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= 0346.0053.p (307 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value Q65GC5.1 Q65GC5_BACLD Integral membrane protein 308 3e-82 B4BMB6.1 B4BMB6_9BACI Binding-protein-dependent transport system... 302 2e-80 A4IP99.1 A4IP99_GEOTN L-arabinose transport system (Permease) 302 2e-80 A7Z7G2.1 A7Z7G2_BACA2 AraP 295 5e-78 P94529.1 ARAP_BACSU L-arabinose transport system permease protei... 294 9e-78 >Q65GC5.1 Q65GC5_BACLD Integral membrane protein Length = 314 Score = 308 bits (790), Expect = 3e-82, Method: Compositional matrix adjust. Identities = 153/269 (56%), Positives = 193/269 (71%), Gaps = 1/269 (0%) Query: 12 RRSYQLGNSQKLAPYVFVFPFLLSFAVFFAYPLINAGVMSFQEVLPGEVTFTGLDNYRAL 71 R+ +L S K APY+F PF+LSF +FF YPLI+ +MSFQ +LPGEV F G +NY+AL Sbjct: 19 RKIRRLLYSAKAAPYIFTAPFVLSFCIFFLYPLISVVIMSFQSILPGEVRFIGTENYKAL 78 Query: 72 WNEDFGAALYNSSRYTVWTLLLLIPVPMILAVLLNSKKMPWSNFFRSTLFIPALTSVVVA 131 N F AL+N+ +YT WTLL+LIPVP+ILAV L+SK + + N F+S LFIPALTS +VA Sbjct: 79 NNPTFYTALFNTVKYTFWTLLILIPVPLILAVFLDSKLVKFKNVFKSALFIPALTSTIVA 138 Query: 132 GVVFRLIFGELDGALMNSVLHLFGISSQRWLYSSSLGMFALLVLAGWRWIGINILYFLSA 191 G++FRLIFGE+D +L NS+L G S WL + GMF +++LA WRW+GIN+LYFL+ Sbjct: 139 GIIFRLIFGEMDTSLANSILAKLGGSPYNWLNNEHTGMFLMVMLASWRWMGINVLYFLAG 198 Query: 192 LQSIPGELYEAAEIDGAGAFRKLIRITVPLLKPXXXXXXXXXXXXXXAMFTESYMLWAGK 251 LQ++P ELYEAAEIDGAG F+K IT+P LKP MF ESY+LW Sbjct: 199 LQNVPKELYEAAEIDGAGTFKKFYHITLPFLKPVSVYVLTISIIGGFRMFEESYVLWQNN 258 Query: 252 PSPQNIGLTIVGYIYQQGFQYFNLGFGSA 280 SP NIGLT+VGYIYQQG Y N+G+GSA Sbjct: 259 -SPGNIGLTMVGYIYQQGLAYNNMGYGSA 286 >B4BMB6.1 B4BMB6_9BACI Binding-protein-dependent transport systems inner membrane component Length = 310 Score = 302 bits (774), Expect = 2e-80, Method: Compositional matrix adjust. Identities = 155/295 (52%), Positives = 200/295 (67%), Gaps = 1/295 (0%) Query: 12 RRSYQLGNSQKLAPYVFVFPFLLSFAVFFAYPLINAGVMSFQEVLPGEVTFTGLDNYRAL 71 R+ + SQK+APY+FV PF+LSF +FF YP I+ +MSFQEVLPGE F G++NY+ L Sbjct: 16 RKGNGIIFSQKVAPYIFVSPFILSFLIFFLYPSISTIIMSFQEVLPGETKFIGVENYKKL 75 Query: 72 WNEDFGAALYNSSRYTVWTLLLLIPVPMILAVLLNSKKMPWSNFFRSTLFIPALTSVVVA 131 N F AAL N++ YT+WTL++LIP+P++LAV+LNSK +P NFFRS FIPALTS +V Sbjct: 76 LNPHFYAALRNTTIYTIWTLIILIPLPLVLAVILNSKAIPGRNFFRSAYFIPALTSTIVV 135 Query: 132 GVVFRLIFGELDGALMNSVLHLFGISSQRWLYSSSLGMFALLVLAGWRWIGINILYFLSA 191 GVVFRLIFGEL+ A N++L L G+ +Q+W