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= 0001.1644.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... 123 3e-29 gi|300312236|ref|YP_003776328.1| amino acid ABC transporter peri... 117 2e-27 gi|300310948|ref|YP_003775040.1| branched-chain amino acid ABC t... 110 1e-25 gi|300310991|ref|YP_003775083.1| branched-chain amino acid ABC t... 99 5e-22 >gi|300311113|ref|YP_003775205.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 383 Score = 767 bits (1980), Expect = 0.0, Method: Compositional matrix adjust. Identities = 375/383 (97%), Positives = 382/383 (99%) Query: 1 MTYKTQAFVAAALMSLALTSQAADPIKIGVSGPYTGGSAPMGVSMRDGVKLAVAEINAAG 60 MTYKTQAFVAAALMSLALTSQAADPIKIGVSGPYTGGSAPMGVSMRDGVKLAVAEINAAG Sbjct: 1 MTYKTQAFVAAALMSLALTSQAADPIKIGVSGPYTGGSAPMGVSMRDGVKLAVAEINAAG 60 Query: 61 GVLGRQIQLVERDDEAKNERGVQIAQELINKEKVVATVGFINTGVALASQRFYQEAKIPV 120 G+LGRQIQL+ERDDEAKNERGVQIAQELINKEKVVATVGFINTGVALASQRFYQEAKIPV Sbjct: 61 GLLGRQIQLIERDDEAKNERGVQIAQELINKEKVVATVGFINTGVALASQRFYQEAKIPV 120 Query: 121 INNVATGTVITKQFEKEKDNYIFRTSAADKIQAKMIADEAVDKQKFSKVAILADSTNYGQ 180 INNVATGTVITKQFEKEKDNY+FRTSAADKIQAKMIADEAVDKQKF+KVAILADSTNYGQ Sbjct: 121 INNVATGTVITKQFEKEKDNYVFRTSAADKIQAKMIADEAVDKQKFTKVAILADSTNYGQ 180 Query: 181 LGREDLEKVLADKKVTPVAVEKYNIKDVDMTAQLLKSKQGGAQAVLTYGIGPELAQIANG 240 LGREDLEKVLADKKVTPVAVEKYNIKDVDMTAQLLKSKQGGAQAVLTYGIGPELAQIANG Sbjct: 181 LGREDLEKVLADKKVTPVAVEKYNIKDVDMTAQLLKSKQGGAQAVLTYGIGPELAQIANG 240 Query: 241 MEKLNWHVPIIGSWPLSMGNFIDNSGKNGNGARMPQTFIQDGNTPKRKAFIEAYQKAYKV 300 MEKLNWHVPIIGSWPLSMGNFIDNSGKNGNGARMPQTFIQDGNTPKRKAFIEAYQKAYKV Sbjct: 241 MEKLNWHVPIIGSWPLSMGNFIDNSGKNGNGARMPQTFIQDGNTPKRKAFIEAYQKAYKV 300 Query: 301 DRMPSAVSAAQGYDSILLLAAAIKQAGSTDGEKVRAALENLNTKVEGVVTTYDKPFTHDD 360 DRMPSAVSAAQGYDSILLLAAAIKQAG+TDG+KVRAALENLNTKVEGVVTTYDKPFTHDD Sbjct: 301 DRMPSAVSAAQGYDSILLLAAAIKQAGTTDGDKVRAALENLNTKVEGVVTTYDKPFTHDD 360 Query: 361 HEAIKASMVVMGEVKNGRVILGK 383 HEAIK +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 = 123 bits (308), Expect = 3e-29, Method: Compositional matrix adjust. Identities = 119/375 (31%), Positives = 177/375 (47%), Gaps = 29/375 (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-FEKEKDNYIFRTSAADKIQAKMIADEAVDKQKFSKVAILADSTNYGQLGREDLE 187 IT+Q F +FR +A+D +A A + KF +VA++ D T YGQ ++ Sbjct: 134 KITQQGFAT-----LFRVAASDSQLGGKMALYAAKELKFKRVAVIDDRTAYGQGLAQEFI 188 Query: 188 KVLADKKVTPVAVEKYNIKDVDMTAQLLKSKQGGAQAVLTYGIGPELAQIANGMEKLNWH 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 MPSAVSAAQGYDSILLLAAAIKQAGSTDGEKVRAALENLNTKVEGVVTTYDKPFTHDDHE 362 P+ A YD ++L+A A+KQA S D ++ AL ++ K GV YD HD Sbjct: 302 RPAETYAVSFYDGMMLIAQAMKQANSVDPKQFGPALAKISYK--GVAGQYDFDANHD--- 356 Query: 363 AIKASMVVMGEVKNG 377 +K S V + K+G Sbjct: 357 -LKQSPVTVYRFKDG 370 >gi|300312236|ref|YP_003776328.