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= 0010.0001.p (360 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... 143 2e-35 gi|300311798|ref|YP_003775890.1| cation/multidrug efflux pump pr... 91 1e-19 gi|300310851|ref|YP_003774943.1| RND family efflux transporter M... 84 1e-17 gi|300310852|ref|YP_003774944.1| cation/multidrug efflux pump tr... 73 3e-14 gi|300310853|ref|YP_003774945.1| cation/multidrug efflux pump pr... 73 3e-14 >gi|300311797|ref|YP_003775889.1| membrane-fusion protein [Herbaspirillum seropedicae SmR1] Length = 403 Score = 143 bits (360), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 68/99 (68%), Positives = 79/99 (79%) Query: 1 VIINQIDPITVQFTLPEEAVPAINRAQLASRKPLKVTAYARTSNEPLATGTLILLNNQID 60 V+INQIDPIT+ FTLPEEAV INRAQ A ++PL+V+AYAR S E LATG L+LL+NQI+ Sbjct: 215 VVINQIDPITLVFTLPEEAVAGINRAQRAHQQPLQVSAYARDSQEVLATGKLVLLDNQIN 274 Query: 61 TASGTVQLKARFTNQQHVLWPGQYVNVNLQMDDHALSLT 99 T +GTVQLKARF N H LWPGQYVN LQM H +LT Sbjct: 275 TTNGTVQLKARFDNPDHKLWPGQYVNARLQMRSHGNALT 313 Score = 123 bits (308), Expect = 3e-29, Method: Compositional matrix adjust. Identities = 61/72 (84%), Positives = 66/72 (91%) Query: 234 RDQAQLTNAKIDLQRYTTLRQQDAATQQQLDTQKALVAQLEAAVKTDEAQISYAKVQLGY 293 +D A L NA++DLQRYTTLR QDAATQQQLDTQKALVAQLEAAVKTDEAQ++YAKVQL Y Sbjct: 125 KDSATLMNARLDLQRYTTLRSQDAATQQQLDTQKALVAQLEAAVKTDEAQVAYAKVQLSY 184 Query: 294 TTINAPISGRVA 305 TTINAPISGRV Sbjct: 185 TTINAPISGRVG 196 >gi|300311798|ref|YP_003775890.1| cation/multidrug efflux pump protein [Herbaspirillum seropedicae SmR1] Length = 1051 Score = 90.9 bits (224), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 42/50 (84%), Positives = 47/50 (94%) Query: 165 VVMVIFVFLRNIAATLIPSITVPLAIMGTAAVMYLVGYSLDNLSLMSAQV 214 VVMVIFVFLRN+AATLIPS+TVPLAIMGTA VMY+VGYSLDNLSLM+ + Sbjct: 357 VVMVIFVFLRNVAATLIPSVTVPLAIMGTAGVMYVVGYSLDNLSLMALTI 406 >gi|300310851|ref|YP_003774943.1| RND family efflux transporter MFP subunit [Herbaspirillum seropedicae SmR1] Length = 466 Score = 84.3 bits (207), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 42/84 (50%), Positives = 58/84 (69%) Query: 222 KAQLAQVQAQQARDQAQLTNAKIDLQRYTTLRQQDAATQQQLDTQKALVAQLEAAVKTDE 281 +A L Q + Q ARD+A L +A++DL+RY TL QD+ QQ+DTQ ALV Q E VK DE Sbjct: 96 QAALTQAEGQLARDRALLASARLDLKRYQTLLAQDSIASQQVDTQVALVKQYEGTVKADE 155 Query: 282 AQISYAKVQLGYTTINAPISGRVA 305 ++ A++QL +T + APISGR+ Sbjct: 156 GNVASARLQLSFTRVTAPISGRLG 179 Score = 79.7 bits (195), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 38/92 (41%), Positives = 60/92 (65%), Gaps = 1/92 (1%) Query: 1 VIINQIDPITVQFTLPEEAVPAINRAQLASRKPLKVTAYARTSNEPLATGTLILLNNQID 60 VII Q+ PIT F++PE+ +P + + QL S + L A+ R LA G L+ ++N +D Sbjct: 198 VIITQLQPITAIFSIPEDNIPKVLQ-QLQSGRKLPAQAWDREQKNKLADGVLLTIDNVVD 256 Query: 61 TASGTVQLKARFTNQQHVLWPGQYVNVNLQMD 92 +GTV+LKA+F N + L+P Q+VN+ LQ++ Sbjct: 257 ATTGTVKLKAQFPNTDYALFPSQFVNIRLQLN 288 >gi|300310852|ref|YP_003774944.1| cation/multidrug efflux pump transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 1048 Score = 73.2 bits (178), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 31/50 (62%), Positives = 44/50 (88%) Query: 165 VVMVIFVFLRNIAATLIPSITVPLAIMGTAAVMYLVGYSLDNLSLMSAQV 214 VVMVIFVFLRN+ AT+IPS+ VPL+++GT A+MYL G+S++NL+LM+ + Sbjct: 345 VVMVIFVFLRNVPATIIPSVAVPLSLVGTFAIMYLAGFSINNLTLMALTI 394 >gi|300310853|ref|YP_003774945.1| cation/multidrug efflux pump protein [Herbaspirillum seropedicae SmR1] Length = 1078 Score = 73.2 bits (178), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 35/70 (50%), Positives = 48/70 (68%) Query: 145 PSTRRSAVATAPTPSYGAIXVVMVIFVFLRNIAATLIPSITVPLAIMGTAAVMYLVGYSL 204 P+ R S T T V+MV+F+FLRN ATLIP++ VP++++GT VMYL G+SL Sbjct: 325 PTIRASLKETEFTLILSVALVIMVVFLFLRNARATLIPAVAVPVSLIGTFGVMYLAGFSL 384 Query: 205 DNLSLMSAQV 214 DNLSLM+ + Sbjct: 385 DNLSLMALTI 394 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 0.317 0.126 0.363 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: 747,308 Number of extensions: 22786 Number of successful extensions: 127 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 126 Number of HSP's successfully gapped: 10 Length of query: 360 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 274 Effective length of database: 1,212,660 Effective search space: 332268840 Effective search space used: 332268840 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 131 (55.1 bits)