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= 0001.0184.p (378 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... 735 0.0 gi|300312761|ref|YP_003776853.1| branched-chain amino acid ABC t... 353 2e-98 gi|300310948|ref|YP_003775040.1| branched-chain amino acid ABC t... 215 4e-57 gi|300310991|ref|YP_003775083.1| branched-chain amino acid ABC t... 165 6e-42 gi|300311113|ref|YP_003775205.1| branched-chain amino acid ABC t... 118 6e-28 >gi|300309516|ref|YP_003773608.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 378 Score = 735 bits (1898), Expect = 0.0, Method: Compositional matrix adjust. Identities = 362/378 (95%), Positives = 372/378 (98%) Query: 1 MFKRVSGLNIIAASLALIPAFAMAQETQVVKIGFSSPLTGPQASAGKDNQGGLMMAVERL 60 MFKRVSGLNIIAASLALIPAFAMAQETQVVKIGFSSPLTGPQASAGKDNQGGLMMA+ERL Sbjct: 1 MFKRVSGLNIIAASLALIPAFAMAQETQVVKIGFSSPLTGPQASAGKDNQGGLMMAIERL 60 Query: 61 NAQPITVGGKKIKFEVLAEDDQADPKQGVAVAQKLADQGVKAIVGPYNSGVTIPASRVYN 120 NAQPITVGGKKIKF+V+AEDDQADPK GVAVAQKLADQGVKAIVGPYNSGVTIPASRVYN Sbjct: 61 NAQPITVGGKKIKFDVIAEDDQADPKSGVAVAQKLADQGVKAIVGPYNSGVTIPASRVYN 120 Query: 121 DAGIVVATVASNPKITQQGFATLFRVAASDSQLGGKMALYAAKELKLKRVAVIDDRTAYG 180 DAGIVVATVASNPKITQQGFATLFRVAASDSQLGGKMALYAAKELK KRVAVIDDRTAYG Sbjct: 121 DAGIVVATVASNPKITQQGFATLFRVAASDSQLGGKMALYAAKELKFKRVAVIDDRTAYG 180 Query: 181 QGLAEEFAKVAKANGIEVVSKDFTNDKATDFTAILTSIKSKKPDAVFLGGYAPQGGPIKR 240 QGLA+EF KVAKANGI+VVS DFTNDKATDFTAILTSIK KKPDAVFLGGYAPQGGPIKR Sbjct: 181 QGLAQEFIKVAKANGIDVVSTDFTNDKATDFTAILTSIKGKKPDAVFLGGYAPQGGPIKR 240 Query: 241 QMKQLGIDVPLMGGDGICSPEMGRLGGDAIGESVYCTQGGTMLDKAKEGKVFSDDYQKKY 300 QMKQLG+DVPLMGGDGICSPEMGRLGGDAIGESVYCTQGGTMLDKAKEGKVFSD+YQKKY Sbjct: 241 QMKQLGVDVPLMGGDGICSPEMGRLGGDAIGESVYCTQGGTMLDKAKEGKVFSDEYQKKY 300 Query: 301 NRPAETYAVSFYDGMMLIAQAMKQANSVEPKAFGPALAKINYKGVAGQYDFDANHDLKQS 360 NRPAETYAVSFYDGMMLIAQAMKQANSV+PK FGPALAKI+YKGVAGQYDFDANHDLKQS Sbjct: 301 NRPAETYAVSFYDGMMLIAQAMKQANSVDPKQFGPALAKISYKGVAGQYDFDANHDLKQS 360 Query: 361 PVTVYRFKDGLPVPLSSY 378 PVTVYRFKDGLPVPL+SY Sbjct: 361 PVTVYRFKDGLPVPLTSY 378 >gi|300312761|ref|YP_003776853.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 380 Score = 353 bits (905), Expect = 2e-98, Method: Compositional matrix adjust. Identities = 193/365 (52%), Positives = 245/365 (67%), Gaps = 4/365 (1%) Query: 10 IIAASLALIPAFAMAQETQ-VVKIGFSSPLTGPQASAGKDNQGGLMMAVERLNAQPITVG 68 II + A+ AFA A +Q VVKI PL+GP A GKDN+ G MAV+ LNA+ T+G Sbjct: 7 IIPLTAAIGLAFAGAAYSQEVVKIAHVGPLSGPNAHMGKDNENGARMAVDELNAKGFTIG 66 Query: 69 GKKIKFEVLAEDDQADPKQGVAVAQKLADQGVKAIVGPYNSGVTIPASRVYNDAGI-VVA 127 GKK+KFE++ EDD +DPKQ AVA KL DQ V A++G NSG TIPAS++Y+DAGI V+ Sbjct: 67 GKKVKFELVGEDDASDPKQATAVATKLVDQKVAAVIGHLNSGTTIPASKIYSDAGIPQVS 126 Query: 128 TVASNPKITQQGFATLFRVAASDSQLGGKMALYAAKELKLKRVAVIDDRTAYGQGLAEEF 187 A+NPK TQQGF T FRV A+D+QLG + YA ++L