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= 0016.0058.p (407 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311362|ref|YP_003775454.1| HlyD family secretion, possible... 811 0.0 gi|300312743|ref|YP_003776835.1| membrane-fusion protein [Herbas... 172 6e-44 gi|300309820|ref|YP_003773912.1| acriflavin resistance lipoprote... 94 2e-20 gi|300311797|ref|YP_003775889.1| membrane-fusion protein [Herbas... 72 6e-14 gi|300310689|ref|YP_003774781.1| RND family efflux transporter M... 68 1e-12 >gi|300311362|ref|YP_003775454.1| HlyD family secretion, possible efflux component [Herbaspirillum seropedicae SmR1] Length = 407 Score = 811 bits (2096), Expect = 0.0, Method: Compositional matrix adjust. Identities = 405/407 (99%), Positives = 406/407 (99%) Query: 1 LRMKLAQLRRPKFIFLALLVLLIAAWIIRSVLTPPAPPTYLSATARVADIQDVVLASGTV 60 +RMKLAQLRRPKFIFLALLVLLIAAWIIRSVLTPPAPPTYLSATARVADIQDVVLASGTV Sbjct: 1 MRMKLAQLRRPKFIFLALLVLLIAAWIIRSVLTPPAPPTYLSATARVADIQDVVLASGTV 60 Query: 61 KAYKQVSVGAQVSGQIKSLKVALGDQVKKGQLVAEIDSLTQANALASAEFSLQNLQAQLR 120 KAYKQVSVGAQVSGQIKSLKVALGDQVKKGQLVAEIDSLTQANALASAEFSLQNLQAQLR Sbjct: 61 KAYKQVSVGAQVSGQIKSLKVALGDQVKKGQLVAEIDSLTQANALASAEFSLQNLQAQLR 120 Query: 121 AKEASLKQAQLAYARQKMMLAGDASSRENFESAEATLNTTQADIAALQAQIKDGAIKVDT 180 AKEASLKQAQLAYARQKMMLAGDASSRENFESAEATLNTTQADIAALQAQIKDGAIKVDT Sbjct: 121 AKEASLKQAQLAYARQKMMLAGDASSRENFESAEATLNTTQADIAALQAQIKDGAIKVDT 180 Query: 181 ARLNLGYTRISSPIEGQVVAIVAQEGQTVNANQSTPTIIKVARMDTVTIKAQISEADVVR 240 ARLNLGYTRISSPIEGQVVAIVAQEGQTVNANQSTPTIIKVARMDTVTIKAQISEADVVR Sbjct: 181 ARLNLGYTRISSPIEGQVVAIVAQEGQTVNANQSTPTIIKVARMDTVTIKAQISEADVVR 240 Query: 241 VKPGQPVFFTILGDPDHRYRTTLRAIEPAPDSILQDDTSSSTTSITSSSSASSTAIYYNG 300 VKPGQPVFFTILGDPDHRYRTTLRAIEPAPDSILQDDTSSSTTSITSSSSASSTAIYYNG Sbjct: 241 VKPGQPVFFTILGDPDHRYRTTLRAIEPAPDSILQDDTSSSTTSITSSSSASSTAIYYNG 300 Query: 301 LLDVPNPDGKLRISMTTQVNIVLSEASNALVLPSTALGAKAADGSYTVRVLDDQGQAHER 360 LLDVPNPDGKLRISMTTQVNIVLSEASNALVLPSTALGAKAADGSYTVRVLDDQGQAHER Sbjct: 301 LLDVPNPDGKLRISMTTQVNIVLSEASNALVLPSTALGAKAADGSYTVRVLDDQGQAHER 360 Query: 361 KVRIGINTNALVQIVEGVKAGERVVTGTVLPGATASSSAHDGPPPHM 407 KVRIGINTNALVQIVEGVKAGERVVTGTVLPGA ASSSAHDGPPPHM Sbjct: 361 KVRIGINTNALVQIVEGVKAGERVVTGTVLPGAAASSSAHDGPPPHM 407 >gi|300312743|ref|YP_003776835.1| membrane-fusion protein [Herbaspirillum seropedicae SmR1] Length = 402 Score = 172 bits (435), Expect = 6e-44, Method: Compositional matrix adjust. Identities = 115/359 (32%), Positives = 187/359 (52%), Gaps = 25/359 (6%) Query: 42 SATARVADIQDVVLASGTVKAYKQVSVGAQVSGQIKSLKVALGDQVKKGQLVAEIDSLTQ 101 + T AD++ VV A+G V A V VG++V+GQI + V +G+ VK G+L+A + Q Sbjct: 60 TVTVERADLEQVVNATGNVVAQDYVDVGSKVAGQISDVDVVVGETVKAGKLLATVAPAVQ 119 