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= 0001.2098.p (407 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311564|ref|YP_003775656.1| branched-chain amino acid ABC t... 649 0.0 gi|300312953|ref|YP_003777045.1| amino acid ABC transporter perm... 115 8e-27 gi|300311771|ref|YP_003775863.1| branched-chain amino acid ABC t... 105 6e-24 gi|300314069|ref|YP_003778161.1| amino acid ABC transporter perm... 100 2e-22 gi|300311115|ref|YP_003775207.1| branched-chain amino acid ABC t... 80 3e-16 >gi|300311564|ref|YP_003775656.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 404 Score = 649 bits (1674), Expect = 0.0, Method: Compositional matrix adjust. Identities = 343/404 (84%), Positives = 366/404 (90%), Gaps = 5/404 (1%) Query: 1 VKRLVLPWLIFALLLLAAPLVWPQSAALSLLSQMGTMVLLCLSCNMLLGEGGMLSFGHAV 60 +KRL+LPWL FAL+LLAAPLV+PQSAALSLLSQMGTMVLLCLS NMLLGEGGMLSFGHAV Sbjct: 3 MKRLLLPWLGFALVLLAAPLVFPQSAALSLLSQMGTMVLLCLSYNMLLGEGGMLSFGHAV 62 Query: 61 YSGLGAFGAIHLMNRMAAGALVFPVTLVPLAAGLTGALCALVLGYPTTRRAGTTFAMITL 120 YSGLGAFGAIHLMNRMA GAL FP+TLVPLA GLTGALC ++LGY TTRRAGTTFAMITL Sbjct: 63 YSGLGAFGAIHLMNRMAEGALAFPMTLVPLAGGLTGALCGVLLGYLTTRRAGTTFAMITL 122 Query: 121 GLVELVSACVLMLPEVFGGEGGISGNRVIGEPVLGISYGPQIQVYYLISGWLLVCTMAIY 180 GLVELVSACVLM PEVFGGEGGISGNRVIGEPVLGISYGPQIQVYYLI+GWLLVC +AI+ Sbjct: 123 GLVELVSACVLMFPEVFGGEGGISGNRVIGEPVLGISYGPQIQVYYLIAGWLLVCAIAIW 182 Query: 181 ALRQTPLGRMLNAVRDNPERAAFIGYDPQRVRYLALILSAFFAGVAGGLSAINFEIVSAE 240 ALR TPLGR+LNAVRDNPERAAFIGYDPQRVRYLALILSAFFAGV+GGLSAINFEIVSAE Sbjct: 183 ALRATPLGRILNAVRDNPERAAFIGYDPQRVRYLALILSAFFAGVSGGLSAINFEIVSAE 242 Query: 241 YVGALRSGTILLFTFIGGTAYFYGPIVGGVVGVLFSSWLSAYTQAWQFYLGAFFILIVMT 300 YVGALRSG ILLFTFIGG+AYFYGPIVGGVVGVLFSSWLSAYTQAWQFYLGAFFILIVMT Sbjct: 243 YVGALRSGAILLFTFIGGSAYFYGPIVGGVVGVLFSSWLSAYTQAWQFYLGAFFILIVMT 302 Query: 301 APGGLASLIDRGWRTLRSGRLEARMMARLAAWLLAALVTLAGVVLATEMAYQTSLGSLSD 360 APGGLASLID+GWR LRSG + RM R AWL AAL LAG+VLATEMAYQ SLGSL++ Sbjct: 303 APGGLASLIDQGWRILRSGAFDTRMAVRATAWLAAALPVLAGLVLATEMAYQASLGSLAE 362 Query: 361 TAEGAAPLVWWGWSIDVHSLLPWLVALLLAAAGTVGLVFWRRQG 404 APL WWGW++DVH+ LPW+ ALLL + G L WRRQG Sbjct: 363 -----APLRWWGWTVDVHAPLPWMTALLLMSGGVAALCCWRRQG 401 >gi|300312953|ref|YP_003777045.