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= 0013.0087.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... 722 0.0 gi|300312236|ref|YP_003776328.1| amino acid ABC transporter peri... 115 6e-27 gi|300309516|ref|YP_003773608.1| branched-chain amino acid ABC t... 112 5e-26 gi|300310948|ref|YP_003775040.1| branched-chain amino acid ABC t... 112 6e-26 gi|300312761|ref|YP_003776853.1| branched-chain amino acid ABC t... 107 2e-24 >gi|300311113|ref|YP_003775205.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 383 Score = 722 bits (1864), Expect = 0.0, Method: Compositional matrix adjust. Identities = 345/383 (90%), Positives = 371/383 (96%) Query: 1 MTYKTQALVAAALLSLSLSSQAADPIKIGVSGPFTGGSAPMGVSMRDGVKLAVAEINAAG 60 MTYKTQA VAAAL+SL+L+SQAADPIKIGVSGP+TGGSAPMGVSMRDGVKLAVAEINAAG Sbjct: 1 MTYKTQAFVAAALMSLALTSQAADPIKIGVSGPYTGGSAPMGVSMRDGVKLAVAEINAAG 60 Query: 61 GLLGRQVQLVERDDEAKNERGVQIAQEMINKEKVVATVGYANTGVALASQRFYQEAKIPV 120 GLLGRQ+QL+ERDDEAKNERGVQIAQE+INKEKVVATVG+ NTGVALASQRFYQEAKIPV Sbjct: 61 GLLGRQIQLIERDDEAKNERGVQIAQELINKEKVVATVGFINTGVALASQRFYQEAKIPV 120 Query: 121 ITNVATGSVVTKQFEKDKDNYIFRTSANDAIQAKMLADEAIDKQKYTKVAILADSTNYGQ 180 I NVATG+V+TKQFEK+KDNY+FRTSA D IQAKM+ADEA+DKQK+TKVAILADSTNYGQ Sbjct: 121 INNVATGTVITKQFEKEKDNYVFRTSAADKIQAKMIADEAVDKQKFTKVAILADSTNYGQ 180 Query: 181 LGREDLEKALAAKKITPVAIEKYNLKDVDMTAQLLKSKQGGAQVVLTYGIGPELAQIANG 240 LGREDLEK LA KK+TPVA+EKYN+KDVDMTAQLLKSKQGGAQ VLTYGIGPELAQIANG Sbjct: 181 LGREDLEKVLADKKVTPVAVEKYNIKDVDMTAQLLKSKQGGAQAVLTYGIGPELAQIANG 240 Query: 241 MEKLNWHVPIIGSWPLSMGNFIDNSGKNGNGARMPQTFIQDGDTPKRKSFIEAYQKAYKV 300 MEKLNWHVPIIGSWPLSMGNFIDNSGKNGNGARMPQTFIQDG+TPKRK+FIEAYQKAYKV Sbjct: 241 MEKLNWHVPIIGSWPLSMGNFIDNSGKNGNGARMPQTFIQDGNTPKRKAFIEAYQKAYKV 300 Query: 301 DRMPSAVSAAQGYDSILLLAAAIKQAGSTDGEKVRGALESLNTKIEGVVTTYNKPFTRDD 360 DRMPSAVSAAQGYDSILLLAAAIKQAG+TDG+KVR ALE+LNTK+EGVVTTY+KPFT DD Sbjct: 301 DRMPSAVSAAQGYDSILLLAAAIKQAGTTDGDKVRAALENLNTKVEGVVTTYDKPFTHDD 360 Query: 361 HEAIKANMVVMGEVKNGRVVLGK 383 HEAIK MVVMGEVKNGRV+LGK Sbjct: 361 HEAIKPAMVVMGEVKNGRVILGK 383 >gi|300312236|ref|YP_003776328.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 385 Score = 115 bits (288), Expect = 6e-27, Method: Compositional matrix adjust. Identities = 103/361 (28%), Positives = 167/361 (46%), Gaps = 20/361 (5%) Query: 1 MTYKTQALVAAALL---SLSLSSQAADPIKIGVSGPFTGGSAPMGVSMRDGVKLAVAEIN 57 M + T ALL +LS ++ AAD IK+GV+ TG +A GV++++G LA EIN Sbjct: 1 MQFNTMLKTIPALLIGATLSQAALAAD-IKLGVAEALTGPAAKYGVAIKNGFTLASEEIN 59 Query: 58 AAGGLLGRQVQLVERDDEAKNERGVQIAQEMINKEKVVATVGYANTGVALASQRFYQEAK 117 A GG+ G ++ LV D++ K E + + +++I ++KV+A G + A A+ AK Sbjct: 60 AKGGVNGDKLALVIEDEQGKKEEAINVFKKLIFQDKVLAVFGPTLSNSAFAADPIANAAK 119 Query: 118 