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= 0397.0024.p (272 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value C5C3L0.1 C5C3L0_9MICO Binding-protein-dependent transport system... 186 1e-45 Q1AYD4.1 Q1AYD4_RUBXD Binding-protein-dependent transport system... 183 2e-44 Q2K8J7.1 Q2K8J7_RHIEC Probable sugar ABC transporter, permease p... 180 1e-43 B3PZJ6.1 B3PZJ6_RHIE6 Probable sugar ABC transporter, permease p... 179 3e-43 B5ZP14.1 B5ZP14_RHILW Binding-protein-dependent transport system... 178 4e-43 >C5C3L0.1 C5C3L0_9MICO Binding-protein-dependent transport systems inner membrane component Length = 304 Score = 186 bits (473), Expect = 1e-45, Method: Compositional matrix adjust. Identities = 94/251 (37%), Positives = 150/251 (59%), Gaps = 3/251 (1%) Query: 24 PMAVMISVSLQTPSTI--NPLSLPKNPQWGNYTEAFRTGNLLPYFGNSILVLVMTTAAAI 81 P V ++V+L+TP+ + +PL+ P +P N+ EA++ G+L GNS++V ++ A + Sbjct: 55 PFYVFLAVALKTPADLAASPLAFPTDPALANFAEAWQRGDLGQAMGNSVVVTALSVALLV 114 Query: 82 SVSVLAAYGLHHGKRYKSDVMSTFFLMGLILPAFSGTIPAFLVLRQIHLLNTHIGLSLIQ 141 AAY L S + FL+GL++P G +P + ++R +LL T+ L + + Sbjct: 115 LAGSFAAYALARRASRLSYGLYLAFLLGLMIPLQLGMVPLYQLMRDANLLQTYTSLIIFE 174 Query: 142 IASGLALPIFLYVNFFKTVPSEIEEAALVDGCGPWRTFVRIIFPLTLPITATCIIVVAIN 201 + L L +FLY F + +P E EEAA VDG G F +I+FPL PIT T +I+ +IN Sbjct: 175 VGHQLPLVVFLYTGFLRALPREYEEAARVDGAGTITAFRKIVFPLLRPITGTVVILTSIN 234 Query: 202 SWNDFFNPLVYLSSPEMRTLPVGLMAFKSQYNTNWPQMFAGAALVALPIIMLYLFVQRFI 261 WNDF PL+Y+ +TLPV + AF+ ++ + W +FAG + LPI+++Y +Q++I Sbjct: 235 IWNDFLTPLLYVGGSAQQTLPVAIFAFRGEFASQWQIIFAGMGIAILPILVVYFLLQKYI 294 Query: 262 IKGLVGGAVKG 272 IKG G +KG Sbjct: 295 IKGFASG-IKG 304 >Q1AYD4.1 Q1AYD4_RUBXD Binding-protein-dependent transport systems inner membrane component Length = 285 Score = 183 bits (464), Expect = 2e-44, Method: Compositional matrix adjust. Identities = 101/268 (37%), Positives = 148/268 (55%), Gaps = 2/268 (0%) Query: 7 KTSIYTVLAIALIIVLVPMAVMISVSLQTPSTI--NPLSLPKNPQWGNYTEAFRTGNLLP 64 K +Y L + L P +M+ SL++ I +P LP++P Y A+ TGN Sbjct: 18 KALLYAFLVAYAFVCLYPFFLMVVSSLKSTGEIFQSPFGLPESPSLHAYRMAWETGNFRE 77 Query: 65 YFGNSILVLVMTTAAAISVSVLAAYGLHHGKRYKSDVMSTFFLMGLILPAFSGTIPAFLV 124 YF NS+LV + A + +AAY + + +FL GL+LP G +P F + Sbjct: 78 YFLNSVLVTASSVALILLAGSMAAYPIGRHDFRGRGFLYLYFLGGLMLPIKLGVVPLFFL 137 Query: 125 