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= 0001.0989.p (404 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309520|ref|YP_003773612.1| branched-chain amino acid ABC t... 753 0.0 gi|300310522|ref|YP_003774614.1| branched-chain amino acid ABC t... 731 0.0 gi|300310993|ref|YP_003775085.1| branched-chain amino acid ABC t... 267 1e-72 gi|300311115|ref|YP_003775207.1| branched-chain amino acid ABC t... 131 1e-31 gi|300312238|ref|YP_003776330.1| amino acid ABC transporter perm... 124 9e-30 >gi|300309520|ref|YP_003773612.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 404 Score = 753 bits (1944), Expect = 0.0, Method: Compositional matrix adjust. Identities = 379/404 (93%), Positives = 396/404 (98%) Query: 1 MALMTFDMKRNPRQAQLSLLALLALMIVFPIVAQQFGNSWVRIMDMALLYIMLALGLNVV 60 MAL+TFDMKRNP+QA++SLL LLALMIVFP VAQQFGNSWVRIMD+ALLYIMLALGLNVV Sbjct: 1 MALLTFDMKRNPQQARISLLLLLALMIVFPFVAQQFGNSWVRIMDVALLYIMLALGLNVV 60 Query: 61 VGFAGLLDLGYIAFYAIGAYTAGLLASPQFAAVIESFINTYPSIGNFLVWLCGPQIVQNG 120 VGFAGLLDLGYIAFYAIGAY+AGLLASPQFAAVIESF+NTYPS+GNFLVWLCGP+IVQNG Sbjct: 61 VGFAGLLDLGYIAFYAIGAYSAGLLASPQFAAVIESFVNTYPSVGNFLVWLCGPEIVQNG 120 Query: 121 IHLSLWLIVPISGVLAAIFGALLGAPTLKLRGDYLAIVTLGFGEIIRIFMNNLNAPVNIT 180 IHLSLWLIVPIS LAA+FGALLGAPTLKLRGDYLAIVTLGFGEIIRIFMNNLNAPVNIT Sbjct: 121 IHLSLWLIVPISAFLAALFGALLGAPTLKLRGDYLAIVTLGFGEIIRIFMNNLNAPVNIT 180 Query: 181 NGPQGINLIDPIRVFGVSLAGEPGSGSMVKVLGMSLPSVNAYYYLFLVLCIFVIFFSTRL 240 NGPQGINLIDPI+VFGVSLAGEPGSGSMVKV GMS+PSVNAYY+LFL+LCI VIFFS RL Sbjct: 181 NGPQGINLIDPIKVFGVSLAGEPGSGSMVKVFGMSMPSVNAYYFLFLLLCIGVIFFSVRL 240 Query: 241 QDSRLGRAWVAIREDEIAAKAMGINTRNVKLLAFAMGASFGGVAGAMFGAFQGFVSPESF 300 QDSRLGRAWVAIREDEIAAKAMGINTRNVKLLAFAMGASFGGVAGAMFGAFQGFVSPESF Sbjct: 241 QDSRLGRAWVAIREDEIAAKAMGINTRNVKLLAFAMGASFGGVAGAMFGAFQGFVSPESF 300 Query: 301 SLTESIAVLAMVVLGGIGHIPGVVLGGVILAALPEVLRHVVEPLQMAIFGRVWIDAEVLR 360 SLTESIAVLAMVVLGGIGHIPGVVLGGVILAALPEVLRHVVEP+QMAIFG+VWIDAEVLR Sbjct: 301 SLTESIAVLAMVVLGGIGHIPGVVLGGVILAALPEVLRHVVEPVQMAIFGKVWIDAEVLR 360 Query: 361 QLLYGLAMVVIMLTRPAGLWPSPRHEDRPEVDHTKVGTTGEVKA 404 QLLYGLAMVVIMLTRPAGLWPSPRHEDRPE DHT+VGTTGEVKA Sbjct: 361 QLLYGLAMVVIMLTRPAGLWPSPRHEDRPEADHTQVGTTGEVKA 404 >gi|300310522|ref|YP_003774614.