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= 0001.3050.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 ... 512 e-146 gi|300313088|ref|YP_003777180.1| sn-glycerol-3-phosphate ABC tra... 139 2e-34 gi|300309613|ref|YP_003773705.1| sugar ABC transporter permease ... 138 7e-34 gi|300313833|ref|YP_003777925.1| sugar ABC transporter permease ... 115 5e-27 gi|300312636|ref|YP_003776728.1| sugar ABC transporter permease ... 105 3e-24 >gi|300312388|ref|YP_003776480.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 291 Score = 512 bits (1318), Expect = e-146, Method: Compositional matrix adjust. Identities = 283/291 (97%), Positives = 286/291 (98%) Query: 1 MKRLPSSVIPWLLLSPAMVLLFAFTHYPALATLWHSFLSTPKGTRPSVFVGLENYRLMVD 60 MKRLPSSV+PWLLLSPAMVLL AFTHYPALATLWHSF STPKG RPSVFVGLENYRLM D Sbjct: 1 MKRLPSSVLPWLLLSPAMVLLIAFTHYPALATLWHSFFSTPKGVRPSVFVGLENYRLMAD 60 Query: 61 DPVFWQALCNNLWFALGTIPLAIALAILMALWVNEKLAGRGLLRLAYFTPTVLPMIAVAN 120 DPVFWQALCNNLWFALGTIPLAIALAILMALWVNEKLAGRG+LRLAYFTPTVLPMIAVAN Sbjct: 61 DPVFWQALCNNLWFALGTIPLAIALAILMALWVNEKLAGRGVLRLAYFTPTVLPMIAVAN 120 Query: 121 IWLFFYTPQYGLLEQITGALGLPSHNWLGNPDTVLGALMVVAVWKEAGFFMIFYLAALQQ 180 IWLFFYTPQYGLLEQITGALGLPSHNWLGNP TVLGALMVVAVWKEAGFFMIFYLAALQQ Sbjct: 121 IWLFFYTPQYGLLEQITGALGLPSHNWLGNPQTVLGALMVVAVWKEAGFFMIFYLAALQQ 180 Query: 181 ISPVLAEAAALEGASRWQYFWRVQFPLLMPTTLFVLINALINAFRLVDHIVVMTKGGPDN 240 ISPVLAEAAALEGASRWQYFWRVQFPLLMPTTLFVLINALINAFRLVDHIVVMTKGGPDN Sbjct: 181 ISPVLAEAAALEGASRWQYFWRVQFPLLMPTTLFVLINALINAFRLVDHIVVMTKGGPDN 240 Query: 241 ASALLLYYIYEVGFAFWDSSYAAALTVVLLALLGLIALVKFRVLDRRTHYQ 291 AS+LLLYYIYEVGFAFWDSSYAAALTVVLLALLGLIALVKFRVLDRRTHYQ Sbjct: 241 ASSLLLYYIYEVGFAFWDSSYAAALTVVLLALLGLIALVKFRVLDRRTHYQ 291 >gi|300313088|ref|YP_003777180.1| sn-glycerol-3-phosphate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 294 Score = 139 bits (351), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 84/291 (28%), Positives = 159/291 (54%), Gaps = 6/291 (2%) Query: 3 RLPSSVIPWLLLSPAMVLLFAFTHYPALATLWHSFLSTPKGTRPSVFVGLENYRLMVDDP 62 R S +P+LL++P +++ F +PA+ L+ S L S FV +N++ + DP Sbjct: 6 RFTSKWLPYLLVAPQIIITLLFFFWPAVQALYQSMLLQDAFGGYSEFVWFDNFKTLFGDP 65 Query: 63 VFWQALCNNLWFALGTIPLAIALAILMALWVNEKLAGRGLLRLAYFTPTVLPMIAVANIW 122 + ++ F+ +AL++L+A++ + G + + P + + V +W Sbjct: 66 TYLESFRTTAIFSALVAFFGLALSLLLAVFADRVRRGASIYKTFLIWPYAVSPVVVGVLW 125 Query: 123 LFFYTPQYGLLEQITGALGLPSHNWLGNPDTVLGALMVVAVWKEAGFFMIFYLAALQQIS 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 NASALLLYYIYEVGFAFWDSSYAAALTVVLLALLGLIALVKFRVLDRRTHY 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 = 138 bits (347), Expect = 7e-34, Method: Compositional matrix adjust. Identities = 93/274 (33%), Positives = 144/274 (52%), Gaps = 8/274 (2%) Query: 14 LSPAMVLLFAFTHYPALATLWHSFLSTPKGTRPSVFVGLENYRLMVDDPVFWQALCNN-L 72 L+PA V+ + YP L T++ SF S T P FVGL NY + P F+ AL NN L Sbjct: 42 LAPACVMTLVYVLYPILYTIYLSFFSWDGMTEPR-FVGLANYVELFHAPTFYTALKNNVL 