Query: 102 ANALASAEFSLQNLQAQLRAKEASLKQAQLAYARQKMMLAGDASSRENFESAEATLNTTQ 161 ++ + + +L L+A+L + A L AQL + RQ + A +A+ E++ES+ + Sbjct: 120 SSRIENNRATLARLKAELAGQNAQLDFAQLQFQRQTQLKAENATREESYESSRMNMYAAA 179 Query: 162 ADIAALQAQIK--DGAIKVDTARLNLGYTRISSPIEGQVVAIVAQEGQTVNANQSTPTII 219 A + A AQI+ + AI+ D A TRI +P+ G +V + A+ GQ V ANQ ++ Sbjct: 180 ARVDATNAQIQQTEAAIREDEAVQK--QTRIEAPVSGTIVTLNARPGQMVAANQE--ALM 235 Query: 220 KVARMDTVTIKAQISEADVVRVKPGQPVFFTILGDPDHRYRTTLRAIEPAPDSILQDDTS 279 ++A + +T++ ++E DV R++ G +FT G P R+ LR I P Sbjct: 236 RIADLSRMTVQVPVAEEDVTRLQKGMTAYFTTPGYPGKRWSGKLRQIMLLP--------- 286 Query: 280 SSTTSITSSSSASSTAIYYNGLLDVPNPDGKLRISMTTQVNIVLSEASNALVLPSTALGA 339 T S +Y DV NP +L M+ V VL+ A + +P T + Sbjct: 287 ------TDDSGRQGKKAFYTVFFDVANPSRELMSGMSADVYFVLARAEHVPTIPRTLVTK 340 Query: 340 KAADGSYTVRVLDDQGQAHERKVRIGINTNALVQIVEGVKAGERVVTGTVLPGATASSS 398 DG+ TV+V+ G+ RK++IGI N Q++ G+K GE+V +LP A+S+ Sbjct: 341 PGMDGTQTVKVVLADGKLETRKIKIGIRDNERAQVLSGLKEGEQV----LLPANPAAST 395 >gi|300309820|ref|YP_003773912.1| acriflavin resistance lipoprotein A [Herbaspirillum seropedicae SmR1] Length = 402 Score = 94.4 bits (233), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 114/404 (28%), Positives = 188/404 (46%), Gaps = 59/404 (14%) Query: 12 KFIFLALLVLLIAAWIIRSVLTP-----PAPPTYLS----ATARVADIQDVVLASGTVKA 62 +F L + V IAA ++ P P PP+ +S A RVA ++ G V+A Sbjct: 6 RFTRLTMTVA-IAAALVACGQKPAAQGGPMPPSEVSVVTIAPQRVAITNEL---PGRVEA 61 Query: 63 YKQVSVGAQVSGQIKSLKVALGDQVKKGQLVAEIDSLTQANALASAEFSLQNLQAQLRAK 122 ++ V A+V+G ++ G +VK+GQ++ +ID A + SL++ QA L Sbjct: 62 FRVAQVRARVAGIVQKRVFKEGSEVKEGQVLFKIDP-------AQYKASLESAQATLARA 114 Query: 123 EASLKQAQLAYARQKMMLAGDASSRENFESAEATLNTTQADIAALQAQIKDGAIKVDTAR 182 +A+L Q L R K ++ +A S++ +++A A +AD+AA G V TA Sbjct: 115 QANLTQTTLTAQRYKPLVEVNAVSKQEYDNAVAAQKQAEADVAA-------GKAAVQTAS 167 Query: 183 LNLGYTRISSPIEGQVVAIVAQEGQTVNANQSTPTIIKVARMDTVTIKAQISEADVVRVK 242 LNLGY ++SPI G++ + EG V +T + V ++D V + S AD+++++ Sbjct: 168 LNLGYATVTSPISGRIGRALVTEGALVGQGDAT-QLALVQQLDPVYVNVTQSSADLLKLQ 226 Query: 243 ----PGQPVFFTILGDPDHRYRTTLRAIE-----PAPDSILQDDTSSSTTSITSSSSASS 293 GQ +G D++ TL +E P P +L D S + + S A Sbjct: 227 QAMAAGQ---LKSVG--DNKASVTLE-LENGQAYPLPGKLLFSDISVDENTGSVSLRA-- 278 Query: 294 TAIYYNGLLDVPNPDGKLRISMTTQVNIVLSEASNALVLPSTALGAKAADGSYTVRVLDD 353 + PNP L + I + AL++P A+ A G TV V++ Sbjct: 279 ---------EFPNPKRLLLPGTYVRAKIEQAVDEQALLVPQQAVVRDA--GGSTVMVVNA 327 Query: 354 QGQAHERKVRIGINTNALVQIVEGVKAGERVVTG---TVLPGAT 394 + + R V+ G Q+++G+K G+RV+ V PGAT Sbjct: 328 ENKVEPRPVKTGGARGNNWQVLDGLKEGDRVIVEGLQKVRPGAT 371 >gi|300311797|ref|YP_003775889.1| membrane-fusion protein [Herbaspirillum seropedicae SmR1] Length = 403 Score = 72.4 bits (176), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 87/353 (24%), Positives = 159/353 (45%), Gaps = 33/353 (9%) Query: 35 PAPPTYLSATARVADIQDVVLASGTVKAYKQVSVGAQVSGQIKSLKVALGDQVKKGQLVA 94 P P + A+ + D+ + GTV A V V ++ GQ++ + G+ VKKGQL+A Sbjct: 46 PPPVSVTLASVQERDLPQYLAGVGTVTANASVVVKTRIDGQLEKVGFQEGEDVKKGQLLA 105 Query: 95 EIDSLTQANALASAEFSLQNLQAQLRAKEASLKQAQLAYARQKMMLAGDASSRENFESAE 154 +ID+ LA AE A+L A+L R + + DA++++ Sbjct: 106 QIDARALQAQLAQAEAQRAK-------DSATLMNARLDLQRYTTLRSQDAATQQQ----- 153 Query: 155 ATLNTTQADIAALQAQIKDGAIKVDTARLNLGYTRISSPIEGQVVAIVAQEGQTVNANQS 214 L+T +A +A L+A +K +V A++ L YT I++PI G+V A + G V+A + Sbjct: 154 --LDTQKALVAQLEAAVKTDEAQVAYAKVQLSYTTINAPISGRVGARLVDPGNIVHATDA 211 Query: 215 TPTIIKVARMDTVTIKAQISEADVVRVKPGQPVFFTILGDPDHRYRTTLRAIEPAPDSIL 274 ++ + ++D +T+ + E V + Q H+ + A +L Sbjct: 212 NGLVV-INQIDPITLVFTLPEEAVAGINRAQRA---------HQQPLQVSAYARDSQEVL 261 Query: 275 QDDTSSSTTSITSSSSASSTAIYYNGLLDVPNPDGKLRISMTTQVNIVLSEASNALVLPS 334 + + + + ++ + D NPD KL + + NAL +P+ Sbjct: 262 ---ATGKLVLLDNQINTTNGTVQLKARFD--NPDHKLWPGQYVNARLQMRSHGNALTVPA 316 Query: 335 TALGAKAADGSYTVRVLDDQGQAHERKVRIGINTNALVQIVEG--VKAGERVV 385 A+ + G+Y V +D + QA + V++ + + + G V+AG+RVV Sbjct: 317 AAI-QRNQQGTY-VYAIDQEDQARMQPVKVERIQDGIAVLAAGNAVQAGQRVV 367 >gi|300310689|ref|YP_003774781.1| RND family efflux transporter MFP subunit [Herbaspirillum seropedicae SmR1] Length = 400 Score = 68.2 bits (165), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 50/172 (29%), Positives = 91/172 (52%), Gaps = 15/172 (8%) Query: 58 GTVKAYKQVSVGAQVSGQIKSLKVALGDQVKKGQLVAEIDSLTQANALASAEFSLQNLQA 117 G Y+ V QV+G IK+ G VK GQ++ +I+ AS + + + A Sbjct: 59 GRTSPYQIADVRPQVNGIIKARSFREGSDVKAGQVLYQINP-------ASYQAAYDSSVA 111 Query: 118 QLRAKEASLKQAQLAYARQKMMLAGDASSRENFESAEATLNTTQADIAALQAQIKDGAIK 177 L EAS++ A+L +R K ++A A S+++++ A A+L +AD+ + +A ++ Sbjct: 112 ALAKAEASVRTARLKASRYKELVAIKAVSQQDYDDAVASLGEAEADVGSARANVQ----- 166 Query: 178 VDTARLNLGYTRISSPIEGQVVAIVAQEGQTVNANQSTPTIIKVARMDTVTI 229 T+R+NL Y R+ +PI G++ G V ANQ+T + + ++D + + Sbjct: 167 --TSRINLDYARLDAPISGRIGKSSVTPGALVTANQTT-ALTTIQQLDPIYV 215 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 0.314 0.127 0.338 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: 1,041,706 Number of extensions: 36602 Number of successful extensions: 233 Number of sequences better than 1.0e-08: 13 Number of HSP's gapped: 212 Number of HSP's successfully gapped: 13 Length of query: 407 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 320 Effective length of database: 1,207,925 Effective search space: 386536000 Effective search space used: 386536000 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 (22.0 bits) S2: 132 (55.5 bits)