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= 0057.0014.p (295 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... 241 4e-65 gi|300312479|ref|YP_003776571.1| dipeptide/oligopeptide/nickel A... 181 9e-47 gi|300310894|ref|YP_003774986.1| dipeptide/oligopeptide/nickel A... 148 4e-37 gi|300312717|ref|YP_003776809.1| ABC transporter permease [Herba... 105 5e-24 gi|300310465|ref|YP_003774557.1| dipeptide/oligopeptide/nickel A... 103 1e-23 >gi|300311171|ref|YP_003775263.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 310 Score = 241 bits (616), Expect = 4e-65, Method: Compositional matrix adjust. Identities = 122/271 (45%), Positives = 171/271 (63%), Gaps = 1/271 (0%) Query: 23 RRFAGNRLAVLGAAIILLLVLIAIFAPLLATHDPIFDQDYGNLLAGPDTTHWMGTDDLGR 82 R+F LAV IL LV +AI AP + DP DY L + P HW G D LGR Sbjct: 38 RKFKKQHLAVYAGVFILFLVAVAILAPWIVPFDPENFFDYDALNSPPTWVHWFGVDSLGR 97 Query: 83 DIFSRMLYGARISLQAAMIAVGLAFCVGVPVGIASGYFRGFWDEWVVMRIVDALQAFPPL 142 DIFSR++ G RISL A +V + +G G+ +GY+ G+WD + MRI D L AFP + Sbjct: 98 DIFSRIVMGTRISLAAGFFSVAIGAVIGTVFGLLAGYYEGWWDR-ITMRICDVLFAFPGI 156 Query: 143 ILALALAAALGGGFYNAMAAVGIGFAPAFIRLARGQAMSIRNLDYVMAARSVGAGHIRIM 202 +LA+ + A LGGG N + +V + PAF RL RG + ++NL Y+ A RS+GA + IM Sbjct: 157 LLAIGIVAILGGGMINVIISVSVFSIPAFARLVRGNTLQLKNLTYIEATRSIGASDMTIM 216 Query: 203 WRYVLPNAMAPLVIQATFAMGSAIIAEAGLSYLGLGARAEDPSWGSMLHIAQGYLNTNPT 262 W+++ P ++ +V+ T +G++II AGLS+LGLGA++ P WG ML+ A+ + T+P Sbjct: 217 WKHIFPGTISAIVVYFTMRIGTSIITAAGLSFLGLGAQSPTPEWGLMLNEARADMVTSPH 276 Query: 263 LALWPGVAIFAVVLGFNLLGDGIREVFDPKL 293 +AL P +AIF VL FNLLGDG+R+ DPK+ Sbjct: 277 VALVPSIAIFLTVLAFNLLGDGLRDALDPKI 307 >gi|300312479|ref|YP_003776571.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 305 Score = 181 bits (458), Expect = 9e-47, Method: Compositional matrix adjust. Identities = 112/286 (39%), Positives = 169/286 (59%), Gaps = 10/286 (3%) Query: 13 LPRQQRFTGLRRFAGNRLAVLGAAIILLLVLIAIFAPLLATHDPIFDQDYGNLLAGP--- 69 LP +R LRR G+R ++GAA++ ++VL AIFAPLLA HDP FDQD L P Sbjct: 21 LPAWRR--KLRRLLGHRGLMIGAAVLAVIVLAAIFAPLLAPHDP-FDQDVTARLIPPVWQ 77 Query: 70 ---DTTHWMGTDDLGRDIFSRMLYGARISLQAAMIAVGLAFCVGVPVGIASGYFRGFWDE 126 H +GTD LGRD FSR++YGAR+SL + A ++ +G +G+ +GYF G D Sbjct: 78 AQGSWEHILGTDKLGRDYFSRLIYGARVSLTIGLAAALISGLIGTTLGVLAGYFGGRTDA 137 Query: 127 WVVMRIVDALQAFPPLILALALAAALGGGFYNAMAAVGIGFAPAFIRLARGQAMSIRNLD 186 V+ ++ A P +++ALA+A+ +GG + +G+ F + R +R+ + Sbjct: 138 -VISYLITTRLAMPVVLVALAMASLVGGSLKVVIVLLGLLLWDRFAVVTRSATQQLRDAE 196 Query: 187 YVMAARSVGAGHIRIMWRYVLPNAMAPLVIQATFAMGSAIIAEAGLSYLGLGARAEDPSW 246 ++ AA+++GA I+ R +LPN M L++ T M AI+ EA LS+LGLG + PSW Sbjct: 197 FIAAAKAIGASTPYILLREILPNIMGALIVVVTLEMAHAILLEATLSFLGLGVQPPTPSW 256 Query: 247 GSMLHIAQGYLNTNPTLALWPGVAIFAVVLGFNLLGDGIREVFDPK 292 G M+ + Y+ P + + PGVA+ +VL NL+GDG+R+V P Sbjct: 257 GLMVAEGKTYMFFKPWVIVIPGVALALLVLAINLVGDGLRDVNAPD 302 >gi|300310894|ref|YP_003774986.