100 Query: 73 WFALGTIPLAIALAILMALWVNEKLAGRGLLRLAYFTPTVLPMIAVANIWLFFYTPQYGL 132 W + + + LAI AL++N+K+ G +++ +F P VL + V ++ +FY P +GL Sbjct: 101 WLLMFLLAPPMGLAI--ALYLNQKVIGMRVVKSLFFAPFVLSGVVVGLMYSWFYDPSFGL 158 Query: 133 LEQITGALGLPSHNWLGNPDTVLGALMVVAVWKEAGFFMIFYLAALQQISPVLAEAAALE 192 L + G G+P LG+ ++ A+W + + MI +L L ++ EAA +E Sbjct: 159 LSLLFGQ-GVPV---LGDARYATFGIIFAALWPQTAYCMILFLTGLTALNHDQVEAARME 214 Query: 193 GASRWQYFWRVQFPLLMPTTLFVLINALINAFRLVDHIVVMTKGGPDNASALLLYYIYEV 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 = 115 bits (287), Expect = 5e-27, Method: Compositional matrix adjust. Identities = 97/295 (32%), Positives = 147/295 (49%), Gaps = 19/295 (6%) Query: 12 LLLSPAMVLLFAFTHYPALATLWHSFLS-TPKGTRPSVFVGLENYRLMVDDP----VFWQ 66 +LL+PA+++ F+ P L TL F + G R FVGL+NYR ++ DP FW Sbjct: 11 VLLAPAVLIYALFSALPLLDTLRLGFYTANDAGVRS--FVGLDNYRTILFDPDWSAAFWN 68 Query: 67 ALCNNLWFALGTIPLAIALAILMA-LWVNEKLAGRGLLRLAYFTPTVLPMIAVANIWLFF 125 A+ NN+ F + L + +L+A L+ + L G R F PT+L ++ + IW Sbjct: 69 AMWNNVKFFCIHMALQNPIGLLLATLFSLKGLRGARTYRTLIFLPTLLSVVIIGFIWQLI 128 Query: 126 YTPQYGLLEQITGALGLPS--HNWLGNPDTVLGALMVVAVWKEAGFFMIFYLAALQQISP 183 +P +G+ E++ G +GL WLG T L L +++VW+ G M+ AAL + Sbjct: 129 LSPLWGVGEKLLGTVGLADWFAPWLGQESTALLTLSLISVWQYVGIPMMLIYAALLAVPE 188 Query: 184 VLAEAAALEGASRWQYFWRVQFPLLMPTTLFVLINALINAFRLVDHIVVMTKG---GPDN 240 + EAA EGAS + FW+++ PL+ PT V I + F D ++ KG GP+ Sbjct: 189 EVLEAAHAEGASAMRIFWQIKLPLIYPTLGLVTILTFVANFNAFD-LIYSVKGALAGPNY 247 Query: 241 ASALLLYYIYEVGFAFWD-----SSYAAALTVVLLALLGLIALVKFRVLDRRTHY 290 AS LL Y Y F + + AA T++ L +LG + V R T Y Sbjct: 248 ASDLLGTYFYRTFFGYQAQIGSPTMGAAVATLMFLVILGGVGAYFVLVQRRLTRY 302 >gi|300312636|ref|YP_003776728.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 299 Score = 105 bits (263), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 81/287 (28%), Positives = 136/287 (47%), Gaps = 3/287 (1%) Query: 7 SVIPWLLLSPAMVLLFAFTHYPALATLWHSFLSTPKGTRPSVFVGLENYRLMVDDPVFWQ 66 +V+ L ++PA++LL F YP +W F T G S F+GL+N+ + D + Sbjct: 10 NVLGMLFMAPAVILLVVFLTYPLGLGIWLGFTDTKIGGEGS-FIGLDNFTYLAGDSLAQL 68 Query: 67 ALCNNLWFALGTIPLAIALAILMALWVNEKLAGRGLLRLAYFTPTVLPMIAVANIWLFFY 126 +L N +++ + L L + +A+ +N+ + + R P ++P A + + Y Sbjct: 69 SLFNTVFYTVSASILKFMLGLWLAILLNKNVPLKTFFRAIVLLPWIVPTALSALAFWWLY 128 Query: 127 TPQYGLLEQITGALGLPSH--NWLGNPDTVLGALMVVAVWKEAGFFMIFYLAALQQISPV 184 Q+ ++ +GL ++LG+P + + VW+ F I LA LQ ISP Sbjct: 129 DAQFSVISWALHKMGLIDRYIDFLGDPWNARWSTVFANVWRGIPFVAISLLAGLQTISPS 188 Query: 185 LAEAAALEGASRWQYFWRVQFPLLMPTTLFVLINALINAFRLVDHIVVMTKGGPDNASAL 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 0.142 0.457 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: 878,798 Number of extensions: 35215 Number of successful extensions: 211 Number of sequences better than 1.0e-08: 10 Number of HSP's gapped: 194 Number of HSP's successfully gapped: 10 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)