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= 0434.0020.p (254 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value Rv1553 [C] COG0479 Succinate dehydrogenase/fumarate reductase, F... 119 4e-27 MT1604 [C] COG0479 Succinate dehydrogenase/fumarate reductase, F... 119 4e-27 STM4342 [C] COG0479 Succinate dehydrogenase/fumarate reductase, ... 113 3e-25 frdB [C] COG0479 Succinate dehydrogenase/fumarate reductase, Fe-... 112 6e-25 ZfrdB [C] COG0479 Succinate dehydrogenase/fumarate reductase, Fe... 112 6e-25 >Rv1553 [C] COG0479 Succinate dehydrogenase/fumarate reductase, Fe-S protein subunit Length = 346 Score = 119 bits (299), Expect = 4e-27, Method: Compositional matrix adjust. Identities = 11/241 (4%), Positives = 31/241 (12%), Gaps = 22/241 (9%) Query: 20 EPDTAPYTEEFELAYRPGMNVISALMEIQRNPVNAKGDSTVPVCWESNCLEEVCGACSMV 79 T + + + + N + + Sbjct: 15 TLGLGTMTFGEQNSEADAHAQLDYAVAQGINL-----IDVAEMYP--VPPRPETQGLTET 67 Query: 80 INGKPRQACAALI-DNLEQPVRIEPMRTFPVVRDLVIDRSRMFGALKRVKAWI------P 132 G + + V +R + Sbjct: 68 YVGNWLAKHGSREKLIIASKVSGPSRNNDKGIRPDQALDRKNIREALHDSLKRLQTDYLD 127 Query: 133 I-DGTYDLGPGPRMAEKKRQWAYELSKCMTCGVCLEACPNVNEKTNFIGPAAISQVRLFN 191 + + P + S + Sbjct: 128 LYQVHWPQRPTNCFGKL------GYSWTDSAPAVSLLDTLDALAEYQRAGKIRYIGVSNE 181 Query: 192 AHPTGEMNADERLDALMEDGGIDGCGNSQNCVRACPKGIPLTTSIAEINKQTTKHMFKRW 251 D + R+ G+ + + + Sbjct: 182 TAFGVMRYLHLA-DKHDLPRIVTIQNPYSLLNRSFEVGLAEVSQYEGVELLAYSCLGFGT 240 Query: 252 L 252 L Sbjct: 241 L 241 >MT1604 [C] COG0479 Succinate dehydrogenase/fumarate reductase, Fe-S protein subunit Length = 346 Score = 119 bits (299), Expect = 4e-27, Method: Compositional matrix adjust. Identities = 11/241 (4%), Positives = 31/241 (12%), Gaps = 22/241 (9%) Query: 20 EPDTAPYTEEFELAYRPGMNVISALMEIQRNPVNAKGDSTVPVCWESNCLEEVCGACSMV 79 T + + + + N + + Sbjct: 15 TLGLGTMTFGEQNSEADAHAQLDYAVAQGINL-----IDVAEMYP--VPPRPETQGLTET 67 Query: 80 INGKPRQACAALI-DNLEQPVRIEPMRTFPVVRDLVIDRSRMFGALKRVKAWI------P 132 G + + V +R + Sbjct: 68 YVGNWLAKHGSREKLIIASKVSGPSRNNDKGIRPDQALDRKNIREALHDSLKRLQTDYLD 127 Query: 133 I-DGTYDLGPGPRMAEKKRQWAYELSKCMTCGVCLEACPNVNEKTNFIGPAAISQVRLFN 191 + + P + S + Sbjct: 128 LYQVHWPQRPTNCFGKL------GYSWTDSAPAVSLLDTLDALAEYQRAGKIRYIGVSNE 181 Query: 192 AHPTGEMNADERLDALMEDGGIDGCGNSQNCVRACPKGIPLTTSIAEINKQTTKHMFKRW 251 D + R+ G+ + + + Sbjct: 182 TAFGVMRYLHLA-DKHDLPRIVTIQNPYSLLNRSFEVGLAEVSQYEGVELLAYSCLGFGT 240 Query: 252 L 252 L Sbjct: 241 L 241 >STM4342 [C] COG0479 Succinate dehydrogenase/fumarate reductase, Fe-S protein subunit Length = 346 Score = 113 bits (282), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 20/242 (8%), Positives = 42/242 (17%), Gaps = 11/242 (4%) Query: 9 KNVKFVITRQD-EPDTAPYTEEFELAYRPGMNVISALMEIQRNPVNAKGDSTVPVCWESN 67 + + T + E+ A + I + Sbjct: 5 RIPHSSLEVSTLGLGTMTFGEQNSEADAHAQLDYAVAQGINLI-------DVAEMYPVPP 57 Query: 68 CLEEVCGACSMVINGKPRQACAALIDNLEQPVRIEPMRTFPVVRDLVIDRSRMFGALKRV 127 E + V N + + + + D +DR + AL Sbjct: 58 RPETQGLTETYVGNWLAKHGSREKLIIASKVSGPSRNNDKGIRPDQALDRKNIREALHDS 