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= 0254.0008.p (275 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value BS_yurM [G] COG0395 ABC-type sugar transport system, permease co... 316 3e-86 BH1119 [G] COG0395 ABC-type sugar transport system, permease com... 183 3e-46 SMa2309 [G] COG0395 ABC-type sugar transport system, permease co... 160 2e-39 mll0851 [G] COG0395 ABC-type sugar transport system, permease co... 157 2e-38 lin0761 [G] COG0395 ABC-type sugar transport system, permease co... 153 2e-37 >BS_yurM [G] COG0395 ABC-type sugar transport system, permease component Length = 300 Score = 316 bits (809), Expect = 3e-86, Method: Compositional matrix adjust. Identities = 149/251 (59%), Positives = 194/251 (77%) Query: 25 YPLFWMVSSSFKSYDEIFGAVWNLPSEWLFSNYVTAWTKGIGNYFMNSVIVTVSTIAGVV 84 YPL WMV S+FK+ D+IF W+LPS W N+V+AW +GI +YFMNSVIVT T V Sbjct: 50 YPLLWMVMSAFKNSDDIFEHSWSLPSSWHPENFVSAWNQGISSYFMNSVIVTALTCVITV 109 Query: 85 IIASLCAYGLSRFRFRYSKTLFMFVLGGMMLDPQVCLVPLYKLLQNLNIHNTYFALILPY 144 I++ AYGLSRF F+ + LGG+ML PQV LVPLY ++Q+L ++NTY+ALILPY Sbjct: 110 FISAWAAYGLSRFEFKGKGFFLVLCLGGLMLTPQVSLVPLYSIIQSLGLYNTYWALILPY 169 Query: 145 IAFRLSIAVLLIRSYFLGIPKEIEESATMDGCSVFRTYLNIFLPMSLPIIMTTIILTSYY 204 A+R+ ++LIRSYFL I KE+EE+A +DGC+ F + IFLPMS+PI++T+ ILT+Y+ Sbjct: 170 AAYRIPFTIILIRSYFLSISKELEEAAYLDGCTSFGVFFRIFLPMSVPILVTSGILTAYH 229 Query: 205 AWNEFLFSIIFIDSDKYRTIPAGLMNFKDALSTDWGVLLAGLVISSMPLIILFIFMQKYF 264 WNEF+F+IIFID + RTIPAGLM F+DAL TDWGVLLAGL IS+ P+IILF+ MQKYF Sbjct: 230 TWNEFMFAIIFIDDENLRTIPAGLMQFRDALQTDWGVLLAGLTISAAPIIILFLLMQKYF 289 Query: 265 IQGMSDGSVKG 275 ++G++ GSVKG Sbjct: 290 VRGIASGSVKG 300 >BH1119 [G] COG0395 ABC-type sugar transport system, permease component Length = 281 Score = 183 bits (464), Expect = 3e-46, Method: Compositional matrix adjust. Identities = 96/257 (37%), Positives = 152/257 (59%), Gaps = 6/257 (2%) Query: 24 MYPLFWMVSSSFKSYDEIFGAVWNL-PSEWLFSNYVTAWT----KGIGNYFMNSVIVTVS 78 +YP+ WMV+SS K EIF +L PSE+++SNY W G YF NS I+T S Sbjct: 25 VYPILWMVASSLKPASEIFSQASSLIPSEFVWSNYPDGWAGFGRTGFDIYFKNSFIITTS 84 Query: 79 TIAGVVIIASLCAYGLSRFRFRYSKTLFMFVLGGMMLDPQVCLVPLYKLLQNLNIHNTYF 138 + G ++ +S+ AYG +R +F++ K LF ++ +ML Q+ L+P Y L NL NT++ Sbjct: 85 VVIGAILSSSIVAYGFARLQFKFKKVLFACLIATVMLPVQITLIPQYILFHNLGWVNTFY 144 Query: 