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= 0037.0078.p (304 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313833|ref|YP_003777925.1| sugar ABC transporter permease ... 547 e-157 gi|300309613|ref|YP_003773705.1| sugar ABC transporter permease ... 90 2e-19 gi|300312388|ref|YP_003776480.1| sugar ABC transporter permease ... 89 4e-19 gi|300312636|ref|YP_003776728.1| sugar ABC transporter permease ... 84 2e-17 gi|300313088|ref|YP_003777180.1| sn-glycerol-3-phosphate ABC tra... 80 2e-16 >gi|300313833|ref|YP_003777925.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 304 Score = 547 bits (1409), Expect = e-157, Method: Compositional matrix adjust. Identities = 269/304 (88%), Positives = 287/304 (94%) Query: 1 VKTARPWHIVAFLAPAVIIYSMFSALPLLDTLRLGFYTSNDAGVHSFVGLDNYRTILFDS 60 +KT R W + LAPAV+IY++FSALPLLDTLRLGFYT+NDAGV SFVGLDNYRTILFD Sbjct: 1 MKTIRAWQLAVLLAPAVLIYALFSALPLLDTLRLGFYTANDAGVRSFVGLDNYRTILFDP 60 Query: 61 DWSTAFWNAMWNNVKFFCIHMLLQNPIGLLLATLFSLKGLRGARTYRTLIFLPTLLSVVI 120 DWS AFWNAMWNNVKFFCIHM LQNPIGLLLATLFSLKGLRGARTYRTLIFLPTLLSVVI Sbjct: 61 DWSAAFWNAMWNNVKFFCIHMALQNPIGLLLATLFSLKGLRGARTYRTLIFLPTLLSVVI 120 Query: 121 IGFIWQLIISPLWGVGEKLMTLVGLGDYFAPFLGQESTALFTLSLISVWQYIGIPMMLIY 180 IGFIWQLI+SPLWGVGEKL+ VGL D+FAP+LGQESTAL TLSLISVWQY+GIPMMLIY Sbjct: 121 IGFIWQLILSPLWGVGEKLLGTVGLADWFAPWLGQESTALLTLSLISVWQYVGIPMMLIY 180 Query: 181 AALLAVPEEVLEAAHAEGASALRIFWQIKLPLIWPTLGLVTILTFVANFNAFDLIYSVKG 240 AALLAVPEEVLEAAHAEGASA+RIFWQIKLPLI+PTLGLVTILTFVANFNAFDLIYSVKG Sbjct: 181 AALLAVPEEVLEAAHAEGASAMRIFWQIKLPLIYPTLGLVTILTFVANFNAFDLIYSVKG 240 Query: 241 ALAGPNYSSDLLGTFFYRTFFGYQAQVGSPTMGAAVATLMFLVILAGVGAYFYLVQRKLT 300 ALAGPNY+SDLLGT+FYRTFFGYQAQ+GSPTMGAAVATLMFLVIL GVGAYF LVQR+LT Sbjct: 241 ALAGPNYASDLLGTYFYRTFFGYQAQIGSPTMGAAVATLMFLVILGGVGAYFVLVQRRLT 300 Query: 301 RYEL 304 RY + Sbjct: 301 RYAM 304 >gi|300309613|ref|YP_003773705.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 311 Score = 89.7 bits (221), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 85/292 (29%), Positives = 137/292 (46%), Gaps = 22/292 (7%) Query: 12 FLAPAVIIYSMFSALPLLDTLRLGFYTSNDAGVHSFVGLDNYRTILFDSDWSTAFWNAMW 71 FLAPA ++ ++ P+L T+ L F++ + FVGL NY + + F+ A+ Sbjct: 41 FLAPACVMTLVYVLYPILYTIYLSFFSWDGMTEPRFVGLANYVELFH----APTFYTALK 96 Query: 72 NNVKFFCIHMLLQNPIGLLLATLFSLKGLRGARTYRTLIFLPTLLSVVIIGFIWQLIISP 131 NNV + + LL P+GL +A + K + G R ++L F P +LS V++G ++ P Sbjct: 