LRQIHLLNTHIGLSLIQIASGLALPIFLYVNFFKTVPSEIEEAALVDGCGPWRTFVRIIF 184 + + L +T + L L+ ASG+ +F+ FF+T+P E+EEAA VDG G +R + +I+ Sbjct: 138 MTSLGLYDTRLSLVLVYAASGMPFAVFVLSAFFRTLPRELEEAARVDGAGEFRIYWQIML 197 Query: 185 PLTLPITATCIIVVAINSWNDFFNPLVYLSSPEMRTLPVGLMAFKSQYNTNWPQMFAGAA 244 PL P AT I I WNDFF PLV + + +RTLP GL F Y +W +FAG Sbjct: 198 PLVRPALATVAIFNFIQLWNDFFFPLVLIQTDGLRTLPAGLANFFGTYQNDWALIFAGLT 257 Query: 245 LVALPIIMLYLFVQRFIIKGLVGGAVKG 272 + +LP+I+LYLF + I++GL GA KG Sbjct: 258 ITSLPLIVLYLFASKQIVRGLTAGATKG 285 >Q2K8J7.1 Q2K8J7_RHIEC Probable sugar ABC transporter, permease protein Length = 282 Score = 180 bits (456), Expect = 1e-43, Method: Compositional matrix adjust. Identities = 99/269 (36%), Positives = 151/269 (56%), Gaps = 4/269 (1%) Query: 7 KTSIYTVLAIALI--IVLVPMAVMISVSLQTPSTI--NPLSLPKNPQWGNYTEAFRTGNL 62 T IY ++++LI IVL+P+ +T + NP LP QW NYT+ Sbjct: 13 STRIYLYVSLSLIAAIVLIPLLTTALGGFKTLGDLRTNPFGLPTEWQWANYTDILFGERY 72 Query: 63 LPYFGNSILVLVMTTAAAISVSVLAAYGLHHGKRYKSDVMSTFFLMGLILPAFSGTIPAF 122 GNS+++ +T + VS +AA+ H + + S + +FL+GL+ PA + +P F Sbjct: 73 WLQIGNSLIIAALTVLLTLIVSSMAAFAFAHVRFFGSSFLLNYFLLGLMFPAATAILPLF 132 Query: 123 LVLRQIHLLNTHIGLSLIQIASGLALPIFLYVNFFKTVPSEIEEAALVDGCGPWRTFVRI 182 + +R + LLNT+ G+ L Q+A GL + I L+ N+F+ +P E+ +AA VDGCG R F I Sbjct: 133 IRIRDLGLLNTYWGVVLPQVAFGLGMSILLFRNYFRNLPEELFQAAFVDGCGYLRFFWHI 192 Query: 183 IFPLTLPITATCIIVVAINSWNDFFNPLVYLSSPEMRTLPVGLMAFKSQYNTNWPQMFAG 242 PL+ PI AT I+ + SWN + PL+ L+S P+G+M ++ +Y T W + A Sbjct: 193 SLPLSRPIVATVSIISFVGSWNSYILPLIMLNSESKYPWPLGIMVYRGEYGTEWQLVLAF 252 Query: 243 AALVALPIIMLYLFVQRFIIKGLVGGAVK 271 L LP I+++ QR II GL GAVK Sbjct: 253 ITLTILPTIIVFFVAQRHIIAGLTAGAVK 281 >B3PZJ6.1 B3PZJ6_RHIE6 Probable sugar ABC transporter, permease protein Length = 282 Score = 179 bits (453), Expect = 3e-43, Method: Compositional matrix adjust. Identities = 98/269 (36%), Positives = 150/269 (55%), Gaps = 4/269 (1%) Query: 7 KTSIYTVLAIALI--IVLVPMAVMISVSLQTPSTI--NPLSLPKNPQWGNYTEAFRTGNL 62 T IY +++ LI IVL+P+ +T + NP LP QW NYT+ Sbjct: 13 STRIYLYVSLTLIAAIVLIPLLTTALGGFKTLGDLRTNPFGLPTEWQWANYTDILFGERY 72 Query: 63 LPYFGNSILVLVMTTAAAISVSVLAAYGLHHGKRYKSDVMSTFFLMGLILPAFSGTIPAF 122 GNS+++ +T + VS +AA+ H + + S + +FL+GL+ PA + +P F Sbjct: 73 WLQIGNSLIIAALTVLLTLIVSSMAAFAFAHVRFFGSSFLLNYFLLGLMFPAATAILPLF 132 Query: 123 