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= 0001.2546.p (428 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... 828 0.0 gi|300310790|ref|YP_003774882.1| major facilitator superfamily p... 666 0.0 gi|300312423|ref|YP_003776515.1| proline/betaine transporter pro... 303 2e-83 gi|300309575|ref|YP_003773667.1| proline/betaine transporter pro... 300 2e-82 gi|300309357|ref|YP_003773449.1| major facilitator superfamily (... 282 4e-77 >gi|300311827|ref|YP_003775919.1| sugar permease of the major facilitator superfamily protein [Herbaspirillum seropedicae SmR1] Length = 428 Score = 828 bits (2138), Expect = 0.0, Method: Compositional matrix adjust. Identities = 409/428 (95%), Positives = 420/428 (98%) Query: 1 MTTSTSSQSKFSTVLRVTSGNFMEMFDFFLFGFYATHISKAFFPSDNDFASLMLTFMTFG 60 MTTST+SQSKFSTVLRVTSGNFMEMFDFFLFGFYATHISKAFFPSDN+FASLMLTFMTFG Sbjct: 1 MTTSTASQSKFSTVLRVTSGNFMEMFDFFLFGFYATHISKAFFPSDNEFASLMLTFMTFG 60 Query: 61 AGFLMRPLGAIILGAYVDRVGRRQGLIVTLALMALGTMLIAFVPSYASIGALAPMLVLIG 120 AGFLMRPLGAIILGAYVDRVGRRQGLIVTLALMALGTMLIAFVPSYA+IGALAP+LVLIG Sbjct: 61 AGFLMRPLGAIILGAYVDRVGRRQGLIVTLALMALGTMLIAFVPSYATIGALAPLLVLIG 120 Query: 121 RLLQGFSAGVELGGVSVYLAEMATPGNKGFYVSWQSASQQVAIIVAAAIGYALSTTLTPA 180 RLLQGFSAGVELGGVSVYLAEMATPGNKGFYVSWQSASQQVAIIVAAAIGY LST+LTPA Sbjct: 121 RLLQGFSAGVELGGVSVYLAEMATPGNKGFYVSWQSASQQVAIIVAAAIGYLLSTSLTPA 180 Query: 181 QVGDWGWRIPFFIGCLIVPVLFVIRRSLQETEEFMRRKHRPSTGQIFRSMIENWKLVIAG 240 +V WGWRIPFFIGCLIVPVLFVIRRSLQETEEFMRRKHRPSTGQIFRSMIENWKLVIAG Sbjct: 181 EVSGWGWRIPFFIGCLIVPVLFVIRRSLQETEEFMRRKHRPSTGQIFRSMIENWKLVIAG 240 Query: 241 MMLVSMTTVSFYLITVYTPTFGKNVLKLSTEASLIVTLCVGLSNFIWLPIMGALSDRIGR 300 MMLVSMTTVSFYLITVYTPTFGKNVLKLSTEASLIVTLCVGLSNFIWLPIMGALSDR+GR Sbjct: 241 MMLVSMTTVSFYLITVYTPTFGKNVLKLSTEASLIVTLCVGLSNFIWLPIMGALSDRVGR 300 Query: 301 RPILVVFTVLTILTAYPAVNWLVHDATFAKMLMVELWLSFLYASYNGAMVVALTEVMPAD 360 RP+LV FTVLTILTAYPAVNWLVHDA+FAKML+VELWLSFLYASYNGAMVVALTEVMPAD Sbjct: 301 RPLLVTFTVLTILTAYPAVNWLVHDASFAKMLIVELWLSFLYASYNGAMVVALTEVMPAD 360 Query: 361 VRTAGFSLAYSLATAVFGGFTPAIATGLIQATGDKAAPGIWMSTAAVCGLIATLILYRNK 420 VRTAGFSLAYSLATAVFGGFTPAIATGLI+ T DKAAPGIWMSTAAVCGLIATLILYRNK Sbjct: 361 VRTAGFSLAYSLATAVFGGFTPAIATGLIEYTHDKAAPGIWMSTAAVCGLIATLILYRNK 420 Query: 421 AARQAVTA 428 A RQA TA Sbjct: 421 AVRQAATA 428 >gi|300310790|ref|YP_003774882.1| major facilitator superfamily permease [Herbaspirillum seropedicae SmR1] Length = 432 Score = 