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= 0030.0172.p (172 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... 161 5e-40 PA1912 [K] COG1595 DNA-directed RNA polymerase specialized sigma... 154 8e-38 PA3899 [K] COG1595 DNA-directed RNA polymerase specialized sigma... 150 2e-36 PA2468 [K] COG1595 DNA-directed RNA polymerase specialized sigma... 144 9e-35 PA0472 [K] COG1595 DNA-directed RNA polymerase specialized sigma... 139 4e-33 PA4896 [K] COG1595 DNA-directed RNA polymerase specialized sigma... 124 1e-28 RSp0849 [K] COG1595 DNA-directed RNA polymerase specialized sigm... 121 6e-28 PA2050 [K] COG1595 DNA-directed RNA polymerase specialized sigma... 106 2e-23 PA2093 [K] COG1595 DNA-directed RNA polymerase specialized sigma... 103 2e-22 PA1300 [K] COG1595 DNA-directed RNA polymerase specialized sigma... 99 5e-21 >fecI [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Eco Escherichia coli K12 Length = 173 Score = 161 bits (408), Expect = 5e-40, Method: Compositional matrix adjust. Identities = 79/163 (48%), Positives = 112/163 (68%), Gaps = 1/163 (0%) Query: 4 TVHAQRFHTLYSEHHGWLQQWLRRRVGSSFDAADLAQDTFLRVLGKPGALDGVREPRAWL 63 T + F +LY HHGWL+ WL R++ S+FDA D+AQDTFLRV+ L +R+PR++L Sbjct: 7 TTASLTFESLYGTHHGWLKSWLTRKLQSAFDADDIAQDTFLRVMVSE-TLSTIRDPRSFL 65 Query: 64 SRIAHGLVVDKLRREEVERTCLEAIAHLPEPEVVSPEARLILVEALCMIDALLEGLGERA 123 IA ++VD RR +E+ LE +A +PE SPE R +E L ++D++L+GL + Sbjct: 66 CTIAKRVMVDLFRRNALEKAYLEMLALMPEGGAPSPEERESQLETLQLLDSMLDGLNGKT 125 Query: 124 RQAFLLSRLDEMSYPEIARHLGVSLSSVEKYMAAAIRHCYLMR 166 R+AFLLS+LD ++Y EIA LGVS+SSV+KY+A A+ HC L R Sbjct: 126 REAFLLSQLDGLTYSEIAHKLGVSISSVKKYVAKAVEHCLLFR 168 >PA1912 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Pae Pseudomonas aeruginosa Length = 168 Score = 154 bits (389), Expect = 8e-38, Method: Compositional matrix adjust. Identities = 78/150 (52%), Positives = 107/150 (71%), Gaps = 1/150 (0%) Query: 13 LYSEHHGWLQQWLRRRVGSSFDAADLAQDTFLRVLGKPGALDGVREPRAWLSRIAHGLVV 72 LY +HHGWLQ WLRRR+G + +AADLAQDTF R+L LD REPRA+L+ +A GL++ Sbjct: 15 LYQDHHGWLQGWLRRRLGCAENAADLAQDTFARLLASRRVLDA-REPRAYLTTVAKGLMI 73 Query: 73 DKLRREEVERTCLEAIAHLPEPEVVSPEARLILVEALCMIDALLEGLGERARQAFLLSRL 132 + +R+ +ER L+A+A+LPE PE RL+++E L +DALL L +R RQAFLL+++ Sbjct: 74 NWFQRQSLERAYLDALANLPEDLAPPPEQRLMVLETLHEVDALLGSLPDRVRQAFLLAQI 133 Query: 133 DEMSYPEIARHLGVSLSSVEKYMAAAIRHC 162 + + Y IA LGVSL SV++YM A R C Sbjct: 134 EGLKYEAIAERLGVSLGSVKRYMQQAFRQC 163 >PA3899 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Pae Pseudomonas aeruginosa Length = 169 Score = 150 bits (378), Expect = 2e-36, Method: Compositional matrix adjust. Identities = 80/153 (52%), Positives = 107/153 (69%), Gaps = 1/153 (0%) Query: 12 TLYSEHHGWLQQWLRRRVGSSFDAADLAQDTFLRVLGKPGALDGVREPRAWLSRIAHGLV 71 TLYS+HH WL WLRRR+G +AADLAQDTF++VL A + EPRA+L+ IA ++ Sbjct: 14 TLYSDHHHWLTGWLRRRLGCPQNAADLAQDTFVKVLVSRQAAR-IDEPRAFLTTIARRVL 