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= 0587.0010.p (205 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value BS_sigW [K] COG1595 DNA-directed RNA polymerase specialized sigm... 100 3e-21 BH0263 [K] COG1595 DNA-directed RNA polymerase specialized sigma... 88 7e-18 CAC3267 [K] COG1595 DNA-directed RNA polymerase specialized sigm... 81 9e-16 PA0762 [K] COG1595 DNA-directed RNA polymerase specialized sigma... 74 1e-13 PA1776 [K] COG1595 DNA-directed RNA polymerase specialized sigma... 74 2e-13 >BS_sigW [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Length = 187 Score = 99.8 bits (247), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 53/180 (29%), Positives = 99/180 (55%), Gaps = 10/180 (5%) Query: 24 IEEKIKRIQAGEVYLFSDVIRLYQQRIYVYCFRLLNSREEAEDAVQDIFIKAYQNIWDFK 83 I+++IK+++ G+ F+D++ +Y+ +IY C+R+L + EAED Q+ FI+AY NI F Sbjct: 5 IKKRIKQVKKGDQDAFADIVDIYKDKIYQLCYRMLGNVHEAEDIAQEAFIRAYVNIDSFD 64 Query: 84 LQANFTSWLYRVSYHHCLNQLRRQKFQNQLRRLLRQDVTAKSAEQVVENRLFSESVAAAL 143 + F++WLYR++ + ++++R++K L + Q+V + + E +L Sbjct: 65 INRKFSTWLYRIATNLTIDRIRKKKPDYYLDAEVAGTEGLTMYSQIVADGVLPEDAVVSL 124 Query: 144 Q----------KLSIEERNLVILRIFEDKSFAEIAEILGKSTVTVRKRYERTRSKLRESI 193 + KL + R +++L+ ++ S EI EIL TV+ R R R LR+ + Sbjct: 125 ELSNTIQQKILKLPDKYRTVIVLKYIDELSLIEIGEILNIPVGTVKTRIHRGREALRKQL 184 >BH0263 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Length = 187 Score = 88.2 bits (217), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 52/181 (28%), Positives = 106/181 (58%), Gaps = 11/181 (6%) Query: 21 VDSIEEKIKR-IQAGEVYLFSDVIRLYQQRIYVYCFRLLNSREEAEDAVQDIFIKAYQNI 79 +DSI++++ R ++AG+ F++++ LY+ ++Y +R++ + EA+D Q+ F++AY NI Sbjct: 1 MDSIDKRLVREVRAGDEQAFAELVELYKDKVYQVAYRMVGNVHEAQDVAQEAFLRAYTNI 60 Query: 80 WDFKLQANFTSWLYRVSYHHCLNQLRRQKFQNQLRRLLR--QDVTAKSA----EQVVENR 133 + +Q F++WL+R++ + +++LR++K L ++ +T +S E+ V+++ Sbjct: 61 DTYDIQRKFSTWLFRIATNVAIDRLRKRKPDFHLEDPVQGADGLTIESQLAADEEPVDDQ 120 Query: 134 LFS----ESVAAALQKLSIEERNLVILRIFEDKSFAEIAEILGKSTVTVRKRYERTRSKL 189 + + + +Q L + R V+L+ ED S EI++IL TV+ R R R L Sbjct: 121 VIQMETRDWIQQEIQALPPKYRMAVLLKYMEDLSLKEISDILDLPVSTVKTRIHRGREAL 180 Query: 190 R 190 R Sbjct: 181 R 181 >CAC3267 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Length = 190 Score = 81.3 bits (199), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 50/168 (29%), Positives = 93/168 (55%), Gaps = 11/168 (6%) Query: 39 FSDVIRLYQQRIYVYCFRLLNSREEAEDAVQDIFIKAYQNIWDFKLQANFTSWLYRVSYH 98 FS + LY++ +Y C+ + +A D VQ+I+IK ++NI +F F W+ ++S + Sbjct: 19 FSQLFHLYEKYLYNLCYGYTQNTSDAMDLVQEIYIKVFKNIKNFDENLPFHPWVRKISVN 