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= 0493.0020.p (291 letters) Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF 2,715,099 sequences; 757,237,578 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value ref|ZP_00121120.1| COG1175: ABC-type sugar transport systems, pe... 132 1e-29 ref|NP_391139.1| similar to sugar permease [Bacillus subtilis] >... 124 2e-27 ref|NP_469563.1| similar to sugar ABC transporters, permease pro... 124 3e-27 ref|ZP_00121352.1| COG1175: ABC-type sugar transport systems, pe... 118 1e-25 gb|AAR38346.1| ABC transporter, permease protein [uncultured bac... 118 2e-25 >ref|ZP_00121120.1| COG1175: ABC-type sugar transport systems, permease components [Bifidobacterium longum DJO10A] Length = 340 Score = 132 bits (331), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 87/258 (33%), Positives = 136/258 (52%), Gaps = 7/258 (2%) Query: 11 LFLLPTVVLFIVVYAVSIVILFGTSFTEWSSGRKPVFIGLANYIQLFTDDSDFRKSFLNT 70 LFL P +V +I I+ SF EW+ FIG+ NYI +FTD D S L++ Sbjct: 61 LFLAPALVFYIAFELWPIIQTIWYSFYEWNGIDASTFIGVENYITVFTD-PDLYGSILHS 119 Query: 71 GLWVLLQSTIHVAIGTAFAIIL-NMKEFYWK-FARTVYMFPNIISGAAVGMLFLCMLNPD 128 ++ S I + +G A+++ +MK + FA+ P +I GAA G+ + ML D Sbjct: 120 FYLIIFFSIIPIVLGLIIAVLIKDMKSKVGRSFAQVCLFLPRVIPGAAAGVAWTWMLA-D 178 Query: 129 FGAVNSIVRLFGHADYAQNWFMDYTTAFFSVTMT--WLPYAAVVTILILAEIAAIPDSLF 186 G N ++R G D+A W D +T+ +V + WL V +L+L+ I I SL+ Sbjct: 179 KGTANQLLRAVGLGDFAHVWLGDQSTSLNAVGVIGFWLQLGFCV-VLLLSGIGGIDQSLY 237 Query: 187 ESARIDGASELKIIFYIILPMLRNIIGTCVILAGTSMLQKMDIIMMTTGGGPGNETMNLP 246 E+A +DGA + +F I LP LR IG C+ + S L D++ M+T GGPG TM Sbjct: 238 EAASLDGAGWWRQLFSITLPGLRGQIGVCLTMTIISALASFDVVYMSTQGGPGTSTMVPG 297 Query: 247 IYIYKTALMENNFGYSNS 264 + +Y+ A + + G +++ Sbjct: 298 VQVYRLAFTQQSVGLASA 315 >ref|NP_391139.1| similar to sugar permease [Bacillus subtilis] sp|O32155|YURN_BACSU Hypothetical ABC transporter permease protein yurN pir||E70018 sugar permease homolog yurN - Bacillus subtilis emb|CAB15249.1| yurN [Bacillus subtilis subsp. subtilis str. 168] Length = 292 Score = 124 bits (312), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 84/294 (28%), Positives = 143/294 (48%), Gaps = 6/294 (2%) Query: 1 MVRKNKGYITLFLLPTVVLFIVVYAVSIVILFGTSFTEWSS-GRKPVFIGLANYIQLFTD 59 MV +NK LFL+P +V + VY +F + F +WSS + FIGL NY++LF Sbjct: 1 MVNQNKIIPYLFLVPALVFLLFVYIPIFENVFLSLF-QWSSFSPEKTFIGLKNYVELF-H 58 Query: 60 DSDFRKSFLNTGLWVLLQSTIHVAIGTAFAIILNMK--EFYWKFARTVYMFPNIISGAAV 117 D F ++ N L+ ++ V G A +L K + F RTV+ P +IS + Sbjct: 59 DPVFYQALTNNVLYAVISIVCQVFGGLILAAVLEDKLVRKWSPFFRTVFFLPVVISMTVI 118 