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= 0001.3351.p (350 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312687|ref|YP_003776779.1| nitrate/sulfonate/bicarbonate A... 659 0.0 gi|300312686|ref|YP_003776778.1| nitrate/sulfonate/bicarbonate A... 472 e-134 gi|300312970|ref|YP_003777062.1| nitrate/sulfonate/bicarbonate A... 208 5e-55 >gi|300312687|ref|YP_003776779.1| nitrate/sulfonate/bicarbonate ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 353 Score = 659 bits (1700), Expect = 0.0, Method: Compositional matrix adjust. Identities = 334/353 (94%), Positives = 340/353 (96%), Gaps = 3/353 (0%) Query: 1 MRDDFSVLPAPNRPLRRVLMALG---ATAITACALGLSAPQARAADKIIIMVGGINKLIY 57 MRDDF V PA N LRR L+ LG +TAITACALGL+APQARAADKIIIMVGGINKLIY Sbjct: 1 MRDDFCVWPALNGRLRRRLLTLGITVSTAITACALGLAAPQARAADKIIIMVGGINKLIY 60 Query: 58 LPPKLAESLGYFKEEGLDVELQSQPAGVDAENELLAGAVQAVVGYYDHSIDLQSKGKEVT 117 LPPKLAESLGYFKEEGLDVELQSQPAGVDAENELLAGAVQAVVGYYDHSIDLQSKGKEVT Sbjct: 61 LPPKLAESLGYFKEEGLDVELQSQPAGVDAENELLAGAVQAVVGYYDHSIDLQSKGKEVT 120 Query: 118 SITQLLLVPGGMEMVRADLADSVRSMADLKGKTLGVTGLGSSSSFIAQYLANRAGLKAGD 177 SI QLLLVPGGMEMVRADLADSVRSMADLKGKTLGVTGLGSSSSFIAQYLANRAGLKAGD Sbjct: 121 SIAQLLLVPGGMEMVRADLADSVRSMADLKGKTLGVTGLGSSSSFIAQYLANRAGLKAGD 180 Query: 178 YSILPVGAGNTLIAAMKQKRVDVAWTTEPTTSILLASGAAKVLVDMSSVDGTKAALGGLY 237 YSILPVGAGNTLIAAMKQKRVDVAWTTEPTTSILLASGAAKVLVDMSSVDGTKAALGGLY Sbjct: 181 YSILPVGAGNTLIAAMKQKRVDVAWTTEPTTSILLASGAAKVLVDMSSVDGTKAALGGLY 240 Query: 238 PASSLYVHRAWMNSHKAESQKLARAFVKTLRYIQTHSAEDIADKMPKDYYGGNKAIYVQA 297 PASSLYVHR+WMNSHKAESQKLAR FVKTLRYIQTHSAEDIADKMPKDYYGG+KAIYVQA Sbjct: 241 PASSLYVHRSWMNSHKAESQKLARVFVKTLRYIQTHSAEDIADKMPKDYYGGSKAIYVQA 300 Query: 298 LKASLPMYSPDGKMPAGGPEQVLKVMAGFNPNIKGKNIDLSKTFTNEFVDAVK 350 LKASLPMYSPDGKMPAGGPEQVLKVMAGFNPNIKGKNIDLSKT+TNEFVD VK Sbjct: 301 LKASLPMYSPDGKMPAGGPEQVLKVMAGFNPNIKGKNIDLSKTYTNEFVDQVK 353 >gi|300312686|ref|YP_003776778.1| nitrate/sulfonate/bicarbonate ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 337 Score = 472 bits (1214), Expect = e-134, Method: Compositional matrix adjust. Identities = 231/339 (68%), Positives = 279/339 (82%), Gaps = 3/339 (0%) Query: 12 NRPLRRVLMALGATAITACALGLSAPQARAADKIIIMVGGINKLIYLPPKLAESLGYFKE 71 N+ +R+ L++L AI + L + A AA KI IMVGGINK++YLP KLAE LGYFKE Sbjct: 2 NKHIRQGLLSL---AIASTVLAGAPAPAWAAAKITIMVGGINKMVYLPAKLAEQLGYFKE 58 Query: 72 EGLDVELQSQPAGVDAENELLAGAVQAVVGYYDHSIDLQSKGKEVTSITQLLLVPGGMEM 131 EGLDVELQSQPAGVDAENELLAGAVQAVVG+YDHSIDLQ+KGKE+T+I L VPG +E+ Sbjct: 59 EGLDVELQSQPAGVDAENELLAGAVQAVVGFYDHSIDLQTKGKEITAIVILGQVPGEVEL 118 Query: 132 VRADLADSVRSMADLKGKTLGVTGLGSSSSFIAQYLANRAGLKAGDYSILPVGAGNTLIA 