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 404 Score = 731 bits (1886), Expect = 0.0, Method: Compositional matrix adjust. Identities = 379/404 (93%), Positives = 397/404 (98%) Query: 1 MALMTFDMKRNPRQAQLSLLALLALMIVFPIVAQQFGNSWVRIMDMALLYIMLALGLNVV 60 MAL+TFDMKRNP+QA++SLL LLALMIVFP VAQQFGNSWVRIMD+ALLYIMLALGLNVV Sbjct: 1 MALLTFDMKRNPQQARISLLLLLALMIVFPFVAQQFGNSWVRIMDVALLYIMLALGLNVV 60 Query: 61 VGFAGLLDLGYIAFYAIGAYTAGLLASPQFAAVIESFINTYPSIGNFLVWLCGPQIVQNG 120 VGFAGLLDLGYIAFYAIGAY+AGLLASPQFAAVIESF+NTYPS+GNFLVWLCGP+IVQNG Sbjct: 61 VGFAGLLDLGYIAFYAIGAYSAGLLASPQFAAVIESFVNTYPSVGNFLVWLCGPEIVQNG 120 Query: 121 IHLSLWLIVPISGVLAAIFGALLGAPTLKLRGDYLAIVTLGFGEIIRIFMNNLNAPVNIT 180 IHLSLWLIVPIS +LAA+FGALLGAPTLKLRGDYLAIVTLGFGEIIRIFMNNLNAPVNIT Sbjct: 121 IHLSLWLIVPISALLAALFGALLGAPTLKLRGDYLAIVTLGFGEIIRIFMNNLNAPVNIT 180 Query: 181 NGPQGINLIDPIRVFGVSLAGEPGSGSMVKVLGMSLPSVNAYYYLFLVLCIFVIFFSTRL 240 NGPQGINLIDPI+VFGVSLAGEPGSGSMVKV GMS+PSVNAYY+LFL+LCI VIFFS RL Sbjct: 181 NGPQGINLIDPIKVFGVSLAGEPGSGSMVKVFGMSMPSVNAYYFLFLLLCIGVIFFSVRL 240 Query: 241 QDSRLGRAWVAIREDEIAAKAMGINTRNVKLLAFAMGASFGGVAGAMFGAFQGFVSPESF 300 QDSRLGRAWVAIREDEIAAKAMGINTRNVKLLAFAMGASFGGVAGAMFGAFQGFVSPESF Sbjct: 241 QDSRLGRAWVAIREDEIAAKAMGINTRNVKLLAFAMGASFGGVAGAMFGAFQGFVSPESF 300 Query: 301 SLTESIAVLAMVVLGGIGHIPGVVLGGVILAALPEVLRHVVEPLQMAIFGRVWIDAEVLR 360 SLTESIAVLAMVVLGGIGHIPGVVLGGVILAALPEVLRHVVEP+QMAIFG+VWIDAEVLR Sbjct: 301 SLTESIAVLAMVVLGGIGHIPGVVLGGVILAALPEVLRHVVEPVQMAIFGKVWIDAEVLR 360 Query: 361 QLLYGLAMVVIMLTRPAGLWPSPRHEDRPEVDHTKVGTTGEVKA 404 QLLYGLAMVVIMLTRPAGLWPSPRHEDRPE DHT+VGTTGEVKA Sbjct: 361 QLLYGLAMVVIMLTRPAGLWPSPRHEDRPEADHTQVGTTGEVKA 404 >gi|300310993|ref|YP_003775085.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 408 Score = 267 bits (682), Expect = 1e-72, Method: Compositional matrix adjust. Identities = 161/389 (41%), Positives = 228/389 (58%), Gaps = 61/389 (15%) Query: 9 KRNPRQAQLSLLALLALMIVFPIVAQQFGNSWVRIMDMALLYIMLALGLNVVVGFAGLLD 68 + PRQ + +++ LL +V+P + +V +M +AL+Y++L LGLN+VVGFAGLLD Sbjct: 74 RMQPRQQRAAVMILLMAALVWPFFGSR---GYVDVMTLALIYVVLGLGLNIVVGFAGLLD 130 