LVLRQIHLLNTHIGLSLIQIASGLALPIFLYVNFFKTVPSEIEEAALVDGCGPWRTFVRI 182 + +R + LLNT+ G+ L Q+A GL + I L+ N+F+ +P E+ +AA VDGCG R F + Sbjct: 133 IRIRDLGLLNTYWGVVLPQVAFGLGMSILLFRNYFRNLPEELFQAAFVDGCGYLRFFWHV 192 Query: 183 IFPLTLPITATCIIVVAINSWNDFFNPLVYLSSPEMRTLPVGLMAFKSQYNTNWPQMFAG 242 PL+ PI AT I+ + SWN + PL+ L+S P+G+M ++ +Y T W + A Sbjct: 193 SLPLSRPIVATVSIISFVGSWNSYILPLIMLNSESKYPWPLGIMVYRGEYGTEWQLVLAF 252 Query: 243 AALVALPIIMLYLFVQRFIIKGLVGGAVK 271 L LP I+++ QR II GL GAVK Sbjct: 253 ITLTILPTIIVFFVAQRHIIAGLTAGAVK 281 >B5ZP14.1 B5ZP14_RHILW Binding-protein-dependent transport systems inner membrane component Length = 282 Score = 178 bits (452), Expect = 4e-43, Method: Compositional matrix adjust. Identities = 98/269 (36%), Positives = 151/269 (56%), Gaps = 4/269 (1%) Query: 7 KTSIYTVLAIALI--IVLVPMAVMISVSLQTPSTI--NPLSLPKNPQWGNYTEAFRTGNL 62 T IY ++++LI IVL+P+ +T + NP +P QW NYT+ Sbjct: 13 STRIYLYVSLSLIAAIVLIPLLTTALGGFKTLGDLRTNPFGMPTEWQWTNYTDILFGERY 72 Query: 63 LPYFGNSILVLVMTTAAAISVSVLAAYGLHHGKRYKSDVMSTFFLMGLILPAFSGTIPAF 122 GNS+++ +T + VS +AA+ H + + S + +FL+GL+ PA + +P F Sbjct: 73 WLQIGNSLIIAALTVLLTLIVSSMAAFAFAHVRFFGSSFLLNYFLLGLMFPAATAILPLF 132 Query: 123 LVLRQIHLLNTHIGLSLIQIASGLALPIFLYVNFFKTVPSEIEEAALVDGCGPWRTFVRI 182 + +R + LLNT+ G+ L Q+A GL + I L+ N+F+ +P E+ +AA VDGCG R F I Sbjct: 133 IRIRDLGLLNTYWGVVLPQVAFGLGMSILLFRNYFRNLPEELFQAAFVDGCGYLRFFWHI 192 Query: 183 IFPLTLPITATCIIVVAINSWNDFFNPLVYLSSPEMRTLPVGLMAFKSQYNTNWPQMFAG 242 PL+ PI AT I+ + SWN + PL+ L+S P+G+M ++ +Y T W + A Sbjct: 193 SLPLSRPIVATVSIISFVGSWNSYILPLIMLNSESKYPWPLGIMVYRGEYGTEWQLVLAF 252 Query: 243 AALVALPIIMLYLFVQRFIIKGLVGGAVK 271 L LP I+++ QR II GL GAVK Sbjct: 253 ITLTILPTIIVFFVAQRHIIAGLTAGAVK 281 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 0.141 0.424 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: 1,544,279,627 Number of extensions: 63323077 Number of successful extensions: 255291 Number of sequences better than 1.0e-05: 6270 Number of HSP's gapped: 247591 Number of HSP's successfully gapped: 6271 Length of query: 272 Length of database: 3,060,696,203 Length adjustment: 133 Effective length of query: 139 Effective length of database: 1,807,701,208 Effective search space: 251270467912 Effective search space used: 251270467912 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: 130 (54.7 bits)