BLASTP 2.2.21 [Jun-14-2009] 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= 0043.0018.p (209 letters) Database: COGmodified 192,987 sequences; 59,019,183 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value CC3253 [K] COG1595 DNA-directed RNA polymerase specialized sigma... 145 7e-35 AGc4121 [K] COG1595 DNA-directed RNA polymerase specialized sigm... 133 2e-31 mll3493 [K] COG1595 DNA-directed RNA polymerase specialized sigm... 132 5e-31 SMb20531 [K] COG1595 DNA-directed RNA polymerase specialized sig... 109 4e-24 BMEII0072_1 [K] COG1595 DNA-directed RNA polymerase specialized ... 102 4e-22 >CC3253 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Ccr Caulobacter vibrioides Length = 179 Score = 145 bits (365), Expect = 7e-35, Method: Compositional matrix adjust. Identities = 88/181 (48%), Positives = 108/181 (59%), Gaps = 15/181 (8%) Query: 30 TEERLRTLLLAGLDGDAVAYRNFLSELSGRLRTFLRKRLVHLQDDVEDVVQETLLAIHNA 89 TE RL+ L+L GLDGD AYR L+ L RLR + +R+ DVED+VQETLLA+H Sbjct: 4 TETRLKALMLRGLDGDTAAYREGLALLGVRLRAYFMRRMSGAPGDVEDLVQETLLAVHLK 63 Query: 90 RHTYRPDQPLTAWVHAIARYKLMDFLRARSRRDAFLDPLEEEHDLLAICDDEPAQARRDV 149 R T+ Q TAW HA+ARYKL+D R R R PLE+ D LA DD P D Sbjct: 64 RSTWDSAQSFTAWAHAVARYKLIDHWRRRKIRQTL--PLEDHVDFLA--DDAP-----DP 114 Query: 150 GALLE------ELPDKQRLPIVHVKLEGLSVAETAQLTGMSESAVKVGIHRGLKALALKI 203 G LE LP +QR+ + VKL GLS+AE G+SE A KV +HR LKALA ++ Sbjct: 115 GVALELDRALASLPQRQRMLVSDVKLTGLSLAEAGARAGISEGAAKVALHRALKALAERM 174 Query: 204 R 204 R Sbjct: 175 R 175 >AGc4121 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Atu Agrobacterium tumefaciens strain C58 (Cereon) Length = 184 Score = 133 bits (335), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 83/177 (46%), Positives = 109/177 (61%), Gaps = 3/177 (1%) Query: 29 PTEERLRTLLLAGLDGDAVAYRNFLSELSGRLRTFLRKRLVHL-QDDVEDVVQETLLAIH 87 P+EE L+ L+L LDGD +YR+ L L L + +R+ + DVED+VQETLL++H Sbjct: 7 PSEETLKMLMLRSLDGDEASYRHLLHALRRLLVAYYGRRMADAARADVEDLVQETLLSLH 66 Query: 88 NARHTYRPDQPLTAWVHAIARYKLMDFLRARSRRDAFLDPLEEEHDLLAICDDEPAQARR 147 R TY +P TAW +IARYKL+D R R RR +E + L A + AR Sbjct: 67 AKRETYDRARPFTAWFFSIARYKLIDHYRGRGRR--MFSEVELDETLEAESSVDAVTARM 124 Query: 148 DVGALLEELPDKQRLPIVHVKLEGLSVAETAQLTGMSESAVKVGIHRGLKALALKIR 204 DV LL ELP++QR I VKLEG S+AE A+ +G +E A +VGIHR LK LA K+R Sbjct: 125 DVERLLNELPERQRDLIRRVKLEGQSIAEAAEKSGQTELAARVGIHRTLKVLAAKLR 181 >mll3493 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Mlo