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= 0004.0056.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|300312340|ref|YP_003776432.1| transporter transmembrane prote... 729 0.0 gi|300312509|ref|YP_003776601.1| arabinose efflux permease [Herb... 71 1e-13 gi|300313915|ref|YP_003778007.1| transmembrane arabinose efflux ... 71 2e-13 gi|300312245|ref|YP_003776337.1| transmembrane efflux transmembr... 60 2e-10 gi|300309575|ref|YP_003773667.1| proline/betaine transporter pro... 60 3e-10 >gi|300312340|ref|YP_003776432.1| transporter transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 421 Score = 729 bits (1881), Expect = 0.0, Method: Compositional matrix adjust. Identities = 369/426 (86%), Positives = 390/426 (91%), Gaps = 6/426 (1%) Query: 3 QHPPRQPASPPAPAGFTRYQKTVVGLLAFLQFAVILDFMLMSPLGAVIMPAMQITPQQFG 62 HP SPP GFT YQK V GLLAFLQFAVILDFMLMSPLGA+IMP+MQITPQQFG Sbjct: 2 NHPATPSLSPPV-QGFTPYQKIVTGLLAFLQFAVILDFMLMSPLGALIMPSMQITPQQFG 60 Query: 63 LVVSAYAFSAGASGLLTAGFADRFDRKRLLLFFYSGFVLGTVWCGLAQSFESLLIARIVT 122 LVVSAYAFSAGASGLLTAGFADRFDRKRLLLFFY GFVLGTVWCGLAQSFESLL+ARIVT Sbjct: 61 LVVSAYAFSAGASGLLTAGFADRFDRKRLLLFFYGGFVLGTVWCGLAQSFESLLLARIVT 120 Query: 123 GLFGGVIGSITLAIATDLFAPQLRGRVMGIIQTAFAASQVLGIPIGLYLSNTWNWHVPFL 182 GLFGGVIGSITLAIATDLFAP LRGRVMG+IQT+FAASQVLGIPIGLYLSN WNWHVPFL Sbjct: 121 GLFGGVIGSITLAIATDLFAPHLRGRVMGVIQTSFAASQVLGIPIGLYLSNRWNWHVPFL 180 Query: 183 AMAALGAVGGIVVSFKMQPVDGHLKLKQEHTAWMHLYHTITEPRYLTAFATTALLMTGGF 242 AMAALG GG+VV +MQPVDGHL LKQEH+AWMHLYHT+ EPRYLTAFATTALLMTGGF Sbjct: 181 AMAALGLAGGLVVLVRMQPVDGHLTLKQEHSAWMHLYHTLAEPRYLTAFATTALLMTGGF 240 Query: 243 MLMPFSSAYLVGNLGIDLHHLPTVYLVTGLCTIAFGPLIGRAADKVGKFRVFVFGAVLSI 302 MLMPFSSAYLVGNLGID+ HLPT+YLVTGLCTIAFGPLIGRAADK+GK RVF+FGAVLSI Sbjct: 241 MLMPFSSAYLVGNLGIDMAHLPTIYLVTGLCTIAFGPLIGRAADKLGKLRVFLFGAVLSI 300 Query: 303 IMVLIYTHLGPVTVPMIVLVNAVLFLGIFSRMIPFQALVSSVPATTQRGSFNAISASIQQ 362 IMVLIYTHLG VTVPMIV VNAVLFLGIFSRMIPFQALVSSVPA TQRGSFNAISASIQQ Sbjct: 301 IMVLIYTHLGRVTVPMIVAVNAVLFLGIFSRMIPFQALVSSVPAATQRGSFNAISASIQQ 360 Query: 363 LSGGVASIVAGHIVTLGADGRLQHFDVVGYVIVGTTLLASVLVWRLNRDVQARAAILAAA 422 LSGGVAS++AGHIVTL DGRL HFD+VG+VIVGTTLLASVLVWRL+RD+QAR + Sbjct: 361 LSGGVASVIAGHIVTLAPDGRLGHFDIVGFVIVGTTLLASVLVWRLHRDLQAR-----ES 