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= 0057.0003.p (297 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B1DAF4.1 B1DAF4_9BACL Binding-protein-dependent transport system... 350 8e-95 B1DGV6.1 B1DGV6_9BACL Binding-protein-dependent transport system... 279 2e-73 B3KAR0.1 B3KAR0_9BACI Binding-protein-dependent transport system... 272 2e-71 B8I8V8.1 B8I8V8_CLOCE Binding-protein-dependent transport system... 249 2e-64 A3YH21.1 A3YH21_9GAMM Putative sugar transport system permease p... 236 3e-60 >B1DAF4.1 B1DAF4_9BACL Binding-protein-dependent transport systems inner membrane component Length = 294 Score = 350 bits (899), Expect = 8e-95, Method: Compositional matrix adjust. Identities = 169/292 (57%), Positives = 224/292 (76%), Gaps = 1/292 (0%) Query: 5 LSYNKQKTIIIVSFLLIPLALLATFTYYPAIKLIYYSFTDWDGYSPEKPWVGLANYREVF 64 +SY Q+ +I++SFL +PL LLA F++YPAI L + SFT WDGYSPEK WVG++NY+E+F Sbjct: 4 MSYKVQRYVILISFLTLPLLLLAVFSFYPAIYLTWLSFTSWDGYSPEKAWVGISNYKEIF 63 Query: 65 SNPDIFKVFTHNFAYFVMGLVQNIVAIYFAVVLNSKLRGRNGFRIMLFLPYIMNGVAVAF 124 +N DIFKV +HNF YF+ G+ QN++A++FAV+LNS+LRGRN FR++LFLPYIMN VA+A+ Sbjct: 64 TNADIFKVLSHNFVYFIGGIAQNVIALFFAVLLNSRLRGRNTFRVLLFLPYIMNSVAIAY 123 Query: 125 MFGYVFDTTNGSLNLFLNNIGLSSLAQTSWLGTEGLVNYSLASTGFWRFMGYNMVIYIAS 184 MF YV+D NGSLN L ++GL S + SWLG +VNYSLA W+FMG+NMVIY+ + Sbjct: 124 MFTYVYDAQNGSLNALLTSVGLESWIR-SWLGDAAIVNYSLAFISAWKFMGFNMVIYLGA 182 Query: 185 LQAIPRDIYEAAKIDGAGSFQTLWRVTLPNMKAVIQLNLFLTVTGALEVFDLPFVLTKGG 244 LQ+IP D+YEAAKIDGAG F++ +T P++ +++L++ LTV+GALEVFDLPFV+TKGG Sbjct: 183 LQSIPGDLYEAAKIDGAGPFKSFLYITWPSIIKIVELSMLLTVSGALEVFDLPFVMTKGG 242 Query: 245 PAGASQTYVQRVVDTAFAFNNYGLASAMSXXXXXXXXXXXXXXXXXXSRGGD 296 PAG+SQT+V + V+TAF F+NYGLASAM RGGD Sbjct: 243 PAGSSQTFVTQTVETAFNFSNYGLASAMGMVLLFIVVLVIFVQRKLILRGGD 294 >B1DGV6.1 B1DGV6_9BACL Binding-protein-dependent transport systems inner membrane component Length = 292 Score = 279 bits (714), Expect = 2e-73, Method: Compositional matrix adjust. Identities = 138/268 (51%), Positives = 190/268 (70%), Gaps = 3/268 (1%) Query: 6 SYNKQKTIIIVSFLLIPLALLATFTYYPAIKLIYYSFTDWDGYSPEKPWVGLANYREVFS 65 SY Q+ +I+ FL IP+ L TF+YYPAI L+YYS TDW G + ++GL NY+E+F+ Sbjct: 5 SYKTQRYLILFGFLTIPVLLSLTFSYYPAISLLYYSLTDWSGLGWDMNFIGLDNYKEIFT 64 Query: 66 NPDIFKVFTHNFAYFVMGLVQNIVAIYFAVVLNSKLRGRNGFRIMLFLPYIMNGVAVAFM 125 P++F +N YF+ GLVQ +++YFAV+L SKLRGRNGFR MLF+PY+++ VA M Sbjct: 65 