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= 0028.0251.p (383 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311113|ref|YP_003775205.1| branched-chain amino acid ABC t... 767 0.0 gi|300309516|ref|YP_003773608.1| branched-chain amino acid ABC t... 120 2e-28 gi|300312236|ref|YP_003776328.1| amino acid ABC transporter peri... 120 3e-28 gi|300310948|ref|YP_003775040.1| branched-chain amino acid ABC t... 103 2e-23 gi|300310991|ref|YP_003775083.1| branched-chain amino acid ABC t... 98 1e-21 >gi|300311113|ref|YP_003775205.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 383 Score = 767 bits (1981), Expect = 0.0, Method: Compositional matrix adjust. Identities = 375/383 (97%), Positives = 381/383 (99%) Query: 1 MSYKTQAFVAAALMSLALTSQAADPIKIGVSGPYTGGSAPMGVSMRDGVKLAVAEINAAG 60 M+YKTQAFVAAALMSLALTSQAADPIKIGVSGPYTGGSAPMGVSMRDGVKLAVAEINAAG Sbjct: 1 MTYKTQAFVAAALMSLALTSQAADPIKIGVSGPYTGGSAPMGVSMRDGVKLAVAEINAAG 60 Query: 61 GVLGRQIQLVERDDEAKNERGVQIAQELINKEKVVATVGFINTGVALASQRFYQEAKIPV 120 G+LGRQIQL+ERDDEAKNERGVQIAQELINKEKVVATVGFINTGVALASQRFYQEAKIPV Sbjct: 61 GLLGRQIQLIERDDEAKNERGVQIAQELINKEKVVATVGFINTGVALASQRFYQEAKIPV 120 Query: 121 INNVATGTVITKQFEKEKDNYIFRTSAADKIQAKMIADEAVDKQKFTKVAILADSTNYGQ 180 INNVATGTVITKQFEKEKDNY+FRTSAADKIQAKMIADEAVDKQKFTKVAILADSTNYGQ Sbjct: 121 INNVATGTVITKQFEKEKDNYVFRTSAADKIQAKMIADEAVDKQKFTKVAILADSTNYGQ 180 Query: 181 LGREDLEKVLADKKVTPVAIEKYNIKDVDMTAQLLKSKQGGAQAVLTYGIGPELAQIANG 240 LGREDLEKVLADKKVTPVA+EKYNIKDVDMTAQLLKSKQGGAQAVLTYGIGPELAQIANG Sbjct: 181 LGREDLEKVLADKKVTPVAVEKYNIKDVDMTAQLLKSKQGGAQAVLTYGIGPELAQIANG 240 Query: 241 MEKLNWQVPIIGSWPLSMGNFIDNSGKNGNGARMPQTFIQDGNTPKRKAFIEAYQKAYKV 300 MEKLNW VPIIGSWPLSMGNFIDNSGKNGNGARMPQTFIQDGNTPKRKAFIEAYQKAYKV Sbjct: 241 MEKLNWHVPIIGSWPLSMGNFIDNSGKNGNGARMPQTFIQDGNTPKRKAFIEAYQKAYKV 300 Query: 301 DRMPSAVSAAQGYDSIMLLAAAIKQAGTTDGDKVRAALENLNTKVEGVVTTYDKPFTHDD 360 DRMPSAVSAAQGYDSI+LLAAAIKQAGTTDGDKVRAALENLNTKVEGVVTTYDKPFTHDD Sbjct: 301 DRMPSAVSAAQGYDSILLLAAAIKQAGTTDGDKVRAALENLNTKVEGVVTTYDKPFTHDD 360 Query: 361 HEAIKPGMVVMGEVKNGRVILGK 383 HEAIKP MVVMGEVKNGRVILGK Sbjct: 361 HEAIKPAMVVMGEVKNGRVILGK 383 >gi|300309516|ref|YP_003773608.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 378 Score = 120 bits (301), Expect = 2e-28, Method: Compositional matrix adjust. Identities = 114/357 (31%), Positives = 168/357 (47%), Gaps = 25/357 (7%) Query: 12 ALMSLALTSQAADPIKIGVSGPYTGGSAPMGVSMRDGVKLAVAEINAAG-GVLGRQIQL- 69 AL+ +Q +KIG S P TG A G + G+ +A+ +NA V G++I+ Sbjct: 16 ALIPAFAMAQETQVVKIGFSSPLTGPQASAGKDNQGGLMMAIERLNAQPITVGGKKIKFD 75 Query: 70 -VERDDEAKNERGVQIAQELINKEKVVATVGFINTGVALASQRFYQEAKIPVINNVATGT 128 + DD+A + GV +AQ+L + + V A VG N+GV + + R Y +A I V+ VA+ Sbjct: 76 VIAEDDQADPKSGVAVAQKLAD-QGVKAIVGPYNSGVTIPASRVYNDAGI-VVATVASNP 