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= 0034.0169.p (207 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310465|ref|YP_003774557.1| dipeptide/oligopeptide/nickel A... 335 2e-93 gi|300311171|ref|YP_003775263.1| dipeptide/oligopeptide/nickel A... 89 2e-19 gi|300310894|ref|YP_003774986.1| dipeptide/oligopeptide/nickel A... 83 2e-17 gi|300312479|ref|YP_003776571.1| dipeptide/oligopeptide/nickel A... 69 3e-13 >gi|300310465|ref|YP_003774557.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 293 Score = 335 bits (858), Expect = 2e-93, Method: Compositional matrix adjust. Identities = 181/197 (91%), Positives = 187/197 (94%), Gaps = 3/197 (1%) Query: 1 MKALHDSTGTEAGAPVAPAAAATAPVKRVRRHSTMAWIGMVIVGFWILMAILGPSISPYD 60 MKALHDSTG++A APA AA+AP KRVRRHSTMAWIGM IVGFWILMAILGPSISPYD Sbjct: 1 MKALHDSTGSQA---GAPAPAASAPAKRVRRHSTMAWIGMAIVGFWILMAILGPSISPYD 57 Query: 61 ATAIVDTDVFSGMSHKFLLGSDYLGRDMLSRILFGTRATIGLALLSTVVASLSGTAIALF 120 ATAIVDTDVFSGMSHKFLLGSDYLGRDMLSRILFGTRATIGLAL +TV+AS +GTAIALF Sbjct: 58 ATAIVDTDVFSGMSHKFLLGSDYLGRDMLSRILFGTRATIGLALAATVLASATGTAIALF 117 Query: 121 AAFSGGWRDAVISRALDALISIPSKMFALMMVATFGSSMFLLVLTAAITYMPGAYRIARS 180 AAFSGGWRDAVISRALDALISIPSKMFALMMVATFGSSM LLVLTAAITYMPGAYRIARS Sbjct: 118 AAFSGGWRDAVISRALDALISIPSKMFALMMVATFGSSMLLLVLTAAITYMPGAYRIARS 177 Query: 181 LAVNVQAMEYVQAARAR 197 LAVNVQAMEYVQAARAR Sbjct: 178 LAVNVQAMEYVQAARAR 194 >gi|300311171|ref|YP_003775263.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 310 Score = 89.0 bits (219), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 49/173 (28%), Positives = 88/173 (50%), Gaps = 6/173 (3%) Query: 27 KRVRRHSTMAWIGMVIVGFWILMAILGPSISPYDATAIVDTDVFSG---MSHKFLLGSDY 83 ++ ++ + G+ I+ F + +AIL P I P+D D D + H F G D Sbjct: 38 RKFKKQHLAVYAGVFIL-FLVAVAILAPWIVPFDPENFFDYDALNSPPTWVHWF--GVDS 94 Query: 84 LGRDMLSRILFGTRATIGLALLSTVVASLSGTAIALFAAFSGGWRDAVISRALDALISIP 143 LGRD+ SRI+ GTR ++ S + ++ GT L A + GW D + R D L + P Sbjct: 95 LGRDIFSRIVMGTRISLAAGFFSVAIGAVIGTVFGLLAGYYEGWWDRITMRICDVLFAFP 154 Query: 144 SKMFALMMVATFGSSMFLLVLTAAITYMPGAYRIARSLAVNVQAMEYVQAARA 196 + A+ +VA G M ++++ ++ +P R+ R + ++ + Y++A R+ Sbjct: 155 GILLAIGIVAILGGGMINVIISVSVFSIPAFARLVRGNTLQLKNLTYIEATRS 207 >gi|300310894|ref|YP_003774986.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 320 Score = 83.2 bits (204), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 64/189 (33%), Positives = 103/189 (54%), Gaps = 13/189 (6%) Query: 24 APVKRVRRH---STMAWIGMVIVGFWILMAILGPSISPYDATAIVDTDVFSGMSHK---- 76 +P +RV RH S A +G+VIV I+ AI P I+P + ++ DV H Sbjct: 32 SPWRRVMRHFVASRSAMLGLVIVLLLIVGAIAAPWITPQNPYDLMQLDVLDARLHPGTLN 91 Query: 77 ------FLLGSDYLGRDMLSRILFGTRATIGLALLSTVVASLSGTAIALFAAFSGGWRDA 130 + LG+D GRD++S IL+G R ++G+ + S ++A + GT I L AA++GG D Sbjct: 92 GAGTYTYWLGTDGQGRDLVSAILYGLRISVGIGVGSALIAGVIGTLIGLLAAYAGGKLDT 151 Query: 131 VISRALDALISIPSKMFALMMVATFGSSMFLLVLTAAITYMPGAYRIARSLAVNVQAMEY 190 ++ R D ++S PS + A++++A G +F ++ T + R AR A+ + EY Sbjct: 152 LLMRFADLVLSFPSILVAMLILAYVGKGIFNVMATLVVLEWAYYARTARGQALVERRKEY 211 Query: 191 VQAARARAL 199 V+AAR L Sbjct: 212 VEAARGLNL 220 >gi|300312479|ref|YP_003776571.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 305 Score = 68.9 bits (167), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 51/188 (27%), Positives = 97/188 (51%), Gaps = 13/188 (6%) Query: 18 PAAAATAPVKRVRRHSTMAWIGMVIVGFWILMAILGPSISPYDATAIVDTDVFSGM---- 73 P A ++R+ H + IG ++ +L AI P ++P+D D DV + + Sbjct: 20 PLPAWRRKLRRLLGHRGLM-IGAAVLAVIVLAAIFAPLLAPHDP---FDQDVTARLIPPV 75 Query: 74 -----SHKFLLGSDYLGRDMLSRILFGTRATIGLALLSTVVASLSGTAIALFAAFSGGWR 128 S + +LG+D LGRD SR+++G R ++ + L + +++ L GT + + A + GG Sbjct: 76 WQAQGSWEHILGTDKLGRDYFSRLIYGARVSLTIGLAAALISGLIGTTLGVLAGYFGGRT 135 Query: 129 DAVISRALDALISIPSKMFALMMVATFGSSMFLLVLTAAITYMPGAYRIARSLAVNVQAM 188 DAVIS + +++P + AL M + G S+ ++++ + + RS ++ Sbjct: 136 DAVISYLITTRLAMPVVLVALAMASLVGGSLKVVIVLLGLLLWDRFAVVTRSATQQLRDA 195 Query: 189 EYVQAARA 196 E++ AA+A Sbjct: 196 EFIAAAKA 203 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 0.326 0.134 0.388 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: 453,658 Number of extensions: 14276 Number of successful extensions: 110 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 106 Number of HSP's successfully gapped: 6 Length of query: 207 Length of database: 1,619,870 Length adjustment: 81 Effective length of query: 126 Effective length of database: 1,236,335 Effective search space: 155778210 Effective search space used: 155778210 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.7 bits) S2: 128 (53.9 bits)