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= 0001.3302.p (299 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312636|ref|YP_003776728.1| sugar ABC transporter permease ... 587 e-169 gi|300309613|ref|YP_003773705.1| sugar ABC transporter permease ... 101 6e-23 gi|300313088|ref|YP_003777180.1| sn-glycerol-3-phosphate ABC tra... 98 7e-22 gi|300312388|ref|YP_003776480.1| sugar ABC transporter permease ... 96 3e-21 gi|300310302|ref|YP_003774394.1| sugar ABC transporter permease ... 82 4e-17 >gi|300312636|ref|YP_003776728.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 299 Score = 587 bits (1514), Expect = e-169, Method: Compositional matrix adjust. Identities = 296/299 (98%), Positives = 298/299 (99%) Query: 1 MLSRFLNNRNVLGMLFMAPAVILLVVFLTYPLGLGIWLGFTDTKIGGEGSFVGLDNFSYL 60 MLSRFLNNRNVLGMLFMAPAVILLVVFLTYPLGLGIWLGFTDTKIGGEGSF+GLDNF+YL Sbjct: 1 MLSRFLNNRNVLGMLFMAPAVILLVVFLTYPLGLGIWLGFTDTKIGGEGSFIGLDNFTYL 60 Query: 61 AGDSLAQLSLFNTVFYTVSASILKFMLGLWLAILLNKNVPLKTFFRAIVLLPWIVPTALS 120 AGDSLAQLSLFNTVFYTVSASILKFMLGLWLAILLNKNVPLKTFFRAIVLLPWIVPTALS Sbjct: 61 AGDSLAQLSLFNTVFYTVSASILKFMLGLWLAILLNKNVPLKTFFRAIVLLPWIVPTALS 120 Query: 121 ALAFWWLYDAQFSVISWALHKMGLIDHYIDFLGDPWNARWSTVFANVWRGIPFVAISLLA 180 ALAFWWLYDAQFSVISWALHKMGLID YIDFLGDPWNARWSTVFANVWRGIPFVAISLLA Sbjct: 121 ALAFWWLYDAQFSVISWALHKMGLIDRYIDFLGDPWNARWSTVFANVWRGIPFVAISLLA 180 Query: 181 GLQTISPSLYEAAAIDGATPWQQFRHVTLPLLTPIIAVVMTFSVLFTFTDFQLIYVLTRG 240 GLQTISPSLYEAAAIDGATPWQQFRHVTLPLLTPIIAVVMTFSVLFTFTDFQLIYVLTRG Sbjct: 181 GLQTISPSLYEAAAIDGATPWQQFRHVTLPLLTPIIAVVMTFSVLFTFTDFQLIYVLTRG 240 Query: 241 GPLNATHLMATLSFQRAIPGGALGEGAALATYMIPFLLAAIMFSYFGLQRRGWQQGGDK 299 GPLNATHLMATLSFQRAIPGGALGEGAALATYMIPFLLAAIMFSYFGLQRRGWQQGGDK Sbjct: 241 GPLNATHLMATLSFQRAIPGGALGEGAALATYMIPFLLAAIMFSYFGLQRRGWQQGGDK 299 >gi|300309613|ref|YP_003773705.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 311 Score = 101 bits (252), Expect = 6e-23, Method: Compositional matrix adjust. Identities = 77/273 (28%), Positives = 129/273 (47%), Gaps = 15/273 (5%) Query: 16 FMAPAVILLVVFLTYPLGLGIWLGFTDTKIGGEGSFVGLDNFSYLAGDSLAQLSLFNTVF 75 F+APA ++ +V++ YP+ I+L F E FVGL N+ L +L N V Sbjct: 41 FLAPACVMTLVYVLYPILYTIYLSFFSWDGMTEPRFVGLANYVELFHAPTFYTALKNNVL 100 Query: 76 YTVSASILKFML----GLWLAILLNKNVPLKTFFRAIVLLPWIVPTALSALAFWWLYDAQ 131 + +L F+L GL +A+ LN+ V +++ P+++ + L + W YD Sbjct: 101 W-----LLMFLLAPPMGLAIALYLNQKVIGMRVVKSLFFAPFVLSGVVVGLMYSWFYDPS 155 Query: 132 FSVISWALHKMGLIDHYIDFLGDPWNARWSTVFANVWRGIPFVAISLLAGLQTISPSLYE 191 F ++S L + LGD A + +FA +W + I L GL ++ E Sbjct: 156 FGLLSL------LFGQGVPVLGDARYATFGIIFAALWPQTAYCMILFLTGLTALNHDQVE 209 Query: 192 AAAIDGATPWQQFRHVTLPLLTPIIAVVMTFSVLFTFTDFQLIYVLTRGGPLNATHLMAT 251 AA ++GA W R+V LP L + S++ F LI V+T GGP ++ ++A Sbjct: 210 AARMEGAKGWTMLRYVILPQLRSTTFMAFVVSIIGALRSFDLISVMTSGGPYESSTVLAY 269 Query: 252 LSFQRAIPGGALGEGAALATYMIPFLLAAIMFS 284 ++ +AI G AA+A + +L I++ Sbjct: 270 YAYDQAIKYYRQGYSAAVAVTLFAIMLVYIVYQ 302 >gi|300313088|ref|YP_003777180.1| sn-glycerol-3-phosphate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 294 Score = 98.2 bits (243), Expect = 7e-22, Method: Compositional matrix adjust. Identities = 81/286 (28%), Positives = 132/286 (46%), Gaps = 23/286 (8%) Query: 12 LGMLFMAPAVILLVVFLTYPLGLGIWLG-FTDTKIGGEGSFVGLDNFSYLAGDSLAQLSL 70 L L +AP +I+ ++F +P ++ GG FV DNF L GD S Sbjct: 12 LPYLLVAPQIIITLLFFFWPAVQALYQSMLLQDAFGGYSEFVWFDNFKTLFGDPTYLESF 