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 320 Score = 148 bits (374), Expect = 4e-37, Method: Compositional matrix adjust. Identities = 100/283 (35%), Positives = 161/283 (56%), Gaps = 15/283 (5%) Query: 22 LRRFAGNRLAVLGAAIILLLVLIAIFAPLLATHDP-------IFDQDY--GNLLAGPDTT 72 +R F +R A+LG I+LLL++ AI AP + +P + D G L T Sbjct: 38 MRHFVASRSAMLGLVIVLLLIVGAIAAPWITPQNPYDLMQLDVLDARLHPGTLNGAGTYT 97 Query: 73 HWMGTDDLGRDIFSRMLYGARISLQAAMIAVGLAFCVGVPVGIASGYFRGFWDEWVVMRI 132 +W+GTD GRD+ S +LYG RIS+ + + +A +G +G+ + Y G D ++MR Sbjct: 98 YWLGTDGQGRDLVSAILYGLRISVGIGVGSALIAGVIGTLIGLLAAYAGGKLDT-LLMRF 156 Query: 133 VDALQAFPPLILALALAAALGGGFYNAMAAVGIGFAPAFIRLARGQAMSIRNLDYVMAAR 192 D + +FP +++A+ + A +G G +N MA + + + R ARGQA+ R +YV AAR Sbjct: 157 ADLVLSFPSILVAMLILAYVGKGIFNVMATLVVLEWAYYARTARGQALVERRKEYVEAAR 216 Query: 193 SVGAGHIRIMWRYVLPNAMAPLVIQATFAMGSAIIAEAGLSYLGLGARAEDPSWGSMLHI 252 + RIM R++LPN + PL++ T + AI EA LS+LGLG +PS G L I Sbjct: 217 GLNLSSWRIMVRHILPNCLPPLIVIGTLQVARAITLEATLSFLGLGVPITEPSLG--LLI 274 Query: 253 AQGY---LNTNPTLALWPGVAIFAVVLGFNLLGDGIREVFDPK 292 + GY L+ ++ +PG+ + V++ NL+GD +R++ +P+ Sbjct: 275 SNGYQYMLSGEYWISFYPGITLLVVIVAINLVGDRLRDILNPR 317 >gi|300312717|ref|YP_003776809.1| ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 348 Score = 105 bits (262), Expect = 5e-24, Method: Compositional matrix adjust. Identities = 69/206 (33%), Positives = 106/206 (51%), Gaps = 6/206 (2%) Query: 67 AGPDTTHWMGTDDLGRDIFSRMLYGARISLQAAMIAVGLAFCVGVPVGIASGYFRGFWDE 126 A P + +W+GTDD GRD+F+R+LYG R+S+ M + +GV G GYF G D Sbjct: 122 AAPSSENWLGTDDRGRDVFARLLYGFRVSVLFGMALTFIGVVLGVAAGAVQGYFAGRTDL 181 Query: 127 WVVMRIVDALQAFPPLILALALAAALGGGFYNAMAAVGIGFAPAFIRLARGQAMSIRNLD 186 R+++ + P L L + ++ + + + + R + RNL+ Sbjct: 182 -FTQRLLEIWGSMPELYLLIIFSSIFQPSLGLLLVLLSLFGWMSLSDYVRADFLRNRNLE 240 Query: 187 YVMAARSVGAGHIRIMWRYVLPNAMAPLVIQATFAMGSAIIAEAGLSYLGLGARAEDPSW 246 Y+ AAR++G I+WR+VLPN+M +V F M +AI+A L +LGLG PS Sbjct: 241 YIQAARAMGLPDRLIIWRHVLPNSMTTVVTFLPFRMSAAILALTSLDFLGLGVPPSTPSL 300 Query: 247 GSMLHIAQGYLNTNPTLALWPGVAIF 272 G +L AQG N + A W ++ F Sbjct: 301 GELL--AQGKNNLD---AWWIALSTF 321 >gi|300310465|ref|YP_003774557.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 293 Score = 103 bits (258), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 81/262 (30%), Positives = 136/262 (51%), Gaps = 6/262 (2%) Query: 28 NRLAVLGAAIILLLVLIAIFAPLLATHDP--IFDQDYGNLLAGPDTTHWMGTDDLGRDIF 85 + +A +G AI+ +L+AI P ++ +D I D D + +G +G+D LGRD+ Sbjct: 30 STMAWIGMAIVGFWILMAILGPSISPYDATAIVDTD---VFSGMSHKFLLGSDYLGRDML 86 Query: 86 SRMLYGARISLQAAMIAVGLAFCVGVPVGIASGYFRGFWDEWVVMRIVDALQAFPPLILA 145 SR+L+G R ++ A+ A LA G + + + F G W + V+ R +DAL + P + A Sbjct: 87 SRILFGTRATIGLALAATVLASATGTAIALFAA-FSGGWRDAVISRALDALISIPSKMFA 145 Query: 146 LALAAALGGGFYNAMAAVGIGFAPAFIRLARGQAMSIRNLDYVMAARSVGAGHIRIMWRY 205 L + A G + I + P R+AR A++++ ++YV AAR+ G G IM Sbjct: 146 LMMVATFGSSMLLLVLTAAITYMPGAYRIARSLAVNVQAMEYVQAARARGEGVWYIMTVE 205 Query: 206 VLPNAMAPLVIQATFAMGSAIIAEAGLSYLGLGARAEDPSWGSMLHIAQGYLNTNPTLAL 265 +LPN + P++ ++ +GLS+L LG + D WGS++ L + Sbjct: 206 MLPNMIRPVLADFGLRFVYVVLLLSGLSFLSLGVQPPDADWGSLVRENISGLGEGALAVI 265 Query: 266 WPGVAIFAVVLGFNLLGDGIRE 287 P +AI ++ +G NLL D +R Sbjct: 266 MPALAIASLTIGVNLLIDNLRS 287 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 0.328 0.143 0.442 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: 893,077 Number of extensions: 34905 Number of successful extensions: 223 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 217 Number of HSP's successfully gapped: 7 Length of query: 295 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 210 Effective length of database: 1,217,395 Effective search space: 255652950 Effective search space used: 255652950 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: 130 (54.7 bits)