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= 0036.0187.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... 632 0.0 gi|300314069|ref|YP_003778161.1| amino acid ABC transporter perm... 113 3e-26 gi|300312953|ref|YP_003777045.1| amino acid ABC transporter perm... 112 5e-26 gi|300311771|ref|YP_003775863.1| branched-chain amino acid ABC t... 110 3e-25 gi|300313997|ref|YP_003778089.1| urea transport system, permease... 81 1e-16 >gi|300311564|ref|YP_003775656.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 404 Score = 632 bits (1631), Expect = 0.0, Method: Compositional matrix adjust. Identities = 336/404 (83%), Positives = 358/404 (88%), Gaps = 5/404 (1%) Query: 1 MRRIVLPWLLFALMLLAAPLVFPQSAALSLLSQMGTMVLLCLSYNMLLGEGGMLSFGHAV 60 M+R++LPWL FAL+LLAAPLVFPQSAALSLLSQMGTMVLLCLSYNMLLGEGGMLSFGHAV Sbjct: 3 MKRLLLPWLGFALVLLAAPLVFPQSAALSLLSQMGTMVLLCLSYNMLLGEGGMLSFGHAV 62 Query: 61 YSGLGAFGAIHLMNRMADGVLAFPVTLVPLVGGLTGALCAVVLGYLTTRRAGTTFAMITL 120 YSGLGAFGAIHLMNRMA+G LAFP+TLVPL GGLTGALC V+LGYLTTRRAGTTFAMITL Sbjct: 63 YSGLGAFGAIHLMNRMAEGALAFPMTLVPLAGGLTGALCGVLLGYLTTRRAGTTFAMITL 122 Query: 121 GLVELVSACVLMFPEVFGGEGGISGNRVIGEPVLGISYGPQIQVYYLIAGWLLVCAIAIH 180 GLVELVSACVLMFPEVFGGEGGISGNRVIGEPVLGISYGPQIQVYYLIAGWLLVCAIAI Sbjct: 123 GLVELVSACVLMFPEVFGGEGGISGNRVIGEPVLGISYGPQIQVYYLIAGWLLVCAIAIW 182 Query: 181 ALRHTPLGRILNAVRDNPERAAFLGYDPQRVRYLALILSAFFAGVSGGLSAINFEIVSAE 240 ALR TPLGRILNAVRDNPERAAF+GYDPQRVRYLALILSAFFAGVSGGLSAINFEIVSAE Sbjct: 183 ALRATPLGRILNAVRDNPERAAFIGYDPQRVRYLALILSAFFAGVSGGLSAINFEIVSAE 242 Query: 241 YVGALRSGTILLFTFIGGTAYFYGPVIGGVVGVLFSSWLSAYTQAWQFYLGALFILIVMT 300 YVGALRSG ILLFTFIGG+AYFYGP++GGVVGVLFSSWLSAYTQAWQFYLGA FILIVMT Sbjct: 243 YVGALRSGAILLFTFIGGSAYFYGPIVGGVVGVLFSSWLSAYTQAWQFYLGAFFILIVMT 302 Query: 301 TPGGLASLIDRSWHLLQGGQVNARLAGRLAWWLAAAFCTLTGVILATEMAYQASLGSLAD 360 PGGLASLID+ W +L+ G + R+A R WLAAA L G++LATEMAYQASLGSLA+ Sbjct: 303 APGGLASLIDQGWRILRSGAFDTRMAVRATAWLAAALPVLAGLVLATEMAYQASLGSLAE 362 Query: 361 TGEGAASLMLWGWRIDVHAAAPWGLAALCVVVGAGALVAWQSSG 404 A L WGW +DVHA PW A L + G AL W+ G Sbjct: 363 -----APLRWWGWTVDVHAPLPWMTALLLMSGGVAALCCWRRQG 401 >gi|300314069|ref|YP_003778161.