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= 0001.0796.p (381 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312761|ref|YP_003776853.1| branched-chain amino acid ABC t... 578 e-166 gi|300309516|ref|YP_003773608.1| branched-chain amino acid ABC t... 343 1e-95 gi|300310948|ref|YP_003775040.1| branched-chain amino acid ABC t... 246 2e-66 gi|300310991|ref|YP_003775083.1| branched-chain amino acid ABC t... 173 3e-44 gi|300313247|ref|YP_003777339.1| branched-chain amino acid ABC t... 136 2e-33 >gi|300312761|ref|YP_003776853.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 380 Score = 578 bits (1491), Expect = e-166, Method: Compositional matrix adjust. Identities = 288/379 (75%), Positives = 319/379 (84%), Gaps = 2/379 (0%) Query: 3 KIKMIPVATALVAAFAFAGAAQAQEVIKIGHVAPLTGPNAHIGKDNENGARMAVDELNAK 62 K +IP+ A+ AFAGAA +QEV+KI HV PL+GPNAH+GKDNENGARMAVDELNAK Sbjct: 4 KSAIIPLTAAI--GLAFAGAAYSQEVVKIAHVGPLSGPNAHMGKDNENGARMAVDELNAK 61 Query: 63 GFMIAGKKVTFQLVPQDDASDPKQATTVAQALVDAKVKGVVGHMNSGTTIPASKIYYDAG 122 GF I GKKV F+LV +DDASDPKQAT VA LVD KV V+GH+NSGTTIPASKIY DAG Sbjct: 62 GFTIGGKKVKFELVGEDDASDPKQATAVATKLVDQKVAAVIGHLNSGTTIPASKIYSDAG 121 Query: 123 IPQISPSATNPKYTQQGFNTAFRVVANDGQLGGVLGRYAVNELKAKNIAVIDDRTAYGQG 182 IPQ+SPSATNPKYTQQGF TAFRVVAND QLG LG+YAV +L K IAVIDDRTAYGQG Sbjct: 122 IPQVSPSATNPKYTQQGFKTAFRVVANDAQLGAALGKYAVQKLGTKQIAVIDDRTAYGQG 181 Query: 183 VAEEFRKSALAAGATIVATQYTTDKATDFNAILTSVKSKKPDLVFFGGMDAVAGPMLRQM 242 VA+EF K A AAG TIV TQYT DKATDFNAILTS+K KKPD+VFFGGMDAV GPMLRQM Sbjct: 182 VADEFAKGAKAAGGTIVGTQYTNDKATDFNAILTSLKGKKPDVVFFGGMDAVGGPMLRQM 241 Query: 243 DQLGIAAKFMGGDGICTTELPGLAGAGLKDDQVVCAEAGGVTEAGKKPLEDFKAAYKKKF 302 QLGI+AKFMGGDGICT LPGLAG GL DDQV+CAEAGGV EAGKK ++DF+AAYKKKF Sbjct: 242 KQLGISAKFMGGDGICTGSLPGLAGDGLGDDQVICAEAGGVDEAGKKGMDDFRAAYKKKF 301 Query: 303 NQEVVIYAPYTYDALMTLADAMQQAGSSDPKVYLPVLAKIHHKGVTGEIAFDPKGDILNG 362 +VV A Y YDA MT+ADAM +AGS+DPK YLP LAKI HKGVTG IAFD KGDI +G Sbjct: 302 GIDVVYNAAYAYDATMTVADAMAKAGSADPKKYLPELAKISHKGVTGVIAFDAKGDIKDG 361 Query: 363 TLTLYTYKGGKRSLLSVVK 381 +LTLYTYKGG+R+LL+V K Sbjct: 362 SLTLYTYKGGQRTLLAVTK 380 >gi|300309516|ref|YP_003773608.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 378 Score = 343 bits (880), Expect = 1e-95, Method: Compositional matrix adjust. Identities = 183/369 (49%), Positives = 239/369 (64%), Gaps = 6/369 (1%) Query: 4 IKMIPVATALVAAFAFAGAAQAQEVIKIGHVAPLTGPNAHIGKDNENGARMAVDELNAKG 63 + +I + AL+ AFA A Q +V+KIG +PLTGP A GKDN+ G MA++ LNA+ Sbjct: 8 LNIIAASLALIPAFAMA---QETQVVKIGFSSPLTGPQASAGKDNQGGLMMAIERLNAQP 64 Query: 64 FMIAGKKVTFQLVPQDDASDPKQATTVAQALVDAKVKGVVGHMNSGTTIPASKIYYDAGI 123 + GKK+ F ++ +DD +DPK VAQ L D VK +VG NSG TIPAS++Y DAGI Sbjct: 65 ITVGGKKIKFDVIAEDDQADPKSGVAVAQKLADQGVKAIVGPYNSGVTIPASRVYNDAGI 124 Query: 124 PQISPSATNPKYTQQGFNTAFRVVANDGQLGGVLGRYAVNELKAKNIAVIDDRTAYGQGV 183 ++ A+NPK