123 Query: 122 AGIALGKMIQGFSAGGEFGSSTAFLVEHAPHR-RGFFSSWQVASQGISLLLAAVFGAVLN 180 I + +++QGFSAGGE GS+TAFL E+AP R R ++SSW AS G+++LL A G + Sbjct: 124 LIIVVARLLQGFSAGGEMGSATAFLTEYAPERERAYYSSWIQASIGVAVLLGAAVGTFVT 183 Query: 181 NLLTPEQLASWGWRVPFIFGLLIAPAGIYIRRNLEEAPEFEQASEKTKAPLRDTFAHQKM 240 L LASWGWR+PF+ G++I P G YIR +LEE P F + +KT +PL++ + Sbjct: 184 ASLDAAALASWGWRLPFLLGIIIGPVGYYIRHHLEETPTFLEEKDKTDSPLKEVIRNFPR 243 Query: 241 RLLIGAGSVIMATVSVYLSL-YIPTYAVKQLGLPAWSSFAAMSVAGLIMFIGSPLVGALS 299 VI+ TV Y+ L Y+PTY+VK L LP + F A V GL + + +P+VG L+ Sbjct: 244 ETSASFSMVILWTVCTYVLLFYMPTYSVKVLKLPQTTGFIAGMVGGLCIMVLAPIVGRLA 303 Query: 300 DKIGRTPFMIASSALYIVLTYPMFVFLTNSPGFLQLLLLQTVIGVLMTMYFAAMPALLAD 359 D+IGR P + S+AL ++L YPMF ++ ++P LL+ Q V G L+ Y + A ++ Sbjct: 304 DRIGRRPLLSGSAALILMLAYPMFAYINSAPSLSTLLIFQLVFGTLIAAYTGPILAAFSE 363 Query: 360 IFPVATRGTGMSLAYNIAVTLFGGFAGLIITWLIDVTGDKLSVSYFVIFGAVLSLAASTA 419 +FP TG+S+AYN+AVT+FGGFA ITWLI TG ++ +++V+ A +S + Sbjct: 364 LFPAKVLSTGLSVAYNLAVTIFGGFASFFITWLIAATGSTMAPAFYVMIAAAISFVGTRF 423 Query: 420 AR 421 R Sbjct: 424 VR 425 >gi|300309357|ref|YP_003773449.1| major facilitator superfamily (MFS) transporter protein [Herbaspirillum seropedicae SmR1] Length = 437 Score = 364 bits (935), Expect = e-102, Method: Compositional matrix adjust. Identities = 180/415 (43%), Positives = 279/415 (67%), Gaps = 7/415 (1%) Query: 14 HPQ--ARRAIISSSIGNALEWFDILIYGAFAVVIAKQFFPTGDDSVSLLLTFATFGVSFF 71 PQ +R +I++ +GNALEW+D ++YG F+ +IA+ FFP ++ SLL+ ATFG+ FF Sbjct: 2 QPQLNKQRQVIAAIVGNALEWYDFIVYGFFSAIIARLFFPADNEYTSLLVALATFGIGFF 61 Query: 72 MRPLGAVVLGAYSDRAGRKAALMLSITLMTIGTAMIAFMPSYASIGLLAPAGIALGKMIQ 131 MRP+G V+LG Y+DR GRKAA+ + I LMT+ A+IAF P+YA+IG+ AP I + +M+Q Sbjct: 62 MRPVGGVLLGLYADRKGRKAAMQVIIVLMTLAIAIIAFTPTYATIGIAAPIMIVVARMLQ 121 Query: 132 GFSAGGEFGSSTAFLVEHAP-HRRGFFSSWQVASQGISLLLAAVFGAVLNNLLTPEQLAS 190 GF+ GGE+ SSTAFLVE AP H+RG + SWQ+ Q +++ A GA++ L+PE L S Sbjct: 122 GFATGGEYSSSTAFLVESAPAHKRGLYGSWQLVGQCLAVFCGAGMGALVTRNLSPEALDS 181 Query: 191 WGWRVPFIFGLLIAPAGIYIRRNLEEAPEF-EQASEKTKAPLR--DTFAHQKMRLLIGAG 247 WGWR+PF+ GLLI P G++IRR++ E +F E A++ AP++ D +L+ G Sbjct: 182 WGWRLPFVLGLLIGPVGLWIRRHMHETDDFLESANKPNAAPIKLLDVVKTNLRGVLVSMG 241 Query: 248 