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= 0344.0003.p (288 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... 159 3e-39 all4824 [G] COG0395 ABC-type sugar transport system, permease co... 125 9e-29 BH1119 [G] COG0395 ABC-type sugar transport system, permease com... 123 3e-28 BMEI1714 [G] COG0395 ABC-type sugar transport system, permease c... 118 1e-26 lin0219 [G] COG0395 ABC-type sugar transport system, permease co... 115 8e-26 >BS_yurM [G] COG0395 ABC-type sugar transport system, permease component Length = 300 Score = 159 bits (403), Expect = 3e-39, Method: Compositional matrix adjust. Identities = 90/279 (32%), Positives = 153/279 (54%), Gaps = 3/279 (1%) Query: 10 SPKTFRSIGQFLLQIPLWLYFAVSIYPLFWMISYSLKNNDEIFVTNPFGLPTHFRFENYI 69 P+ IG+ + + L+LY YPL WM+ + KN+D+IF + + LP+ + EN++ Sbjct: 25 KPRRKWYIGETSVWVFLFLYLIAIAYPLLWMVMSAFKNSDDIF-EHSWSLPSSWHPENFV 83 Query: 70 NAWTQFNIPRYFWNSFVVSIISTVXXXXXXXXXXXXXXRMQWRFRSAVRTYMLVGMFMPL 129 +AW Q I YF NS +V+ ++ V R +++ + L G+ + Sbjct: 84 SAWNQ-GISSYFMNSVIVTALTCVITVFISAWAAYGLSRFEFKGKGFFLVLCLGGLMLTP 142 Query: 130 QVIMIPLALLVRDFHLTNTYGALIIPYIAIGLPFSTMVFYGFLVSIPREIEEAACIDGAS 189 QV ++PL +++ L NTY ALI+PY A +PF+ ++ + +SI +E+EEAA +DG + Sbjct: 143 QVSLVPLYSIIQSLGLYNTYWALILPYAAYRIPFTIILIRSYFLSISKELEEAAYLDGCT 202 Query: 190 IYRLFLGVXXXXXXXXXXXXXXFQFLNNWNEFTLAYILISDENMKTLPLGLLFFQGSYST 249 + +F + + WNEF A I I DEN++T+P GL+ F+ + T Sbjct: 203 SFGVFFRIFLPMSVPILVTSGILTAYHTWNEFMFAIIFIDDENLRTIPAGLMQFRDALQT 262 Query: 250 DWGAMGAVMTIASLPMVLVYLLLSDQVERAMTVGSAVKG 288 DWG + A +TI++ P+++++LL+ R + GS VKG Sbjct: 263 DWGVLLAGLTISAAPIIILFLLMQKYFVRGIASGS-VKG 300 >all4824 [G] COG0395 ABC-type sugar transport system, permease component Length = 279 Score = 125 bits (314), Expect = 9e-29, Method: Compositional matrix adjust. Identities = 77/258 (29%), Positives = 130/258 (50%), Gaps = 4/258 (1%) Query: 32 VSIYPLFWMISYSLKNNDE-IFVTNPFGLPTHFRFENYINAWTQFNIPRYFWNSFVVSII 90 ++++PL W+IS +LK+ E IF + P LP +N+ W +Y +NS +VS++ Sbjct: 25 ITLFPLLWLISTALKSPTENIFQSPPQLLPNQPTVDNFFKVWNSLPFGQYLYNSTLVSVL 84 Query: 91 STVXXXXXXXXXXXXXXRMQWRFRSAVRTYMLVGMFMPLQVIMIPLALLVRDFHLTNTYG 150 + R+ + R + ++ + +P Q++MIPL +L L NTY Sbjct: 85 