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= 0520.0041.p (192 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_391879.1| similar to hypothetical proteins [Bacillus subt... 148 6e-35 ref|NP_615151.1| transcriptional regulator, TetR family [Methano... 133 2e-30 ref|NP_388150.1| transcriptional regulator [Bacillus subtilis] >... 129 4e-29 ref|NP_349937.1| Transcriptional regulator, AcrR family [Clostri... 111 7e-24 ref|NP_959089.1| hypothetical protein MAP0155 [Mycobacterium avi... 106 3e-22 >ref|NP_391879.1| similar to hypothetical proteins [Bacillus subtilis] sp|P42105|YXAF_BACSU Putative HTH-type transcriptional regulator yxaF pir||E70071 conserved hypothetical protein yxaF - Bacillus subtilis dbj|BAA21585.1| yxaF [Bacillus subtilis] emb|CAB16036.1| yxaF [Bacillus subtilis subsp. subtilis str. 168] Length = 191 Score = 148 bits (374), Expect = 6e-35, Method: Compositional matrix adjust. Identities = 76/188 (40%), Positives = 120/188 (63%), Gaps = 1/188 (0%) Query: 4 LSNKPNAREAIVDTASRLFFTQGYHATGLSQIIKDSDSPKGSLYYYFPHGKEELALTCIH 63 ++++ ++RE I+ TASRL QGYHATGL+QI+K+S +PKGSLY++FP+GKEELA+ + Sbjct: 1 MTSRGDSREKILHTASRLSQLQGYHATGLNQIVKESGAPKGSLYHFFPNGKEELAIEAVT 60 Query: 64 KTSEIVVRQLKQYVEKDVAVEQAVQDFILQMVRDAEESDYKGMVPFSFWVAVETSCISED 123 T +IV ++Q +++ +A+Q FI + + ++ +P +A ET+ ISE Sbjct: 61 YTGKIVEHLIQQSMDESSDPVEAIQLFIKKTASQFDNTESIKGIPVGL-LASETALISEP 119 Query: 124 LRTACQAVFKDWQDVILRRLLEEGTDAELAADKASVVVSLFEGALLQTLTCRSTGPLLAA 183 LRT C VFK W+ V R+L+E G E A +++ S+ EG ++ +LT + PLL Sbjct: 120 LRTVCMKVFKSWEAVFARKLMENGFAEEEANQLGTLINSMIEGGIMLSLTNKDKTPLLLI 179 Query: 184 AKMIPGLL 191 A+ IP L+ Sbjct: 180 AEQIPVLV 187 >ref|NP_615151.1| transcriptional regulator, TetR family [Methanosarcina acetivorans str. C2A] gb|AAM03631.1| transcriptional regulator, TetR family [Methanosarcina acetivorans str. C2A] Length = 214 Score = 133 bits (334), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 74/185 (40%), Positives = 110/185 (59%), Gaps = 1/185 (0%) Query: 7 KPNAREAIVDTASRLFFTQGYHATGLSQIIKDSDSPKGSLYYYFPHGKEELALTCIHKTS 66 K N RE I+ TA+ LF +GYHATGL++IIK+S +PKGSLYYYFP+GKEELA I Sbjct: 28 KMNTREKILTTAAFLFQKKGYHATGLNEIIKESATPKGSLYYYFPNGKEELAEATIKLMG 87 Query: 67 EIVVRQLKQYVEKDVAVEQAVQDFILQMVRDAEESDYKGMVPFSFWVAVETSCISEDLRT 126 + + +++ + K+ QA+++ IL + R E D + +A+ET ISE LR Sbjct: 88 DKIQHNIEEELAKNNDPVQAIEELILDLARKFNEKDQENCFSIGL-LALETVSISESLRK 146 Query: 127 ACQAVFKDWQDVILRRLLEEGTDAELAADKASVVVSLFEGALLQTLTCRSTGPLLAAAKM 186 AC V+ W D ++L+ G +E +A+ + ++ EGA+ +L L+AAA+ Sbjct: 147 ACIEVYDLWTDTYYQKLVSSGFSSEKSAELSLILQLTIEGAITISLIRNDNTMLIAAAEK 206 Query: 187 IPGLL 191 IP LL Sbjct: 207 IPILL 211 >ref|NP_388150.1| transcriptional regulator [Bacillus subtilis] pir||D69652 transcription repressor of lincomycin operon lmrA - Bacillus subtilis dbj|BAA22229.1| LmrA [Bacillus subtilis] emb|CAB12062.1| transcriptional regulator [Bacillus subtilis subsp. subtilis str. 168] Length = 188 Score = 129 bits (323), Expect = 4e-29, Method: Compositional matrix adjust. Identities = 69/184 (37%), Positives = 113/184 (61%), Gaps = 3/184 (1%) Query: 9 NAREAIVDTASRLFFTQGYHATGLSQIIKDSDSPKGSLYYYFPHGKEELALTCIHKTSEI 68 ++RE I+ A+RLF QGY+ TGL+QIIK+S +PKGSLYY+FP GKE+LA+ +++ E Sbjct: 