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= 0025.0112.p (388 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... 698 0.0 gi|300311113|ref|YP_003775205.1| branched-chain amino acid ABC t... 110 2e-25 gi|300311772|ref|YP_003775864.1| branched-chain amino acid ABC t... 100 3e-22 gi|300310991|ref|YP_003775083.1| branched-chain amino acid ABC t... 100 3e-22 gi|300312761|ref|YP_003776853.1| branched-chain amino acid ABC t... 97 3e-21 >gi|300312236|ref|YP_003776328.1| amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 385 Score = 698 bits (1802), Expect = 0.0, Method: Compositional matrix adjust. Identities = 347/388 (89%), Positives = 367/388 (94%), Gaps = 3/388 (0%) Query: 1 MRFNMLKTALKTLPALMIGVTMANAALAADVKLGLAAALTGPAAKYGVAIKNGFTLAADE 60 M+FN T LKT+PAL+IG T++ AALAAD+KLG+A ALTGPAAKYGVAIKNGFTLA++E Sbjct: 1 MQFN---TMLKTIPALLIGATLSQAALAADIKLGVAEALTGPAAKYGVAIKNGFTLASEE 57 Query: 61 VNAKGGVNGNKLVLIAEDEQGKKEEAINVFKKLIFQDKVLMVFGPTLSNSAFAADPIANA 120 +NAKGGVNG+KL L+ EDEQGKKEEAINVFKKLIFQDKVL VFGPTLSNSAFAADPIANA Sbjct: 58 INAKGGVNGDKLALVIEDEQGKKEEAINVFKKLIFQDKVLAVFGPTLSNSAFAADPIANA 117 Query: 121 AKVVAFGTSNTADGITAMGPFTFRNSVMEADVLPVTVKAAVKHFGIKKVAVIYGNDDAFT 180 AKVV FGTSNTADGITAMGPFTFRNSVMEADVLPVTVKAAVKHFGIKKVAVIYGNDDAFT Sbjct: 118 AKVVVFGTSNTADGITAMGPFTFRNSVMEADVLPVTVKAAVKHFGIKKVAVIYGNDDAFT 177 Query: 181 KSGYDVFKATLEQQKIPVTTTEAYAKGDVDFKAQLTKIKAGNPDAIVCSCLAEEAANIIL 240 KSGYDVFKATLE QKIPVTTTEAYAKGDVDFKAQLTKIKAGNPDAIVCSCLAEEAANIIL Sbjct: 178 KSGYDVFKATLEHQKIPVTTTEAYAKGDVDFKAQLTKIKAGNPDAIVCSCLAEEAANIIL 237 Query: 241 QTRTLGMKQPFIGGNGLNSPKLFEIAKDAGDNTLMGSPWSSENLTPANKAFIAAYKAKFG 300 QTR LGMKQPFIGGNGLNSPKLFEIAKDAGDNTLMGSPWS+EN TPANKAFI AYKAKFG Sbjct: 238 QTRALGMKQPFIGGNGLNSPKLFEIAKDAGDNTLMGSPWSAENQTPANKAFITAYKAKFG 297 Query: 301 SDPDQFSAQAYDALYVVVEALKNVKLSGALDKDRDALRQALPAVKIDGATGKFAFRAAPA 360 +DPDQF+AQAYDA+Y+V +ALKNVKLSG L KDRDALR ALPAVKIDGATGKFAFRAAPA Sbjct: 298 ADPDQFAAQAYDAMYIVADALKNVKLSGNLAKDRDALRAALPAVKIDGATGKFAFRAAPA 357 Query: 361 VAGKQVGFDAQQEAVVSIAKGGKFTLLK 388 VAGKQVGFDA QEA+V+IAKGGKF LLK Sbjct: 358 VAGKQVGFDADQEAIVNIAKGGKFVLLK 385 >gi|300311113|ref|YP_003775205.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 383 Score = 110 bits (274), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 97/345 (28%), Positives = 161/345 (46%), Gaps = 17/345 (4%) Query: 20 VTMANAALAAD-VKLGLAAALTGPAAKYGVAIKNGFTLAADEVNAKGGVNGNKLVLIAED 78 +++A + AAD +K+G++ TG +A GV++++G LA E+NA GG+ G ++ LI D Sbjct: 14 MSLALTSQAADPIKIGVSGPYTGGSAPMGVSMRDGVKLAVAEINAAGGLLGRQIQLIERD 73 Query: 79 EQGKKEEAINVFKKLIFQDKVLMVFGPTLSNSAFAADPIANAAKV-----VAFGTSNTAD 133 ++ K E + + ++LI ++KV+ G + A A+ AK+ VA GT T Sbjct: 74 