415 Query: 423 AQASPA 428 A A+PA Sbjct: 416 AAATPA 421 >gi|300312509|ref|YP_003776601.1| arabinose efflux permease [Herbaspirillum seropedicae SmR1] Length = 385 Score = 71.2 bits (173), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 64/253 (25%), Positives = 113/253 (44%), Gaps = 7/253 (2%) Query: 54 MQITPQQFGLVVSAYAFSAGASGLLTAGFADRFDRKRLLLFFYSGFVLGTVWCGLAQSFE 113 + +T G++VS YA A + A ++ RK+ L+ F+LG V C LA ++ Sbjct: 33 LGVTAPAAGMLVSGYALGVAAGAPILAILTAKWPRKQALVGLMCLFILGNVLCALAPNYV 92 Query: 114 SLLIARIVTGLFGGVIGSITLAIATDLFAPQLRGRVMGIIQTAFAASQVLGIPIGLYLSN 173 L++AR+VT I +A +L APQ R + + ++ T + +LG+P+G + Sbjct: 93 FLMVARVVTAFCHAAFFGIGSVVAAELVAPQKRAQAVALMFTGLTVANILGVPLGTAFGH 152 Query: 174 TWNWHVPFLAMAALGAVGGIVVSFKMQPVDGHLKLKQEHTAWMHLYHTITEPRYLTAFAT 233 W F A+ A+G + I++ + M P K+ + + +I + R + T Sbjct: 153 AAGWRSTFGAVTAIGVLAAIML-WTMLPK----KIPMQAGNIFQEFRSIIDTRVQLSLLT 207 Query: 234 TALLMTGGFMLMPFSSAYLVGNLGIDLHHLPTVYLVTGLCTIAFGPLIGRAADKVGKFRV 293 + L F ++ + + L+ G V L+ G G + G+ AD K Sbjct: 208 STLASISMFSVITYIAYILLDVTGFTTQQESWVLLLFGAGITVGGLVGGKLADW--KLMP 265 Query: 294 FVFGAVLSIIMVL 306 + G L I +VL Sbjct: 266 VMCGVFLCIAVVL 278 >gi|300313915|ref|YP_003778007.1| transmembrane arabinose efflux transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 403 Score = 70.9 bits (172), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 71/266 (26%), Positives = 119/266 (44%), Gaps = 34/266 (12%) Query: 3 QHPPRQPASPPAPAGFTRYQKTVV-GLLAFLQFAVILDFMLMSPLGAVIMPAMQITPQQF 61 PP P++P A A T+ + G LA FA+ + +++PL +P M F Sbjct: 2 NPPPLGPSAPSACASPTQAGSLLTAGFLALGTFAIGTEGFMIAPL----LPRMA---ADF 54 Query: 62 GLVVS-----------AYAFSAGASGLLTAGFADRFDRKRLLLFFYSGFVLGTVWCGLAQ 110 G+ V A S+ S +L+A +R+R+L+ + F + + Sbjct: 55 GMSVPMVASLVVIFTLVLALSSPISTVLSAAM----NRRRVLIAAMTAFTAANLLAACSS 110 Query: 111 SFESLLIARIVTGLFGGVIGSITLAIATDLFAPQLRGRVMGIIQTAFAASQVLGIPIGLY 170 SF LL+AR++ + G+ A+A + AP RGR + I+ + LG+P+G Sbjct: 111 SFTGLLVARLLMAVAAGLYTPNASALAGAMVAPGQRGRALAIVSGGMTSPSALGLPLGAV 170 Query: 171 LSNTWNWHVPFLAMAALGAV--GGIVVSFKMQPVDGHLKLK--QEHTAWMHLYHTITEPR 226 + + + W FLA++A+GAV GI++ Q HL + +E A I +P+ Sbjct: 171 VGHAFGWRATFLAVSAMGAVALAGILLGVPRQ-AGAHLHVAGLRERMA------VIGQPQ 223 Query: 227 YLTAFATTALLMTGGFMLMPFSSAYL 