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= 0004.0109.p (291 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312388|ref|YP_003776480.1| sugar ABC transporter permease ... 574 e-165 gi|300313088|ref|YP_003777180.1| sn-glycerol-3-phosphate ABC tra... 142 5e-35 gi|300309613|ref|YP_003773705.1| sugar ABC transporter permease ... 139 2e-34 gi|300313833|ref|YP_003777925.1| sugar ABC transporter permease ... 119 4e-28 gi|300312636|ref|YP_003776728.1| sugar ABC transporter permease ... 111 8e-26 >gi|300312388|ref|YP_003776480.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 291 Score = 574 bits (1479), Expect = e-165, Method: Compositional matrix adjust. Identities = 288/291 (98%), Positives = 290/291 (99%) Query: 1 MKRLPSSVLPWLLLSPAMVLLIAFTHYPALATLWHSFFSTPKGGRPSVYVGLENYRLMAE 60 MKRLPSSVLPWLLLSPAMVLLIAFTHYPALATLWHSFFSTPKG RPSV+VGLENYRLMA+ Sbjct: 1 MKRLPSSVLPWLLLSPAMVLLIAFTHYPALATLWHSFFSTPKGVRPSVFVGLENYRLMAD 60 Query: 61 DPVFWQALCNNLWFALGTIPLAIALAILMALWVNEKLAGRGVLRLAYFTPTVLPMIAVAN 120 DPVFWQALCNNLWFALGTIPLAIALAILMALWVNEKLAGRGVLRLAYFTPTVLPMIAVAN Sbjct: 61 DPVFWQALCNNLWFALGTIPLAIALAILMALWVNEKLAGRGVLRLAYFTPTVLPMIAVAN 120 Query: 121 IWLFFYTPQYGLLEQITGALGLPSHNWLGNPQTVLGALMVVAVWKEAGFFMIFYLAALQQ 180 IWLFFYTPQYGLLEQITGALGLPSHNWLGNPQTVLGALMVVAVWKEAGFFMIFYLAALQQ Sbjct: 121 IWLFFYTPQYGLLEQITGALGLPSHNWLGNPQTVLGALMVVAVWKEAGFFMIFYLAALQQ 180 Query: 181 ISPVLAEAAALEGASRWQYFWRVQFPLLMPTTLFVLINALINAFRLVDHIVVMTKGGPDN 240 ISPVLAEAAALEGASRWQYFWRVQFPLLMPTTLFVLINALINAFRLVDHIVVMTKGGPDN Sbjct: 181 ISPVLAEAAALEGASRWQYFWRVQFPLLMPTTLFVLINALINAFRLVDHIVVMTKGGPDN 240 Query: 241 ASSLLLYYIYEVGFAFWDSSYAAALTVVLLALLGLIALVKFRVLDRRTHYQ 291 ASSLLLYYIYEVGFAFWDSSYAAALTVVLLALLGLIALVKFRVLDRRTHYQ Sbjct: 241 ASSLLLYYIYEVGFAFWDSSYAAALTVVLLALLGLIALVKFRVLDRRTHYQ 291 >gi|300313088|ref|YP_003777180.1| sn-glycerol-3-phosphate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 294 Score = 142 bits (357), Expect = 5e-35, Method: Compositional matrix adjust. Identities = 84/291 (28%), Positives = 160/291 (54%), Gaps = 6/291 (2%) Query: 3 RLPSSVLPWLLLSPAMVLLIAFTHYPALATLWHSFFSTPKGGRPSVYVGLENYRLMAEDP 62 R S LP+LL++P +++ + F +PA+ L+ S G S +V +N++ + DP Sbjct: 6 RFTSKWLPYLLVAPQIIITLLFFFWPAVQALYQSMLLQDAFGGYSEFVWFDNFKTLFGDP 65 Query: 63 VFWQALCNNLWFALGTIPLAIALAILMALWVNEKLAGRGVLRLAYFTPTVLPMIAVANIW 122 + ++ F+ +AL++L+A++ + G + + P + + V +W Sbjct: 66 