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= 0541.0068.p (192 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value STM1431 [P] COG0605 Superoxide dismutase 145 5e-35 TM1431 [K] COG1954 Glycerol-3-phosphate responsive antiterminato... 145 5e-35 BH1091 [K] COG1954 Glycerol-3-phosphate responsive antiterminato... 143 2e-34 BH1075 [K] COG1954 Glycerol-3-phosphate responsive antiterminato... 122 4e-28 STM1436 [C] COG1902 NADH:flavin oxidoreductases, Old Yellow Enzy... 82 3e-16 >STM1431 [P] COG0605 Superoxide dismutase Length = 346 Score = 145 bits (365), Expect = 5e-35, Method: Compositional matrix adjust. Identities = 11/175 (6%), Positives = 36/175 (20%) Query: 12 HRIIPAVRKAEDLQKACDSEWPMIFLLIGDLFTVKQYVRQGLEAGKKVFLHVDFIGGLGS 71 + + + ++ + + V E +V Sbjct: 18 LGTMTFGEQNSEADAHAQLDYAVAQGINLIDVAEMYPVPPRPETQGLTETYVGNWLAKHG 77 Query: 72 DPLVVKYIAEKIGPTGIISTKNHMVKQAKKSGLLAIQRLFLIDTSALEHGINNVRQNESD 131 + ++ GP+ + + + L + V + Sbjct: 78 SREKLIIASKVSGPSRNNDKGIRPDQALDRKNIREALHDSLKRLQTDYLDLYQVHWPQRP 137 Query: 132 ALEVMPGLIPRVITELSSSTSRPIIAGGLIKDHQEIEAALQAGASAVSMGNPELW 186 + + S + A + +I + +A + Sbjct: 138 TNCFGKLGYSWTDSAPAVSLLDTLDALAEYQRAGKIRYIGVSNETAFGVMRYLHL 192 >TM1431 [K] COG1954 Glycerol-3-phosphate responsive antiterminator (mRNA-binding) Length = 195 Score = 145 bits (365), Expect = 5e-35, Method: Compositional matrix adjust. Identities = 72/175 (41%), Positives = 114/175 (65%) Query: 12 HRIIPAVRKAEDLQKACDSEWPMIFLLIGDLFTVKQYVRQGLEAGKKVFLHVDFIGGLGS 71 + +IPAVR +D+++A +S +IFLL G + +++ V + K+VF+HVD + GL Sbjct: 18 YPVIPAVRAEKDIEEALESPSEVIFLLTGTVMNIEEIVYKLKNGKKEVFVHVDLVKGLSL 77 Query: 72 DPLVVKYIAEKIGPTGIISTKNHMVKQAKKSGLLAIQRLFLIDTSALEHGINNVRQNESD 131 D ++++ E +G GIIST H++K A+K G+ IQR+FL+D+ ALE G+ E D Sbjct: 78 DRCSLEFLREIVGVDGIISTHIHLLKIARKLGMRIIQRVFLVDSGALESGLAQAEDLEPD 137 Query: 132 ALEVMPGLIPRVITELSSSTSRPIIAGGLIKDHQEIEAALQAGASAVSMGNPELW 186 LE++PG++P I E++ S IIAGGLI+ +++ AAL+AGA A+S +LW Sbjct: 138 FLEILPGIVPEFIKEITKRYSGDIIAGGLIRKKEQVFAALEAGAKAISTSCKDLW 192 >BH1091 [K] COG1954 Glycerol-3-phosphate responsive antiterminator (mRNA-binding) Length = 183 Score = 143 bits (360), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 71/184 (38%), Positives = 113/184 (61%), Gaps = 3/184 (1%) Query: 3 NGLFAGSGNHRIIPAVRKAEDLQKACDSEWPMIFLLIGDLFTVKQYVRQGLEAGKKVFLH 62 +G F +I+PA R ++L++ ++E+ I LL + ++ +R K +FLH Sbjct: 2 SGFFV---QQQILPAARTTKELERFLETEYKYIVLLNSHVAQLRSLMRLVKAKKKLLFLH 58 Query: 63 VDFIGGLGSDPLVVKYIAEKIGPTGIISTKNHMVKQAKKSGLLAIQRLFLIDTSALEHGI 