71 Query: 71 FNTVFYTVSASILKFMLGLWLAILLNKNVPLKTFFRAIVLLPWIV-PTALSALAFWWLYD 129 T ++ + L L LA+ ++ + ++ ++ P+ V P + L W++ Sbjct: 72 RTTAIFSALVAFFGLALSLLLAVFADRVRRGASIYKTFLIWPYAVSPVVVGVL---WMFL 128 Query: 130 AQFSVISWALHKMGLIDHYIDFLGDPWN-------ARWSTVFANVWRGIPFVAISLLAGL 182 S +G++ H + +LG PW+ A V A +W+ I + + LAGL Sbjct: 129 LSPS--------LGILSHVLSWLGLPWDYMINGTHAMILIVIAAIWKQISYNFLFFLAGL 180 Query: 183 QTISPSLYEAAAIDGATPWQQFRHVTLPLLTPIIAVVMTFSVLFTFTD-FQLIYVLTRGG 241 Q+I SL EAAAIDGA P ++F + PL++P + +V++ F D F ++ T GG Sbjct: 181 QSIPKSLIEAAAIDGAGPVKRFFTIVFPLISPTTFFLFVVNVVYAFFDTFVIVDATTHGG 240 Query: 242 PLNATHLMATLSFQRAIPGGALGEGAALATYMIPF--LLAAIMFSY 285 P T ++ F GG LG AA + ++ LL + F Y Sbjct: 241 PGKDTEILVYKVFSDGFKGGDLGGSAAQSVVLMALVILLTVVQFKY 286 >gi|300312388|ref|YP_003776480.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 291 Score = 96.3 bits (238), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 77/241 (31%), Positives = 125/241 (51%), Gaps = 3/241 (1%) Query: 10 NVLGMLFMAPAVILLVVFLTYPLGLGIWLGFTDTKIGGEGS-FVGLDNFSYLAGDSLAQL 68 +VL L ++PA++LL+ F YP +W F T G S FVGL+N+ +A D + Sbjct: 7 SVLPWLLLSPAMVLLIAFTHYPALATLWHSFFSTPKGVRPSVFVGLENYRLMADDPVFWQ 66 Query: 69 SLFNTVFYTVSASILKFMLGLWLAILLNKNVPLKTFFRAIVLLPWIVPTALSALAFWWLY 128 +L N +++ + L L + +A+ +N+ + + R P ++P A + + Y Sbjct: 67 ALCNNLWFALGTIPLAIALAILMALWVNEKLAGRGVLRLAYFTPTVLPMIAVANIWLFFY 126 Query: 129 DAQFSVISWALHKMGLIDHYIDFLGDPWNARWSTVFANVWRGIPFVAISLLAGLQTISPS 188 Q+ ++ +GL H ++LG+P + + VW+ F I LA LQ ISP Sbjct: 127 TPQYGLLEQITGALGLPSH--NWLGNPQTVLGALMVVAVWKEAGFFMIFYLAALQQISPV 184 Query: 189 LYEAAAIDGATPWQQFRHVTLPLLTPIIAVVMTFSVLFTFTDFQLIYVLTRGGPLNATHL 248 L EAAA++GA+ WQ F V PLL P V+ +++ F I V+T+GGP NA+ L Sbjct: 185 LAEAAALEGASRWQYFWRVQFPLLMPTTLFVLINALINAFRLVDHIVVMTKGGPDNASSL 244 Query: 249 M 249 + Sbjct: 245 L 245 >gi|300310302|ref|YP_003774394.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 296 Score = 82.4 bits (202), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 58/223 (26%), Positives = 112/223 (50%), Gaps = 3/223 (1%) Query: 48 EGSFVGLDNFSYLAGDSLAQLSLFNTVFYTVSASILKFMLGLWLAILLNKNVPLKTFFRA 107 + FVGLD F + D +L + ++ +++ LG+ LA+ + + Sbjct: 44 QKVFVGLDWFREVMRDGELHAALLRQLIFSFCVLLVQIPLGIGLALAMPHKGWKSSATLV 103 Query: 108 IVLLPWIVPTALSALAFWWLYDAQFSVISWALHKMGLIDHYIDFLGDPWNARWSTVFANV 167 I+ +P ++P + + A + + L+ +G ID+ ++ +P +A + + +V Sbjct: 104 ILAMPLLIPWNVVGTIWQIFGRADIGLGGYVLNLLG-IDY--NYASNPLDAWLTVLLMDV 160 Query: 168 WRGIPFVAISLLAGLQTISPSLYEAAAIDGATPWQQFRHVTLPLLTPIIAVVMTFSVLFT 227 W P VA+ AGL++I + Y+AA IDGA+ W FR++ LP + ++ + + + + Sbjct: 161 WHWTPLVALLAFAGLRSIPDAYYQAAQIDGASRWAVFRYIQLPKMRGVLVIAVLLRFMDS 220 Query: 228 FTDFQLIYVLTRGGPLNATHLMATLSFQRAIPGGALGEGAALA 270 F + +VLT GGP N+T ++ Q+A+ LG AA + Sbjct: 221 FMIYTEPFVLTGGGPGNSTTFLSQYLTQKAVGQFDLGPAAAFS 263 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 0.143 0.459 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: 962,890 Number of extensions: 40118 Number of successful extensions: 234 Number of sequences better than 1.0e-08: 11 Number of HSP's gapped: 222 Number of HSP's successfully gapped: 11 Length of query: 299 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 214 Effective length of database: 1,217,395 Effective search space: 260522530 Effective search space used: 260522530 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)