Query: 69 LGYIAFYAIGAYTAGLLASPQFAAVIESFINTYPSIGNFLVWLCGPQIVQNGIHLSLWLI 128 LGY+ FYA+GAYT L N Y L+ W Sbjct: 131 LGYVGFYAVGAYTYAL-------------CNQY-------------------FGLTFWEC 158 Query: 129 VPISGVLAAIFGALLGAPTLKLRGDYLAIVTLGFGEIIRIFMNNLNAPVNITNGPQGINL 188 VP++ +A+FG LLG P L+LRGDYLAIVTLGFGEIIR+ +NN+ +IT GP G++ Sbjct: 159 VPLAAAASALFGFLLGFPVLRLRGDYLAIVTLGFGEIIRLLLNNMT---SITGGPDGVSG 215 Query: 189 IDPIRVFGVSLAGEP---GSGSMVKVLGMSLPS---VNAYYYLFLVLCIFVIFFSTRLQD 242 I VFG+ +A P G + ++ G+S V Y+L L++ +F F ++RL Sbjct: 216 IPKPTVFGLVMARNPVTEGGTTFHQLFGLSYQGGHMVIFLYFLALLMVLFTYFVTSRLLR 275 Query: 243 SRLGRAWVAIREDEIAAKAMGINTRNVKLLAFAMGASFGGVAGAMFGAFQGFVSPESFSL 302 +GRAW A+REDEIA +++GIN VKL AF +GA+F G+AG+ F A QG V+PESF+ Sbjct: 276 MPMGRAWEALREDEIACRSLGINPTKVKLSAFTLGAAFAGLAGSFFAARQGLVTPESFTF 335 Query: 303 TESIAVLAMVVLGGIGHIPGVVLGGVILAALPEVLRHVVEPLQMAIFGRVWIDAEVLRQL 362 ES +LA+VVLGG+G GV+L ++L LPE+ R E R L Sbjct: 336 IESALILAIVVLGGMGSQLGVILAAILLTVLPELARSFAE----------------YRML 379 Query: 363 LYGLAMVVIMLTRPAGLWPSPR-HEDRPE 390 ++GL MV++M+ RP GL P+ R H + P+ Sbjct: 380 IFGLVMVLMMMWRPQGLLPATRPHVELPQ 408 >gi|300311115|ref|YP_003775207.1| branched-chain amino acid ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 655 Score = 131 bits (329), Expect = 1e-31, Method: Compositional matrix adjust. Identities = 96/337 (28%), Positives = 170/337 (50%), Gaps = 57/337 (16%) Query: 11 NPRQAQLSLLALLALMIVFPIVAQQFGNSWVRIMDMALLYIMLALGLNVVVGFAGLLDLG 70 N + LSLL ++AL + +V + ++ +++ L+Y +L GL++VVG+ G + LG Sbjct: 2 NKKILLLSLLGIVALAGIPMVVHNPY---YLHLIETILIYAILLFGLDIVVGYTGQVSLG 58 Query: 71 YIAFYAIGAYTAGLLASPQFAAVIESFINTYPSIGNFLVWLCGPQIVQNGIHLSLWLIVP 130 + + IG+Y AG+L + +G + +++ VP Sbjct: 59 HAGLFGIGSYAAGVL---------------FFKLG-----------------MPIFVTVP 86 Query: 131 ISGVLAAIFGALLGAPTLKLRGDYLAIVTLGFGEIIRIFMNNLNAPVNITNGPQGINLID 190 + + A+FGA+L P L++ G YLA+VTL FG II+I +N + +T GP GI L Sbjct: 87 AAIAVTAVFGAILALPALRVTGPYLAMVTLAFGTIIQILINEMTF---LTEGPLGIKLQK 143 Query: 191 PIRVFGVSLAGEPGSGSMVKVLGMSLPSVNAYYYLFLVLCIFVIFFSTRLQDSRLGRAWV 250 P+ G M +V ++YL VL + + R+ S LGRA+ Sbjct: 144 PM----------IGGDKMSEV---------QFFYLVAVLMVLSMLVVHRILKSNLGRAFQ 