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= 0088.0005.p (303 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value SMc01951 [E] COG0559 Branched-chain amino acid ABC-type transpor... 204 2e-52 BMEI0258 [E] COG0559 Branched-chain amino acid ABC-type transpor... 196 3e-50 AGc4402 [E] COG0559 Branched-chain amino acid ABC-type transport... 196 5e-50 YPO3807 [E] COG0559 Branched-chain amino acid ABC-type transport... 195 8e-50 PA4912 [E] COG0559 Branched-chain amino acid ABC-type transport ... 193 3e-49 >SMc01951 [E] COG0559 Branched-chain amino acid ABC-type transport system, permease components Length = 300 Score = 204 bits (518), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 125/303 (41%), Positives = 170/303 (56%), Gaps = 5/303 (1%) Query: 3 MEYFIQQLINGISVGSIYALIALGYTMVYGIIKLINFAHGDVFMVGSFIGLYSAKYLTD- 61 MEYF+QQL+NG+++GSIY +IA+GYTMVYGII +INFAHGD+FM+G F L LT Sbjct: 1 MEYFVQQLVNGLTLGSIYGMIAIGYTMVYGIIGMINFAHGDIFMLGGFAALIVFLLLTTF 60 Query: 62 -AGFPPXXXXXXXXXXXXXXXALLGITIERLAYKPLRKSTRIAALITAIGVSFLLEYTGV 120 AG P AL TIER+AY+PLR S R+A LITAIG+S +L Sbjct: 61 IAGVPVVLALLIMMVVGMLTAALWNWTIERVAYRPLRGSFRLAPLITAIGMSIVLSNFIQ 120 Query: 121 LILGPQAQGFPDIMDKKQFTLFGSSIQVESNQVXXXXXXXXXXXXXQYIVRFTKTGKAMR 180 + GP+ + P ++ + LFG S+ ++ Q+ YIV T G+A R Sbjct: 121 VTQGPRNKPIPPLVSSV-YDLFGISVSLK--QIIIVVITAILLSVFWYIVNRTPLGRAQR 177 Query: 181 AVSFDVEAARLMGINVDRTISXXXXXXXXXXXXXGVIFGMTYNSVDPLMGVMPGLKAFVA 240 A D + A L+G++VDRTIS G ++ M Y V G PG+KAF A Sbjct: 178 ATEQDRKMAALLGVDVDRTISVTFIMGAALAAVAGTMYLMYYGVVVFTDGFAPGVKAFTA 237 Query: 241 AVLGGIGSIPXXXXXXXXXXTVETEISSLGFSSWRDGVAFAVLILILIFKPSGLFGKNVR 300 AVLGGIGS+P +E+ S+ ++D F++L ++LIFKPSG+ G+ Sbjct: 238 AVLGGIGSLPGAVLGGLLIGLIESLWSAYFTIDYKDVATFSILAIVLIFKPSGILGRPEV 297 Query: 301 EKV 303 EKV Sbjct: 298 EKV 300 >BMEI0258 [E] COG0559 Branched-chain amino acid ABC-type transport system, permease components Length = 307 Score = 196 bits (499), Expect = 3e-50, Method: Compositional matrix adjust. Identities = 119/304 (39%), Positives = 164/304 (53%), Gaps = 3/304 (0%) Query: 2 AMEYFIQQLINGISVGSIYALIALGYTMVYGIIKLINFAHGDVFMVGSFIGLYSAKYLTD 61 +MEYF QQ+ING+++GSIY LIA+GYTMVYGII +INFAHGD+FM+G+F+ L +T Sbjct: 5 SMEYFFQQVINGLALGSIYGLIAIGYTMVYGIIGMINFAHGDIFMLGAFMALIVFLIITT 64 Query: 62 --AGFPPXXXXXXXXXXXXXXXALLGITIERLAYKPLRKSTRIAALITAIGVSFLLEYTG 119 P L IER+AY+PLR S R+A LITAIG+S L Sbjct: 65 FIGMLPVALMLLLMMIVAMLLTGLWSWAIERVAYQPLRGSFRLAPLITAIGMSIALSNFV 124 Query: 120 VLILGPQAQGFPDIMDKKQFTLFGSSIQVESNQVXXXXXXXXXXXXXQYIVRFTKTGKAM 