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= 0430.0005.p (251 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value BH1538 [K] COG1191 DNA-directed RNA polymerase specialized sigma... 375 e-104 BS_sigF [K] COG1191 DNA-directed RNA polymerase specialized sigm... 374 e-104 BH2554 [K] COG1191 DNA-directed RNA polymerase specialized sigma... 246 3e-65 BS_sigG [K] COG1191 DNA-directed RNA polymerase specialized sigm... 235 4e-62 CAC1696 [K] COG1191 DNA-directed RNA polymerase specialized sigm... 230 2e-60 >BH1538 [K] COG1191 DNA-directed RNA polymerase specialized sigma subunit Length = 252 Score = 375 bits (963), Expect = e-104, Method: Compositional matrix adjust. Identities = 181/254 (71%), Positives = 216/254 (85%), Gaps = 5/254 (1%) Query: 1 MDAESK---KAPPTYLDDAEVKRLIALSQAGDNLARDTLVNCNIRLVWSVVQRFMNRGYE 57 MD E K K P D E+K+LIA SQAGD ARD +V+ N RLVWSVVQRF+NRGYE Sbjct: 1 MDVEVKQNEKEQP--FTDEEIKQLIAQSQAGDQEARDQIVSRNTRLVWSVVQRFLNRGYE 58 Query: 58 PDDLFQIGCIGLLKSVDKFDLSYEVKFSTYAVPMIIGEIQRFLRDDGTLKVSRSLKEMAN 117 DDLFQIGCIGL+KSVDKFDLSY+VKFSTYAVPMIIGEIQRFLRDDGT+KVSRS+KE+ N Sbjct: 59 ADDLFQIGCIGLIKSVDKFDLSYDVKFSTYAVPMIIGEIQRFLRDDGTVKVSRSIKELGN 118 Query: 118 RVRKMKDEMSKTLDRLPTIGEVAEALGVTPEEIVFAQEANKPPTSIHETVFENDGDPITL 177 ++RK+KD+M+KTL R PT+ E+AE L +TPEE+VFA +A++ +SIHETV+ENDGDPITL Sbjct: 119 KIRKLKDDMTKTLGRTPTVNEIAEQLEITPEEVVFAGDASRSLSSIHETVYENDGDPITL 178 Query: 178 IDQIADETQERWFDKLALNEAIGALTERERLIVYLRYYRDQTQSEVASRLGISQVQVSRL 237 +DQ+ D+++ RWFDK+AL EAI L ERERLIVYLRYY+DQTQSEVA RLGISQVQVSRL Sbjct: 179 LDQLEDQSETRWFDKIALKEAIHNLEERERLIVYLRYYKDQTQSEVAQRLGISQVQVSRL 238 Query: 238 EKKILASIREQIAQ 251 EKKIL +++ IA+ Sbjct: 239 EKKILETMKANIAE 252 >BS_sigF [K] COG1191 DNA-directed RNA polymerase specialized sigma subunit Length = 255 Score = 374 bits (960), Expect = e-104, Method: Compositional matrix adjust. Identities = 179/250 (71%), Positives = 211/250 (84%), Gaps = 1/250 (0%) Query: 1 MDAESKK-APPTYLDDAEVKRLIALSQAGDNLARDTLVNCNIRLVWSVVQRFMNRGYEPD 59 MD E KK L D EVK LI SQ GD ARD L+ N+RLVWSVVQRF+NRGYEPD Sbjct: 1 MDVEVKKNGKNAQLKDHEVKELIKQSQNGDQQARDLLIEKNMRLVWSVVQRFLNRGYEPD 60 Query: 60 DLFQIGCIGLLKSVDKFDLSYEVKFSTYAVPMIIGEIQRFLRDDGTLKVSRSLKEMANRV 119 