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= 0218.0015.p (424 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311115|ref|YP_003775207.1| branched-chain amino acid ABC t... 573 e-165 gi|300313300|ref|YP_003777392.1| branched-chain amino acid ABC t... 125 6e-30 gi|300313405|ref|YP_003777497.1| branched-chain amino acid ABC t... 112 4e-26 gi|300310993|ref|YP_003775085.1| branched-chain amino acid ABC t... 109 3e-25 gi|300310683|ref|YP_003774775.1| amino acid ABC transporter comp... 104 1e-23 >gi|300311115|ref|YP_003775207.1| branched-chain amino acid ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 655 Score = 573 bits (1478), Expect = e-165, Method: Compositional matrix adjust. Identities = 292/347 (84%), Positives = 316/347 (91%) Query: 1 VTGPYLAMVTLAFGTIIQILINEMTFLTEGPMGIKVAKPMLGADKMTEVQFFYVVAILMV 60 VTGPYLAMVTLAFGTIIQILINEMTFLTEGP+GIK+ KPM+G DKM+EVQFFY+VA+LMV Sbjct: 106 VTGPYLAMVTLAFGTIIQILINEMTFLTEGPLGIKLQKPMIGGDKMSEVQFFYLVAVLMV 165 Query: 61 LSLIVVHRILRSNLGRAFQALRDSPIASDCMGVSVYRYKVYAFIISAALAGLSGCLYAYS 120 LS++VVHRIL+SNLGRAFQALRDSPIASDCMGVSVYRYKVYAFIISAALAGLSG LYAYS Sbjct: 166 LSMLVVHRILKSNLGRAFQALRDSPIASDCMGVSVYRYKVYAFIISAALAGLSGALYAYS 225 Query: 121 EEYISPNTYNFELTILFLLAVIMGGRKSRIGSLIGALIVVMLPSLLSDIELFRQIATVAA 180 EEYISPNTYNFELTI+FLLAVIMGGRKSRIGSLIGALIVVMLPSLLSDI LFRQIATV A Sbjct: 226 EEYISPNTYNFELTIMFLLAVIMGGRKSRIGSLIGALIVVMLPSLLSDIALFRQIATVLA 285 Query: 181 VIVVLGAIVSVVKKTKTPREIAVPVIATVLMAGFSYKLENITDWRLTIFGLMTLFVVYYL 240 VIVV+GA V V +KTKT R + VPV+AT+ MA FSYKLENITDWRLTIFGLMTLFVVYYL Sbjct: 286 VIVVVGAGVQVARKTKTVRGVIVPVVATIAMAAFSYKLENITDWRLTIFGLMTLFVVYYL 345 Query: 241 QDGIVGFCRALFGRMLSKRVPLAQQIAGDKTEAVITTDAVKEVGATLLKVNQVLMQFGGL 300 QDGIVGFCR LFGR+L+K VP+AQQIAGDK AVITTD+VK+ GATLLKVNQ+LMQFGGL Sbjct: 346 QDGIVGFCRTLFGRVLTKHVPVAQQIAGDKERAVITTDSVKDAGATLLKVNQILMQFGGL 405 Query: 301 KALNKVDLDVRKGTVHGLIGPNGSGKSTXNPSLLLLDEPAAGLTAPD 347 KALN+VDLDVRKGTVHGLIGPNGSGKST L + P G+ D Sbjct: 406 KALNRVDLDVRKGTVHGLIGPNGSGKSTMMNVLTGIYRPTDGVVEYD 452 Score = 160 bits (406), Expect = 1e-40, Method: Compositional matrix adjust. Identities = 79/91 (86%), Positives = 83/91 (91%), Gaps = 3/91 (3%) Query: 337 DEPAAGLTAPDIKELVAIIRKIRDVGITIILIEHHMDVVMSICDTVTVLDFGQKIAEGKP 396 DEPAAGLTAPDIKELVAIIRKIR+ GITIILIEHHMDVVMSICDTVTVLDFGQKIAEGKP Sbjct: 565 DEPAAGLTAPDIKELVAIIRKIREAGITIILIEHHMDVVMSICDTVTVLDFGQKIAEGKP 624 Query: 397 AEVQADPKVIEAYLGGSAG---DSTPTTAGA 424 A+VQADPKVIEAYLG AG D+T + AGA Sbjct: 625 AQVQADPKVIEAYLGSGAGDAHDNTSSPAGA 655 >gi|300313300|ref|YP_003777392.