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= 0043.0009.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|300310383|ref|YP_003774475.1| sugar ABC transporter permease ... 435 e-123 gi|300311610|ref|YP_003775702.1| sugar ABC transporter permease ... 171 8e-44 gi|300310064|ref|YP_003774156.1| sugar ABC transporter permease ... 169 3e-43 gi|300310397|ref|YP_003774489.1| ribose/xylose/arabinose/galacto... 158 4e-40 gi|300313726|ref|YP_003777818.1| sugar ABC transporter permease ... 127 1e-30 >gi|300310383|ref|YP_003774475.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 347 Score = 435 bits (1119), Expect = e-123, Method: Compositional matrix adjust. Identities = 230/261 (88%), Positives = 245/261 (93%) Query: 47 SXGIDLSVGTMMTFCSVMAGVFLTYWGLPIYFGIFAAIFFGALCGWTSGMLIAKLKVPPF 106 + GIDLSVGTMMTFC+VMAGV LT WG+P+ GI AAIFFGAL GW SGM+IAKLKVPPF Sbjct: 86 TSGIDLSVGTMMTFCAVMAGVVLTNWGMPLPLGIAAAIFFGALSGWISGMVIAKLKVPPF 145 Query: 107 IATLGMMMLLKGLSLVISGTKPIYFNDTPSFPQISQESLIGDLIPALPIPNAVLILFLVA 166 IATLGMMMLLKGLSLVISGT+PIYFNDT F I+Q+SLIGDLIP+LPIPNAVLILFLVA Sbjct: 146 IATLGMMMLLKGLSLVISGTRPIYFNDTEGFSAIAQDSLIGDLIPSLPIPNAVLILFLVA 205 Query: 167 IAAGVVLNKTVFGRYTFALGSNEEALRLSGVKVDFWKVTVYTVSGAICGIAGLLIASRLN 226 I A ++LNKTVFGRYTFALGSNEEALRLSGVKVDFWKV VYT SGAICGIAGL+IASRLN Sbjct: 206 IGASIILNKTVFGRYTFALGSNEEALRLSGVKVDFWKVAVYTFSGAICGIAGLIIASRLN 265 Query: 227 SAQPALGQGYELDAIAAVVIGGTSLSGGTGTILGTIIGAFIMSVLINGLRIMSVAQEWQT 286 SAQPALGQGYELDAIAAVVIGGTSLSGGTGTILGTIIGAFIMSVL+NGLRIMSVAQEWQT Sbjct: 266 SAQPALGQGYELDAIAAVVIGGTSLSGGTGTILGTIIGAFIMSVLVNGLRIMSVAQEWQT 325 Query: 287 VVTGVIIILAVYMDILRRRRQ 307 VVTGVIIILAVY+DILRRRR+ Sbjct: 326 VVTGVIIILAVYLDILRRRRR 346 >gi|300311610|ref|YP_003775702.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 328 Score = 171 bits (432), Expect = 8e-44, Method: Compositional matrix adjust. Identities = 104/259 (40%), Positives = 154/259 (59%), Gaps = 9/259 (3%) Query: 49 GIDLSVGTMMTFCSVMAGVFLTYWGLPIYFGIFAAIFFGALCGWTSGMLIAKLKVPPFIA 108 GIDLSVG++M + M + + WG P+Y + ALCG +GM+ ++P FI Sbjct: 75 GIDLSVGSVMALAASMLSMAMVRWGWPLYAAAPLGVVVAALCGTLTGMVSVHWRIPSFIV 134 Query: 109 TLGMMMLLKGLSLVISGTKPIYFNDTPSFPQISQESLIGDLIPALPIPNAVLILFLVAIA 168 +LG++ + +GL+ ++ ++ Y + IS L G + PA A++I+ Sbjct: 135 SLGVLEIARGLAYQVTNSRTEYIGS--AVDVISSPILFG-MSPAFLSAIAIVII------ 185 Query: 169 AGVVLNKTVFGRYTFALGSNEEALRLSGVKVDFWKVTVYTVSGAICGIAGLLIASRLNSA 228 A +VL +TV GRY +G+NEEA+RLSGV + K+ + + GA+ GIA L SRL +A Sbjct: 186 AQLVLTRTVLGRYWIGIGTNEEAVRLSGVNPNPSKILAFALMGALAGIAALFQVSRLEAA 245 Query: 229 QPALGQGYELDAIAAVVIGGTSLSGGTGTILGTIIGAFIMSVLINGLRIMSVAQEWQTVV 288 P G G EL IAAVVIGGTSL GG G+I+ T IG I+SVL GL + V++ + ++ Sbjct: 246 DPNGGVGMELQVIAAVVIGGTSLMGGRGSIVSTFIGVLIISVLEAGLAQVGVSEPMKRII 305 Query: 289 TGVIIILAVYMDILRRRRQ 307 TG +I++AV +D RRR Q Sbjct: 306 TGAVIVVAVILDTYRRRGQ 324 >gi|300310064|ref|YP_003774156.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 344 Score = 169 bits (427), Expect = 3e-43, Method: Compositional matrix adjust. Identities = 102/264 (38%), Positives = 158/264 (59%), Gaps = 19/264 (7%) Query: 47 SXGIDLSVGTMMTFCSVMAGVFLTY-----WGLPIYFGIFAAIFFGALCGWTSGMLIAKL 101 + GIDLSVG+++ +V+ G+ ++ W +P++ IF G + G +G ++A L Sbjct: 89 TAGIDLSVGSVLAVSAVL-GMQVSLGAAPGWAIPMF------IFSGLVMGMVNGAMVALL 141 Query: 102 KVPPFIATLGMMMLLKGLSLVISGTKPIYFNDTPSFPQISQESLIGDLIPALPIPNAVLI 161 + F+ TLG M +G + +++ + ND PSF I GD L +P + + Sbjct: 142 NINAFVVTLGTMTAFRGAAYLLADGTTVLNNDIPSFEWIGN----GDF---LHVPWLIWV 194 Query: 162 LFLVAIAAGVVLNKTVFGRYTFALGSNEEALRLSGVKVDFWKVTVYTVSGAICGIAGLLI 221 V + + V+L KTV G + +A+G N +A RL+G++V + VY++SG G+AG + Sbjct: 195 AVAVVLLSWVILRKTVLGMHIYAIGGNLQAARLTGIRVGLVLLFVYSISGLFSGLAGAMS 254 Query: 222 ASRLNSAQPALGQGYELDAIAAVVIGGTSLSGGTGTILGTIIGAFIMSVLINGLRIMSVA 281 ASRL A G GYELDAIAAVV+GGTSL GG G+I GT++GA I+ V+ NGL I+ ++ Sbjct: 255 ASRLYGANGNWGSGYELDAIAAVVLGGTSLMGGVGSIWGTVVGALIIGVMNNGLTILGLS 314 Query: 282 QEWQTVVTGVIIILAVYMDILRRR 305 WQ V G +I+LAV +D R++ Sbjct: 315 SFWQYVAKGAVIVLAVILDKWRQK 338 >gi|300310397|ref|YP_003774489.1| ribose/xylose/arabinose/galactoside ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 328 Score = 158 bits (400), Expect = 4e-40, Method: Compositional matrix adjust. Identities = 100/258 (38%), Positives = 150/258 (58%), Gaps = 10/258 (3%) Query: 49 GIDLSVGTMMTFCSVMAGVFLTYWGLPIYFGIFAAIFFGALCGWTSGMLIAKLKVPPFIA 108 GIDLSVG M ++ + GLP + + G +G L+A ++P I Sbjct: 81 GIDLSVGAAMALAGTISAGLIVNSGLPAPLALLCGVGLATCIGLLNGALVAWGRMPAIIV 