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= 0038.0010.p (183 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313778|ref|YP_003777870.1| D-xylose ABC transporter permea... 322 8e-90 gi|300310372|ref|YP_003774464.1| sugar ABC transporter permease ... 139 1e-34 gi|300310397|ref|YP_003774489.1| ribose/xylose/arabinose/galacto... 119 1e-28 gi|300310064|ref|YP_003774156.1| sugar ABC transporter permease ... 110 7e-26 gi|300310383|ref|YP_003774475.1| sugar ABC transporter permease ... 107 8e-25 >gi|300313778|ref|YP_003777870.1| D-xylose ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 385 Score = 322 bits (826), Expect = 8e-90, Method: Compositional matrix adjust. Identities = 172/180 (95%), Positives = 179/180 (99%) Query: 4 LWRDAIKVALIGAVLLAFVRTLNSYDGIPVPVLLLLALLGLFSYVTTQTVFGRRIYSVGS 63 LWRDA+KV +IGAVLLAFVRTLNSYDGIPVPVLLLLALLGLFSYV+TQTVFGRRIYSVGS Sbjct: 206 LWRDALKVVVIGAVLLAFVRTLNSYDGIPVPVLLLLALLGLFSYVSTQTVFGRRIYSVGS 265 Query: 64 NMEATRLSGVNVQSVKLWVFGIMGVMCALAGLVNTARLAAGSPSSGSMGELDAIAACFIG 123 NMEATRLSGVNVQ+VKLWVFGIMGVMCALAGLVNTARLAAGSPS+G+MGELDAIAACFIG Sbjct: 266 NMEATRLSGVNVQAVKLWVFGIMGVMCALAGLVNTARLAAGSPSAGNMGELDAIAACFIG 325 Query: 124 GTSMRGGSGTIYGALIGALVMASLDNGMSMLDVGTYWQMIVKGSILMLAVWVDVSTRSGR 183 GTSMRGGSGTIYGALIGALVMASLDNGMSMLDVGTYWQMIVKGSIL+LAVWVDVSTRSGR Sbjct: 326 GTSMRGGSGTIYGALIGALVMASLDNGMSMLDVGTYWQMIVKGSILVLAVWVDVSTRSGR 385 >gi|300310372|ref|YP_003774464.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 405 Score = 139 bits (350), Expect = 1e-34, Method: Compositional matrix adjust. Identities = 75/180 (41%), Positives = 120/180 (66%) Query: 2 PPLWRDAIKVALIGAVLLAFVRTLNSYDGIPVPVLLLLALLGLFSYVTTQTVFGRRIYSV 61 P+ +K + A ++AF L++Y G+P ++++ AL+ L++++T++T GRR+Y+V Sbjct: 225 EPVLFFLLKNGVFAAAIIAFSYLLSTYRGMPNVLIIMFALMVLYTFITSRTTLGRRVYAV 284 Query: 62 GSNMEATRLSGVNVQSVKLWVFGIMGVMCALAGLVNTARLAAGSPSSGSMGELDAIAACF 121 G N +A +LSG+ + V + F MGV+ ALAGL+ ARL +P +G ELD IAACF Sbjct: 285 GGNEKAAKLSGIKTERVSFFTFVNMGVLAALAGLIFAARLNTATPKAGLGFELDVIAACF 344 Query: 122 IGGTSMRGGSGTIYGALIGALVMASLDNGMSMLDVGTYWQMIVKGSILMLAVWVDVSTRS 181 IGG S GG G + GA+IGA VM ++NGMS++ +G +Q ++KG +L++AV DV ++ Sbjct: 345 IGGASASGGVGKVMGAVIGAFVMGVMNNGMSIMGIGIDYQQMIKGFVLLMAVCFDVYNKN 404 >gi|300310397|ref|YP_003774489.1| ribose/xylose/arabinose/galactoside ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 328 Score = 119 bits (299), Expect = 1e-28, Method: Compositional matrix adjust. Identities = 62/150 (41%), Positives = 98/150 (65%) Query: 31 IPVPVLLLLALLGLFSYVTTQTVFGRRIYSVGSNMEATRLSGVNVQSVKLWVFGIMGVMC 90 +PVPV+L+L + L + +T FGR +Y++G N