122 D + GL +D ++IA++I P G+IST+ ++V AKK L+A+QRLFL+D+ ALE Sbjct: 59 ADLVQGLKTDEFAAQFIAQEIRPYGLISTRKNVVLTAKKHKLVAVQRLFLLDSQALESSY 118 Query: 123 NNVRQNESDALEVMPGLIPRVITELSSSTSRPIIAGGLIKDHQEIEAALQAGASAVSMGN 182 + + D +EV+PG++P +I E+ T PIIAGGL++ E++AAL +GA AVS Sbjct: 119 KLLEITQPDFIEVLPGVMPHIIKEVYEHTKIPIIAGGLVRTRDEVDAALSSGAVAVSTSK 178 Query: 183 PELW 186 ELW Sbjct: 179 KELW 182 >BH1075 [K] COG1954 Glycerol-3-phosphate responsive antiterminator (mRNA-binding) Length = 201 Score = 122 bits (305), Expect = 4e-28, Method: Compositional matrix adjust. Identities = 69/156 (44%), Positives = 98/156 (62%), Gaps = 2/156 (1%) Query: 26 KACDSEWPMIFLLIGDLFTVKQYVRQGLEAGKKVFLHVDFIGGLGSDPLV-VKYIAEKIG 84 + +S +FLL G + + + V + GK V+LHVD I G+ ++ ++YIAE I Sbjct: 18 RCLESNVQTVFLLTGTMLDLPEKVYALQQRGKTVYLHVDLITGVQANTHEGMRYIAEVIA 77 Query: 85 PTGIISTKNHMVKQAKKSGLLAIQRLFLIDTSALEHGINNVRQNESDALEVMPGLI-PRV 143 P GIISTK + Q KK GL IQR+FLID AL I+ + E DA+E MPGLI PR+ Sbjct: 78 PDGIISTKGQAIMQGKKLGLKTIQRIFLIDRHALNKAIDTCLKIEPDAVEAMPGLIMPRI 137 Query: 144 ITELSSSTSRPIIAGGLIKDHQEIEAALQAGASAVS 179 I EL + I++GGL ++ +E++ AL+AGA+AVS Sbjct: 138 IEELVARLPFHIVSGGLFQEKEEMDLALRAGAAAVS 173 >STM1436 [C] COG1902 NADH:flavin oxidoreductases, Old Yellow Enzyme family Length = 346 Score = 82.4 bits (202), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 10/166 (6%), Positives = 31/166 (18%), Gaps = 6/166 (3%) Query: 23 DLQKACDSEWPMIFLLIGDLFTVKQYVRQGLEAGKKVFLHVDFIGGLGSDPLVVKYIAEK 82 + Q + + + + + + Sbjct: 11 LEVSTLGLGTMTFGEQNSEADAHAQLDYAVAQGINLIDVAEMYPVPPRPETQGLTET-YV 69 Query: 83 IGPTGIISTKNHMVKQAKKSGLLAIQRLFLIDTSALEHGINNVRQNESDALEVMPGLI-P 141 ++ ++ +K SG + AL+ ++S L Sbjct: 70 GNWLAKHGSREKLIIASKVSGPSRNNDKGIRPDQALDRKNIREALHDSLKRLQTDYLDLY 129 Query: 142 RVITELSSSTSRPIIAGGLIKDHQEIEAALQAGASAVSMGNPELWH 187 +V A + ++ + Sbjct: 130 QVHWPQR---PTNCFGKLGYSWTDSAPAVSLL-DTLDALAEYQRAG 171 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 0.319 0.136 0.390 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: 13,617,814 Number of extensions: 515998 Number of successful extensions: 1338 Number of sequences better than 1.0e-05: 6 Number of HSP's gapped: 1334 Number of HSP's successfully gapped: 6 Length of query: 192 Length of database: 38,378,431 Length adjustment: 101 Effective length of query: 91 Effective length of database: 26,729,697 Effective search space: 2432402427 Effective search space used: 2432402427 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 (21.7 bits) S2: 113 (48.1 bits)