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= 0017.0008.p (292 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312691|ref|YP_003776783.1| sugar ABC transporter permease ... 580 e-167 gi|300310302|ref|YP_003774394.1| sugar ABC transporter permease ... 99 4e-22 gi|300309613|ref|YP_003773705.1| sugar ABC transporter permease ... 94 1e-20 gi|300312388|ref|YP_003776480.1| sugar ABC transporter permease ... 91 7e-20 gi|300309782|ref|YP_003773874.1| sugar ABC transporter permease ... 90 2e-19 >gi|300312691|ref|YP_003776783.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 292 Score = 580 bits (1494), Expect = e-167, Method: Compositional matrix adjust. Identities = 291/292 (99%), Positives = 292/292 (100%) Query: 1 MFNRGKTSLPYLFLGPSLLVMLVLGLVPTVAAINLALKNRVLRYPDSDYVWLRNLERLMS 60 MFNRGKTSLPYLFLGPSLLVMLVLGLVPTVAAINLALKNRVLRYPDSDYVWLRNLERLMS Sbjct: 1 MFNRGKTSLPYLFLGPSLLVMLVLGLVPTVAAINLALKNRVLRYPDSDYVWLRNLERLMS 60 Query: 61 DRRFLNAIEVSAVWEVVTVLGAVMVGIAIAVYLFENVHGKWRQAMCVLLITPVLLPRVSA 120 DRRFLNAIEVSAVWEVVTVLGAV+VGIAIAVYLFENVHGKWRQAMCVLLITPVLLPRVSA Sbjct: 61 DRRFLNAIEVSAVWEVVTVLGAVIVGIAIAVYLFENVHGKWRQAMCVLLITPVLLPRVSA 120 Query: 121 AFIWKFMYSPLTGILGWLLGLVGIHDTAFLSDPALALYAVALVDIWQWGLFFAVIVLKLL 180 AFIWKFMYSPLTGILGWLLGLVGIHDTAFLSDPALALYAVALVDIWQWGLFFAVIVLKLL Sbjct: 121 AFIWKFMYSPLTGILGWLLGLVGIHDTAFLSDPALALYAVALVDIWQWGLFFAVIVLKLL 180 Query: 181 ETLPPEPLEAARLDYARTWQVYAYIALPMLKGPLISLVFIKMVESLRSFDLIYVMTKGGP 240 ETLPPEPLEAARLDYARTWQVYAYIALPMLKGPLISLVFIKMVESLRSFDLIYVMTKGGP Sbjct: 181 ETLPPEPLEAARLDYARTWQVYAYIALPMLKGPLISLVFIKMVESLRSFDLIYVMTKGGP 240 Query: 241 GVATETLDMYAYAQGIGLSGKVSYASTMAVLMMIATTLIFTLIWKRVSKWED 292 GVATETLDMYAYAQGIGLSGKVSYASTMAVLMMIATTLIFTLIWKRVSKWED Sbjct: 241 GVATETLDMYAYAQGIGLSGKVSYASTMAVLMMIATTLIFTLIWKRVSKWED 292 >gi|300310302|ref|YP_003774394.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 296 Score = 99.0 bits (245), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 67/256 (26%), Positives = 127/256 (49%), Gaps = 6/256 (2%) Query: 3 NRGKTSLPYLFLGPSLLVMLVLGLVPTVAAINLALKNRVLRYPDSDYVWLRNLERLMSDR 62 N+ + + F+ P L + ++P + +N ++++ ++ +V L +M D Sbjct: 2 NKPYNNKAWFFILPVFLTVAFSAIIPLMTVVNYSVQD-IISPEQKVFVGLDWFREVMRDG 60 Query: 63 RFLNAIEVSAVWEVVTVLGAVMVGIAIAVYLFENVHGKWRQ-AMCVLLITPVLLPRVSAA 121 A+ ++ +L + +GI +A+ + H W+ A V+L P+L+P Sbjct: 61 ELHAALLRQLIFSFCVLLVQIPLGIGLALAM---PHKGWKSSATLVILAMPLLIPWNVVG 117 Query: 122 FIWKFMYSPLTGILGWLLGLVGIHDTAFLSDPALALYAVALVDIWQWGLFFAVIVLKLLE 181 IW+ G+ G++L L+GI D + S+P A V L+D+W W A++ L Sbjct: 118 TIWQIFGRADIGLGGYVLNLLGI-DYNYASNPLDAWLTVLLMDVWHWTPLVALLAFAGLR 176 Query: 182 TLPPEPLEAARLDYARTWQVYAYIALPMLKGPLISLVFIKMVESLRSFDLIYVMTKGGPG 241 ++P +AA++D A W V+ YI LP ++G L+ V ++ ++S + +V+T GGPG Sbjct: 177 SIPDAYYQAAQIDGASRWAVFRYIQLPKMRGVLVIAVLLRFMDSFMIYTEPFVLTGGGPG 236 Query: 242 VATETLDMYAYAQGIG 257 +T L Y + +G Sbjct: 237 NSTTFLSQYLTQKAVG 252 >gi|300309613|ref|YP_003773705.