184 Query: 251 AIREDEIAAKAMGINTRNVKLLAFAMGASFGGVAGAMFGAFQGFVSPESFSLTESIAVLA 310 A+R+ IA+ MG++ K+ AF + A+ G++GA++ + ++SP +++ +I L Sbjct: 185 ALRDSPIASDCMGVSVYRYKVYAFIISAALAGLSGALYAYSEEYISPNTYNFELTIMFLL 244 Query: 311 MVVLGGIGHIPGVVLGGVILAALPEVLRHVVEPLQMA 347 V++GG G ++G +I+ LP +L + Q+A Sbjct: 245 AVIMGGRKSRIGSLIGALIVVMLPSLLSDIALFRQIA 281 >gi|300312238|ref|YP_003776330.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 288 Score = 124 bits (312), Expect = 9e-30, Method: Compositional matrix adjust. Identities = 102/299 (34%), Positives = 151/299 (50%), Gaps = 66/299 (22%) Query: 52 MLALGLNVVVGFAGLLDLGYIAFYAIGAYTAGLLASPQFAAVIESFINTYPSIGNFLVWL 111 MLAL + V + GLL L AF IGAYTA LL F +P Sbjct: 23 MLALSIYVTLS-CGLLSLANAAFMGIGAYTASLLTM--------QFEMPFP--------- 64 Query: 112 CGPQIVQNGIHLSLWLIVPISGVLAAIFGALLGAPTLKLRGDYLAIVTLGFGEIIRIFMN 171 + + GVL A+ ++G PTL+L G YLA+ TLGFGE++R+ + Sbjct: 65 ---------------IALAAGGVLPALVALVIGIPTLRLSGVYLAMATLGFGEVVRVIVL 109 Query: 172 NLNAPVNITNGPQGINLIDPIRVFGVSLAGEPGSGSMVKVLGMSLPSVNAYYYLFLVLCI 231 NL +IT GP G+N +P + ++++ L+L + Sbjct: 110 NL----DITGGPMGLN---------------------------GVPPITEWWHIVLLLGV 138 Query: 232 FVIFFSTRLQDSRLGRAWVAIREDEIAAKAMGINTRNVKLLAFAMGASFGGVAGAMFGAF 291 I+ RL+ S++GRA+ AI+EDEIAA+ MG+N KLLAF +GA+ GVAG + F Sbjct: 139 -TIYVLARLRRSKIGRAFEAIKEDEIAARLMGVNVAGYKLLAFVIGAAIAGVAGGLNAHF 197 Query: 292 QGFVSPESFSLTESIAVLAMVVLGGIGHIPGVVLGGVILAALPEVLRHVVEPLQMAIFG 350 + P ++ ++ +L M V GG ++ G ++G IL+ LPEVLRH + ++AI G Sbjct: 198 TFTIGPNNYGFENAVDILTMAVFGGTSNLIGPMIGSTILSLLPEVLRH-FKDFRLAING 255 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 0.328 0.143 0.430 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: 1,176,903 Number of extensions: 48428 Number of successful extensions: 324 Number of sequences better than 1.0e-08: 27 Number of HSP's gapped: 299 Number of HSP's successfully gapped: 27 Length of query: 404 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 317 Effective length of database: 1,207,925 Effective search space: 382912225 Effective search space used: 382912225 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.7 bits) S2: 132 (55.5 bits)