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= 0001.4608.p (376 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313997|ref|YP_003778089.1| urea transport system, permease... 717 0.0 gi|300311945|ref|YP_003776037.1| branched-chain amino acid ABC t... 234 1e-62 gi|300314069|ref|YP_003778161.1| amino acid ABC transporter perm... 100 2e-22 gi|300312953|ref|YP_003777045.1| amino acid ABC transporter perm... 93 4e-20 gi|300313933|ref|YP_003778025.1| branched-chain amino acid ABC t... 88 1e-18 >gi|300313997|ref|YP_003778089.1| urea transport system, permease component protein [Herbaspirillum seropedicae SmR1] Length = 376 Score = 717 bits (1850), Expect = 0.0, Method: Compositional matrix adjust. Identities = 365/376 (97%), Positives = 370/376 (98%) Query: 1 MSTMIMRPSLFNRPAWTGIVVCTIVLALLPICNLLFPAGSALHVSSYTVALVGKFMCYAM 60 MSTMIMRPSLFNRPAWTGIV+CTIVLALLP+CNLLFPAGSALHVSSYTVALVGKFMCYAM Sbjct: 1 MSTMIMRPSLFNRPAWTGIVICTIVLALLPVCNLLFPAGSALHVSSYTVALVGKFMCYAM 60 Query: 61 AALALDLVWGYTGILSLGHGVFFALGGYAHGMYLMRAIGHESVYQSDLPDFMVFLNWKAY 120 AALALDLVWGYTGILSLGHGVFFALGGYAHGMYLMRAIG + VYQSDLPDFMVFLNWKAY Sbjct: 61 AALALDLVWGYTGILSLGHGVFFALGGYAHGMYLMRAIGRDGVYQSDLPDFMVFLNWKAY 120 Query: 121 PWYWWMTDHFWFSMLLVVLVPGLLAFVFGYFAFRSRIKGVYFSIITQAMTFAFMLLFFRN 180 PWYWWMTDHFWF+MLLVVLVPGLLAFVFGYFAFRSRIKGVYFSIITQAMTFAFMLLFFRN Sbjct: 121 PWYWWMTDHFWFAMLLVVLVPGLLAFVFGYFAFRSRIKGVYFSIITQAMTFAFMLLFFRN 180 Query: 181 DTGFGGNNGFTDFKRILGFTITAPTTKAVLYLVTLALLFGALVLCRMIVTSKLGRVLQGV 240 DTGFGGNNGFTDFKRILGFTITAP TKAVLYLVTL LLFGALVLCRMIVTSKLGRVLQGV Sbjct: 181 DTGFGGNNGFTDFKRILGFTITAPATKAVLYLVTLGLLFGALVLCRMIVTSKLGRVLQGV 240 Query: 241 RDSESRLMFIGYNPLWFKLFVWTLSAVICGIAGALYVPQVGIINPSEMSPANSIEMVIWA 300 RDSESRLMFIGYNPLWFKLFVWTLSAVICGIAGALYVPQVGIINPSEMSPANSIEMVIWA Sbjct: 241 RDSESRLMFIGYNPLWFKLFVWTLSAVICGIAGALYVPQVGIINPSEMSPANSIEMVIWA 300 Query: 301 AVGGRGTLIGPIIGAFTVNGLKSWFTAAFPDLWLYALGLIFILVTLFLPQGILGLVQKFK 360 AVGGRGTLIGPIIGAFTVNGLKSWFTAAFPDLWLYALGLIFILVTLFLPQGILGLVQKFK Sbjct: 301 AVGGRGTLIGPIIGAFTVNGLKSWFTAAFPDLWLYALGLIFILVTLFLPQGILGLVQKFK 360 Query: 361 KRDAAPAEGNASKEAA 376 KRDA AEG+ASKEAA Sbjct: 361 KRDAVAAEGSASKEAA 376 >gi|300311945|ref|YP_003776037.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 401 Score = 234 bits (596), Expect = 1e-62, Method: Compositional matrix adjust. Identities = 139/339 (41%), Positives = 195/339 (57%), Gaps = 4/339 (1%) Query: 42 LHVSSYTVALVGKFMCYAMAALALDLVWGYTGILSLGHGVFFALGGYAHGMYLM----RA 97 L + + + LVGK++ YA A+ L L WGY GILSLG GVFF LGGY M+L Sbjct: 31 LTLDMFRLNLVGKYLSYAFVAVGLVLCWGYGGILSLGQGVFFGLGGYCMAMFLKLEASDP 