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= 0545.0054.p (188 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_979613.1| transcriptional regulator, TetR family [Bacillu... 94 2e-18 ref|NP_657213.1| tetR, Bacterial regulatory proteins, tetR famil... 92 6e-18 ref|NP_391238.1| yvaF [Bacillus subtilis] >gi|7475472|pir||D7002... 80 3e-14 ref|NP_980885.1| transcriptional regulator, TetR family [Bacillu... 54 2e-06 ref|NP_834209.1| Transcriptional regulator, TetR family [Bacillu... 53 4e-06 >ref|NP_979613.1| transcriptional regulator, TetR family [Bacillus cereus ATCC 10987] gb|AAS42221.1| transcriptional regulator, TetR family [Bacillus cereus ATCC 10987] Length = 185 Score = 93.6 bits (231), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 56/182 (30%), Positives = 96/182 (52%), Gaps = 1/182 (0%) Query: 1 MDNQVYLKILKCFGAKGTRFTTEDLARELGTSKRTVYTYFSSKDEMIEKTIDFVFSQIIQ 60 M ++ + + KG FT DLA++L SKRT+Y +FSSKDE++++ I V I + Sbjct: 1 MKQRIVTETIHQIQTKGFTFTISDLAKQLAVSKRTIYEHFSSKDEIVDEVIRNVIESIQE 60 Query: 61 SDTDILEDEGLPIQEKIRLYFQNIPDAYSIGTIIRHMDDFQRYYPRLYEKANHHLDRIWD 120 + +I ED+ L EKIRL IP ++ R + + ++++ + K + L W Sbjct: 61 KEKNIAEDDTLQTVEKIRLILICIPQQFTFMD-ARLLVELKKHHYYQWLKLDQFLREGWS 119 Query: 121 GVIELVEEGMNRGELHKVDTVILKLMLNETLKKLLDYEFIAGHQVSFESGIKAMSDIVLY 180 VI L+EEGM G + K+ + L ++ D FI + S ++++ D++LY Sbjct: 120 TVISLIEEGMREGSIRKIQIPFFIEVYLGALNRIYDPMFIEKSDYTLGSMLESIMDMLLY 179 Query: 181 GL 182 G+ Sbjct: 180 GI 181 >ref|NP_657213.1| tetR, Bacterial regulatory proteins, tetR family [Bacillus anthracis A2012] ref|NP_845640.1| transcriptional regulator, TetR family [Bacillus anthracis str. Ames] gb|AAP27126.1| transcriptional regulator, TetR family [Bacillus anthracis str. Ames] Length = 185 Score = 92.0 bits (227), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 56/182 (30%), Positives = 96/182 (52%), Gaps = 1/182 (0%) Query: 1 MDNQVYLKILKCFGAKGTRFTTEDLARELGTSKRTVYTYFSSKDEMIEKTIDFVFSQIIQ 60 M ++ + + KG FT DLA++L SKRT+Y +FSSKDE++++ I V I + Sbjct: 1 MKQRIVTETIHQIQTKGFTFTISDLAKQLAVSKRTIYEHFSSKDEIVDEVIRNVIESIQE 60 Query: 61 SDTDILEDEGLPIQEKIRLYFQNIPDAYSIGTIIRHMDDFQRYYPRLYEKANHHLDRIWD 120 + +I ED+ L EKIRL IP ++ R + + ++++ + K + L W Sbjct: 61 KEKNIAEDDTLQTVEKIRLILICIPQQFTFMD-ARLLVELKKHHYYQWLKLDQFLREGWS 119 Query: 121 GVIELVEEGMNRGELHKVDTVILKLMLNETLKKLLDYEFIAGHQVSFESGIKAMSDIVLY 180 VI L+EEGM G + K+ + L ++ D FI + S ++++ D++LY Sbjct: 120 TVIGLIEEGMREGSIRKIQIPFFIEVYLGALNRIYDPMFIEKSDHTLGSMLESIMDMLLY 179 Query: 181 GL 182 G+ Sbjct: 180 GI 181 >ref|NP_391238.1| yvaF [Bacillus subtilis] pir||D70027 hypothetical protein yvaF - Bacillus subtilis emb|CAB15363.1| yvaF [Bacillus subtilis subsp. subtilis str. 168] Length = 190 Score = 80.1 bits (196), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 45/186 (24%), Positives = 97/186 (52%), Gaps = 1/186 (0%) Query: 1 MDNQVYLKILKCFGAKGTRFTTEDLARELGTSKRTVYTYFSSKDEMIEKTIDFVFSQIIQ 60 MD ++ + + KG FT DLA LGTSKRT+Y Y+SSKD+++E ++ +++ Q Sbjct: 1 