K++AVIDDRTAYGQG+A+EF Sbjct: 127 PSATNPKYTQQGFKTAFRVVANDAQLGAALGKYAVQKLGTKQIAVIDDRTAYGQGVADEF 186 Query: 188 AKVAKANGIEVVSKDFTNDKATDFTAILTSIKSKKPDAVFLGGYAPQGGPIKRQMKQLGI 247 AK AKA G +V +TNDKATDF AILTS+K KKPD VF GG GGP+ RQMKQLGI Sbjct: 187 AKGAKAAGGTIVGTQYTNDKATDFNAILTSLKGKKPDVVFFGGMDAVGGPMLRQMKQLGI 246 Query: 248 DVPLMGGDGICSPEMGRLGGDAIGES-VYCTQGGTMLDKAKEG-KVFSDDYQKKYNRPAE 305 MGGDGIC+ + L GD +G+ V C + G + + K+G F Y+KK+ Sbjct: 247 SAKFMGGDGICTGSLPGLAGDGLGDDQVICAEAGGVDEAGKKGMDDFRAAYKKKFGIDVV 306 Query: 306 TYAVSFYDGMMLIAQAMKQANSVEPKAFGPALAKINYKGVAGQYDFDANHDLKQSPVTVY 365 A YD M +A AM +A S +PK + P LAKI++KGV G FDA D+K +T+Y Sbjct: 307 YNAAYAYDATMTVADAMAKAGSADPKKYLPELAKISHKGVTGVIAFDAKGDIKDGSLTLY 366 Query: 366 RFKDG 370 +K G Sbjct: 367 TYKGG 371 >gi|300310948|ref|YP_003775040.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 394 Score = 215 bits (548), Expect = 4e-57, Method: Compositional matrix adjust. Identities = 121/356 (33%), Positives = 193/356 (54%), Gaps = 4/356 (1%) Query: 25 QETQVVKIGFSSPLTGPQASAGKDNQGGLMMAVERLNAQPITVGGKKIKFEVLAEDDQAD 84 QET + IGF+ PL+GP GK Q G+ +A+ N + + +GGK + ++A+DD+AD Sbjct: 35 QETATLAIGFAGPLSGPSGGVGKSMQNGVQLALAEANRRGLRIGGKSWQLRLIAQDDRAD 94 Query: 85 PKQGVAVAQKLADQGVKAIVGPYNSGVTIPASRVYNDAGIV-VATVASNPKITQQGFATL 143 P VA+ L Q V A+VG + SG ++ A+ VY+ AG++ V A + ++T + + Sbjct: 95 PATAEFVARSLVQQQVIAVVGHWTSGTSLAAAPVYHRAGVIQVTPSAMSRRLTAMSYPRI 154 Query: 144 FRVAASDSQLGGKMALYAAKELKLKRVAVIDDRTAYGQGLAEEFAKVAKANGIEVVSKDF 203 FR ++ LG A YA +L+ + + IDDRT +GQGLAE+FA+ A G +VV + Sbjct: 155 FRTIPNNESLGRLAAGYAVDKLETRTIVTIDDRTPFGQGLAEQFARTASERGAQVVGRYS 214 Query: 204 TNDKATDFTAILTSIKSKKPDAVFLGGYAPQGGPIKRQMKQLGIDVPLMGGDGICS-PEM 262 +DK +DF A L + +PD +F GG Q G + + +++L + LM G P + Sbjct: 215 VSDKTSDFNAALLEARKLQPDLIFFGGLDWQAGVLAKSIRRLKLHARLMASPGTLGLPFL 274 Query: 263 GRLGGDAIGESVYCTQGGTMLDKAKEGKVFSDDYQKKYNRPAETYAVSFYDGMMLIAQAM 322 R G DA G V + G DK K F Y + ++ + YAV Y+ I Q + Sbjct: 275 MRAGPDANGALVL--EPGPPQDKMPGWKSFRQRYSENFDSDMDLYAVFAYEAAQAIIQGI 332 Query: 323 KQANSVEPKAFGPALAKINYKGVAGQYDFDANHDLKQSPVTVYRFKDGLPVPLSSY 378 +QA S +P+ A+ ++ ++GV+G F+ DL Q T+Y KD P++ + Sbjct: 333 RQAGSADPERIAEAMHRLRFEGVSGPVAFNEEGDLLQPSFTMYEVKDQRWQPVARF 388 >gi|300310991|ref|YP_003775083.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 373 Score = 165 bits (417), Expect = 6e-42, Method: Compositional matrix adjust. Identities = 111/345 (32%), Positives = 177/345 (51%), Gaps = 7/345 (2%) Query: 26 ETQVVKIGFSSPLTGPQASAGKDNQGGLMMAVERLNAQPITVGGKKIKFEVLAEDDQADP 85 + VKI + P+TG A G + G + A+E++NA G KFE + DD +P Sbjct: 25 HAETVKIAIAGPMTGAVAQYGDMVKAGALTAIEQINA---AGGANGNKFEAVMMDDACEP 81 Query: 86 KQGVAVAQKLADQGVKAIVGPYNSGVTIPASRVYNDAGIVVAT-VASNPKITQ-QGFATL 143 KQ VAVA K+ QG+K ++G SG TIPAS +Y + G+V+ T A+ P++T+ + + Sbjct: 82 KQAVAVANKIVSQGIKYVIGHVCSGSTIPASDIYENEGVVMITPSATAPQLTEAKPHKFI 