IPVITNVATGSVVTKQFEKDKDNYIFRTSANDAIQAKMLADEAIDKQKYTKVAIL-ADST 176 + V T +T + FR S +A + A+ KVA++ + Sbjct: 120 VVVFGTSNTADGITAM-----GPFTFRNSVMEADVLPVTVKAAVKHFGIKKVAVIYGNDD 174 Query: 177 NYGQLGREDLEKALAAKKITPVAIEKYNLKDVDMTAQLLKSKQGGAQVVLTYGIGPELAQ 236 + + G + + L +KI E Y DVD AQL K K G ++ + E A Sbjct: 175 AFTKSGYDVFKATLEHQKIPVTTTEAYAKGDVDFKAQLTKIKAGNPDAIVCSCLAEEAAN 234 Query: 237 IANGMEKLNWHVPIIGSWPLSMGNFIDNSGKNGNGARMPQTFIQDGDTPKRKSFIEAYQK 296 I L P IG L+ + + G+ M + + TP K+FI AY+ Sbjct: 235 IILQTRALGMKQPFIGGNGLNSPKLFEIAKDAGDNTLMGSPWSAENQTPANKAFITAYKA 294 Query: 297 AYKVDRMPSAVSAAQGYDSILLLAAAIKQAG-----STDGEKVRGALESLNTKIEGVVTT 351 + D P AAQ YD++ ++A A+K + D + +R AL ++ KI+G Sbjct: 295 KFGAD--PDQF-AAQAYDAMYIVADALKNVKLSGNLAKDRDALRAALPAV--KIDGATGK 349 Query: 352 Y 352 + Sbjct: 350 F 350 >gi|300309516|ref|YP_003773608.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 378 Score = 112 bits (280), Expect = 5e-26, Method: Compositional matrix adjust. Identities = 111/378 (29%), Positives = 176/378 (46%), Gaps = 29/378 (7%) Query: 12 ALLSLSLSSQAADPIKIGVSGPFTGGSAPMGVSMRDGVKLAVAEINAAGGLLGRQ---VQ 68 AL+ +Q +KIG S P TG A G + G+ +A+ +NA +G + Sbjct: 16 ALIPAFAMAQETQVVKIGFSSPLTGPQASAGKDNQGGLMMAIERLNAQPITVGGKKIKFD 75 Query: 69 LVERDDEAKNERGVQIAQEMINKEKVVATVGYANTGVALASQRFYQEAKIPVITNVATGS 128 ++ DD+A + GV +AQ++ + + V A VG N+GV + + R Y +A I V+ VA+ Sbjct: 76 VIAEDDQADPKSGVAVAQKLAD-QGVKAIVGPYNSGVTIPASRVYNDAGI-VVATVASNP 133 Query: 129 VVTKQ-FEKDKDNYIFRTSANDAIQAKMLADEAIDKQKYTKVAILADSTNYGQLGREDLE 187 +T+Q F +FR +A+D+ +A A + K+ +VA++ D T YGQ ++ Sbjct: 134 KITQQGFAT-----LFRVAASDSQLGGKMALYAAKELKFKRVAVIDDRTAYGQGLAQEFI 188 Query: 188 KALAAKKITPVAIEKYNLKDVDMTAQLLKSKQGGAQVVLTYGIGPELAQIANGMEKLNWH 247 K A I V+ + N K D TA L K V G P+ I M++L Sbjct: 189 KVAKANGIDVVSTDFTNDKATDFTAILTSIKGKKPDAVFLGGYAPQGGPIKRQMKQLGVD 248 Query: 248 VPIIGSWPLSMGNFIDNSGKNGNGARMPQTFIQDGDT-----PKRKSFIEAYQKAYKVDR 302 VP++G G G+ G A + G T + K F + YQK Y Sbjct: 249 VPLMGGD----GICSPEMGRLGGDAIGESVYCTQGGTMLDKAKEGKVFSDEYQKKY---N 301 Query: 303 MPSAVSAAQGYDSILLLAAAIKQAGSTDGEKVRGALESLNTKIEGVVTTYNKPFTRDDHE 362 P+ A YD ++L+A A+KQA S D ++ AL ++ K GV Y+ D + Sbjct: 302 RPAETYAVSFYDGMMLIAQAMKQANSVDPKQFGPALAKISYK--GVAGQYD----FDANH 355 Query: 363 AIKANMVVMGEVKNGRVV 380 +K + V + K+G V Sbjct: 356 DLKQSPVTVYRFKDGLPV 373 >gi|300310948|ref|YP_003775040.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 394 Score = 112 bits (280), Expect = 6e-26, Method: Compositional matrix adjust. Identities = 95/357 (26%), Positives = 174/357 (48%), Gaps = 19/357 (5%) Query: 26 IKIGVSGPFTGGSAPMGVSMRDGVKLAVAEINAAGGLLG---RQVQLVERDDEAKNERGV 82 + IG +GP +G S +G SM++GV+LA+AE N G +G Q++L+ +DD A Sbjct: 40 LAIGFAGPLSGPSGGVGKSMQNGVQLALAEANRRGLRIGGKSWQLRLIAQDDRADPATAE 99 Query: 83 