SVIMATVSVYLSLY-IPTYAVKQLGLPAWSSFAAMSVAGLIMFIGSPLVGALSDKIGRTP 306 VI TV+ Y+ L +PT+A KQLGLP +F +A ++ P GALSD++GR Sbjct: 242 QVINGTVAFYVVLVNMPTFANKQLGLPLDQAFMVQMIAVALLTAVIPFAGALSDRLGRRT 301 Query: 307 FMIASSALYIVLTYPMFVFLTNSPGFLQLLLLQTVIGVLMTMYFAAMPALLADIFPVATR 366 ++ SS ++++ YP+FV+++ +P +LL++Q ++ +++ F MP L++ FP R Sbjct: 302 VLLYSSLAFLLMVYPLFVWVSAAPSLPRLLVMQVLLCIVIGANFGPMPTALSEQFPTRVR 361 Query: 367 GTGMSLAYNIAVTLFGGFAGLIITWLIDVTGDKLSVSYFVIFGAVLSLAASTAAR 421 TG+++AYN+A LFGGFA I+TWL +G ++ +++V+F A + ++A+ A R Sbjct: 362 STGLAVAYNLAAMLFGGFAPFIVTWLTKTSGSPVAPAWYVLFAACIGVSAAWAMR 416 >gi|300310160|ref|YP_003774252.1| major facilitator superfamily permease [Herbaspirillum seropedicae SmR1] Length = 428 Score = 299 bits (765), Expect = 3e-82, Method: Compositional matrix adjust. Identities = 171/398 (42%), Positives = 243/398 (61%), Gaps = 8/398 (2%) Query: 8 PGAGTTHPQARRAIISSSIGNALEWFDILIYGAFAVVIAKQFFPTGDDSVSLLLTFATFG 67 P GT RRA+I++++GN LE +D +I+G FAV I+K FFP+GD+ +L+ TF TF Sbjct: 4 PVQGTDPKTQRRAVIAATLGNVLEIYDFIIFGIFAVAISKTFFPSGDEYAALMFTFMTFA 63 Query: 68 VSFFMRPLGAVVLGAYSDRAGRKAALMLSITLMTIGTAMIAFMPSYASIGLLAPAGIALG 127 F +RP+GA+VLG Y+D+ GRK AL ++ LM IGT + A PSY SIG+ A + G Sbjct: 64 AGFVVRPIGALVLGQYADKVGRKKALSFTLILMAIGTVIPALCPSYDSIGIAATVILVFG 123 Query: 128 KMIQGFSAGGEFGSSTAFLVEHAPHR-RGFFSSWQVASQGISLLLAAVFGAVLNNLLTPE 186 +++QGFSAGGE GS+ A LVE+A R R F S+Q +QG +LL + G V+ + E Sbjct: 124 RLLQGFSAGGEIGSNVAMLVENASSRNRALFCSFQQMAQGGGVLLGGIVGYVIAVVYGQE 183 Query: 187 QLASWGWRVPFIFGLLIAPAGIYIRRNLEEAPEFEQASEKTKAPLRDTFAHQKM----RL 242 ++ WR+ F GL+I P G YIRR L E PEFE++ +K D+F R+ Sbjct: 184 RMLQDYWRLAFFVGLVIGPVGWYIRRVLPETPEFERSKKKESV---DSFLEGVKANFGRI 240 Query: 243 LIGAGSVIMATVSVYLSLYIPTYAVKQLGLPAWSSFAAMSVAGLIMFIGSPLVGALSDKI 302 LIG +I TV+ +S Y TYAV++L +P S++ +GL + PLVG L+D+I Sbjct: 241 LIGIAIMIFWTVATQVSNYFTTYAVRELHMPVASTYLGQISSGLTLLAICPLVGMLADRI 300 Query: 303 GRTPFMIASSALYIVLTYPMFVFLTNSPGFLQLLLLQTVIGVLMTMYFAAMPALLADIFP 362 G M +AL VL YP+F L +P LLL+Q I V + +Y A P +++DIFP Sbjct: 301 GPYKPMAFGAALAGVLAYPLFKMLVATPTLPTLLLVQIAISVTLGLYAACAPLVMSDIFP 360 Query: 363 VATRGTGMSLAYNIAVTLFGGFAGLIITWLIDVTGDKL 400 R TG+ +Y + V +FGG +I+T LI ++GDKL Sbjct: 361 TRYRATGIGTSYALGVMIFGGLTPMIVTTLIQISGDKL 398 >gi|300310790|ref|YP_003774882.1| major