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 326 Score = 113 bits (282), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 88/266 (33%), Positives = 136/266 (51%), Gaps = 24/266 (9%) Query: 31 LSQMGTMVLLCLSYNMLLGEGGMLSFGHAVYSGLGAFGAIHLMNRMADGVLAFPVTLVPL 90 L +M L ++N+L+G G+LSFGHA + G + M A V P L + Sbjct: 26 LMKMLCFALFACAFNLLIGYTGLLSFGHAAFLGWAGY-----MCGQALKVWGLPTELGLI 80 Query: 91 VGGLTGALCAVVLGYLTTRRAGTTFAMITLGLVELVSACVLMFPEVFGGEGGISGNRVIG 150 +G LTGAL +V+G L RR G F MITL L +++ L P GGE G+ G V Sbjct: 81 IGTLTGALIGLVMGLLAIRRQGIYFTMITLALAQMLFFVALQAPFT-GGEDGLQG--VPR 137 Query: 151 EPVLG-ISYGPQIQVYYLIAGWLLVCAIAIHALR----HTPLGRILNAVRDNPERAAFLG 205 +LG ++ + +YY++ L A+A AL H+P G++L A+++N RA LG Sbjct: 138 GKLLGFLNLESDMTLYYVV----LAIAVAGFALIVRTIHSPFGQVLKAIKENEPRAISLG 193 Query: 206 YDPQRVRYLALILSAFFAGVSGGLSAINFEIVSAEYVGALRSGTILLFTFIGGTAYFYGP 265 YD R + LA +LSA +G++G + + V SG ++L T +GG GP Sbjct: 194 YDVARYKLLAFVLSAGLSGLAGATKTLVLGFETLTDVHWSMSGLVVLMTLVGGLGTILGP 253 Query: 266 VIGGVVGVLFSS-------WLSAYTQ 284 ++G V+ ++ + WL++ T Sbjct: 254 IVGAVIIIMLENKLGDIGAWLASVTH 279 >gi|300312953|ref|YP_003777045.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 317 Score = 112 bits (280), Expect = 5e-26, Method: Compositional matrix adjust. Identities = 93/298 (31%), Positives = 153/298 (51%), Gaps = 11/298 (3%) Query: 28 LSLLSQMGTMVLLCLSYNMLLGEGGMLSFGHAVYSGLGAFGAIHLMNRMADGVLAFPVTL 87 + +L+++ ++ S N +LG GGM+SFGHAV+ GLGA+ + +A L Sbjct: 29 IGVLTRILIFAMVAASLNFILGYGGMVSFGHAVFFGLGAY-----VTAIASFHGVTSAWL 83 Query: 88 VPLVGGLTGALCAVVLGYLTTRRAGTTFAMITLGLVELVSACVLMFPEVFGGEGGISGNR 147 + L+ L AL +V+G + R F MIT+ L +L + F +GG+ G+ + Sbjct: 84 IWLLAALVTALVGLVIGVIALRTRAVYFIMITMALAQLFYYFFVGF-RYYGGDDGL---Q 139 Query: 148 VIGEPVLG--ISYGPQIQVYYLIAGWLLVCAIAIHALRHTPLGRILNAVRDNPERAAFLG 205 V P+LG + Y+++ WL I + L + G LNA+R N RA +G Sbjct: 140 VTARPLLGFGLDMSGDNAFYWVVLAWLAASFILLQRLLASRFGLALNAIRQNERRAQAIG 199 Query: 206 YDPQRVRYLALILSAFFAGVSGGLSAINFEIVSAEYVGALRSGTILLFTFIGGTAYFYGP 265 Y R + A +++A AG++G L ++ S + + +SG +L+ +GG YFYG Sbjct: 200 YPALRYKLAAFVIAAVIAGIAGSLIGMSNLFASPKLLHWSQSGILLVMVALGGVGYFYGG 259 Query: 266 VIGGVVGVLFSSWLSAYTQAWQFYLGALFILIVMTTPGGLASLIDRSWHLLQGGQVNA 323 ++G +L LS + + WQ Y+G + +L+VM P G++SL+ L QG Q A Sbjct: 260 LLGAAAFLLLEEVLSTHFEYWQIYVGLILLLVVMVAPRGVSSLVSIGKTLKQGEQHGA 317 >gi|300311771|ref|YP_003775863.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 628 Score = 110 bits (274), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 84/261 (32%), Positives = 127/261 (48%), Gaps = 17/261 (6%) Query: 30 LLSQMGTMVLLCLSYNMLLGEGGMLSFGHAVYSGLGAFGAIHLMNRMADGVLAFPVTLVP 89 L+ ++ VL S + L+G GGM+SFGHA Y GLGA+ A + R L +P+ L Sbjct: 350 LMVEILVAVLFAASLHFLMGPGGMVSFGHAAYFGLGAYAAALVTLR-----LQWPMPLAM 