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= 0034.0088.p (413 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309516|ref|YP_003773608.1| branched-chain amino acid ABC t... 107 2e-24 gi|300312761|ref|YP_003776853.1| branched-chain amino acid ABC t... 103 2e-23 gi|300310991|ref|YP_003775083.1| branched-chain amino acid ABC t... 96 8e-21 gi|300311772|ref|YP_003775864.1| branched-chain amino acid ABC t... 85 1e-17 gi|300311113|ref|YP_003775205.1| branched-chain amino acid ABC t... 79 7e-16 >gi|300309516|ref|YP_003773608.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 378 Score = 107 bits (267), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 103/356 (28%), Positives = 164/356 (46%), Gaps = 16/356 (4%) Query: 1 MKKSLISLATMVAWGSMALAGVASAQVKEVKIGYLLPLTADNAPQGQQSKRAVDMAVEEI 60 M K + L + A ++ A + + + VKIG+ PLT A G+ ++ + MA+E + Sbjct: 1 MFKRVSGLNIIAASLALIPAFAMAQETQVVKIGFSSPLTGPQASAGKDNQGGLMMAIERL 60 Query: 61 NASGGIKALGGAKLK--IIYADTQSKPQVAVQEAERLISQEKVDFLAGAYNSGVTLPASE 118 NA +GG K+K +I D Q+ P+ V A++L Q V + G YNSGVT+PAS Sbjct: 61 NAQ--PITVGGKKIKFDVIAEDDQADPKSGVAVAQKLADQ-GVKAIVGPYNSGVTIPASR 117 Query: 119 VAERYKKVWWTPVSSDDSITNRPGFKYVFRLAEKTSMRIVAQLDFIQAMAKQKNVPIKTV 178 V V T V+S+ IT + GF +FR+A S QL A+ K + K V Sbjct: 118 VYNDAGIVVAT-VASNPKITQQ-GFATLFRVAASDS-----QLGGKMALYAAKELKFKRV 170 Query: 179 ALVYENSGYGQGAALQWRKLVPQQGWKIVLDEPFDPKTTDPSPVITKVKAAKADIVLLAN 238 A++ + + YGQG A ++ K+ G +V + + K TD + ++T +K K D V L Sbjct: 171 AVIDDRTAYGQGLAQEFIKVAKANGIDVVSTDFTNDKATDFTAILTSIKGKKPDAVFLGG 230 Query: 239 SFMPAAVMMAKSFKEQGVKPKAFFATSAAHSDPDYLKNAGDA-ALGVFDVSGWEPDVNRP 297 + P + + K+ GV P+ + GDA V+ G Sbjct: 231 -YAPQGGPIKRQMKQLGVDVPLMGGDGICS--PEMGRLGGDAIGESVYCTQGGTMLDKAK 287 Query: 298 FSKDVAKKFQDKYGLLLNNETAKEYAGMYVVKDVLERAASTDPEKVRNAFAATDLK 353 K + ++Q KY Y GM ++ +++A S DP++ A A K Sbjct: 288 EGKVFSDEYQKKYNRPAETYAVSFYDGMMLIAQAMKQANSVDPKQFGPALAKISYK 343 >gi|300312761|ref|YP_003776853.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 380 Score = 103 bits (257), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 107/389 (27%), Positives = 176/389 (45%), Gaps = 29/389 (7%) Query: 1 MKKSLISLATMVAWGSMALAGVASAQVKEVKIGYLLPLTADNAPQGQQSKRAVDMAVEEI 60 +K ++I L + +A AG A +Q + VKI ++ PL+ NA G+ ++ MAV+E+ Sbjct: 3 LKSAIIPLTAAI---GLAFAGAAYSQ-EVVKIAHVGPLSGPNAHMGKDNENGARMAVDEL 58 Query: 61 NASGGIKALGGAKLK--IIYADTQSKPQVAVQEAERLISQEKVDFLAGAYNSGVTLPASE 118 NA G +GG K+K ++ D S P+ A A +L+ Q KV + G NSG T+PAS+ Sbjct: 59 NAKG--FTIGGKKVKFELVGEDDASDPKQATAVATKLVDQ-KVAAVIGHLNSGTTIPASK 115 Query: 119 VAERYKKVWWTPVSSDDSITNRPGFKYVFRLAEKTSMRIVAQLDFIQAMAKQKNVPIKTV 178 + +P +++ T + GFK FR+ AQL + + K + Sbjct: 116 IYSDAGIPQVSPSATNPKYTQQ-GFKTAFRVVAND-----AQLGAALGKYAVQKLGTKQI 169 Query: 179 ALVYENSGYGQGAALQWRKLVPQQGWKIVLDEPFDPKTTDPSPVITKVKAAKADIVLLAN 