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= 0037.0073.p (293 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311171|ref|YP_003775263.1| dipeptide/oligopeptide/nickel A... 194 5e-51 gi|300312479|ref|YP_003776571.1| dipeptide/oligopeptide/nickel A... 159 3e-40 gi|300310894|ref|YP_003774986.1| dipeptide/oligopeptide/nickel A... 143 2e-35 gi|300310465|ref|YP_003774557.1| dipeptide/oligopeptide/nickel A... 96 4e-21 gi|300312717|ref|YP_003776809.1| ABC transporter permease [Herba... 70 2e-13 >gi|300311171|ref|YP_003775263.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 310 Score = 194 bits (494), Expect = 5e-51, Method: Compositional matrix adjust. Identities = 107/260 (41%), Positives = 150/260 (57%) Query: 23 KRSRGHWANVAARIVRNPLAMIAAVILLALIGIAVFAPWIMPADPFATSMFTRLKPIGTP 82 ++ R W + + LA+ A V +L L+ +A+ APWI+P DP + L T Sbjct: 27 QKIRTPWREFWRKFKKQHLAVYAGVFILFLVAVAILAPWIVPFDPENFFDYDALNSPPTW 86 Query: 83 GHLFGTDELGRDLLSRLMLGGRLSLFMGITPVLTAFVIGSGIGILAGYAGGFINTAIMRT 142 H FG D LGRD+ SR+++G R+SL G V VIG+ G+LAGY G+ + MR Sbjct: 87 VHWFGVDSLGRDIFSRIVMGTRISLAAGFFSVAIGAVIGTVFGLLAGYYEGWWDRITMRI 146 Query: 143 IDVLYAFPSVLLAIALSGALGAGIVNALTSLTIVFIPQIARIAESVTTQVRRSDYVDAAR 202 DVL+AFP +LLAI + LG G++N + S+++ IP AR+ T Q++ Y++A R Sbjct: 147 CDVLFAFPGILLAIGIVAILGGGMINVIISVSVFSIPAFARLVRGNTLQLKNLTYIEATR 206 Query: 203 ASGAGAFTIVRAHVLGNVLGPIFVYSTSLISVSMILASGLSFLGLGVKPPEPEWGLMLNT 262 + GA TI+ H+ + I VY T I S+I A+GLSFLGLG + P PEWGLMLN Sbjct: 207 SIGASDMTIMWKHIFPGTISAIVVYFTMRIGTSIITAAGLSFLGLGAQSPTPEWGLMLNE 266 Query: 263 LRTAIYTQPWVAALPGAFIF 282 R + T P VA +P IF Sbjct: 267 ARADMVTSPHVALVPSIAIF 286 >gi|300312479|ref|YP_003776571.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 305 Score = 159 bits (401), Expect = 3e-40, Method: Compositional matrix adjust. Identities = 96/266 (36%), Positives = 155/266 (58%), Gaps = 12/266 (4%) Query: 18 PLPAFKRSRGHWANVAARIVRNPLAMIAAVILLALIGIAVFAPWIMPADPFATSMFTRLK 77 PLPA++R R++ + MI A +L ++ A+FAP + P DPF + RL Sbjct: 20 PLPAWRRK-------LRRLLGHRGLMIGAAVLAVIVLAAIFAPLLAPHDPFDQDVTARLI 72 Query: 78 P-----IGTPGHLFGTDELGRDLLSRLMLGGRLSLFMGITPVLTAFVIGSGIGILAGYAG 132 P G+ H+ GTD+LGRD SRL+ G R+SL +G+ L + +IG+ +G+LAGY G Sbjct: 73 PPVWQAQGSWEHILGTDKLGRDYFSRLIYGARVSLTIGLAAALISGLIGTTLGVLAGYFG 132 Query: 133 GFINTAIMRTIDVLYAFPSVLLAIALSGALGAGIVNALTSLTIVFIPQIARIAESVTTQV 192 G + I I A P VL+A+A++ +G + + L ++ + A + S T Q+ Sbjct: 133 GRTDAVISYLITTRLAMPVVLVALAMASLVGGSLKVVIVLLGLLLWDRFAVVTRSATQQL 192 Query: 193 RRSDYVDAARASGAGAFTIVRAHVLGNVLGPIFVYSTSLISVSMILASGLSFLGLGVKPP 252 R ++++ AA+A GA I+ +L N++G + V T ++ +++L + LSFLGLGV+PP Sbjct: 193 RDAEFIAAAKAIGASTPYILLREILPNIMGALIVVVTLEMAHAILLEATLSFLGLGVQPP 252 Query: 253 EPEWGLMLNTLRTAIYTQPWVAALPG 278 P WGLM+ +T ++ +PWV +PG Sbjct: 253 TPSWGLMVAEGKTYMFFKPWVIVIPG 278 >gi|300310894|ref|YP_003774986.