140 Query: 109 TLGMMMLLKGLSLVISGTKPIYFNDTPSFPQISQESLIGDLIPALPIPNAVLILFLVAIA 168 TL M + +G+ L+ SG PI + P + IG +P+P V+++ +V Sbjct: 141 TLATMGVARGVGLIYSGGYPI--SGLPGWISWFGVGRIG----MVPVP--VILMLIVYAL 192 Query: 169 AGVVLNKTVFGRYTFALGSNEEALRLSGVKVDFWKVTVYTVSGAICGIAGLLIASRLNSA 228 A ++L +T FGR+ +A+G NE A RLSGVK K+ VY +SG G+A +++ RL S Sbjct: 193 AWLLLQRTAFGRHVYAIGGNEMAARLSGVKTTRIKLAVYAISGFTSGLAAIILTGRLMSG 252 Query: 229 QPALGQGYELDAIAAVVIGGTSLSGGTGTILGTIIGAFIMSVLINGLRIMSVAQEWQTVV 288 QP G G+ELDAIAAVV+GGT+++GG G ++GT+IGA ++ +L NGL +M + Q ++ Sbjct: 253 QPNAGVGFELDAIAAVVLGGTAIAGGRGLVVGTLIGAVLLGILNNGLNLMGINPYLQDII 312 Query: 289 TGVIIILAVYMDILRRRR 306 GVII+LA+Y I R R Sbjct: 313 RGVIILLAIY--IAREWR 328 >gi|300313726|ref|YP_003777818.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 342 Score = 127 bits (319), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 80/258 (31%), Positives = 142/258 (55%), Gaps = 8/258 (3%) Query: 50 IDLSVGTMMTFCSVMAGVFLTYWGLPIYFGIFAAIFFGALCGWTSGMLIAKLKVPPFIAT 109 ID+SV ++ SV G+ G+P + AI G CG +G L+ +L +P + T Sbjct: 89 IDISVSAIIALASVAMGL-ANQAGVPPLGLLLVAIATGTACGLLNGALVTRLGLPSIVVT 147 Query: 110 LGMMMLLKGLSLVISGTKPIYFNDTPSFPQISQESLIGDLIPALPIPNAVLILFLVAIAA 169 +G M L +GL+ V+ G + +P++ + G LP P ++ L A+ Sbjct: 148 IGSMSLFRGLASVVLGDQAFT-----QYPEVLGDWGQGYFFDVLPRP--FVVWLLAAVVF 200 Query: 170 GVVLNKTVFGRYTFALGSNEEALRLSGVKVDFWKVTVYTVSGAICGIAGLLIASRLNSAQ 229 V+L+ T +GR +A+G+N A R SGV VD +++ ++ ++GA+ G+A + R+ S + Sbjct: 201 AVLLHVTRWGRRLYAIGNNPVAARFSGVAVDRYRLALFVLTGAMAGLAAFFLTGRIGSTR 260 Query: 230 PALGQGYELDAIAAVVIGGTSLSGGTGTILGTIIGAFIMSVLINGLRIMSVAQEWQTVVT 289 P + G+EL+ I V++GG S++GGTG+I G ++ +M +L GL + ++ T+V Sbjct: 261 PNIAMGWELEIITVVILGGVSIAGGTGSIGGVMLSVLVMGMLTYGLALANIPGIIMTIVV 320 Query: 290 GVIIILAVYMDILRRRRQ 307 G +++ + + L R RQ Sbjct: 321 GALLLATIAIPRLLRGRQ 338 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 0.142 0.417 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: 710,012 Number of extensions: 22532 Number of successful extensions: 186 Number of sequences better than 1.0e-08: 25 Number of HSP's gapped: 183 Number of HSP's successfully gapped: 25 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 (21.7 bits) S2: 130 (54.7 bits)