Mesorhizobium loti Length = 183 Score = 132 bits (332), Expect = 5e-31, Method: Compositional matrix adjust. Identities = 77/176 (43%), Positives = 107/176 (60%), Gaps = 9/176 (5%) Query: 31 EERLRTLLLAGLDGDAVAYRNFLSELSGRLRTFLRKRLVHLQDDVEDVVQETLLAIHNAR 90 E L LL A + GD AY +FL ++ +R F+R+++V D EDVVQETLLAIH R Sbjct: 6 EAELSRLLRAAIAGDEKAYADFLHRIAALVRGFVRRKIVQGGVDPEDVVQETLLAIHVKR 65 Query: 91 HTYRPDQPLTAWVHAIARYKLMDFLRARSRRDAFLDPLEEEHDLLAICDDEPAQ---ARR 147 HT+R D P+ W++AIAR+KL+D R R RR +E + D +A EP + R Sbjct: 66 HTWRQDAPVLPWIYAIARFKLIDAFRRRGRR------IEIDVDDIAETFAEPETETVSER 119 Query: 148 DVGALLEELPDKQRLPIVHVKLEGLSVAETAQLTGMSESAVKVGIHRGLKALALKI 203 D+ L+ LP QR + V +EG S+ ETA G+SE+AV+V +HRGL A+A + Sbjct: 120 DINRALDGLPPAQRSVVSAVSVEGRSIGETAAKFGISETAVRVSLHRGLAAIAKRF 175 >SMb20531 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Sme Sinorhizobium meliloti Length = 178 Score = 109 bits (273), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 70/175 (40%), Positives = 101/175 (57%), Gaps = 7/175 (4%) Query: 34 LRTLLLAGLDGDAVAYRNFLSELSGRLRTFLRKRLVHLQDDVEDVVQETLLAIHNARHTY 93 L LL L G+ AY FL + +R + R+R+ + D ED+VQETLLA+H RHT+ Sbjct: 9 LAGLLRTALGGNEKAYSEFLQSAAALVRIWARRRVASVGLDPEDIVQETLLAVHLKRHTW 68 Query: 94 RPDQPLTAWVHAIARYKLMDFLRARSRRDAFLDPLEEEHDLLAICDDEPAQARRD--VGA 151 R P+ W+ AIAR+KL+D LR R R + + E E +L E A+ RD +G Sbjct: 69 RTGGPVKPWLFAIARHKLVDALR-RHGRHSRVQLSEIEGNLAT----EEAETARDWEIGR 123 Query: 152 LLEELPDKQRLPIVHVKLEGLSVAETAQLTGMSESAVKVGIHRGLKALALKIREK 206 LE L QR + + +EG ++AE A+ M+E+AV+V +HRGL A+A + K Sbjct: 124 ALEVLTPGQRSVVTAISVEGRTIAEAARSLDMNETAVRVALHRGLAAIARRFGRK 178 >BMEII0072_1 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Bme Brucella melitensis Length = 203 Score = 102 bits (255), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 71/174 (40%), Positives = 100/174 (57%), Gaps = 8/174 (4%) Query: 27 AHPTEERLRTLLLAGLDGDAVAYRNFLSELSGRLRTFLRKRLVHLQ-DDVEDVVQETLLA 85 A EERL+ L+L LDG++ AYR L ELS L+ + +RL + + ED+VQETLLA Sbjct: 25 ARSNEERLKALMLLALDGNSAAYRTLLEELSRLLKAYFVRRLFGGRVSEAEDLVQETLLA 84 Query: 86 IHNARHTYRPDQPLTAWVHAIARYKLMDFLRARSRRDAFLDPLEEEHDLLAICDDEPAQA 145 IH R TY + WV+AIAR+KL+D LR + R D D L+E D+ + +A Sbjct: 85 IHTRRMTYDREMTFLPWVNAIARHKLVDHLRRQGRHDT--DVLDE--DIAIPGEAANVEA 140 Query: 146 RRDVGALLEELPDKQRLPIVHVKLEGLSVAETAQLTGMSESAVKVGIHRGLKAL 199 R DV +L + ++ I VK+EG S+ + A+ MS+SA G R + AL Sbjct: 141 RMDVDRVLGGVSERTGGLIRQVKIEGQSIDDAARADDMSQSA---GGWRSIGAL 191