Query: 118 GMLFLCMLNPDFGAVNSIVRLFGHADYAQNWFMDYTTAFFSVT-MTWLPYAAVVTILILA 176 +LF + NP+ G +N +++ G + W D +TA SV ++ + +L + Sbjct: 119 ALLFDFIYNPETGLLNQLLQAIGLDQLTRAWLGDDSTAMLSVIFVSQWQSVGYIAMLYIV 178 Query: 177 EIAAIPDSLFESARIDGASELKIIFYIILPMLRNIIGTCVILAGTSMLQKMDIIMMTTGG 236 I IPD L+E+AR+DGA +++ F+I +P + + V++ T + + TGG Sbjct: 179 SIQKIPDELYEAARLDGAGKIQQFFHITVPQTKEMSFVAVVMTLTGAFTVFNEPYILTGG 238 Query: 237 GPGNETMNLPIYIYKTALMENNFGYSNSXXXXXXXXXXXXXXXCRNLFRIGSSQ 290 GPG + L ++YK+A ++ GY+++ F+ G + Sbjct: 239 GPGKASEVLSTFLYKSAFTKDMMGYASAIATVVLIITLALSLMQMKFFKTGKEE 292 >ref|NP_469563.1| similar to sugar ABC transporters, permease proteins [Listeria innocua] ref|NP_463710.1| similar to sugar ABC transporters, permease proteins [Listeria monocytogenes EGD-e] pir||AC1460 sugar ABC transporters, permease protein homolog lin0218 [imported] - Listeria innocua (strain Clip11262) pir||AD1097 sugar ABC transporters, permease proteins homolog lmo0179 [imported] - Listeria monocytogenes (strain EGD-e) emb|CAC98394.1| lmo0179 [Listeria monocytogenes] emb|CAC95451.1| lin0218 [Listeria innocua] Length = 292 Score = 124 bits (310), Expect = 3e-27, Method: Compositional matrix adjust. Identities = 88/264 (33%), Positives = 136/264 (51%), Gaps = 6/264 (2%) Query: 3 RKNKGYITLFLLPTVVLFIVVYAVSIVILFGTSFTEWSSGRKPVFIGLANYIQLFTDDSD 62 +K ++ +FLLP ++ F++ A+ I+ G SFT+W F G NY +LF +D + Sbjct: 7 KKTLFWLCIFLLPNLLGFLIFIAIPILGSLGISFTDWDLVSTIHFTGFENYKRLF-NDPE 65 Query: 63 FRKSFLNTGLWVLLQSTIHVAIGTAFAIILNMKEFYWKFARTVYMFPNIISGAAVGMLFL 122 F KSF NT +++ + +G A A++LN K F R VY P I S AV +++ Sbjct: 66 FWKSFRNTITFIIGYLPSVMILGLACALMLNQKIKLRPFFRAVYFLPVITSWVAVSLVWK 125 Query: 123 CMLNPDFGAVNSIVRLFGHADYAQNWFMDYTTAFFSVTMT--WLPYAAVVTILILAEIAA 180 + NP +G +N + L G A NW D TA +V +T W V +L L + Sbjct: 126 WLFNPSYGLINYFLSLIGIA--GPNWLTDPQTAMIAVIITSAWKD-IGFVMVLFLGGLQN 182 Query: 181 IPDSLFESARIDGASELKIIFYIILPMLRNIIGTCVILAGTSMLQKMDIIMMTTGGGPGN 240 I S +E+A +DGAS+L+ +F I +P+L I++ + Q D +M+ T GGP Sbjct: 183 ISPSYYEAANMDGASKLRQLFSITIPLLTPTTFFVTIISLINSFQVFDQVMIMTEGGPSG 242 Query: 241 ETMNLPIYIYKTALMENNFGYSNS 264 TM L IY A GY+++ Sbjct: 243 ATMTLVQNIYNHAFRYFEMGYASA 266 >ref|ZP_00121352.1| COG1175: ABC-type sugar transport systems, permease components [Bifidobacterium longum DJO10A] Length = 334 Score = 118 bits (296), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 78/258 (30%), Positives = 130/258 (50%), Gaps = 10/258 (3%) Query: 11 LFLLPTVVLFIVVYAVSIVILFGTSFTEWSS-GRKPVFIGLANYIQLFTDDSDFRKSFLN 69 LF+ P V+L V I TSFT+W + FIGL NY +L S F + +N Sbjct: 54 LFIAPLVILSGVFIYYCIGFTVATSFTDWDGISSEMDFIGLKNYTKLLAPGSVFWTALMN 