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= 0011.0367.p (200 letters) Database: COGmodified 192,987 sequences; 59,019,183 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value PA2426 [K] COG1595 DNA-directed RNA polymerase specialized sigma... 145 8e-35 SMc04203 [K] COG1595 DNA-directed RNA polymerase specialized sig... 91 2e-18 PA0472 [K] COG1595 DNA-directed RNA polymerase specialized sigma... 77 2e-14 PA2387 [K] COG1595 DNA-directed RNA polymerase specialized sigma... 74 2e-13 PA1300 [K] COG1595 DNA-directed RNA polymerase specialized sigma... 74 2e-13 AGl2869 [K] COG1595 DNA-directed RNA polymerase specialized sigm... 74 3e-13 PA2050 [K] COG1595 DNA-directed RNA polymerase specialized sigma... 73 5e-13 RSp0849 [K] COG1595 DNA-directed RNA polymerase specialized sigm... 72 7e-13 fecI [K] COG1595 DNA-directed RNA polymerase specialized sigma s... 72 1e-12 AGl2290 [K] COG1595 DNA-directed RNA polymerase specialized sigm... 70 3e-12 >PA2426 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Pae Pseudomonas aeruginosa Length = 187 Score = 145 bits (365), Expect = 8e-35, Method: Compositional matrix adjust. Identities = 77/158 (48%), Positives = 101/158 (63%), Gaps = 1/158 (0%) Query: 34 LREQFIEHRARLRDVATRILGCPHRADDVVQDTFIKIAEVPD-DFDIKQPVAYLYRIVRN 92 L + F+++R L +A RI GC RA+DVVQD F ++ P K ++YL++IVRN Sbjct: 14 LLQAFVDNRTILVKIAARITGCRSRAEDVVQDAFFRLQSAPQITSSFKAQLSYLFQIVRN 73 Query: 93 LAIDRHRRSAFECDVFTEEEDGLDVHQEGDSPEAIAISRQYLSMIGRALEGLPARTRRAF 152 LAID +R+ A E EE+GL+V +G SPE I+ L I AL LP RTR AF Sbjct: 74 LAIDHYRKQALEQKYSGPEEEGLNVVIQGASPETSHINYATLEHIADALTELPKRTRYAF 133 Query: 153 ELYRLSGLTQREIAAELNISTTLVNFMIRDALACCRNL 190 E+YRL G+ Q++IA EL +S TLVNFMIRDAL CR + Sbjct: 134 EMYRLHGVPQKDIAKELGVSPTLVNFMIRDALVHCRKV 171 >SMc04203 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Sme Sinorhizobium meliloti Length = 159 Score = 90.5 bits (223), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 54/149 (36%), Positives = 84/149 (56%), Gaps = 4/149 (2%) Query: 38 FIEHRARLRDVATRILGCPHRADDVVQDTFIK-IAEVPDDFDIKQPVAYLYRIVRNLAID 96 ++ HR L D A +LG A+D+VQD +++ + E D+ P YL+RIVRNL+ + Sbjct: 2 YLRHRRSLIDYAAPLLGSKDDAEDIVQDAYLRFVRETADEH--MPPKTYLFRIVRNLSFN 59 Query: 97 RHRRSAFECDVFTEEE-DGLDVHQEGDSPEAIAISRQYLSMIGRALEGLPARTRRAFELY 155 + R E +V + + Q ++PEA + + + +AL LP R RRAFELY Sbjct: 60 KRSRRKLENNVVESADIPWWALPQAVETPEAQFLMSEAADRVAQALGALPDRMRRAFELY 119 Query: 156 RLSGLTQREIAAELNISTTLVNFMIRDAL 184 R G T ++IA EL+IS + ++RDA+ Sbjct: 120 RFEGSTLKDIAEELSISIPTAHRLVRDAM 148 >PA0472 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Pae Pseudomonas aeruginosa Length = 172 Score = 77.4 bits (189), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 55/163 (33%), Positives = 77/163 (47%), Gaps = 12/163 (7%) Query: 38 FIEHRARLRDVATRILGCPHRADDVVQDTFIKIAEVPDDFDIKQPVAYLYRIVRNLAIDR 