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= 0001.3350.p (337 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312686|ref|YP_003776778.1| nitrate/sulfonate/bicarbonate A... 629 0.0 gi|300312687|ref|YP_003776779.1| nitrate/sulfonate/bicarbonate A... 469 e-134 gi|300312970|ref|YP_003777062.1| nitrate/sulfonate/bicarbonate A... 217 1e-57 >gi|300312686|ref|YP_003776778.1| nitrate/sulfonate/bicarbonate ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 337 Score = 629 bits (1621), Expect = 0.0, Method: Compositional matrix adjust. Identities = 312/337 (92%), Positives = 325/337 (96%) Query: 1 VNKNIRHGLLWLAVAGTVLAALPMQASAAAKITIMVGGINKMVYLPAKLAEQLGYFKEEG 60 +NK+IR GLL LA+A TVLA P A AAAKITIMVGGINKMVYLPAKLAEQLGYFKEEG Sbjct: 1 MNKHIRQGLLSLAIASTVLAGAPAPAWAAAKITIMVGGINKMVYLPAKLAEQLGYFKEEG 60 Query: 61 LDVELQSQPAGVDAENELLAGAVQAVVGFYDHAIDLQTKGKEITAITILGQVPGEVELVS 120 LDVELQSQPAGVDAENELLAGAVQAVVGFYDH+IDLQTKGKEITAI ILGQVPGEVELVS Sbjct: 61 LDVELQSQPAGVDAENELLAGAVQAVVGFYDHSIDLQTKGKEITAIVILGQVPGEVELVS 120 Query: 121 SKSAPHFQSMADAKGKTLGVTGLGSSTNFLTQYLAARQGISSKQFSVLPVGADNTFIAAM 180 +K+APHFQSMADAKGKTLGVTGLGSSTNFLTQYLA+R GI+SKQFSVLPVGADNTFIAAM Sbjct: 121 TKAAPHFQSMADAKGKTLGVTGLGSSTNFLTQYLASRHGITSKQFSVLPVGADNTFIAAM 180 Query: 181 KQGRIDAGMTTEPTASQLLKTGDAKVLVDMRTVEGTVQALGGLYPASSVYVQRSWLNSHK 240 KQGRIDAGMTTEPTASQLLKTGDA+VLVD+RTVEGTV+ALGGLYPASSVYVQRSWLNSHK Sbjct: 181 KQGRIDAGMTTEPTASQLLKTGDAQVLVDLRTVEGTVKALGGLYPASSVYVQRSWLNSHK 240 Query: 241 EDAQKLARAFVKTLRFIHTHTAEEIADKMPKDYYGNNKPLYIQALHNSLPMYSQDGKMPK 300 EDAQKLARAFVKTLRFI THTAE+IADKMPKDYYGNNKPLYIQAL NSLPMYSQDGKMPK Sbjct: 241 EDAQKLARAFVKTLRFIQTHTAEQIADKMPKDYYGNNKPLYIQALTNSLPMYSQDGKMPK 300 Query: 301 GGPETVLAVLSGFNPNVKGKHVDLSKTYTDEFVNAVK 337 GGP+TVLAVLSGFNPNVKGKHVDLSKTYTDEFVNAVK Sbjct: 301 GGPQTVLAVLSGFNPNVKGKHVDLSKTYTDEFVNAVK 337 >gi|300312687|ref|YP_003776779.1| nitrate/sulfonate/bicarbonate ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 353 Score = 469 bits (1208), Expect = e-134, Method: Compositional matrix adjust. Identities = 227/325 (69%), Positives = 267/325 (82%) Query: 13 AVAGTVLAALPMQASAAAKITIMVGGINKMVYLPAKLAEQLGYFKEEGLDVELQSQPAGV 72 A+ L QA AA KI IMVGGINK++YLP KLAE LGYFKEEGLDVELQSQPAGV Sbjct: 29 AITACALGLAAPQARAADKIIIMVGGINKLIYLPPKLAESLGYFKEEGLDVELQSQPAGV 88 Query: 73 DAENELLAGAVQAVVGFYDHAIDLQTKGKEITAITILGQVPGEVELVSSKSAPHFQSMAD 132 DAENELLAGAVQAVVG+YDH+IDLQ+KGKE+T+I L VPG +E+V + A +SMAD Sbjct: 89 DAENELLAGAVQAVVGYYDHSIDLQSKGKEVTSIAQLLLVPGGMEMVRADLADSVRSMAD 148 Query: 133 AKGKTLGVTGLGSSTNFLTQYLAARQGISSKQFSVLPVGADNTFIAAMKQGRIDAGMTTE 