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= 0031.0054.p (381 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313299|ref|YP_003777391.1| branched-chain amino acid ABC t... 333 1e-92 gi|300313300|ref|YP_003777392.1| branched-chain amino acid ABC t... 298 5e-82 gi|300313405|ref|YP_003777497.1| branched-chain amino acid ABC t... 176 3e-45 gi|300310683|ref|YP_003774775.1| amino acid ABC transporter comp... 172 4e-44 gi|300313406|ref|YP_003777498.1| branched-chain amino acid ABC t... 149 2e-37 >gi|300313299|ref|YP_003777391.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 346 Score = 333 bits (854), Expect = 1e-92, Method: Compositional matrix adjust. Identities = 197/198 (99%), Positives = 197/198 (99%) Query: 1 MDSSIAAILTLDGLTNGIVYGLIAIALVLVFTVTRILFIPQGEFVAYGALTLAMLQQGQR 60 MDSSIAAILTLDGLTNGIVYGLIAIALVLVFTVTRILFIPQGEFVAYGALTLAMLQQGQR Sbjct: 1 MDSSIAAILTLDGLTNGIVYGLIAIALVLVFTVTRILFIPQGEFVAYGALTLAMLQQGQR 60 Query: 61 PGPLWLLLVLALCAAGMQAASLLRAGQAALLPRALAGTLGVPLVIAALVWWAAPQQFALP 120 PGPLWLLLVLALCAAGMQAASLLRAGQAALLPRAL GTLGVPLVIAALVWWAAPQQFALP Sbjct: 61 PGPLWLLLVLALCAAGMQAASLLRAGQAALLPRALLGTLGVPLVIAALVWWAAPQQFALP 120 Query: 121 VQVLLTLLLITALGPLMYQVVYESMADASVLQLLIVSVGIHLAMTGLGLVFFGAEGFRTP 180 VQVLLTLLLITALGPLMYQVVYESMADASVLQLLIVSVGIHLAMTGLGLVFFGAEGFRTP Sbjct: 121 VQVLLTLLLITALGPLMYQVVYESMADASVLQLLIVSVGIHLAMTGLGLVFFGAEGFRTP 180 Query: 181 AFWDERWNLASLTLSAQT 198 AFWDERWNLASLTLSAQT Sbjct: 181 AFWDERWNLASLTLSAQT 198 >gi|300313300|ref|YP_003777392.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 597 Score = 298 bits (763), Expect = 5e-82, Method: Compositional matrix adjust. Identities = 150/150 (100%), Positives = 150/150 (100%) Query: 211 GISLYFLFGKVDFLGKYDGISGIPALQLAGLDLAKERHLYYLIWAIVLAAAWVSLNLLDS 270 GISLYFLFGKVDFLGKYDGISGIPALQLAGLDLAKERHLYYLIWAIVLAAAWVSLNLLDS Sbjct: 119 GISLYFLFGKVDFLGKYDGISGIPALQLAGLDLAKERHLYYLIWAIVLAAAWVSLNLLDS 178 Query: 271 RAGRAIRALKGGRSMAEAMGVDTGRYKILIFVFAALLASVSGWLFAHMQRTVNPSPFSLA 330 RAGRAIRALKGGRSMAEAMGVDTGRYKILIFVFAALLASVSGWLFAHMQRTVNPSPFSLA Sbjct: 179 RAGRAIRALKGGRSMAEAMGVDTGRYKILIFVFAALLASVSGWLFAHMQRTVNPSPFSLA 238 Query: 331 MGIEYLFIVVVGGIAHIWGALLGAGVLKLL 360 MGIEYLFIVVVGGIAHIWGALLGAGVLKLL Sbjct: 239 MGIEYLFIVVVGGIAHIWGALLGAGVLKLL 268 >gi|300313405|ref|YP_003777497.1| branched-chain amino acid ABC transporter ATP-binding protein/permease [Herbaspirillum seropedicae SmR1] Length = 596 Score = 176 bits (446), Expect = 3e-45, Method: Compositional matrix adjust. Identities = 83/150 (55%), Positives = 114/150 (76%) Query: 211 GISLYFLFGKVDFLGKYDGISGIPALQLAGLDLAKERHLYYLIWAIVLAAAWVSLNLLDS 270 G+SLY+LFG ++ LGK+DGI+GIP + + ++ +Y LIW +++ A +N LDS Sbjct: 122 GLSLYYLFGNLEMLGKHDGINGIPVITIGSVEFGNGASMYLLIWVVLILALVSVVNFLDS 181 Query: 