TQQGF T FRV A+D QLGG + YA ELK K +AVIDDRTAYGQG+ Sbjct: 125 -VVATVASNPKITQQGFATLFRVAASDSQLGGKMALYAAKELKFKRVAVIDDRTAYGQGL 183 Query: 184 AEEFRKSALAAGATIVATQYTTDKATDFNAILTSVKSKKPDLVFFGGMDAVAGPMLRQMD 243 A+EF K A A G +V+T +T DKATDF AILTS+K KKPD VF GG GP+ RQM Sbjct: 184 AQEFIKVAKANGIDVVSTDFTNDKATDFTAILTSIKGKKPDAVFLGGYAPQGGPIKRQMK 243 Query: 244 QLGIAAKFMGGDGICTTELPGLAGAGLKDDQVVCAEAGGVTEAGKKPLEDFKAAYKKKFN 303 QLG+ MGGDGIC+ E+ L G + + V C + G + + K+ + F Y+KK+N Sbjct: 244 QLGVDVPLMGGDGICSPEMGRLGGDAI-GESVYCTQGGTMLDKAKEG-KVFSDEYQKKYN 301 Query: 304 QEVVIYAPYTYDALMTLADAMQQAGSSDPKVYLPVLAKIHHKGVTGEIAFDPKGDILNGT 363 + YA YD +M +A AM+QA S DPK + P LAKI +KGV G+ FD D+ Sbjct: 302 RPAETYAVSFYDGMMLIAQAMKQANSVDPKQFGPALAKISYKGVAGQYDFDANHDLKQSP 361 Query: 364 LTLYTYKGG 372 +T+Y +K G Sbjct: 362 VTVYRFKDG 370 >gi|300310948|ref|YP_003775040.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 394 Score = 246 bits (629), Expect = 2e-66, Method: Compositional matrix adjust. Identities = 126/348 (36%), Positives = 205/348 (58%), Gaps = 5/348 (1%) Query: 24 QAQEVIKIGHVAPLTGPNAHIGKDNENGARMAVDELNAKGFMIAGKKVTFQLVPQDDASD 83 Q + IG PL+GP+ +GK +NG ++A+ E N +G I GK +L+ QDD +D Sbjct: 35 QETATLAIGFAGPLSGPSGGVGKSMQNGVQLALAEANRRGLRIGGKSWQLRLIAQDDRAD 94 Query: 84 PKQATTVAQALVDAKVKGVVGHMNSGTTIPASKIYYDAGIPQISPSATNPKYTQQGFNTA 143 P A VA++LV +V VVGH SGT++ A+ +Y+ AG+ Q++PSA + + T + Sbjct: 95 PATAEFVARSLVQQQVIAVVGHWTSGTSLAAAPVYHRAGVIQVTPSAMSRRLTAMSYPRI 154 Query: 144 FRVVANDGQLGGVLGRYAVNELKAKNIAVIDDRTAYGQGVAEEFRKSALAAGATIVATQY 203 FR + N+ LG + YAV++L+ + I IDDRT +GQG+AE+F ++A GA +V Sbjct: 155 FRTIPNNESLGRLAAGYAVDKLETRTIVTIDDRTPFGQGLAEQFARTASERGAQVVGRYS 214 Query: 204 TTDKATDFNAILTSVKSKKPDLVFFGGMDAVAGPMLRQMDQLGIAAKFMGGDGICTTELP 263 +DK +DFNA L + +PDL+FFGG+D AG + + + +L + A+ M G T LP Sbjct: 215 VSDKTSDFNAALLEARKLQPDLIFFGGLDWQAGVLAKSIRRLKLHARLMASPG--TLGLP 272 Query: 264 GLAGAGLKDDQVVCAEAGGVTEAGKKP-LEDFKAAYKKKFNQEVVIYAPYTYDALMTLAD 322 L AG + + E G + K P + F+ Y + F+ ++ +YA + Y+A + Sbjct: 273 FLMRAGPDANGALVLEPGPPQD--KMPGWKSFRQRYSENFDSDMDLYAVFAYEAAQAIIQ 330 Query: 323 AMQQAGSSDPKVYLPVLAKIHHKGVTGEIAFDPKGDILNGTLTLYTYK 370 ++QAGS+DP+ + ++ +GV+G +AF+ +GD+L + T+Y K Sbjct: 331 GIRQAGSADPERIAEAMHRLRFEGVSGPVAFNEEGDLLQPSFTMYEVK 378 >gi|300310991|ref|YP_003775083.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 373 Score = 173 bits (438), Expect = 3e-44, Method: Compositional matrix adjust. Identities = 120/347 (34%), Positives = 183/347 (52%), Gaps = 14/347 (4%) Query: 27 EVIKIGHVAPLTGPNAHIGKDNENGARMAVDELNAKGFMIAGKKVTFQLVPQDDASDPKQ 86 E +KI P+TG A G + GA A++++NA G K F+ V DDA +PKQ Sbjct: 27 ETVKIAIAGPMTGAVAQYGDMVKAGALTAIEQINAAGGANGNK---FEAVMMDDACEPKQ 83 Query: 87 ATTVAQALVDAKVKGVVGHMNSGTTIPASKIYYDAGIPQISPSATNPKYTQ-QGFNTAFR 145 A VA +V +K V+GH+ SG+TIPAS IY + G+ I+PSAT P+ T+ + FR Sbjct: 84 AVAVANKIVSQGIKYVIGHVCSGSTIPASDIYENEGVVMITPSATAPQLTEAKPHKFIFR 