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: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF 2,715,099 sequences; 757,237,578 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value ref|NP_623934.1| DNA-directed RNA polymerase specialized sigma s... 100 2e-20 ref|ZP_00099381.1| COG1595: DNA-directed RNA polymerase speciali... 94 2e-18 ref|ZP_00181146.1| hypothetical protein Mther089201 [Moorella th... 90 2e-17 emb|CAD30147.1| putative sigma factor, ECF-family [Bacillus thur... 88 8e-17 ref|NP_656614.1| hypothetical protein predicted by GeneMark [Bac... 81 1e-14 >ref|NP_623934.1| DNA-directed RNA polymerase specialized sigma subunits, sigma24 homologs [Thermoanaerobacter tengcongensis] gb|AAM25538.1| DNA-directed RNA polymerase specialized sigma subunits, sigma24 homologs [Thermoanaerobacter tengcongensis] Length = 166 Score = 100 bits (248), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 56/168 (33%), Positives = 94/168 (55%), Gaps = 15/168 (8%) Query: 1 MEIPESDKFRTVFYEHYPVVRRKLAALVRDEAAADDLAQDVFLRLYRNPPDDPNALGAWL 60 ++I ES F+ +F +YP V ++++ +V+DE A+D+AQ+VF++ + PP +G WL Sbjct: 2 LKIEES--FKDIFERYYPKVLKQISWVVKDEFKAEDIAQEVFIKFLKKPPRHNENIGGWL 59 Query: 61 HRVLTRIGYDYL--TQKARERRL----QNKQELLVSAEAGPPSGEEAVLSKLDQEDVRTW 114 +V +YL + AR R + QN+++LL EE + ++ V+ Sbjct: 60 SKVAMNHALNYLRTERSARVREIEAFQQNEEKLL-------EDPEEIAIKNFEKSKVKEV 112 Query: 115 LDGLPERDRQALLLRYSGYSYTEIAGQIGVNPPVVGTLLNRATHKLKQ 162 L + +RD L+L++SGYSY EIA +G+ VGT + RA K K+ Sbjct: 113 LLKMNKRDMMCLILKHSGYSYEEIAVALGIKKSSVGTTIARAQKKFKE 160 >ref|ZP_00099381.1| COG1595: DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Desulfitobacterium hafniense] Length = 185 Score = 93.6 bits (231), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 57/161 (35%), Positives = 84/161 (52%), Gaps = 2/161 (1%) Query: 2 EIPESDKFRTVFYEHYPVVRRKLAALVRDEAAADDLAQDVFLRLYRNPPDDPNALGAWLH 61 + P+ F VF +YP+V + + ++++ +AA+DLAQDVF RLY P D L A+L Sbjct: 19 QTPDPSDFAAVFQHYYPMVVQTIEKILQERSAAEDLAQDVFWRLYHAPWQDIGNLKAYLI 78 Query: 62 RVLTRIGYDYLTQKARERRLQNKQELLVSAEAGPPSGEEAVLSKLDQEDVRTWLDGLPER 121 + Y++L R+ L + L A PS E L + + VR L LP R Sbjct: 79 QSGINAAYNHLRTSKRQHSLWER--LTRQTSANEPSAETQWLRAEEIQRVREVLTELPAR 136 Query: 122 DRQALLLRYSGYSYTEIAGQIGVNPPVVGTLLNRATHKLKQ 162 DR LLLR++G SY EI+ I + VG L RA + ++ Sbjct: 137 DRSLLLLRFAGLSYKEISETISMEFASVGKSLVRAKERFRK 177 >ref|ZP_00181146.1| hypothetical protein Mther089201 [Moorella thermoacetica ATCC 39073] Length = 162 Score = 89.7 bits (221), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 58/135 (42%), Positives = 76/135 (56%), Gaps = 3/135 (2%) Query: 22 RKLAALVRDEAAADDLAQDVFLRLYRNPPDDPNALGAWLHRVLTRIGYDYLTQKARERRL 81 R+L L+ + AAA+DL Q+ FLRLYR PP D + L WL RV + Y+YL + R RR Sbjct: 3 RRLYYLLGERAAAEDLTQEAFLRLYRQPPRDKSNLSGWLLRVAANLAYNYLRGEERRRRR 