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= 0020.0414.p (224 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... 438 e-124 gi|300312479|ref|YP_003776571.1| dipeptide/oligopeptide/nickel A... 118 4e-28 gi|300311171|ref|YP_003775263.1| dipeptide/oligopeptide/nickel A... 113 2e-26 gi|300310894|ref|YP_003774986.1| dipeptide/oligopeptide/nickel A... 103 2e-23 gi|300312717|ref|YP_003776809.1| ABC transporter permease [Herba... 60 1e-10 >gi|300310465|ref|YP_003774557.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 293 Score = 438 bits (1126), Expect = e-124, Method: Compositional matrix adjust. Identities = 224/224 (100%), Positives = 224/224 (100%) Query: 1 MSHKFLLGSDYLGRDMLSRILFGTRATIGLALAATVLASATGTAIALFAAFSGGWRDAVI 60 MSHKFLLGSDYLGRDMLSRILFGTRATIGLALAATVLASATGTAIALFAAFSGGWRDAVI Sbjct: 70 MSHKFLLGSDYLGRDMLSRILFGTRATIGLALAATVLASATGTAIALFAAFSGGWRDAVI 129 Query: 61 SRALDALISIPSKMFALMMVATFGSSMLLLVLTAAITYMPGAYRIARSLAVNVQAMEYVQ 120 SRALDALISIPSKMFALMMVATFGSSMLLLVLTAAITYMPGAYRIARSLAVNVQAMEYVQ Sbjct: 130 SRALDALISIPSKMFALMMVATFGSSMLLLVLTAAITYMPGAYRIARSLAVNVQAMEYVQ 189 Query: 121 AARARGEGVWYIMTVEMLPNMIRPVLADFGLRFVYVVLLLSGLSFLSLGVQPPDADWGSL 180 AARARGEGVWYIMTVEMLPNMIRPVLADFGLRFVYVVLLLSGLSFLSLGVQPPDADWGSL Sbjct: 190 AARARGEGVWYIMTVEMLPNMIRPVLADFGLRFVYVVLLLSGLSFLSLGVQPPDADWGSL 249 Query: 181 VRENISGLGEGALAVIMPALAIASLTIGVNLLIDNLRSKRAAKE 224 VRENISGLGEGALAVIMPALAIASLTIGVNLLIDNLRSKRAAKE Sbjct: 250 VRENISGLGEGALAVIMPALAIASLTIGVNLLIDNLRSKRAAKE 293 >gi|300312479|ref|YP_003776571.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 305 Score = 118 bits (296), Expect = 4e-28, Method: Compositional matrix adjust. Identities = 71/220 (32%), Positives = 124/220 (56%) Query: 2 SHKFLLGSDYLGRDMLSRILFGTRATIGLALAATVLASATGTAIALFAAFSGGWRDAVIS 61 S + +LG+D LGRD SR+++G R ++ + LAA +++ GT + + A + GG DAVIS Sbjct: 81 SWEHILGTDKLGRDYFSRLIYGARVSLTIGLAAALISGLIGTTLGVLAGYFGGRTDAVIS 140 Query: 62 RALDALISIPSKMFALMMVATFGSSMLLLVLTAAITYMPGAYRIARSLAVNVQAMEYVQA 121 + +++P + AL M + G S+ ++++ + + RS ++ E++ A Sbjct: 141 YLITTRLAMPVVLVALAMASLVGGSLKVVIVLLGLLLWDRFAVVTRSATQQLRDAEFIAA 200 Query: 122 ARARGEGVWYIMTVEMLPNMIRPVLADFGLRFVYVVLLLSGLSFLSLGVQPPDADWGSLV 181 A+A G YI+ E+LPN++ ++ L + +LL + LSFL LGVQPP WG +V Sbjct: 201 AKAIGASTPYILLREILPNIMGALIVVVTLEMAHAILLEATLSFLGLGVQPPTPSWGLMV 260 Query: 182 RENISGLGEGALAVIMPALAIASLTIGVNLLIDNLRSKRA 221 E + + +++P +A+A L + +NL+ D LR A Sbjct: 261 AEGKTYMFFKPWVIVIPGVALALLVLAINLVGDGLRDVNA 300 >gi|300311171|ref|YP_003775263.