78 Query: 99 HCLNQLRRQKFQNQL--------RRLLRQDVTAK--SAEQVVENRLFSESVAAALQKLSI 148 CLN +R N + +D A+ + EQ V NR+ +E V +++KL+ Sbjct: 79 TCLN-FKRDNRGNVMSLNSKYYDSEFEEEDRLAEDYNMEQEVVNRINNEVVKESIKKLTY 137 Query: 149 EERNLVILRIFEDKSFAEIAEILGKSTVTVRKRYERTRSKLRESIVRR 196 + R +++LR +ED S+ EIA +L TV+ + R ++ L++S+ ++ Sbjct: 138 DYRMVIMLRYYEDLSYDEIASVLDMPIGTVKTKIYRAKNVLKKSLEKK 185 >PA0762 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Length = 193 Score = 74.3 bits (181), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 51/181 (28%), Positives = 90/181 (49%), Gaps = 20/181 (11%) Query: 28 IKRIQAGEVYLFSDVIRLYQQRIYVYCFRLLNSREEAEDAVQDIFIKAYQNIWDFKLQAN 87 ++R+Q G+ F ++ YQ +I R ++ +EA+D Q+ FIKAY+ + +F+ + Sbjct: 11 VERVQRGDKRAFDLLVLKYQHKILGLIVRFVHDAQEAQDVAQEAFIKAYRALGNFRGDSA 70 Query: 88 FTSWLYRVSYHHCLNQLRRQKFQNQLRRLLRQDVTAKSAE-----------QVVENRLFS 136 F +WLYR++ + N L + RR DVTA+ AE + E + Sbjct: 71 FYTWLYRIAINTAKNHLVARG-----RRPPDSDVTAEDAEFFEGDHALKDIESPERAMLR 125 Query: 137 ESVAA----ALQKLSIEERNLVILRIFEDKSFAEIAEILGKSTVTVRKRYERTRSKLRES 192 + + A +Q+L + R + LR FE S+ +IA ++ TVR R R R + ++ Sbjct: 126 DEIEATVHQTIQQLPEDLRTALTLREFEGLSYEDIATVMQCPVGTVRSRIFRAREAIDKA 185 Query: 193 I 193 + Sbjct: 186 L 186 >PA1776 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Length = 165 Score = 73.6 bits (179), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 38/153 (24%), Positives = 83/153 (54%) Query: 39 FSDVIRLYQQRIYVYCFRLLNSREEAEDAVQDIFIKAYQNIWDFKLQANFTSWLYRVSYH 98 + +++R YQ+ ++ C R L + +A+D Q++ +K + +F+ ++ F +WLY ++Y+ Sbjct: 5 YEELMRRYQRTLFNVCARYLGNDRDADDVCQEVMLKVLYGLKNFEGKSKFKTWLYSITYN 64 Query: 99 HCLNQLRRQKFQNQLRRLLRQDVTAKSAEQVVENRLFSESVAAALQKLSIEERNLVILRI 158 C+ Q R+++ + +L L D +++E+ + L ++ +R +++LR Sbjct: 65 ECITQYRKERRKRRLMDALSLDPLEEASEEKSPKVEERGGLDRWLVHVNPIDREILVLRF 124 Query: 159 FEDKSFAEIAEILGKSTVTVRKRYERTRSKLRE 191 + F EIA+I+ + RY+R +LRE Sbjct: 125 VAELEFQEIADIMHMGLSATKMRYKRALDRLRE 157 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 0.324 0.134 0.377 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: 12,294,797 Number of extensions: 417981 Number of successful extensions: 1332 Number of sequences better than 1.0e-05: 54 Number of HSP's gapped: 1290 Number of HSP's successfully gapped: 54 Length of query: 205 Length of database: 38,378,431 Length adjustment: 101 Effective length of query: 104 Effective length of database: 26,729,697 Effective search space: 2779888488 Effective search space used: 2779888488 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 113 (48.1 bits)