DLFQIGCIGLLKSVDKFDL+Y+V+FSTYAVPMIIGEIQRF+RDDGT+KVSRSLKE+ N++ Sbjct: 61 DLFQIGCIGLLKSVDKFDLTYDVRFSTYAVPMIIGEIQRFIRDDGTVKVSRSLKELGNKI 120 Query: 120 RKMKDEMSKTLDRLPTIGEVAEALGVTPEEIVFAQEANKPPTSIHETVFENDGDPITLID 179 R+ KDE+SKTL R+PT+ E+A+ L + E++V AQEA + P+SIHETV+ENDGDPITL+D Sbjct: 121 RRAKDELSKTLGRVPTVQEIADHLEIEAEDVVLAQEAVRAPSSIHETVYENDGDPITLLD 180 Query: 180 QIADETQERWFDKLALNEAIGALTERERLIVYLRYYRDQTQSEVASRLGISQVQVSRLEK 239 QIAD ++E+WFDK+AL EAI L ERE+LIVYLRYY+DQTQSEVA RLGISQVQVSRLEK Sbjct: 181 QIADNSEEKWFDKIALKEAISDLEEREKLIVYLRYYKDQTQSEVAERLGISQVQVSRLEK 240 Query: 240 KILASIREQI 249 KIL I+ Q+ Sbjct: 241 KILKQIKVQM 250 >BH2554 [K] COG1191 DNA-directed RNA polymerase specialized sigma subunit Length = 261 Score = 246 bits (627), Expect = 3e-65, Method: Compositional matrix adjust. Identities = 121/231 (52%), Positives = 175/231 (75%), Gaps = 4/231 (1%) Query: 13 LDDAEVKRLIALSQAGDNLARDTLVNCNIRLVWSVVQRFMNRGYEPDDLFQIGCIGLLKS 72 L + E++ L A Q+GD AR+TLVN N+RLV SV+QRF NRG DDLFQ+GCIGL+KS Sbjct: 19 LKNQEMRELFARLQSGDTSARETLVNGNLRLVLSVIQRFNNRGEYVDDLFQVGCIGLMKS 78 Query: 73 VDKFDLSYEVKFSTYAVPMIIGEIQRFLRDDGTLKVSRSLKEMANRVRKMKDEM--SKTL 130 +D FDLS VKFSTYAVPMIIGEI+R+LRD+ ++VSRSL+++A + +++D++ K Sbjct: 79 IDNFDLSQNVKFSTYAVPMIIGEIRRYLRDNNPIRVSRSLRDIAYKALQVRDQLMGEKQR 138 Query: 131 DRLPTIGEVAEALGVTPEEIVFAQEANKPPTSIHETVFENDGDPITLIDQIADETQE--R 188 ++ PT+ E+A+ LGV E++VFA +A + P S+ E ++ + GDPI ++DQI+D+ + + Sbjct: 139 EKEPTVQEIAKELGVPKEDVVFALDAIQDPVSLFEPIYNDGGDPIYVMDQISDDRNKDVQ 198 Query: 189 WFDKLALNEAIGALTERERLIVYLRYYRDQTQSEVASRLGISQVQVSRLEK 239 W D++AL EA+ L +RE+LI+ +R+Y+ +TQ EVA +GISQ QVSRLEK Sbjct: 199 WVDEIALKEAMVRLNDREKLILNMRFYQGKTQMEVAEEIGISQAQVSRLEK 249 >BS_sigG [K] COG1191 DNA-directed RNA polymerase specialized sigma subunit Length = 260 Score = 235 bits (600), Expect = 4e-62, Method: Compositional matrix adjust. Identities = 118/242 (48%), Positives = 173/242 (71%), Gaps = 3/242 (1%) Query: 13 LDDAEVKRLI-ALSQAGDNLARDTLVNCNIRLVWSVVQRFMNRGYEPDDLFQIGCIGLLK 71 L + E+++L L GD+ AR+ LVN N+RLV SV+QRF NRG DDLFQ+GCIGL+K Sbjct: 19 LKNEEMRKLFRQLQDEGDDSAREKLVNGNLRLVLSVIQRFNNRGEYVDDLFQVGCIGLMK 78 Query: 72 SVDKFDLSYEVKFSTYAVPMIIGEIQRFLRDDGTLKVSRSLKEMANRVRKMKDEMSKTLD 131 S+D FDLS+ VKFSTYAVPMIIGEI+R+LRD+ ++VSRSL+++A + ++++ + Sbjct: 79 SIDNFDLSHNVKFSTYAVPMIIGEIRRYLRDNNPIRVSRSLRDIAYKALQVRERLISETS 138 Query: 132 RLPTIGEVAEALGVTPEEIVFAQEANKPPTSIHETVFENDGDPITLIDQIADE--TQERW 189 + PT ++A+ L V EEIVFA +A + P S+ E ++ + GDPI ++DQI+DE T +W Sbjct: 139 KEPTAEDIAKVLEVPHEEIVFALDAIQDPVSLFEPIYNDGGDPIYVMDQISDERNTDSQW 198 Query: 190 FDKLALNEAIGALTERERLIVYLRYYRDQTQSEVASRLGISQVQVSRLEKKILASIREQI 249 ++LAL E + L +RE++I+ R+++ +TQ EVA +GISQ QVSRLEK + + + I Sbjct: 199 IEELALKEGMRRLNDREKMILRKRFFQGKTQMEVAEEIGISQAQVSRLEKAAIKQMNKNI 258 Query: 250 AQ 251 Q Sbjct: 259 HQ 260 >CAC1696 [K] COG1191 DNA-directed RNA polymerase specialized sigma subunit Length = 257 Score = 230 bits (586), Expect = 2e-60, Method: Compositional matrix adjust. Identities = 107/239 (44%), Positives = 170/239 (71%), Gaps = 2/239 (0%) Query: 13 LDDAEVKRLIALSQAGDNLARDTLVNCNIRLVWSVVQRFMNRGYEPDDLFQIGCIGLLKS 72 L + E++ L+ + G+ AR+ + N+RLV SV+QRF NRG DDLFQ+GCIGL+KS Sbjct: 19 LKEKEMRELLISMRNGNTTAREKFIKGNLRLVLSVIQRFNNRGENADDLFQVGCIGLIKS 78 Query: 73 VDKFDLSYEVKFSTYAVPMIIGEIQRFLRDDGTLKVSRSLKEMANRVRKMKDEMSKTLDR 132 +D FDLS VKFSTYAVPMIIGEI+R+LRD+ +++VSRSL+++A R +++D + ++ Sbjct: 79 IDNFDLSQNVKFSTYAVPMIIGEIRRYLRDNNSIRVSRSLRDIAYRALQVRDRLISKNNK 138 Query: 133 LPTIGEVAEALGVTPEEIVFAQEANKPPTSIHETVFENDGDPITLIDQIADETQ--ERWF 190 PT+ ++A+ L + EE++FA +A + P S+ E ++ +DGD I ++DQI+D + W Sbjct: 139 EPTVSQIAKELKIPREEVIFALDAIQDPISLFEPIYHDDGDAIYVMDQISDNKNLDDSWL 198 Query: 191 DKLALNEAIGALTERERLIVYLRYYRDQTQSEVASRLGISQVQVSRLEKKILASIREQI 249 +++ EA+ L++RE++I+ +R++ +TQ EVA +GISQ QVSRLEK L +++ + Sbjct: 199 QNISIKEAMKKLSDREKMILNMRFFDGRTQMEVADEIGISQAQVSRLEKTALKHMKKYV 257 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 0.318 0.134 0.373 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: 17,184,047 Number of extensions: 636532 Number of successful extensions: 8000 Number of sequences better than 1.0e-05: 110 Number of HSP's gapped: 7925 Number of HSP's successfully gapped: 114 Length of query: 251 Length of database: 38,378,431 Length adjustment: 104 Effective length of query: 147 Effective length of database: 26,383,695 Effective search space: 3878403165 Effective search space used: 3878403165 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 114 (48.5 bits)