666 bits (1719), Expect = 0.0, Method: Compositional matrix adjust. Identities = 325/426 (76%), Positives = 375/426 (88%) Query: 2 TTSTSSQSKFSTVLRVTSGNFMEMFDFFLFGFYATHISKAFFPSDNDFASLMLTFMTFGA 61 TT+ + SK STVLRVTSGNF+EMFDFFL+GFYA++ISK FFPSDN+F SL+LTF TFGA Sbjct: 4 TTTNAKHSKLSTVLRVTSGNFLEMFDFFLYGFYASYISKTFFPSDNEFVSLILTFGTFGA 63 Query: 62 GFLMRPLGAIILGAYVDRVGRRQGLIVTLALMALGTMLIAFVPSYASIGALAPMLVLIGR 121 GFLMRPLGAIILG+Y+DRVGRRQGLIVTLA+MA+GT+LIAFVP YA+IG AP+LVL GR Sbjct: 64 GFLMRPLGAIILGSYIDRVGRRQGLIVTLAIMAIGTLLIAFVPGYATIGVAAPILVLTGR 123 Query: 122 LLQGFSAGVELGGVSVYLAEMATPGNKGFYVSWQSASQQVAIIVAAAIGYALSTTLTPAQ 181 LLQGFSAGVELGGVSVYLAEMATPGNKGFYVSWQSASQQ AI+ +A IGY +S +L+P Q Sbjct: 124 LLQGFSAGVELGGVSVYLAEMATPGNKGFYVSWQSASQQAAIMASALIGYLVSQSLSPVQ 183 Query: 182 VGDWGWRIPFFIGCLIVPVLFVIRRSLQETEEFMRRKHRPSTGQIFRSMIENWKLVIAGM 241 + DWGWRIPFFIGC+IVP +F+IRRSLQET+EF+ RK PS G+I S+ +NWK+V+AGM Sbjct: 184 ISDWGWRIPFFIGCMIVPAIFIIRRSLQETDEFLARKRHPSFGEIMSSIAQNWKIVVAGM 243 Query: 242 MLVSMTTVSFYLITVYTPTFGKNVLKLSTEASLIVTLCVGLSNFIWLPIMGALSDRIGRR 301 M+V MTTVSFYLITVYTPTFGKNVLKLS SLIVT CVGLSNF WLPIMGALSDR+GRR Sbjct: 244 MMVVMTTVSFYLITVYTPTFGKNVLKLSASDSLIVTFCVGLSNFCWLPIMGALSDRVGRR 303 Query: 302 PILVVFTVLTILTAYPAVNWLVHDATFAKMLMVELWLSFLYASYNGAMVVALTEVMPADV 361 P+LV FT+LT+LTAYP ++WLV D +F +L+ ELWLSFLYASYNGA VVALTEVMPA V Sbjct: 304 PVLVAFTLLTLLTAYPVMSWLVSDISFKNLLITELWLSFLYASYNGAAVVALTEVMPAHV 363 Query: 362 RTAGFSLAYSLATAVFGGFTPAIATGLIQATGDKAAPGIWMSTAAVCGLIATLILYRNKA 421 RT GFSLAYSLATA+FGGFTP ++T LI+ +GDKAAPG WMS AAVCGL+ATL+LYR K+ Sbjct: 364 RTVGFSLAYSLATAIFGGFTPLVSTWLIETSGDKAAPGYWMSFAAVCGLLATLVLYRGKS 423 Query: 422 ARQAVT 427 A V+ Sbjct: 424 AAATVS 429 >gi|300312423|ref|YP_003776515.1| proline/betaine transporter protein [Herbaspirillum seropedicae SmR1] Length = 427 Score = 303 bits (775), Expect = 2e-83, Method: Compositional matrix adjust. Identities = 171/411 (41%), Positives = 244/411 (59%), Gaps = 6/411 (1%) Query: 5 TSSQSKFSTVLRVTSGNFMEMFDFFLFGFYATHISKAFFPSDNDFASLMLTFMTFGAGFL 64 T Q++ ++ + GN +E FD ++G +A I+K FFP+ +D SL+LTF TFG F Sbjct: 13 THPQAR-RAIISSSIGNALEWFDILIYGAFAVVIAKQFFPTGDDSVSLLLTFATFGVSFF 71 Query: 65 MRPLGAIILGAYVDRVGRRQGLIVTLALMALGTMLIAFVPSYASIGALAPMLVLIGRLLQ 124 MRPLGA++LGAY DR GR+ L++++ LM +GT +IAF+PSYASIG LAP + +G+++Q Sbjct: 72 MRPLGAVVLGAYSDRAGRKAALMLSIMLMTVGTAMIAFMPSYASIGLLAPAGIALGKMIQ 131 Query: 125 GFSAGVELGGVSVYLAEMATPGNKGFYVSWQSASQQVAIIVAAAIGYALSTTLTPAQVGD 