97 + +HR L R LGC RA+D+ QDTF+++ P+ +++P A+L ++ R L ID Sbjct: 16 YRDHRGWLLAWLNRNLGCRQRAEDLSQDTFVRLLGRPELPGLREPRAFLAKVARGLMIDH 75 Query: 98 HRRSAFECDVFTEEEDGLDVHQEGDSPEAIAISRQYLSM-----IGRALEGLPARTRRAF 152 RR+A E E L + E + P A QYL + I R L L + R AF Sbjct: 76 FRRAALEQAYLAE----LALVPEAEQPSA---EEQYLILEDLREIDRLLGTLSLKARSAF 128 Query: 153 ELYRLSGLTQREIAAELNISTTLVNFMIRDALACCRNLLQNEP 195 RL G+ EIA L +S V + L C L EP Sbjct: 129 LYSRLDGMPHAEIAERLGVSVPRVRQYLAQGLRQCYIALYGEP 171 >PA2387 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Pae Pseudomonas aeruginosa Length = 159 Score = 73.9 bits (180), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 49/126 (38%), Positives = 68/126 (53%), Gaps = 9/126 (7%) Query: 67 FIKIAEVPDDFDIKQPVAYLYRIVRNLAIDRHRRS----AFECDVFTEEEDGLDVHQEGD 122 ++++ E I+ P A+LYR NLA+D HRRS A +V +EE GL Sbjct: 30 YLRVLERSSQAQIEHPKAFLYRTALNLAVDEHRRSRVRRAEPLEVLDDEE-GL----ASP 84 Query: 123 SPEAIAISRQYLSMIGRALEGLPARTRRAFELYRLSGLTQREIAAELNISTTLVNFMIRD 182 SP+ + Q L + RAL LPA R +F L +L GL+ +IA LNIS +LV I + Sbjct: 85 SPQTVVDQGQRLDNLQRALAELPAICRSSFLLRKLDGLSHSQIAEHLNISRSLVEKHIVN 144 Query: 183 ALACCR 188 A+ CR Sbjct: 145 AMKHCR 150 >PA1300 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Pae Pseudomonas aeruginosa Length = 175 Score = 73.9 bits (180), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 48/142 (33%), Positives = 70/142 (49%), Gaps = 3/142 (2%) Query: 53 LGCPHRADDVVQDTFIKIAEVPDDFDIKQPVAYLYRIVRNLAIDRHRRS---AFECDVFT 109 LG A D+ QDTF + + P ++QP A+L++I RNL D RR + D Sbjct: 28 LGSSADAADLAQDTFAQWLKWPGRQSVEQPRAFLFQIARNLLRDHWRRQQSRGQDLDRPA 87 Query: 110 EEEDGLDVHQEGDSPEAIAISRQYLSMIGRALEGLPARTRRAFELYRLSGLTQREIAAEL 169 ++ + E P +Q LS + AL LP R R AF L++ GL+Q E+A + Sbjct: 88 ANDEPAALEGEAAGPGERFEQQQRLSHLAAALAELPPRRREAFVLHKFDGLSQVEVAERM 147 Query: 170 NISTTLVNFMIRDALACCRNLL 191 IS ++V I AL C+ L Sbjct: 148 GISLSMVEKHIASALLHCKRRL 169 >AGl2869 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Atu Agrobacterium tumefaciens strain C58 (Cereon) Length = 166 Score = 73.6 bits (179), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 49/151 (32%), Positives = 77/151 (50%), Gaps = 3/151 (1%) Query: 38 FIEHRARLRDVATRILGCPHRADDVVQDTFIKIAEVPD-DFDIKQPVAYLYRIVRNLAID 96 ++ HR L AT ILG A+DVVQ+ F+K VP+ + +YL+RIVRNLA+D Sbjct: 13 YVAHRVDLIKYATLILGSRADAEDVVQEAFLKF--VPEGSGNPTNLKSYLFRIVRNLALD 70 Query: 97 RHRRSAFECDVFTEEEDGLDVHQEGDSPEAIAISRQYLSMIGRALEGLPARTRRAFELYR 156 RRS + ++ + Q+ +PE A+ + + L GLP + R A E++R Sbjct: 71 NRRRSRQDLRERPDDTPFWGMPQDNGTPEEHALFCDEVRQMQTILAGLPVQARVALEMHR 130 Query: 157 LSGLTQREIAAELNISTTLVNFMIRDALACC 187 G EIA L +S + +I+ ++ Sbjct: 131 FGGYNMEEIARHLGVSVAGAHRLIKGSIVAI 161 >PA2050 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Pae Pseudomonas aeruginosa Length = 168 Score = 72.8 bits (177), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 50/148 (33%), Positives = 72/148 (48%), Gaps = 16/148 (10%) Query: 51 RILGCPHRADDVVQDTFIKIAEVPDDFDIKQPVAYLYRIVRNLAIDRHRRSAFECDVFTE 110 R LGCPH A+D+ +TF+K+ +PD I++P A L I R L D RR E + E Sbjct: 28 RYLGCPHSAEDIASETFLKVLALPDPASIREPRALLTTIARRLMYDGWRRQDLE-RAYLE 86 Query: 111 EEDGLDVHQEGDSPEAIAISR-------QYLSMIGRALEGLPARTRRAFELYRLSGLTQR 163 GL PEA+A S + L + R L GL + R AF ++ GLT Sbjct: 87 SLAGL--------PEALAPSAEEQAQVVETLLRLERMLAGLSPKARAAFIHSQIGGLTYV 138 Query: 164 EIAAELNISTTLVNFMIRDALACCRNLL 191 EIA L +S + ++ + + C +L Sbjct: 139 EIACLLEVSVSRIHQYMVEGFKQCYQVL 166 >RSp0849 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Rso Ralstonia solanacearum Length = 169 Score = 72.4 bits (176), Expect = 7e-13, Method: Compositional matrix adjust. Identities = 50/156 (32%), Positives = 75/156 (48%), Gaps = 10/156 (6%) Query: 36 EQFIEHRARLRDVATRILGCPHRADDVVQDTFIKIAEVPDDFDIKQPVAYLYRIVRNLAI 95 + F +H A L R GC A+D+ + F ++ ++PD ++P A L I + L Sbjct: 14 DWFRQHYAWLAGRMGRKTGCRFGAEDLASEAFAQLLQMPDWQGTREPRALLTTIAQRLLY 73 Query: 96 DRHRRS----AFECDVFTEEEDGLDVHQEGDSPEAIAISRQYLSMIGRALEGLPARTRRA 151 D RR A++ + E L SPE A+ + L+ I R L+GLP + R A Sbjct: 74 DIWRRRDLELAYQAWAAAQPEATLP------SPEERALVLEALATIDRLLDGLPVKARTA 127 Query: 152 FELYRLSGLTQREIAAELNISTTLVNFMIRDALACC 187 F +L GLT EIA LN+S +V + A+ C Sbjct: 128 FLYSQLDGLTYPEIAGRLNVSVRMVQKYMTQAMRLC 163 >fecI [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Eco Escherichia coli K12 Length = 173 Score = 71.6 bits (174), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 50/163 (30%), Positives = 78/163 (47%), Gaps = 6/163 (3%) Query: 27 TSTQAARLREQFIEHRARLRDVATRILGCPHRADDVVQDTFIKIAEVPDDFDIKQPVAYL 86 T+T + + H L+ TR L ADD+ QDTF+++ I+ P ++L Sbjct: 6 TTTASLTFESLYGTHHGWLKSWLTRKLQSAFDADDIAQDTFLRVMVSETLSTIRDPRSFL 65 Query: 87 YRIVRNLAIDRHRRSAFECDVFTEEEDGLDVHQEGD--SPEAIAISRQYLSMIGRALEGL 144 I + + +D RR+A E + L + EG SPE + L ++ L+GL Sbjct: 66 CTIAKRVMVDLFRRNALEKAYL----EMLALMPEGGAPSPEERESQLETLQLLDSMLDGL 121 Query: 145 PARTRRAFELYRLSGLTQREIAAELNISTTLVNFMIRDALACC 187 +TR AF L +L GLT EIA +L +S + V + A+ C Sbjct: 122 NGKTREAFLLSQLDGLTYSEIAHKLGVSISSVKKYVAKAVEHC 164 >AGl2290 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Atu Agrobacterium tumefaciens strain C58 (Cereon) Length = 187 Score = 70.1 bits (170), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 44/131 (33%), Positives = 74/131 (56%), Gaps = 2/131 (1%) Query: 59 ADDVVQDTFIKIAEVPDDFDIKQPV-AYLYRIVRNLAIDRHRRSAFECDVFT-EEEDGLD 116 A ++V D ++K+A PD K+ + A+L R N+ IDR RR E +F+ +ED Sbjct: 49 AREIVHDLYVKLALQPDALSGKRSIKAFLCRAASNMRIDRIRREQLESRLFSGSDEDARA 108 Query: 117 VHQEGDSPEAIAISRQYLSMIGRALEGLPARTRRAFELYRLSGLTQREIAAELNISTTLV 176 V ++P+ L+++ +A+ LP + R AF L+RL L+ +IA++L IS +V Sbjct: 109 VFAADNAPDQGLAVEARLTVLKQAIADLPEKRRTAFVLHRLHHLSPDQIASKLKISRNMV 168 Query: 177 NFMIRDALACC 187 + +R AL+ C Sbjct: 169 DRHLRRALSHC 179