facilitator superfamily permease [Herbaspirillum seropedicae SmR1] Length = 432 Score = 295 bits (756), Expect = 3e-81, Method: Compositional matrix adjust. Identities = 165/413 (39%), Positives = 250/413 (60%), Gaps = 7/413 (1%) Query: 12 TTHPQARRAIISSSI----GNALEWFDILIYGAFAVVIAKQFFPTGDDSVSLLLTFATFG 67 TT A+ + +S+ + GN LE FD +YG +A I+K FFP+ ++ VSL+LTF TFG Sbjct: 3 TTTTNAKHSKLSTVLRVTSGNFLEMFDFFLYGFYASYISKTFFPSDNEFVSLILTFGTFG 62 Query: 68 VSFFMRPLGAVVLGAYSDRAGRKAALMLSITLMTIGTAMIAFMPSYASIGLLAPAGIALG 127 F MRPLGA++LG+Y DR GR+ L++++ +M IGT +IAF+P YA+IG+ AP + G Sbjct: 63 AGFLMRPLGAIILGSYIDRVGRRQGLIVTLAIMAIGTLLIAFVPGYATIGVAAPILVLTG 122 Query: 128 KMIQGFSAGGEFGSSTAFLVEHA-PHRRGFFSSWQVASQGISLLLAAVFGAVLNNLLTPE 186 +++QGFSAG E G + +L E A P +GF+ SWQ ASQ +++ +A+ G +++ L+P Sbjct: 123 RLLQGFSAGVELGGVSVYLAEMATPGNKGFYVSWQSASQQAAIMASALIGYLVSQSLSPV 182 Query: 187 QLASWGWRVPFIFGLLIAPAGIYIRRNLEEAPEF-EQASEKTKAPLRDTFAHQKMRLLIG 245 Q++ WGWR+PF G +I PA IRR+L+E EF + + + + A ++ G Sbjct: 183 QISDWGWRIPFFIGCMIVPAIFIIRRSLQETDEFLARKRHPSFGEIMSSIAQNWKIVVAG 242 Query: 246 AGSVIMATVSVYL-SLYIPTYAVKQLGLPAWSSFAAMSVAGLIMFIGSPLVGALSDKIGR 304 V+M TVS YL ++Y PT+ L L A S GL F P++GALSD++GR Sbjct: 243 MMMVVMTTVSFYLITVYTPTFGKNVLKLSASDSLIVTFCVGLSNFCWLPIMGALSDRVGR 302 Query: 305 TPFMIASSALYIVLTYPMFVFLTNSPGFLQLLLLQTVIGVLMTMYFAAMPALLADIFPVA 364 P ++A + L ++ YP+ +L + F LL+ + + L Y A L ++ P Sbjct: 303 RPVLVAFTLLTLLTAYPVMSWLVSDISFKNLLITELWLSFLYASYNGAAVVALTEVMPAH 362 Query: 365 TRGTGMSLAYNIAVTLFGGFAGLIITWLIDVTGDKLSVSYFVIFGAVLSLAAS 417 R G SLAY++A +FGGF L+ TWLI+ +GDK + Y++ F AV L A+ Sbjct: 363 VRTVGFSLAYSLATAIFGGFTPLVSTWLIETSGDKAAPGYWMSFAAVCGLLAT 415 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 0.139 0.408 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: 1,351,202 Number of extensions: 59586 Number of successful extensions: 382 Number of sequences better than 1.0e-08: 18 Number of HSP's gapped: 327 Number of HSP's successfully gapped: 18 Length of query: 427 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 339 Effective length of database: 1,203,190 Effective search space: 407881410 Effective search space used: 407881410 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)