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= 0001.0256.p (307 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309613|ref|YP_003773705.1| sugar ABC transporter permease ... 535 e-153 gi|300312388|ref|YP_003776480.1| sugar ABC transporter permease ... 118 6e-28 gi|300313088|ref|YP_003777180.1| sn-glycerol-3-phosphate ABC tra... 106 3e-24 gi|300312636|ref|YP_003776728.1| sugar ABC transporter permease ... 100 1e-22 gi|300312691|ref|YP_003776783.1| sugar ABC transporter permease ... 100 2e-22 >gi|300309613|ref|YP_003773705.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 311 Score = 535 bits (1377), Expect = e-153, Method: Compositional matrix adjust. Identities = 273/287 (95%), Positives = 283/287 (98%) Query: 21 TGPQRSAARRNRAAFWFLAPACVMTLVYVLYPIFYTIYLSFFSWDGMTDPKYVGLANYIE 80 +GPQRSAARRNRAAFWFLAPACVMTLVYVLYPI YTIYLSFFSWDGMT+P++VGLANY+E Sbjct: 25 SGPQRSAARRNRAAFWFLAPACVMTLVYVLYPILYTIYLSFFSWDGMTEPRFVGLANYVE 84 Query: 81 LFHAPTFYTALKNNVLWLLMFLLAPPMGLAIALYLNQKVGGMRVVKSLFFAPFVLSGVVV 140 LFHAPTFYTALKNNVLWLLMFLLAPPMGLAIALYLNQKV GMRVVKSLFFAPFVLSGVVV Sbjct: 85 LFHAPTFYTALKNNVLWLLMFLLAPPMGLAIALYLNQKVIGMRVVKSLFFAPFVLSGVVV 144 Query: 141 GLIYSWFYDPSFGLLSLILGHGVPVLGDARYATFGIIFAALWPQTAYCMILYLTGLTALN 200 GL+YSWFYDPSFGLLSL+ G GVPVLGDARYATFGIIFAALWPQTAYCMIL+LTGLTALN Sbjct: 145 GLMYSWFYDPSFGLLSLLFGQGVPVLGDARYATFGIIFAALWPQTAYCMILFLTGLTALN 204 Query: 201 HDQVEAARMEGARGWSMLRYVILPQLRSTTFMAFVVSIIGALRSFDLISVMTSGGPYESS 260 HDQVEAARMEGA+GW+MLRYVILPQLRSTTFMAFVVSIIGALRSFDLISVMTSGGPYESS Sbjct: 205 HDQVEAARMEGAKGWTMLRYVILPQLRSTTFMAFVVSIIGALRSFDLISVMTSGGPYESS 264 Query: 261 TVLAYYAYDQAIKYYRQGYSAAVAVTLFAIMLVYIVYQLRRMLRAER 307 TVLAYYAYDQAIKYYRQGYSAAVAVTLFAIMLVYIVYQLRRMLRAER Sbjct: 265 TVLAYYAYDQAIKYYRQGYSAAVAVTLFAIMLVYIVYQLRRMLRAER 311 >gi|300312388|ref|YP_003776480.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 291 Score = 118 bits (295), Expect = 6e-28, Method: Compositional matrix adjust. Identities = 88/249 (35%), Positives = 132/249 (53%), Gaps = 8/249 (3%) Query: 38 LAPACVMTLVYVLYPIFYTIYLSFFSW-DGMTDPKYVGLANYIELFHAPTFYTALKNNVL 96 L+PA V+ + + YP T++ SFFS G+ +VGL NY + P F+ AL NN L Sbjct: 14 LSPAMVLLIAFTHYPALATLWHSFFSTPKGVRPSVFVGLENYRLMADDPVFWQALCNN-L 72 Query: 97 WLLMFLLAPPMGLAI--ALYLNQKVGGMRVVKSLFFAPFVLSGVVVGLIYSWFYDPSFGL 154 W + + + LAI AL++N+K+ G V++ +F P VL + V I+ +FY P +GL Sbjct: 73 WFALGTIPLAIALAILMALWVNEKLAGRGVLRLAYFTPTVLPMIAVANIWLFFYTPQYGL 132 Query: 155 LSLILGH-GVPV---LGDARYATFGIIFAALWPQTAYCMILYLTGLTALNHDQVEAARME 210 L I G G+P LG+ + ++ A+W + + MI YL L ++ EAA +E Sbjct: 133 LEQITGALGLPSHNWLGNPQTVLGALMVVAVWKEAGFFMIFYLAALQQISPVLAEAAALE 192 Query: 211 GARGWSMLRYVILPQLRSTTFMAFVVSIIGALRSFDLISVMTSGGPYESSTVLAYYAYDQ 270 GA W V P L TT + ++I A R D I VMT GGP +S++L YY Y+ Sbjct: 193 GASRWQYFWRVQFPLLMPTTLFVLINALINAFRLVDHIVVMTKGGPDNASSLLLYYIYEV 252 Query: 271 AIKYYRQGY 279 ++ Y Sbjct: 253 GFAFWDSSY 261 >gi|300313088|ref|YP_003777180.1| sn-glycerol-3-phosphate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 294 Score = 106 bits (264), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 73/269 (27%), Positives = 138/269 (51%), Gaps = 6/269 (2%) Query: 38 LAPACVMTLVYVLYPIFYTIYLSFFSWDGMTD-PKYVGLANYIELFHAPTFYTALKNNVL 96 +AP ++TL++ +P +Y S D ++V N+ LF PT+ + + + Sbjct: 17 VAPQIIITLLFFFWPAVQALYQSMLLQDAFGGYSEFVWFDNFKTLFGDPTYLESFRTTAI 76 Query: 97 W-LLMFLLAPPMGLAIALYLNQKVGGMRVVKSLFFAPFVLSGVVVGLIYSWFYDPSFGLL 