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= 0520.0014.p (172 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value slr1545 [K] COG1595 DNA-directed RNA polymerase specialized sigm... 61 7e-10 PA0149 [K] COG1595 DNA-directed RNA polymerase specialized sigma... 59 4e-09 alr3280 [K] COG1595 DNA-directed RNA polymerase specialized sigm... 58 6e-09 mll3697 [K] COG1595 DNA-directed RNA polymerase specialized sigm... 55 5e-08 ML1076 [K] COG1595 DNA-directed RNA polymerase specialized sigma... 54 1e-07 >slr1545 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Length = 223 Score = 61.2 bits (147), Expect = 7e-10, Method: Compositional matrix adjust. Identities = 51/169 (30%), Positives = 81/169 (47%), Gaps = 11/169 (6%) Query: 4 PESDKFRTVFYEHYPVVRRKLAALVRDEAAADDLAQDVFLRLYRNPP--DDPNALGAWLH 61 P+S F + + V + L L D DLAQ+V++R+YRN ++P WL Sbjct: 46 PDSTAFNELLRRYQSHVDKILYHLAPDWQDRADLAQEVWIRVYRNIHRLNEPVKFKGWLS 105 Query: 62 RVLTRIGYDYLTQKARER--------RLQNKQELLVSAEAGPPSGEEAVLSKLDQEDVRT 113 R+ T + YD L ++ R R + E+ E+ PS +E + + E +R+ Sbjct: 106 RIATNLFYDELRKRKRVSHPISLDAPRRMDDGEIDWDIESDYPSPDETLSTAEFYECLRS 165 Query: 114 WLDGLPERDRQALLLR-YSGYSYTEIAGQIGVNPPVVGTLLNRATHKLK 161 + LPE R ++LR G +Y EIA GV+ V + + RA KL+ Sbjct: 166 AIKDLPEAFRTTIILREIDGLAYEEIAEITGVSLGTVKSRIARARAKLQ 214 >PA0149 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Length = 181 Score = 58.9 bits (141), Expect = 4e-09, Method: Compositional matrix adjust. Identities = 47/133 (35%), Positives = 65/133 (48%), Gaps = 6/133 (4%) Query: 32 AAADDLAQDVFLRLYRNPPDDPNALGAWLHRVLTRIGYDYL-TQKARERRLQNKQELLVS 90 A A DL Q++FLR +R P LG++L R + D+L + +R+R+L + L Sbjct: 36 ATAADLVQELFLRFWRRPAAPVEELGSYLLRSARNLAIDHLRGEGSRQRQLDD---WLPE 92 Query: 91 AEAGPPSGEEAVLSKLDQ-EDVRTWLDGLPERDRQALLL-RYSGYSYTEIAGQIGVNPPV 148 G P G E L DQ V L GLPER R+ LL R G +Y EIA + ++ Sbjct: 93 QRQGEPVGPEQALEAGDQWRRVEAALRGLPERTRRIFLLNRIHGRTYAEIAQAMQLSQSA 152 Query: 149 VGTLLNRATHKLK 161 V + RA K Sbjct: 153 VEKHMMRALDACK 165 >alr3280 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Length = 359 Score = 58.2 bits (139), Expect = 6e-09, Method: Compositional matrix adjust. Identities = 9/171 (5%), Positives = 29/171 (16%), Gaps = 11/171 (6%) Query: 4 PESDKFRTVFYEHYPVVRRKLAALVRDEAAADDLAQDVFLRLYRNPP--DDPNALGAWLH 61 + RT+ V R AL + +H Sbjct: 41 GLLETARTLPDADAFGVARLEEALRLRAGGITKPVLLLEGFFDARDLPTISAQHFHTAVH 100 Query: 62 RVLTRIGYDYLTQKAR--------ERRLQNKQELLVSAEAGPPSGEEAVLSKLDQEDVRT 113 + + + + + + + Sbjct: 101 NEEQLAALEEASLDEPVTVWMKLDTGMHRLGVRPEQAEAFYHRLTQCKNVRQPVNIVSHF 160 Query: 114 WLDGLPERDRQALLLR-YSGYSYTEIAGQIGVNPPVVGTLLNRATHKLKQQ 163 P+ L ++ + + + + ++ Sbjct: 161 ARADEPKCGATEKQLAIFNTFCEGKPGQRSIAASGGILLWPQSHFDWVRPG 211 >mll3697 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Length = 301 Score = 55.1 bits (131), Expect = 5e-08, Method: Compositional matrix adjust. Identities = 5/160 (3%), Positives = 23/160 (14%), Gaps = 9/160 (5%) Query: 6 SDKFRTVFYEHYPVVRRKLAALVRDEAAADDLAQDVFLRLY-RNPPDDPNA-LGAWLHRV 63 + P V + ++ + A ++ Sbjct: 5 KSYCGFIAIVGRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTEGAYQAIYVDTP 64 Query: 64 LTRIGYDYLTQKARERRLQNKQELLVSAEAGPPSGEEAVLSKLDQEDVRTWLDGLPERDR 123 + + + ++ +D + Sbjct: 65 GLHMEEKRAINRLMN--KAASSSIGDVELVIFV----VEGTRWTPDDEMVLNKLREGKAP 118 Query: 124 QA-LLLRYSGYSYTEIAGQIGVNPPVVGTLLNRATHKLKQ 162 + + L+ + Sbjct: 119 VILAVNKVDNVQEKADLLPHLQFLASQMNFLDIVPISAET 158 >ML1076 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Length = 263 Score = 53.9 bits (128), Expect = 1e-07, Method: Compositional matrix adjust. Identities = 39/139 (28%), Positives = 68/139 (48%), Gaps = 3/139 (2%) Query: 34 ADDLAQDVFLRLYRNPPD-DPNALGAWLHRVLTRIGYDYLTQKARERRLQNKQELLVSAE 92 A+DL Q+ F+R++R+ + P WLHR+ T + D + ++AR R+ + Sbjct: 113 AEDLTQETFIRVFRSVQNYQPGTFEGWLHRITTNLFLDMVRRRAR-IRMDALPDDYDRVP 171 Query: 93 AGPPSGEEAVLSKLDQEDVRTWLDGLPERDRQALLL-RYSGYSYTEIAGQIGVNPPVVGT 151 A P+ E+ D++ LD LP R A++L G SY EI +GV V + Sbjct: 172 ADEPNPEQIYHDSRLGPDLQAALDSLPPEFRAAVVLCDIEGLSYEEIGATLGVKLGTVRS 231 Query: 152 LLNRATHKLKQQAVNSYPQ 170 ++R L+ + ++P+ Sbjct: 232 RIHRGRQALRDYLLTAHPR 250 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 0.317 0.135 0.394 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: 13,480,843 Number of extensions: 496995 Number of successful extensions: 2469 Number of sequences better than 1.0e-05: 19 Number of HSP's gapped: 2481 Number of HSP's successfully gapped: 19 Length of query: 172 Length of database: 38,378,431 Length adjustment: 99 Effective length of query: 73 Effective length of database: 26,960,365 Effective search space: 1968106645 Effective search space used: 1968106645 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 (21.6 bits) S2: 112 (47.8 bits)