DEAKNERGVQIAQELINKEKVVATVGFINTGVALASQRFYQEAKIPVINNVATGTVITKQ 133 Query: 134 GITAMGPFTFRNSVMEADVLPVTVKAAVKHFGIKKVAVIYGNDDAFTKSGYDVFKATLEQ 193 + FR S + + AV KVA++ + + + G + + L Sbjct: 134 FEKEKDNYVFRTSAADKIQAKMIADEAVDKQKFTKVAIL-ADSTNYGQLGREDLEKVLAD 192 Query: 194 QKIPVTTTEAYAKGDVDFKAQLTKIKAGNPDAIVCSCLAEEAANIILQTRTLGMKQPFIG 253 +K+ E Y DVD AQL K K G A++ + E A I L P IG Sbjct: 193 KKVTPVAVEKYNIKDVDMTAQLLKSKQGGAQAVLTYGIGPELAQIANGMEKLNWHVPIIG 252 Query: 254 GNGLNSPKLFEIAKDAGDNTLMGSPWSSENLTPANKAFIAAYKAKFGSD--PDQFS-AQA 310 L+ + + G+ M + + TP KAFI AY+ + D P S AQ Sbjct: 253 SWPLSMGNFIDNSGKNGNGARMPQTFIQDGNTPKRKAFIEAYQKAYKVDRMPSAVSAAQG 312 Query: 311 YDALYVVVEALKNVKLSGALDKDRDALRQALPAV--KIDGATGKF 353 YD++ ++ A+K +G D D+ +R AL + K++G + Sbjct: 313 YDSILLLAAAIKQ---AGTTDGDK--VRAALENLNTKVEGVVTTY 352 >gi|300311772|ref|YP_003775864.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 404 Score = 100 bits (248), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 91/324 (28%), Positives = 151/324 (46%), Gaps = 37/324 (11%) Query: 51 KNGFTLAADEVNAKGGVNGNKLVLIAEDEQGKKEEAINVFKKLIFQDKVLMVFGPTLSNS 110 + G+ +A DE+NA GGV G KL +IA D+ G +++ V ++L+ +++V ++FG LSN+ Sbjct: 51 RRGWEMALDEINASGGVLGKKLEVIARDDNGNPGDSVRVAEELMARERVALLFGGFLSNT 110 Query: 111 AFAADPIANAAKVVAFGTSNTADGITAM--GPFTFRNSVMEADVLPVTVKAAVKHFGIKK 168 A A +V D I +T+R + ++ VK AVK K+ Sbjct: 111 GLALTDYAKQHRVFFLAAEPLTDKIVWQNGNKYTYRLRPSTSMLVASVVKEAVK-LKKKR 169 Query: 169 VAVIYGNDDAFTKSGYDVFKATLEQQKIPVTTTEAYAKGDVDFKAQ----LTKIKAG--- 221 A++Y N + + +S FK ++Q A+ DV+F A+ L KI AG Sbjct: 170 WAIVYPNYE-YGQSAVASFKTLMKQ-----------AQPDVEFVAEQAPPLGKIDAGAVT 217 Query: 222 ------NPDAIVCSCLAEEAANIILQTRTLGM-KQPFIGGNGLNSPKLFEIAK-DAGDNT 273 PDAI + A + + + T G+ +Q + P+ + K +A N Sbjct: 218 QALADAKPDAIFNALFAADLGKFVREGNTRGLFEQVDVVSLLTGEPEYLDPLKGEAPQNW 277 Query: 274 LM-GSPWSSENLTPANKAFIAAYKAKFGSDPDQFSAQAYDALYVVVEALKNVKLSGALDK 332 ++ G PW + + TP +K F+ AY+ KF P S Y AL + L+ +G+ D Sbjct: 278 IVTGYPWYAIH-TPEHKKFVEAYRKKFNDYPRNGSLVGYSALMSIAAGLRK---AGSTDA 333 Query: 333 DRDALRQALPAVKIDGATGKFAFR 356 DR L A +K++ +R Sbjct: 334 DR--LAAAFSGLKVETPVASIVYR 355 >gi|300310991|ref|YP_003775083.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 373 Score = 100 bits (248), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 88/301 (29%), Positives = 139/301 (46%), Gaps = 7/301 (2%) Query: 28 AADVKLGLAAALTGPAAKYGVAIKNGFTLAADEVNAKGGVNGNKLVLIAEDEQGKKEEAI 87 A VK+ +A +TG A+YG +K G A +++NA GG NGNK + D+ + ++A+ Sbjct: 26 AETVKIAIAGPMTGAVAQYGDMVKAGALTAIEQINAAGGANGNKFEAVMMDDACEPKQAV 85 Query: 88 NVFKKLIFQDKVLMVFGPTLSNSAFAADPIANAAKVVAFGTSNTADGITAMGP--FTFRN 145 V K++ Q + V G S S A I VV S TA +T P F FR Sbjct: 86 