238 A++ + + YGQG A ++ K G IV + + K TD + ++T +K K D+V Sbjct: 170 AVIDDRTAYGQGVADEFAKGAKAAGGTIVGTQYTNDKATDFNAILTSLKGKKPDVVFFGG 229 Query: 239 SFMPAAVMMAKSFKEQGVKPKAFFATSAAHSDPDYLKNAGDAALG----VFDVSGWEPDV 294 M+ + K+ G+ K L AGD LG + +G + Sbjct: 230 MDAVGGPML-RQMKQLGISAKFMGGDGICTGSLPGL--AGD-GLGDDQVICAEAGGVDEA 285 Query: 295 NRPFSKDVAKKFQDKYGLLLNNETAKEYAGMYVVKDVLERAASTDPEKVRNAFAATDLKE 354 + D ++ K+G+ + A Y V D + +A S DP+K A K Sbjct: 286 GKKGMDDFRAAYKKKFGIDVVYNAAYAYDATMTVADAMAKAGSADPKKYLPELAKISHK- 344 Query: 355 GMTQIYSNRVHFDSTGTFPDTSSLVLVQF 383 G+T + + FD+ G D SL L + Sbjct: 345 GVTGV----IAFDAKGDIKD-GSLTLYTY 368 >gi|300310991|ref|YP_003775083.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 373 Score = 95.5 bits (236), Expect = 8e-21, Method: Compositional matrix adjust. Identities = 96/365 (26%), Positives = 155/365 (42%), Gaps = 35/365 (9%) Query: 26 QVKEVKIGYLLPLTADNAPQGQQSKRAVDMAVEEINASGGIKALGGAKLKIIYADTQSKP 85 + VKI P+T A G K A+E+INA+GG G K + + D +P Sbjct: 25 HAETVKIAIAGPMTGAVAQYGDMVKAGALTAIEQINAAGGAN---GNKFEAVMMDDACEP 81 Query: 86 QVAVQEAERLISQEKVDFLAGAYNSGVTLPASEVAERYKKVWWTPVSSDDSITNRPGFKY 145 + AV A +++SQ + ++ G SG T+PAS++ E V TP ++ +T K+ Sbjct: 82 KQAVAVANKIVSQ-GIKYVIGHVCSGSTIPASDIYENEGVVMITPSATAPQLTEAKPHKF 140 Query: 146 VFRLAEKTSMRIVAQLDFIQAMAKQKNVPIKTVALVYENSGYGQGAALQWRKLVPQQGWK 205 +FR + + A ++ K K VA++++ YGQG A + + Sbjct: 141 IFRTIGRDDQQGPAAARYVIEKLKPKK-----VAVLHDKQSYGQGVASSVKAALDAAKVP 195 Query: 206 IVLDEPFDPKTTDPSPVITKVKAAKADIVLLANSFMPAAVMMAKSFKEQGVKPKAFFATS 265 +V+ E + +D S ++TK+K+ D V + P ++ + +EQG+ KA F Sbjct: 196 VVVFEGINAGDSDYSAIVTKLKSQGVDFVYFGG-YHPEMGLIMRQAREQGI--KAVFMGP 252 Query: 266 AAHSDPDYLKNAGDAALGVFDVSGWEPDVNRP--FSKDVAKKFQDKYGLLLNNE-----T 318 + D AG A+ G+ V P F+ D A K + Sbjct: 253 EGVGNKDITAIAGPASEGML--------VTLPADFAADPANAALVKAFAAAKRDPNGPFQ 304 Query: 319 AKEYAGMYVVKDVLERAASTDPEKVRNAFAATDLKEGMTQIYSNRVHFDSTGTFPDTSSL 378 Y+G+ ++ D + A STDPEKV A K + V +D G D S Sbjct: 305 MPAYSGVKIIADAIAGAKSTDPEKVAAYIHANSFKTPI-----GNVEYDKKG---DLKSF 356 Query: 379 VLVQF 383 V F Sbjct: 357 KFVVF 361 >gi|300311772|ref|YP_003775864.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 404 Score = 84.7 bits (208), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 89/352 (25%), Positives = 158/352 (44%), Gaps = 28/352 (7%) Query: 50 KRAVDMAVEEINASGGIKALGGAKLKIIYADTQSKPQVAVQEAERLISQEKVDFLAGAYN 109 +R +MA++EINASGG+ G KL++I D P +V+ AE L+++E+V L G + Sbjct: 51 RRGWEMALDEINASGGVL---GKKLEVIARDDNGNPGDSVRVAEELMARERVALLFGGFL 107 Query: 110 SGVTLPASEVAERYKKVWWTPVSSDDSITNRPGFKYVFRLAEKTSMRIVAQLDFIQAMAK 169 S L ++ A++++ + D I + G KY +RL TSM + + ++ K Sbjct: 108 SNTGLALTDYAKQHRVFFLAAEPLTDKIVWQNGNKYTYRLRPSTSMLVAS---VVKEAVK 164 Query: 170 QKNVPIKTVALVYENSGYGQGAALQWRKLVPQQ--GWKIVLDEPFDPKTTDPSPVITKVK 