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 320 Score = 143 bits (360), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 100/272 (36%), Positives = 151/272 (55%), Gaps = 12/272 (4%) Query: 19 LPAFK--RSRGHWANVAARIVRNPLAMIAAVILLALIGIAVFAPWIMPADPFATSMFT-- 74 L AF+ R W V V + AM+ VI+L LI A+ APWI P +P+ Sbjct: 22 LSAFQAPRRESPWRRVMRHFVASRSAMLGLVIVLLLIVGAIAAPWITPQNPYDLMQLDVL 81 Query: 75 --RLKP-----IGTPGHLFGTDELGRDLLSRLMLGGRLSLFMGITPVLTAFVIGSGIGIL 127 RL P GT + GTD GRDL+S ++ G R+S+ +G+ L A VIG+ IG+L Sbjct: 82 DARLHPGTLNGAGTYTYWLGTDGQGRDLVSAILYGLRISVGIGVGSALIAGVIGTLIGLL 141 Query: 128 AGYAGGFINTAIMRTIDVLYAFPSVLLAIALSGALGAGIVNALTSLTIVFIPQIARIAES 187 A YAGG ++T +MR D++ +FPS+L+A+ + +G GI N + +L ++ AR A Sbjct: 142 AAYAGGKLDTLLMRFADLVLSFPSILVAMLILAYVGKGIFNVMATLVVLEWAYYARTARG 201 Query: 188 VTTQVRRSDYVDAARASGAGAFTIVRAHVLGNVLGPIFVYSTSLISVSMILASGLSFLGL 247 RR +YV+AAR ++ I+ H+L N L P+ V T ++ ++ L + LSFLGL Sbjct: 202 QALVERRKEYVEAARGLNLSSWRIMVRHILPNCLPPLIVIGTLQVARAITLEATLSFLGL 261 Query: 248 GVKPPEPEWGLML-NTLRTAIYTQPWVAALPG 278 GV EP GL++ N + + + W++ PG Sbjct: 262 GVPITEPSLGLLISNGYQYMLSGEYWISFYPG 293 >gi|300310465|ref|YP_003774557.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 293 Score = 95.5 bits (236), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 66/223 (29%), Positives = 113/223 (50%), Gaps = 22/223 (9%) Query: 50 LALIGIAVFAPWIMPA------DPFATSMFTRLKPIGTPGHLF--GTDELGRDLLSRLML 101 +A IG+A+ WI+ A P+ + H F G+D LGRD+LSR++ Sbjct: 32 MAWIGMAIVGFWILMAILGPSISPYDATAIVDTDVFSGMSHKFLLGSDYLGRDMLSRILF 91 Query: 102 GGRLSLFMGITPVLTAFVIGSGIGILAGYAGGFINTAIMRTIDVLYAFPSVLLAIALSGA 161 G R ++ + + + A G+ I + A ++GG+ + I R +D L + PS + A+ + Sbjct: 92 GTRATIGLALAATVLASATGTAIALFAAFSGGWRDAVISRALDALISIPSKMFALMMVAT 151 Query: 162 LGAGIVNALTSLTIVFIPQIARIAESVTTQVRRSDYVDAARASGAGAFTIVRAHVLGNVL 221 G+ ++ + + I ++P RIA S+ V+ +YV AARA G G + I+ +L N++ Sbjct: 152 FGSSMLLLVLTAAITYMPGAYRIARSLAVNVQAMEYVQAARARGEGVWYIMTVEMLPNMI 211 Query: 222 GPI-------FVYSTSLISVSMILASGLSFLGLGVKPPEPEWG 257 P+ FVY L+S L+ GV+PP+ +WG Sbjct: 212 RPVLADFGLRFVYVVLLLSGLSFLSL-------GVQPPDADWG 247 >gi|300312717|ref|YP_003776809.1| ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 348 Score = 70.5 bits (171), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 49/177 (27%), Positives = 84/177 (47%) Query: 84 HLFGTDELGRDLLSRLMLGGRLSLFMGITPVLTAFVIGSGIGILAGYAGGFINTAIMRTI 143 + GTD+ GRD+ +RL+ G R+S+ G+ V+G G + GY G + R + Sbjct: 128 NWLGTDDRGRDVFARLLYGFRVSVLFGMALTFIGVVLGVAAGAVQGYFAGRTDLFTQRLL 187 Query: 144 DVLYAFPSVLLAIALSGALGAGIVNALTSLTIVFIPQIARIAESVTTQVRRSDYVDAARA 203 ++ + P + L I S + L L++ ++ + + R +Y+ AARA Sbjct: 188 EIWGSMPELYLLIIFSSIFQPSLGLLLVLLSLFGWMSLSDYVRADFLRNRNLEYIQAARA 247 Query: 204 SGAGAFTIVRAHVLGNVLGPIFVYSTSLISVSMILASGLSFLGLGVKPPEPEWGLML 260 G I+ HVL N + + + +S +++ + L FLGLGV P P G +L Sbjct: 248 MGLPDRLIIWRHVLPNSMTTVVTFLPFRMSAAILALTSLDFLGLGVPPSTPSLGELL 304 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 0.140 0.416 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: 766,588 Number of extensions: 26495 Number of successful extensions: 162 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 156 Number of HSP's successfully gapped: 6 Length of query: 293 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 209 Effective length of database: 1,222,130 Effective search space: 255425170 Effective search space used: 255425170 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: 130 (54.7 bits)