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 317 Score = 115 bits (287), Expect = 8e-27, Method: Compositional matrix adjust. Identities = 96/295 (32%), Positives = 154/295 (52%), Gaps = 12/295 (4%) Query: 28 LSLLSQMGTMVLLCLSCNMLLGEGGMLSFGHAVYSGLGAFGAIHLMNRMAAGALVFPVTL 87 + +L+++ ++ S N +LG GGM+SFGHAV+ GLGA+ + +A+ V L Sbjct: 29 IGVLTRILIFAMVAASLNFILGYGGMVSFGHAVFFGLGAY-----VTAIASFHGVTSAWL 83 Query: 88 VPLAAGLTGALCALVLGYPTTRRAGTTFAMITLGLVELVSACVLMLPEVFGGEGGISGNR 147 + L A L AL LV+G R F MIT+ L +L + +GG+ G+ + Sbjct: 84 IWLLAALVTALVGLVIGVIALRTRAVYFIMITMALAQLFYYFFVGF-RYYGGDDGL---Q 139 Query: 148 VIGEPVLG--ISYGPQIQVYYLISGWLLVCTMAIYALRQTPLGRMLNAVRDNPERAAFIG 205 V P+LG + Y+++ WL + + L + G LNA+R N RA IG Sbjct: 140 VTARPLLGFGLDMSGDNAFYWVVLAWLAASFILLQRLLASRFGLALNAIRQNERRAQAIG 199 Query: 206 YDPQRVRYLALILSAFFAGVAGGLSAINFEIVSAEYVGALRSGTILLFTFIGGTAYFYGP 265 Y R + A +++A AG+AG L ++ S + + +SG +L+ +GG YFYG Sbjct: 200 YPALRYKLAAFVIAAVIAGIAGSLIGMSNLFASPKLLHWSQSGILLVMVALGGVGYFYGG 259 Query: 266 IVGGVVGVLFSSWLSAYTQAWQFYLGAFFILIVMTAPGGLASLIDRGWRTLRSGR 320 ++G +L LS + + WQ Y+G +L+VM AP G++SL+ G +TL+ G Sbjct: 260 LLGAAAFLLLEEVLSTHFEYWQIYVGLILLLVVMVAPRGVSSLVSIG-KTLKQGE 313 >gi|300311771|ref|YP_003775863.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 628 Score = 105 bits (262), Expect = 6e-24, Method: Compositional matrix adjust. Identities = 84/261 (32%), Positives = 125/261 (47%), Gaps = 17/261 (6%) Query: 30 LLSQMGTMVLLCLSCNMLLGEGGMLSFGHAVYSGLGAFGAIHLMNRMAAGALVFPVTLVP 89 L+ ++ VL S + L+G GGM+SFGHA Y GLGA+ A + R L +P+ L Sbjct: 350 LMVEILVAVLFAASLHFLMGPGGMVSFGHAAYFGLGAYAAALVTLR-----LQWPMPLAM 404 Query: 90 LAAGLTGALCALVLGYPTTRRAGTTFAMITLGLVELVSACVLMLPEVFGGEGGISGNRVI 149 LA T L AL+ G+ R +G AM+TL ++V A + ++ GG G+ G R Sbjct: 405 LAGAGTAMLAALLFGWFCVRLSGVYLAMLTLAFAQIVWAAIYQWDDLTGGSNGLVGLRTA 464 Query: 150 GEPVLGISYGPQIQVYYLISGWLLVCTMAIYALRQT---PLGRMLNAVRDNPERAAFIGY 206 ++Y YYL LL + +Y LR+ P G L A RD RA +G Sbjct: 465 AALASPLAY------YYLA---LLCSALGVYLLRRVIHAPFGLALRAARDASGRAQALGM 515 Query: 207 DPQRVRYLALILSAFFAGVAGGLSAINFEIVSAEYVGALRSGTILLFTFIGGTAYFYGPI 266 D + +++ L+ F G+AG L A + +S E G RS L+ +GG GP+ Sbjct: 516 DVRALQWGGFALAGLFCGLAGVLFAFSKGSISPEVAGVNRSVDGLVMVLLGGVQSLAGPL 575 Query: 267 VGGVVGVLFSSWLSAYTQAWQ 287 +G V ++ T W+ Sbjct: 576 LGASVFTWLQDLVARETDYWR 596 >gi|300314069|ref|YP_003778161.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 326 Score = 100 bits (250), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 83/262 (31%), Positives = 126/262 (48%), Gaps = 16/262 (6%) Query: 31 LSQMGTMVLLCLSCNMLLGEGGMLSFGHAVYSGLGAFGAIHLMNRMAAGALVFPVTLVPL 90 L +M L + N+L+G G+LSFGHA + G + M A P L + Sbjct: 26 LMKMLCFALFACAFNLLIGYTGLLSFGHAAFLGWAGY-----MCGQALKVWGLPTELGLI 