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= 0037.0089.p (203 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310894|ref|YP_003774986.1| dipeptide/oligopeptide/nickel A... 311 3e-86 gi|300311171|ref|YP_003775263.1| dipeptide/oligopeptide/nickel A... 110 7e-26 gi|300312479|ref|YP_003776571.1| dipeptide/oligopeptide/nickel A... 103 1e-23 gi|300310465|ref|YP_003774557.1| dipeptide/oligopeptide/nickel A... 68 4e-13 gi|300312717|ref|YP_003776809.1| ABC transporter permease [Herba... 54 8e-09 >gi|300310894|ref|YP_003774986.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 320 Score = 311 bits (797), Expect = 3e-86, Method: Compositional matrix adjust. Identities = 159/191 (83%), Positives = 175/191 (91%) Query: 11 MTQQEVRAKVAALSAFQPPRRESPWRGVLRSFLASRTAMFGLGVAALLMFAALAAPWLTP 70 MTQ++VRA+VA LSAFQ PRRESPWR V+R F+ASR+AM GL + LL+ A+AAPW+TP Sbjct: 10 MTQEQVRARVAELSAFQAPRRESPWRRVMRHFVASRSAMLGLVIVLLLIVGAIAAPWITP 69 Query: 71 QNPYDLMQLDVLDARLPPGTVNGLGTYTYWLGTDGQGRDLYSGILYGLRISVGIGVGSAL 130 QNPYDLMQLDVLDARL PGT+NG GTYTYWLGTDGQGRDL S ILYGLRISVGIGVGSAL Sbjct: 70 QNPYDLMQLDVLDARLHPGTLNGAGTYTYWLGTDGQGRDLVSAILYGLRISVGIGVGSAL 129 Query: 131 LAGVIGTLVGLLAAYAGGKVDALLMRLADLVLSFPSILVSMLILAYLGKGIFNVMATLVV 190 +AGVIGTL+GLLAAYAGGK+D LLMR ADLVLSFPSILV+MLILAY+GKGIFNVMATLVV Sbjct: 130 IAGVIGTLIGLLAAYAGGKLDTLLMRFADLVLSFPSILVAMLILAYVGKGIFNVMATLVV 189 Query: 191 LEWAYYARTAR 201 LEWAYYARTAR Sbjct: 190 LEWAYYARTAR 200 >gi|300311171|ref|YP_003775263.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 310 Score = 110 bits (275), Expect = 7e-26, Method: Compositional matrix adjust. Identities = 64/173 (36%), Positives = 97/173 (56%), Gaps = 11/173 (6%) Query: 30 RRESPWRGVLRSFLASRTAMFGLGVAALLMFA-ALAAPWLTPQNPYDLMQLDVLDARLPP 88 + +PWR R F A++ GV L + A A+ APW+ P +P + D L++ PP Sbjct: 28 KIRTPWREFWRKFKKQHLAVYA-GVFILFLVAVAILAPWIVPFDPENFFDYDALNS--PP 84 Query: 89 GTVNGLGTYTYWLGTDGQGRDLYSGILYGLRISVGIGVGSALLAGVIGTLVGLLAAYAGG 148 T+ +W G D GRD++S I+ G RIS+ G S + VIGT+ GLLA Y G Sbjct: 85 -------TWVHWFGVDSLGRDIFSRIVMGTRISLAAGFFSVAIGAVIGTVFGLLAGYYEG 137 Query: 149 KVDALLMRLADLVLSFPSILVSMLILAYLGKGIFNVMATLVVLEWAYYARTAR 201 D + MR+ D++ +FP IL+++ I+A LG G+ NV+ ++ V +AR R Sbjct: 138 WWDRITMRICDVLFAFPGILLAIGIVAILGGGMINVIISVSVFSIPAFARLVR 190 >gi|300312479|ref|YP_003776571.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 305 Score = 103 bits (256), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 63/167 (37%), Positives = 99/167 (59%), Gaps = 4/167 (2%) Query: 35 WRGVLRSFLASRTAMFGLGVAALLMFAALAAPWLTPQNPYDLMQLDVLDARLPPGTVNGL 94 WR LR L R M G V A+++ AA+ AP L P +P+D + ARL P Sbjct: 24 WRRKLRRLLGHRGLMIGAAVLAVIVLAAIFAPLLAPHDPFD----QDVTARLIPPVWQAQ 79 Query: 95 GTYTYWLGTDGQGRDLYSGILYGLRISVGIGVGSALLAGVIGTLVGLLAAYAGGKVDALL 154 G++ + LGTD GRD +S ++YG R+S+ IG+ +AL++G+IGT +G+LA Y GG+ DA++ Sbjct: 80 GSWEHILGTDKLGRDYFSRLIYGARVSLTIGLAAALISGLIGTTLGVLAGYFGGRTDAVI 139 Query: 155 MRLADLVLSFPSILVSMLILAYLGKGIFNVMATLVVLEWAYYARTAR 201 L L+ P +LV++ + + +G + V+ L +L W +A R Sbjct: 140 SYLITTRLAMPVVLVALAMASLVGGSLKVVIVLLGLLLWDRFAVVTR 186 >gi|300310465|ref|YP_003774557.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 293 Score = 68.2 bits (165), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 39/138 (28%), Positives = 76/138 (55%), Gaps = 10/138 (7%) Query: 45 SRTAMFGLGVAALLMFAALAAPWLTPQNPYDLMQLDVLDARLPPGTVNGLGTYTYWLGTD 104 S A G+ + + A+ P ++P + ++ DV +G+ ++ + LG+D Sbjct: 30 STMAWIGMAIVGFWILMAILGPSISPYDATAIVDTDVF---------SGM-SHKFLLGSD 79 Query: 105 GQGRDLYSGILYGLRISVGIGVGSALLAGVIGTLVGLLAAYAGGKVDALLMRLADLVLSF 164 GRD+ S IL+G R ++G+ + + +LA GT + L AA++GG DA++ R D ++S Sbjct: 80 YLGRDMLSRILFGTRATIGLALAATVLASATGTAIALFAAFSGGWRDAVISRALDALISI 139 Query: 165 PSILVSMLILAYLGKGIF 182 PS + +++++A G + Sbjct: 140 PSKMFALMMVATFGSSML 157 >gi|300312717|ref|YP_003776809.1| ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 348 Score = 54.3 bits (129), Expect = 8e-09, Method: Compositional matrix adjust. Identities = 25/68 (36%), Positives = 39/68 (57%) Query: 100 WLGTDGQGRDLYSGILYGLRISVGIGVGSALLAGVIGTLVGLLAAYAGGKVDALLMRLAD 159 WLGTD +GRD+++ +LYG R+SV G+ + V+G G + Y G+ D RL + Sbjct: 129 WLGTDDRGRDVFARLLYGFRVSVLFGMALTFIGVVLGVAAGAVQGYFAGRTDLFTQRLLE 188 Query: 160 LVLSFPSI 167 + S P + Sbjct: 189 IWGSMPEL 196 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 0.324 0.139 0.414 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: 604,955 Number of extensions: 26181 Number of successful extensions: 193 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 190 Number of HSP's successfully gapped: 6 Length of query: 203 Length of database: 1,619,870 Length adjustment: 81 Effective length of query: 122 Effective length of database: 1,236,335 Effective search space: 150832870 Effective search space used: 150832870 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 (21.5 bits) S2: 128 (53.9 bits)