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= 0001.0918.p (447 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310449|ref|YP_003774541.1| 4-hydroxybenzoate transporter t... 791 0.0 gi|300310645|ref|YP_003774737.1| major facilitator superfamily b... 236 2e-63 gi|300310481|ref|YP_003774573.1| major facilitator superfamily p... 209 4e-55 gi|300310615|ref|YP_003774707.1| major facilitator superfamily p... 107 1e-24 gi|300310666|ref|YP_003774758.1| major facilitator superfamily p... 99 8e-22 >gi|300310449|ref|YP_003774541.1| 4-hydroxybenzoate transporter transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 447 Score = 791 bits (2044), Expect = 0.0, Method: Compositional matrix adjust. Identities = 410/447 (91%), Positives = 427/447 (95%) Query: 1 MSIHASGALPTVHVDQVVEQGRFGAFQFSLLLLCGLCLIIDGFDVQAMGYVAPAIIADWG 60 MSIH SGALPTVHVDQVVEQGRFGAFQF LLLLCGLCLIIDGFDVQAMGYVAPAIIADWG Sbjct: 1 MSIHTSGALPTVHVDQVVEQGRFGAFQFGLLLLCGLCLIIDGFDVQAMGYVAPAIIADWG 60 Query: 61 VSKASLGPVFGAGLLGMLLGSLVLTPVGDRYGRRPVLIVSTLFFAVCMLVTPLVSSLDQL 120 VSKASLGPVFGAGL GMLLGSLVLTPVGDRYGRRPVLI+STLFFA+CML TP+V++LDQL Sbjct: 61 VSKASLGPVFGAGLFGMLLGSLVLTPVGDRYGRRPVLILSTLFFALCMLATPMVTTLDQL 120 Query: 121 LVVRFITGFGLGSIMPNAMALVGEFSPSSSRVTRMMLVSCGFTVGAAAGGFVSAALIPHH 180 LV+RFITGFGLGSIMPNAMALVGEFSPSSSRVTRMMLVSCGFTVGAAAGGFVSAALIP + Sbjct: 121 LVLRFITGFGLGSIMPNAMALVGEFSPSSSRVTRMMLVSCGFTVGAAAGGFVSAALIPAY 180 Query: 181 GWHSVFWVGGAVPLVLGLAMLVWLPESIQFLVLHRRPHAQVARWLRKLDPAIVIDDKSNI 240 GWH+VFWVGGAVPLVLGLAMLVWLPESIQFLVLHRRP QVARWLRKLDP IVIDDK+ + Sbjct: 181 GWHAVFWVGGAVPLVLGLAMLVWLPESIQFLVLHRRPRTQVARWLRKLDPNIVIDDKTEV 240 Query: 241 VVKEAKAEGMPVAALFRDGRAGVTVLLWVISFMNLINLYFLSNWLPTLIHDAGYSTSTAV 300 VVKE KAEGMPVAALFRDGRAGVTVLLW+ISFMNLINLYFLSNWLPTLI DAGYSTS AV Sbjct: 241 VVKETKAEGMPVAALFRDGRAGVTVLLWLISFMNLINLYFLSNWLPTLIRDAGYSTSMAV 300 Query: 301 LIATSLQVGGVIGTLSLGRFIHRFGFTRVLGVCFLLACLSIALIGKVAAIPELLFVAVIV 360 LI TSLQVGGVIGTLSLGRFI RFGFTRVLG CFLLACLSIALIGK+A +P LLFVAVIV Sbjct: 301 LIGTSLQVGGVIGTLSLGRFIQRFGFTRVLGSCFLLACLSIALIGKLATVPALLFVAVIV 360 Query: 361 AGFCIVGGQPAVNALAGTFYPTTLRSTGIGWALGIGRIGSVVGPVIGGQLIALQWSNGSL 420 AGFCIVGGQPAVNALAGTFYPTTLRSTGIGWALGIGRIGSVVGPVIGGQLIALQW+N SL Sbjct: 361 AGFCIVGGQPAVNALAGTFYPTTLRSTGIGWALGIGRIGSVVGPVIGGQLIALQWTNASL 420 Query: 421 FVAAAIPALISALTITRLHRRSQGVSA 447 F+AAA+PALISALTI RLHR +QGVSA Sbjct: 421 FLAAAVPALISALTIARLHRTAQGVSA 447 >gi|300310645|ref|YP_003774737.1| major facilitator superfamily benzoate permease [Herbaspirillum seropedicae SmR1] Length = 455 Score = 236 bits (602), Expect = 2e-63, Method: Compositional matrix adjust. Identities = 150/436 (34%), Positives = 248/436 (56%), Gaps = 5/436 (1%) Query: 9 LPTVHVDQVVEQGRFGAFQFSLLLLCGLCLIIDGFDVQAMGYVAPAIIADWGVSKASLGP 68 + T+ V Q+++ RF F + ++ LC L L+ DG+D+ G V P ++ +W +S G Sbjct: 1 MKTLDVSQIIDGARFTKFHWMVMCLCALLLVFDGYDLFIYGAVLPVLMKEWSLSPVQAGA 60 Query: 69 VFGAGLLGMLLGSLVLTPVGDRYGRRPVLIVSTLFFAVCMLVTPLVSSLDQLLVVRFITG 128 + L GM+ G+ + P+ DR GR+ + +S + F+V ++ +S + V RF+ G Sbjct: 61 LGSYALFGMMFGAFIFGPLADRIGRKKGVAISFVLFSVSTFLSGFATSPTEFGVYRFLAG 120 Query: 129 FGLGSIMPNAMALVGEFSPSSSRVTRMMLVSCGFTVGAAAGGFVSAALIPHHGWHSVFWV 188 G G +MPNA+AL+ E++P R T + ++ G+++G + ++P+ GW S+F+ Sbjct: 121 LGCGGLMPNAVALMNEYAPKRLRSTLVAIMFSGYSLGGVLCAGLGIWMLPNFGWQSMFF- 179 Query: 189 GGAVPLVLGLAMLVW-LPESIQFLVLHRRPHAQVARWLRKLDPAIVIDDKSNIVVKEAKA 247 AVPLVL L +++W LPES+ FL+ R Q L ++DP I + +V + K Sbjct: 180 AAAVPLVL-LPVILWKLPESVGFLLRQGRLE-QARAMLTQVDPQARIATDTQLVQADVKG 237 Query: 248 EGMPVAALFRDGRAGVTVLLWVISFMNLINLYFLSNWLPTLIHDAGYSTSTAVLIATSLQ 307 G P+ LF+ RA T+++WV F L+ +Y L +WLP L+ AGYS +++ +L Sbjct: 238 AGAPMLHLFKQDRAVGTLMIWVSFFCCLLMVYALGSWLPKLMASAGYSLGSSLSFLLALN 297 Query: 308 VGGVIGTLSLGRFIHRFGFTRVLGVCFLLACLSIALIGKVAAIPELLFVAVIVAGFCIVG 367 GGV+G + G RF +V+ F + ++IAL+G + P +L++ +IVAG +G Sbjct: 298 FGGVVGAIGGGWLGDRFTLPKVVVSFFTVGTVAIALLGFNSPTP-VLYLLIIVAGATTIG 356 Query: 368 GQPAVNALAGTFYPTTLRSTGIGWALGIGRIGSVVGPVIGGQLIALQWSNGSLFVAAAIP 427 Q + A FYP +RSTG+GWA G+GR G++VGP++GG L+A F+ AIP Sbjct: 357 TQILLYANTAQFYPLAIRSTGLGWASGVGRSGAIVGPLLGGALMAAALPLKMNFLVFAIP 416 Query: 428 ALISALTITRLHRRSQ 443 L++AL + R + Sbjct: 417 GLVAALAMGLFMLRYR 432 >gi|300310481|ref|YP_003774573.1| major facilitator superfamily permease [Herbaspirillum seropedicae SmR1] Length = 460 Score = 209 bits (532), Expect = 4e-55, Method: Compositional matrix adjust. Identities = 133/432 (30%), Positives = 218/432 (50%), Gaps = 3/432 (0%) Query: 11 TVHVDQVVEQGRFGAFQFSLLLLCGLCLIIDGFDVQAMGYVAPAIIADWGVSKASLGPVF 70 TV + ++++ G F FQ ++ L L +++DGFD Q +G+ P++I +WG+++ + P Sbjct: 11 TVDIGRMLDDGVFSGFQKLVVCLAALSIVMDGFDGQLIGFAIPSLIKEWGITRNAFAPAV 70 Query: 71 GAGLLGMLLGSLVLTPVGDRYGRRPVLIVSTLFFAVCMLVTPLVSSLDQLLVVRFITGFG 130 AGL+GM +GS DR+GRR +I S F V + + + ++RF G G Sbjct: 71 AAGLVGMGIGSAFAGLFADRFGRRMAIIGSVFVFGVATSLIAFSPDVTTIAILRFCAGLG 