TVGLNLLFCSLAAYPLARLSFPGRDWIFIAIVSTIMIPFQIVMIPLYILTVQLGLRNTYL 144 Query: 151 ALIIPYIAIGLPFSTMVFYGFLVSIPREIEEAACIDGASIYRLFLGVXXXXXXXXXXXXX 210 ++ P +A F + + +P+EIEEAA +DG+S L+ + Sbjct: 145 GMMFPSLASA--FGIFLLRQAFMGVPKEIEEAARMDGSSELGLWWHIMLPAVRPALVTLA 202 Query: 211 XFQFLNNWNEFTLAYILISDENMKTLPLGLLFFQGSYSTDWGAMGAVMTIASLPMVLVYL 270 F F+ W++F I+I DEN+ TLPLG+ G++S DW + A IA P++L++L Sbjct: 203 IFVFIGAWSDFLWPLIVIQDENLYTLPLGVAKLAGTFSLDWRLVAAGSVIAIAPVLLLFL 262 Query: 271 LLSDQVERAMTVGSAVKG 288 +L + +GS VKG Sbjct: 263 ILQRYIVET-DIGSGVKG 279 >BH1119 [G] COG0395 ABC-type sugar transport system, permease component Length = 281 Score = 123 bits (309), Expect = 3e-28, Method: Compositional matrix adjust. Identities = 73/261 (27%), Positives = 127/261 (48%), Gaps = 8/261 (3%) Query: 32 VSIYPLFWMISYSLKNNDEIFVTNPFGLPTHFRFENYINAWTQFN---IPRYFWNSFVVS 88 + +YP+ WM++ SLK EIF +P+ F + NY + W F YF NSF+++ Sbjct: 23 IMVYPILWMVASSLKPASEIFSQASSLIPSEFVWSNYPDGWAGFGRTGFDIYFKNSFIIT 82 Query: 89 IISTVXXXXXXXXXXXXXXRMQWRFRSAVRTYMLVGMFMPLQVIMIPLALLVRDFHLTNT 148 + R+Q++F+ + ++ + +P+Q+ +IP +L + NT Sbjct: 83 TSVVIGAILSSSIVAYGFARLQFKFKKVLFACLIATVMLPVQITLIPQYILFHNLGWVNT 142 Query: 149 YGALIIPYIAIGLPFSTMVFYGFLVSIPREIEEAACIDGASIYRLFLGVXXXXXXXXXXX 208 + LI+P G PF + F+ IPRE++EAA IDG S + +F V Sbjct: 143 FYPLIVPAFLGGTPFFIFLLIQFIRGIPRELDEAAIIDGCSTFGVFWRVILPLLKPALVT 202 Query: 209 XXXFQFLNNWNEFTLAYILISDENMKTLPLGLL-FFQGSYSTDWGAMGAVMTIASLPMVL 267 F F+ W++F I ++ +++T+ LGL F T WGA+ A+ T++ LP + Sbjct: 203 VAIFAFMWTWDDFLAPLIYLNKTDIQTVALGLRNFMDAESGTSWGALLAMSTLSLLPQFI 262 Query: 268 VYLLLSDQVERAMTVGSAVKG 288 ++L +R + G + G Sbjct: 263 IFLFF----QRYLVEGISTTG 279 >BMEI1714 [G] COG0395 ABC-type sugar transport system, permease component Length = 294 Score = 118 bits (295), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 79/290 (27%), Positives = 138/290 (47%), Gaps = 6/290 (2%) Query: 4 RTINHMSPKTFRSIGQFLLQIPLWLYFAVSIYPLFWMISYSLKNNDEIFVTNPFGLPTHF 63 +++++ + R I + + L+L V P FW++ SL+ EI P +P Sbjct: 6 QSLSNAQHRMRRRIARVFYLVGLFLAMLVICLPGFWIVLSSLRPPVEIMAKPPVWIPQDI 65 Query: 64 RFENYINAWT---QFNIP--RYFWNSFVVSIISTVXXXXXXXXXXXXXXRMQWRFRSAVR 118 + Y ++ +P YF NS +VS+ STV R ++R +SA Sbjct: 66 SLDAYRTMFSGAGAGGVPVWDYFRNSIIVSVTSTVVSLIIGMSGGYAFARFRFRGKSATF 