227 K K A+VY N YGQ A ++ L+ Q + V ++ D V + Sbjct: 165 LKK---KRWAIVYPNYEYGQSAVASFKTLMKQAQPDVEFVAEQAPPLGKIDAGAVTQALA 221 Query: 228 AAKADIVLLANSFMPAAVMMAKSFKEQGVKPKAFF----ATSAAHSDPDYLKNAGDAALG 283 AK D + N+ A + F +G + F S +P+YL A Sbjct: 222 DAKPDAIF--NALFAADL---GKFVREG-NTRGLFEQVDVVSLLTGEPEYLDPLKGEAPQ 275 Query: 284 VFDVSGWE-PDVNRPFSKDVAKKFQDKYGLLLNNETAKEYAGMYVVKDVLERAASTDPEK 342 + V+G+ ++ P K + ++ K+ N + Y+ + + L +A STD ++ Sbjct: 276 NWIVTGYPWYAIHTPEHKKFVEAYRKKFNDYPRNGSLVGYSALMSIAAGLRKAGSTDADR 335 Query: 343 VRNAFAATDLKEGMTQI-YSNRVHFDSTGTFPDTSSL-----VLVQFLKVNG 388 + AF+ ++ + I Y + H + G F + L V+ F ++G Sbjct: 336 LAAAFSGLKVETPVASIVYRPQDHQSTLGAFVGRTGLKEGRGVMTSFTYIDG 387 >gi|300311113|ref|YP_003775205.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 383 Score = 79.0 bits (193), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 105/389 (26%), Positives = 175/389 (44%), Gaps = 28/389 (7%) Query: 12 VAWGSMALAGVASAQVKEVKIGYLLPLTADNAPQGQQSKRAVDMAVEEINASGGIKALGG 71 VA M+LA + S +KIG P T +AP G + V +AV EINA+GG L G Sbjct: 9 VAAALMSLA-LTSQAADPIKIGVSGPYTGGSAPMGVSMRDGVKLAVAEINAAGG---LLG 64 Query: 72 AKLKIIYADTQSKPQVAVQEAERLISQEKVDFLAGAYNSGVTLPASEVAERYKKVWWTPV 131 ++++I D ++K + VQ A+ LI++EKV G N+GV L + + K V Sbjct: 65 RQIQLIERDDEAKNERGVQIAQELINKEKVVATVGFINTGVALASQRFYQEAKIPVINNV 124 Query: 132 SSDDSIT---NRPGFKYVFRL--AEKTSMRIVAQLDFIQAMAKQKNVPIKTVALVYENSG 186 ++ IT + YVFR A+K +++A +A+ KQK VA++ +++ Sbjct: 125 ATGTVITKQFEKEKDNYVFRTSAADKIQAKMIAD----EAVDKQK---FTKVAILADSTN 177 Query: 187 YGQGAALQWRKLVPQQGWKIVLDEPFDPKTTDPSPVITKVKAAKADIVLLANSFMPAAVM 246 YGQ K++ + V E ++ K D + + K K A V L P Sbjct: 178 YGQLGREDLEKVLADKKVTPVAVEKYNIKDVDMTAQLLKSKQGGAQAV-LTYGIGPELAQ 236 Query: 247 MAKSFKEQGVKPKAFFATSAAHSDPDYLKNAGDAALGVFDVSGWEPDVNRPFSKDVAKKF 306 +A ++ + S S +++ N+G G + D N P K + + Sbjct: 237 IANGMEK--LNWHVPIIGSWPLSMGNFIDNSGKNGNGARMPQTFIQDGNTPKRKAFIEAY 294 Query: 307 QDKYG---LLLNNETAKEYAGMYVVKDVLERAASTDPEKVRNAFAATDLK-EGMTQIYSN 362 Q Y + A+ Y + ++ +++A +TD +KVR A + K EG+ Y Sbjct: 295 QKAYKVDRMPSAVSAAQGYDSILLLAAAIKQAGTTDGDKVRAALENLNTKVEGVVTTYDK 354 Query: 363 R-VHFDSTGTFPDTSSLVLVQFLKVNGKV 390 H D P ++V++ +K NG+V Sbjct: 355 PFTHDDHEAIKP---AMVVMGEVK-NGRV 379 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 0.130 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: 1,165,978 Number of extensions: 43905 Number of successful extensions: 196 Number of sequences better than 1.0e-08: 20 Number of HSP's gapped: 184 Number of HSP's successfully gapped: 20 Length of query: 413 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 325 Effective length of database: 1,203,190 Effective search space: 391036750 Effective search space used: 391036750 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: 132 (55.5 bits)