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= 0567.0003.p (267 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value lin0979 [V] COG0842 ABC-type multidrug transport system, permeas... 138 1e-32 BH3978 [V] COG0842 ABC-type multidrug transport system, permease... 113 2e-25 PAB1924 [V] COG0842 ABC-type multidrug transport system, permeas... 82 8e-16 PH0911 [V] COG0842 ABC-type multidrug transport system, permease... 78 2e-14 AF1883 [V] COG0842 ABC-type multidrug transport system, permease... 73 4e-13 >lin0979 [V] COG0842 ABC-type multidrug transport system, permease component Length = 250 Score = 138 bits (347), Expect = 1e-32, Method: Compositional matrix adjust. Identities = 82/243 (33%), Positives = 142/243 (58%), Gaps = 6/243 (2%) Query: 18 QSVRNSLTMAYRGMLKIKRTPEQLFDVTFQPIIFTLMFTYIFGGAISGDVQNYLPMIIPG 77 +++R++ + R M I R+P+ + V PI+ LMF Y+ GGAI NY+ ++PG Sbjct: 2 KAIRDTRILFGRSMRHILRSPDTIITVAIIPIMIMLMFVYVLGGAIQTGTDNYVDYLLPG 61 Query: 78 ILVQTVITTSIVTGVQLREDMEKGVFDRFKSLPISRIAPLAGALLADTVRYTIATVLTFA 137 I++ + + T V+L D++KG+F RF S+PISR + L G +L V I+ VL Sbjct: 62 IILMAIASGIAYTAVRLFTDVQKGLFQRFHSMPISRSSVLWGHVLTSLVSNAISVVLIIL 121 Query: 138 MGYVMGLSPEGG-LGHVAMAGVLVIICSWAISWIFAFFGVIARTASSVQGISMIVLFPLT 196 + ++G G L +A+AG+L++ + A++W+ G+ A++ S ++F L Sbjct: 122 VALLIGFRSSAGILEWLAVAGILLLF-TLALTWVAVIPGLTAKSVDGASAFSYPLIF-LP 179 Query: 197 FLSNAFVPVDTMPDWLQWFVKMNPISHLVTAVRDLVNSGTMGSDLVFSLA---GAAVIVA 253 F+S+AFVP DTMP ++ F + P++ +V +R L+ SG++G+++ +LA G V+ Sbjct: 180 FISSAFVPTDTMPTAVRVFAENQPVTSIVNTIRALLYSGSVGNEIWIALAWCVGITVVAY 239 Query: 254 IFA 256 IFA Sbjct: 240 IFA 242 >BH3978 [V] COG0842 ABC-type multidrug transport system, permease component Length = 249 Score = 113 bits (283), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 74/232 (31%), Positives = 127/232 (54%), Gaps = 6/232 (2%) Query: 29 RGMLKIKRTPEQLFDVTFQPIIFTLMFTYIFGGAISGDVQNYLPMIIPGILVQTVITTSI 88 R M I R+P+ + V PI+ L+F Y+FGGAI NY+ ++PGIL+ + + Sbjct: 11 RLMRNIMRSPDTIVTVAVTPIMMMLLFVYVFGGAIETGTNNYVNYLLPGILLMAIASGVA 70 Query: 89 VTGVQLREDMEKGVFDRFKSLPISRIAPLAGALLADTVRYTIATVLTFAMGYVMGLSPEG 148 T ++L D++ G+ RF ++PI R + L +L + + V+ + +MG Sbjct: 71 YTSLRLFNDVKSGLMARFITMPIKRSSILWAHVLTSLLSNALTVVIVILVALLMGFRSSA 130 Query: 149 G-LGHVAMAGVLVIICSWAISWIFAFFGVIARTASSVQGISMIVLFPLTFLSNAFVPVDT 207 L A+AG+L + + A++W+ G+ A + S ++F L F+S+AFVP +T Sbjct: 131 NILEWFAVAGILGLF-TLALTWLAIIPGLRAGSMEGATAYSYPLIF-LPFISSAFVPTET 188 Query: 208 MPDWLQWFVKMNPISHLVTAVRDLVNSGTMGSDLVFSLA---GAAVIVAIFA 256 MP ++ F + P++ +V A+R L+ G++G+D+ +LA G VI IFA Sbjct: 189 MPTIVRAFAENQPVTSIVNAIRALLYDGSVGNDIWTTLAWCIGIMVIAYIFA 240 >PAB1924 [V] COG0842 ABC-type multidrug transport system, permease component Length = 257 Score = 82.0 bits (201), Expect = 8e-16, Method: Compositional matrix adjust. Identities = 64/242 (26%), Positives = 117/242 (48%), Gaps = 26/242 (10%) Query: 18 QSVRNSLTMAYRGMLKIKRTPEQLFDVTFQPIIFTLMFTYIFGGA--------ISGDVQN 69 +S+R +TM YR + + R+ ++ P+I+ + F + GA I G V + Sbjct: 2 KSMRVLMTMVYRELKRFIRSRARVLGSLLNPLIWLIFFGKGWAGAFNFPGAKMIFGGV-D 60 Query: 70 YLPMIIPGILVQTVITTSIVTGVQLREDMEKGVFDRFKSLPISRIAPLAGALLADTVRYT 