MDKRILAETFRLIKQKGFSFTMNDLAAALGTSKRTLYAYYSSKDQLVEAVVEQFIAEMKQ 60 Query: 61 SDTDILEDEGLPIQEKIRLYFQNIPDAYSIGTIIRHMDDFQRYYPRLYEKANHHLDRIWD 120 + DI E+E L + EK++ ++P + + +++ ++Y+ + + + W Sbjct: 61 IERDIYENESLNVLEKVKQMLISLPQGMELLN-MGLLNELKKYHYDAWLTLDAFIKEEWA 119 Query: 121 GVIELVEEGMNRGELHKVDTVILKLMLNETLKKLLDYEFIAGHQVSFESGIKAMSDIVLY 180 V+ L+ E + + ++ + M ++ ++ D E+ HQ + ++++ D++ Sbjct: 120 IVLALLNECKQQKRIRNINPDLFVHMYIGSINQVYDPEYPLKHQFTTGEVLESIVDVLFN 179 Query: 181 GLIKAE 186 G+ E Sbjct: 180 GITADE 185 >ref|NP_980885.1| transcriptional regulator, TetR family [Bacillus cereus ATCC 10987] gb|AAS43493.1| transcriptional regulator, TetR family [Bacillus cereus ATCC 10987] Length = 212 Score = 53.5 bits (127), Expect = 2e-06, Method: Compositional matrix adjust. Identities = 39/177 (22%), Positives = 85/177 (48%), Gaps = 18/177 (10%) Query: 18 TRFTTEDLARELGTSKRTVYTYFSSKDEMIEKTIDFVFSQIIQSDTDILEDEGLPIQEKI 77 ++ +++A+ + SK T+Y FSSKDE+IE ++ + +++ D D +DE + E+ Sbjct: 24 SQLKIDEIAKYMDISKATLYKRFSSKDEIIEAVVEDFMNYLLEGDADN-QDESMSFAERF 82 Query: 78 -RLYFQNIPDAYSIGTIIRHMDDFQRYYPRLYEK-------ANHHLDRIWDGVIELVEEG 129 + + ++ I + + D + YP L ++ NH+L + E G Sbjct: 83 QKTFIHSLKCVTYISDVF--LQDLKEAYPHLSDQLVAAQQNRNHNLQMFF-------EAG 133 Query: 130 MNRGELHKVDTVILKLMLNETLKKLLDYEFIAGHQVSFESGIKAMSDIVLYGLIKAE 186 M +G +K++ + + + L++++D+ F + ++ + I + Y L K E Sbjct: 134 MEQGYFNKMNAQLFMVQDDVMLRRIIDHSFCIQYDITLKKAILDFYQLKKYQLFKPE 190 >ref|NP_834209.1| Transcriptional regulator, TetR family [Bacillus cereus ATCC 14579] gb|AAP11410.1| Transcriptional regulator, TetR family [Bacillus cereus ATCC 14579] Length = 212 Score = 52.8 bits (125), Expect = 4e-06, Method: Compositional matrix adjust. Identities = 39/177 (22%), Positives = 85/177 (48%), Gaps = 18/177 (10%) Query: 18 TRFTTEDLARELGTSKRTVYTYFSSKDEMIEKTIDFVFSQIIQSDTDILEDEGLPIQEKI 77 ++ +++A+ + SK T+Y FSSKDE+IE ++ + +++ D D +DE + E+ Sbjct: 24 SQLKIDEIAKYMDISKATLYKRFSSKDEIIEVVVEDFMNYLLEGDAD-NQDESMSFTERF 82 Query: 78 -RLYFQNIPDAYSIGTIIRHMDDFQRYYPRLYEK-------ANHHLDRIWDGVIELVEEG 129 + + ++ I + + D + YP L ++ NH+L + E G Sbjct: 83 QKTFIHSLKCVTYISDVF--LQDLKEAYPHLSDQLVAAQQNRNHNLQMFF-------EAG 133 Query: 130 MNRGELHKVDTVILKLMLNETLKKLLDYEFIAGHQVSFESGIKAMSDIVLYGLIKAE 186 M +G +K++ + + + L++++D+ F + ++ + I + Y L K E Sbjct: 134 MEQGYFNKMNAQLFMVQDDVMLRRIIDHSFCIQYDITLKKAILDFYQLKKYQLFKPE 190 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 0.322 0.140 0.402 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: 269,987,755 Number of extensions: 10897689 Number of successful extensions: 31739 Number of sequences better than 1.0e-05: 11 Number of HSP's gapped: 31772 Number of HSP's successfully gapped: 11 Length of query: 188 Length of database: 757,237,578 Length adjustment: 118 Effective length of query: 70 Effective length of database: 436,855,896 Effective search space: 30579912720 Effective search space used: 30579912720 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 (21.9 bits) S2: 122 (51.6 bits)