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= 0001.0010.p (350 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310349|ref|YP_003774441.1| sugar ABC transporter permease ... 528 e-151 gi|300310397|ref|YP_003774489.1| ribose/xylose/arabinose/galacto... 148 7e-37 gi|300313727|ref|YP_003777819.1| sugar ABC transporter permease ... 115 5e-27 gi|300310064|ref|YP_003774156.1| sugar ABC transporter permease ... 111 8e-26 gi|300313726|ref|YP_003777818.1| sugar ABC transporter permease ... 102 6e-23 >gi|300310349|ref|YP_003774441.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 347 Score = 528 bits (1360), Expect = e-151, Method: Compositional matrix adjust. Identities = 319/350 (91%), Positives = 328/350 (93%), Gaps = 3/350 (0%) Query: 1 MDASTLTRQNAHTDTSPALPPRSAAASLGALLKKNPSLFTFVLILLVVVTVALINPAFFQ 60 MDASTLTRQ A T + R SL ALLKKNPS FT +LI+LVV+TVALINPAFFQ Sbjct: 1 MDASTLTRQAADASTDAPVQRRP---SLAALLKKNPSAFTLLLIVLVVLTVALINPAFFQ 57 Query: 61 LAVLFDIVRACTTLGLFALGVMIVLAAGGIDVSFAAIAALTMYSITKVVMTYFPETHIAV 120 LAVLFDIVRACTTLGLFALGVMIVLAAGGIDVSFAAIAALTMYSITKVVMT+FPETHIAV Sbjct: 58 LAVLFDIVRACTTLGLFALGVMIVLAAGGIDVSFAAIAALTMYSITKVVMTWFPETHIAV 117 Query: 121 ILLAGAAGGTALGVLNGLLVDWLKAPSLIVTIGTQYLYRGILLTFVGTVFFMNVPHAMDQ 180 ILLAGA GG LGVLNGLLVDWLKAPSLIVTIGTQYLYRGILLTFVGTVFFMN+PHAMD Sbjct: 118 ILLAGAVGGAGLGVLNGLLVDWLKAPSLIVTIGTQYLYRGILLTFVGTVFFMNIPHAMDS 177 Query: 181 FGKLALARHDTASGLHAVLPATVLVLVLASALTWWLLNKTLMGRAVYAVGGSLAIAERLG 240 FGKL LARHDTA+GLHAVLPATVLVLVLAS LTWWLLN+TLMGRAVYAVGGSLAIAERLG Sbjct: 178 FGKLTLARHDTANGLHAVLPATVLVLVLASVLTWWLLNRTLMGRAVYAVGGSLAIAERLG 237 Query: 241 YKLRSVHLFVFGYAGFLSGLAGIVHVSSTRLANPFDLVGSELDVIAAVVLGGARITGGHG 300 YKLRSVHLFVFGYAGFLSGLAGIVHVSSTRLANPFDLVGSELDVIAAVVLGGARITGGHG Sbjct: 238 YKLRSVHLFVFGYAGFLSGLAGIVHVSSTRLANPFDLVGSELDVIAAVVLGGARITGGHG 297 Query: 301 SVVGTLLGVLLVTLINNVLILAGVPSTWQKAIIGGFIVLAGAVFALRREK 350 SV+GTLLGVLLVTLINNVLILAGVPSTWQKAIIGGFIVLAGAVFALRREK Sbjct: 298 SVMGTLLGVLLVTLINNVLILAGVPSTWQKAIIGGFIVLAGAVFALRREK 347 >gi|300310397|ref|YP_003774489.1| ribose/xylose/arabinose/galactoside ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 328 Score = 148 bits (373), Expect = 7e-37, Method: Compositional matrix adjust. Identities = 115/325 (35%), Positives = 171/325 (52%), Gaps = 14/325 (4%) Query: 17 PALPPRSAAASLGALLKKNPSLFTFVLILLVVVTVALINPAFFQLAVLFDIVRACTTLGL 76 PA +AA++ L +P +++V + + L + FF L+ F+++R + +G+ Sbjct: 9 PAASLHTAASARWRSLIHSPLALPLAGLVVVSLLMGLASDNFFTLSNWFNVLRQVSIVGI 68 Query: 77 FALGVMIVLAAGGIDVSFAAIAALT-MYSITKVVMTYFPETHIAVILLAGAAGGTALGVL 135 A+G+ V+ GGID+S A AL S +V + P + LL G T +G+L Sbjct: 69 LAVGMSFVILTGGIDLSVGAAMALAGTISAGLIVNSGLPAP---LALLCGVGLATCIGLL 125 Query: 136 NGLLVDWLKAPSLIVTIGTQYLYRGILLTFVGTVFFMNVPHAMDQFGKLALARHDTASGL 195 NG LV W + P++IVT+ T + RG+ L + G +P + FG G Sbjct: 126 NGALVAWGRMPAIIVTLATMGVARGVGLIYSGGYPISGLPGWISWFGV----------GR 175 Query: 196 HAVLPATVLVLVLASALTWWLLNKTLMGRAVYAVGGSLAIAERLGYKLRSVHLFVFGYAG 255 ++P V+++++ AL W LL +T GR VYA+GG+ A G K + L V+ +G Sbjct: 176 IGMVPVPVILMLIVYALAWLLLQRTAFGRHVYAIGGNEMAARLSGVKTTRIKLAVYAISG 235 Query: 256 FLSGLAGIVHVSSTRLANPFDLVGSELDVIAAVVLGGARITGGHGSVVGTLLGVLLVTLI 315 F SGLA I+ P VG ELD IAAVVLGG I GG G VVGTL+G +L+ ++ Sbjct: 236 FTSGLAAIILTGRLMSGQPNAGVGFELDAIAAVVLGGTAIAGGRGLVVGTLIGAVLLGIL 295 Query: 316 NNVLILAGVPSTWQKAIIGGFIVLA 340 NN L L G+ Q I G I+LA Sbjct: 296 NNGLNLMGINPYLQDIIRGVIILLA 320 >gi|300313727|ref|YP_003777819.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 352 Score = 115 bits (288), Expect = 5e-27, Method: Compositional matrix adjust. Identities = 93/295 (31%), Positives = 149/295 (50%), Gaps = 10/295 (3%) Query: 56 PAFFQLAVLFDIVRACTTLGLFALGVMIVLAAGGIDVSFAAIAALTMYSITKVVMTYFPE 115 P F + +++ + AL M+V+ GID+S A+ AL+ ++ ++ +FP Sbjct: 47 PVFLSAQSMDNLLTDSAITIMLALAQMLVILTRGIDLSVASNLALSGM-MSALLAMHFPA 105 Query: 116 THIAVILLAGAAGGTALGVLNGLLVDWLKAPSLIVTIGTQYLYRGILLTFVGTVFFMNVP 175 + V +L G LG+LNG L+ +L+ P ++VT+G+ +YRG++ G + + Sbjct: 106 LPVGVFILMAVLIGLMLGLLNGWLIGYLELPPIVVTLGSMSVYRGMVFVLSGGAWVSSRN 165 Query: 176 HAMDQFGKLALARHDTASGLHAVLPATVLVLVLASALTWWLLNKTLMGRAVYAVGGSLAI 235 D F LAR + L V + LA W+L T GR +YA+G A Sbjct: 166 MPAD-FIAFPLARLGGLTHL-------VWLGALAVVAIWFLARHTRFGRDLYAIGNDPAA 217 Query: 236 AERLGYKLRSVHLFVFGYAGFLSGLAGIVHVSSTRLANPFDLVGSELDVIAAVVLGGARI 295 A +G R L+ +G +G ++GLAG + V+ +A G EL VIAA V+GG I Sbjct: 218 AAYVGIASRGRLLWTYGLSGAMAGLAGYLWVARYAVAYTEIAYGFELTVIAACVIGGVSI 277 Query: 296 TGGHGSVVGTLLGVLLVTLINNVLILAGVPSTWQKAIIGGFIVLAGAVFALRREK 350 GG G V G +LG L +++INN L + + WQ A+ G ++L V R ++ Sbjct: 278 AGGVGQVSGAVLGALFLSVINNALPIMRISPFWQSALT-GLVILCAVVLNARGKQ 331 >gi|300310064|ref|YP_003774156.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 344 Score = 111 bits (278), Expect = 8e-26, Method: Compositional matrix adjust. Identities = 95/288 (32%), Positives = 149/288 (51%), Gaps = 17/288 (5%) Query: 65 FDIVRACTTLGLFALGVMIVLAAGGIDVSFAAIAALTMYSITKVVMTYFPETHIAVILLA 124 +I+R + A G+ V+ GID+S ++ A++ +V + P I + + + Sbjct: 67 MNILRQVAINLVLAAGMTFVILTAGIDLSVGSVLAVSAVLGMQVSLGAAPGWAIPMFIFS 126 Query: 125 GAAGGTALGVLNGLLVDWLKAPSLIVTIGTQYLYRG--ILLTFVGTVFFMNVPHAMDQFG 182 G +G++NG +V L + +VT+GT +RG LL TV ++P + + G Sbjct: 127 