QIAQEMINKEKVVATVGYANTGVALASQRFYQEAKIPVITNVATGSVVTKQFEKDKDNYI 142 +A+ ++ +++V+A VG+ +G +LA+ Y A + +T S ++++ I Sbjct: 100 FVARSLV-QQQVIAVVGHWTSGTSLAAAPVYHRAGVIQVTP----SAMSRRLTAMSYPRI 154 Query: 143 FRTSANDAIQAKMLADEAIDKQKYTKVAILADSTNYGQLGREDLEKALAAKKITPVAIEK 202 FRT N+ ++ A A+DK + + + D T +GQ E + + + V Sbjct: 155 FRTIPNNESLGRLAAGYAVDKLETRTIVTIDDRTPFGQGLAEQFARTASERGAQVVGRYS 214 Query: 203 YNLKDVDMTAQLLKSKQGGAQVVLTYGIGPELAQIANGMEKLNWHVPIIGSWPLSMG-NF 261 + K D A LL++++ ++ G+ + +A + +L H ++ S P ++G F Sbjct: 215 VSDKTSDFNAALLEARKLQPDLIFFGGLDWQAGVLAKSIRRLKLHARLMAS-PGTLGLPF 273 Query: 262 IDNSGKNGNGARMPQTFIQDGDTPKRKSFIEAYQKAYKVDRMPSAVSAAQGYDSILLLAA 321 + +G + NGA + + P KSF + Y + + D AV A Y++ + Sbjct: 274 LMRAGPDANGALVLEPGPPQDKMPGWKSFRQRYSENFDSDMDLYAVFA---YEAAQAIIQ 330 Query: 322 AIKQAGSTDGEKVRGALESLNTKIEGVVTTYNKPFTRDDHEAIKANMVVMGEVKNGR 378 I+QAGS D E++ A+ L + EGV + P ++ + M EVK+ R Sbjct: 331 GIRQAGSADPERIAEAMHRL--RFEGV----SGPVAFNEEGDLLQPSFTMYEVKDQR 381 >gi|300312761|ref|YP_003776853.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 380 Score = 107 bits (266), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 102/356 (28%), Positives = 169/356 (47%), Gaps = 29/356 (8%) Query: 8 LVAAALLSLSLSSQAADPIKIGVSGPFTGGSAPMGVSMRDGVKLAVAEINAAGGLLGR-- 65 L AA L+ + ++ + + +KI GP +G +A MG +G ++AV E+NA G +G Sbjct: 10 LTAAIGLAFAGAAYSQEVVKIAHVGPLSGPNAHMGKDNENGARMAVDELNAKGFTIGGKK 69 Query: 66 -QVQLVERDDEAKNERGVQIAQEMINKEKVVATVGYANTGVALASQRFYQEAKIPVITNV 124 + +LV DD + ++ +A ++++ +KV A +G+ N+G + + + Y +A IP ++ Sbjct: 70 VKFELVGEDDASDPKQATAVATKLVD-QKVAAVIGHLNSGTTIPASKIYSDAGIPQVSPS 128 Query: 125 ATGSVVTKQFEKDKDNYIFRTSANDAIQAKMLADEAIDKQKYTKVAILADSTNYGQLGRE 184 AT T+Q K FR ANDA L A+ K ++A++ D T YGQ + Sbjct: 129 ATNPKYTQQGFKTA----FRVVANDAQLGAALGKYAVQKLGTKQIAVIDDRTAYGQGVAD 184 Query: 185 DLEKALAAKKITPVAIEKYNLKDVDMTAQLLKSKQGGAQVVLTYGI----GPELAQIANG 240 + K A T V + N K D A L K VV G+ GP L Q Sbjct: 185 EFAKGAKAAGGTIVGTQYTNDKATDFNAILTSLKGKKPDVVFFGGMDAVGGPMLRQ---- 240 Query: 241 MEKLNWHVPIIGSWPLSMGNFIDNSGKNGNGARMPQTFIQDG---DTPKRKS---FIEAY 294 M++L +G + G+ G G+G Q + D +K F AY Sbjct: 241 MKQLGISAKFMGGDGICTGSL---PGLAGDGLGDDQVICAEAGGVDEAGKKGMDDFRAAY 297 Query: 295 QKAYKVDRMPSAVSAAQGYDSILLLAAAIKQAGSTDGEKVRGALESLNTK-IEGVV 349 +K + +D + +AA YD+ + +A A+ +AGS D +K L ++ K + GV+ Sbjct: 298 KKKFGIDVV---YNAAYAYDATMTVADAMAKAGSADPKKYLPELAKISHKGVTGVI 350 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 0.313 0.130 0.353 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: 1,087,248 Number of extensions: 44342 Number of successful extensions: 156 Number of sequences better than 1.0e-08: 20 Number of HSP's gapped: 138 Number of HSP's successfully gapped: 20 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)