129 Y+ ++PGI+ TV + G+ L D + G P SR+ + G + + Sbjct: 61 YMTYLVPGIVAMTVFNMGFMQGITLIWDRQFGFLKELLVAPASRVEAIIGRSIGGALMAL 120 Query: 130 IATVLTFAMGYVMGLSPEGGLGHVAMAGVL-VIICSWAISWIFAFFGV-IARTASSVQGI 187 I + A+ + L + ++GV+ ++ ++ + + G+ IA +S++G Sbjct: 121 IQGTIILALSFT--------LADLKLSGVVPTLLLAFLVGIAVSGMGMAIAMRMTSMEGF 172 Query: 188 SMIV---LFPLTFLSNAFVPVDTMPDWLQWFVKMNPISHLVTAVRDLVNSGTMGSDLVFS 244 +IV + P+TFLS AF P+ TMP W+Q+ K+NP+++ V R + G + FS Sbjct: 173 QIIVTMLMLPMTFLSGAFYPISTMPKWMQYLAKINPLTYAVDGARYYLA----GINPTFS 228 Query: 245 LA 246 LA Sbjct: 229 LA 230 >PH0911 [V] COG0842 ABC-type multidrug transport system, permease component Length = 257 Score = 77.8 bits (190), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 58/224 (25%), Positives = 108/224 (48%), Gaps = 32/224 (14%) Query: 24 LTMAYRGMLKIKRTPEQLFDVTFQPIIFTLMF-------------TYIFGGAISGDVQNY 70 LTM YR + + R+P ++ P+++ + F T IFGG +Y Sbjct: 8 LTMIYRELKRFIRSPSRIIGSILNPLLWLIFFGKGWSGVFNFPMATRIFGGV------DY 61 Query: 71 LPMIIPGILVQTVITTSIVTGVQLREDMEKGVFDRFKSLPISRIAPLAGALLADTVRYTI 130 + ++PG++V TV S + G+ + D + G P SR+ + G + + I Sbjct: 62 MTYLVPGVVVMTVFDMSFLQGLTIIWDKQFGFMKEILVAPASRVESILGRITGGAIVAMI 121 Query: 131 ATVLTFAMGYVMGLSPEGGLGHVAMAGVL-VIICSWAISWIFAFFGV-IARTASSVQGIS 188 + A+ ++ + ++ ++GV+ +I ++ + A GV +A SS++G Sbjct: 122 QGFIMVALSFI--------VANLKVSGVIPTLILAFFVGVAIAGLGVAVALKMSSMEGFQ 173 Query: 189 MIVLFPLTFL---SNAFVPVDTMPDWLQWFVKMNPISHLVTAVR 229 +IV+ + + S AF PV TMP+W+QW K+NP+++ V R Sbjct: 174 IIVMMLMLPMMFLSGAFYPVRTMPNWMQWLAKINPLTYAVDGAR 217 >AF1883 [V] COG0842 ABC-type multidrug transport system, permease component Length = 251 Score = 73.2 bits (178), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 62/228 (27%), Positives = 100/228 (43%), Gaps = 39/228 (17%) Query: 26 MAYRGMLKIKRTPEQLFDVTFQPIIFTLMFTY----------IFGGAISGDVQNYLPMII 75 M YR + + R ++ + P+++ F IFGG +YL + Sbjct: 7 MVYRQIKRFLRARSRVAGMIINPLVWLTFFGIGWSRAFRDPSIFGGV------DYLTYLS 60 Query: 76 PGILVQTVITTSIVTGVQLREDMEKGVFDRFKSLPISRIAPLAGALLADTVRYTIATVLT 135 PGI TV S V+G+ + D E G P SR +AG + D+ T+ + Sbjct: 61 PGIFAMTVFNQSFVSGISVIWDREFGFLKEVLVAPASRKETIAGRIFGDSAVATLQGAII 120 Query: 136 FAMGY------VMGLSPEGGLGHVAMAGVLVIICSWAISWIFAFFGV-IARTASSVQGIS 188 A+ + + G+ P G+G V ++ F+ FGV IA S++G Sbjct: 121 LALTFFIARINIFGVIPALGVGFV-------------LAVAFSSFGVSIAARMRSMEGFQ 167 Query: 189 MI---VLFPLTFLSNAFVPVDTMPDWLQWFVKMNPISHLVTAVRDLVN 233 MI V+ PL FLS A P+ MP W++ +NP+++ V + R L+ Sbjct: 168 MIMALVMLPLIFLSGAIYPIAFMPAWMKVLALLNPLTYAVESSRVLLT 215 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 0.328 0.140 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: 18,496,743 Number of extensions: 746292 Number of successful extensions: 3962 Number of sequences better than 1.0e-05: 57 Number of HSP's gapped: 3944 Number of HSP's successfully gapped: 57 Length of query: 267 Length of database: 38,378,431 Length adjustment: 105 Effective length of query: 162 Effective length of database: 26,268,361 Effective search space: 4255474482 Effective search space used: 4255474482 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)