90 Query: 98 IGHESVYQSDLPDFMVFLNWKAYPWYWWMTDHFWFSMLLVVLVPGLLAFVFGYFAFRSRI 157 I + +PDFM + A P W F F++ V+ VP +LA + G F+ R+ Sbjct: 91 ISTKIQSTPGIPDFMDWNQITALPAMWEPFHSFAFTIFAVLAVPTVLAMLIGMAMFKRRV 150 Query: 158 KGVYFSIITQAMTFAFMLLFFRNDTGFGGNNGFTDFKRILGFTITAPTTKAVLYLVTLAL 217 VYFSI+TQA+ +L GG NG TD K ++G+ I K VLY V L Sbjct: 151 GDVYFSIVTQAIAAILSILIIGQQGLTGGVNGITDLKTLMGWDIRTDHAKLVLYFVNAGL 210 Query: 218 LFGALVLCRMIVTSKLGRVLQGVRDSESRLMFIGYNPLWFKLFVWTLSAVICGIAGALYV 277 LFG ++ R ++ SKLGR+L +RD E R+ F GY+ FK+FV+ +A+ I GA++ Sbjct: 211 LFGCILFGRYVLGSKLGRLLVAMRDKEERVRFSGYDVASFKVFVFCAAAMFSAIGGAMFT 270 Query: 278 PQVGIINPSEMSPANSIEMVIWAAVGGRGTLIGPIIGAFTVNGLKSWFTAAFPDLWLYAL 337 QVG ++PS + SIEMVI+AAVGGR +L+G + G VN K++F+ FP+LWL+ + Sbjct: 271 LQVGFMSPSFVGIVPSIEMVIFAAVGGRMSLLGAVYGTLLVNFGKTYFSETFPELWLFLM 330 Query: 338 GLIFILVTLFLPQGILGLVQKFKKRDAAPAEGNASKEAA 376 G +FI V ++ P G+ GL Q KR G + +AA Sbjct: 331 GGLFIAVVMYFPNGLAGLWQTQGKRLMGKLRGEPNAKAA 369 >gi|300314069|ref|YP_003778161.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 326 Score = 100 bits (248), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 92/333 (27%), Positives = 146/333 (43%), Gaps = 53/333 (15%) Query: 54 KFMCYAMAALALDLVWGYTGILSLGHGVFFALGGYAHGMYLMRAIGHESVYQSDLPDFMV 113 K +C+A+ A A +L+ GYTG+LS GH F GY G L Sbjct: 28 KMLCFALFACAFNLLIGYTGLLSFGHAAFLGWAGYMCGQALK------------------ 69 Query: 114 FLNWKAYPWYWWMTDHFWFSMLLVVLVPGLLAFVFGYFAFRSRIKGVYFSIITQAMTFAF 173 W + +++ L L+ V G A R +G+YF++IT A+ A Sbjct: 70 ---------VWGLPTEL--GLIIGTLTGALIGLVMGLLAIRR--QGIYFTMITLAL--AQ 114 Query: 174 MLLFFRNDTGF-GGNNGFTDFKR--ILGFTITAPTTKAVLYLVTLALLFGALVLCRMIVT 230 ML F F GG +G R +LGF + LY V LA+ L + Sbjct: 115 MLFFVALQAPFTGGEDGLQGVPRGKLLGFL--NLESDMTLYYVVLAIAVAGFALIVRTIH 172 Query: 231 SKLGRVLQGVRDSESRLMFIGYNPLWFKLFVWTLSAVICGIAGALYVPQVGIINPSEMSP 290 S G+VL+ ++++E R + +GY+ +KL + LSA + G+AGA +G +++ Sbjct: 173 SPFGQVLKAIKENEPRAISLGYDVARYKLLAFVLSAGLSGLAGATKTLVLGFETLTDVHW 232 Query: 291 ANSIEMVIWAAVGGRGTLIGPIIGAFTV-------NGLKSWFTAAFPDLWLYAL------ 337 + S +V+ VGG GT++GPI+GA + + +W + W L Sbjct: 233 SMSGLVVLMTLVGGLGTILGPIVGAVIIIMLENKLGDIGAWLASVTHIDWFNTLGDSVTI 292 Query: 338 --GLIFILVTLFLPQGILGLVQKFKKRDAAPAE 368 G IFI+ L +GI+G + ++ A Sbjct: 293 VTGFIFIVCVLAFRKGIVGEILALTRKGQASGS 325 >gi|300312953|ref|YP_003777045.1| amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 317 Score = 92.8 bits (229), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 95/325 (29%), Positives = 147/325 (45%), Gaps = 35/325 (10%) Query: 46 SYTVALVGKFMCYAMAALALDLVWGYTGILSLGHGVFFALGGYAHGMYLMRAIGHESVYQ 