97 NNV-LWLLMFLLAPPMGLAIALYLNQKVI-GMRVVKSLFFAPFVLSGVVVGLMYSWFYDP 154 Query: 132 LWGVGEKLMTLVGLGDYFAPFLGQESTALFTLSLISVWQYIGIPMMLIYAALLAVPEEVL 191 +G+ L L G G P LG A F + ++W M+L L A+ + + Sbjct: 155 SFGL---LSLLFGQG---VPVLGDARYATFGIIFAALWPQTAYCMILFLTGLTALNHDQV 208 Query: 192 EAAHAEGASALRIFWQIKLPLIWPTLGLVTILTFVANFNAFDLIYSVKGALAGPNYSSDL 251 EAA EGA + + LP + T + +++ + +FDLI + GP SS + Sbjct: 209 EAARMEGAKGWTMLRYVILPQLRSTTFMAFVVSIIGALRSFDLISVMTS--GGPYESSTV 266 Query: 252 LGTFFYRTFFGYQAQVGSPTMGAAVATLMFLVILAGVGAYFYLVQRKLTRYE 303 L + Y Y Q S AAVA +F ++L Y R++ R E Sbjct: 267 LAYYAYDQAIKYYRQGYS----AAVAVTLFAIML----VYIVYQLRRMLRAE 310 >gi|300312388|ref|YP_003776480.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 291 Score = 89.4 bits (220), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 86/264 (32%), Positives = 132/264 (50%), Gaps = 23/264 (8%) Query: 6 PWHIVAFLAPAVIIYSMFSALPLLDTLRLGFYTSNDAGVHS--FVGLDNYRTILFDSDWS 63 PW + L+PA+++ F+ P L TL F+ S GV FVGL+NYR + D Sbjct: 10 PWLL---LSPAMVLLIAFTHYPALATLWHSFF-STPKGVRPSVFVGLENYRLMADDP--- 62 Query: 64 TAFWNAMWNNVKFFCIHMLLQNPIGLLLATLFSL---KGLRGARTYRTLIFLPTLLSVVI 120 FW A+ NN+ F L P+ + LA L +L + L G R F PT+L ++ Sbjct: 63 -VFWQALCNNLWF----ALGTIPLAIALAILMALWVNEKLAGRGVLRLAYFTPTVLPMIA 117 Query: 121 IGFIWQLIISPLWGVGEKLMTLVGLGDYFAPFLGQESTALFTLSLISVWQYIGIPMMLIY 180 + IW +P +G+ E++ +GL + +LG T L L +++VW+ G M+ Sbjct: 118 VANIWLFFYTPQYGLLEQITGALGLPSH--NWLGNPQTVLGALMVVAVWKEAGFFMIFYL 175 Query: 181 AALLAVPEEVLEAAHAEGASALRIFWQIKLPLIWPTLGLVTILTFVANFNAFD-LIYSVK 239 AAL + + EAA EGAS + FW+++ PL+ PT V I + F D ++ K Sbjct: 176 AALQQISPVLAEAAALEGASRWQYFWRVQFPLLMPTTLFVLINALINAFRLVDHIVVMTK 235 Query: 240 GALAGPNYSSDLLGTFFYRTFFGY 263 G GP+ +S LL + Y F + Sbjct: 236 G---GPDNASSLLLYYIYEVGFAF 256 >gi|300312636|ref|YP_003776728.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 299 Score = 83.6 bits (205), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 80/288 (27%), Positives = 137/288 (47%), Gaps = 13/288 (4%) Query: 12 FLAPAVIIYSMFSALPLLDTLRLGFYTSNDAGVHSFVGLDNYRTILFDSDWSTAFWNAMW 71 F+APAVI+ +F PL + LGF + G SF+GLDN+ + DS + +N ++ Sbjct: 16 FMAPAVILLVVFLTYPLGLGIWLGFTDTKIGGEGSFIGLDNFTYLAGDSLAQLSLFNTVF 75 Query: 72 NNVKFFCIHMLLQNPIGLLLATLFSLKGLRGARTYRTLIFLPTLLSVVIIGFIWQLIISP 131 V + +L GL LA L + K + +R ++ LP ++ + + + Sbjct: 76 YTVSASILKFML----GLWLAILLN-KNVPLKTFFRAIVLLPWIVPTALSALAFWWLYDA 130 Query: 132 