KPEVFGALKNNLYYFIGGLVQVALSLYFAVILTSKLRGRNGFRAMLFIPYVLHSVATVIM 124 Query: 126 FGYVFDTTNGSLNLFLNNIGLSSLAQTSWLGTEGLVNYSLASTGFWRFMGYNMVIYIASL 185 F ++ GSLN+ L +IGL S Q SWLG + LVN+SLA W++MG NMVI+I +L Sbjct: 125 FKNLYHMEYGSLNVLLGSIGLESW-QQSWLGNKHLVNFSLAFISMWKYMGLNMVIFIGAL 183 Query: 186 QAIPRDIYEAAKIDGAGSFQTLWRVTLPNMKAVIQLNLFLTVTGALEVFDLPFVLTKGGP 245 Q+IP D+YEAA IDGA Q +TLP+++ V++L L LT+TGALE FD+P+V+ G Sbjct: 184 QSIPSDLYEAASIDGANGRQKFRFITLPSIRKVMELMLILTLTGALEAFDIPYVMLLG-- 241 Query: 246 AGASQTYVQRVVDTAFAFNNYGLASAMS 273 A + T+V + VDTAF + N+GLASAM+ Sbjct: 242 ANDTSTFVIKTVDTAFKYQNFGLASAMA 269 >B3KAR0.1 B3KAR0_9BACI Binding-protein-dependent transport systems inner membrane component Length = 294 Score = 272 bits (696), Expect = 2e-71, Method: Compositional matrix adjust. Identities = 133/268 (49%), Positives = 186/268 (69%), Gaps = 3/268 (1%) Query: 6 SYNKQKTIIIVSFLLIPLALLATFTYYPAIKLIYYSFTDWDGYSPEKPWVGLANYREVFS 65 SY Q+ +I+ FL IP+ L TF+YYPA+ L+YYS TDW G + ++G NY E+F+ Sbjct: 5 SYKTQRYLILFGFLAIPVLLSLTFSYYPALSLLYYSLTDWSGLGWDMNFIGFDNYVEIFT 64 Query: 66 NPDIFKVFTHNFAYFVMGLVQNIVAIYFAVVLNSKLRGRNGFRIMLFLPYIMNGVAVAFM 125 P++F +N Y + GL+Q + A+YFAV+L KL+GRNGFR+ LFLPY+++ VA M Sbjct: 65 KPEVFSSLKNNLYYLIGGLIQVVFALYFAVILTGKLKGRNGFRVALFLPYVLHSVATVIM 124 Query: 126 FGYVFDTTNGSLNLFLNNIGLSSLAQTSWLGTEGLVNYSLASTGFWRFMGYNMVIYIASL 185 F V+ GSLN L +GL S Q SWLG +G+VN++LA W++MG NMVI+I +L Sbjct: 125 FKNVYHMEYGSLNTLLGALGLESW-QQSWLGDKGIVNFALAFISMWKYMGLNMVIFIGAL 183 Query: 186 QAIPRDIYEAAKIDGAGSFQTLWRVTLPNMKAVIQLNLFLTVTGALEVFDLPFVLTKGGP 245 Q+IP D+YEAA IDGA +Q +TLP+++ V++L L LT+TGALE FD+PFV+ G Sbjct: 184 QSIPGDLYEAASIDGASGWQKFRYITLPSIRGVLELMLILTLTGALEAFDIPFVMLLG-- 241 Query: 246 AGASQTYVQRVVDTAFAFNNYGLASAMS 273 A + T+V + VDTAF + N+GLASAM+ Sbjct: 242 ANDTSTFVIKTVDTAFKYQNFGLASAMA 269 >B8I8V8.1 B8I8V8_CLOCE Binding-protein-dependent transport systems inner membrane component Length = 295 Score = 249 bits (637), Expect = 2e-64, Method: Compositional matrix adjust. Identities = 124/272 (45%), Positives = 188/272 (69%), Gaps = 4/272 (1%) Query: 1 MFGTLSYNKQKTIIIVSFLLIPLALLATFTYYPAIKLIYYSFTDWDGYSPEKPWVGLANY 60 MF LSY QK IIIV+FL+IPL LLA F+Y+PA+ L YYS T WDG S K +VGL NY Sbjct: 1 MFSNLSYKVQKRIIIVAFLIIPLLLLAVFSYFPALNLFYYSLTKWDGISKTKEFVGLRNY 60 Query: 61 REVFSNPDIFKVFTHNFAYFVMGLVQNIVAIYFAVVLNSKLRGRNGFRIMLFLPYIMNGV 120 ++FS + F VF ++ Y ++Q +A+YF+ +L+ K+R ++ F+ +LF PY++NGV Sbjct: 61 