62 Query: 82 QNKQELLVSAEAGPPSGEEAVLSKLDQEDVRTWLDGLPERDRQALLLRYSGYSYTEIAGQ 141 + Q G EEAV+ + + V L L RDR LLL+ +G+SY EIA Sbjct: 63 EEGQ---YREGTGVIPLEEAVIRSQEAQQVHQCLAKLAPRDRICLLLKNAGHSYAEIAAV 119 Query: 142 IGVNPPVVGTLLNRA 156 I V+ VGT+L RA Sbjct: 120 IQVDKNSVGTILARA 134 >emb|CAD30147.1| putative sigma factor, ECF-family [Bacillus thuringiensis serovar israelensis] Length = 176 Score = 88.2 bits (217), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 54/163 (33%), Positives = 91/163 (55%), Gaps = 4/163 (2%) Query: 2 EIPESD-KFRTVFYEHYPVVRRKLAALVRDEAAADDLAQDVFLRLYRNPPDDPNALGAWL 60 E P SD F +F ++Y V +++ +V+++ A++LAQ+VFL+LYRN +L WL Sbjct: 8 ERPVSDLTFEDLFKQYYVYVVKQILWIVKNQPIAEELAQEVFLQLYRNDWKTIESLPGWL 67 Query: 61 HRVLTRIGYDYLTQKARERRLQNKQELLVSAEAGPPSG-EEAVLSKLDQEDVRTWLDGLP 119 + T + Y YL + R + +K + E P S ++ + K + V+ L + Sbjct: 68 IKSSTYVAYKYLRSEKRHQARIDKT--IQHHEVQPISSLDDDWIRKEEITKVQNVLSNMN 125 Query: 120 ERDRQALLLRYSGYSYTEIAGQIGVNPPVVGTLLNRATHKLKQ 162 ERDR LL+++SG+ Y EIA + ++ +GTLL RA K ++ Sbjct: 126 ERDRTILLMKFSGFQYKEIADVLHIDISSIGTLLVRAKQKFRK 168 >ref|NP_656614.1| hypothetical protein predicted by GeneMark [Bacillus anthracis A2012] ref|NP_845082.1| RNA polymerase sigma factor SigX, putative [Bacillus anthracis str. Ames] gb|AAP26568.1| RNA polymerase sigma factor SigX, putative [Bacillus anthracis str. Ames] Length = 176 Score = 80.9 bits (198), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 43/154 (27%), Positives = 85/154 (55%), Gaps = 1/154 (0%) Query: 9 FRTVFYEHYPVVRRKLAALVRDEAAADDLAQDVFLRLYRNPPDDPNALGAWLHRVLTRIG 68 F +F ++Y V +++ +++++ A++LAQ+VFL+LY + L AWL + T + Sbjct: 16 FEALFKQNYAYVVKQIIWIIKEQTVAEELAQEVFLQLYHSDWKAIENLRAWLIKSSTYVA 75 Query: 69 YDYLTQKARERRLQNKQELLVSAEAGPPSGEEAVLSKLDQEDVRTWLDGLPERDRQALLL 128 Y+Y+ + R + +K+ + +E + K + V+ L + E+DR LL+ Sbjct: 76 YNYIRSEKRHQARIDKETQYQEVQIDSSLDDEWI-RKEEITKVQMVLRKMKEQDRTILLM 134 Query: 129 RYSGYSYTEIAGQIGVNPPVVGTLLNRATHKLKQ 162 ++SG+ Y EIA + ++ +GT+L RA K ++ Sbjct: 135 KFSGFRYKEIAQVLQIDDSSIGTMLARAKLKFRK 168 Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF Posted date: Mar 24, 2004 1:53 AM Number of letters in database: 757,237,578 Number of sequences in database: 2,715,099 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: 2715099 Number of Hits to DB: 262,497,791 Number of extensions: 9884063 Number of successful extensions: 28566 Number of sequences better than 1.0e-05: 91 Number of HSP's gapped: 28779 Number of HSP's successfully gapped: 91 Length of query: 172 Length of database: 757,237,578 Length adjustment: 117 Effective length of query: 55 Effective length of database: 439,570,995 Effective search space: 24176404725 Effective search space used: 24176404725 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: 121 (51.2 bits)