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 597 Score = 125 bits (314), Expect = 6e-30, Method: Compositional matrix adjust. Identities = 103/341 (30%), Positives = 165/341 (48%), Gaps = 73/341 (21%) Query: 1 VTGPYLAMVTLAFGTIIQILINEMTFLT--EGPMGIKVAKPMLGADKMTEVQFFYVVAIL 58 ++G YL + T+A+G + L ++ FL +G GI A + G D E +Y++ + Sbjct: 106 MSGHYLPLATIAWGISLYFLFGKVDFLGKYDGISGIP-ALQLAGLDLAKERHLYYLIWAI 164 Query: 59 MVLSLIVVHRILRSNLGRAFQALRDSPIASDCMGVSVYRYKVYAFIISAALAGLSGCLYA 118 ++ + V +L S GRA +AL+ ++ MGV RYK+ F+ +A LA +SG L+A Sbjct: 165 VLAAAWVSLNLLDSRAGRAIRALKGGRSMAEAMGVDTGRYKILIFVFAALLASVSGWLFA 224 Query: 119 YSEEYISPNTYNFELTILFLLAVIMGGRKSRIGSLIGALIV--------VMLPSLLSDIE 170 + + ++P+ ++ + I +L V++GG G+L+GA ++ V+LP+LL D Sbjct: 225 HMQRTVNPSPFSLAMGIEYLFIVVVGGIAHIWGALLGAGVLKLLSDQLQVLLPALLGD-- 282 Query: 171 LFRQIATVAAVIVVLGAIVSVVKKTKTPREIAVPVIATVLMAGFSYKLENITDWRLTIFG 230 G SY E+I +FG Sbjct: 283 ------------------------------------------GGSY--ESI------VFG 292 Query: 231 LMTLFVVYYLQDGIVGFCRALFGRML-SKRVPL--AQQIAGDKTEAVITTDAVKEVGATL 287 L+ + ++ Y G+ + RAL+ R + PL A A DK AV GA L Sbjct: 293 LILILLLKYAGGGLWPWVRALWLRAFPTAPAPLRVAHATAMDKRAAVAR-------GAPL 345 Query: 288 LKVNQVLMQFGGLKALNKVDLDVRKGTVHGLIGPNGSGKST 328 L+V+Q+ +FGGL A+N V V+ G + GLIGPNG+GKST Sbjct: 346 LEVDQINKRFGGLVAVNDVSFKVKAGEIVGLIGPNGAGKST 386 Score = 82.0 bits (201), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 36/75 (48%), Positives = 53/75 (70%) Query: 338 EPAAGLTAPDIKELVAIIRKIRDVGITIILIEHHMDVVMSICDTVTVLDFGQKIAEGKPA 397 EPAAGL + + L +++++R G++I+L+EH M+ VM + D + V++FG KIAEG P Sbjct: 521 EPAAGLRHLEKQALSKVLQELRADGMSILLVEHDMEFVMELTDHIVVMEFGAKIAEGTPQ 580 Query: 398 EVQADPKVIEAYLGG 412 E+ P VIEAYLGG Sbjct: 581 EIARHPAVIEAYLGG 595 >gi|300313405|ref|YP_003777497.1| branched-chain amino acid ABC transporter ATP-binding protein/permease [Herbaspirillum seropedicae SmR1] Length = 596 Score = 112 bits (281), Expect = 4e-26, Method: Compositional matrix adjust. Identities = 95/369 (25%), Positives = 168/369 (45%), Gaps = 78/369 (21%) Query: 1 VTGPYLAMVTLAFGTIIQILINEMTFL--TEGPMGIKVAKPMLGADKMTE-VQFFYVVAI 57 ++G YL + T+A+G + L + L +G GI V +G+ + + ++ + Sbjct: 109 ISGHYLPLSTIAWGLSLYYLFGNLEMLGKHDGINGIPVIT--IGSVEFGNGASMYLLIWV 166 Query: 58 