5 DSREKILSAATRLFQLQGYYGTGLNQIIKESGAPKGSLYYHFPGGKEQLAIEAVNEMKEY 64 Query: 69 VVRQLKQYVEKDVAVEQAVQDFILQM-VRDAEESDYKGMVPFSFWVAVETSCISEDLRTA 127 + +++ +E + +Q F+ ++ + + D +G+ P +A ETS SE LR A Sbjct: 65 IRQKIADCMEACTDPAEGIQAFLKELSCQFSCTEDIEGL-PVGL-LAAETSLKSEPLREA 122 Query: 128 CQAVFKDWQDVILRRLLEEGTDAELAADKASVVVSLFEGALLQTLTCRSTGPLLAAAKMI 187 C +K+W V +L + G A + ++VV ++ EG +L +LT +++ PLL + I Sbjct: 123 CHEAYKEWASVYEEKLRQTGCSESRAKEASTVVNAMIEGGILLSLTAKNSTPLLHISSCI 182 Query: 188 PGLL 191 P LL Sbjct: 183 PDLL 186 >ref|NP_349937.1| Transcriptional regulator, AcrR family [Clostridium acetobutylicum] pir||B97311 transcription regulator, AcrR family [imported] - Clostridium acetobutylicum gb|AAK81277.1| Transcriptional regulator, AcrR family [Clostridium acetobutylicum] Length = 193 Score = 111 bits (278), Expect = 7e-24, Method: Compositional matrix adjust. Identities = 65/192 (33%), Positives = 111/192 (57%), Gaps = 9/192 (4%) Query: 4 LSNKPNAREAIVDTASRLFFTQGYHATGLSQIIKDSDSPKGSLYYYFPHGKEELALTCIH 63 + +K ++RE I+ A+ LF T+G++ATGL++I+K+S SPKGSLYYYFP+GKEELAL I Sbjct: 1 MKHKNDSREKILIAAAHLFQTKGFNATGLNEILKESGSPKGSLYYYFPNGKEELALEAI- 59 Query: 64 KTSEIVVRQLKQYVEKDVAVEQ----AVQDFILQMVRDAEESDYKGMVPFSFWVAVETSC 119 ++ + +K + +D+A + A+Q + ++ D + + S +++ET Sbjct: 60 ---KVSTQNIKSNLMRDMAEYEDPIKAIQSVVTHIINDLKTYGKPKDISLSL-LSLETYS 115 Query: 120 ISEDLRTACQAVFKDWQDVILRRLLEEGTDAELAADKASVVVSLFEGALLQTLTCRSTGP 179 SE L+ AC+ F + Q + +L++ G E A + +++L EG++ +LT + Sbjct: 116 SSEALKKACRDSFMELQHIYFNKLIQSGIKEETAEFLSMTILTLLEGSITISLTQENQEA 175 Query: 180 LLAAAKMIPGLL 191 L K I LL Sbjct: 176 LFNFHKQIDLLL 187 >ref|NP_959089.1| hypothetical protein MAP0155 [Mycobacterium avium subsp. paratuberculosis str. k10] gb|AAS02472.1| hypothetical protein MAP0155 [Mycobacterium avium subsp. paratuberculosis str. k10] Length = 192 Score = 106 bits (264), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 64/181 (35%), Positives = 91/181 (50%), Gaps = 1/181 (0%) Query: 11 REAIVDTASRLFFTQGYHATGLSQIIKDSDSPKGSLYYYFPHGKEELALTCIHKTSEIVV 70 RE + A+ LF QGY TGL QI+ +S +P GSLY++FP GK++LA+ I T+E Sbjct: 6 RERFLTAATGLFRRQGYSGTGLKQIVAESRAPLGSLYHFFPGGKQDLAVQAIAHTAERYR 65 Query: 71 RQLKQYVEKDVAVEQAVQDFILQMVRDAEESDYKGMVPFSFWVAVETSCISEDLRTACQA 130 L + + + QA + R +E+DY P VA E + +E LR A QA Sbjct: 66 ELLDRVFARSTDIGQATVTWFNWAARALQETDYADGCPIGT-VACEVASSNEALRQATQA 124 Query: 131 VFKDWQDVILRRLLEEGTDAELAADKASVVVSLFEGALLQTLTCRSTGPLLAAAKMIPGL 190 VF WQ + L+ G A A+ V+ EGA+L RST PL +++ Sbjct: 125 VFASWQSRVAAELIGAGVPTAQARRLATFAVASLEGAILLARAHRSTRPLRDTGRVVADT 184 Query: 191 L 191 L Sbjct: 185 L 185 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 0.319 0.133 0.382 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: 260,633,952 Number of extensions: 9450250 Number of successful extensions: 25938 Number of sequences better than 1.0e-05: 41 Number of HSP's gapped: 25976 Number of HSP's successfully gapped: 41 Length of query: 192 Length of database: 757,237,578 Length adjustment: 119 Effective length of query: 73 Effective length of database: 434,140,797 Effective search space: 31692278181 Effective search space used: 31692278181 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 (21.8 bits) S2: 122 (51.6 bits)