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= 0001.2903.p (385 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312236|ref|YP_003776328.1| amino acid ABC transporter peri... 751 0.0 gi|300311113|ref|YP_003775205.1| branched-chain amino acid ABC t... 117 2e-27 gi|300310991|ref|YP_003775083.1| branched-chain amino acid ABC t... 104 1e-23 gi|300309516|ref|YP_003773608.1| branched-chain amino acid ABC t... 97 2e-21 gi|300311772|ref|YP_003775864.1| branched-chain amino acid ABC t... 96 5e-21 >gi|300312236|ref|YP_003776328.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 385 Score = 751 bits (1939), Expect = 0.0, Method: Compositional matrix adjust. Identities = 378/385 (98%), Positives = 380/385 (98%) Query: 1 MQFNTMLKTIPALLIGAALSQAALAADIKLGVAEALTGPAAKYGVAIKNGFTLASEEINA 60 MQFNTMLKTIPALLIGA LSQAALAADIKLGVAEALTGPAAKYGVAIKNGFTLASEEINA Sbjct: 1 MQFNTMLKTIPALLIGATLSQAALAADIKLGVAEALTGPAAKYGVAIKNGFTLASEEINA 60 Query: 61 KGGVNGDKLALVIEDEQGKKEEAINVFKKLIFQDKVLAVFGPTLSNSAFAADPIANASKV 120 KGGVNGDKLALVIEDEQGKKEEAINVFKKLIFQDKVLAVFGPTLSNSAFAADPIANA+KV Sbjct: 61 KGGVNGDKLALVIEDEQGKKEEAINVFKKLIFQDKVLAVFGPTLSNSAFAADPIANAAKV 120 Query: 121 VVFGTSNTADGITAMGPFTFRNSVMEADVLPVTVKAAVKHFGIKKVAVIYGNDDAFTKSG 180 VVFGTSNTADGITAMGPFTFRNSVMEADVLPVTVKAAVKHFGIKKVAVIYGNDDAFTKSG Sbjct: 121 VVFGTSNTADGITAMGPFTFRNSVMEADVLPVTVKAAVKHFGIKKVAVIYGNDDAFTKSG 180 Query: 181 YDVFKATLEQQKIPVTTTEAYAKGDVDFKAQLTKIKAGNPDAIVCSCLAEEAANIILQTR 240 YDVFKATLE QKIPVTTTEAYAKGDVDFKAQLTKIKAGNPDAIVCSCLAEEAANIILQTR Sbjct: 181 YDVFKATLEHQKIPVTTTEAYAKGDVDFKAQLTKIKAGNPDAIVCSCLAEEAANIILQTR 240 Query: 241 ALGMKQPFIGGNGLNSPKLFEIAKDAGDNTLMGSPWSAENQTPANKAFIAAYKAKFGSDP 300 ALGMKQPFIGGNGLNSPKLFEIAKDAGDNTLMGSPWSAENQTPANKAFI AYKAKFG+DP Sbjct: 241 ALGMKQPFIGGNGLNSPKLFEIAKDAGDNTLMGSPWSAENQTPANKAFITAYKAKFGADP 300 Query: 301 DQFAAQAYDAMYIVADALKTVKLSGNLAKDRDALRAALPAVKIDGATGKFAFRPAPAVAG 360 DQFAAQAYDAMYIVADALK VKLSGNLAKDRDALRAALPAVKIDGATGKFAFR APAVAG Sbjct: 301 DQFAAQAYDAMYIVADALKNVKLSGNLAKDRDALRAALPAVKIDGATGKFAFRAAPAVAG 360 Query: 361 KQVGFDADQEAIVNIAKGGKFVLLK 385 KQVGFDADQEAIVNIAKGGKFVLLK Sbjct: 361 KQVGFDADQEAIVNIAKGGKFVLLK 385 >gi|300311113|ref|YP_003775205.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 383 Score = 117 bits (292), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 109/381 (28%), Positives = 171/381 (44%), Gaps = 28/381 (7%) Query: 1 MQFNTMLKTIPALLIGAALSQAALAADIKLGVAEALTGPAAKYGVAIKNGFTLASEEINA 60 M + T AL+ A SQAA IK+GV+ TG +A GV++++G LA EINA Sbjct: 1 MTYKTQAFVAAALMSLALTSQAA--DPIKIGVSGPYTGGSAPMGVSMRDGVKLAVAEINA 58 Query: 61 KGGVNGDKLALVIEDEQGKKEEAINVFKKLIFQDKVLAVFGPTLSNSAFAADPIANASKV 120 GG+ G ++ L+ D++ K E + + ++LI ++KV+A G + A A+ +K+ Sbjct: 59 