80 Query: 91 AAGLTGALCALVLGYPTTRRAGTTFAMITLGLVELVSACVLMLPEVFGGEGGISGNRVIG 150 LTGAL LV+G RR G F MITL L +++ L P GGE G+ G V Sbjct: 81 IGTLTGALIGLVMGLLAIRRQGIYFTMITLALAQMLFFVALQAPFT-GGEDGLQG--VPR 137 Query: 151 EPVLG-ISYGPQIQVYYLISGWLLVCTMAIYALRQTPLGRMLNAVRDNPERAAFIGYDPQ 209 +LG ++ + +YY++ + I +P G++L A+++N RA +GYD Sbjct: 138 GKLLGFLNLESDMTLYYVVLAIAVAGFALIVRTIHSPFGQVLKAIKENEPRAISLGYDVA 197 Query: 210 RVRYLALILSAFFAGVAGGLSAINFEIVSAEYVGALRSGTILLFTFIGGTAYFYGPIVGG 269 R + LA +LSA +G+AG + + V SG ++L T +GG GPIVG Sbjct: 198 RYKLLAFVLSAGLSGLAGATKTLVLGFETLTDVHWSMSGLVVLMTLVGGLGTILGPIVGA 257 Query: 270 VVGVLFSS-------WLSAYTQ 284 V+ ++ + WL++ T Sbjct: 258 VIIIMLENKLGDIGAWLASVTH 279 >gi|300311115|ref|YP_003775207.1| branched-chain amino acid ABC transporter ATPase [Herbaspirillum seropedicae SmR1] Length = 655 Score = 80.5 bits (197), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 73/284 (25%), Positives = 135/284 (47%), Gaps = 19/284 (6%) Query: 2 KRLVLPWLIFALLLLAAPLVWPQSAALSLLSQMGTMVLLCLSCNMLLGEGGMLSFGHAVY 61 K+++L L+ + L P+V L L+ + +L ++++G G +S GHA Sbjct: 3 KKILLLSLLGIVALAGIPMVVHNPYYLHLIETILIYAILLFGLDIVVGYTGQVSLGHAGL 62 Query: 62 SGLGAFGAIHLMNRMAAGALVFPVTL-----VPLAAGLTGALCALVLGYPTTRRAGTTFA 116 G+G++ AAG L F + + VP A +T A +L P R G A Sbjct: 63 FGIGSY---------AAGVLFFKLGMPIFVTVPAAIAVTAVFGA-ILALPALRVTGPYLA 112 Query: 117 MITLGLVELVSACVLMLPEVFGGEGGISGNRVIGEPVLGISYGPQIQVYYLISGWLLVCT 176 M+TL ++ + + + G GI + +P++G ++Q +YL++ +++ Sbjct: 113 MVTLAFGTIIQILINEMTFLTEGPLGIK----LQKPMIGGDKMSEVQFFYLVAVLMVLSM 168 Query: 177 MAIYALRQTPLGRMLNAVRDNPERAAFIGYDPQRVRYLALILSAFFAGVAGGLSAINFEI 236 + ++ + ++ LGR A+RD+P + +G R + A I+SA AG++G L A + E Sbjct: 169 LVVHRILKSNLGRAFQALRDSPIASDCMGVSVYRYKVYAFIISAALAGLSGALYAYSEEY 228 Query: 237 VSAEYVGALRSGTILLFTFIGGTAYFYGPIVGGVVGVLFSSWLS 280 +S + LL +GG G ++G ++ V+ S LS Sbjct: 229 ISPNTYNFELTIMFLLAVIMGGRKSRIGSLIGALIVVMLPSLLS 272 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 0.327 0.141 0.442 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: 1,102,964 Number of extensions: 45053 Number of successful extensions: 308 Number of sequences better than 1.0e-08: 20 Number of HSP's gapped: 284 Number of HSP's successfully gapped: 20 Length of query: 407 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 320 Effective length of database: 1,207,925 Effective search space: 386536000 Effective search space used: 386536000 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)