AVANKIVSQG-IKYVIGHVCSGSTIPASDIYENEGVVMITPSATAPQLTEAKPHKFIFRT 144 Query: 146 SVMEADVLPVTVKAAVKHFGIKKVAVIYGNDDAFTKSGYDVFKATLEQQKIPVTTTEAYA 205 + P + ++ KKVAV++ + ++ + KA L+ K+PV E Sbjct: 145 IGRDDQQGPAAARYVIEKLKPKKVAVLH-DKQSYGQGVASSVKAALDAAKVPVVVFEGIN 203 Query: 206 KGDVDFKAQLTKIKAGNPDAIVCSCLAEEAANIILQTRTLGMKQPFIGGNGLNSPKLFEI 265 GD D+ A +TK+K+ D + E I+ Q R G+K F+G G+ + + I Sbjct: 204 AGDSDYSAIVTKLKSQGVDFVYFGGYHPEMGLIMRQAREQGIKAVFMGPEGVGNKDITAI 263 Query: 266 AKDAGDNTLMGSPWSSENLTPANKAFIAAYKAKFGSDPD-QFSAQAYDALYVVVEALKNV 324 A A + L+ P + PAN A + A DP+ F AY + ++ +A+ Sbjct: 264 AGPASEGMLVTLP-ADFAADPANAA-LVKAFAAAKRDPNGPFQMPAYSGVKIIADAIAGA 321 Query: 325 K 325 K Sbjct: 322 K 322 >gi|300312761|ref|YP_003776853.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 380 Score = 96.7 bits (239), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 113/362 (31%), Positives = 164/362 (45%), Gaps = 20/362 (5%) Query: 6 LKTALKTLPALMIGVTMANAALAADV-KLGLAAALTGPAAKYGVAIKNGFTLAADEVNAK 64 LK+A+ L A IG+ A AA + +V K+ L+GP A G +NG +A DE+NAK Sbjct: 3 LKSAIIPLTA-AIGLAFAGAAYSQEVVKIAHVGPLSGPNAHMGKDNENGARMAVDELNAK 61 Query: 65 GGVNGNKLV---LIAEDEQGKKEEAINVFKKLIFQDKVLMVFGPTLSNSAFAADPIANAA 121 G G K V L+ ED+ ++A V KL+ Q KV V G S + A I + A Sbjct: 62 GFTIGGKKVKFELVGEDDASDPKQATAVATKLVDQ-KVAAVIGHLNSGTTIPASKIYSDA 120 Query: 122 KVVAFGTSNTADGITAMGPFT-FRNSVMEADVLPVTVKAAVKHFGIKKVAVIYGNDD--A 178 + S T T G T FR +A + K AV+ G K++AVI DD A Sbjct: 121 GIPQVSPSATNPKYTQQGFKTAFRVVANDAQLGAALGKYAVQKLGTKQIAVI---DDRTA 177 Query: 179 FTKSGYDVFKATLEQQKIPVTTTEAYAKGDVDFKAQLTKIKAGNPDAIVCSCLAEEAANI 238 + + D F + + T+ DF A LT +K PD + + + Sbjct: 178 YGQGVADEFAKGAKAAGGTIVGTQYTNDKATDFNAILTSLKGKKPDVVFFGGMDAVGGPM 237 Query: 239 ILQTRTLGMKQPFIGGNGLNSPKLFEIAKDA-GDNTLMGSPWSS--ENLTPANKAFIAAY 295 + Q + LG+ F+GG+G+ + L +A D GD+ ++ + E F AAY Sbjct: 238 LRQMKQLGISAKFMGGDGICTGSLPGLAGDGLGDDQVICAEAGGVDEAGKKGMDDFRAAY 297 Query: 296 KAKFGSDPDQFSAQAYDALYVVVEALKNVKLSGALDKDRDALRQALPAVKIDGATGKFAF 355 K KFG D +A AYDA V +A+ +G+ D + L + G TG AF Sbjct: 298 KKKFGIDVVYNAAYAYDATMTVADAMAK---AGSADPKK--YLPELAKISHKGVTGVIAF 352 Query: 356 RA 357 A Sbjct: 353 DA 354 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 0.317 0.132 0.366 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: 1,088,149 Number of extensions: 42867 Number of successful extensions: 199 Number of sequences better than 1.0e-08: 17 Number of HSP's gapped: 184 Number of HSP's successfully gapped: 17 Length of query: 388 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 301 Effective length of database: 1,207,925 Effective search space: 363585425 Effective search space used: 363585425 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)