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= 0264.0034.p (239 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value BH2556 [K] COG1191 DNA-directed RNA polymerase specialized sigma... 365 e-101 BS_sigE [K] COG1191 DNA-directed RNA polymerase specialized sigm... 348 5e-96 CAC1695 [K] COG1191 DNA-directed RNA polymerase specialized sigm... 301 7e-82 CAC1689 [K] COG1191 DNA-directed RNA polymerase specialized sigm... 181 9e-46 BH1285 [K] COG1191 DNA-directed RNA polymerase specialized sigma... 181 1e-45 >BH2556 [K] COG1191 DNA-directed RNA polymerase specialized sigma subunit Length = 237 Score = 365 bits (938), Expect = e-101, Method: Compositional matrix adjust. Identities = 182/235 (77%), Positives = 202/235 (85%) Query: 5 KIALQLQYYRMLFLLGLKSQEIYYIGGSEALPPPLTREEEEFLLQRLSSGDAAVRAMLIE 64 K+ L +YR+L+ LG+K+ EIYYIGGSEALPPPL++EEE LL++L SGD AVR+MLIE Sbjct: 3 KLKATLIWYRLLYRLGMKADEIYYIGGSEALPPPLSKEEEAHLLKKLPSGDKAVRSMLIE 62 Query: 65 RNLRLVVYIARKFENTGINIEDLVSIGAIGLIKAVNTFDPEKKIKLATYASRCIENEILM 124 RNLRLVVYIARKFENTGINIEDL+SIG IGLIKAVNTF+PEKKIKLATYASRCIENEILM Sbjct: 63 RNLRLVVYIARKFENTGINIEDLISIGTIGLIKAVNTFNPEKKIKLATYASRCIENEILM 122 Query: 125 YLRRNSKTRSEVSFDEPLNIDWDGNELLLSDVLGTENDTIYRNIEEQVDRKLLQKALEKL 184 YLRRN+K RSEVSFDEPLNIDWDGNELLLSDVLGT++D I R IEE+VDRKLL KAL L Sbjct: 123 YLRRNNKIRSEVSFDEPLNIDWDGNELLLSDVLGTDDDIITRGIEEKVDRKLLMKALHTL 182 Query: 185 SERERLIMELRFGLRGGEEKTQKDVADLLGISQSYISXXXXXXXXXXXXXFNKMV 239 ++RE+ IMELRFGL GGEEKTQKDVADLLGISQSYIS FNKMV Sbjct: 183 TDREKQIMELRFGLAGGEEKTQKDVADLLGISQSYISRLEKRIIKRLQKEFNKMV 237 >BS_sigE [K] COG1191 DNA-directed RNA polymerase specialized sigma subunit Length = 239 Score = 348 bits (893), Expect = 5e-96, Method: Compositional matrix adjust. Identities = 175/239 (73%), Positives = 201/239 (84%) Query: 1 MVKWKIALQLQYYRMLFLLGLKSQEIYYIGGSEALPPPLTREEEEFLLQRLSSGDAAVRA 60 M K K+ L +Y++L LGLKS E+YYIGGSEALPPPL+++EE+ LL +L +GD A RA Sbjct: 1 MKKLKLRLTHLWYKLLMKLGLKSDEVYYIGGSEALPPPLSKDEEQVLLMKLPNGDQAARA 60 Query: 61 MLIERNLRLVVYIARKFENTGINIEDLVSIGAIGLIKAVNTFDPEKKIKLATYASRCIEN 120 +LIER LRLVVYIARKFENTGINIEDL+SIG IGLIKAVNTF+PEKKIKLATYASRCIEN Sbjct: 61 ILIERILRLVVYIARKFENTGINIEDLISIGTIGLIKAVNTFNPEKKIKLATYASRCIEN 120 Query: 121 EILMYLRRNSKTRSEVSFDEPLNIDWDGNELLLSDVLGTENDTIYRNIEEQVDRKLLQKA 180 EILMYLRRN+K RSEVSF EPLNIDWDGNELLLSDVLGT++D I ++IE VD+KLL+KA Sbjct: 121 EILMYLRRNNKIRSEVSFYEPLNIDWDGNELLLSDVLGTDDDIITKDIEANVDKKLLKKA 180 Query: 181 LEKLSERERLIMELRFGLRGGEEKTQKDVADLLGISQSYISXXXXXXXXXXXXXFNKMV 239 LE+L+ERE+ IMELRFGL G EEKTQKDVAD++GISQSYIS FNKMV Sbjct: 181 LEQLNEREKQIMELRFGLVGEEEKTQKDVADMMGISQSYISRLEKRIIKRLRKEFNKMV 239 >CAC1695 [K] COG1191 DNA-directed RNA polymerase specialized sigma subunit Length = 235 Score = 301 bits (770), Expect = 7e-82, Method: Compositional matrix adjust. Identities = 146/219 (66%), Positives = 182/219 (83%) Query: 21 LKSQEIYYIGGSEALPPPLTREEEEFLLQRLSSGDAAVRAMLIERNLRLVVYIARKFENT 80 L S +YYIGG++ALPPPL+++EE+ L+ +L +GD ++R++LIERNLRLVVYIARKFENT Sbjct: 17 LFSNRLYYIGGNDALPPPLSKDEEDDLVNKLVNGDESIRSILIERNLRLVVYIARKFENT 