AGGLLGRQIQLIERDDEAKNERGVQIAQELINKEKVVATVGFINTGVALASQRFYQEAKI 118 Query: 121 VVFGTSNTADGITAM-----GPFTFRNSVMEADVLPVTVKAAVKHFGIKKVAVIYGNDDA 175 V T IT + FR S + + AV KVA++ + Sbjct: 119 PVINNVATGTVITKQFEKEKDNYVFRTSAADKIQAKMIADEAVDKQKFTKVAIL-ADSTN 177 Query: 176 FTKSGYDVFKATLEQQKIPVTTTEAYAKGDVDFKAQLTKIKAGNPDAIVCSCLAEEAANI 235 + + G + + L +K+ E Y DVD AQL K K G A++ + E A I Sbjct: 178 YGQLGREDLEKVLADKKVTPVAVEKYNIKDVDMTAQLLKSKQGGAQAVLTYGIGPELAQI 237 Query: 236 ILQTRALGMKQPFIGGNGLNSPKLFEIAKDAGDNTLMGSPWSAENQTPANKAFIAAYKAK 295 L P IG L+ + + G+ M + + TP KAFI AY+ Sbjct: 238 ANGMEKLNWHVPIIGSWPLSMGNFIDNSGKNGNGARMPQTFIQDGNTPKRKAFIEAYQKA 297 Query: 296 FGSD--PDQF-AAQAYDAMYIVADALKTVKLSGNLAKDRDALRAALPAV--KIDGATGKF 350 + D P AAQ YD++ ++A A+K + D D +RAAL + K++G + Sbjct: 298 YKVDRMPSAVSAAQGYDSILLLAAAIKQAGTT-----DGDKVRAALENLNTKVEGVVTTY 352 Query: 351 ----------AFRPAPAVAGK 361 A +PA V G+ Sbjct: 353 DKPFTHDDHEAIKPAMVVMGE 373 >gi|300310991|ref|YP_003775083.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 373 Score = 104 bits (259), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 93/303 (30%), Positives = 145/303 (47%), Gaps = 11/303 (3%) Query: 25 AADIKLGVAEALTGPAAKYGVAIKNGFTLASEEINAKGGVNGDKLALVIEDEQGKKEEAI 84 A +K+ +A +TG A+YG +K G A E+INA GG NG+K V+ D+ + ++A+ Sbjct: 26 AETVKIAIAGPMTGAVAQYGDMVKAGALTAIEQINAAGGANGNKFEAVMMDDACEPKQAV 85 Query: 85 NVFKKLIFQDKVLAVFGPTLSNSAFAADPIANASKVVVFGTSNTADGITAMGP--FTFRN 142 V K++ Q + V G S S A I VV+ S TA +T P F FR Sbjct: 86 AVANKIVSQG-IKYVIGHVCSGSTIPASDIYENEGVVMITPSATAPQLTEAKPHKFIFRT 144 Query: 143 SVMEADVLPVTVKAAVKHFGIKKVAVIYGNDDAFTKSGYDVFKATLEQQKIPVTTTEAYA 202 + P + ++ KKVAV++ + ++ + KA L+ K+PV E Sbjct: 145 IGRDDQQGPAAARYVIEKLKPKKVAVLH-DKQSYGQGVASSVKAALDAAKVPVVVFEGIN 203 Query: 203 KGDVDFKAQLTKIKAGNPDAIVCSCLAEEAANIILQTRALGMKQPFIGGNGLNSPKLFEI 262 GD D+ A +TK+K+ D + E I+ Q R G+K F+G G+ + + I Sbjct: 204 AGDSDYSAIVTKLKSQGVDFVYFGGYHPEMGLIMRQAREQGIKAVFMGPEGVGNKDITAI 263 Query: 263 AKDAGDNTLMGSP--WSAENQTPANKAFIAAYKAKFGSDPD-QFAAQAYDAMYIVADALK 319 A A + L+ P ++A+ PAN A + A DP+ F AY + I+ADA+ Sbjct: 264 AGPASEGMLVTLPADFAAD---PANAA-LVKAFAAAKRDPNGPFQMPAYSGVKIIADAIA 319 Query: 320 TVK 322 K Sbjct: 320 GAK 322 >gi|300309516|ref|YP_003773608.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 378 Score = 97.1 bits (240), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 94/332 (28%), Positives = 149/332 (44%), Gaps = 17/332 (5%) Query: 28 IKLGVAEALTGPAAKYGVAIKNGFTLASEEINAKG-GVNGDKLA--LVIEDEQGKKEEAI 84 +K+G + LTGP A G + G +A E +NA+ V G K+ ++ ED+Q + + Sbjct: 30 VKIGFSSPLTGPQASAGKDNQGGLMMAIERLNAQPITVGGKKIKFDVIAEDDQADPKSGV 89 Query: 85 NVFKKLIFQDKVLAVFGPTLSNSAFAADPIANASKVVVFGTSNTADGITAMGPFT-FRNS 143 V +KL Q V A+ GP