LWGVGEKLMTLVGLGDYFAPFLGQESTALFTLSLISVWQYIGIPMMLIYAALLAVPEEVL 191 + V + +GL D + FLG A ++ +VW+ I + + A L + + Sbjct: 131 QFSVISWALHKMGLIDRYIDFLGDPWNARWSTVFANVWRGIPFVAISLLAGLQTISPSLY 190 Query: 192 EAAHAEGASALRIFWQIKLPLIWPTLGLVTILTFVANFNAFDLIYSVKGALAGPNYSSDL 251 EAA +GA+ + F + LPL+ P + +V + + F F LIY + GP ++ L Sbjct: 191 EAAAIDGATPWQQFRHVTLPLLTPIIAVVMTFSVLFTFTDFQLIYVLTR--GGPLNATHL 248 Query: 252 LGTF-FYRTFFGYQAQVGSPTMGAAVATLMFLVILAGVGAYFYLVQRK 298 + T F R G G+ GAA+AT M +LA + ++ +QR+ Sbjct: 249 MATLSFQRAIPG-----GALGEGAALATYMIPFLLAAIMFSYFGLQRR 291 >gi|300313088|ref|YP_003777180.1| sn-glycerol-3-phosphate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 294 Score = 80.1 bits (196), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 91/314 (28%), Positives = 154/314 (49%), Gaps = 41/314 (13%) Query: 2 KTAR---PWHIVAFLAPAVIIYSMFSALPLLDTLRLGFYTSNDAGVHS-FVGLDNYRTIL 57 K AR W +AP +II +F P + L + G +S FV DN++T+ Sbjct: 3 KRARFTSKWLPYLLVAPQIIITLLFFFWPAVQALYQSMLLQDAFGGYSEFVWFDNFKTLF 62 Query: 58 FDSDW-----STAFWNAMWNNVKFFCIHMLLQNPIGLLLATLFSLKGLRGARTYRTLIFL 112 D + +TA ++A+ V FF + + LLLA +F+ + RGA Y+T + Sbjct: 63 GDPTYLESFRTTAIFSAL---VAFFGLAL------SLLLA-VFADRVRRGASIYKTFLIW 112 Query: 113 PTLLSVVIIGFIWQLIISPLWGVGEKLMTLVGLG-DYFAPFLGQESTALFTLSLISVWQY 171 P +S V++G +W ++SP G+ +++ +GL DY + + A+ + + ++W+ Sbjct: 113 PYAVSPVVVGVLWMFLLSPSLGILSHVLSWLGLPWDY----MINGTHAMILIVIAAIWKQ 168 Query: 172 IGIPMMLIYAALLAVPEEVLEAAHAEGASALRIFWQIKLPLIWPTLGLVTILTFVAN--F 229 I + A L ++P+ ++EAA +GA ++ F+ I PLI PT T FV N + Sbjct: 169 ISYNFLFFLAGLQSIPKSLIEAAAIDGAGPVKRFFTIVFPLISPT----TFFLFVVNVVY 224 Query: 230 NAFDLIYSVKGAL-AGPNYSSDLLGTFFYRTFF-GYQAQVGSPTMGAAVAT--LMFLVIL 285 FD V GP +++L Y+ F G++ G G+A + LM LVIL Sbjct: 225 AFFDTFVIVDATTHGGPGKDTEIL---VYKVFSDGFK---GGDLGGSAAQSVVLMALVIL 278 Query: 286 AGVGAYFYLVQRKL 299 V + Y V++K+ Sbjct: 279 LTVVQFKY-VEKKV 291 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 0.329 0.143 0.451 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: 981,873 Number of extensions: 42591 Number of successful extensions: 212 Number of sequences better than 1.0e-08: 11 Number of HSP's gapped: 199 Number of HSP's successfully gapped: 11 Length of query: 304 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 219 Effective length of database: 1,217,395 Effective search space: 266609505 Effective search space used: 266609505 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)