130 Query: 131 LGSIMPNAMALVGEFSPSSSRVTRMMLVSCGFTVGAAAGGFVSAALIPHHGWHSVFWVGG 190 +G +P++ + EFSP+ R + +G G + A++PH+GW +F +GG Sbjct: 131 IGGALPSSTTMTAEFSPARRRTLAVTATIVCVPLGGMLAGLFANAVLPHYGWRGLFLIGG 190 Query: 191 AVPLVLGLAMLVWLPESIQFLVLHRRPHAQVARWLRKLDPAIVIDDKSNIVVKEAKAEGM 250 +P+ + + +PES ++L H ++ R L+++ + D ++A Sbjct: 191 LLPVAFSVLLWFVIPESPRYLARHPHRWDELRRLLQRMSRPVSADTGFADAREQAIETRA 250 Query: 251 PVAALFRDGRAGVTVLLWVISFMNLINLYFLSNWLPTLIHDAGYSTSTAVLIATSLQVGG 310 ALF G+A T+ LWV FMNL+ +Y +WLPT++ G S S A T+ GG Sbjct: 251 GFGALFASGQARDTMALWVAFFMNLLAVYSAFSWLPTMLAGEGLSPSVAGAGLTAYNFGG 310 Query: 311 VIGTLSLGRFIHRFGFTRVLGVCFLLACLSIALIG--KVAAIPELLFVAVIVAGFCIVGG 368 V G L FI RFG + +C L A S + VA+ LL V + + G + Sbjct: 311 VFGALLCALFITRFGSRLPMLLCCLAATASALFLRSLDVASQTTLLVVGIGLHGLFVNAV 370 Query: 369 QPAVNALAGTFYPTTLRSTGIGWALGIGRIGSVVGPVIGGQLIALQWSNGSL-FVAAAIP 427 Q + AL YPT +R+TG AL GR+G+++ G +I + G L +A A+ Sbjct: 371 QSTMYALCAYIYPTQVRATGTAAALAFGRLGAILSAFAGALVITQGGAAGYLAMLAGAML 430 Query: 428 ALISALTITRLH 439 + AL + R H Sbjct: 431 MVFVALLVVRKH 442 >gi|300310615|ref|YP_003774707.1| major facilitator superfamily permease [Herbaspirillum seropedicae SmR1] Length = 478 Score = 107 bits (268), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 106/399 (26%), Positives = 174/399 (43%), Gaps = 35/399 (8%) Query: 18 VEQGRFGAFQFSLLLLCGLCLIIDGFDVQAMGYVAPAIIADWGVSKASLGPVFGAGLLGM 77 +E F + ++ G + D F ++ +V P ++ W +S A +G + +G LG Sbjct: 33 IENVPFSRWHTKARIIMGSATLFDAFHALSLAFVLPVLVGLWQLSAAQIGLLIASGYLGQ 92 Query: 78 LLGSLVLTPVGDRYGRRPVLIVSTLFFAVCMLVTPLVSSLDQLLVVRFITGFGLGSIMPN 137 ++G+L + +RYGR P V+ +V +V L S L + RF+ G G+G +P Sbjct: 93 VIGALFFGWMAERYGRVPSASVTVGLMSVLSIVCALTGSFHMLFLCRFLQGIGVGGEVPV 152 Query: 138 AMALVGEFSPSSSRVTRMMLVSCGFTVGAAAGGFVSAALIPHHGWHSVFWVGGAVPLVLG 197 A + E S + R +L F +G A V A L+P GW +F VGG +P +L Sbjct: 153 AATYINELSQAHGRGKFFVLYELIFPLGLLAAAQVGAFLVPRFGWEYMFLVGG-IPGILV 211 Query: 198 LAMLVWLPESIQFLVLHRR--PHAQVARWLRKLDPAIVIDDKSNIVVKEAKAEGMPVAAL 255 ++ LPES ++L+ R ++ R L P +D +++ E + + A Sbjct: 212 ALLITRLPESPRWLIARGRLDDAEKLIRTLEASTPKRNLDAQTDKQAIEQRINALAAGAG 271 Query: 256 FRD-------------GRAGVTVLLWVISFM--NLINLYFLSNWLPTLIHDAGYSTSTAV 300 R GR + LLW S+ N IN NWLP+L Y T + Sbjct: 272 KRQRGSWKELFSPVYRGRTIIVWLLWASSYFVANGIN-----NWLPSL-----YKTVYHL 321 Query: 301 LIATSLQVGGVIGTLS------LGRFIHRFGFTRVLGVCFLLACLSIALIGKVAAIPELL 354 + SL++ V LS I R G R