LMVLSLIVVHRILRSNLGRAFQALRDSPIASDCMGVSVYRYKVYAFIISAALAGLSGCLY 117 +++L+L+ V L S GRA +ALR + + MGV R K+ F+ +A LAG+SG LY Sbjct: 167 VLILALVSVVNFLDSRAGRAVRALRFGTVMPEAMGVDTARLKIVIFVYAAVLAGISGWLY 226 Query: 118 AYSEEYISPNTYNFELTILFLLAVIMGGRKSRIGSLIGALIVVMLPSLLSDIELFRQIAT 177 A+ ++ ++P + + I +LL V++GG G+++GA ++ +L + L + Sbjct: 227 AHLQQAVNPTPFGLKYGIDYLLMVVVGGAGHVAGAILGAGLLAVLSNFLQEW-------- 278 Query: 178 VAAVIVVLGAIVSVVKKTKTPREIAVPVIATVLMAGFSYKLENITDWRLTIFGLMTLFVV 237 + VL G +++ +FG+ + + Sbjct: 279 ----------------------------LPGVLGTGGNFE--------AIVFGIALVIFL 302 Query: 238 YYLQDGIVGFCRALFGR-----MLSKRVPLAQQIAGDKTEAVITTDAVKEVGATLLKVNQ 292 + +G+ +A FGR + + PLAQ + E ++ +A ++ Sbjct: 303 QFANEGLWPRLQARFGRRRPRPLPADAAPLAQMAKPARGEVILDVEAARK---------- 352 Query: 293 VLMQFGGLKALNKVDLDVRKGTVHGLIGPNGSGKST-----------XNPSLLLLDEPAA 341 QFGGL A+N V V+ G + GLIGPNG+GKST + LL + A Sbjct: 353 ---QFGGLVAVNNVSFSVKAGEIVGLIGPNGAGKSTTFNLVTGVLSVSSGKLLYRGQSLA 409 Query: 342 GLTAPDIKE 350 GL++ DI Sbjct: 410 GLSSRDISS 418 Score = 101 bits (252), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 44/84 (52%), Positives = 63/84 (75%) Query: 330 NPSLLLLDEPAAGLTAPDIKELVAIIRKIRDVGITIILIEHHMDVVMSICDTVTVLDFGQ 389 +P+LLLLDEPAAGL + + L A++ K+R G+ ++L+EH MD VM + D + V++FG Sbjct: 512 DPALLLLDEPAAGLRLKEKEALAALLDKLRGEGMAVLLVEHDMDFVMQLTDHIVVMEFGA 571 Query: 390 KIAEGKPAEVQADPKVIEAYLGGS 413 KIAEG PA++Q P V+EAYLGG+ Sbjct: 572 KIAEGTPAQIQVHPAVLEAYLGGA 595 >gi|300310993|ref|YP_003775085.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 408 Score = 109 bits (273), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 68/198 (34%), Positives = 113/198 (57%), Gaps = 25/198 (12%) Query: 3 GPYLAMVTLAFGTIIQILINEMTFLTEGPMGIK-VAKP-----MLGADKMTE-------- 48 G YLA+VTL FG II++L+N MT +T GP G+ + KP ++ + +TE Sbjct: 182 GDYLAIVTLGFGEIIRLLLNNMTSITGGPDGVSGIPKPTVFGLVMARNPVTEGGTTFHQL 241 Query: 49 ----------VQFFYVVAILMVL-SLIVVHRILRSNLGRAFQALRDSPIASDCMGVSVYR 97 V F Y +A+LMVL + V R+LR +GRA++ALR+ IA +G++ + Sbjct: 242 FGLSYQGGHMVIFLYFLALLMVLFTYFVTSRLLRMPMGRAWEALREDEIACRSLGINPTK 301 Query: 98 YKVYAFIISAALAGLSGCLYAYSEEYISPNTYNFELTILFLLAVIMGGRKSRIGSLIGAL 157 K+ AF + AA AGL+G +A + ++P ++ F + L L V++GG S++G ++ A+ Sbjct: 302 VKLSAFTLGAAFAGLAGSFFAARQGLVTPESFTFIESALILAIVVLGGMGSQLGVILAAI 361 Query: 158 IVVMLPSLLSDIELFRQI 175 ++ +LP L +R + Sbjct: 362 LLTVLPELARSFAEYRML 379 >gi|300310683|ref|YP_003774775.1| amino