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 385 Score = 117 bits (293), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 106/360 (29%), Positives = 164/360 (45%), Gaps = 18/360 (5%) Query: 1 MTYKTQAFVAAALMSLALTSQAA--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 PVINNVATGTVITKQFEKEKDNYIFRTSAADKIQAKMIADEAVDKQKFSKVAIL-ADSTN 177 V T IT + FR S + + AV KVA++ + Sbjct: 121 VVFGTSNTADGITAM-----GPFTFRNSVMEADVLPVTVKAAVKHFGIKKVAVIYGNDDA 175 Query: 178 YGQLGREDLEKVLADKKVTPVAVEKYNIKDVDMTAQLLKSKQGGAQAVLTYGIGPELAQI 237 + + G + + L +K+ E Y DVD AQL K K G A++ + E A I Sbjct: 176 FTKSGYDVFKATLEHQKIPVTTTEAYAKGDVDFKAQLTKIKAGNPDAIVCSCLAEEAANI 235 Query: 238 ANGMEKLNWHVPIIGSWPLSMGNFIDNSGKNGNGARMPQTFIQDGNTPKRKAFIEAYQKA 297 L P IG L+ + + G+ M + + TP KAFI AY+ Sbjct: 236 ILQTRALGMKQPFIGGNGLNSPKLFEIAKDAGDNTLMGSPWSAENQTPANKAFITAYKAK 295 Query: 298 YKVDRMPSAVSAAQGYDSILLLAAAIKQAG-----STDGEKVRAALENLNTKVEGVVTTY 352 + D P AAQ YD++ ++A A+K + 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 = 110 bits (276), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 95/359 (26%), Positives = 175/359 (48%), Gaps = 23/359 (6%) 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 FRTSAADKIQAKMIADEAVDKQKFSKVAILADSTNYGQLGREDLEKVLADKKVTPVAVEK 202 FRT ++ ++ A AVDK + + + D T +GQ E + +++ V + Sbjct: 155 FRTIPNNESLGRLAAGYAVDKLETRTIVTIDDRTPFGQGLAEQFARTASERGAQ--VVGR 212 Query: 203 YNIKD--VDMTAQLLKSKQGGAQAVLTYGIGPELAQIANGMEKLNWHVPIIGSWPLSMG- 259 Y++ D D A LL++++ + G+ + +A + +L H ++ S P ++G Sbjct: 213 YSVSDKTSDFNAALLEARKLQPDLIFFGGLDWQAGVLAKSIRRLKLHARLMAS-PGTLGL 271 Query: 260 NFIDNSGKNGNGARMPQTFIQDGNTPKRKAFIEAYQKAYKVDRMPSAVSAAQGYDSILLL 319 F+ +G + NGA + + P K+F + Y + + D AV A Y++ + Sbjct: 272 PFLMRAGPDANGALVLEPGPPQDKMPGWKSFRQRYSENFDSDMDLYAVFA---YEAAQAI 328 Query: 320 AAAIKQAGSTDGEKVRAALENLNTKVEGVVTTYDKPFTHDDHEAIKASMVVMGEVKNGR 378 I+QAGS D E++ A+ L + EGV P ++ + M EVK+ R Sbjct: 329 IQGIRQAGSADPERIAEAMHRL--RFEGV----SGPVAFNEEGDLLQPSFTMYEVKDQR 381 >gi|300310991|ref|YP_003775083.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 373 Score = 99.4 bits (246), Expect = 5e-22, Method: Compositional matrix adjust. Identities = 93/336 (27%), Positives = 144/336 (42%), 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 FRTSAADKIQAKMIADEAVDKQKFSKVAILADSTNYGQLGREDLEKVLADKKVTPVAVEK 202 FRT D Q A ++K K KVA+L D +YGQ ++ L KV V E Sbjct: 142 FRTIGRDDQQGPAAARYVIEKLKPKKVAVLHDKQSYGQGVASSVKAALDAAKVPVVVFEG 201 Query: 203 YNIKDVDMTAQLLKSKQGGAQAVLTYGIGPELAQIANGMEKLNWHVPIIGSWPLSMGN-- 260 N D D +A + K K G V G PE+ I + +G P +GN Sbjct: 202 INAGDSDYSAIVTKLKSQGVDFVYFGGYHPEMGLIMRQAREQGIKAVFMG--PEGVGNKD 259 Query: 261 --FIDNSGKNGNGARMPQTFIQDGNTPKRKAFIEAYQKAYKVDRMPSAVSAAQGYDSILL 318 I G +P F D A + R P+ Y + + Sbjct: 260 ITAIAGPASEGMLVTLPADFAAD------PANAALVKAFAAAKRDPNGPFQMPAYSGVKI 313 Query: 319 LAAAIKQAGSTDGEKVRAALENLNTKVEGVVTTYDK 354 +A AI A STD EKV 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 0.130 0.356 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: 1,119,023 Number of extensions: 46172 Number of successful extensions: 165 Number of sequences better than 1.0e-08: 18 Number of HSP's gapped: 148 Number of HSP's successfully gapped: 18 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 (21.9 bits) S2: 131 (55.1 bits)