F+L+ +AL+G + A Sbjct: 322 PLQESLRMASVSNVLSACAVLGCALLIDRVGRRRWAIASFILSGALLALLGVLKAESAWS 381 Query: 355 FVAVIVAGFCIVGGQPAVNAL-AGTFYPTTLRSTGIGWA 392 + + + + ++G + L YPT +R+ G G A Sbjct: 382 VMFLASSAYAVMGTTTVLLYLYTPEIYPTRMRAIGTGLA 420 >gi|300310666|ref|YP_003774758.1| major facilitator superfamily permease [Herbaspirillum seropedicae SmR1] Length = 438 Score = 98.6 bits (244), Expect = 8e-22, Method: Compositional matrix adjust. Identities = 99/407 (24%), Positives = 191/407 (46%), Gaps = 16/407 (3%) Query: 13 HVDQVVEQGRFGAFQFSLLLLCGLCLIIDGFDVQAMGYVAPAIIADWGVS---KASLGPV 69 V+Q ++ G FQ+ L ++ GL + D V ++G+ AP I +G++ G + Sbjct: 7 SVEQGLQAAGVGKFQYRLFVIFGLVWLADAMQVLSIGFSAPTIAKTFGLTVPQALQTGTM 66 Query: 70 FGAGLLGMLLGSLVLTPVGDRYGRRPVLIVSTLFFAVCMLVTPLVSSLDQLLVVRFITGF 129 F +GMLLG+ V + DR GRRPVL+ + + A + + LL +R +TG Sbjct: 67 F---FVGMLLGAFVFGRLADRIGRRPVLMGAVVIDACFGVASAFAPDFTWLLALRLLTGI 123 Query: 130 GLGSIMPNAMALVGEFSPSSSRVTRMMLVSCGFTVGAAAGGFVSAALIP--HHGWHSVFW 187 G+G +P ++ EF PS+ R ++++ + +G ++ + + W +F+ Sbjct: 124 GVGGTLPVDYTMMAEFLPSARRGRWLVMLESFWAIGTICLAVLALVAVSWGNDAWRVIFF 183 Query: 188 VGGAVPLVLGLAMLVWLPESIQFLVLHRRPHAQVARWLRKLDPAIVIDDKSNIV--VKEA 245 V G +P ++G+ + ++PES + L+R + AR + L+ ++ S + ++ Sbjct: 184 VTG-LPALVGVVLRFYVPESPMY--LNRSGKSDAAR--QVLERVAKVNGSSTPIPPLQPE 238 Query: 246 KAEGMPVAALFRDGRAGVTVLLWVISFMNLINLYFLSNWLPTLIHDAGYSTSTAVLIATS 305 E P++ALF ++ L++ + I Y + +LP + G+ + Sbjct: 239 VVERKPMSALFSAALRRRSLSLYLAWGLISIAYYGVFVYLPVKLGSEGFGFMRGQIFLIF 298 Query: 306 LQVGGVIGTLSLGRFIHRFGFTRVLGVCFLLACLSIALIGKVAAIPELLFVAVIVAGFCI 365 L + + G + R+G L V FL+ ++ + P L+ + ++ F + Sbjct: 299 LALVQLPGYALSAYGVERWGRKPTL-VGFLVLSAVGCMLYSLGKDPMLVVGSTLLLSFSL 357 Query: 366 VGGQPAVNALAGTFYPTTLRSTGIGWALGIGRIGSVVGPVIGGQLIA 412 +G A+ A YPT LR++G+G A + R G + P I ++A Sbjct: 358 LGTWAALYAFTPEVYPTDLRASGMGTAGAVARFGGLFAPAIVAPVMA 404 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 0.143 0.440 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: 1,388,438 Number of extensions: 57878 Number of successful extensions: 475 Number of sequences better than 1.0e-08: 28 Number of HSP's gapped: 442 Number of HSP's successfully gapped: 28 Length of query: 447 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 359 Effective length of database: 1,203,190 Effective search space: 431945210 Effective search space used: 431945210 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)