141 Query: 144 FRVAASDSQLGGKMALYAAKELKLKRVAVIDDRTAYGQGLAEEFAKVAKANGIEVVSKDF 203 FR D Q G A Y ++LK K+VAV+ D+ +YGQG+A A + VV + Sbjct: 142 FRTIGRDDQQGPAAARYVIEKLKPKKVAVLHDKQSYGQGVASSVKAALDAAKVPVVVFEG 201 Query: 204 TNDKATDFTAILTSIKSKKPDAVFLGGYAPQGGPIKRQMKQLGIDVPLMGGDGICSPEMG 263 N +D++AI+T +KS+ D V+ GGY P+ G I RQ ++ GI MG +G+ + ++ Sbjct: 202 INAGDSDYSAIVTKLKSQGVDFVYFGGYHPEMGLIMRQAREQGIKAVFMGPEGVGNKDIT 261 Query: 264 RLGGDAIGESVYCTQGGTMLDKAKEGKVFSDDYQKKYNRPAETYAVSFYDGMMLIAQAMK 323 + G A + D A V + K+ P + + Y G+ +IA A+ Sbjct: 262 AIAGPASEGMLVTLPADFAADPANAALVKAFAAAKR--DPNGPFQMPAYSGVKIIADAIA 319 Query: 324 QANSVEPKAFGPALAKINYKGVAGQYDFDANHDLKQSPVTVYRFK 368 A S +P+ + ++K G ++D DLK V+ + Sbjct: 320 GAKSTDPEKVAAYIHANSFKTPIGNVEYDKKGDLKSFKFVVFTWH 364 >gi|300311113|ref|YP_003775205.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 383 Score = 118 bits (296), Expect = 6e-28, Method: Compositional matrix adjust. Identities = 116/375 (30%), Positives = 174/375 (46%), Gaps = 29/375 (7%) Query: 16 ALIPAFAMAQETQVVKIGFSSPLTGPQASAGKDNQGGLMMAVERLNAQPITVGGKKIKFE 75 AL+ +Q +KIG S P TG A G + G+ +AV +NA +G + + Sbjct: 12 ALMSLALTSQAADPIKIGVSGPYTGGSAPMGVSMRDGVKLAVAEINAAGGLLGRQ---IQ 68 Query: 76 VLAEDDQADPKQGVAVAQKLAD-QGVKAIVGPYNSGVTIPASRVYNDAGI-VVATVASNP 133 ++ DD+A ++GV +AQ+L + + V A VG N+GV + + R Y +A I V+ VA+ Sbjct: 69 LIERDDEAKNERGVQIAQELINKEKVVATVGFINTGVALASQRFYQEAKIPVINNVATGT 128 Query: 134 KITQQGFAT-----LFRVAASDSQLGGKMALYAAKELKLKRVAVIDDRTAYGQGLAEEFA 188 IT+Q F +FR +A+D +A A + K +VA++ D T YGQ E+ Sbjct: 129 VITKQ-FEKEKDNYVFRTSAADKIQAKMIADEAVDKQKFTKVAILADSTNYGQLGREDLE 187 Query: 189 KVAKANGIEVVSKDFTNDKATDFTAILTSIKSKKPDAVFLGGYAPQGGPIKRQMKQLGID 248 KV + V+ + N K D TA L K AV G P+ I M++L Sbjct: 188 KVLADKKVTPVAVEKYNIKDVDMTAQLLKSKQGGAQAVLTYGIGPELAQIANGMEKLNWH 247 Query: 249 VPLMGGD----GICSPEMGRLGGDAIGESVYCTQGGTMLDKAKEGKVFSDDYQKKY---N 301 VP++G G G+ G A + G T KA F + YQK Y Sbjct: 248 VPIIGSWPLSMGNFIDNSGKNGNGARMPQTFIQDGNTPKRKA-----FIEAYQKAYKVDR 302 Query: 302 RPAETYAVSFYDGMMLIAQAMKQANSVEPKAFGPALAKINYK--GVAGQYDFDANHD--- 356 P+ A YD ++L+A A+KQA + + AL +N K GV YD HD Sbjct: 303 MPSAVSAAQGYDSILLLAAAIKQAGTTDGDKVRAALENLNTKVEGVVTTYDKPFTHDDHE 362 Query: 357 -LKQSPVTVYRFKDG 370 +K + V + K+G Sbjct: 363 AIKPAMVVMGEVKNG 377 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 0.133 0.374 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: 1,205,602 Number of extensions: 52795 Number of successful extensions: 232 Number of sequences better than 1.0e-08: 16 Number of HSP's gapped: 207 Number of HSP's successfully gapped: 16 Length of query: 378 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 291 Effective length of database: 1,207,925 Effective search space: 351506175 Effective search space used: 351506175 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)