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= 0001.0809.p (351 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 ... 527 e-151 gi|300310397|ref|YP_003774489.1| ribose/xylose/arabinose/galacto... 147 1e-36 gi|300313727|ref|YP_003777819.1| sugar ABC transporter permease ... 118 6e-28 gi|300310064|ref|YP_003774156.1| sugar ABC transporter permease ... 116 3e-27 gi|300313726|ref|YP_003777818.1| sugar ABC transporter permease ... 106 3e-24 >gi|300310349|ref|YP_003774441.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 347 Score = 527 bits (1357), Expect = e-151, Method: Compositional matrix adjust. Identities = 321/351 (91%), Positives = 332/351 (94%), Gaps = 4/351 (1%) Query: 1 MDASTLTRQNTRSDHAGRSQPPRSTRASAAALLKKHPSIFTLVLILLVVLTVALINPAFF 60 MDASTLTRQ + + P R S AALLKK+PS FTL+LI+LVVLTVALINPAFF Sbjct: 1 MDASTLTRQAADAS----TDAPVQRRPSLAALLKKNPSAFTLLLIVLVVLTVALINPAFF 56 Query: 61 QLAVLFDIVRACTTLGLFALGVMIVLAAGGIDVSFAAIAALTMYSITKVVMTYFPETHIA 120 QLAVLFDIVRACTTLGLFALGVMIVLAAGGIDVSFAAIAALTMYSITKVVMT+FPETHIA Sbjct: 57 QLAVLFDIVRACTTLGLFALGVMIVLAAGGIDVSFAAIAALTMYSITKVVMTWFPETHIA 116 Query: 121 IILLAGAVGGTALGVLNGLLVDWLKAPSLIVTIGTQYLYRGILLTFVGTVFFMNIPHAMD 180 +ILLAGAVGG LGVLNGLLVDWLKAPSLIVTIGTQYLYRGILLTFVGTVFFMNIPHAMD Sbjct: 117 VILLAGAVGGAGLGVLNGLLVDWLKAPSLIVTIGTQYLYRGILLTFVGTVFFMNIPHAMD 176 Query: 181 NFGKLALARHDTANGLHAVLPATVLVLVLASILTWWLLNKTLMGRAVYAVGGSLAIAERL 240 +FGKL LARHDTANGLHAVLPATVLVLVLAS+LTWWLLN+TLMGRAVYAVGGSLAIAERL Sbjct: 177 SFGKLTLARHDTANGLHAVLPATVLVLVLASVLTWWLLNRTLMGRAVYAVGGSLAIAERL 236 Query: 241 GYKLRSVHLFVFGYAGFLSGLAGIVHVSSTRLANPFDLVGSELDVIAAVVLGGARITGGH 300 GYKLRSVHLFVFGYAGFLSGLAGIVHVSSTRLANPFDLVGSELDVIAAVVLGGARITGGH Sbjct: 237 GYKLRSVHLFVFGYAGFLSGLAGIVHVSSTRLANPFDLVGSELDVIAAVVLGGARITGGH 296 Query: 301 GSVVGTLLGVLLVTLINNVLILAGVPSTWQKAIIGGFIVLAGAVFALRREK 351 GSV+GTLLGVLLVTLINNVLILAGVPSTWQKAIIGGFIVLAGAVFALRREK Sbjct: 297 GSVMGTLLGVLLVTLINNVLILAGVPSTWQKAIIGGFIVLAGAVFALRREK 347 >gi|300310397|ref|YP_003774489.1| ribose/xylose/arabinose/galactoside ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 328 Score = 147 bits (371), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 116/332 (34%), Positives = 171/332 (51%), Gaps = 17/332 (5%) Query: 14 DHAGRSQPPRSTRASAAALLKK---HPSIFTLVLILLVVLTVALINPAFFQLAVLFDIVR 70 H + P S +A+A + P L +++V L + L + FF L+ F+++R Sbjct: 2 PHDANALPAASLHTAASARWRSLIHSPLALPLAGLVVVSLLMGLASDNFFTLSNWFNVLR 61 Query: 71 ACTTLGLFALGVMIVLAAGGIDVSFAAIAALT-MYSITKVVMTYFPETHIAIILLAGAVG 129 + +G+ A+G+ V+ GGID+S A AL S +V + P + LL G Sbjct: 62 QVSIVGILAVGMSFVILTGGIDLSVGAAMALAGTISAGLIVNSGLPAP---LALLCGVGL 118 Query: 130 