155 + L+ + L +A++ ++ G + K+ P+ +S VVVG+++ + PS G+L Sbjct: 77 FSALVAFFGLALSLLLAVFADRVRRGASIYKTFLIWPYAVSPVVVGVLWMFLLSPSLGIL 136 Query: 156 SLILGH-GVP--VLGDARYATFGIIFAALWPQTAYCMILYLTGLTALNHDQVEAARMEGA 212 S +L G+P + + +A I+ AA+W Q +Y + +L GL ++ +EAA ++GA Sbjct: 137 SHVLSWLGLPWDYMINGTHAMILIVIAAIWKQISYNFLFFLAGLQSIPKSLIEAAAIDGA 196 Query: 213 RGWSMLRYVILPQLRSTTFMAFVVSIIGA-LRSFDLISVMTSGGPYESSTVLAYYAYDQA 271 ++ P + TTF FVV+++ A +F ++ T GGP + + +L Y + Sbjct: 197 GPVKRFFTIVFPLISPTTFFLFVVNVVYAFFDTFVIVDATTHGGPGKDTEILVYKVFSDG 256 Query: 272 IKYYRQGYSAAVAVTLFAIMLVYIVYQLR 300 K G SAA +V L A++++ V Q + Sbjct: 257 FKGGDLGGSAAQSVVLMALVILLTVVQFK 285 >gi|300312636|ref|YP_003776728.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 299 Score = 100 bits (250), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 76/286 (26%), Positives = 133/286 (46%), Gaps = 15/286 (5%) Query: 24 QRSAARRNRAAFWFLAPACVMTLVYVLYPIFYTIYLSFFSWDGMTDPKYVGLANYIELFH 83 R RN F+APA ++ +V++ YP+ I+L F + ++GL N+ L Sbjct: 3 SRFLNNRNVLGMLFMAPAVILLVVFLTYPLGLGIWLGFTDTKIGGEGSFIGLDNFTYLAG 62 Query: 84 APTFYTALKNNVLW-----LLMFLLAPPMGLAIALYLNQKVGGMRVVKSLFFAPFVLSGV 138 +L N V + +L F+L GL +A+ LN+ V +++ P+++ Sbjct: 63 DSLAQLSLFNTVFYTVSASILKFML----GLWLAILLNKNVPLKTFFRAIVLLPWIVPTA 118 Query: 139 VVGLIYSWFYDPSFGLLSL------ILGHGVPVLGDARYATFGIIFAALWPQTAYCMILY 192 + L + W YD F ++S ++ + LGD A + +FA +W + I Sbjct: 119 LSALAFWWLYDAQFSVISWALHKMGLIDRYIDFLGDPWNARWSTVFANVWRGIPFVAISL 178 Query: 193 LTGLTALNHDQVEAARMEGARGWSMLRYVILPQLRSTTFMAFVVSIIGALRSFDLISVMT 252 L GL ++ EAA ++GA W R+V LP L + S++ F LI V+T Sbjct: 179 LAGLQTISPSLYEAAAIDGATPWQQFRHVTLPLLTPIIAVVMTFSVLFTFTDFQLIYVLT 238 Query: 253 SGGPYESSTVLAYYAYDQAIKYYRQGYSAAVAVTLFAIMLVYIVYQ 298 GGP ++ ++A ++ +AI G AA+A + +L I++ Sbjct: 239 RGGPLNATHLMATLSFQRAIPGGALGEGAALATYMIPFLLAAIMFS 284 >gi|300312691|ref|YP_003776783.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 292 Score = 99.8 bits (247), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 71/225 (31%), Positives = 112/225 (49%), Gaps = 8/225 (3%) Query: 69 DPKYVGLANYIELFHAPTFYTALKNNVLWLLMFLL-APPMGLAIALYLNQKVGGM--RVV 125 D YV L N L F A++ + +W ++ +L A +G+AIA+YL + V G + + Sbjct: 46 DSDYVWLRNLERLMSDRRFLNAIEVSAVWEVVTVLGAVIVGIAIAVYLFENVHGKWRQAM 105 Query: 126 KSLFFAPFVLSGVVVGLIYSWFYDPSFGLLSLILG----HGVPVLGDARYATFGIIFAAL 181 L P +L V I+ + Y P G+L +LG H L D A + + + Sbjct: 106 CVLLITPVLLPRVSAAFIWKFMYSPLTGILGWLLGLVGIHDTAFLSDPALALYAVALVDI 165 Query: 182 WPQTAYCMILYLTGLTALNHDQVEAARMEGARGWSMLRYVILPQLRSTTFMAFVVSIIGA 241 W + ++ L L L + +EAAR++ AR W + Y+ LP L+ + ++ + Sbjct: 166 WQWGLFFAVIVLKLLETLPPEPLEAARLDYARTWQVYAYIALPMLKGPLISLVFIKMVES 225 Query: 242 LRSFDLISVMTSGGPYESSTVLAYYAYDQAIKYY-RQGYSAAVAV 285 LRSFDLI VMT GGP ++ L YAY Q I + Y++ +AV Sbjct: 226 LRSFDLIYVMTKGGPGVATETLDMYAYAQGIGLSGKVSYASTMAV 270 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 0.140 0.437 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: 878,045 Number of extensions: 37200 Number of successful extensions: 227 Number of sequences better than 1.0e-08: 9 Number of HSP's gapped: 216 Number of HSP's successfully gapped: 9 Length of query: 307 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 222 Effective length of database: 1,217,395 Effective search space: 270261690 Effective search space used: 270261690 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)