179 + GP+ + P +++ + LFGS + Q+ Y+V T G+A Sbjct: 125 QVTQGPRNKPVPQLLNGS-YELFGSGGTISLKQIVVIVVTAILLTIFWYVVNRTSLGRAQ 183 Query: 180 RAVSFDVEAARLMGINVDRTISXXXXXXXXXXXXXGVIFGMTYNSVDPLMGVMPGLKAFV 239 RA D + A L+GINVDR IS G ++ Y + G +PG+KAF Sbjct: 184 RACEQDRKMAALLGINVDRVISLTFVMGAMLAAVAGTLYLSFYGVISFADGFIPGVKAFT 243 Query: 240 AAVLGGIGSIPXXXXXXXXXXTVETEISSLGFSSWRDGVAFAVLILILIFKPSGLFGKNV 299 AAVLGGIGS+P +E S+ ++D AF++L ++LIF PSG+ G+ Sbjct: 244 AAVLGGIGSLPGAVVGGLLIGLIEALWSAYFSIDYKDVAAFSILAIVLIFMPSGILGRPD 303 Query: 300 REKV 303 EKV Sbjct: 304 VEKV 307 >AGc4402 [E] COG0559 Branched-chain amino acid ABC-type transport system, permease components Length = 300 Score = 196 bits (497), Expect = 5e-50, Method: Compositional matrix adjust. Identities = 123/303 (40%), Positives = 164/303 (54%), Gaps = 5/303 (1%) Query: 3 MEYFIQQLINGISVGSIYALIALGYTMVYGIIKLINFAHGDVFMVGSFIGLYSAKYLTD- 61 MEYFIQQLING+++GSIY LIA+GYTMVYGII +INFAHGD+FM+G F L T Sbjct: 1 MEYFIQQLINGLTLGSIYGLIAIGYTMVYGIIGMINFAHGDIFMLGGFAALIVFLIATSF 60 Query: 62 -AGFPPXXXXXXXXXXXXXXXALLGITIERLAYKPLRKSTRIAALITAIGVSFLLEYTGV 120 AG P L IER+AY+PLR S R+A LITAIG+S L Sbjct: 61 FAGIPVALLLLLMMIVAMLMTGLWNWVIERVAYRPLRGSFRLAPLITAIGMSIALSNFIQ 120 Query: 121 LILGPQAQGFPDIMDKKQFTLFGSSIQVESNQVXXXXXXXXXXXXXQYIVRFTKTGKAMR 180 + GP+ + P ++ + FG+ I V Q+ YIV T G+A R Sbjct: 121 VTQGPRNKPIPSMVTESYH--FGA-ITVSLKQLIIMVVTSVLLFAFWYIVNKTPLGRAQR 177 Query: 181 AVSFDVEAARLMGINVDRTISXXXXXXXXXXXXXGVIFGMTYNSVDPLMGVMPGLKAFVA 240 A D + A L+G++VD+TIS G ++ M Y G +PG+KAF A Sbjct: 178 ATEQDRKMAALLGVDVDKTISITFIMGAALAAVAGTMYLMYYGVASFSDGFVPGVKAFTA 237 Query: 241 AVLGGIGSIPXXXXXXXXXXTVETEISSLGFSSWRDGVAFAVLILILIFKPSGLFGKNVR 300 AVLGGIGS+P +E+ S+ +++D AF +L +LIFKP+G+ G+ Sbjct: 238 AVLGGIGSLPGAVLGGLLIGLIESLWSAYFSIAYKDVAAFGILAFVLIFKPTGILGRPEV 297 Query: 301 EKV 303 EKV Sbjct: 298 EKV 300 >YPO3807 [E] COG0559 Branched-chain amino acid ABC-type transport system, permease components Length = 308 Score = 195 bits (495), Expect = 8e-50, Method: Compositional matrix adjust. Identities = 114/303 (37%), Positives = 167/303 (55%), Gaps = 5/303 (1%) Query: 5 YFIQQLINGISVGSIYALIALGYTMVYGIIKLINFAHGDVFMVGSFIGLYSAKYLTDAGF 64 YF+QQ+ NGI++GS YALIA+GYTMVYGII +INFAHG+V+M+ S++ L G Sbjct: 7 YFLQQMFNGITLGSTYALIAIGYTMVYGIIGMINFAHGEVYMISSYVSFIVIAALMMVGI 66 Query: 65 PPXXXXXXXXXXXXXXXA-LLGITIERLAYKPLRKSTRIAALITAIGVSFLLEYTGVLIL 123 A G +IER+AYKP+R+S R+ ALI+AIG+S L+ L Sbjct: 67 DASWLLIGCAFLVSIVIASTYGWSIERVAYKPVRRSKRLIALISAIGMSIFLQNYVSLTQ 126 Query: 124 