125 Query: 119 TYMLVGMFMPLQVIMIPLALLVRDFHLTNTYGALIIPYIAIGLPFSTMVFYGFLVSIPRE 178 ++ +P + +PL ++ + +T+ LI+ Y+A+ +PF+T + GF +P++ Sbjct: 126 LGFMLTRSVPGIALSLPLFMVYSRIGIIDTHFGLILTYVALNIPFTTWLIDGFFRQVPKD 185 Query: 179 IEEAACIDGASIYRLFLGVXXXXXXXXXXXXXXFQFLNNWNEFTLAYILISDENMKTLPL 238 + EAA IDG + ++ F V F FL WNE+ LA L N KTLP+ Sbjct: 186 LAEAAQIDGCTRWQAFWQVEFPLAGPGIASAGIFAFLTCWNEYALASQLTRSVNSKTLPV 245 Query: 239 GLLFFQGSYSTDWGAMGAVMTIASLPMVLVYLLLSDQVERAMTVGSAVKG 288 GLL + ++ DW M A+ + +P + + ++ + +T G AVKG Sbjct: 246 GLLDYTAEFTIDWRGMCALAVVMIVPALALTFVIQKHLVSGLTFG-AVKG 294 >lin0219 [G] COG0395 ABC-type sugar transport system, permease component Length = 282 Score = 115 bits (288), Expect = 8e-26, Method: Compositional matrix adjust. Identities = 72/239 (30%), Positives = 116/239 (48%), Gaps = 2/239 (0%) Query: 32 VSIYPLFWMISYSLKNNDEIFVTNPFGLPTHFRFENYINAWTQFNIPRYFWNSFVVSIIS 91 + + P WMIS + K V P +P N+ + F + R+ NS VV++++ Sbjct: 29 IMLMPFVWMISTAFKTGAANMVLPPQFIPKEPTTANFTQVFEMFPMLRFLMNSVVVAVVT 88 Query: 92 TVXXXXXXXXXXXXXXRMQWRFRSAVRTYMLVGMFMPLQVIMIPLALLVRDFHLTNTYGA 151 T+ R+ + R + L M +P QV MIP +L++ F ++Y Sbjct: 89 TLGQMLFCSMAAYAFARIPFWGRDKLFLLYLATMMVPAQVTMIPQFILMKQFGWLDSYAG 148 Query: 152 LIIPYIAIGLPFSTMVFYGFLVSIPREIEEAACIDGASIYRLFLGVXXXXXXXXXXXXXX 211 LI+P A+ F T + + IP+E+EEAA +DGA+ + +F V Sbjct: 149 LIVP--ALFSVFGTFLLRQAFMGIPKELEEAAFMDGANHFTIFRKVILPLAKPTFATLGI 206 Query: 212 FQFLNNWNEFTLAYILISDENMKTLPLGLLFFQGSYSTDWGAMGAVMTIASLPMVLVYL 270 F+ +WN + I+ S + M TLPLGL QG Y T++G M A + I+ +P++ VYL Sbjct: 207 LTFMQSWNSYLWPLIVTSSQEMATLPLGLSLLQGRYGTNYGLMMAGVLISVIPILAVYL 265 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 0.450 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: 18,119,766 Number of extensions: 653010 Number of successful extensions: 1977 Number of sequences better than 1.0e-05: 155 Number of HSP's gapped: 1747 Number of HSP's successfully gapped: 155 Length of query: 288 Length of database: 38,378,431 Length adjustment: 105 Effective length of query: 183 Effective length of database: 26,268,361 Effective search space: 4807110063 Effective search space used: 4807110063 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.9 bits) S2: 115 (48.9 bits)