404 Query: 90 LVGGLTGALCAVVLGYLTTRRAGTTFAMITLGLVELVSACVLMFPEVFGGEGGISGNRVI 149 L G T L A++ G+ R +G AM+TL ++V A + + ++ GG G+ G R Sbjct: 405 LAGAGTAMLAALLFGWFCVRLSGVYLAMLTLAFAQIVWAAIYQWDDLTGGSNGLVGLRTA 464 Query: 150 GEPVLGISYGPQIQVYYLIAGWLLVCAIAIHALR---HTPLGRILNAVRDNPERAAFLGY 206 ++Y YYL LL A+ ++ LR H P G L A RD RA LG Sbjct: 465 AALASPLAY------YYLA---LLCSALGVYLLRRVIHAPFGLALRAARDASGRAQALGM 515 Query: 207 DPQRVRYLALILSAFFAGVSGGLSAINFEIVSAEYVGALRSGTILLFTFIGGTAYFYGPV 266 D + +++ L+ F G++G L A + +S E G RS L+ +GG GP+ Sbjct: 516 DVRALQWGGFALAGLFCGLAGVLFAFSKGSISPEVAGVNRSVDGLVMVLLGGVQSLAGPL 575 Query: 267 IGGVVGVLFSSWLSAYTQAWQ 287 +G V ++ T W+ Sbjct: 576 LGASVFTWLQDLVARETDYWR 596 >gi|300313997|ref|YP_003778089.1| urea transport system, permease component protein [Herbaspirillum seropedicae SmR1] Length = 376 Score = 81.3 bits (199), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 88/334 (26%), Positives = 144/334 (43%), Gaps = 39/334 (11%) Query: 14 MLLAAPLVFPQSAALSLLSQMGTMV--LLC-----LSYNMLLGEGGMLSFGHAVYSGLGA 66 +L L+FP +AL + S +V +C L+ +++ G G+LS GH V+ LG Sbjct: 28 LLPVCNLLFPAGSALHVSSYTVALVGKFMCYAMAALALDLVWGYTGILSLGHGVFFALGG 87 Query: 67 FG-AIHLMNRMA-DGVLA--FPVTLV-------PLVGGLTGAL-------------CAVV 102 + ++LM + DGV P +V P +T A V Sbjct: 88 YAHGMYLMRAIGRDGVYQSDLPDFMVFLNWKAYPWYWWMTDHFWFAMLLVVLVPGLLAFV 147 Query: 103 LGYLT--TRRAGTTFAMITLGLVELVSACVLMFPEVFGGEGGISG-NRVIGEPVLGISYG 159 GY +R G F++IT + FGG G + R++G I+ Sbjct: 148 FGYFAFRSRIKGVYFSIITQAMTFAFMLLFFRNDTGFGGNNGFTDFKRILG---FTITAP 204 Query: 160 PQIQVYYLIAGWLLVCAIAI-HALRHTPLGRILNAVRDNPERAAFLGYDPQRVRYLALIL 218 V YL+ LL A+ + + + LGR+L VRD+ R F+GY+P + L Sbjct: 205 ATKAVLYLVTLGLLFGALVLCRMIVTSKLGRVLQGVRDSESRLMFIGYNPLWFKLFVWTL 264 Query: 219 SAFFAGVSGGLSAINFEIVSAEYVGALRSGTILLFTFIGGTAYFYGPVIGGVVGVLFSSW 278 SA G++G L I++ + S ++++ +GG GP+IG SW Sbjct: 265 SAVICGIAGALYVPQVGIINPSEMSPANSIEMVIWAAVGGRGTLIGPIIGAFTVNGLKSW 324 Query: 279 LS-AYTQAWQFYLGALFILIVMTTPGGLASLIDR 311 + A+ W + LG +FIL+ + P G+ L+ + Sbjct: 325 FTAAFPDLWLYALGLIFILVTLFLPQGILGLVQK 358 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 0.142 0.445 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: 1,260,233 Number of extensions: 56866 Number of successful extensions: 355 Number of sequences better than 1.0e-08: 21 Number of HSP's gapped: 321 Number of HSP's successfully gapped: 21 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)