117 Query: 128 KAWIPIDG-TYDLGPGPRMAEKKRQWAYELSKCMTCGVCLEACPNVNEKTNFIGPAAISQ 186 + D P+ S + Sbjct: 118 LKRLQTDYLDLYQVHWPQRPTNCFGK-LGYSWTDSAPAVSLLDTLDALAEYQRAGKIRYI 176 Query: 187 VRLFNAHPTGEMNADERLDALMEDGGIDGCGNSQNCVRACPKGIPLTTSIAEINKQTTKH 246 G M D + R+ G+ + + Sbjct: 177 GVSNE-TAFGVMRYLHLADKHDLPRIVTIQNPYSLLNRSFEVGLAEVSQYEGVELLAYSC 235 Query: 247 MF 248 + Sbjct: 236 LG 237 >frdB [C] COG0479 Succinate dehydrogenase/fumarate reductase, Fe-S protein subunit Length = 346 Score = 112 bits (280), Expect = 6e-25, Method: Compositional matrix adjust. Identities = 21/243 (8%), Positives = 43/243 (17%), Gaps = 13/243 (5%) Query: 9 KNVKFVITRQD-EPDTAPYTEEFELAYRPGMNVISALMEIQRNPVNAKGDSTVP-VCWES 66 + + T + E+ A + I V + Sbjct: 5 RIPHSSLEVSTLGLGTMTFGEQNSEADAHAQLDYAVAQGIN--------LIDVAEMYPVP 56 Query: 67 NCLEEVCGACSMVINGKPRQACAALIDNLEQPVRIEPMRTFPVVRDLVIDRSRMFGALKR 126 E + V N + + + + D +DR + AL Sbjct: 57 PRPETQGLTETYVGNWLAKHGSREKLIIASKVSGPSRNNDKGIRPDQALDRKNIREALHD 116 Query: 127 VKAWIPIDG-TYDLGPGPRMAEKKRQWAYELSKCMTCGVCLEACPNVNEKTNFIGPAAIS 185 + D P+ S + Sbjct: 117 SLKRLQTDYLDLYQVHWPQRPTNCFGK-LGYSWTDSAPAVSLLDTLDALAEYQRAGKIRY 175 Query: 186 QVRLFNAHPTGEMNADERLDALMEDGGIDGCGNSQNCVRACPKGIPLTTSIAEINKQTTK 245 G M D + R+ G+ + + Sbjct: 176 IGVSNE-TAFGVMRYLHLADKHDLPRIVTIQNPYSLLNRSFEVGLAEVSQYEGVELLAYS 234 Query: 246 HMF 248 + Sbjct: 235 CLG 237 >ZfrdB [C] COG0479 Succinate dehydrogenase/fumarate reductase, Fe-S protein subunit Length = 346 Score = 112 bits (280), Expect = 6e-25, Method: Compositional matrix adjust. Identities = 21/243 (8%), Positives = 43/243 (17%), Gaps = 13/243 (5%) Query: 9 KNVKFVITRQD-EPDTAPYTEEFELAYRPGMNVISALMEIQRNPVNAKGDSTVP-VCWES 66 + + T + E+ A + I V + Sbjct: 5 RIPHSSLEVSTLGLGTMTFGEQNSEADAHAQLDYAVAQGIN--------LIDVAEMYPVP 56 Query: 67 NCLEEVCGACSMVINGKPRQACAALIDNLEQPVRIEPMRTFPVVRDLVIDRSRMFGALKR 126 E + V N + + + + D +DR + AL Sbjct: 57 PRPETQGLTETYVGNWLAKHGSREKLIIASKVSGPSRNNDKGIRPDQALDRKNIREALHD 116 Query: 127 VKAWIPIDG-TYDLGPGPRMAEKKRQWAYELSKCMTCGVCLEACPNVNEKTNFIGPAAIS 185 + D P+ S + Sbjct: 117 SLKRLQTDYLDLYQVHWPQRPTNCFGK-LGYSWTDSAPAVSLLDTLDALAEYQRAGKIRY 175 Query: 186 QVRLFNAHPTGEMNADERLDALMEDGGIDGCGNSQNCVRACPKGIPLTTSIAEINKQTTK 245 G M D + R+ G+ + + Sbjct: 176 IGVSNE-TAFGVMRYLHLADKHDLPRIVTIQNPYSLLNRSFEVGLAEVSQYEGVELLAYS 234 Query: 246 HMF 248 + Sbjct: 235 CLG 237 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 0.320 0.135 0.423 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: 18,803,891 Number of extensions: 711706 Number of successful extensions: 7874 Number of sequences better than 1.0e-05: 28 Number of HSP's gapped: 7808 Number of HSP's successfully gapped: 28 Length of query: 254 Length of database: 38,378,431 Length adjustment: 104 Effective length of query: 150 Effective length of database: 26,383,695 Effective search space: 3957554250 Effective search space used: 3957554250 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.8 bits) S2: 114 (48.5 bits)