192 KGKTLGVTGLGSS++F+ QYLA R G+ + +S+LPVGA NT IAAMKQ R+D TTE Sbjct: 149 LKGKTLGVTGLGSSSSFIAQYLANRAGLKAGDYSILPVGAGNTLIAAMKQKRVDVAWTTE 208 Query: 193 PTASQLLKTGDAKVLVDMRTVEGTVQALGGLYPASSVYVQRSWLNSHKEDAQKLARAFVK 252 PT S LL +G AKVLVDM +V+GT ALGGLYPASS+YV RSW+NSHK ++QKLAR FVK Sbjct: 209 PTTSILLASGAAKVLVDMSSVDGTKAALGGLYPASSLYVHRSWMNSHKAESQKLARVFVK 268 Query: 253 TLRFIHTHTAEEIADKMPKDYYGNNKPLYIQALHNSLPMYSQDGKMPKGGPETVLAVLSG 312 TLR+I TH+AE+IADKMPKDYYG +K +Y+QAL SLPMYS DGKMP GGPE VL V++G Sbjct: 269 TLRYIQTHSAEDIADKMPKDYYGGSKAIYVQALKASLPMYSPDGKMPAGGPEQVLKVMAG 328 Query: 313 FNPNVKGKHVDLSKTYTDEFVNAVK 337 FNPN+KGK++DLSKTYT+EFV+ VK Sbjct: 329 FNPNIKGKNIDLSKTYTNEFVDQVK 353 >gi|300312970|ref|YP_003777062.1| nitrate/sulfonate/bicarbonate ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 345 Score = 217 bits (553), Expect = 1e-57, Method: Compositional matrix adjust. Identities = 114/309 (36%), Positives = 175/309 (56%) Query: 25 QASAAAKITIMVGGINKMVYLPAKLAEQLGYFKEEGLDVELQSQPAGVDAENELLAGAVQ 84 QA K++I VGG N YLP +AEQLGYFK+EGL VE+ G A ++ G+ Sbjct: 29 QALEKPKVSIAVGGKNLFYYLPLTIAEQLGYFKDEGLQVEISDFAGGAKALQAMVGGSAD 88 Query: 85 AVVGFYDHAIDLQTKGKEITAITILGQVPGEVELVSSKSAPHFQSMADAKGKTLGVTGLG 144 V G Y+H I++Q K + I A + G+ P V V++K+ P+++++AD KGK +GVT G Sbjct: 89 VVSGAYEHTINMQAKNQPIVAFVLQGRAPQIVLAVNNKTMPNYKTVADLKGKKIGVTAPG 148 Query: 145 SSTNFLTQYLAARQGISSKQFSVLPVGADNTFIAAMKQGRIDAGMTTEPTASQLLKTGDA 204 SST+ + Y+ A+ G+ S + VGA I+A++ G+IDA +P S L ++ + Sbjct: 149 SSTSVMASYVLAKAGLKPSDVSFIGVGAAAGAISAVRSGQIDAIANLDPVISMLEQSKEI 208 Query: 205 KVLVDMRTVEGTVQALGGLYPASSVYVQRSWLNSHKEDAQKLARAFVKTLRFIHTHTAEE 264 K + D RT++ T GG PA+++Y +++ + Q L A V+ L++I + Sbjct: 209 KTIADTRTLKDTNDVFGGPMPAATLYAPAAFIQKYPNTTQALTNAMVRALKWIQKAGPSD 268 Query: 265 IADKMPKDYYGNNKPLYIQALHNSLPMYSQDGKMPKGGPETVLAVLSGFNPNVKGKHVDL 324 I +P+ Y ++ LYI A S DG P GGP+T L L F P++ K +DL Sbjct: 269 IIKAVPESYLLGDRSLYIDAFMKVRQAISPDGYFPPGGPDTALRTLKAFEPSLADKQIDL 328 Query: 325 SKTYTDEFV 333 SKT+T+ FV Sbjct: 329 SKTFTNSFV 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 0.315 0.131 0.367 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: 1,004,262 Number of extensions: 40529 Number of successful extensions: 160 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 163 Number of HSP's successfully gapped: 4 Length of query: 337 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 251 Effective length of database: 1,212,660 Effective search space: 304377660 Effective search space used: 304377660 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)