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= 0488.0002.p (261 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value BH2122 [R] COG0730 Predicted permeases 173 2e-43 SA1536 [R] COG0730 Predicted permeases 159 3e-39 PM0361 [R] COG0730 Predicted permeases 107 2e-23 HI0198 [R] COG0730 Predicted permeases 101 1e-21 ZyfcA [R] COG0730 Predicted permeases 101 1e-21 >BH2122 [R] COG0730 Predicted permeases Length = 259 Score = 173 bits (439), Expect = 2e-43, Method: Compositional matrix adjust. Identities = 113/250 (45%), Positives = 153/250 (61%) Query: 12 SMAMIAILVICGFLAGVIDSVVXXXXXXXXXXXXXXXXXXXXXXXXNKLAGTLCSFTSTA 71 S+ ++ L+ GF+A IDSVV NKLA T+ + TST Sbjct: 5 SIEVLIFLLASGFVAAFIDSVVGGGGLISIPALLFAGLPPSVALGTNKLAATIGALTSTI 64 Query: 72 SFVRSGKINFGLVKFLIPFSIVGAVGGSLTVRQVPSEFLKPLVIVMLIVITVYTLFKKSW 131 +F++SG IN LV L+P SIVG+ G V+ +PSEFL+P+++ +LI++T+YT+FKK+W Sbjct: 65 NFLQSGHINKKLVFTLLPLSIVGSALGVYIVQLIPSEFLRPIILFLLILVTIYTVFKKNW 124 Query: 132 GDVSTFSADSRKTLLTGMGIALVIGFYDGFFGPGTGSFLIFAFLMLGFEFVTAAGNAKVL 191 G S K + + L++GFYDGF G GTGSFLIF FL+LGF FV +AGNAKVL Sbjct: 125 GMESNVKHLPGKMIGFVIFAVLMLGFYDGFLGAGTGSFLIFLFLLLGFNFVESAGNAKVL 184 Query: 192 NFASNIASLLTFAAXXXXXXXXXXXXXXPMVIGAIVGSRIAIHKGASYIRPLFITVTVIL 251 N SN A+L+TF M++GA VGSR+AI +GA+Y++ LFI +TV L Sbjct: 185 NLGSNFAALITFMLFQSVHFFYGIAMGIAMIVGAYVGSRVAIKRGAAYVKVLFIGITVTL 244 Query: 252 IGKQIWDTMH 261 IGK IWD H Sbjct: 245 IGKSIWDYAH 254 >SA1536 [R] COG0730 Predicted permeases Length = 256 Score = 159 bits (403), Expect = 3e-39, Method: Compositional matrix adjust. Identities = 95/250 (38%), Positives = 139/250 (55%) Query: 12 SMAMIAILVICGFLAGVIDSVVXXXXXXXXXXXXXXXXXXXXXXXXNKLAGTLCSFTSTA 71 ++ MI I+++ GF+A IDSVV NKLA + S TS Sbjct: 4 NLTMIIIIILFGFIAAFIDSVVGGGGLISTPALLAIGLPPSVALGTNKLASSFGSLTSMI 63 Query: 72 SFVRSGKINFGLVKFLIPFSIVGAVGGSLTVRQVPSEFLKPLVIVMLIVITVYTLFKKSW 131 F+RSGK++ +V L F + + G+ VPS+ LKPL+I+ L + ++TL KK W Sbjct: 64 KFIRSGKVDLFVVAKLFGFVFLASACGAYIATMVPSQILKPLIIIALSSVFIFTLLKKDW 123 Query: 132 GDVSTFSADSRKTLLTGMGIALVIGFYDGFFGPGTGSFLIFAFLMLGFEFVTAAGNAKVL 191 G+ TF+ + K + + ++IGFYDGF G GTGSF++F L+ GF+F++AAGNAKVL Sbjct: 124 GNTRTFTQFTFKKAIIFAALFILIGFYDGFVGGGTGSFMLFVLLVFGFDFLSAAGNAKVL 183 Query: 192 NFASNIASLLTFAAXXXXXXXXXXXXXXPMVIGAIVGSRIAIHKGASYIRPLFITVTVIL 251 NFASNI +L+ F M+ G+ G+ AI +G Y++ LFI +T IL Sbjct: 184 NFASNIGALVLFMVLGQVDYVIGLIMAISMIAGSYTGAHFAIKQGVGYVKVLFIIITAIL 243 Query: 252 IGKQIWDTMH 261 I K +D + Sbjct: 244 ILKNAFDYIQ 253 >PM0361 [R] COG0730 Predicted permeases Length = 254 Score = 107 bits (267), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 69/206 (33%), Positives = 112/206 (54%), Gaps = 11/206 (5%) Query: 58 NKLAGTLCSFTSTASFVRSGKINFGLVKFLIPFSIVGAVGGSLTVRQVPSEFLKPLVIVM 117 NKL SF+++ F+R +N V ++ + +GA G++ ++ V S +K ++ + Sbjct: 50 NKLQACGGSFSASLYFLRQRAVNLAEVWLILLMTFIGASLGTVLIQLVDSAIIKKVLPFL 109 Query: 118 LIVITVYTLFKKSWGDVSTFSADSRKTLLTGMGIA----LVIGFYDGFFGPGTGSFLIFA 173 ++ I +Y LF + G+ + R+ ++ + A L IGFYDGFFGPGTGS L A Sbjct: 110 