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= 0009.0009.p (485 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313243|ref|YP_003777335.1| amino acid permease family prot... 957 0.0 gi|300310613|ref|YP_003774705.1| amino-acid transporter transmem... 233 3e-62 gi|300311834|ref|YP_003775926.1| amino acid transporter permease... 57 4e-09 >gi|300313243|ref|YP_003777335.1| amino acid permease family protein [Herbaspirillum seropedicae SmR1] Length = 485 Score = 957 bits (2473), Expect = 0.0, Method: Compositional matrix adjust. Identities = 483/485 (99%), Positives = 484/485 (99%) Query: 1 MSQVDCTTQDKEENALRKNALGVGFIIFFVVSAASPLSVIAGGFPIGIMLGNGAGTPALL 60 MSQVDCTTQDKEENALRKNALGVGFIIFFVVSAASPLSVIAGGFPIGIMLGNGAGTPALL Sbjct: 1 MSQVDCTTQDKEENALRKNALGVGFIIFFVVSAASPLSVIAGGFPIGIMLGNGAGTPALL 60 Query: 61 VLILLLLLAFSVGYTTMARHVTNAGGFYAFSSAGLGGIAGGVAGVLAMFAYNILQIGLYG 120 VLILLLLLAFSVGYTTMARHVTNAGGFYAFSSAGLGGIAGGVAGVLAMFAYNILQIGLYG Sbjct: 61 VLILLLLLAFSVGYTTMARHVTNAGGFYAFSSAGLGGIAGGVAGVLAMFAYNILQIGLYG 120 Query: 121 MFGGVMSATFSDIFGIHLAWWVYAAVAMLSVAILGYRNIDLSARLLSVVVVAEYLAVLVL 180 MFGGVMSATFSDIFGIHLAWWVYAAVAMLSVAILGYRNIDLSARLLSVVVVAEYLAVLVL Sbjct: 121 MFGGVMSATFSDIFGIHLAWWVYAAVAMLSVAILGYRNIDLSARLLSVVVVAEYLAVLVL 180 Query: 181 DFCILRSGGDHGVNLDSFSPANVMSGTPSIGLLFAFAAFIGFEATTIYGEEAKNPKRAIP 240 DFCILRSGGD GVNLDSFSPANVMSGTPSIGLLFAFAAFIGFEATTIYGEEAKNPKRAIP Sbjct: 181 DFCILRSGGDRGVNLDSFSPANVMSGTPSIGLLFAFAAFIGFEATTIYGEEAKNPKRAIP 240 Query: 241 IATYTSVLLIGGFYGISLWSLIIGAGSDKVVKLLEGMQDPTAFIYLMSDHYAGPGLTAVI 300 IATYTSVLLIGGFYGISLWSLIIGAGSDKVVKLLEGMQDPTAFIYLMSDHYAGPGLTAVI Sbjct: 241 IATYTSVLLIGGFYGISLWSLIIGAGSDKVVKLLEGMQDPTAFIYLMSDHYAGPGLTAVI 300 Query: 301 RILFVISIYAGLLAFHSSAARYFYAVGRDGLLHRLLGTTHRTYQSPHMGSALQSAIAAVV 360 RILFVISIYAGLLAFHSSAARYFYAVGRDGLLHRLLGTTHRTYQSPHMGSALQSAIAAVV Sbjct: 301 RILFVISIYAGLLAFHSSAARYFYAVGRDGLLHRLLGTTHRTYQSPHMGSALQSAIAAVV 360 Query: 361 VTLFAVFDAHPILHLFAWFSSLAALCLMLLMIMTSAAVICYFRRRPEACDSAWRVRILPA 420 VTLFAVFDAHPILHLFAWFSSLAALCLMLLMIMTSAAVICYFRRRPEAC+SAWRVRILPA Sbjct: 361 VTLFAVFDAHPILHLFAWFSSLAALCLMLLMIMTSAAVICYFRRRPEACNSAWRVRILPA 420 Query: 421 VSLLALLYILSTAILHFDVLTGASRSMSYALCSMIPLAIVLGVMLATRLRRCAPLRFAAL 480 VSLLALLYILSTAILHFDVLTGASRSMSYALCSMIPLAIVLGVMLATRLRRCAPLRFAAL Sbjct: 421 VSLLALLYILSTAILHFDVLTGASRSMSYALCSMIPLAIVLGVMLATRLRRCAPLRFAAL 480 Query: 481 GSHKL 485 GSHKL Sbjct: 481 GSHKL 485 >gi|300310613|ref|YP_003774705.1| amino-acid transporter transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 483 Score = 233 bits (593), Expect = 3e-62, Method: Compositional matrix adjust. Identities = 153/476 (32%), Positives = 249/476 (52%), Gaps = 6/476 (1%) Query: 9 QDKEENALRKNALGVGFIIFFVVSAASPLSVIAGGFPIGIMLGNGAGTPALLVLILLLLL 68 + L+K+A+G I V++ PL+ + GG P+ I LGNG G P V++ L L Sbjct: 7 STPDHTGLKKDAIGWFGIFLMVITTNGPLTSMGGGVPVSITLGNGIGLPGSYVVVCLAYL 66 Query: 69 AFSVGYTTMARHVTNAGGFYAFSSAGLGGIAGGVAGVLAMFAYNILQIGLYGMFGGVMSA 128 F++G+ M +V N G FYA+ + GLG +AG + +A+ +Y + + Y M G M Sbjct: 67 LFAIGFCAMTPYVENGGAFYAYITKGLGSVAGVGSACIAVLSYISILLACYAMLGHFMQV 126 Query: 129 TFSDIFGIHLAWWVYAAVAMLSVAILGYRNIDLSARLLSVVVVAEYLAVLVLDFCILRSG 188 + + GI WW++A V + +L R I+ S RLL ++++ E A+L D L Sbjct: 127 