TYLESFRTTAIFSALVAFFGLALSLLLAVFADRVRRGASIYKTFLIWPYAVSPVVVGVLW 125 Query: 123 LFFYTPQYGLLEQITGALGLPSHNWLGNPQTVLGALMVVAVWKEAGFFMIFYLAALQQIS 182 +F +P G+L + LGLP +++ N + +++ A+WK+ + +F+LA LQ I Sbjct: 126 MFLLSPSLGILSHVLSWLGLP-WDYMINGTHAMILIVIAAIWKQISYNFLFFLAGLQSIP 184 Query: 183 PVLAEAAALEGASRWQYFWRVQFPLLMPTTLFVLINALINAFRLVDHIVVM---TKGGPD 239 L EAAA++GA + F+ + FPL+ PTT F+ + ++ AF D V++ T GGP Sbjct: 185 KSLIEAAAIDGAGPVKRFFTIVFPLISPTTFFLFVVNVVYAF--FDTFVIVDATTHGGPG 242 Query: 240 NASSLLLYYIYEVGFAFWDSSYAAALTVVLLALLGLIALVKFRVLDRRTHY 290 + +L+Y ++ GF D +AA +VVL+AL+ L+ +V+F+ ++++ Y Sbjct: 243 KDTEILVYKVFSDGFKGGDLGGSAAQSVVLMALVILLTVVQFKYVEKKVQY 293 >gi|300309613|ref|YP_003773705.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 311 Score = 139 bits (351), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 93/274 (33%), Positives = 147/274 (53%), Gaps = 8/274 (2%) Query: 14 LSPAMVLLIAFTHYPALATLWHSFFSTPKGGRPSVYVGLENYRLMAEDPVFWQALCNN-L 72 L+PA V+ + + YP L T++ SFFS P +VGL NY + P F+ AL NN L Sbjct: 42 LAPACVMTLVYVLYPILYTIYLSFFSWDGMTEPR-FVGLANYVELFHAPTFYTALKNNVL 100 Query: 73 WFALGTIPLAIALAILMALWVNEKLAGRGVLRLAYFTPTVLPMIAVANIWLFFYTPQYGL 132 W + + + LAI AL++N+K+ G V++ +F P VL + V ++ +FY P +GL Sbjct: 101 WLLMFLLAPPMGLAI--ALYLNQKVIGMRVVKSLFFAPFVLSGVVVGLMYSWFYDPSFGL 158 Query: 133 LEQITGALGLPSHNWLGNPQTVLGALMVVAVWKEAGFFMIFYLAALQQISPVLAEAAALE 192 L + G G+P LG+ + ++ A+W + + MI +L L ++ EAA +E Sbjct: 159 LSLLFGQ-GVPV---LGDARYATFGIIFAALWPQTAYCMILFLTGLTALNHDQVEAARME 214 Query: 193 GASRWQYFWRVQFPLLMPTTLFVLINALINAFRLVDHIVVMTKGGPDNASSLLLYYIYEV 252 GA W V P L TT + ++I A R D I VMT GGP +S++L YY Y+ Sbjct: 215 GAKGWTMLRYVILPQLRSTTFMAFVVSIIGALRSFDLISVMTSGGPYESSTVLAYYAYDQ 274 Query: 253 GFAFWDSSYAAALTVVLLALLGLIALVKFRVLDR 286 ++ Y+AA+ V L A++ + + + R + R Sbjct: 275 AIKYYRQGYSAAVAVTLFAIMLVYIVYQLRRMLR 308 >gi|300313833|ref|YP_003777925.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 304 Score = 119 bits (297), Expect = 4e-28, Method: Compositional matrix adjust. Identities = 96/294 (32%), Positives = 147/294 (50%), Gaps = 17/294 (5%) Query: 12 LLLSPAMVLLIAFTHYPALATLWHSFFSTPKGGRPSVYVGLENYRLMAEDP----VFWQA 67 +LL+PA+++ F+ P L TL F++ G S +VGL+NYR + DP FW A Sbjct: 11 VLLAPAVLIYALFSALPLLDTLRLGFYTANDAGVRS-FVGLDNYRTILFDPDWSAAFWNA 69 Query: 68 LCNNLWFALGTIPLAIALAILMA-LWVNEKLAGRGVLRLAYFTPTVLPMIAVANIWLFFY 126 + NN+ F + L + +L+A L+ + L G R F PT+L ++ + IW Sbjct: 70 