A RLSGV +KL V+ I G Sbjct: 179 VPVPVILMLIVYALAWLLLQRTAFGRHVYAIGGNEMAARLSGVKTTRIKLAVYAISGFTS 238 Query: 91 ALAGLVNTARLAAGSPSSGSMGELDAIAACFIGGTSMRGGSGTIYGALIGALVMASLDNG 150 LA ++ T RL +G P++G ELDAIAA +GGT++ GG G + G LIGA+++ L+NG Sbjct: 239 GLAAIILTGRLMSGQPNAGVGFELDAIAAVVLGGTAIAGGRGLVVGTLIGAVLLGILNNG 298 Query: 151 MSMLDVGTYWQMIVKGSILMLAVWVDVSTR 180 ++++ + Y Q I++G I++LA+++ R Sbjct: 299 LNLMGINPYLQDIIRGVIILLAIYIAREWR 328 >gi|300310064|ref|YP_003774156.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 344 Score = 110 bits (275), Expect = 7e-26, Method: Compositional matrix adjust. Identities = 62/150 (41%), Positives = 105/150 (70%), Gaps = 2/150 (1%) Query: 29 DGIPVPVLLLLAL-LGLFSYVT-TQTVFGRRIYSVGSNMEATRLSGVNVQSVKLWVFGIM 86 D + VP L+ +A+ + L S+V +TV G IY++G N++A RL+G+ V V L+V+ I Sbjct: 184 DFLHVPWLIWVAVAVVLLSWVILRKTVLGMHIYAIGGNLQAARLTGIRVGLVLLFVYSIS 243 Query: 87 GVMCALAGLVNTARLAAGSPSSGSMGELDAIAACFIGGTSMRGGSGTIYGALIGALVMAS 146 G+ LAG ++ +RL + + GS ELDAIAA +GGTS+ GG G+I+G ++GAL++ Sbjct: 244 GLFSGLAGAMSASRLYGANGNWGSGYELDAIAAVVLGGTSLMGGVGSIWGTVVGALIIGV 303 Query: 147 LDNGMSMLDVGTYWQMIVKGSILMLAVWVD 176 ++NG+++L + ++WQ + KG++++LAV +D Sbjct: 304 MNNGLTILGLSSFWQYVAKGAVIVLAVILD 333 >gi|300310383|ref|YP_003774475.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 347 Score = 107 bits (266), Expect = 8e-25, Method: Compositional matrix adjust. Identities = 70/156 (44%), Positives = 102/156 (65%), Gaps = 4/156 (2%) Query: 31 IPVP---VLLLLALLGLFSYVTTQTVFGRRIYSVGSNMEATRLSGVNVQSVKLWVFGIMG 87 +P+P ++L L +G S + +TVFGR +++GSN EA RLSGV V K+ V+ G Sbjct: 192 LPIPNAVLILFLVAIGA-SIILNKTVFGRYTFALGSNEEALRLSGVKVDFWKVAVYTFSG 250 Query: 88 VMCALAGLVNTARLAAGSPSSGSMGELDAIAACFIGGTSMRGGSGTIYGALIGALVMASL 147 +C +AGL+ +RL + P+ G ELDAIAA IGGTS+ GG+GTI G +IGA +M+ L Sbjct: 251 AICGIAGLIIASRLNSAQPALGQGYELDAIAAVVIGGTSLSGGTGTILGTIIGAFIMSVL 310 Query: 148 DNGMSMLDVGTYWQMIVKGSILMLAVWVDVSTRSGR 183 NG+ ++ V WQ +V G I++LAV++D+ R R Sbjct: 311 VNGLRIMSVAQEWQTVVTGVIIILAVYLDILRRRRR 346 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 0.324 0.138 0.411 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: 546,026 Number of extensions: 21245 Number of successful extensions: 175 Number of sequences better than 1.0e-08: 15 Number of HSP's gapped: 180 Number of HSP's successfully gapped: 15 Length of query: 183 Length of database: 1,619,870 Length adjustment: 80 Effective length of query: 103 Effective length of database: 1,241,070 Effective search space: 127830210 Effective search space used: 127830210 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 127 (53.5 bits)