MMAAM-GIAAPWWIWALVCAVLAHLLCVRGIEFSGRLLLLLMLCEVGAILGADVLELLRQ 185 Query: 189 GDHG--VNLDSFSPANVMSGTPSIGLLFAFAAFIGFEATTIYGEEAKNPKRAIPIATYTS 246 G V+ F P +V + L+F A+F+GFE IY +EA++P+R++P A Y S Sbjct: 186 HFTGAVVSFAPFWPQSVFTAGFGPSLIFVVASFMGFETAAIYAQEARDPQRSVPRAMYFS 245 Query: 247 VLLIGGFYGISLWSLIIGAGSDKVVKLLEGMQDPTAFIYLMSDHYAGPGLTAVIRILFVI 306 ++ IG Y S++ ++ G D V++ DP M AGP + +L + Sbjct: 246 IVFIGVLYAASIFLMLNHFGVDHAVQV--AANDPGGMWLSMFQTLAGPTAARIGAVLVIT 303 Query: 307 SIYAGLLAFHSSAARYFYAVGRDGLLHRLLGTTHRTYQSPHMGSALQSAIAAVVVTLFAV 366 S++A +L+F + ARY++A+ GL+ +L TH ++SP++ SA+ I+ ++ + A+ Sbjct: 304 SLFAAVLSFTNVVARYWHALSMRGLVWTMLSRTHPRHRSPYVASAITMCISCALILMCAM 363 Query: 367 FDAHPILHLFAWFSSLAALCLMLLMIMTSAAVICYFRRRPEACDSAWRVRILPAVSLLAL 426 P+L W S +A+ ++ ++ + AV +FRR ++ SAWR + P S + L Sbjct: 364 AGLDPMLQALPWASVPSAIGVLTCQVLAALAVASFFRRH-QSSVSAWRGLVAPVCSAVVL 422 Query: 427 LYILSTAILHFDVLTGASRSMSYALCSMIPLAIVLGVMLATRLRRCAPLRFAALGS 482 LY L I H +L+G SY L I +A L A RLRR +P FA L Sbjct: 423 LYFLWQMIAHVQLLSGLPSVPSYLLAVSILIAGGLASFYACRLRRSSPDVFARLSE 478 >gi|300311834|ref|YP_003775926.1| amino acid transporter permease [Herbaspirillum seropedicae SmR1] Length = 460 Score = 56.6 bits (135), Expect = 4e-09, Method: Compositional matrix adjust. Identities = 89/392 (22%), Positives = 174/392 (44%), Gaps = 43/392 (10%) Query: 70 FSVGYTTMARHVTNAGGFYAFSSAGLGGIAGGVAGVLAMFAYNILQIGLYGMFGGVMSAT 129 F +T + + +AGG +A+S G + G +AG + + + G ++ Sbjct: 63 FIFSFTELTTSIPHAGGPFAYSKRAFGPVGGYLAGAATLIEFVFAPPAIALAIGAYLNVQ 122 Query: 130 FSDIFGIHLAWWVYAAVAMLSVAILGYR---NIDLSARLLSVVVVAEYLAVLVLDFCI-- 184 F +I A Y + +++ I+G + +L LL++ + ++ V+ F + Sbjct: 123 FPNIDPKLAALGAY--LVFMTLNIVGVQIAATFELFVTLLAIFELLVFMGVVAPGFSLAN 180 Query: 185 LRSGGDHGVNLDSFSPANVMSGTPSIGLLFAFAAFIGFEATTIYGEEAKNPKRAIPIATY 244 GG G D FS A V +I FA F+ E + EEAK+P+R+IPIA Sbjct: 181 FTKGGWSGS--DGFSLAAVPGMFAAIP--FAIWFFLAIEGVAMAAEEAKDPRRSIPIAYI 236 Query: 245 TSVLLIGGFYGISLWSLIIGAGSDKVVKLLEGMQD--PTAFIYLMSDHYAGPGLTAVIRI 302 T +L + +++ ++ G+ K L + D P A ++ D+ + + + Sbjct: 237 TGILTL---VVLAIGVMLFAGGAGDWTK-LANINDPLPQAMKLIVGDN------SNWLHM 286 Query: 303 LFVISIYAGLLAFHS---SAARYFYAVGRDGLLHRLLGTTHRTYQSPHMGSALQSAIAAV 359 L + ++ + +FH +R +A+ R+G L H +++PH ++ +A Sbjct: 287 LVWLGLFGLVASFHGIILGYSRQIFALAREGYLPAYFARVHPRFKTPH-----RAILAGG 341 Query: 360 VVTLFAVFDAHPI----LHLFAWFSSLAALCLMLLMIMTSAAVICYFR-RRPEA-CDSAW 413 VV + A++ I L A +++ +L+ I++ ++ FR RR EA + + Sbjct: 342 VVGIAAIYSDELIKIGGQTLTANIVTMSVFGAILMYILS---MLSLFRLRRAEAGLERPF 398 Query: 414 RVRI---LPAVSLLALLYILSTAILHFDVLTG 442 R + PA +L L ++T I + ++ G Sbjct: 399 RAPLYPYFPAFALFGALVCMATMIYYNPLIFG 430 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 0.329 0.141 0.424 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: 1,248,354 Number of extensions: 44612 Number of successful extensions: 276 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 271 Number of HSP's successfully gapped: 3 Length of query: 485 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 396 Effective length of database: 1,198,455 Effective search space: 474588180 Effective search space used: 474588180 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 (21.8 bits) S2: 132 (55.5 bits)