72 Query: 72 VDKLRREEVERTCLEAIAHLPEPEVVSPEARLILVEALCMIDALLEGLGERARQAFLLSR 131 + RR++VER LEA+A LPE EV S E R I++E L +D LL+GL A++ FLL++ Sbjct: 73 CNHYRRQDVERAYLEALASLPEREVPSEETRAIVLETLVELDRLLDGLPPLAKETFLLAQ 132 Query: 132 LDEMSYPEIARHLGVSLSSVEKYMAAAIRHCYL 164 LD + Y EIA LG+SLSSV++YM A + CY Sbjct: 133 LDGLGYAEIATQLGISLSSVKRYMLKAAQRCYF 165 >PA2468 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Pae Pseudomonas aeruginosa Length = 172 Score = 144 bits (363), Expect = 9e-35, Method: Compositional matrix adjust. Identities = 87/163 (53%), Positives = 118/163 (72%), Gaps = 1/163 (0%) Query: 4 TVHAQRFHTLYSEHHGWLQQWLRRRVGSSFDAADLAQDTFLRVLGKPGALDGVREPRAWL 63 + H + H LYSEHHGWLQ WLR ++G + DAADLAQDTFLR+L K L + PRA+L Sbjct: 8 SAHHRAMHALYSEHHGWLQNWLRGKLGCAADAADLAQDTFLRILLK-RELREIGMPRAFL 66 Query: 64 SRIAHGLVVDKLRREEVERTCLEAIAHLPEPEVVSPEARLILVEALCMIDALLEGLGERA 123 IA GLV+D RREE++R LE+IAHLPE + SPEAR +++E L I +L+GL + Sbjct: 67 RTIARGLVIDHWRREELQRAYLESIAHLPEAQAPSPEARELVLELLEEISRMLDGLKPKV 126 Query: 124 RQAFLLSRLDEMSYPEIARHLGVSLSSVEKYMAAAIRHCYLMR 166 R AFLL++ +++S+ +IA +GVS SVE+Y+A A+ HCYL+R Sbjct: 127 RTAFLLAQCEDLSHRQIAERMGVSQRSVERYVAEALYHCYLLR 169 >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 = 73/153 (47%), Positives = 102/153 (66%), Gaps = 1/153 (0%) Query: 12 TLYSEHHGWLQQWLRRRVGSSFDAADLAQDTFLRVLGKPGALDGVREPRAWLSRIAHGLV 71 +LY +H GWL WL R +G A DL+QDTF+R+LG+P L G+REPRA+L+++A GL+ Sbjct: 14 SLYRDHRGWLLAWLNRNLGCRQRAEDLSQDTFVRLLGRP-ELPGLREPRAFLAKVARGLM 72 Query: 72 VDKLRREEVERTCLEAIAHLPEPEVVSPEARLILVEALCMIDALLEGLGERARQAFLLSR 131 +D RR +E+ L +A +PE E S E + +++E L ID LL L +AR AFL SR Sbjct: 73 IDHFRRAALEQAYLAELALVPEAEQPSAEEQYLILEDLREIDRLLGTLSLKARSAFLYSR 132 Query: 132 LDEMSYPEIARHLGVSLSSVEKYMAAAIRHCYL 164 LD M + EIA LGVS+ V +Y+A +R CY+ Sbjct: 133 LDGMPHAEIAERLGVSVPRVRQYLAQGLRQCYI 165 >PA4896 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Pae Pseudomonas aeruginosa Length = 178 Score = 124 bits (311), Expect = 1e-28, Method: Compositional matrix adjust. Identities = 72/155 (46%), Positives = 100/155 (64%), Gaps = 4/155 (2%) Query: 12 TLYSEHHGWLQQWL--RRRVGSSFDAADLAQDTFLRVLGK--PGALDGVREPRAWLSRIA 67 TLY E+H WL+ WL R R A DLA DTFLR+L G + +R+PRA+L+RIA Sbjct: 17 TLYRENHAWLRNWLAYRLRSWGRGVADDLAHDTFLRILASRDGGQREAIRQPRAYLTRIA 76 Query: 68 HGLVVDKLRREEVERTCLEAIAHLPEPEVVSPEARLILVEALCMIDALLEGLGERARQAF 127 + ++V RR+ +E LEA+A LPEP SPE + ++VE L IDALL+ L R +QAF Sbjct: 77 NCVLVSWRRRQSLELAWLEALATLPEPLQPSPEQQSVIVETLHEIDALLDTLRPRVKQAF 136 Query: 128 LLSRLDEMSYPEIARHLGVSLSSVEKYMAAAIRHC 162 L++ LD M +IA+ LGV+L +V+K++ A C Sbjct: 137 LMATLDGMKQKDIAQALGVALPTVKKFIHQAYVTC 171 >RSp0849 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Rso Ralstonia solanacearum Length = 169 Score = 121 bits (304), Expect = 6e-28, Method: Compositional matrix adjust. Identities = 68/151 (45%), Positives = 92/151 (60%), Gaps = 