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= 0003.0077.p (233 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 ... 361 e-101 gi|300313778|ref|YP_003777870.1| D-xylose ABC transporter permea... 150 6e-38 gi|300310397|ref|YP_003774489.1| ribose/xylose/arabinose/galacto... 125 3e-30 gi|300310383|ref|YP_003774475.1| sugar ABC transporter permease ... 120 9e-29 gi|300310064|ref|YP_003774156.1| sugar ABC transporter permease ... 116 2e-27 >gi|300310372|ref|YP_003774464.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 405 Score = 361 bits (927), Expect = e-101, Method: Compositional matrix adjust. Identities = 191/233 (81%), Positives = 213/233 (91%), Gaps = 3/233 (1%) Query: 1 LLSSGFIPEFFADTDTGSVRLTSLLVGIAAAAILLAVKVHGRSKQVKHGMEEEPAVFFLL 60 +LSSGFIPE +T + R TSL+VG+ AA +L+ VK+HGR KQ KHGME+EP +FFLL Sbjct: 176 MLSSGFIPELTGNT---TFRTTSLIVGVIAAVVLILVKLHGRRKQTKHGMEDEPVLFFLL 232 Query: 61 KNILFAAGIIAFSYLMASYKGMPNVLIIMFALMVIYTFVTNRTTIGRRVYAVGGNEKAAK 120 KN +FAA IIAFSYL+++Y+GMPNVLIIMFALMV+YTF+T+RTT+GRRVYAVGGNEKAAK Sbjct: 233 KNGVFAAAIIAFSYLLSTYRGMPNVLIIMFALMVLYTFITSRTTLGRRVYAVGGNEKAAK 292 Query: 121 LSGIKTERVSFYTFVNMGMLAALAGLIFAARLNTATPKAGTGFELDVIAACFIGGASASG 180 LSGIKTERVSF+TFVNMG+LAALAGLIFAARLNTATPKAG GFELDVIAACFIGGASASG Sbjct: 293 LSGIKTERVSFFTFVNMGVLAALAGLIFAARLNTATPKAGLGFELDVIAACFIGGASASG 352 Query: 181 GVGKVMGAVIGAFVMGVMNNGMSIMGIGIDYQQVIKGLVLLAAVFFDVYNKNK 233 GVGKVMGAVIGAFVMGVMNNGMSIMGIGIDYQQ+IKG VLL AV FDVYNKNK Sbjct: 353 GVGKVMGAVIGAFVMGVMNNGMSIMGIGIDYQQMIKGFVLLMAVCFDVYNKNK 405 >gi|300313778|ref|YP_003777870.1| D-xylose ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 385 Score = 150 bits (380), Expect = 6e-38, Method: Compositional matrix adjust. Identities = 81/207 (39%), Positives = 131/207 (63%) Query: 26 VGIAAAAILLAVKVHGRSKQVKHGMEEEPAVFFLLKNILFAAGIIAFSYLMASYKGMPNV 85 +GIA + +A+ R + +HG+ LK ++ A ++AF + SY G+P Sbjct: 177 LGIALFVLAVALTWMSRVNRSRHGLPLAALWRDALKVVVIGAVLLAFVRTLNSYDGIPVP 236 Query: 86 LIIMFALMVIYTFVTNRTTIGRRVYAVGGNEKAAKLSGIKTERVSFYTFVNMGMLAALAG 145 ++++ AL+ ++++V+ +T GRR+Y+VG N +A +LSG+ + V + F MG++ ALAG Sbjct: 237 VLLLLALLGLFSYVSTQTVFGRRIYSVGSNMEATRLSGVNVQAVKLWVFGIMGVMCALAG 296 Query: 146 LIFAARLNTATPKAGTGFELDVIAACFIGGASASGGVGKVMGAVIGAFVMGVMNNGMSIM 205 L+ ARL +P AG ELD IAACFIGG S GG G + GA+IGA VM ++NGMS++ Sbjct: 297 LVNTARLAAGSPSAGNMGELDAIAACFIGGTSMRGGSGTIYGALIGALVMASLDNGMSML 356 Query: 206 GIGIDYQQVIKGLVLLAAVFFDVYNKN 232 +G +Q ++KG +L+ AV+ DV ++ Sbjct: 357 DVGTYWQMIVKGSILVLAVWVDVSTRS 383 >gi|300310397|ref|YP_003774489.1| ribose/xylose/arabinose/galactoside ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 328 Score = 125 bits (314), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 