G----LVMGMVNGAMVALLNINAFVVTLGTMTAFRGAAYLLADGTTVLNNDIP-SFEWIG 181 Query: 183 KLALARHDTASGLHAVLPATVLVLVLASALTWWLLNKTLMGRAVYAVGGSLAIAERLGYK 242 LH +P + V V L+W +L KT++G +YA+GG+L A G + Sbjct: 182 N--------GDFLH--VPWLIWVAVAVVLLSWVILRKTVLGMHIYAIGGNLQAARLTGIR 231 Query: 243 LRSVHLFVFGYAGFLSGLAGIVHVSSTRLANPFDLVGSELDVIAAVVLGGARITGGHGSV 302 + V LFV+ +G SGLAG + S AN G ELD IAAVVLGG + GG GS+ Sbjct: 232 VGLVLLFVYSISGLFSGLAGAMSASRLYGANGNWGSGYELDAIAAVVLGGTSLMGGVGSI 291 Query: 303 VGTLLGVLLVTLINNVLILAGVPSTWQKAIIGGFIVLAGAVFALRREK 350 GT++G L++ ++NN L + G+ S WQ G IVLA + R++ Sbjct: 292 WGTVVGALIIGVMNNGLTILGLSSFWQYVAKGAVIVLAVILDKWRQKD 339 >gi|300313726|ref|YP_003777818.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 342 Score = 102 bits (253), Expect = 6e-23, Method: Compositional matrix adjust. Identities = 106/346 (30%), Positives = 163/346 (47%), Gaps = 26/346 (7%) Query: 15 TSPALPPRS-------AAASLGALLKKNPSLFTFVLILLVVVTVALINPAFFQLAVLFDI 67 PA PPRS A LL+ +L +L+L+ V L+ P FF L D Sbjct: 8 NEPASPPRSRYRIDEKARFQPRDLLRHWEALLAILLVLVCAVN-GLLLPHFFDPYNLADS 66 Query: 68 VRACTTLGLFALGVMIVLAAGGIDVSFAAIAALTMYSITKVVMTYFPETHIAVILLAGAA 127 + + AL + +++ ID+S +AI AL ++ P + LL A Sbjct: 67 TFNFSEKAMIALPMALLIICREIDISVSAIIALASVAMGLANQAGVPPLGL---LLVAIA 123 Query: 128 GGTALGVLNGLLVDWLKAPSLIVTIGTQYLYRGILLTFVGTVFFMNVPHAMDQFGKLALA 187 GTA G+LNG LV L PS++VTIG+ L+RG+ +G F P + +G+ Sbjct: 124 TGTACGLLNGALVTRLGLPSIVVTIGSMSLFRGLASVVLGDQAFTQYPEVLGDWGQ---- 179 Query: 188 RHDTASGLHAVLPATVLVLVLASALTWWLLNKTLMGRAVYAVGGSLAIAERLGYKLRSVH 247 VLP +V +LA+ + LL+ T GR +YA+G + A G + Sbjct: 180 -----GYFFDVLPRPFVVWLLAAVVFAVLLHVTRWGRRLYAIGNNPVAARFSGVAVDRYR 234 Query: 248 LFVFGYAGFLSGLAGIV---HVSSTRLANPFDLVGSELDVIAAVVLGGARITGGHGSVVG 304 L +F G ++GLA + STR P +G EL++I V+LGG I GG GS+ G Sbjct: 235 LALFVLTGAMAGLAAFFLTGRIGSTR---PNIAMGWELEIITVVILGGVSIAGGTGSIGG 291 Query: 305 TLLGVLLVTLINNVLILAGVPSTWQKAIIGGFIVLAGAVFALRREK 350 +L VL++ ++ L LA +P ++G ++ A+ L R + Sbjct: 292 VMLSVLVMGMLTYGLALANIPGIIMTIVVGALLLATIAIPRLLRGR 337 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 0.327 0.141 0.410 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: 790,340 Number of extensions: 25817 Number of successful extensions: 215 Number of sequences better than 1.0e-08: 19 Number of HSP's gapped: 202 Number of HSP's successfully gapped: 20 Length of query: 350 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 264 Effective length of database: 1,212,660 Effective search space: 320142240 Effective search space used: 320142240 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: 131 (55.1 bits)