1/151 (0%) Query: 14 YSEHHGWLQQWLRRRVGSSFDAADLAQDTFLRVLGKPGALDGVREPRAWLSRIAHGLVVD 73 + +H+ WL + R+ G F A DLA + F ++L P G REPRA L+ IA L+ D Sbjct: 16 FRQHYAWLAGRMGRKTGCRFGAEDLASEAFAQLLQMPD-WQGTREPRALLTTIAQRLLYD 74 Query: 74 KLRREEVERTCLEAIAHLPEPEVVSPEARLILVEALCMIDALLEGLGERARQAFLLSRLD 133 RR ++E A PE + SPE R +++EAL ID LL+GL +AR AFL S+LD Sbjct: 75 IWRRRDLELAYQAWAAAQPEATLPSPEERALVLEALATIDRLLDGLPVKARTAFLYSQLD 134 Query: 134 EMSYPEIARHLGVSLSSVEKYMAAAIRHCYL 164 ++YPEIA L VS+ V+KYM A+R CYL Sbjct: 135 GLTYPEIAGRLNVSVRMVQKYMTQAMRLCYL 165 >PA2050 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Pae Pseudomonas aeruginosa Length = 168 Score = 106 bits (265), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 60/151 (39%), Positives = 90/151 (59%), Gaps = 1/151 (0%) Query: 13 LYSEHHGWLQQWLRRRVGSSFDAADLAQDTFLRVLGKPGALDGVREPRAWLSRIAHGLVV 72 ++ + WL LRR +G A D+A +TFL+VL P +REPRA L+ IA L+ Sbjct: 14 MFQNDYSWLSGRLRRYLGCPHSAEDIASETFLKVLALPDP-ASIREPRALLTTIARRLMY 72 Query: 73 DKLRREEVERTCLEAIAHLPEPEVVSPEARLILVEALCMIDALLEGLGERARQAFLLSRL 132 D RR+++ER LE++A LPE S E + +VE L ++ +L GL +AR AF+ S++ Sbjct: 73 DGWRRQDLERAYLESLAGLPEALAPSAEEQAQVVETLLRLERMLAGLSPKARAAFIHSQI 132 Query: 133 DEMSYPEIARHLGVSLSSVEKYMAAAIRHCY 163 ++Y EIA L VS+S + +YM + CY Sbjct: 133 GGLTYVEIACLLEVSVSRIHQYMVEGFKQCY 163 >PA2093 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Pae Pseudomonas aeruginosa Length = 169 Score = 103 bits (256), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 60/163 (36%), Positives = 97/163 (59%), Gaps = 5/163 (3%) Query: 1 VPHTVHAQRFHTLYSEHHGWLQQWLRRRVGSSFDAADLAQDTFLRVLGKPGALDGVREPR 60 + +T+ AQ L+ +++ WL + L + G S A DLA + FL+V P +R PR Sbjct: 7 IKNTLIAQ----LFQQNYDWLCKKLSYQTGCSHSAEDLAAEAFLQVWMLPDPA-SIRSPR 61 Query: 61 AWLSRIAHGLVVDKLRREEVERTCLEAIAHLPEPEVVSPEARLILVEALCMIDALLEGLG 120 A+L+ IA L+ + RR+++ER L+ +A PE SP + +L+E+L ID LL+GL Sbjct: 62 AFLATIAQRLMYESWRRKDLERAYLQILAEAPEAVQPSPHEQWMLIESLQAIDRLLDGLS 121 Query: 121 ERARQAFLLSRLDEMSYPEIARHLGVSLSSVEKYMAAAIRHCY 163 +AR FL+S+L+ ++Y +I LG+SL + + M A+ CY Sbjct: 122 GQARAVFLMSQLEGLTYVQIGERLGLSLGRIHQLMKDALHCCY 164 >PA1300 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Pae Pseudomonas aeruginosa Length = 175 Score = 99.0 bits (245), Expect = 5e-21, Method: Compositional matrix adjust. Identities = 64/154 (41%), Positives = 89/154 (57%), Gaps = 6/154 (3%) Query: 14 YSEHHGWLQQWLRRRVGSSFDAADLAQDTFLRVLGKPGALDGVREPRAWLSRIAHGLVVD 73 Y HG L ++LR+ +GSS DAADLAQDTF + L PG V +PRA+L +IA L+ D Sbjct: 13 YQAFHGELLRFLRKHLGSSADAADLAQDTFAQWLKWPGR-QSVEQPRAFLFQIARNLLRD 71 Query: 74 KLRREEVERTCLEAIAHLPEP-----EVVSPEARLILVEALCMIDALLEGLGERARQAFL 128 RR++ L+ A EP E P R + L + A L L R R+AF+ Sbjct: 72 HWRRQQSRGQDLDRPAANDEPAALEGEAAGPGERFEQQQRLSHLAAALAELPPRRREAFV 131 Query: 129 LSRLDEMSYPEIARHLGVSLSSVEKYMAAAIRHC 162 L + D +S E+A +G+SLS VEK++A+A+ HC Sbjct: 132 LHKFDGLSQVEVAERMGISLSMVEKHIASALLHC 165