139 ALILPYIAFRLSIAVLLIRSYFLGIPKEIEESATMDGCSVFRTYLNIFLPMSLPIIMTTI 198 LI+P + L+ + GIP+E++E+A +DGCS F + + LP+ P ++T Sbjct: 145 PLIVPAFLGGTPFFIFLLIQFIRGIPRELDEAAIIDGCSTFGVFWRVILPLLKPALVTVA 204 Query: 199 ILTSYYAWNEFLFSIIFIDSDKYRTIPAGLMNFKDALS-TDWGVLLAGLVISSMPLIILF 257 I + W++FL +I+++ +T+ GL NF DA S T WG LLA +S +P I+F Sbjct: 205 IFAFMWTWDDFLAPLIYLNKTDIQTVALGLRNFMDAESGTSWGALLAMSTLSLLPQFIIF 264 Query: 258 IFMQKYFIQGMSDGSVK 274 +F Q+Y ++G+S +K Sbjct: 265 LFFQRYLVEGISTTGLK 281 >SMa2309 [G] COG0395 ABC-type sugar transport system, permease component Length = 273 Score = 160 bits (405), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 77/255 (30%), Positives = 157/255 (61%), Gaps = 3/255 (1%) Query: 24 MYPLFWMVSSSFKSYDEIF-GAVWNLPSE-WLFSNYVTAWTKG-IGNYFMNSVIVTVSTI 80 + PLF ++ +SF+S ++ G +W P+E + NY +T+ + YF+NS+++T+ ++ Sbjct: 19 LAPLFAVILTSFRSMADVMSGNLWGWPTEIAVVENYTAVFTQTPMAGYFLNSLVITIPSV 78 Query: 81 AGVVIIASLCAYGLSRFRFRYSKTLFMFVLGGMMLDPQVCLVPLYKLLQNLNIHNTYFAL 140 GV+ +++L + L+R+RF + +F +GG L Q+ ++P+ L+ LN+++T AL Sbjct: 79 IGVLSLSTLAGFVLARYRFPGNMVIFALFVGGNFLPHQIMMIPVRDLMVRLNLYDTTTAL 138 Query: 141 ILPYIAFRLSIAVLLIRSYFLGIPKEIEESATMDGCSVFRTYLNIFLPMSLPIIMTTIIL 200 I+ ++AF+ A L +R++ +P E+ ++A +G + F+T +++ +P+ P IL Sbjct: 139 IIFHVAFQTGFATLFMRNFIAALPDELFQAARAEGATPFQTLIHVVVPLVRPAWAALAIL 198 Query: 201 TSYYAWNEFLFSIIFIDSDKYRTIPAGLMNFKDALSTDWGVLLAGLVISSMPLIILFIFM 260 + WN++ ++++ SD + + AGL N + + W ++ AG +I ++P +++F M Sbjct: 199 LFTFIWNDYFWAVVLTVSDNVKPVTAGLANLRGEWVSAWNLISAGTIIVAVPPVVMFFLM 258 Query: 261 QKYFIQGMSDGSVKG 275 QK+FI G++ G+VKG Sbjct: 259 QKHFIAGLTMGAVKG 273 >mll0851 [G] COG0395 ABC-type sugar transport system, permease component Length = 282 Score = 157 bits (396), Expect = 2e-38, Method: Compositional matrix adjust. Identities = 84/254 (33%), Positives = 145/254 (57%), Gaps = 2/254 (0%) Query: 24 MYPLFWMVSSSFKSYDEIFG-AVWNLPSEWLFSNYVTAW-TKGIGNYFMNSVIVTVSTIA 81 ++P++W + S ++ V PS N+VT YF+NSVIV+VST A Sbjct: 29 LFPIYWTLKISVTPERLLYSEGVTFWPSRMTLQNFVTVLEATDFPRYFLNSVIVSVSTAA 88 Query: 82 GVVIIASLCAYGLSRFRFRYSKTLFMFVLGGMMLDPQVCLVPLYKLLQNLNIHNTYFALI 141 V + A+L Y +SRF FR L + +L + + P+Y+++ + + N+ LI Sbjct: 89 LVTVTATLAGYAMSRFTFRGKAALALMLLLTQTFPLVMVIPPIYRVMGQIGLINSLTGLI 148 Query: 142 LPYIAFRLSIAVLLIRSYFLGIPKEIEESATMDGCSVFRTYLNIFLPMSLPIIMTTIILT 