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= 0226.0010.p (314 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310372|ref|YP_003774464.1| sugar ABC transporter permease ... 488 e-139 gi|300313778|ref|YP_003777870.1| D-xylose ABC transporter permea... 124 8e-30 gi|300311740|ref|YP_003775832.1| sugar ABC transporter permease ... 73 3e-14 gi|300310369|ref|YP_003774461.1| sugar ABC transporter permease ... 65 8e-12 gi|300310397|ref|YP_003774489.1| ribose/xylose/arabinose/galacto... 56 4e-09 >gi|300310372|ref|YP_003774464.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 405 Score = 488 bits (1257), Expect = e-139, Method: Compositional matrix adjust. Identities = 243/312 (77%), Positives = 280/312 (89%), Gaps = 3/312 (0%) Query: 1 MSKTPTLDAVPEA--KREYAGFLKNNMREYGMLLSLVAIMAFFQVMTDGTLMQPLNLTNL 58 MSK P A A K++Y FLKNNMREYGML+SLVAIMAFFQ+MTDGTLM+PLNLTNL Sbjct: 6 MSKKPAAAAAGGAAEKKDYGSFLKNNMREYGMLMSLVAIMAFFQIMTDGTLMRPLNLTNL 65 Query: 59 VLQNSYVVIMALGMLMVIVAGHIDLSVGSVVGFIGALAAVLMVNYEVNFILTTIICLIAG 118 VLQNSY+VIMALGMLMVIVAGHIDLSVGSVVG IGALAAVLMV+Y F+ +I+CLIAG Sbjct: 66 VLQNSYIVIMALGMLMVIVAGHIDLSVGSVVGLIGALAAVLMVDYGWGFVPASIVCLIAG 125 Query: 119 AAIGAAQGYWVAFFRIPSFIVTLAGMLVFKGLTLALLEGQSVGPFPRGFQLLSSGFIPEL 178 IGAAQGYW+A+F+IPSFIVTLAGMLVFKG+ LALL+GQS+GPFP+ FQ+LSSGFIPEL Sbjct: 126 GLIGAAQGYWIAYFKIPSFIVTLAGMLVFKGMALALLQGQSLGPFPQTFQMLSSGFIPEL 185 Query: 179 FADTGSVRLTSLLVGVVAAAILLAVKVHGRSKQVKHGMEEEPALFFLLKNVLFAAAIIAF 238 +T + R TSL+VGV+AA +L+ VK+HGR KQ KHGME+EP LFFLLKN +FAAAIIAF Sbjct: 186 TGNT-TFRTTSLIVGVIAAVVLILVKLHGRRKQTKHGMEDEPVLFFLLKNGVFAAAIIAF 244 Query: 239 SYLMASYKGMPNVLIIMFALMVIYTFVTNRTTIGRRVYAVGGNEKAAKLSGIKTERVSFY 298 SYL+++Y+GMPNVLIIMFALMV+YTF+T+RTT+GRRVYAVGGNEKAAKLSGIKTERVSF+ Sbjct: 245 SYLLSTYRGMPNVLIIMFALMVLYTFITSRTTLGRRVYAVGGNEKAAKLSGIKTERVSFF 304 Query: 299 TFVNMGMLAALA 310 TFVNMG+LAALA Sbjct: 305 TFVNMGVLAALA 316 >gi|300313778|ref|YP_003777870.1| D-xylose ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 385 Score = 124 bits (312), Expect = 8e-30, Method: Compositional matrix adjust. Identities = 98/272 (36%), Positives = 157/272 (57%), Gaps = 9/272 (3%) Query: 39 AFFQVMTDGTLMQPLNLTNLVLQNSYVVIMALGMLMVIVAGHIDLSVGSVVGFIGALAAV 98 FF MTDG + P NL+NL+ Q S I+A GM++VI+AG IDLSVGS++G +G LAA+ Sbjct: 33 GFFSFMTDGGFVTPRNLSNLLRQMSVTGILACGMVLVIIAGEIDLSVGSLLGLLGGLAAL 92 Query: 99 LMVNYEVNFILTTIICLIAGAAIGAAQGYWVAFFRIPSFIVTLAGMLVFKGLTLALLEGQ 158 L V++ + L ++ L G A+G GY A+ IPSFIV L GML F+G+ L + G Sbjct: 93 LDVSHHLPLALNLVLALGFGLALGLLNGYLTAYLGIPSFIVGLGGMLAFRGILLGITGGL 152 Query: 159 SVGPFPRGFQLLSSGFIPELFADTGSVRLTSLLVGVVAAAILLAVKVHGRSKQVKHGMEE 218 ++ P L G++P + +G+ + +A+ R + +HG+ Sbjct: 153 TIAPVSDNMVYLGQGYLPPQMG---------VALGIALFVLAVALTWMSRVNRSRHGLPL 203 Query: 219 EPALFFLLKNVLFAAAIIAFSYLMASYKGMPNVLIIMFALMVIYTFVTNRTTIGRRVYAV 278 LK V+ A ++AF + SY G+P ++++ AL+ ++++V+ +T GRR+Y+V Sbjct: 204 AALWRDALKVVVIGAVLLAFVRTLNSYDGIPVPVLLLLALLGLFSYVSTQTVFGRRIYSV 263 Query: 279 GGNEKAAKLSGIKTERVSFYTFVNMGMLAALA 310 G N +A +LSG+ + V + F MG++ ALA Sbjct: 264 GSNMEATRLSGVNVQAVKLWVFGIMGVMCALA 295 >gi|300311740|ref|YP_003775832.