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= 0001.2192.p (173 letters) Database: COGmodified 192,987 sequences; 59,019,183 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value fecI [K] COG1595 DNA-directed RNA polymerase specialized sigma s... 158 5e-39 PA1912 [K] COG1595 DNA-directed RNA polymerase specialized sigma... 156 3e-38 PA2468 [K] COG1595 DNA-directed RNA polymerase specialized sigma... 150 1e-36 PA3899 [K] COG1595 DNA-directed RNA polymerase specialized sigma... 142 4e-34 PA0472 [K] COG1595 DNA-directed RNA polymerase specialized sigma... 139 4e-33 >fecI [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Eco Escherichia coli K12 Length = 173 Score = 158 bits (400), Expect = 5e-39, Method: Compositional matrix adjust. Identities = 76/160 (47%), Positives = 111/160 (69%), Gaps = 1/160 (0%) Query: 12 FHTLYRQHHGWLQQWLRARLGSSVDAADLAQDTFVRVLGKPRALDEVREPRAWLSRIAHG 71 F +LY HHGWL+ WL +L S+ DA D+AQDTF+RV+ L +R+PR++L IA Sbjct: 13 FESLYGTHHGWLKSWLTRKLQSAFDADDIAQDTFLRVM-VSETLSTIRDPRSFLCTIAKR 71 Query: 72 LVVDKVRRDEVERACLDAIARLPEPQAISPEARLLLVEALAAIDAMLEGLGARAREAFLM 131 ++VD RR+ +E+A L+ +A +PE A SPE R +E L +D+ML+GL + REAFL+ Sbjct: 72 VMVDLFRRNALEKAYLEMLALMPEGGAPSPEERESQLETLQLLDSMLDGLNGKTREAFLL 131 Query: 132 SRLEEMSYPEIARSMGVSLSSVEKYMAAAIRHCYLMRQSW 171 S+L+ ++Y EIA +GVS+SSV+KY+A A+ HC L R + Sbjct: 132 SQLDGLTYSEIAHKLGVSISSVKKYVAKAVEHCLLFRLEY 171 >PA1912 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Pae Pseudomonas aeruginosa Length = 168 Score = 156 bits (394), Expect = 3e-38, Method: Compositional matrix adjust. Identities = 79/150 (52%), Positives = 106/150 (70%), Gaps = 1/150 (0%) Query: 15 LYRQHHGWLQQWLRARLGSSVDAADLAQDTFVRVLGKPRALDEVREPRAWLSRIAHGLVV 74 LY+ HHGWLQ WLR RLG + +AADLAQDTF R+L R LD REPRA+L+ +A GL++ Sbjct: 15 LYQDHHGWLQGWLRRRLGCAENAADLAQDTFARLLASRRVLD-AREPRAYLTTVAKGLMI 73 Query: 75 DKVRRDEVERACLDAIARLPEPQAISPEARLLLVEALAAIDAMLEGLGARAREAFLMSRL 134 + +R +ERA LDA+A LPE A PE RL+++E L +DA+L L R R+AFL++++ Sbjct: 74 NWFQRQSLERAYLDALANLPEDLAPPPEQRLMVLETLHEVDALLGSLPDRVRQAFLLAQI 133 Query: 135 EEMSYPEIARSMGVSLSSVEKYMAAAIRHC 164 E + Y IA +GVSL SV++YM A R C Sbjct: 134 EGLKYEAIAERLGVSLGSVKRYMQQAFRQC 163 >PA2468 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Pae Pseudomonas aeruginosa Length = 172 Score = 150 bits (380), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 94/170 (55%), Positives = 123/170 (72%), Gaps = 3/170 (1%) Query: 1 MSVP--HSADAQRFHTLYRQHHGWLQQWLRARLGSSVDAADLAQDTFVRVLGKPRALDEV 58 MS P SA + H LY +HHGWLQ WLR +LG + DAADLAQDTF+R+L K R L E+ Sbjct: 1 MSAPILLSAHHRAMHALYSEHHGWLQNWLRGKLGCAADAADLAQDTFLRILLK-RELREI 59 Query: 59 REPRAWLSRIAHGLVVDKVRRDEVERACLDAIARLPEPQAISPEARLLLVEALAAIDAML 118 PRA+L IA GLV+D RR+E++RA L++IA LPE QA SPEAR L++E L I ML Sbjct: 60 GMPRAFLRTIARGLVIDHWRREELQRAYLESIAHLPEAQAPSPEARELVLELLEEISRML 119 Query: 119 EGLGARAREAFLMSRLEEMSYPEIARSMGVSLSSVEKYMAAAIRHCYLMR 168 +GL + R AFL+++ E++S+ +IA MGVS SVE+Y+A A+ HCYL+R Sbjct: 120 DGLKPKVRTAFLLAQCEDLSHRQIAERMGVSQRSVERYVAEALYHCYLLR 169 >PA3899 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Pae Pseudomonas aeruginosa Length = 169 Score = 142 bits (358), Expect = 4e-34, Method: Compositional matrix adjust. Identities = 74/153 (48%), Positives = 103/153 (67%), Gaps = 1/153 (0%) Query: 14 TLYRQHHGWLQQWLRARLGSSVDAADLAQDTFVRVLGKPRALDEVREPRAWLSRIAHGLV 73 TLY HH WL WLR RLG +AADLAQDTFV+VL R + EPRA+L+ IA ++ Sbjct: 14 TLYSDHHHWLTGWLRRRLGCPQNAADLAQDTFVKVLVS-RQAARIDEPRAFLTTIARRVL 72 Query: 74 VDKVRRDEVERACLDAIARLPEPQAISPEARLLLVEALAAIDAMLEGLGARAREAFLMSR 133 + RR +VERA L+A+A LPE + S E R +++E L +D +L+GL A+E FL+++ Sbjct: 73 CNHYRRQDVERAYLEALASLPEREVPSEETRAIVLETLVELDRLLDGLPPLAKETFLLAQ 132 Query: 134 LEEMSYPEIARSMGVSLSSVEKYMAAAIRHCYL 166 L+ + Y EIA +G+SLSSV++YM A + CY Sbjct: 133 LDGLGYAEIATQLGISLSSVKRYMLKAAQRCYF 165 >PA0472 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Pae Pseudomonas aeruginosa Length = 172 Score = 139 bits (349), Expect = 4e-33, Method: Compositional matrix adjust. Identities = 74/166 (44%), Positives = 107/166 (64%), Gaps = 1/166 (0%) Query: 1 MSVPHSADAQRFHTLYRQHHGWLQQWLRARLGSSVDAADLAQDTFVRVLGKPRALDEVRE 60 MS ++++ +LYR H GWL WL LG A DL+QDTFVR+LG+P L +RE Sbjct: 1 MSAGDVSNSEFVGSLYRDHRGWLLAWLNRNLGCRQRAEDLSQDTFVRLLGRPE-LPGLRE 59 Query: 61 PRAWLSRIAHGLVVDKVRRDEVERACLDAIARLPEPQAISPEARLLLVEALAAIDAMLEG 120 PRA+L+++A GL++D RR +E+A L +A +PE + S E + L++E L ID +L Sbjct: 60 PRAFLAKVARGLMIDHFRRAALEQAYLAELALVPEAEQPSAEEQYLILEDLREIDRLLGT 119 Query: 121 LGARAREAFLMSRLEEMSYPEIARSMGVSLSSVEKYMAAAIRHCYL 166 L +AR AFL SRL+ M + EIA +GVS+ V +Y+A +R CY+ Sbjct: 120 LSLKARSAFLYSRLDGMPHAEIAERLGVSVPRVRQYLAQGLRQCYI 165