201 + Y AF + A L++S+F GIPK++EE+A +DGC+ + + +P++LP + T+ Sbjct: 149 IIYTAFNTAFATFLMQSFFDGIPKDLEEAAMIDGCTRAQAMRKVIVPLTLPGMGATLGFV 208 Query: 202 SYYAWNEFLFSIIFIDSDKYRTIPAGLMNFKDALSTDWGVLLAGLVISSMPLIILFIFMQ 261 AW+E LF+++ I SD +T GL+ F + DWG ++A +++ +P+ I F F+Q Sbjct: 209 FTAAWSELLFALMLISSDDQKTFAVGLLTFIGKFAVDWGQMMAASILALIPVCIFFAFLQ 268 Query: 262 KYFIQGMSDGSVKG 275 +Y + G++ G+VKG Sbjct: 269 RYLVTGLTAGAVKG 282 >lin0761 [G] COG0395 ABC-type sugar transport system, permease component Length = 291 Score = 153 bits (387), Expect = 2e-37, Method: Compositional matrix adjust. Identities = 87/267 (32%), Positives = 150/267 (56%), Gaps = 18/267 (6%) Query: 24 MYPLFWMVSSSFKSYDEIFGAVWNL-PSEWLFSNYVTAW-TKGIGNYFMNSVIVTVSTIA 81 ++PL W VS+SFK EI NL P + + NY + T Y +NS+I+ V + Sbjct: 27 VFPLIWTVSTSFKPTSEILSNSMNLIPKMFTWDNYKDVFSTTPFARYLVNSLILAVGGVL 86 Query: 82 GVVIIASLCAYGLSRFRFRYSKTLFMFVLGGMMLDPQVCLVPLYKLLQNLNI-------- 133 + SL Y ++ F+ K LFM LG MM+ V ++P + +L+N + Sbjct: 87 TNLFFGSLAGYAFAKLPFKGKKGLFMTFLGSMMIPAVVTMIPSFLVLKNFPLMGGNDITG 146 Query: 134 H------NTYFALILPYIAFRLSIAVLLIRSYFLGIPKEIEESATMDGCSVFRTYLNIFL 187 H NTY+A+++P A SI ++ +F +P E+ E+A +DGCS F+ + I++ Sbjct: 147 HGGMGFINTYWAILIPGAAGAFSI--FFMKQFFETLPDELSEAARIDGCSEFKIFWKIYM 204 Query: 188 PMSLPIIMTTIILTSYYAWNEFLFSIIFIDSDKYRTIPAGLMNFKDALSTDWGVLLAGLV 247 P++ + T I+T WN+F++ +I ++S K T+ GL +F+ S ++G L+AG + Sbjct: 205 PLAKTALATLGIMTFQAGWNQFMWPLIVLNSQKMMTVQVGLASFQYNESANYGALMAGTI 264 Query: 248 ISSMPLIILFIFMQKYFIQGMSDGSVK 274 +S++P++ +FIF QKYF++G++ K Sbjct: 265 VSTIPVLFVFIFAQKYFVEGIAHNGGK 291 Database: COG Posted date: Aug 3, 2010 9:58 AM Number of letters in database: 38,378,431 Number of sequences in database: 115,334 Lambda K H 0.330 0.143 0.445 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 115334 Number of Hits to DB: 17,554,794 Number of extensions: 633887 Number of successful extensions: 2366 Number of sequences better than 1.0e-05: 156 Number of HSP's gapped: 2136 Number of HSP's successfully gapped: 156 Length of query: 275 Length of database: 38,378,431 Length adjustment: 105 Effective length of query: 170 Effective length of database: 26,268,361 Effective search space: 4465621370 Effective search space used: 4465621370 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: 115 (48.9 bits)