184 GFSAG E G + +L E A P +GF+ SWQ ASQ +++++AA G L+ LTP Q+ Sbjct: 132 GFSAGGEFGSSTAFLVEHA-PHRRGFFSSWQVASQGISLLLAALFGAVLNNMLTPEQLAS 190 Query: 185 WGWRIPFFIGCLIVPVLFVIRRSLQETEEFMRRKHRPSTGQIFRSMIENWKL-VIAGMML 243 WGWR+PF G LI P IRR L E EF + T R + K+ ++ G Sbjct: 191 WGWRVPFIFGLLIAPAGIYIRRHLDEAPEFKESSEK--TNAPLRDTFAHQKMRLLIGAGS 248 Query: 244 VSMTTVSFYLITVYTPTFGKNVLKLSTEASLIVTLCVGLSNFIWLPIMGALSDRIGRRPI 303 V M TVS YL ++Y PT+ L L +S GL FI P++GALSD+IGR P Sbjct: 249 VIMATVSVYL-SLYIPTYAVKQLGLPAWSSFAAMSVAGLIMFIGSPLVGALSDKIGRTPF 307 Query: 304 LVVFTVLTILTAYPAVNWLVHDATFAKMLMVELWLSFLYASYNGAMVVALTEVMPADVRT 363 ++ + L I+ YP +L + F ++L+++ + L Y AM L ++ P R Sbjct: 308 MITSSALYIVLTYPMFVFLTNSPGFLQLLLLQTVIGVLMTMYFAAMPALLADIFPVATRG 367 Query: 364 AGFSLAYSLATAVFGGFTPAIATGLIQATGDKAAPGIWMSTAAVCGLIATL 414 G SLAY++A +FGGF I T LI TGDK + ++ AV LIA+L Sbjct: 368 TGMSLAYNIAVTIFGGFAGLIITWLIDFTGDKLSVSYFVIFGAVLSLIASL 418 >gi|300309575|ref|YP_003773667.1| proline/betaine transporter protein [Herbaspirillum seropedicae SmR1] Length = 433 Score = 300 bits (767), Expect = 2e-82, Method: Compositional matrix adjust. Identities = 164/411 (39%), Positives = 242/411 (58%), Gaps = 3/411 (0%) Query: 4 STSSQSKFSTVLRVTSGNFMEMFDFFLFGFYATHISKAFFPSDNDFASLMLTFMTFGAGF 63 S S+Q + ++ GN +E FDF ++ F+A I+K FFP+ ND SL+L TFG GF Sbjct: 13 SVSNQQRRRAIVATVIGNGLEWFDFTVYSFFAVIIAKLFFPTGNDLTSLLLAVATFGVGF 72 Query: 64 LMRPLGAIILGAYVDRVGRRQGLIVTLALMALGTMLIAFVPSYASIGALAPMLVLIGRLL 123 MRP+G I+LG Y DRVGR+ L VT+ LMA+GT +I P+Y SIG AP+++++ RLL Sbjct: 73 FMRPVGGILLGIYADRVGRKAALSVTILLMAVGTTMIGLAPTYESIGLFAPLIIVVARLL 132 Query: 124 QGFSAGVELGGVSVYLAEMATPGNKGFYVSWQSASQQVAIIVAAAIGYALSTTLTPAQVG 183 QGFSAG E+G + +L E A + +Y SW AS VA+++ AA+G ++ +L A + Sbjct: 133 QGFSAGGEMGSATAFLTEYAPERERAYYSSWIQASIGVAVLLGAAVGTFVTASLDAAALA 192 Query: 184 DWGWRIPFFIGCLIVPVLFVIRRSLQETEEFMRRKHRPSTGQIFRSMIENW-KLVIAGMM 242 WGWR+PF +G +I PV + IR L+ET F+ K + T + +I N+ + A Sbjct: 193 SWGWRLPFLLGIIIGPVGYYIRHHLEETPTFLEEKDK--TDSPLKEVIRNFPRETSASFS 250 Query: 243 LVSMTTVSFYLITVYTPTFGKNVLKLSTEASLIVTLCVGLSNFIWLPIMGALSDRIGRRP 302 +V + TV Y++ Y PT+ VLKL I + GL + PI+G L+DRIGRRP Sbjct: 251 MVILWTVCTYVLLFYMPTYSVKVLKLPQTTGFIAGMVGGLCIMVLAPIVGRLADRIGRRP 310 Query: 303 ILVVFTVLTILTAYPAVNWLVHDATFAKMLMVELWLSFLYASYNGAMVVALTEVMPADVR 362 +L L ++ AYP ++ + + +L+ +L L A+Y G ++ A +E+ PA V Sbjct: 311 LLSGSAALILMLAYPMFAYINSAPSLSTLLIFQLVFGTLIAAYTGPILAAFSELFPAKVL 370 Query: 