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= 0020.0523.p (405 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 ... 806 0.0 gi|300313778|ref|YP_003777870.1| D-xylose ABC transporter permea... 204 1e-53 gi|300310397|ref|YP_003774489.1| ribose/xylose/arabinose/galacto... 149 4e-37 gi|300310064|ref|YP_003774156.1| sugar ABC transporter permease ... 120 2e-28 gi|300310383|ref|YP_003774475.1| sugar ABC transporter permease ... 114 1e-26 >gi|300310372|ref|YP_003774464.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 405 Score = 806 bits (2081), Expect = 0.0, Method: Compositional matrix adjust. Identities = 405/405 (100%), Positives = 405/405 (100%) Query: 1 MESIDMSKKPAAAAAGGAAEKKDYGSFLKNNMREYGMLMSLVAIMAFFQIMTDGTLMRPL 60 MESIDMSKKPAAAAAGGAAEKKDYGSFLKNNMREYGMLMSLVAIMAFFQIMTDGTLMRPL Sbjct: 1 MESIDMSKKPAAAAAGGAAEKKDYGSFLKNNMREYGMLMSLVAIMAFFQIMTDGTLMRPL 60 Query: 61 NLTNLVLQNSYIVIMALGMLMVIVAGHIDLSVGSVVGLIGALAAVLMVDYGWGFVPASIV 120 NLTNLVLQNSYIVIMALGMLMVIVAGHIDLSVGSVVGLIGALAAVLMVDYGWGFVPASIV Sbjct: 61 NLTNLVLQNSYIVIMALGMLMVIVAGHIDLSVGSVVGLIGALAAVLMVDYGWGFVPASIV 120 Query: 121 CLIAGGLIGAAQGYWIAYFKIPSFIVTLAGMLVFKGMALALLQGQSLGPFPQTFQMLSSG 180 CLIAGGLIGAAQGYWIAYFKIPSFIVTLAGMLVFKGMALALLQGQSLGPFPQTFQMLSSG Sbjct: 121 CLIAGGLIGAAQGYWIAYFKIPSFIVTLAGMLVFKGMALALLQGQSLGPFPQTFQMLSSG 180 Query: 181 FIPELTGNTTFRTTSLIVGVIAAVVLILVKLHGRRKQTKHGMEDEPVLFFLLKNGVFAAA 240 FIPELTGNTTFRTTSLIVGVIAAVVLILVKLHGRRKQTKHGMEDEPVLFFLLKNGVFAAA Sbjct: 181 FIPELTGNTTFRTTSLIVGVIAAVVLILVKLHGRRKQTKHGMEDEPVLFFLLKNGVFAAA 240 Query: 241 IIAFSYLLSTYRGMPNVLIIMFALMVLYTFITSRTTLGRRVYAVGGNEKAAKLSGIKTER 300 IIAFSYLLSTYRGMPNVLIIMFALMVLYTFITSRTTLGRRVYAVGGNEKAAKLSGIKTER Sbjct: 241 IIAFSYLLSTYRGMPNVLIIMFALMVLYTFITSRTTLGRRVYAVGGNEKAAKLSGIKTER 300 Query: 301 VSFFTFVNMGVLAALAGLIFAARLNTATPKAGLGFELDVIAACFIGGASASGGVGKVMGA 360 VSFFTFVNMGVLAALAGLIFAARLNTATPKAGLGFELDVIAACFIGGASASGGVGKVMGA Sbjct: 301 VSFFTFVNMGVLAALAGLIFAARLNTATPKAGLGFELDVIAACFIGGASASGGVGKVMGA 360 Query: 361 VIGAFVMGVMNNGMSIMGIGIDYQQMIKGFVLLMAVCFDVYNKNK 405 VIGAFVMGVMNNGMSIMGIGIDYQQMIKGFVLLMAVCFDVYNKNK Sbjct: 361 VIGAFVMGVMNNGMSIMGIGIDYQQMIKGFVLLMAVCFDVYNKNK 405 >gi|300313778|ref|YP_003777870.1| D-xylose ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 385 Score = 204 bits (518), Expect = 1e-53, Method: Compositional matrix adjust. Identities = 143/358 (39%), Positives = 218/358 (60%), Gaps = 8/358 (2%) Query: 47 FFQIMTDGTLMRPLNLTNLVLQNSYIVIMALGMLMVIVAGHIDLSVGSVVGLIGALAAVL 106 FF MTDG + P NL+NL+ Q S I+A GM++VI+AG IDLSVGS++GL+G LAA+L Sbjct: 34 FFSFMTDGGFVTPRNLSNLLRQMSVTGILACGMVLVIIAGEIDLSVGSLLGLLGGLAALL 