GTALGVLNGLLVDWLKAPSLIVTIGTQYLYRGILLTFVGTVFFMNIPHAMDNFGKLALAR 189 T +G+LNG LV W + P++IVT+ T + RG+ L + G +P + FG Sbjct: 119 ATCIGLLNGALVAWGRMPAIIVTLATMGVARGVGLIYSGGYPISGLPGWISWFGV----- 173 Query: 190 HDTANGLHAVLPATVLVLVLASILTWWLLNKTLMGRAVYAVGGSLAIAERLGYKLRSVHL 249 G ++P V+++++ L W LL +T GR VYA+GG+ A G K + L Sbjct: 174 -----GRIGMVPVPVILMLIVYALAWLLLQRTAFGRHVYAIGGNEMAARLSGVKTTRIKL 228 Query: 250 FVFGYAGFLSGLAGIVHVSSTRLANPFDLVGSELDVIAAVVLGGARITGGHGSVVGTLLG 309 V+ +GF SGLA I+ P VG ELD IAAVVLGG I GG G VVGTL+G Sbjct: 229 AVYAISGFTSGLAAIILTGRLMSGQPNAGVGFELDAIAAVVLGGTAIAGGRGLVVGTLIG 288 Query: 310 VLLVTLINNVLILAGVPSTWQKAIIGGFIVLA 341 +L+ ++NN L L G+ Q I G I+LA Sbjct: 289 AVLLGILNNGLNLMGINPYLQDIIRGVIILLA 320 >gi|300313727|ref|YP_003777819.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 352 Score = 118 bits (296), Expect = 6e-28, Method: Compositional matrix adjust. Identities = 93/297 (31%), Positives = 152/297 (51%), Gaps = 14/297 (4%) Query: 57 PAFFQLAVLFDIVRACTTLGLFALGVMIVLAAGGIDVSFAAIAALTMYSITKVVMTYFPE 116 P F + +++ + AL M+V+ GID+S A+ AL+ ++ ++ +FP Sbjct: 47 PVFLSAQSMDNLLTDSAITIMLALAQMLVILTRGIDLSVASNLALSGM-MSALLAMHFPA 105 Query: 117 THIAIILLAGAVGGTALGVLNGLLVDWLKAPSLIVTIGTQYLYRGILLTFVGTVFF--MN 174 + + +L + G LG+LNG L+ +L+ P ++VT+G+ +YRG++ G + N Sbjct: 106 LPVGVFILMAVLIGLMLGLLNGWLIGYLELPPIVVTLGSMSVYRGMVFVLSGGAWVSSRN 165 Query: 175 IPHAMDNFGKLALARHDTANGLHAVLPATVLVLVLASILTWWLLNKTLMGRAVYAVGGSL 234 +P +F LAR L V + LA + W+L T GR +YA+G Sbjct: 166 MP---ADFIAFPLARLGGLTHL-------VWLGALAVVAIWFLARHTRFGRDLYAIGNDP 215 Query: 235 AIAERLGYKLRSVHLFVFGYAGFLSGLAGIVHVSSTRLANPFDLVGSELDVIAAVVLGGA 294 A A +G R L+ +G +G ++GLAG + V+ +A G EL VIAA V+GG Sbjct: 216 AAAAYVGIASRGRLLWTYGLSGAMAGLAGYLWVARYAVAYTEIAYGFELTVIAACVIGGV 275 Query: 295 RITGGHGSVVGTLLGVLLVTLINNVLILAGVPSTWQKAIIGGFIVLAGAVFALRREK 351 I GG G V G +LG L +++INN L + + WQ A+ G ++L V R ++ Sbjct: 276 SIAGGVGQVSGAVLGALFLSVINNALPIMRISPFWQSALT-GLVILCAVVLNARGKQ 331 >gi|300310064|ref|YP_003774156.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 344 Score = 116 bits (291), Expect = 3e-27, Method: Compositional matrix adjust. Identities = 110/352 (31%), Positives = 174/352 (49%), Gaps = 25/352 (7%) Query: 10 NTRSDHAGRSQPP---RSTRASAAALLKK--HPSIFTLVLILLVVLTVALINPA---FFQ 61 +T+ H + PP RS+ +A LL + + ++ +L LT+ L F Sbjct: 3 DTKMTHTHDAVPPGARRSSSTTAQWLLHRLGMLPVLVVLYLLFYGLTLYLSGDGTSNFAS 62 Query: 62 LAVLFDIVRACTTLGLFALGVMIVLAAGGIDVSFAAIAALTMYSITKVVMTYFPETHIAI 121 +I+R + A G+ V+ GID+S ++ A++ +V + P I + Sbjct: 63 AENTMNILRQVAINLVLAAGMTFVILTAGIDLSVGSVLAVSAVLGMQVSLGAAPGWAIPM 122 Query: 122 ILLAGAVGGTALGVLNGLLVDWLKAPSLIVTIGTQYLYRG--ILLTFVGTVFFMNIPHAM 179 + +G