271 RAGRAIRALKGGRSMAEAMGVDTGRYKILIFVFAALLASVSGWLFAHMQRTVNPSPFSLA 330 RAGRA+RAL+ G M EAMGVDT R KI+IFV+AA+LA +SGWL+AH+Q+ VNP+PF L Sbjct: 182 RAGRAVRALRFGTVMPEAMGVDTARLKIVIFVYAAVLAGISGWLYAHLQQAVNPTPFGLK 241 Query: 331 MGIEYLFIVVVGGIAHIWGALLGAGVLKLL 360 GI+YL +VVVGG H+ GA+LGAG+L +L Sbjct: 242 YGIDYLLMVVVGGAGHVAGAILGAGLLAVL 271 >gi|300310683|ref|YP_003774775.1| amino acid ABC transporter composite ATP-binding protein/permease [Herbaspirillum seropedicae SmR1] Length = 627 Score = 172 bits (436), Expect = 4e-44, Method: Compositional matrix adjust. Identities = 84/150 (56%), Positives = 113/150 (75%) Query: 211 GISLYFLFGKVDFLGKYDGISGIPALQLAGLDLAKERHLYYLIWAIVLAAAWVSLNLLDS 270 GISLYF+FG ++ +G G+SGIP++ G+ L +R ++ LIW VL NLLDS Sbjct: 132 GISLYFIFGTLESMGGQTGMSGIPSIAFLGVVLDSDRAMFGLIWVAVLLGVAALRNLLDS 191 Query: 271 RAGRAIRALKGGRSMAEAMGVDTGRYKILIFVFAALLASVSGWLFAHMQRTVNPSPFSLA 330 R GRAIRALKGG MAEAMGV+T R +I++FV AA+LA++SGWL+ HMQR VNPSPF L Sbjct: 192 REGRAIRALKGGIVMAEAMGVNTARMRIVVFVIAAVLAALSGWLYVHMQRFVNPSPFGLG 251 Query: 331 MGIEYLFIVVVGGIAHIWGALLGAGVLKLL 360 GI+YLF+ V+GG +H+WGA+LG+ ++ +L Sbjct: 252 FGIDYLFMAVLGGASHVWGAVLGSSLIVVL 281 >gi|300313406|ref|YP_003777498.1| branched-chain amino acid ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 350 Score = 149 bits (377), Expect = 2e-37, Method: Compositional matrix adjust. Identities = 99/221 (44%), Positives = 138/221 (62%), Gaps = 5/221 (2%) Query: 1 MDSSIAAILTLDGLTNGIVYGLIAIALVLVFTVTRILFIPQGEFVAYGALTLAMLQQGQR 60 MD+SI +L DG+T G +Y L+++ALVLVF+VTR++F+PQGEFVA+GALTLA +Q GQ Sbjct: 1 MDTSILTVLIQDGITTGAIYALLSLALVLVFSVTRVIFLPQGEFVAFGALTLAAIQNGQA 60 Query: 61 PGPLWLLLVLALCAAGMQAASLLRAGQAALLPRALAGT-----LGVPLVIAALVWWAAPQ 115 P LLL L ++ S LR Q LG+PL I AL Q Sbjct: 61 PATALLLLALGAVTLAVETGSALRLAQTRARLLRRLPLLLATHLGLPLAILALTRCLDLQ 120 Query: 116 QFALPVQVLLTLLLITALGPLMYQVVYESMADASVLQLLIVSVGIHLAMTGLGLVFFGAE 175 A+P Q+LL LL++ +GP++Y+V Y+ +A +SVL LLIVS+G+HLAM GLGL+ FG E Sbjct: 121 ALAMPWQILLALLIVVPMGPMIYRVAYQPLAHSSVLVLLIVSLGVHLAMVGLGLLMFGPE 180 Query: 176 GFRTPAFWDERWNLASLTLSAQTVVVVAAAAIFTRGISLYF 216 G T F + ++NL +S Q+V+V+ A I ++F Sbjct: 181 GTNTRPFTEMQFNLGESPVSGQSVIVLITVAALIAVIYVFF 221 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 0.437 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: 1,010,749 Number of extensions: 38228 Number of successful extensions: 298 Number of sequences better than 1.0e-08: 19 Number of HSP's gapped: 300 Number of HSP's successfully gapped: 19 Length of query: 381 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 294 Effective length of database: 1,207,925 Effective search space: 355129950 Effective search space used: 355129950 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: 131 (55.1 bits)