363 TAGFSLAYSLATAVFGGFTPAIATGLIQATGDKAAPGIWMSTAAVCGLIAT 413 + G S+AY+LA +FGGF T LI ATG AP ++ AA + T Sbjct: 371 STGLSVAYNLAVTIFGGFASFFITWLIAATGSTMAPAFYVMIAAAISFVGT 421 >gi|300309357|ref|YP_003773449.1| major facilitator superfamily (MFS) transporter protein [Herbaspirillum seropedicae SmR1] Length = 437 Score = 282 bits (721), Expect = 4e-77, Method: Compositional matrix adjust. Identities = 148/407 (36%), Positives = 239/407 (58%), Gaps = 4/407 (0%) Query: 9 SKFSTVLRVTSGNFMEMFDFFLFGFYATHISKAFFPSDNDFASLMLTFMTFGAGFLMRPL 68 +K V+ GN +E +DF ++GF++ I++ FFP+DN++ SL++ TFG GF MRP+ Sbjct: 6 NKQRQVIAAIVGNALEWYDFIVYGFFSAIIARLFFPADNEYTSLLVALATFGIGFFMRPV 65 Query: 69 GAIILGAYVDRVGRRQGLIVTLALMALGTMLIAFVPSYASIGALAPMLVLIGRLLQGFSA 128 G ++LG Y DR GR+ + V + LM L +IAF P+YA+IG AP+++++ R+LQGF+ Sbjct: 66 GGVLLGLYADRKGRKAAMQVIIVLMTLAIAIIAFTPTYATIGIAAPIMIVVARMLQGFAT 125 Query: 129 GVELGGVSVYLAEMATPGNKGFYVSWQSASQQVAIIVAAAIGYALSTTLTPAQVGDWGWR 188 G E + +L E A +G Y SWQ Q +A+ A +G ++ L+P + WGWR Sbjct: 126 GGEYSSSTAFLVESAPAHKRGLYGSWQLVGQCLAVFCGAGMGALVTRNLSPEALDSWGWR 185 Query: 189 IPFFIGCLIVPVLFVIRRSLQETEEFMRRKHRPSTG--QIFRSMIENWKLVIAGMMLVSM 246 +PF +G LI PV IRR + ET++F+ ++P+ ++ + N + V+ M V Sbjct: 186 LPFVLGLLIGPVGLWIRRHMHETDDFLESANKPNAAPIKLLDVVKTNLRGVLVSMGQVIN 245 Query: 247 TTVSFYLITVYTPTFGKNVLKLSTEASLIVTL-CVGLSNFIWLPIMGALSDRIGRRPILV 305 TV+FY++ V PTF L L + + +V + V L + +P GALSDR+GRR +L+ Sbjct: 246 GTVAFYVVLVNMPTFANKQLGLPLDQAFMVQMIAVALLTAV-IPFAGALSDRLGRRTVLL 304 Query: 306 VFTVLTILTAYPAVNWLVHDATFAKMLMVELWLSFLYASYNGAMVVALTEVMPADVRTAG 365 ++ +L YP W+ + ++L++++ L + + G M AL+E P VR+ G Sbjct: 305 YSSLAFLLMVYPLFVWVSAAPSLPRLLVMQVLLCIVIGANFGPMPTALSEQFPTRVRSTG 364 Query: 366 FSLAYSLATAVFGGFTPAIATGLIQATGDKAAPGIWMSTAAVCGLIA 412 ++AY+LA +FGGF P I T L + +G AP ++ AA G+ A Sbjct: 365 LAVAYNLAAMLFGGFAPFIVTWLTKTSGSPVAPAWYVLFAACIGVSA 411 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 0.328 0.138 0.413 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: 1,185,524 Number of extensions: 48002 Number of successful extensions: 340 Number of sequences better than 1.0e-08: 15 Number of HSP's gapped: 310 Number of HSP's successfully gapped: 15 Length of query: 428 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 340 Effective length of database: 1,203,190 Effective search space: 409084600 Effective search space used: 409084600 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)