61/145 (42%), Positives = 94/145 (64%) Query: 82 MPNVLIIMFALMVIYTFVTNRTTIGRRVYAVGGNEKAAKLSGIKTERVSFYTFVNMGMLA 141 +P +I+M + + + RT GR VYA+GGNE AA+LSG+KT R+ + G + Sbjct: 179 VPVPVILMLIVYALAWLLLQRTAFGRHVYAIGGNEMAARLSGVKTTRIKLAVYAISGFTS 238 Query: 142 ALAGLIFAARLNTATPKAGTGFELDVIAACFIGGASASGGVGKVMGAVIGAFVMGVMNNG 201 LA +I RL + P AG GFELD IAA +GG + +GG G V+G +IGA ++G++NNG Sbjct: 239 GLAAIILTGRLMSGQPNAGVGFELDAIAAVVLGGTAIAGGRGLVVGTLIGAVLLGILNNG 298 Query: 202 MSIMGIGIDYQQVIKGLVLLAAVFF 226 +++MGI Q +I+G+++L A++ Sbjct: 299 LNLMGINPYLQDIIRGVIILLAIYI 323 >gi|300310383|ref|YP_003774475.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 347 Score = 120 bits (301), Expect = 9e-29, Method: Compositional matrix adjust. Identities = 65/154 (42%), Positives = 105/154 (68%), Gaps = 4/154 (2%) Query: 82 MPNVLIIMFALMVIYTFVTNRTTIGRRVYAVGGNEKAAKLSGIKTE--RVSFYTFVNMGM 139 +PN ++I+F + + + + N+T GR +A+G NE+A +LSG+K + +V+ YTF G Sbjct: 194 IPNAVLILFLVAIGASIILNKTVFGRYTFALGSNEEALRLSGVKVDFWKVAVYTF--SGA 251 Query: 140 LAALAGLIFAARLNTATPKAGTGFELDVIAACFIGGASASGGVGKVMGAVIGAFVMGVMN 199 + +AGLI A+RLN+A P G G+ELD IAA IGG S SGG G ++G +IGAF+M V+ Sbjct: 252 ICGIAGLIIASRLNSAQPALGQGYELDAIAAVVIGGTSLSGGTGTILGTIIGAFIMSVLV 311 Query: 200 NGMSIMGIGIDYQQVIKGLVLLAAVFFDVYNKNK 233 NG+ IM + ++Q V+ G++++ AV+ D+ + + Sbjct: 312 NGLRIMSVAQEWQTVVTGVIIILAVYLDILRRRR 345 >gi|300310064|ref|YP_003774156.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 344 Score = 116 bits (290), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 58/152 (38%), Positives = 97/152 (63%) Query: 82 MPNVLIIMFALMVIYTFVTNRTTIGRRVYAVGGNEKAAKLSGIKTERVSFYTFVNMGMLA 141 +P ++ + A++++ + +T +G +YA+GGN +AA+L+GI+ V + + G+ + Sbjct: 188 VPWLIWVAVAVVLLSWVILRKTVLGMHIYAIGGNLQAARLTGIRVGLVLLFVYSISGLFS 247 Query: 142 ALAGLIFAARLNTATPKAGTGFELDVIAACFIGGASASGGVGKVMGAVIGAFVMGVMNNG 201 LAG + A+RL A G+G+ELD IAA +GG S GGVG + G V+GA ++GVMNNG Sbjct: 248 GLAGAMSASRLYGANGNWGSGYELDAIAAVVLGGTSLMGGVGSIWGTVVGALIIGVMNNG 307 Query: 202 MSIMGIGIDYQQVIKGLVLLAAVFFDVYNKNK 233 ++I+G+ +Q V KG V++ AV D + + Sbjct: 308 LTILGLSSFWQYVAKGAVIVLAVILDKWRQKD 339 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 0.326 0.140 0.395 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: 568,399 Number of extensions: 18505 Number of successful extensions: 123 Number of sequences better than 1.0e-08: 20 Number of HSP's gapped: 128 Number of HSP's successfully gapped: 20 Length of query: 233 Length of database: 1,619,870 Length adjustment: 82 Effective length of query: 151 Effective length of database: 1,231,600 Effective search space: 185971600 Effective search space used: 185971600 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: 129 (54.3 bits)