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= 0001.2128.p (420 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311797|ref|YP_003775889.1| membrane-fusion protein [Herbas... 606 e-174 gi|300310851|ref|YP_003774943.1| RND family efflux transporter M... 287 1e-78 gi|300309820|ref|YP_003773912.1| acriflavin resistance lipoprote... 162 6e-41 gi|300310689|ref|YP_003774781.1| RND family efflux transporter M... 132 4e-32 gi|300313894|ref|YP_003777986.1| RND family efflux transporter M... 129 3e-31 >gi|300311797|ref|YP_003775889.1| membrane-fusion protein [Herbaspirillum seropedicae SmR1] Length = 403 Score = 606 bits (1563), Expect = e-174, Method: Compositional matrix adjust. Identities = 328/400 (82%), Positives = 348/400 (87%), Gaps = 13/400 (3%) Query: 1 MNTSPTPRTPSTPSTSSMSFKRTTLAVGISTALLLAGGIAAWSTMQHASAADQPTTKTAP 60 M+TSPTP R + A LL GI W+ +Q ASAADQP K P Sbjct: 1 MSTSPTP-------------PRRSRLAIALAAALLMAGIGGWTHLQRASAADQPQAKAPP 47 Query: 61 PVAVTLARVQERDVPLYLAGVGTVTANASVVVKTRIDGQLDKVGFKEGEDVKKGQLLAQI 120 PV+VTLA VQERD+P YLAGVGTVTANASVVVKTRIDGQL+KVGF+EGEDVKKGQLLAQI Sbjct: 48 PVSVTLASVQERDLPQYLAGVGTVTANASVVVKTRIDGQLEKVGFQEGEDVKKGQLLAQI 107 Query: 121 DPRALQAQLAQAEAQRAKDAANLMNARLDLQRYTTLRSQDAATQQQLDTQKALVAQLEAA 180 D RALQAQLAQAEAQRAKD+A LMNARLDLQRYTTLRSQDAATQQQLDTQKALVAQLEAA Sbjct: 108 DARALQAQLAQAEAQRAKDSATLMNARLDLQRYTTLRSQDAATQQQLDTQKALVAQLEAA 167 Query: 181 VKTDEAQIAYAKVQLSYTTITAPISGRVGARLVDPGNIVHAADATGLVVINQIDPITLMF 240 VKTDEAQ+AYAKVQLSYTTI APISGRVGARLVDPGNIVHA DA GLVVINQIDPITL+F Sbjct: 168 VKTDEAQVAYAKVQLSYTTINAPISGRVGARLVDPGNIVHATDANGLVVINQIDPITLVF 227 Query: 241 TLPEEAVSGINRAQRNSQQPLKVIAYARDSQEVLATGKLVLLDNQINTSNGTVQLKARFD 300 TLPEEAV+GINRAQR QQPL+V AYARDSQEVLATGKLVLLDNQINT+NGTVQLKARFD Sbjct: 228 TLPEEAVAGINRAQRAHQQPLQVSAYARDSQEVLATGKLVLLDNQINTTNGTVQLKARFD 287 Query: 301 NAEHKLWPGQYVNARLQMTDHGSALTVPAAAIQRNQQGTYVYAINQDDQANMQAVKVDRI 360 N +HKLWPGQYVNARLQM HG+ALTVPAAAIQRNQQGTYVYAI+Q+DQA MQ VKV+RI Sbjct: 288 NPDHKLWPGQYVNARLQMRSHGNALTVPAAAIQRNQQGTYVYAIDQEDQARMQPVKVERI 347 Query: 361 QDGIAVLAAGSGVTVDQRVVIDGQYKLKPGSRIVESKPQP 400 QDGIAVLAAG+ V QRVVIDGQYKLKPGSRIVESKPQP Sbjct: 348 QDGIAVLAAGNAVQAGQRVVIDGQYKLKPGSRIVESKPQP 387 >gi|300310851|ref|YP_003774943.1| RND family efflux transporter MFP subunit [Herbaspirillum seropedicae SmR1] Length = 466 Score = 287 bits (734), Expect = 1e-78, Method: Compositional matrix adjust. Identities = 154/333 (46%), Positives = 220/333 (66%), Gaps = 5/333 (1%) Query: 61 PVAVTLARVQERDVPLYLAGVGTVTANASVVVKTRIDGQLDKVGFKEGEDVKKGQLLAQI 120 PV V AR+Q DV ++L G+G VT A+ V+ R+DGQL K+ +KEG+ VK G LLA+I Sbjct: 33 PVGVAKARLQ--DVNVFLNGLGAVTPTATATVRARVDGQLMKLHYKEGQVVKAGDLLAEI 90 Query: 121 DPRALQAQLAQAEAQRAKDAANLMNARLDLQRYTTLRSQDAATQQQLDTQKALVAQLEAA 180 DPR+LQA L QAE Q A+D A L +ARLDL+RY TL +QD+ QQ+DTQ ALV Q E Sbjct: 91 DPRSLQAALTQAEGQLARDRALLASARLDLKRYQTLLAQDSIASQQVDTQVALVKQYEGT 150 Query: 181 VKTDEAQIAYAKVQLSYTTITAPISGRVGARLVDPGNIVHAADATGLVVINQIDPITLMF 240 VK DE +A A++QLS+T +TAPISGR+G R D GN V +D GLV+I Q+ PIT +F Sbjct: 151 VKADEGNVASARLQLSFTRVTAPISGRLGLRQADVGNNVTTSDTNGLVIITQLQPITAIF 210 Query: 241 TLPEEAVSGINRAQRNSQQPLKVIAYARDSQEVLATGKLVLLDNQINTSNGTVQLKARFD 300 ++PE+ + + + Q S + L A+ R+ + LA G L+ +DN ++ + GTV+LKA+F Sbjct: 211 SIPEDNIPKVLQ-QLQSGRKLPAQAWDREQKNKLADGVLLTIDNVVDATTGTVKLKAQFP 269 Query: 301 NAEHKLWPGQYVNARLQMTDHGSALTVPAAAIQRNQQGTYVYAINQDDQANMQAVKVDRI 360 N ++ L+P Q+VN RLQ+ A +P AAIQR +G +VY + D ++ VK + Sbjct: 270 NTDYALFPSQFVNIRLQLNTEQGATVIPTAAIQRGSKGLFVYVVKDDSSVTVRPVKTGPV 329 Query: 361 QDGIAVLAAGSGVTVDQRVVIDGQYKLKPGSRI 393 QD + V+ GV+ + VVIDG +L+ G+++ Sbjct: 330 QDDLTVIT--DGVSAGETVVIDGIDRLREGAKV 360 >gi|300309820|ref|YP_003773912.1| acriflavin resistance lipoprotein A [Herbaspirillum seropedicae SmR1] Length = 402 Score = 162 bits (409), Expect = 6e-41, Method: Compositional matrix adjust. Identities = 133/411 (32%), Positives = 203/411 (49%), Gaps = 30/411 (7%) Query: 16 SSMS-FKRTTLAVGISTALLLAGGIAAWSTMQHASAADQPTTKTAPPVAVTLARVQERDV 74 SS+S F R T+ V I+ AL+ G Q +A P PP V++ + + V Sbjct: 2 SSVSRFTRLTMTVAIAAALVACG--------QKPAAQGGPM----PPSEVSVVTIAPQRV 49 Query: 75 PLYLAGVGTVTANASVVVKTRIDGQLDKVGFKEGEDVKKGQLLAQIDPRALQAQLAQAEA 134 + G V A V+ R+ G + K FKEG +VK+GQ+L +IDP +A L A+A Sbjct: 50 AITNELPGRVEAFRVAQVRARVAGIVQKRVFKEGSEVKEGQVLFKIDPAQYKASLESAQA 109 Query: 135 QRAKDAANLMNARLDLQRYTTLRSQDAATQQQLDTQKALVAQLEAAVKTDEAQIAYAKVQ 194 A+ ANL L QRY L +A ++Q+ D A Q EA V +A + A + Sbjct: 110 TLARAQANLTQTTLTAQRYKPLVEVNAVSKQEYDNAVAAQKQAEADVAAGKAAVQTASLN 169 Query: 195 LSYTTITAPISGRVGARLVDPGNIVHAADATGLVVINQIDPITLMFTLPEEAVSGINRAQ 254 L Y T+T+PISGR+G LV G +V DAT L ++ Q+DP+ + T + + +A Sbjct: 170 LGYATVTSPISGRIGRALVTEGALVGQGDATQLALVQQLDPVYVNVTQSSADLLKLQQAM 229 Query: 255 RNSQQPLKVIAYARDS--------QEVLATGKLVLLDNQINTSNGTVQLKARFDNAEHKL 306 Q LK + + S Q GKL+ D ++ + G+V L+A F N + L Sbjct: 230 AAGQ--LKSVGDNKASVTLELENGQAYPLPGKLLFSDISVDENTGSVSLRAEFPNPKRLL 287 Query: 307 WPGQYVNARLQMTDHGSALTVPAAAIQRNQQGTYVYAINQDDQANMQAVKVDRIQ-DGIA 365 PG YV A+++ AL VP A+ R+ G+ V +N +++ + VK + + Sbjct: 288 LPGTYVRAKIEQAVDEQALLVPQQAVVRDAGGSTVMVVNAENKVEPRPVKTGGARGNNWQ 347 Query: 366 VLAAGSGVTVDQRVVIDGQYKLKPGSRIVESKPQPAKAAGAGAGSVGTEAK 416 VL G+ RV+++G K++PG+ + KP AGA A + G AK Sbjct: 348 VL---DGLKEGDRVIVEGLQKVRPGATV---KPVQWNPAGAPAQASGQPAK 392 >gi|300310689|ref|YP_003774781.1| RND family efflux transporter MFP subunit [Herbaspirillum seropedicae SmR1] Length = 400 Score = 132 bits (333), Expect = 4e-32, Method: Compositional matrix adjust. Identities = 100/309 (32%), Positives = 147/309 (47%), Gaps = 10/309 (3%) Query: 92 VKTRIDGQLDKVGFKEGEDVKKGQLLAQIDPRALQAQLAQAEAQRAKDAANLMNARLDLQ 151 V+ +++G + F+EG DVK GQ+L QI+P + QA + A AK A++ ARL Sbjct: 69 VRPQVNGIIKARSFREGSDVKAGQVLYQINPASYQAAYDSSVAALAKAEASVRTARLKAS 128 Query: 152 RYTTLRSQDAATQQQLDTQKALVAQLEAAVKTDEAQIAYAKVQLSYTTITAPISGRVGAR 211 RY L + A +QQ D A + + EA V + A + +++ L Y + APISGR+G Sbjct: 129 RYKELVAIKAVSQQDYDDAVASLGEAEADVGSARANVQTSRINLDYARLDAPISGRIGKS 188 Query: 212 LVDPGNIVHAADATGLVVINQIDPITLMFTLPEEAVSGINRAQRNSQ-----QPLKVIAY 266 V PG +V A T L I Q+DPI + T + A N Q KV Sbjct: 189 SVTPGALVTANQTTALTTIQQLDPIYVDVTQSSTTWLNLKEALANGQLEKSGNGAKVRLV 248 Query: 267 ARDSQEVLATGKLVLLDNQINTSNGTVQLKARFDNAEHKLWPGQYVNARLQMTDHGSALT 326 + + G L D +N G + L+A F N + L PG YV A LQ L Sbjct: 249 LENGRTYAQEGTLQFSDVTVNQDTGAITLRAIFPNPKTDLLPGMYVRAVLQEGVRQQGLL 308 Query: 327 VPAAAIQRNQQGTYV-YAINQDDQANMQAVKVDR-IQDGIAVLAAGSGVTVDQRVVIDGQ 384 VP A+ R+ G V + +N +A+ DR I D V SG+ ++V+DGQ Sbjct: 309 VPQQAVSRDGAGKPVAFVVNAQGVVEQRALVTDRAIGDQWLV---SSGLKEGDQLVVDGQ 365 Query: 385 YKLKPGSRI 393 + G+++ Sbjct: 366 QRASAGAKV 374 >gi|300313894|ref|YP_003777986.1| RND family efflux transporter MFP subunit [Herbaspirillum seropedicae SmR1] Length = 428 Score = 129 bits (325), Expect = 3e-31, Method: Compositional matrix adjust. Identities = 120/399 (30%), Positives = 185/399 (46%), Gaps = 34/399 (8%) Query: 5 PTPRTPSTPSTSSMSFKRTTLAVGISTALLLAGGIAAWSTMQHASAADQPTTKTAPPVAV 64 PT TP +S + R L+ L+L +AA S + DQP V Sbjct: 3 PTASTPRRQGRTSSATARLALS------LILVAVLAACS-----RSGDQPKPTAQAEVGY 51 Query: 65 TLARVQERDVPLYLAGVGTVTANASVVVKTRIDGQLDKVGFKEGEDVKKGQLLAQIDPRA 124 + + Q + + L G TA + ++ ++ G + K FKEG VK GQ L QIDP + Sbjct: 52 VVVKAQRQALTTELPG--RTTAYLAADIRPQVGGIIQKRLFKEGSTVKAGQPLYQIDPAS 109 Query: 125 LQAQLAQAEAQRAKDAANLMNARLDLQRYTTLRSQDAATQQQLDTQKALVAQLEAAVKTD 184 QA A A K A L +++L +RY L DA ++Q D ++ + Q +A V+ Sbjct: 110 YQAAYDSARASLLKAEATLASSKLKAERYAELNKIDAVSKQDNDDAQSTLRQNQADVEVQ 169 Query: 185 EAQIAYAKVQLSYTTITAPISGRVGARLVDPGNIVHAADATGLVVINQIDPITL------ 238 +A + A + L YT I +PISGR+ V PG +V A+ T L + QIDPI + Sbjct: 170 KAAVQTAAINLQYTKILSPISGRIEKSAVTPGALVTASQTTALTTVQQIDPIYVDVTQST 229 Query: 239 --MFTLPEEAVSG-INRAQRNSQQPLKVIAYARDSQEVLATGKLVLLDNQINTSNGTVQL 295 + L E SG I ++ N+ Q +K++ D GKL ++T G + L Sbjct: 230 VDLLRLRRELASGQIRKSGENAAQ-VKIV--LEDGSTYERPGKLEFTGLSVDTGTGMITL 286 Query: 296 KARFDNAEHKLWPGQYVNARLQ--MTDHGSALTVPAAAIQRNQQG-TYVYAINQDDQANM 352 +A N + L PG YV A L+ + DH AL P A+ R+Q G + D + Sbjct: 287 RAVVPNPDGVLLPGAYVRAVLEEGVDDH--ALLAPQKAVSRDQTGAATALVLGADGKVQQ 344 Query: 353 QAVKVDR-IQDGIAVLAAGSGVTVDQRVVIDGQYKLKPG 390 + V V R + + V G+ ++++DG K++ G Sbjct: 345 RLVSVARAVGNNWWV---SRGLKEGDKLIVDGLQKVRTG 380 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 0.313 0.126 0.342 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: 1,000,904 Number of extensions: 36152 Number of successful extensions: 167 Number of sequences better than 1.0e-08: 11 Number of HSP's gapped: 153 Number of HSP's successfully gapped: 11 Length of query: 420 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 332 Effective length of database: 1,203,190 Effective search space: 399459080 Effective search space used: 399459080 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 42 (21.9 bits) S2: 132 (55.5 bits)