93 Query: 107 MVDYGWGFVPASIVCLIAGGLIGAAQGYWIAYFKIPSFIVTLAGMLVFKGMALALLQGQS 166 V + ++ L G +G GY AY IPSFIV L GML F+G+ L + G + Sbjct: 94 DVSHHLPLALNLVLALGFGLALGLLNGYLTAYLGIPSFIVGLGGMLAFRGILLGITGGLT 153 Query: 167 LGPFPQTFQMLSSGFIPELTGNTTFRTTSLIVGVIAAVVLILVKLHGRRKQTKHGMEDEP 226 + P L G++P G + +G+ V+ + + R +++HG+ Sbjct: 154 IAPVSDNMVYLGQGYLPPQMG--------VALGIALFVLAVALTWMSRVNRSRHGLPLAA 205 Query: 227 VLFFLLKNGVFAAAIIAFSYLLSTYRGMPNVLIIMFALMVLYTFITSRTTLGRRVYAVGG 286 + LK V A ++AF L++Y G+P ++++ AL+ L+++++++T GRR+Y+VG Sbjct: 206 LWRDALKVVVIGAVLLAFVRTLNSYDGIPVPVLLLLALLGLFSYVSTQTVFGRRIYSVGS 265 Query: 287 NEKAAKLSGIKTERVSFFTFVNMGVLAALAGLIFAARLNTATPKAGLGFELDVIAACFIG 346 N +A +LSG+ + V + F MGV+ ALAGL+ ARL +P AG ELD IAACFIG Sbjct: 266 NMEATRLSGVNVQAVKLWVFGIMGVMCALAGLVNTARLAAGSPSAGNMGELDAIAACFIG 325 Query: 347 GASASGGVGKVMGAVIGAFVMGVMNNGMSIMGIGIDYQQMIKGFVLLMAVCFDVYNKN 404 G S GG G + GA+IGA VM ++NGMS++ +G +Q ++KG +L++AV DV ++ Sbjct: 326 GTSMRGGSGTIYGALIGALVMASLDNGMSMLDVGTYWQMIVKGSILVLAVWVDVSTRS 383 >gi|300310397|ref|YP_003774489.1| ribose/xylose/arabinose/galactoside ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 328 Score = 149 bits (376), Expect = 4e-37, Method: Compositional matrix adjust. Identities = 112/339 (33%), Positives = 166/339 (48%), Gaps = 75/339 (22%) Query: 61 NLTNLVLQNSYIVIMALGMLMVIVAGHIDLSVGSVVGLIGALAAVLMVDYGWGFVPASIV 120 N N++ Q S + I+A+GM VI+ G IDLSVG+ + L G ++A L+V+ G +PA + Sbjct: 55 NWFNVLRQVSIVGILAVGMSFVILTGGIDLSVGAAMALAGTISAGLIVNSG---LPAPLA 111 Query: 121 CLIAGGL---IGAAQGYWIAYFKIPSFIVTLAGMLVFKGMALALLQGQSLGPFPQTFQML 177 L GL IG G +A+ ++P+ IVTLA M V +G+ L G + P Sbjct: 112 LLCGVGLATCIGLLNGALVAWGRMPAIIVTLATMGVARGVGLIYSGGYPISGLPGWISWF 171 Query: 178 SSGFIPELTGNTTFRTTSLIVGVIAAVVLILVKLHGRRKQTKHGMEDEPVLFFLLKNGVF 237 G I GM PV+ L+ Sbjct: 172 GVGRI--------------------------------------GMVPVPVILMLI----- 188 Query: 238 AAAIIAFSYLLSTYRGMPNVLIIMFALMVLYTFITSRTTLGRRVYAVGGNEKAAKLSGIK 297 + A ++LL RT GR VYA+GGNE AA+LSG+K Sbjct: 189 ---VYALAWLL-----------------------LQRTAFGRHVYAIGGNEMAARLSGVK 222 Query: 298 TERVSFFTFVNMGVLAALAGLIFAARLNTATPKAGLGFELDVIAACFIGGASASGGVGKV 357 T R+ + G + LA +I RL + P AG+GFELD IAA +GG + +GG G V Sbjct: 223 TTRIKLAVYAISGFTSGLAAIILTGRLMSGQPNAGVGFELDAIAAVVLGGTAIAGGRGLV 282 Query: 358 MGAVIGAFVMGVMNNGMSIMGIGIDYQQMIKGFVLLMAV 396 +G +IGA ++G++NNG+++MGI Q +I+G ++L+A+ Sbjct: 283 VGTLIGAVLLGILNNGLNLMGINPYLQDIIRGVIILLAI 321 >gi|300310064|ref|YP_003774156.