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= 0012.0056.p (415 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310405|ref|YP_003774497.1| arabinose efflux permease [Herb... 198 7e-52 gi|300312245|ref|YP_003776337.1| transmembrane efflux transmembr... 111 9e-26 gi|300312509|ref|YP_003776601.1| arabinose efflux permease [Herb... 90 4e-19 gi|300313915|ref|YP_003778007.1| transmembrane arabinose efflux ... 61 1e-10 >gi|300310405|ref|YP_003774497.1| arabinose efflux permease [Herbaspirillum seropedicae SmR1] Length = 422 Score = 198 bits (503), Expect = 7e-52, Method: Compositional matrix adjust. Identities = 147/359 (40%), Positives = 215/359 (59%), Gaps = 3/359 (0%) Query: 20 SETPVQAHWGGVFAMTLTAFALVASEFMPVSLLTPIAQDLGVSEGLAGQAISVSGAFAVL 79 E P A+W G+ ++ L F+LV +EF+P SLLT IA DL VS+G AGQA++ + + Sbjct: 30 QEAP--ANWSGIASLALGVFSLVTAEFLPASLLTAIASDLHVSDGAAGQAVTATAIVGAV 87 Query: 80 TSLSIARLAGQLPRKTLLLWLTALMLISGPVIALAPNYPVYMAGRVLIGIAIGGFWSMSA 139 + SI L + RK ++L L+ L+L+S + APN PV + RVL+G+A+GGFWSM+A Sbjct: 88 AAPSIPLLTRNIDRKRVVLMLSLLLLVSNILAVTAPNLPVLLVARVLLGVALGGFWSMAA 147 Query: 140 AAAIRLVPPHEVARALAVFNGGNALATVVAAPLGSYLGALIGWRGAFLCLAPVALLALLW 199 A A+RLVP H ARA+++ G ++ATV AAP+G+Y+G L GWR AF+ V+L+A+ Sbjct: 148 ALAMRLVPDHLFARAMSLILTGVSVATVCAAPIGAYMGNLWGWRSAFVAAGVVSLVAIAI 207 Query: 200 QALSLPAMRPAARHTAPTHPLALLATPLVALGMAGVSLLFMGQFTLFTYLRPFLESETRV 259 Q +++P + P H + LL V + + V L+ G F FTY+RP +E T + Sbjct: 208 QWIAIPRL-PPKDHPSLKVLAELLGRKDVRVALLAVLLVVSGHFAGFTYIRPLMEQITHM 266 Query: 260 QVQTLSLILLAIGVAGFIGTTLIGRLLRRSFYGTLVFIPLLMAVIAMALVACGHHVLPVS 319 V T+S +LL GV GF G G + RS +V L+A++A +L G + + Sbjct: 267 SVTTISAVLLGYGVGGFFGNFAGGFIAERSERYAIVSGGALIALLAASLWVAGSSPVVAA 326 Query: 320 LLLALWGLVATAAPVGWWSWVARTLPHDAEAGGGLMVALVQLAIGLGSTLGGLLFDHGG 378 + + LWG A PVG+ +W+ R P AE GGL+VA Q+AI G+ GG+L DH G Sbjct: 327 VAITLWGFAFGAFPVGFQTWIVRAAPDHAEGAGGLLVAAFQVAIASGAIGGGVLVDHVG 385 >gi|300312245|ref|YP_003776337.1| transmembrane efflux transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 395 Score = 111 bits (278), Expect = 9e-26, Method: Compositional matrix adjust. Identities = 84/262 (32%), Positives = 132/262 (50%), Gaps = 1/262 (0%) Query: 33 AMTLTAFALVASEFMPVSLLTPIAQDLGVSEGLAGQAISVSGAFAVLTSLSIARLAGQLP 92 A+T++AFA+ +EF+ + LL +A +LGVS AG ++ + + + G+LP Sbjct: 7 ALTISAFAIGTTEFVIMGLLPEVAANLGVSLSSAGLLVTGYALGVFVGAPLLTATTGRLP 66 Query: 93 RKTLLLWLTALMLISGPVIALAPNYPVYMAGRVLIGIAIGGFWSMSAAAAIRLVPPHEVA 152 RKTLL+ L + ++ A+AP+Y M GRV+ A G F+ + + A LVP + A Sbjct: 67 RKTLLVALMVVFVVGNLACAIAPDYTTLMIGRVVASFAHGAFFGVGSVVATSLVPKEKQA 126 Query: 153 RALAVFNGGNALATVVAAPLGSYLGALIGWRGAFLCLAPVALLALLWQALSLPAMRPAAR 212 A+A+ G +A V+ P G++LG GWR F + + ++AL A+ +P + Sbjct: 127 SAIALMFTGLTVANVLGVPFGTWLGQSYGWRATFWAVTVIGVIALAATAVLVPRSQ-GGE 185 Query: 213 HTAPTHPLALLATPLVALGMAGVSLLFMGQFTLFTYLRPFLESETRVQVQTLSLILLAIG 272 T + +L P V LG+ L F G F FTY+ P L + +S ILL G Sbjct: 186 ETDFGKEVRVLMRPQVMLGLLMTVLGFGGVFAAFTYIAPILTDLSGFPASAVSPILLLFG 245 Query: 273 VAGFIGTTLIGRLLRRSFYGTL 294 + IG G+L + TL Sbjct: 246 LGLVIGNLAGGKLADKKLMATL 267 >gi|300312509|ref|YP_003776601.1| arabinose efflux permease [Herbaspirillum seropedicae SmR1] Length = 385 Score = 89.7 bits (221), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 84/303 (27%), Positives = 137/303 (45%), Gaps = 5/303 (1%) Query: 31 VFAMTLTAFALVASEFMPVSLLTPIAQDLGVSEGLAGQAISVSGAFAVLTSLSIARLAGQ 90 +FA+ + AF + +EF+ + LL +A+DLGV+ AG +S + +A L + Sbjct: 5 LFALAVAAFGIGTTEFVIMGLLPDVARDLGVTAPAAGMLVSGYALGVAAGAPILAILTAK 64 Query: 91 LPRKTLLLWLTALMLISGPVIALAPNYPVYMAGRVLIGIAIGGFWSMSAAAAIRLVPPHE 150 PRK L+ L L ++ + ALAPNY M RV+ F+ + + A LV P + Sbjct: 65 WPRKQALVGLMCLFILGNVLCALAPNYVFLMVARVVTAFCHAAFFGIGSVVAAELVAPQK 124 Query: 151 VARALAVFNGGNALATVVAAPLGSYLGALIGWRGAFLCLAPVALLA--LLWQALSLPAMR 208 A+A+A+ G +A ++ PLG+ G GWR F + + +LA +LW LP Sbjct: 125 RAQAVALMFTGLTVANILGVPLGTAFGHAAGWRSTFGAVTAIGVLAAIMLWT--MLPKKI 182 Query: 209 PAARHTAPTHPLALLATPLVALGMAGVSLLFMGQFTLFTYLRPFLESETRVQVQTLSLIL 268 P +++ T V L + +L + F++ TY+ L T Q S +L Sbjct: 183 PMQAGNIFQEFRSIIDTR-VQLSLLTSTLASISMFSVITYIAYILLDVTGFTTQQESWVL 241 Query: 269 LAIGVAGFIGTTLIGRLLRRSFYGTLVFIPLLMAVIAMALVACGHHVLPVSLLLALWGLV 328 L G +G + G+L + + L +AV+ H+ P + WG Sbjct: 242 LLFGAGITVGGLVGGKLADWKLMPVMCGVFLCIAVVLGLFSITSHYKWPTLATMFAWGAF 301 Query: 329 ATA 331 A A Sbjct: 302 AFA 304 >gi|300313915|ref|YP_003778007.1| transmembrane arabinose efflux transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 403 Score = 61.2 bits (147), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 67/269 (24%), Positives = 122/269 (45%), Gaps = 1/269 (0%) Query: 34 MTLTAFALVASEFMPVSLLTPIAQDLGVSEGLAGQAISVSGAFAVLTSLSIARLAGQLPR 93 + L FA+ FM LL +A D G+S + + + L+S L+ + R Sbjct: 29 LALGTFAIGTEGFMIAPLLPRMAADFGMSVPMVASLVVIFTLVLALSSPISTVLSAAMNR 88 Query: 94 KTLLLWLTALMLISGPVIALAPNYPVYMAGRVLIGIAIGGFWSMSAAAAIRLVPPHEVAR 153 + +L+ + + A + ++ + R+L+ +A G + ++A A +V P + R Sbjct: 89 RRVLIAAMTAFTAANLLAACSSSFTGLLVARLLMAVAAGLYTPNASALAGAMVAPGQRGR 148 Query: 154 ALAVFNGGNALATVVAAPLGSYLGALIGWRGAFLCLAPVALLALLWQALSLPAMRPAARH 213 ALA+ +GG + + PLG+ +G GWR FL ++ + +AL L +P A H Sbjct: 149 ALAIVSGGMTSPSALGLPLGAVVGHAFGWRATFLAVSAMGAVALAGILLGVPRQAGAHLH 208 Query: 214 TAP-THPLALLATPLVALGMAGVSLLFMGQFTLFTYLRPFLESETRVQVQTLSLILLAIG 272 A +A++ P V +A L +G + + Y+ P+L +SL + G Sbjct: 209 VAGLRERMAVIGQPQVQRLLAVTLLWSVGAYAAYPYIAPYLSHVLSFGESRISLTVSLWG 268 Query: 273 VAGFIGTTLIGRLLRRSFYGTLVFIPLLM 301 A +G ++ G L R +V + LL+ Sbjct: 269 AAAAVGVSVGGTLNDRYGSARVVRVSLLL 297 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 0.138 0.418 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: 1,006,096 Number of extensions: 36325 Number of successful extensions: 352 Number of sequences better than 1.0e-08: 10 Number of HSP's gapped: 355 Number of HSP's successfully gapped: 10 Length of query: 415 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 327 Effective length of database: 1,203,190 Effective search space: 393443130 Effective search space used: 393443130 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)