76 Query: 81 GINIEDLVSIGAIGLIKAVNTFDPEKKIKLATYASRCIENEILMYLRRNSKTRSEVSFDE 140 G+ +EDL+S+G IGLIKAVNTFDP KKIKLATY SRCIENEILMYLRRNSK ++E+SF E Sbjct: 77 GVGVEDLISVGTIGLIKAVNTFDPTKKIKLATYGSRCIENEILMYLRRNSKVKAEISFYE 136 Query: 141 PLNIDWDGNELLLSDVLGTENDTIYRNIEEQVDRKLLQKALEKLSERERLIMELRFGLRG 200 PLNIDWDGN+LLLSD+LGT+ND +Y IE +VD++LL AL+KL+ERE+ I+ELR+GL G Sbjct: 137 PLNIDWDGNKLLLSDILGTDNDCVYNLIEGEVDKQLLLFALKKLNEREKRIVELRYGLTG 196 Query: 201 GEEKTQKDVADLLGISQSYISXXXXXXXXXXXXXFNKMV 239 EKTQK+VAD+LGISQSYIS NKM+ Sbjct: 197 VGEKTQKEVADMLGISQSYISRLEKRIIKRLKKEINKML 235 >CAC1689 [K] COG1191 DNA-directed RNA polymerase specialized sigma subunit Length = 234 Score = 181 bits (459), Expect = 9e-46, Method: Compositional matrix adjust. Identities = 86/210 (40%), Positives = 145/210 (69%), Gaps = 1/210 (0%) Query: 13 YRMLFLLGLKSQEIYYIGGSEALPPPLTREEEEFLLQRLSSGDAAVRAMLIERNLRLVVY 72 Y + ++G + + YIG + P PL+ EE++ L++L GD + +LIERNLRLV + Sbjct: 5 YCLFNIVGSITFFVAYIGNGASFPQPLSESEEKYYLKKLKEGDPLAKNILIERNLRLVAH 64 Query: 73 IARKFENTGINIEDLVSIGAIGLIKAVNTFDPEKKIKLATYASRCIENEILMYLRRNSKT 132 I +K+ +G ++DL+SIG IGLIKA+++++ K +LATYA+RCIENEILM +R N K+ Sbjct: 65 IVKKYSYSGKEVDDLISIGTIGLIKAIDSYNVSKGTRLATYAARCIENEILMLIRNNKKS 124 Query: 133 RSEVSFDEPLNIDWDGNELLLSDVLGTENDTIYRNIEEQVD-RKLLQKALEKLSERERLI 191 ++EV +P+ +D +GNE+ L D+L +++D++ +E ++ KL + L RE+ I Sbjct: 125 KNEVYLQDPIGVDKEGNEISLIDILSSDDDSVIEIVENRIQIGKLYVEINRVLKGREKAI 184 Query: 192 MELRFGLRGGEEKTQKDVADLLGISQSYIS 221 +++R+GL G+ + Q+++A +LGIS+SY+S Sbjct: 185 IKMRYGLGDGKPRNQREIAQILGISRSYVS 214 >BH1285 [K] COG1191 DNA-directed RNA polymerase specialized sigma subunit Length = 235 Score = 181 bits (459), Expect = 1e-45, Method: Compositional matrix adjust. Identities = 91/188 (48%), Positives = 132/188 (70%) Query: 34 ALPPPLTREEEEFLLQRLSSGDAAVRAMLIERNLRLVVYIARKFENTGINIEDLVSIGAI 93 A P PL++EEE L+R++ GD R LIE NLRLV +I +KFENT + EDL+SIG I Sbjct: 26 AFPQPLSKEEERHYLKRMAEGDEEARNRLIEHNLRLVAHIVKKFENTREHTEDLISIGTI 85 Query: 94 GLIKAVNTFDPEKKIKLATYASRCIENEILMYLRRNSKTRSEVSFDEPLNIDWDGNELLL 153 GLIKA+ +F K KLATYA+RCIENEILM+LR K + +VS +P+ D +GNE+ L Sbjct: 86 GLIKAIESFSEGKGTKLATYAARCIENEILMHLRALKKVKKDVSLHDPIGTDKEGNEITL 145 Query: 154 SDVLGTENDTIYRNIEEQVDRKLLQKALEKLSERERLIMELRFGLRGGEEKTQKDVADLL 213 DVL +++ I +I+ ++++K + + + L +RE+ ++ RFGL EE+TQ+++A L Sbjct: 146 IDVLQEDSEDIADSIQLKMEKKQIYEYIHVLDDREKEVIVGRFGLDLEEERTQREIAKEL 205 Query: 214 GISQSYIS 221 GIS+SY+S Sbjct: 206 GISRSYVS 213 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 0.138 0.378 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: 15,337,191 Number of extensions: 583106 Number of successful extensions: 1570 Number of sequences better than 1.0e-05: 110 Number of HSP's gapped: 1566 Number of HSP's successfully gapped: 111 Length of query: 239 Length of database: 38,378,431 Length adjustment: 103 Effective length of query: 136 Effective length of database: 26,499,029 Effective search space: 3603867944 Effective search space used: 3603867944 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: 114 (48.5 bits)