133 Query: 129 VITKQ-FEKEKDNYIFRTSAADKIQAKMIADEAVDKQKFTKVAILADSTNYGQLGREDLE 187 IT+Q F +FR +A+D +A A + KF +VA++ D T YGQ ++ Sbjct: 134 KITQQGFAT-----LFRVAASDSQLGGKMALYAAKELKFKRVAVIDDRTAYGQGLAQEFI 188 Query: 188 KVLADKKVTPVAIEKYNIKDVDMTAQLLKSKQGGAQAVLTYGIGPELAQIANGMEKLNWQ 247 KV + V+ + N K D TA L K AV G P+ I M++L Sbjct: 189 KVAKANGIDVVSTDFTNDKATDFTAILTSIKGKKPDAVFLGGYAPQGGPIKRQMKQLGVD 248 Query: 248 VPIIGSWPLSMGNFIDNSGKNGNGARMPQTFIQDGNTPKRKA-----FIEAYQKAYKVDR 302 VP++G G G+ G A + G T KA F + YQK Y Sbjct: 249 VPLMGGD----GICSPEMGRLGGDAIGESVYCTQGGTMLDKAKEGKVFSDEYQKKY---N 301 Query: 303 MPSAVSAAQGYDSIMLLAAAIKQAGTTDGDKVRAALENLNTKVEGVVTTYDKPFTHD 359 P+ A YD +ML+A A+KQA + D + AL ++ K GV YD HD Sbjct: 302 RPAETYAVSFYDGMMLIAQAMKQANSVDPKQFGPALAKISYK--GVAGQYDFDANHD 356 >gi|300312236|ref|YP_003776328.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 385 Score = 120 bits (300), Expect = 3e-28, Method: Compositional matrix adjust. Identities = 107/360 (29%), Positives = 165/360 (45%), Gaps = 18/360 (5%) Query: 1 MSYKTQAFVAAALMSLALTSQAA--DPIKIGVSGPYTGGSAPMGVSMRDGVKLAVAEINA 58 M + T AL+ A SQAA IK+GV+ TG +A GV++++G LA EINA Sbjct: 1 MQFNTMLKTIPALLIGATLSQAALAADIKLGVAEALTGPAAKYGVAIKNGFTLASEEINA 60 Query: 59 AGGVLGRQIQLVERDDEAKNERGVQIAQELINKEKVVATVGFINTGVALASQRFYQEAKI 118 GGV G ++ LV D++ K E + + ++LI ++KV+A G + A A+ AK+ Sbjct: 61 KGGVNGDKLALVIEDEQGKKEEAINVFKKLIFQDKVLAVFGPTLSNSAFAADPIANAAKV 120 Query: 119 PVINNVATGTVITKQFEKEKDNYIFRTSAADKIQAKMIADEAVDKQKFTKVAIL-ADSTN 177 V T IT + FR S + + AV KVA++ + Sbjct: 121 VVFGTSNTADGITAM-----GPFTFRNSVMEADVLPVTVKAAVKHFGIKKVAVIYGNDDA 175 Query: 178 YGQLGREDLEKVLADKKVTPVAIEKYNIKDVDMTAQLLKSKQGGAQAVLTYGIGPELAQI 237 + + G + + L +K+ E Y DVD AQL K K G A++ + E A I Sbjct: 176 FTKSGYDVFKATLEHQKIPVTTTEAYAKGDVDFKAQLTKIKAGNPDAIVCSCLAEEAANI 235 Query: 238 ANGMEKLNWQVPIIGSWPLSMGNFIDNSGKNGNGARMPQTFIQDGNTPKRKAFIEAYQKA 297 L + P IG L+ + + G+ M + + TP KAFI AY+ Sbjct: 236 ILQTRALGMKQPFIGGNGLNSPKLFEIAKDAGDNTLMGSPWSAENQTPANKAFITAYKAK 295 Query: 298 YKVDRMPSAVSAAQGYDSIMLLAAAIKQAGTT-----DGDKVRAALENLNTKVEGVVTTY 352 + D P AAQ YD++ ++A A+K + D D +RAAL + K++G + Sbjct: 296 FGAD--PDQF-AAQAYDAMYIVADALKNVKLSGNLAKDRDALRAALPAV--KIDGATGKF 350 >gi|300310948|ref|YP_003775040.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 394 Score = 103 bits (258), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 91/357 (25%), Positives = 171/357 (47%), Gaps = 19/357 (5%) Query: 26 IKIGVSGPYTGGSAPMGVSMRDGVKLAVAEINAAGGVLG---RQIQLVERDDEAKNERGV 82 + IG +GP +G S +G SM++GV+LA+AE N G +G Q++L+ +DD A Sbjct: 40 LAIGFAGPLSGPSGGVGKSMQNGVQLALAEANRRGLRIGGKSWQLRLIAQDDRADPATAE 99 Query: 83 QIAQELINKEKVVATVGFINTGVALASQRFYQEAKIPVINNVATGTVITKQFEKEKDNYI 142 +A+ L+ +++V+A VG +G +LA+ Y A + + T + ++++ I Sbjct: 100 