GMF ++ LA W+W+G+NILYFLS Sbjct: 136 GVVFRLIFGELESAPANALLKLLGLPAQQWTMHWGTGMFLMVFLASWKWLGVNILYFLSG 195 Query: 192 LQSIPGELYEAAEIDGAGAFRKLIRITVPLLKPXXXXXXXXXXXXXXAMFTESYMLWAGK 251 LQSIP ELYE+AEIDGAG FRK IT+PLLKP M+ ES++ W + Sbjct: 196 LQSIPKELYESAEIDGAGMFRKFFYITLPLLKPVVIYVLTISIFGGFRMYEESFVFWQNQ 255 Query: 252 PSPQNIGLTIVGYIYQQGFQYFNLGFGSAXXXXXXXXXXXXXXXXXXXXXMFKKE 306 SP +IGLT+VGYIY++GF ++GFGSA FKKE Sbjct: 256 -SPGDIGLTLVGYIYREGFINNDMGFGSAIGIVLLIIVFVINIIQLKVTGAFKKE 309 >A4IP99.1 A4IP99_GEOTN L-arabinose transport system (Permease) Length = 310 Score = 302 bits (774), Expect = 2e-80, Method: Compositional matrix adjust. Identities = 155/295 (52%), Positives = 200/295 (67%), Gaps = 1/295 (0%) Query: 12 RRSYQLGNSQKLAPYVFVFPFLLSFAVFFAYPLINAGVMSFQEVLPGEVTFTGLDNYRAL 71 R+ + SQK+APY+FV PF+LSF +FF YP I+ +MSFQEVLPGE F G++NY+ L Sbjct: 16 RKGNGIIFSQKVAPYIFVSPFILSFLIFFLYPSISTIIMSFQEVLPGETKFIGVENYKKL 75 Query: 72 WNEDFGAALYNSSRYTVWTLLLLIPVPMILAVLLNSKKMPWSNFFRSTLFIPALTSVVVA 131 N F AAL N++ YT+WTL++LIP+P++LAV+LNSK +P NFFRS FIPALTS +V Sbjct: 76 LNPHFYAALRNTTIYTIWTLIILIPLPLVLAVILNSKAIPGRNFFRSAYFIPALTSTIVV 135 Query: 132 GVVFRLIFGELDGALMNSVLHLFGISSQRWLYSSSLGMFALLVLAGWRWIGINILYFLSA 191 GVVFRLIFGEL+ A N++L L G+ +Q+W GMF ++ LA W+W+G+NILYFLS Sbjct: 136 GVVFRLIFGELESAPANALLKLLGMPAQQWTMHWGTGMFLMVFLASWKWLGVNILYFLSG 195 Query: 192 LQSIPGELYEAAEIDGAGAFRKLIRITVPLLKPXXXXXXXXXXXXXXAMFTESYMLWAGK 251 LQSIP ELYE+AEIDGAG FRK IT+PLLKP M+ ES++ W + Sbjct: 196 LQSIPKELYESAEIDGAGMFRKFFYITLPLLKPVVIYVLTISIFGGFRMYEESFVFWQNQ 255 Query: 252 PSPQNIGLTIVGYIYQQGFQYFNLGFGSAXXXXXXXXXXXXXXXXXXXXXMFKKE 306 SP +IGLT+VGYIY++GF ++GFGSA FKKE Sbjct: 256 -SPGDIGLTLVGYIYREGFINNDMGFGSAIGIVLLIIVFVINIIQLKVTGAFKKE 309 >A7Z7G2.1 A7Z7G2_BACA2 AraP Length = 313 Score = 295 bits (754), Expect = 5e-78, Method: Compositional matrix adjust. Identities = 147/279 (52%), Positives = 194/279 (69%), Gaps = 2/279 (0%) Query: 2 QIERELTKNPRRSYQLGNSQKLAPYVFVFPFLLSFAVFFAYPLINAGVMSFQEVLPGEVT 61 Q + K PRR L S+K APY+F PF++SF VFF YP+I+ +MSFQ +LPGE+T Sbjct: 10 QTVSAVRKKPRRRNVL-YSKKAAPYLFTAPFIISFLVFFLYPIISVFIMSFQRILPGEIT 68 Query: 62 FTGLDNYRALWNEDFGAALYNSSRYTVWTLLLLIPVPMILAVLLNSKKMPWSNFFRSTLF 121 F G NY AL N F AL+N+ YT WTL++LIPVP++LAV+LNSK + + N F+S LF Sbjct: 69 FVGFSNYTALLNPTFYTALFNTLEYTFWTLIVLIPVPLLLAVILNSKLVRFRNVFKSALF 128 Query: 122 IPALTSVVVAGVVFRLIFGELDGALMNSVLHLFGISSQRWLYSSSLGMFALLVLAGWRWI 181 +PALTS +VAG++FRL+FGE++ +L N ++ G S Q WL + GMF +++LA WRW+ Sbjct: 129 VPALTSTIVAGIIFRLMFGEMNTSLANELMMKLGASPQNWLNNKGTGMFLMVLLASWRWM 188 Query: 182 GINILYFLSALQSIPGELYEAAEIDGAGAFRKLIRITVPLLKPXXXXXXXXXXXXXXAMF 241 GINILYFL+ LQ++P ELYEAAEIDGA ++K IT+P LKP MF Sbjct: 189 GINILYFLAGLQNVPKELYEAAEIDGASTWKKFRHITLPFLKPVSVYVLTISIIGGFRMF 248 Query: 242 TESYMLWAGKPSPQNIGLTIVGYIYQQGFQYFNLGFGSA 280 ESY+LW SP NIGLT+VGY+YQQG Y +G+G+A Sbjct: 249 EESYVLWQNN-SPGNIGLTLVGYLYQQGLAYNEMGYGAA 286 >P94529.1 ARAP_BACSU L-arabinose transport system permease protein araP Length = 313 Score = 294 bits (752), Expect = 9e-78, Method: Compositional matrix adjust. Identities = 144/261 (55%), Positives = 188/261 (72%), Gaps = 1/261 (0%) Query: 20 SQKLAPYVFVFPFLLSFAVFFAYPLINAGVMSFQEVLPGEVTFTGLDNYRALWNEDFGAA 79 S+K APY+F PF+LSF VFF YP+I+ +MSFQ +LPGEV+F GL NY AL N F A Sbjct: 27 SKKAAPYLFTAPFVLSFLVFFLYPIISVFIMSFQRILPGEVSFVGLSNYTALNNPTFYTA 86 Query: 80 LYNSSRYTVWTLLLLIPVPMILAVLLNSKKMPWSNFFRSTLFIPALTSVVVAGVVFRLIF 139 L+N+ YT WTL++LIPVP++LA+ LNSK + + N F+S LFIPALTS +VAG++FRLIF Sbjct: 87 LWNTLEYTFWTLIVLIPVPLLLAIFLNSKLVKFRNIFKSALFIPALTSTIVAGIIFRLIF 146 Query: 140 GELDGALMNSVLHLFGISSQRWLYSSSLGMFALLVLAGWRWIGINILYFLSALQSIPGEL 199 GE++ +L NS+L G S Q W+ + GMF +++LA WRW+GINILYFL+ LQ++P EL Sbjct: 147 GEMETSLANSILLKLGFSPQNWMNNEHTGMFLMVLLASWRWMGINILYFLAGLQNVPKEL 206 Query: 200 YEAAEIDGAGAFRKLIRITVPLLKPXXXXXXXXXXXXXXAMFTESYMLWAGKPSPQNIGL 259 YEAA+IDGA +K + IT+P LKP MF ESY+LW SP NIGL Sbjct: 207 YEAADIDGANTMKKFLHITLPFLKPVTVYVLTISIIGGFRMFEESYVLWQNN-SPGNIGL 265 Query: 260 TIVGYIYQQGFQYFNLGFGSA 280 T+VGY+YQQG Y +G+G+A Sbjct: 266 TLVGYLYQQGLAYNEMGYGAA 286 Database: pfamseq Posted date: Aug 5, 2010 3:22 PM Number of letters in database: 3,060,696,203 Number of sequences in database: 9,421,015 Lambda K H 0.327 0.142 0.436 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 9421015 Number of Hits to DB: 1,594,028,993 Number of extensions: 61445607 Number of successful extensions: 209145 Number of sequences better than 1.0e-05: 5620 Number of HSP's gapped: 201307 Number of HSP's successfully gapped: 5623 Length of query: 307 Length of database: 3,060,696,203 Length adjustment: 135 Effective length of query: 172 Effective length of database: 1,788,859,178 Effective search space: 307683778616 Effective search space used: 307683778616 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: 131 (55.1 bits)