252 A T L G + P+ + YL Sbjct: 224 VQRLLAVTLLWSVGAYAAYPYIAPYL 249 >gi|300312245|ref|YP_003776337.1| transmembrane efflux transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 395 Score = 60.5 bits (145), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 35/129 (27%), Positives = 60/129 (46%) Query: 62 GLVVSAYAFSAGASGLLTAGFADRFDRKRLLLFFYSGFVLGTVWCGLAQSFESLLIARIV 121 GL+V+ YA L R RK LL+ FV+G + C +A + +L+I R+V Sbjct: 41 GLLVTGYALGVFVGAPLLTATTGRLPRKTLLVALMVVFVVGNLACAIAPDYTTLMIGRVV 100 Query: 122 TGLFGGVIGSITLAIATDLFAPQLRGRVMGIIQTAFAASQVLGIPIGLYLSNTWNWHVPF 181 G + +AT L + + + ++ T + VLG+P G +L ++ W F Sbjct: 101 ASFAHGAFFGVGSVVATSLVPKEKQASAIALMFTGLTVANVLGVPFGTWLGQSYGWRATF 160 Query: 182 LAMAALGAV 190 A+ +G + Sbjct: 161 WAVTVIGVI 169 >gi|300309575|ref|YP_003773667.1| proline/betaine transporter protein [Herbaspirillum seropedicae SmR1] Length = 433 Score = 60.5 bits (145), Expect = 3e-10, Method: Compositional matrix adjust. Identities = 70/268 (26%), Positives = 121/268 (45%), Gaps = 33/268 (12%) Query: 76 GLLTAGFADRFDRKRLLLFFYSGFVLGTVWCGLAQSFESL--------LIARIVTGLF-G 126 G+L +ADR RK L +GT GLA ++ES+ ++AR++ G G Sbjct: 79 GILLGIYADRVGRKAALSVTILLMAVGTTMIGLAPTYESIGLFAPLIIVVARLLQGFSAG 138 Query: 127 GVIGSITLAIATDLFAPQLRGRVMGIIQTAFAASQVLGIPIGLYLSNT--------WNWH 178 G +GS T A T+ + R IQ + + +LG +G +++ + W W Sbjct: 139 GEMGSAT-AFLTEYAPERERAYYSSWIQASIGVAVLLGAAVGTFVTASLDAAALASWGWR 197 Query: 179 VPFLAMAALGAVGGIVVSFKMQPVDGHLKLKQEHTAWMHLYHTITE-PRYLTA-FATTAL 236 +PFL +G VG + ++ L+ K + + L I PR +A F+ L Sbjct: 198 LPFLLGIIIGPVG-YYIRHHLEETPTFLEEKDKTDS--PLKEVIRNFPRETSASFSMVIL 254 Query: 237 LMTGGFMLMPFSSAYLVGNLGIDLHHLPTVYLVTGLCTIAFGPLIGRAADKVGKFRVFVF 296 ++L+ + Y V L + +V GLC + P++GR AD++G+ R + Sbjct: 255 WTVCTYVLLFYMPTYSVKVLKLPQTTGFIAGMVGGLCIMVLAPIVGRLADRIGR-RPLLS 313 Query: 297 GAVLSIIMVLIYTHLGPVTVPMIVLVNA 324 G+ ++I++L Y PM +N+ Sbjct: 314 GSA-ALILMLAY--------PMFAYINS 332 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 0.141 0.422 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: 1,237,764 Number of extensions: 53307 Number of successful extensions: 327 Number of sequences better than 1.0e-08: 14 Number of HSP's gapped: 323 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)