105 Y + ++ + + +AM A +L+ + GY G++S GH VFF LG Y + + Sbjct: 26 EYYIGVLTRILIFAMVAASLNFILGYGGMVSFGHAVFFGLGAYVTAIASFHGV------- 78 Query: 106 SDLPDFMVFLNWKAYPWYWWMTDHFWFSMLLVVLVPGLLAFVFGYFAFRSRIKGVYFSII 165 W W LL LV L+ V G A R+R VYF +I Sbjct: 79 -------------TSAWLIW---------LLAALVTALVGLVIGVIALRTR--AVYFIMI 114 Query: 166 TQAMTFAFMLLFFRNDTGFGGNNGFTDFKR-ILGFTITAPTTKAVLYLVTLALLFGALVL 224 T A+ F FF +GG++G R +LGF + A Y V LA L + +L Sbjct: 115 TMALAQLFY-YFFVGFRYYGGDDGLQVTARPLLGFGLDMSGDNA-FYWVVLAWLAASFIL 172 Query: 225 CRMIVTSKLGRVLQGVRDSESRLMFIGYNPLWFKLFVWTLSAVICGIAGALYVPQVGIIN 284 + ++ S+ G L +R +E R IGY L +KL + ++AVI GIAG+L + Sbjct: 173 LQRLLASRFGLALNAIRQNERRAQAIGYPALRYKLAAFVIAAVIAGIAGSLIGMSNLFAS 232 Query: 285 PSEMSPANSIEMVIWAAVGGRGTLIGPIIGAFTVNGLKSWFTAAFPDLWLYALGLIFILV 344 P + + S +++ A+GG G G ++GA L+ + F + W +GLI +LV Sbjct: 233 PKLLHWSQSGILLVMVALGGVGYFYGGLLGAAAFLLLEEVLSTHF-EYWQIYVGLILLLV 291 Query: 345 TLFLPQGILGLVQKFKKRDAAPAEG 369 + P+G+ LV K G Sbjct: 292 VMVAPRGVSSLVSIGKTLKQGEQHG 316 >gi|300313933|ref|YP_003778025.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 334 Score = 87.8 bits (216), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 68/212 (32%), Positives = 109/212 (51%), Gaps = 9/212 (4%) Query: 153 FRSRIKGVYFSIITQAMTFAFMLLFFRNDTGFGGNNGFTDFKR----ILGFTITAPTTKA 208 F R +G YF ++T A F L + GG+NG D R + G T+ PTT + Sbjct: 100 FSIRQRGTYFVMLTLAFAQMFYFLAYTMKDVTGGDNGLLDIPRPPLALFGLTLL-PTTSS 158 Query: 209 VLYLVTLALLFGALV--LCRMIVTSKLGRVLQGVRDSESRLMFIGYNPLWFKLFVWTLSA 266 Y +A+LF LV L + +V S LG+ L VR++E+R +GY+ KL + +S Sbjct: 159 WQYYTVVAILF-VLVFWLLQRVVDSVLGKTLLAVRENEARASALGYDVRLLKLAAFVISG 217 Query: 267 VICGIAGALYVPQVGIINPSEMSPANSIEMVIWAAVGGRGTLIGPIIGAFTVNGLKSWFT 326 + G+AG L+ G+ S + S +++ +GG G L ++GA + +W + Sbjct: 218 AVTGLAGGLHAMMTGVAPLSNIEYHTSEAILVMTVIGGTGNLFASVLGASFYVLVGNWLS 277 Query: 327 AAFPDLWLYALGLIFILVTLFLPQGILGLVQK 358 +P WL LGL+ I V+L++ +G+ GL K Sbjct: 278 TLWPR-WLMLLGLLLIAVSLYMQKGLFGLAMK 308 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 0.331 0.144 0.468 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: 1,169,886 Number of extensions: 50262 Number of successful extensions: 288 Number of sequences better than 1.0e-08: 19 Number of HSP's gapped: 279 Number of HSP's successfully gapped: 19 Length of query: 376 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 289 Effective length of database: 1,207,925 Effective search space: 349090325 Effective search space used: 349090325 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.9 bits) S2: 131 (55.1 bits)