143 Query: 146 VVANDGQLGGVLGRYAVNELKAKNIAVIDDRTAYGQGVAEEFRKSALAAGATIVATQYTT 205 + D Q G RY + +LK K +AV+ D+ +YGQGVA + + AA +V + Sbjct: 144 TIGRDDQQGPAAARYVIEKLKPKKVAVLHDKQSYGQGVASSVKAALDAAKVPVVVFEGIN 203 Query: 206 DKATDFNAILTSVKSKKPDLVFFGGMDAVAGPMLRQMDQLGIAAKFMGGDGICTTELPGL 265 +D++AI+T +KS+ D V+FGG G ++RQ + GI A FMG +G+ ++ + Sbjct: 204 AGDSDYSAIVTKLKSQGVDFVYFGGYHPEMGLIMRQAREQGIKAVFMGPEGVGNKDITAI 263 Query: 266 AGAGLKDDQVVCAEAGGVTEAGKKPLEDFKAAYKKKFNQEVVIYAPYTYDALMTLADAMQ 325 AG + +V A + L AA K+ N + A Y + +ADA+ Sbjct: 264 AGPA-SEGMLVTLPADFAADPANAALVKAFAAAKRDPNGPFQMPA---YSGVKIIADAIA 319 Query: 326 QAGSSDPKVYLPVLAKIH---HKGVTGEIAFDPKGDILNGTLTLYTY 369 A S+DP+ V A IH K G + +D KGD+ + ++T+ Sbjct: 320 GAKSTDPE---KVAAYIHANSFKTPIGNVEYDKKGDLKSFKFVVFTW 363 >gi|300313247|ref|YP_003777339.1| branched-chain amino acid ABC transporter periplasmic protein [Herbaspirillum seropedicae SmR1] Length = 385 Score = 136 bits (343), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 103/367 (28%), Positives = 170/367 (46%), Gaps = 27/367 (7%) Query: 13 LVAAFAFAGAAQAQEVIKIGHVAPLTGPNAHIGKDNENGARMAVDELNAKGFMIAGKK-- 70 L+ AF AG AQ ++ I +G L+ P I + GA++A+DE NA +A K+ Sbjct: 15 LLWAFMQAGWAQERKTIALGFTGRLSEP---IAQSALQGAQLAIDEANA----LAAKRRS 67 Query: 71 -VTFQLVPQDDASDPKQATTVAQALVDAKVKGVVGHMNSGTTIPASKIYYDAGIPQISPS 129 + F+L+PQDD + A +A+ V KV GV+G +S + + IY A IPQI + Sbjct: 68 PLRFELLPQDDHGNENFAVNIARYYVKEKVAGVIGPWSSDAALATAAIYESAQIPQIGFT 127 Query: 130 ATNPKYTQQGFNTAFRVVANDGQLGGVLGRYAVNELKAKNIAVIDDRTAYGQGVAEEFRK 189 AT+ ++T G FRVV +L L A L+ + I VI AY + +A+ + Sbjct: 128 ATSSQWTGMGNRMPFRVVGGTRELAATLAEVATRSLQGRRIFVIQSDAAYSRALADTLVE 187 Query: 190 SALAAGATIVATQYTT-DKATDFNAILTSVKSKKPDLVFFGGMDAVAGPMLRQMDQLGIA 248 + + I +Y ++TDF+A L + ++ + D++ F G+ A + ++ Sbjct: 188 NLGGSAQQIALARYQVGRRSTDFHAALKAAEAHQADVIVFVGLYPQARAFIDGANRTRTT 247 Query: 249 AKFMGGDGICTTELPG-----LAGAGLKDDQVVCAEAGGVTEAGKKPLEDFKAAYKKKFN 303 A+ + G LP L + + C + VT+ Y+++F Sbjct: 248 ARLLLTGGASNLSLPAPLELRLHVLEYEIARPHCPQWKVVTQ-----------TYQRRFG 296 Query: 304 QEVVIYAPYTYDALMTLADAMQQAGSSDPKVYLPVLAKIHHKGVTGEIAFDPKGDILNGT 363 Y+ Y YDA L A+ QAGS + L ++ H G+ G ++FD G + Sbjct: 297 AAPTTYSFYAYDAASVLTAAIVQAGSDNGDKIATALHRMRHAGLHGTLSFDATGANAHPR 356 Query: 364 LTLYTYK 370 TL Y+ Sbjct: 357 YTLLRYQ 363 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 0.133 0.374 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: 1,156,511 Number of extensions: 50564 Number of successful extensions: 210 Number of sequences better than 1.0e-08: 14 Number of HSP's gapped: 197 Number of HSP's successfully gapped: 14 Length of query: 381 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 294 Effective length of database: 1,207,925 Effective search space: 355129950 Effective search space used: 355129950 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)