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 310 Score = 113 bits (282), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 65/221 (29%), Positives = 111/221 (50%), Gaps = 2/221 (0%) Query: 3 HKFLLGSDYLGRDMLSRILFGTRATIGLALAATVLASATGTAIALFAAFSGGWRDAVISR 62 H F G D LGRD+ SRI+ GTR ++ + + + GT L A + GW D + R Sbjct: 88 HWF--GVDSLGRDIFSRIVMGTRISLAAGFFSVAIGAVIGTVFGLLAGYYEGWWDRITMR 145 Query: 63 ALDALISIPSKMFALMMVATFGSSMLLLVLTAAITYMPGAYRIARSLAVNVQAMEYVQAA 122 D L + P + A+ +VA G M+ ++++ ++ +P R+ R + ++ + Y++A Sbjct: 146 ICDVLFAFPGILLAIGIVAILGGGMINVIISVSVFSIPAFARLVRGNTLQLKNLTYIEAT 205 Query: 123 RARGEGVWYIMTVEMLPNMIRPVLADFGLRFVYVVLLLSGLSFLSLGVQPPDADWGSLVR 182 R+ G IM + P I ++ F +R ++ +GLSFL LG Q P +WG ++ Sbjct: 206 RSIGASDMTIMWKHIFPGTISAIVVYFTMRIGTSIITAAGLSFLGLGAQSPTPEWGLMLN 265 Query: 183 ENISGLGEGALAVIMPALAIASLTIGVNLLIDNLRSKRAAK 223 E + + ++P++AI + NLL D LR K Sbjct: 266 EARADMVTSPHVALVPSIAIFLTVLAFNLLGDGLRDALDPK 306 >gi|300310894|ref|YP_003774986.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 320 Score = 103 bits (256), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 66/218 (30%), Positives = 115/218 (52%), Gaps = 1/218 (0%) Query: 2 SHKFLLGSDYLGRDMLSRILFGTRATIGLALAATVLASATGTAIALFAAFSGGWRDAVIS 61 ++ + LG+D GRD++S IL+G R ++G+ + + ++A GT I L AA++GG D ++ Sbjct: 95 TYTYWLGTDGQGRDLVSAILYGLRISVGIGVGSALIAGVIGTLIGLLAAYAGGKLDTLLM 154 Query: 62 RALDALISIPSKMFALMMVATFGSSMLLLVLTAAITYMPGAYRIARSLAVNVQAMEYVQA 121 R D ++S PS + A++++A G + ++ T + R AR A+ + EYV+A Sbjct: 155 RFADLVLSFPSILVAMLILAYVGKGIFNVMATLVVLEWAYYARTARGQALVERRKEYVEA 214 Query: 122 ARARGEGVWYIMTVEMLPNMIRPVLADFGLRFVYVVLLLSGLSFLSLGVQPPDADWGSLV 181 AR W IM +LPN + P++ L+ + L + LSFL LGV + G L+ Sbjct: 215 ARGLNLSSWRIMVRHILPNCLPPLIVIGTLQVARAITLEATLSFLGLGVPITEPSLGLLI 274 Query: 182 RENISGLGEGALAV-IMPALAIASLTIGVNLLIDNLRS 218 + G + P + + + + +NL+ D LR Sbjct: 275 SNGYQYMLSGEYWISFYPGITLLVVIVAINLVGDRLRD 312 >gi|300312717|ref|YP_003776809.1| ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 348 Score = 60.1 bits (144), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 52/187 (27%), Positives = 87/187 (46%) Query: 2 SHKFLLGSDYLGRDMLSRILFGTRATIGLALAATVLASATGTAIALFAAFSGGWRDAVIS 61 S + LG+D GRD+ +R+L+G R ++ +A T + G A + G D Sbjct: 125 SSENWLGTDDRGRDVFARLLYGFRVSVLFGMALTFIGVVLGVAAGAVQGYFAGRTDLFTQ 184 Query: 62 RALDALISIPSKMFALMMVATFGSSMLLLVLTAAITYMPGAYRIARSLAVNVQAMEYVQA 121 R L+ S+P ++ + F S+ LL++ ++ R+ + + +EY+QA Sbjct: 185 RLLEIWGSMPELYLLIIFSSIFQPSLGLLLVLLSLFGWMSLSDYVRADFLRNRNLEYIQA 244 Query: 122 ARARGEGVWYIMTVEMLPNMIRPVLADFGLRFVYVVLLLSGLSFLSLGVQPPDADWGSLV 181 ARA G I+ +LPN + V+ R +L L+ L FL LGV P G L+ Sbjct: 245 ARAMGLPDRLIIWRHVLPNSMTTVVTFLPFRMSAAILALTSLDFLGLGVPPSTPSLGELL 304 Query: 182 RENISGL 188 + + L Sbjct: 305 AQGKNNL 311 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 0.138 0.391 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: 548,640 Number of extensions: 17559 Number of successful extensions: 159 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 157 Number of HSP's successfully gapped: 6 Length of query: 224 Length of database: 1,619,870 Length adjustment: 82 Effective length of query: 142 Effective length of database: 1,231,600 Effective search space: 174887200 Effective search space used: 174887200 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 (21.7 bits) S2: 129 (54.3 bits)