FVARSLV-QQQVIAVVGHWTSGTSLAAAPVYHRAGVIQV----TPSAMSRRLTAMSYPRI 154 Query: 143 FRTSAADKIQAKMIADEAVDKQKFTKVAILADSTNYGQLGREDLEKVLADKKVTPVAIEK 202 FRT ++ ++ A AVDK + + + D T +GQ E + +++ V Sbjct: 155 FRTIPNNESLGRLAAGYAVDKLETRTIVTIDDRTPFGQGLAEQFARTASERGAQVVGRYS 214 Query: 203 YNIKDVDMTAQLLKSKQGGAQAVLTYGIGPELAQIANGMEKLNWQVPIIGSWPLSMG-NF 261 + K D A LL++++ + G+ + +A + +L ++ S P ++G F Sbjct: 215 VSDKTSDFNAALLEARKLQPDLIFFGGLDWQAGVLAKSIRRLKLHARLMAS-PGTLGLPF 273 Query: 262 IDNSGKNGNGARMPQTFIQDGNTPKRKAFIEAYQKAYKVDRMPSAVSAAQGYDSIMLLAA 321 + +G + NGA + + P K+F + Y + + D AV A Y++ + Sbjct: 274 LMRAGPDANGALVLEPGPPQDKMPGWKSFRQRYSENFDSDMDLYAVFA---YEAAQAIIQ 330 Query: 322 AIKQAGTTDGDKVRAALENLNTKVEGVVTTYDKPFTHDDHEAIKPGMVVMGEVKNGR 378 I+QAG+ D +++ A+ L + EGV P ++ + M EVK+ R Sbjct: 331 GIRQAGSADPERIAEAMHRL--RFEGV----SGPVAFNEEGDLLQPSFTMYEVKDQR 381 >gi|300310991|ref|YP_003775083.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 373 Score = 98.2 bits (243), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 91/336 (27%), Positives = 145/336 (43%), Gaps = 16/336 (4%) Query: 23 ADPIKIGVSGPYTGGSAPMGVSMRDGVKLAVAEINAAGGVLGRQIQLVERDDEAKNERGV 82 A+ +KI ++GP TG A G ++ G A+ +INAAGG G + + V DD + ++ V Sbjct: 26 AETVKIAIAGPMTGAVAQYGDMVKAGALTAIEQINAAGGANGNKFEAVMMDDACEPKQAV 85 Query: 83 QIAQELINKEKVVATVGFINTGVALASQRFYQEAKIPVINNVATGTVITKQFEKEKDNYI 142 +A ++++ + + +G + +G + + Y+ + +I AT +T E + +I Sbjct: 86 AVANKIVS-QGIKYVIGHVCSGSTIPASDIYENEGVVMITPSATAPQLT---EAKPHKFI 141 Query: 143 FRTSAADKIQAKMIADEAVDKQKFTKVAILADSTNYGQLGREDLEKVLADKKVTPVAIEK 202 FRT D Q A ++K K KVA+L D +YGQ ++ L KV V E Sbjct: 142 FRTIGRDDQQGPAAARYVIEKLKPKKVAVLHDKQSYGQGVASSVKAALDAAKVPVVVFEG 201 Query: 203 YNIKDVDMTAQLLKSKQGGAQAVLTYGIGPELAQIANGMEKLNWQVPIIGSWPLSMGN-- 260 N D D +A + K K G V G PE+ I + + +G P +GN Sbjct: 202 INAGDSDYSAIVTKLKSQGVDFVYFGGYHPEMGLIMRQAREQGIKAVFMG--PEGVGNKD 259 Query: 261 --FIDNSGKNGNGARMPQTFIQDGNTPKRKAFIEAYQKAYKVDRMPSAVSAAQGYDSIML 318 I G +P F D A + R P+ Y + + Sbjct: 260 ITAIAGPASEGMLVTLPADFAAD------PANAALVKAFAAAKRDPNGPFQMPAYSGVKI 313 Query: 319 LAAAIKQAGTTDGDKVRAALENLNTKVEGVVTTYDK 354 +A AI A +TD +KV A + + K YDK Sbjct: 314 IADAIAGAKSTDPEKVAAYIHANSFKTPIGNVEYDK 349 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 0.131 0.359 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: 1,139,125 Number of extensions: 47057 Number of successful extensions: 164 Number of sequences better than 1.0e-08: 19 Number of HSP's gapped: 146 Number of HSP's successfully gapped: 19 Length of query: 383 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 296 Effective length of database: 1,207,925 Effective search space: 357545800 Effective search space used: 357545800 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: 131 (55.1 bits)