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 311 Score = 94.0 bits (232), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 75/258 (29%), Positives = 124/258 (48%), Gaps = 9/258 (3%) Query: 13 FLGPSLLVMLVLGLVPTVAAINLALKNRVLRYPDSDYVWLRNLERLMSDRRFLNAIEVSA 72 FL P+ ++ LV L P + I L+ + + +V L N L F A++ + Sbjct: 41 FLAPACVMTLVYVLYPILYTIYLSFFSWD-GMTEPRFVGLANYVELFHAPTFYTALKNNV 99 Query: 73 VWEVVTVLGAVMVGIAIAVYLFENVHGKWRQAMCVLLITPVLLPRVSAAFIWKFMYSPLT 132 +W ++ +L M G+AIA+YL + V G + + L P +L V ++ + Y P Sbjct: 100 LWLLMFLLAPPM-GLAIALYLNQKVIGM--RVVKSLFFAPFVLSGVVVGLMYSWFYDPSF 156 Query: 133 GILGWLLGLVGIHDTAFLSDPALALYAVALVDIWQWGLFFAVIVLKLLETLPPEPLEAAR 192 G+L L G L D A + + +W + ++ L L L + +EAAR Sbjct: 157 GLLSLLFG----QGVPVLGDARYATFGIIFAALWPQTAYCMILFLTGLTALNHDQVEAAR 212 Query: 193 LDYARTWQVYAYIALPMLKGPLISLVFIKMVESLRSFDLIYVMTKGGPGVATETLDMYAY 252 ++ A+ W + Y+ LP L+ + ++ +LRSFDLI VMT GGP ++ L YAY Sbjct: 213 MEGAKGWTMLRYVILPQLRSTTFMAFVVSIIGALRSFDLISVMTSGGPYESSTVLAYYAY 272 Query: 253 AQGIGLSGKVSYASTMAV 270 Q I + Y++ +AV Sbjct: 273 DQAIKYY-RQGYSAAVAV 289 >gi|300312388|ref|YP_003776480.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 291 Score = 91.3 bits (225), Expect = 7e-20, Method: Compositional matrix adjust. Identities = 70/253 (27%), Positives = 126/253 (49%), Gaps = 2/253 (0%) Query: 6 KTSLPYLFLGPSLLVMLVLGLVPTVAAINLALKNRVLRYPDSDYVWLRNLERLMSDRRFL 65 + LP+L L P++++++ P +A + + + S +V L N + D F Sbjct: 6 SSVLPWLLLSPAMVLLIAFTHYPALATLWHSFFSTPKGVRPSVFVGLENYRLMADDPVFW 65 Query: 66 NAIEVSAVWEVVTVLGAVMVGIAIAVYLFENVHGKWRQAMCVLLITPVLLPRVSAAFIWK 125 A+ + + + T+ A+ + I +A+++ E + G R + + TP +LP ++ A IW Sbjct: 66 QALCNNLWFALGTIPLAIALAILMALWVNEKLAG--RGVLRLAYFTPTVLPMIAVANIWL 123 Query: 126 FMYSPLTGILGWLLGLVGIHDTAFLSDPALALYAVALVDIWQWGLFFAVIVLKLLETLPP 185 F Y+P G+L + G +G+ +L +P L A+ +V +W+ FF + L L+ + P Sbjct: 124 FFYTPQYGLLEQITGALGLPSHNWLGNPQTVLGALMVVAVWKEAGFFMIFYLAALQQISP 183 Query: 186 EPLEAARLDYARTWQVYAYIALPMLKGPLISLVFIKMVESLRSFDLIYVMTKGGPGVATE 245 EAA L+ A WQ + + P+L + ++ ++ + R D I VMTKGGP A+ Sbjct: 184 VLAEAAALEGASRWQYFWRVQFPLLMPTTLFVLINALINAFRLVDHIVVMTKGGPDNASS 243 Query: 246 TLDMYAYAQGIGL 258 L Y Y G Sbjct: 244 LLLYYIYEVGFAF 256 >gi|300309782|ref|YP_003773874.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 324 Score = 90.1 bits (222), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 74/243 (30%), Positives = 126/243 (51%), Gaps = 6/243 (2%) Query: 16 PSLLVMLVLGLVPTVAAINLALKNRVLRYPD-SDYVWLRNLERLMSDRRFLNAIEVSAVW 74 PS+L++L +VP I ++ L PD + +V L N L+ D F +I +A+ Sbjct: 46 PSVLILLAWMIVPLAMTIYFSVNRYNLMAPDQTGFVGLENYAFLLQDPAFWPSIGNTALL 105 Query: 75 EVVTVLGAVMVGIAIAVYLFENVHGKWRQAMCVLLITPVLLPRVSAAFIWKFM-YSPLTG 133 + +VL ++G + LF+ + R +L+I P + AA IWK M P+ G Sbjct: 106 -IGSVLAISVIGGTLLAVLFDQPF-RGRGIARLLVIGPFFVMPTVAALIWKNMIMHPVYG 163 Query: 134 ILGWLLGLVGIHDTAFLSDPALALYAVALVDIWQWGLFFAVIVLKLLETLPPEPLEAARL 193 IL +++ +G+ +L++ + +V ++ WQW F +I+L L++L + EAA+L Sbjct: 164 ILAYVMRHLGLEPIDWLAE--YPMLSVIIIVAWQWIPFAFLILLTALQSLDTDQKEAAQL 221 Query: 194 DYARTWQVYAYIALPMLKGPLISLVFIKMVESLRSFDLIYVMTKGGPGVATETLDMYAYA 253 D A +++ YI LP LK + ++ I+ + L F I+ T GGPG AT L Y+ Sbjct: 222 DGAGPVRIFFYIVLPHLKRAITVVIMIETIFLLSVFAEIFTTTAGGPGTATTNLTFLVYS 281 Query: 254 QGI 256 G+ Sbjct: 282 IGL 284 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 0.141 0.439 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: 804,437 Number of extensions: 27602 Number of successful extensions: 198 Number of sequences better than 1.0e-08: 9 Number of HSP's gapped: 193 Number of HSP's successfully gapped: 9 Length of query: 292 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 208 Effective length of database: 1,222,130 Effective search space: 254203040 Effective search space used: 254203040 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)