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 379 Score = 73.2 bits (178), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 81/306 (26%), Positives = 130/306 (42%), Gaps = 37/306 (12%) Query: 5 PTLDAVPEAKREYAGFLKNNMREYGMLLSLVAIMAFFQVMTDGTLMQPLN-LTNLVLQNS 63 P D+ +RE E+ L ++ + F + + M L+ + N + + Sbjct: 15 PHADSDERMRRENLVSRLLGRPEFASLAGVILVFLVFGLTAGDSGMFNLDGVVNWMQVAA 74 Query: 64 YVVIMALGMLMVIVAGHIDLSVGSVVGFIGALAAVLMVNYEVNFILTTIICLIAGAAIGA 123 Y+ I+A+ ++++ G DLS+GS++G G + A+ V + F L + A +G Sbjct: 75 YLGIIAVAACLLMIGGEFDLSIGSMIGLAGMMVAIPTVYFGWPFWLAVLFAFAASMGLGW 134 Query: 124 AQGYWVAFFRIPSFIVTLAGMLVFKGLTLALLEGQSVGPFPRGFQLLSSGFIPELFADTG 183 GY V R+PSFIVTLA + + +GLTLAL LFA+ Sbjct: 135 LNGYLVMKTRLPSFIVTLAFLFILRGLTLAL---------------------SILFAN-- 171 Query: 184 SVRLTSLLVGVVAAAILLAVKVHGRSKQVKHGMEEEPALFFLLKNVLFAAAIIAFSYLMA 243 R VG AA H Q+ LF L + A + + L+ Sbjct: 172 --RTIVSGVGERAA--------HDWLGQLLFSGNVGAGLFSWLARHGWIATVADGTPLV- 220 Query: 244 SYKGMPNVLIIMFALMVIYTFVTNRTTIGRRVYAVGGNEKAAKLSGIKTERVSFYTFVNM 303 G+P V++ + + +FV RT +G ++AVGG+ AAK G+ +V FV Sbjct: 221 --TGIPKVILWWAVVALAASFVLARTRLGNWIFAVGGDAVAAKNMGVPVRKVKIGLFVFT 278 Query: 304 GMLAAL 309 A L Sbjct: 279 AFCACL 284 >gi|300310369|ref|YP_003774461.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 340 Score = 65.1 bits (157), Expect = 8e-12, Method: Compositional matrix adjust. Identities = 43/106 (40%), Positives = 71/106 (66%), Gaps = 1/106 (0%) Query: 46 DGTLMQPLNLTNLVLQNSYVVIMALGMLMVIVAGHIDLSVGSVVGFIGALAAVLMVNYEV 105 DG + P + NL++ N++++++A+GM VI++G IDLSVGSV+ +AA L+ N+ Sbjct: 37 DG-FLSPQVMLNLLIDNAFLLVVAIGMTFVILSGGIDLSVGSVLALTTMVAAFLLQNWHW 95 Query: 106 NFILTTIICLIAGAAIGAAQGYWVAFFRIPSFIVTLAGMLVFKGLT 151 + +L + L+ GA GAA G + +F++ +FIVTLAGM + +GL Sbjct: 96 HPLLVIVTVLLMGAGFGAAMGAMIHYFKLQAFIVTLAGMFLARGLC 141 >gi|300310397|ref|YP_003774489.1| ribose/xylose/arabinose/galactoside ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 328 Score = 55.8 bits (133), Expect = 4e-09, Method: Compositional matrix adjust. Identities = 42/111 (37%), Positives = 61/111 (54%) Query: 54 NLTNLVLQNSYVVIMALGMLMVIVAGHIDLSVGSVVGFIGALAAVLMVNYEVNFILTTII 113 N N++ Q S V I+A+GM VI+ G IDLSVG+ + G ++A L+VN + L + Sbjct: 55 NWFNVLRQVSIVGILAVGMSFVILTGGIDLSVGAAMALAGTISAGLIVNSGLPAPLALLC 114 Query: 114 CLIAGAAIGAAQGYWVAFFRIPSFIVTLAGMLVFKGLTLALLEGQSVGPFP 164 + IG G VA+ R+P+ IVTLA M V +G+ L G + P Sbjct: 115 GVGLATCIGLLNGALVAWGRMPAIIVTLATMGVARGVGLIYSGGYPISGLP 165 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 0.328 0.141 0.398 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: 769,983 Number of extensions: 25377 Number of successful extensions: 180 Number of sequences better than 1.0e-08: 11 Number of HSP's gapped: 174 Number of HSP's successfully gapped: 11 Length of query: 314 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 229 Effective length of database: 1,217,395 Effective search space: 278783455 Effective search space used: 278783455 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)