V +G++NG +V L + +VT+GT +RG LL TV +IP Sbjct: 123 FIFSGLV----MGMVNGAMVALLNINAFVVTLGTMTAFRGAAYLLADGTTVLNNDIP--- 175 Query: 180 DNFGKLALARHDTANGLHAVLPATVLVLVLASILTWWLLNKTLMGRAVYAVGGSLAIAER 239 + NG +P + V V +L+W +L KT++G +YA+GG+L A Sbjct: 176 --------SFEWIGNGDFLHVPWLIWVAVAVVLLSWVILRKTVLGMHIYAIGGNLQAARL 227 Query: 240 LGYKLRSVHLFVFGYAGFLSGLAGIVHVSSTRLANPFDLVGSELDVIAAVVLGGARITGG 299 G ++ V LFV+ +G SGLAG + S AN G ELD IAAVVLGG + GG Sbjct: 228 TGIRVGLVLLFVYSISGLFSGLAGAMSASRLYGANGNWGSGYELDAIAAVVLGGTSLMGG 287 Query: 300 HGSVVGTLLGVLLVTLINNVLILAGVPSTWQKAIIGGFIVLAGAVFALRREK 351 GS+ GT++G L++ ++NN L + G+ S WQ G IVLA + R++ Sbjct: 288 VGSIWGTVVGALIIGVMNNGLTILGLSSFWQYVAKGAVIVLAVILDKWRQKD 339 >gi|300313726|ref|YP_003777818.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 342 Score = 106 bits (265), Expect = 3e-24, Method: Compositional matrix adjust. Identities = 102/353 (28%), Positives = 166/353 (47%), Gaps = 27/353 (7%) Query: 2 DASTLTRQNTRSDHAGRSQPPRSTRASAAALLKKHPSIFTLVLILLVVLTVALINPAFFQ 61 + ++ R R D R QP L +H +L++LV L+ P FF Sbjct: 9 EPASPPRSRYRIDEKARFQPRD---------LLRHWEALLAILLVLVCAVNGLLLPHFFD 59 Query: 62 LAVLFDIVRACTTLGLFALGVMIVLAAGGIDVSFAAIAALTMYSITKVVMTYFPETHIAI 121 L D + + AL + +++ ID+S +AI AL ++ P + + Sbjct: 60 PYNLADSTFNFSEKAMIALPMALLIICREIDISVSAIIALASVAMGLANQAGVPPLGLLL 119 Query: 122 ILLAGAVGGTALGVLNGLLVDWLKAPSLIVTIGTQYLYRGILLTFVGTVFFMNIPHAMDN 181 + +A GTA G+LNG LV L PS++VTIG+ L+RG+ +G F P + + Sbjct: 120 VAIAT---GTACGLLNGALVTRLGLPSIVVTIGSMSLFRGLASVVLGDQAFTQYPEVLGD 176 Query: 182 FGKLALARHDTANGLHAVLPATVLVLVLASILTWWLLNKTLMGRAVYAVGGSLAIAERLG 241 +G+ VLP +V +LA+++ LL+ T GR +YA+G + A G Sbjct: 177 WGQ---------GYFFDVLPRPFVVWLLAAVVFAVLLHVTRWGRRLYAIGNNPVAARFSG 227 Query: 242 YKLRSVHLFVFGYAGFLSGLAGIV---HVSSTRLANPFDLVGSELDVIAAVVLGGARITG 298 + L +F G ++GLA + STR P +G EL++I V+LGG I G Sbjct: 228 VAVDRYRLALFVLTGAMAGLAAFFLTGRIGSTR---PNIAMGWELEIITVVILGGVSIAG 284 Query: 299 GHGSVVGTLLGVLLVTLINNVLILAGVPSTWQKAIIGGFIVLAGAVFALRREK 351 G GS+ G +L VL++ ++ L LA +P ++G ++ A+ L R + Sbjct: 285 GTGSIGGVMLSVLVMGMLTYGLALANIPGIIMTIVVGALLLATIAIPRLLRGR 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 0.412 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: 893,877 Number of extensions: 30553 Number of successful extensions: 248 Number of sequences better than 1.0e-08: 19 Number of HSP's gapped: 234 Number of HSP's successfully gapped: 20 Length of query: 351 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 265 Effective length of database: 1,212,660 Effective search space: 321354900 Effective search space used: 321354900 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)