S A + N + +VV T + IT G T FR + Sbjct: 90 AVAQKLADQG-VKAIVGPYNSGVTIPASRVYNDAGIVV-ATVASNPKITQQGFATLFRVA 147 Query: 144 VMEADVLPVTVKAAVKHFGIKKVAVIYGNDD--AFTKSGYDVFKATLEQQKIPVTTTEAY 201 ++ + A K K+VAVI DD A+ + F + I V +T+ Sbjct: 148 ASDSQLGGKMALYAAKELKFKRVAVI---DDRTAYGQGLAQEFIKVAKANGIDVVSTDFT 204 Query: 202 AKGDVDFKAQLTKIKAGNPDAIVCSCLAEEAANIILQTRALGMKQPFIGGNGLNSPKLFE 261 DF A LT IK PDA+ A + I Q + LG+ P +GG+G+ SP++ Sbjct: 205 NDKATDFTAILTSIKGKKPDAVFLGGYAPQGGPIKRQMKQLGVDVPLMGGDGICSPEMGR 264 Query: 262 IAKDA-GDNTLMGSPWSAENQTPANKAFIAAYKAKFGSDPDQFAAQAYDAMYIVADALKT 320 + DA G++ + ++ K F Y+ K+ + +A YD M ++A A+K Sbjct: 265 LGGDAIGESVYCTQGGTMLDKAKEGKVFSDEYQKKYNRPAETYAVSFYDGMMLIAQAMKQ 324 Query: 321 VKLSGNLAKDRDALRAALPAVKIDGATGKFAF 352 + D AL + G G++ F Sbjct: 325 AN-----SVDPKQFGPALAKISYKGVAGQYDF 351 >gi|300311772|ref|YP_003775864.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 404 Score = 95.9 bits (237), Expect = 5e-21, Method: Compositional matrix adjust. Identities = 88/325 (27%), Positives = 148/325 (45%), Gaps = 37/325 (11%) Query: 48 KNGFTLASEEINAKGGVNGDKLALVIEDEQGKKEEAINVFKKLIFQDKVLAVFGPTLSNS 107 + G+ +A +EINA GGV G KL ++ D+ G +++ V ++L+ +++V +FG LSN+ Sbjct: 51 RRGWEMALDEINASGGVLGKKLEVIARDDNGNPGDSVRVAEELMARERVALLFGGFLSNT 110 Query: 108 AFAADPIANASKVVVFGTSNTADGITAM--GPFTFRNSVMEADVLPVTVKAAVKHFGIKK 165 A A +V D I +T+R + ++ VK AVK K+ Sbjct: 111 GLALTDYAKQHRVFFLAAEPLTDKIVWQNGNKYTYRLRPSTSMLVASVVKEAVK-LKKKR 169 Query: 166 VAVIYGNDDAFTKSGYDVFKATLEQQKIPVTTTEAYAKGDVDFKAQ----LTKIKAG--- 218 A++Y N + + +S FK ++Q A+ DV+F A+ L KI AG Sbjct: 170 WAIVYPNYE-YGQSAVASFKTLMKQ-----------AQPDVEFVAEQAPPLGKIDAGAVT 217 Query: 219 ------NPDAIVCSCLAEEAANIILQTRALGM-KQPFIGGNGLNSPKLFEIAK-DAGDNT 270 PDAI + A + + + G+ +Q + P+ + K +A N Sbjct: 218 QALADAKPDAIFNALFAADLGKFVREGNTRGLFEQVDVVSLLTGEPEYLDPLKGEAPQNW 277 Query: 271 LM-GSPWSAENQTPANKAFIAAYKAKFGSDPDQFAAQAYDAMYIVADALKTVKLSGNLAK 329 ++ G PW A + TP +K F+ AY+ KF P + Y A+ +A L+ + Sbjct: 278 IVTGYPWYAIH-TPEHKKFVEAYRKKFNDYPRNGSLVGYSALMSIAAGLRKAG-----ST 331 Query: 330 DRDALRAALPAVKIDGATGKFAFRP 354 D D L AA +K++ +RP Sbjct: 332 DADRLAAAFSGLKVETPVASIVYRP 356 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 0.316 0.132 0.368 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: 1,055,830 Number of extensions: 41093 Number of successful extensions: 203 Number of sequences better than 1.0e-08: 20 Number of HSP's gapped: 177 Number of HSP's successfully gapped: 20 Length of query: 385 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 298 Effective length of database: 1,207,925 Effective search space: 359961650 Effective search space used: 359961650 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)