acid ABC transporter composite ATP-binding protein/permease [Herbaspirillum seropedicae SmR1] Length = 627 Score = 104 bits (259), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 46/82 (56%), Positives = 62/82 (75%) Query: 330 NPSLLLLDEPAAGLTAPDIKELVAIIRKIRDVGITIILIEHHMDVVMSICDTVTVLDFGQ 389 +P LLLLDEPAAGL + + L ++RK+R G+ I+L+EH MD VM + D + V+DFGQ Sbjct: 519 DPCLLLLDEPAAGLRLGEKQALAELLRKLRGEGMAILLVEHDMDFVMELVDRIVVMDFGQ 578 Query: 390 KIAEGKPAEVQADPKVIEAYLG 411 KIAEG PA++Q +P V+EAYLG Sbjct: 579 KIAEGLPADIQNNPAVLEAYLG 600 Score = 97.1 bits (240), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 86/344 (25%), Positives = 157/344 (45%), Gaps = 54/344 (15%) Query: 1 VTGPYLAMVTLAFGTIIQILINEMTFL--TEGPMGIKVAKPMLGADKMTEVQFFYVVAIL 58 ++G YL + T+A+G + + + + G GI + LG ++ F ++ + Sbjct: 119 LSGHYLPLGTIAWGISLYFIFGTLESMGGQTGMSGIP-SIAFLGVVLDSDRAMFGLIWVA 177 Query: 59 MVLSLIVVHRILRSNLGRAFQALRDSPIASDCMGVSVYRYKVYAFIISAALAGLSGCLYA 118 ++L + + +L S GRA +AL+ + ++ MGV+ R ++ F+I+A LA LSG LY Sbjct: 178 VLLGVAALRNLLDSREGRAIRALKGGIVMAEAMGVNTARMRIVVFVIAAVLAALSGWLYV 237 Query: 119 YSEEYISPNTYNFELTILFLLAVIMGGRKSRIGSLIGALIVVMLPSLLSDIELFRQIATV 178 + + +++P+ + I +L ++GG G+++G+ ++V+L L + Sbjct: 238 HMQRFVNPSPFGLGFGIDYLFMAVLGGASHVWGAVLGSSLIVVLKEWLQGL--------- 288 Query: 179 AAVIVVLGAIVSVVKKTKTPREIAVPVIATVLMAGFSYKLENITDWRLTIFGLMTLFVVY 238 +PV+ G S E I +FGL+ + ++ Sbjct: 289 ------------------------LPVV-----LGRSGNFETI------VFGLLIVVLLQ 313 Query: 239 YLQDGIVGFCRALFGRMLSKRVPLAQQIAGDKTEAVITTDAVKEVGATLLKVNQVLMQFG 298 ++GI + A + ++R+ + Q + T V +L V V +FG Sbjct: 314 RSREGIWPYL-ARLAPVRTRRLVIDAQAEALPRRPMPTPQEV------VLDVRSVTRKFG 366 Query: 299 GLKALNKVDLDVRKGTVHGLIGPNGSGKSTXNPSLLLLDEPAAG 342 GL A N + L V G V LIGPNG+GKST + +D P +G Sbjct: 367 GLVANNNMSLKVMAGEVLALIGPNGAGKSTLFNQISGVDTPTSG 410 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 0.324 0.140 0.394 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: 1,179,213 Number of extensions: 46052 Number of successful extensions: 557 Number of sequences better than 1.0e-08: 47 Number of HSP's gapped: 562 Number of HSP's successfully gapped: 56 Length of query: 424 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 336 Effective length of database: 1,203,190 Effective search space: 404271840 Effective search space used: 404271840 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.5 bits) S2: 132 (55.5 bits)