MWNNVKFFCIHMALQNPIGLLLATLFSLKGLRGARTYRTLIFLPTLLSVVIIGFIWQLIL 129 Query: 127 TPQYGLLEQITGALGLPS--HNWLGNPQTVLGALMVVAVWKEAGFFMIFYLAALQQISPV 184 +P +G+ E++ G +GL WLG T L L +++VW+ G M+ AAL + Sbjct: 130 SPLWGVGEKLLGTVGLADWFAPWLGQESTALLTLSLISVWQYVGIPMMLIYAALLAVPEE 189 Query: 185 LAEAAALEGASRWQYFWRVQFPLLMPTTLFVLINALINAFRLVDHIVVMTKG---GPDNA 241 + EAA EGAS + FW+++ PL+ PT V I + F D ++ KG GP+ A Sbjct: 190 VLEAAHAEGASAMRIFWQIKLPLIYPTLGLVTILTFVANFNAFD-LIYSVKGALAGPNYA 248 Query: 242 SSLLLYYIYEVGFAFWD-----SSYAAALTVVLLALLGLIALVKFRVLDRRTHY 290 S LL Y Y F + + AA T++ L +LG + V R T Y Sbjct: 249 SDLLGTYFYRTFFGYQAQIGSPTMGAAVATLMFLVILGGVGAYFVLVQRRLTRY 302 >gi|300312636|ref|YP_003776728.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 299 Score = 111 bits (277), Expect = 8e-26, Method: Compositional matrix adjust. Identities = 83/287 (28%), Positives = 139/287 (48%), Gaps = 3/287 (1%) Query: 7 SVLPWLLLSPAMVLLIAFTHYPALATLWHSFFSTPKGGRPSVYVGLENYRLMAEDPVFWQ 66 +VL L ++PA++LL+ F YP +W F T GG S ++GL+N+ +A D + Sbjct: 10 NVLGMLFMAPAVILLVVFLTYPLGLGIWLGFTDTKIGGEGS-FIGLDNFTYLAGDSLAQL 68 Query: 67 ALCNNLWFALGTIPLAIALAILMALWVNEKLAGRGVLRLAYFTPTVLPMIAVANIWLFFY 126 +L N +++ + L L + +A+ +N+ + + R P ++P A + + Y Sbjct: 69 SLFNTVFYTVSASILKFMLGLWLAILLNKNVPLKTFFRAIVLLPWIVPTALSALAFWWLY 128 Query: 127 TPQYGLLEQITGALGLPSH--NWLGNPQTVLGALMVVAVWKEAGFFMIFYLAALQQISPV 184 Q+ ++ +GL ++LG+P + + VW+ F I LA LQ ISP Sbjct: 129 DAQFSVISWALHKMGLIDRYIDFLGDPWNARWSTVFANVWRGIPFVAISLLAGLQTISPS 188 Query: 185 LAEAAALEGASRWQYFWRVQFPLLMPTTLFVLINALINAFRLVDHIVVMTKGGPDNASSL 244 L EAAA++GA+ WQ F V PLL P V+ +++ F I V+T+GGP NA+ L Sbjct: 189 LYEAAAIDGATPWQQFRHVTLPLLTPIIAVVMTFSVLFTFTDFQLIYVLTRGGPLNATHL 248 Query: 245 LLYYIYEVGFAFWDSSYAAALTVVLLALLGLIALVKFRVLDRRTHYQ 291 + ++ AAL ++ L + + L RR Q Sbjct: 249 MATLSFQRAIPGGALGEGAALATYMIPFLLAAIMFSYFGLQRRGWQQ 295 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 0.329 0.141 0.454 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: 819,652 Number of extensions: 32336 Number of successful extensions: 189 Number of sequences better than 1.0e-08: 11 Number of HSP's gapped: 173 Number of HSP's successfully gapped: 11 Length of query: 291 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 207 Effective length of database: 1,222,130 Effective search space: 252980910 Effective search space used: 252980910 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)