113 Query: 70 TGLWVLLQSTIHVAIGTAFAIILNMKEFYWKFARTVYMFPNIISGAAVGMLFLCMLNPDF 129 +++++ I +G A+IL + F + ++ P ++ + +F +++P+ Sbjct: 114 NIIFMVVTVVIQAGLGLLLAVILKERLRGSSFFKAIFFMPIAMAPVIIAAIFRIIMDPNV 173 Query: 130 GAVNSIVRLFGHADY-AQNWFMDYTTAFFSVT----MTWLPYAAVVTILILAEIAAIPDS 184 GA+N +R F H D+ AQ+W D A +S+ W+ ++ I+ A + +I D Sbjct: 174 GAINEALR-FLHLDFLAQSWLGDPHIALYSICAINIFEWMGFS---MIIYYAGLMSISDD 229 Query: 185 LFESARIDGASELKIIFYIILPMLRNIIGTCVILAGTSMLQKMDIIMMTTGGGPGNETMN 244 ++E+A+IDG +F I +P L T ++L L+ DI++ TTGGGPG T Sbjct: 230 IYEAAKIDGCGFWNTLFRITIPNLSGTTNTLILLGIVGSLKTFDIVIQTTGGGPGRSTEF 289 Query: 245 LPIYIYKTALMENNFGYS 262 L Y+YK + + N G S Sbjct: 290 LNTYLYKAGVQQFNGGLS 307 >gb|AAR38346.1| ABC transporter, permease protein [uncultured bacterium 582] Length = 284 Score = 118 bits (295), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 79/250 (31%), Positives = 127/250 (50%), Gaps = 5/250 (2%) Query: 11 LFLLPTVVLFIVVYAVSIVILFGTSFTEWSSGRKPVFIGLANYIQLFTDDSDFRKSFLNT 70 LFL+P ++ F + I F SF +WS +P +IGL NY++LF D + F S N Sbjct: 4 LFLMPGILFFAIYVIFPIFQSFNISFYKWSGLGEPKYIGLKNYVKLFGDRA-FEISLWNN 62 Query: 71 GLWVLLQSTIHVAIGTAFAIILNMKEFYWKFARTVYMFPNIISGAAVGMLFLCMLNPDFG 130 W++L + + G A A+ LN + ++++ FP +IS VG++F +P FG Sbjct: 63 LKWLILY-LLAIPTGLAIALFLNQTVTGIRLYKSLFFFPFVISQVVVGLVFTWFYDPTFG 121 Query: 131 AVNSIVRLFGHADYAQNWFMDYTTAFFSVTMTWL-PYAAVVTILILAEIAAIPDSLFESA 189 +N+I+ G A N D T + + + L P A IL L + + E+A Sbjct: 122 LLNTILTFLGFAP--LNVLGDPTLVTYGIILAGLWPQTAYCMILYLTGLNTVDPDQVEAA 179 Query: 190 RIDGASELKIIFYIILPMLRNIIGTCVILAGTSMLQKMDIIMMTTGGGPGNETMNLPIYI 249 R+DGA L++++YIILP LR ++ L+ D++ + T GGP + L Y+ Sbjct: 180 RLDGAKGLRMLWYIILPQLRPATFIAFVVTVIGALRSFDLVSIMTNGGPFGSSRVLSFYM 239 Query: 250 YKTALMENNF 259 ++ AL E F Sbjct: 240 FEKALSEYGF 249 Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF Posted date: Mar 24, 2004 1:53 AM Number of letters in database: 757,237,578 Number of sequences in database: 2,715,099 Lambda K H 0.329 0.141 0.432 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 2715099 Number of Hits to DB: 399,971,300 Number of extensions: 15454330 Number of successful extensions: 55294 Number of sequences better than 1.0e-05: 1137 Number of HSP's gapped: 54236 Number of HSP's successfully gapped: 1137 Length of query: 291 Length of database: 757,237,578 Length adjustment: 124 Effective length of query: 167 Effective length of database: 420,565,302 Effective search space: 70234405434 Effective search space used: 70234405434 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: 125 (52.8 bits)