ILAIGLYFLFSPTLGN------EDRQKRISYLAFAFTAGLGIGFYDGFFGPGTGSLLSLA 163 Query: 174 FLM-LGFEFVTAAGNAKVLNFASNIASLLTFAAXXXXXXXXXXXXXXPMVIGAIVGSRIA 232 F+M LGF A +AKVLNF SN+ASL+ F IGA +G+++ Sbjct: 164 FVMLLGFNLTKATAHAKVLNFTSNVASLIFFLIGGQIMWSVGFAMMAGQFIGANLGAKMV 223 Query: 233 IHKGASYIRPLFITVTVILIGKQIWD 258 + KG + IRP+ + ++ I+ K +D Sbjct: 224 LSKGKTLIRPMVVVMSFIMTMKMAYD 249 >HI0198 [R] COG0730 Predicted permeases Length = 255 Score = 101 bits (251), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 69/250 (27%), Positives = 123/250 (49%), Gaps = 11/250 (4%) Query: 15 MIAILVICGFLAGVIDSVVXXXXXXXXXXXXXXXXXXXXXXXXNKLAGTLCSFTSTASFV 74 ++AIL GF+A ID++ NKL + +++ F+ Sbjct: 7 LLAILFCVGFVASFIDAIAGGGGLITIPALLMTGMPPAMALGTNKLQAMGGALSASLYFL 66 Query: 75 RSGKINFGLVKFLIPFSIVGAVGGSLTVRQVPSEFLKPLVIVMLIVITVYTLFKKSWGDV 134 R +N + F++ + +G+ G+L ++ + K ++ +++ I +Y LF GD Sbjct: 67 RKRAVNLRDIWFILIWVFLGSALGTLLIQSIDVAIFKKMLPFLILAIGLYFLFTPKLGD- 125 Query: 135 STFSADSRKT----LLTGMGIALVIGFYDGFFGPGTGSFLIFAFL-MLGFEFVTAAGNAK 189 + RK LL G+ ++ +GFYDGFFGPGTGS + A + +LGF AA +AK Sbjct: 126 -----EDRKQRLSYLLFGLLVSPFLGFYDGFFGPGTGSIMSLACVTLLGFNLPKAAAHAK 180 Query: 190 VLNFASNIASLLTFAAXXXXXXXXXXXXXXPMVIGAIVGSRIAIHKGASYIRPLFITVTV 249 V+NF SN+AS F ++GA +G+++ + KG + IRP+ + ++ Sbjct: 181 VMNFTSNLASFALFLLGGQILWKVGFVMMAGSILGANLGAKMVMTKGKTLIRPMVVIMSF 240 Query: 250 ILIGKQIWDT 259 ++ K ++D Sbjct: 241 MMTAKMVYDQ 250 >ZyfcA [R] COG0730 Predicted permeases Length = 269 Score = 101 bits (251), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 73/250 (29%), Positives = 118/250 (47%), Gaps = 11/250 (4%) Query: 15 MIAILVICGFLAGVIDSVVXXXXXXXXXXXXXXXXXXXXXXXXNKLAGTLCSFTSTASFV 74 ++ +L LAG IDS+ NKL S ++T F+ Sbjct: 14 LLGVLFFVAMLAGFIDSIAGGGGLLTIPALMAAGMSPANALATNKLQACGGSISATIYFI 73 Query: 75 RSGKINFGLVKFLIPFSIVGAVGGSLTVRQVPSEFLKPLVIVMLIVITVYTLFKKSWGDV 134 R ++ K I + VG++ G+L V+ V ++ L+ ++ +++I I +Y L G+ Sbjct: 74 RRKVVSLSDQKLNIAMTFVGSMSGALLVQYVQADVLRQILPILVICIGLYFLLMPKLGE- 132 Query: 135 STFSADSRKTLLTGMGIALV----IGFYDGFFGPGTGSFLIFAFLML-GFEFVTAAGNAK 189 + R+ + G+ AL+ +GFYDGFFGP GSF AF+ L GF A +AK Sbjct: 133 -----EDRQRRMYGLPFALIAGGCVGFYDGFFGPAAGSFYALAFVTLCGFNLAKATAHAK 187 Query: 190 VLNFASNIASLLTFAAXXXXXXXXXXXXXXPMVIGAIVGSRIAIHKGASYIRPLFITVTV 249 +LN SNI LL F +GA +GSR+ + KG IRP+ + V+ Sbjct: 188 LLNATSNIGGLLLFILGGKVIWATGFVMLVGQFLGARMGSRLVLSKGQKLIRPMIVIVSA 247 Query: 250 ILIGKQIWDT 259 ++ K ++D+ Sbjct: 248 VMSAKLLYDS 257 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 0.329 0.143 0.417 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: 14,913,362 Number of extensions: 514533 Number of successful extensions: 1613 Number of sequences better than 1.0e-05: 20 Number of HSP's gapped: 1542 Number of HSP's successfully gapped: 20 Length of query: 261 Length of database: 38,378,431 Length adjustment: 104 Effective length of query: 157 Effective length of database: 26,383,695 Effective search space: 4142240115 Effective search space used: 4142240115 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)