GPQAQGFPDIMDKKQFTL---FGSSIQVESNQVXXXXXXXXXXXXXQYIVRFTKTGKAMR 180 G + P ++ Q+TL G + + + Q+ +R+++ G+A R Sbjct: 127 GSRDLALPSLVTG-QWTLGESNGFAATISTMQLTIWIVTFLAMLALTLFIRYSRMGRACR 185 Query: 181 AVSFDVEAARLMGINVDRTISXXXXXXXXXXXXXGVIFGMTYNSVDPLMGVMPGLKAFVA 240 A + D++ A L+GIN DR IS GV+ G Y ++P +G M G+KAF A Sbjct: 186 ACAEDLKMASLLGINTDRVISLTFVIGALMAAVAGVLLGQFYGVINPYIGFMAGMKAFTA 245 Query: 241 AVLGGIGSIPXXXXXXXXXXTVETEISSLGFSSWRDGVAFAVLILILIFKPSGLFGKNVR 300 AVLGGIGSIP E S+ + ++D V+FA+LI++L+ P+G+ G+ Sbjct: 246 AVLGGIGSIPGAMIGGLVLGVAEALTSAYLSTEYKDAVSFALLIVVLLVMPTGILGRPEV 305 Query: 301 EKV 303 EKV Sbjct: 306 EKV 308 >PA4912 [E] COG0559 Branched-chain amino acid ABC-type transport system, permease components Length = 304 Score = 193 bits (491), Expect = 3e-49, Method: Compositional matrix adjust. Identities = 116/310 (37%), Positives = 167/310 (53%), Gaps = 22/310 (7%) Query: 6 FIQQLINGISVGSIYALIALGYTMVYGIIKLINFAHGDVFMVGS-----------FIGLY 54 F+QQ+ING+++GS+Y LIA+GYTMVYGII +INFAHG+V+M+ + F GL Sbjct: 5 FLQQMINGLTLGSVYGLIAIGYTMVYGIIGMINFAHGEVYMISAYLSAIALALLAFFGLQ 64 Query: 55 SAKYLTDAGFPPXXXXXXXXXXXXXXXALLGITIERLAYKPLRKSTRIAALITAIGVSFL 114 + FP G IER+AYKPLR STR+A LI+AIG+S + Sbjct: 65 N--------FP--LLILGTLLFTVLVTCTYGWVIERIAYKPLRNSTRLAPLISAIGMSLI 114 Query: 115 LEYTGVLILGPQAQGFPDIMDKK-QFTLFGSSIQVESNQVXXXXXXXXXXXXXQYIVRFT 173 L+ + GP+ QG P ++D +F + +Q+ ++ Y++R+T Sbjct: 115 LQNYVQVAQGPRQQGIPTLLDGALKFHVGDGFVQLTYTKLFILIASLIGMAVLTYVIRYT 174 Query: 174 KTGKAMRAVSFDVEAARLMGINVDRTISXXXXXXXXXXXXXGVIFGMTYNSVDPLMGVMP 233 K G+ RA D + A ++GIN DR IS GV+ M Y + D G + Sbjct: 175 KLGRMCRATQQDRKMASILGINTDRVISYVFVIGAAMAALAGVLITMNYGTFDFYAGFII 234 Query: 234 GLKAFVAAVLGGIGSIPXXXXXXXXXXTVETEISSLGFSSWRDGVAFAVLILILIFKPSG 293 G+KAF AAVLGGIGS+P E + S + + ++D AF++L+LILIF+P G Sbjct: 235 GIKAFTAAVLGGIGSLPGAMLGGLVLGVAEAQFSGMVNTDYKDVFAFSLLVLILIFRPQG 294 Query: 294 LFGKNVREKV 303 L G+ KV Sbjct: 295 LLGRPQIAKV 304 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 0.326 0.142 0.406 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: 17,621,635 Number of extensions: 593685 Number of successful extensions: 1701 Number of sequences better than 1.0e-05: 53 Number of HSP's gapped: 1606 Number of HSP's successfully gapped: 53 Length of query: 303 Length of database: 38,378,431 Length adjustment: 106 Effective length of query: 197 Effective length of database: 26,153,027 Effective search space: 5152146319 Effective search space used: 5152146319 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 115 (48.9 bits)