VDLFSKQENFIVFKNSLYYLGGSVIQIGLALYFSSILSYKVRFKSFFKGVLFFPYLLNGV 120 Query: 121 AVAFMFGYVFDTTNGSLNLFLNNIGLSSLAQTSWLGTEGLVNYSLASTGFWRFMGYNMVI 180 AV+FMF +F G+++ + IGL + Q WLG G++N+SL + WRF GYN ++ Sbjct: 121 AVSFMF-MLFFRPEGTMDSLITAIGLGAYTQ-KWLGNPGIINFSLVAVSIWRFFGYNFIL 178 Query: 181 YIASLQAIPRDIYEAAKIDGAGSFQTLWRVTLPNMKAVIQLNLFLTVTGALEVFDLPFVL 240 + ++Q++P ++YEA +IDGA FQ W VTLP +K VI+LN+ L+++G++ F++P+++ Sbjct: 179 FSGAIQSVPAEMYEATEIDGANRFQQFWYVTLPFIKRVIELNVILSISGSISAFEVPYIM 238 Query: 241 TKGGPAGASQTYVQRVVDTAFAFNNYGLASAM 272 T G + S T+V R V++AF + YGLASAM Sbjct: 239 TGG--SNGSMTFVIRTVESAFKWRKYGLASAM 268 >A3YH21.1 A3YH21_9GAMM Putative sugar transport system permease protein Length = 290 Score = 236 bits (601), Expect = 3e-60, Method: Compositional matrix adjust. Identities = 117/269 (43%), Positives = 183/269 (68%), Gaps = 4/269 (1%) Query: 5 LSYNKQKTIIIVSFLLIPLALLATFTYYPAIKLIYYSFTDWDGYSPEKPWVGLANYREVF 64 L+ +Q+ III++FL IPL LL TF+YYPA +L Y S TDWDGY+P K VGL NY+ + Sbjct: 4 LTLKQQQRIIILAFLAIPLGLLFTFSYYPASQLFYMSVTDWDGYAPVKNLVGLDNYQYMV 63 Query: 65 SNPDIFKVFTHNFAYFVMGLVQNIVAIYFAVVLNSKLRGRNGFRIMLFLPYIMNGVAVAF 124 PDI + YFV ++Q +++++FAV++N+KL GRN F+ +LF+P+++N VA + Sbjct: 64 EEPDILGPLLNTLYYFVGAVIQLVLSLWFAVLVNTKLAGRNFFKTLLFIPFVLNAVAASM 123 Query: 125 MFGYVFDTTNGSLNLFLNNIGLSSLAQTSWLGTEGLVNYSLASTGFWRFMGYNMVIYIAS 184 +F +F +G+ + FL +GL + WL +VN+SL WR++G+N++++ Sbjct: 124 VFQ-IFYQVDGAFDNFLAALGLDAWIM-PWLMDSDVVNWSLVGASVWRYLGFNLILFFGV 181 Query: 185 LQAIPRDIYEAAKIDGAGSFQTLWRVTLPNMKAVIQLNLFLTVTGALEVFDLPFVLTKGG 244 LQ+IP+D YEAAKI+GAG + +TLP++K +I L + L G+L VF++P ++TKG Sbjct: 182 LQSIPQDQYEAAKIEGAGEWDQFRYITLPSIKLIIGLQVLLAFVGSLSVFEIPMIITKG- 240 Query: 245 PAGASQTYVQRVVDTAFAFNNYGLASAMS 273 A ++T+V ++TAF FN++GLASAM+ Sbjct: 241 -ANGTKTFVMATLETAFNFNDFGLASAMA 268 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 0.326 0.141 0.427 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: 1,642,487,786 Number of extensions: 66379373 Number of successful extensions: 233756 Number of sequences better than 1.0e-05: 5832 Number of HSP's gapped: 225408 Number of HSP's successfully gapped: 5841 Length of query: 297 Length of database: 3,060,696,203 Length adjustment: 135 Effective length of query: 162 Effective length of database: 1,788,859,178 Effective search space: 289795186836 Effective search space used: 289795186836 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)