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 344 Score = 120 bits (301), Expect = 2e-28, Method: Compositional matrix adjust. Identities = 102/345 (29%), Positives = 165/345 (47%), Gaps = 70/345 (20%) Query: 61 NLTNLVLQNSYIVIMALGMLMVIVAGHIDLSVGSVVGLIGALAAVLMVDYGWGFVPASIV 120 N N++ Q + +++A GM VI+ IDLSVGSV+ A++AVL + Sbjct: 65 NTMNILRQVAINLVLAAGMTFVILTAGIDLSVGSVL----AVSAVLGMQVS--------- 111 Query: 121 CLIAGGLIGAAQGYWIAYFKIPSFIVTLAGMLVFKGMALALLQGQSLGPFPQTFQMLSSG 180 +GAA G+ IP FI F G+ + ++ G + + Sbjct: 112 -------LGAAPGW-----AIPMFI--------FSGLVMGMVNGAMVALLNI------NA 145 Query: 181 FIPELTGNTTFRTTSLIVGVIAAVVLILVKLHGRRKQTKHGMEDEPVLFFLLKNGVFAAA 240 F+ L T FR + ++ V + ++ F + NG F Sbjct: 146 FVVTLGTMTAFRGAAYLLADGTTV-----------------LNNDIPSFEWIGNGDFLH- 187 Query: 241 IIAFSYLLSTYRGMPNVLIIMFALMVLYTFITSRTTLGRRVYAVGGNEKAAKLSGIKTER 300 +P ++ + A+++L I +T LG +YA+GGN +AA+L+GI+ Sbjct: 188 -------------VPWLIWVAVAVVLLSWVILRKTVLGMHIYAIGGNLQAARLTGIRVGL 234 Query: 301 VSFFTFVNMGVLAALAGLIFAARLNTATPKAGLGFELDVIAACFIGGASASGGVGKVMGA 360 V F + G+ + LAG + A+RL A G G+ELD IAA +GG S GGVG + G Sbjct: 235 VLLFVYSISGLFSGLAGAMSASRLYGANGNWGSGYELDAIAAVVLGGTSLMGGVGSIWGT 294 Query: 361 VIGAFVMGVMNNGMSIMGIGIDYQQMIKGFVLLMAVCFDVYNKNK 405 V+GA ++GVMNNG++I+G+ +Q + KG V+++AV D + + Sbjct: 295 VVGALIIGVMNNGLTILGLSSFWQYVAKGAVIVLAVILDKWRQKD 339 >gi|300310383|ref|YP_003774475.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 347 Score = 114 bits (285), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 63/154 (40%), Positives = 104/154 (67%), Gaps = 4/154 (2%) Query: 254 MPNVLIIMFALMVLYTFITSRTTLGRRVYAVGGNEKAAKLSGIKTE--RVSFFTFVNMGV 311 +PN ++I+F + + + I ++T GR +A+G NE+A +LSG+K + +V+ +TF G Sbjct: 194 IPNAVLILFLVAIGASIILNKTVFGRYTFALGSNEEALRLSGVKVDFWKVAVYTF--SGA 251 Query: 312 LAALAGLIFAARLNTATPKAGLGFELDVIAACFIGGASASGGVGKVMGAVIGAFVMGVMN 371 + +AGLI A+RLN+A P G G+ELD IAA IGG S SGG G ++G +IGAF+M V+ Sbjct: 252 ICGIAGLIIASRLNSAQPALGQGYELDAIAAVVIGGTSLSGGTGTILGTIIGAFIMSVLV 311 Query: 372 NGMSIMGIGIDYQQMIKGFVLLMAVCFDVYNKNK 405 NG+ IM + ++Q ++ G ++++AV D+ + + Sbjct: 312 NGLRIMSVAQEWQTVVTGVIIILAVYLDILRRRR 345 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 0.407 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: 1,000,913 Number of extensions: 35162 Number of successful extensions: 264 Number of sequences better than 1.0e-08: 18 Number of HSP's gapped: 263 Number of HSP's successfully gapped: 27 Length of query: 405 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 318 Effective length of database: 1,207,925 Effective search space: 384120150 Effective search space used: 384120150 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: 132 (55.5 bits)