191 V A +SMAD KGKTLGVTGLGSS++F+ QYLA+R G+ + +S+LPVGA NT IA Sbjct: 119 VSTKAAPHFQSMADAKGKTLGVTGLGSSTNFLTQYLASRHGITSKQFSVLPVGADNTFIA 178 Query: 192 AMKQKRVDVAWTTEPTTSILLASGAAKVLVDMSSVDGTKAALGGLYPASSLYVHRAWMNS 251 AMKQ R+D TTEPT S LL +G A+VLVD+ +V+GT ALGGLYPASS+YV R+W+NS Sbjct: 179 AMKQGRIDAGMTTEPTASQLLKTGDAQVLVDLRTVEGTVKALGGLYPASSVYVQRSWLNS 238 Query: 252 HKAESQKLARAFVKTLRYIQTHSAEDIADKMPKDYYGGNKAIYVQALKASLPMYSPDGKM 311 HK ++QKLARAFVKTLR+IQTH+AE IADKMPKDYYG NK +Y+QAL SLPMYS DGKM Sbjct: 239 HKEDAQKLARAFVKTLRFIQTHTAEQIADKMPKDYYGNNKPLYIQALTNSLPMYSQDGKM 298 Query: 312 PAGGPEQVLKVMAGFNPNIKGKNIDLSKTFTNEFVDAVK 350 P GGP+ VL V++GFNPN+KGK++DLSKT+T+EFV+AVK Sbjct: 299 PKGGPQTVLAVLSGFNPNVKGKHVDLSKTYTDEFVNAVK 337 >gi|300312970|ref|YP_003777062.1| nitrate/sulfonate/bicarbonate ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 345 Score = 208 bits (530), Expect = 5e-55, Method: Compositional matrix adjust. Identities = 114/314 (36%), Positives = 172/314 (54%) Query: 33 GLSAPQARAADKIIIMVGGINKLIYLPPKLAESLGYFKEEGLDVELQSQPAGVDAENELL 92 G + QA K+ I VGG N YLP +AE LGYFK+EGL VE+ G A ++ Sbjct: 24 GSAGAQALEKPKVSIAVGGKNLFYYLPLTIAEQLGYFKDEGLQVEISDFAGGAKALQAMV 83 Query: 93 AGAVQAVVGYYDHSIDLQSKGKEVTSITQLLLVPGGMEMVRADLADSVRSMADLKGKTLG 152 G+ V G Y+H+I++Q+K + + + P + V + +++ADLKGK +G Sbjct: 84 GGSADVVSGAYEHTINMQAKNQPIVAFVLQGRAPQIVLAVNNKTMPNYKTVADLKGKKIG 143 Query: 153 VTGLGSSSSFIAQYLANRAGLKAGDYSILPVGAGNTLIAAMKQKRVDVAWTTEPTTSILL 212 VT GSS+S +A Y+ +AGLK D S + VGA I+A++ ++D +P S+L Sbjct: 144 VTAPGSSTSVMASYVLAKAGLKPSDVSFIGVGAAAGAISAVRSGQIDAIANLDPVISMLE 203 Query: 213 ASGAAKVLVDMSSVDGTKAALGGLYPASSLYVHRAWMNSHKAESQKLARAFVKTLRYIQT 272 S K + D ++ T GG PA++LY A++ + +Q L A V+ L++IQ Sbjct: 204 QSKEIKTIADTRTLKDTNDVFGGPMPAATLYAPAAFIQKYPNTTQALTNAMVRALKWIQK 263 Query: 273 HSAEDIADKMPKDYYGGNKAIYVQALKASLPMYSPDGKMPAGGPEQVLKVMAGFNPNIKG 332 DI +P+ Y G++++Y+ A SPDG P GGP+ L+ + F P++ Sbjct: 264 AGPSDIIKAVPESYLLGDRSLYIDAFMKVRQAISPDGYFPPGGPDTALRTLKAFEPSLAD 323 Query: 333 KNIDLSKTFTNEFV 346 K IDLSKTFTN FV Sbjct: 324 KQIDLSKTFTNSFV 337 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 0.316 0.132 0.370 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: 1,039,099 Number of extensions: 40609 Number of successful extensions: 172 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 171 Number of HSP's successfully gapped: 4 Length of query: 350 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 264 Effective length of database: 1,212,660 Effective search space: 320142240 Effective search space used: 320142240 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 (21.6 bits) S2: 131 (55.1 bits)