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= 0342.0036.p (202 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_349377.1| Transcriptional regulators, AcrR family [Clostr... 132 6e-30 ref|NP_603931.1| Transcriptional regulator, TetR family [Fusobac... 126 3e-28 ref|NP_773801.1| transcriptional regulatory protein [Bradyrhizob... 94 2e-18 gb|EAJ51929.1| unknown [environmental sequence] 89 4e-17 gb|EAF21413.1| unknown [environmental sequence] 84 1e-15 >ref|NP_349377.1| Transcriptional regulators, AcrR family [Clostridium acetobutylicum] pir||B97241 transcription regulators, AcrR family [imported] - Clostridium acetobutylicum gb|AAK80717.1| Transcriptional regulators, AcrR family [Clostridium acetobutylicum] Length = 204 Score = 132 bits (331), Expect = 6e-30, Method: Compositional matrix adjust. Identities = 70/188 (37%), Positives = 112/188 (59%), Gaps = 12/188 (6%) Query: 8 MKEKPYHHGNLRKQLIETGISLINEEGVKSFSLRRVAAQCNVSHTAPYSHFKNVDELIAA 67 M++ YHHGNL+K +I+ G+ L+ EG ++FSLR+VA C VSHTAPY HFKN DELI+A Sbjct: 1 MEKCKYHHGNLKKDMIKNGLQLLTTEGYEAFSLRKVAKMCGVSHTAPYKHFKNKDELISA 60 Query: 68 MGEHVTEQFMERL-RISIMGEEDSREAISLLGQAYVDFFIENPQYFQFLYYHSGIIIDLD 126 + T++F + L SI + D + + +G+ Y+ F +ENP YF+ L+ ++ + Sbjct: 61 IIFEATQKFKKSLEETSIKYQHDFKTQVIEVGKRYIQFMVENPDYFKVLFINNLNNKIII 120 Query: 127 NYSS------DNYPPFALFRTTAFHMFRS--TGLPEASYSHQLIVLWSMVHGIASLLTNN 178 S D++ P F+ TA S T + + ++ +WS +HG+A+LL+N Sbjct: 121 QDKSMLCIQGDSFNP---FKNTASSYLSSLKTEYSDKDLNLSILSIWSTIHGLAALLSNK 177 Query: 179 GVRYSGNW 186 + YSG++ Sbjct: 178 TIIYSGDY 185 >ref|NP_603931.1| Transcriptional regulator, TetR family [Fusobacterium nucleatum subsp. nucleatum ATCC 25586] gb|AAL95230.1| Transcriptional regulator, TetR family [Fusobacterium nucleatum subsp. nucleatum ATCC 25586] Length = 205 Score = 126 bits (317), Expect = 3e-28, Method: Compositional matrix adjust. Identities = 61/178 (34%), Positives = 100/178 (56%), Gaps = 1/178 (0%) Query: 10 EKPYHHGNLRKQLIETGISLINEEGVKSFSLRRVAAQCNVSHTAPYSHFKNVDELIAAMG 69 EK YHHGNL+++LI+ GI LINE G SLR++A C VS++APY+HFK+ DEL+ M Sbjct: 9 EKSYHHGNLKEELIKKGIELINEVGENKLSLRKLAIICGVSNSAPYTHFKSKDELLKGMS 68 Query: 70 EHVTEQFMERLRISIMGEEDSREAISLLGQAYVDFFIENPQYFQFLYYHSGIIIDLD-NY 128 ++ L + ++ + +LG+ YV FF++NP+Y+ FL I IDL Sbjct: 69 LYILNLLKLELENTRKKYKNKENLLVMLGKTYVIFFLKNPKYYYFLSSRKDIEIDLSIKI 128 Query: 129 SSDNYPPFALFRTTAFHMFRSTGLPEASYSHQLIVLWSMVHGIASLLTNNGVRYSGNW 186 ++N + + A + F G+ ++++ +WS+V G+ +++ Y NW Sbjct: 129 DNNNMTALDILKEEAINKFSKLGISNEDIQNKILAMWSLVAGLIAVINMTSKNYLENW 186 >ref|NP_773801.1| transcriptional regulatory protein [Bradyrhizobium japonicum] dbj|BAC52426.1| transcriptional regulatory protein [Bradyrhizobium japonicum USDA 110] Length = 246 Score = 93.6 bits (231), Expect = 2e-18, Method: Compositional matrix adjust. Identities = 54/180 (30%), Positives = 87/180 (48%), Gaps = 19/180 (10%) Query: 10 EKPYHHGNLRKQLIETGISLINEEGVKSFSLRRVAAQCNVSHTAPYSHFKNVDELIAAMG 69 E+ YHHGNL++ L++ + LI E+G F+ A VS APY HF++ DEL++++ Sbjct: 11 ERGYHHGNLKEALLQAALGLIAEKGAAGFTFADAARMAGVSAAAPYRHFRDRDELLSSIA 70 Query: 70 EHVTEQFMERLRISI-MGEEDSREAISLLGQAYVDFFIENPQYFQFLYYHSGIIIDLDNY 128 + EQF RL + G D+ A +G+AY+ F E P ++ + + SG+ +D + Sbjct: 71 QRGFEQFEARLTAAWDDGRPDTVTAFERVGRAYLAFAREEPAFYNAM-FESGLPVDAN-- 127 Query: 129 SSDNYPPFALFRTTAFHMF----------RSTGLPEASYSHQLIVLWSMVHGIASLLTNN 178 P AF++ G P + +WSM HG+ASL + Sbjct: 128 -----PALQAASERAFNIIRAAAERLAALAPPGTPRPPAMMMALHIWSMAHGVASLFSRG 182 >gb|EAJ51929.1| unknown [environmental sequence] Length = 202 Score = 89.4 bits (220), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 47/166 (28%), Positives = 87/166 (52%), Gaps = 6/166 (3%) Query: 11 KPYHHGNLRKQLIETGISLINEEGVKSFSLRRVAAQCNVSHTAPYSHFKNVDELIAAMGE 70 K YHHGNL+++L+ +++ +G S+R +A + NVS TAPY HFK EL AA+ + Sbjct: 2 KSYHHGNLKEELVNCAVNMCERDGYTKLSIRSLAKESNVSQTAPYRHFKTKQELYAAVAK 61 Query: 71 HVTEQFMERLRISIMGEEDSREAISLLGQAYVDFFIENPQYFQFLYYHS-GIIIDLDNYS 129 ++ +++ S + D ++ + G+ Y++F ++N + ++ + G D + Sbjct: 62 EGFDKLNKKM--SSIKPTDQKKYLVACGKTYINFGLKNANTYDLMFGTAVGSFTDYQDLV 119 Query: 130 SDNYPPFALFRTTAFHMFRSTGLPEASYSHQLIVLWSMVHGIASLL 175 F L R++ + + E S + I LWSMVHG+ ++ Sbjct: 120 DSANSLFELLRSSFSKLSNES---EEIISFKCITLWSMVHGLVGII 162 >gb|EAF21413.1| unknown [environmental sequence] Length = 162 Score = 84.3 bits (207), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 49/169 (28%), Positives = 87/169 (51%), Gaps = 14/169 (8%) Query: 13 YHHGNLRKQLIETGISLINEEGVKSFSLRRVAAQCNVSHTAPYSHFKNVDELIAAMGEHV 72 YHHGNL+++LI + ++ G SLR +A + NVS TAPY HFK + L+A + + Sbjct: 1 YHHGNLKEELISSACTMCEATGHDHMSLRSIAKEANVSQTAPYRHFKTKESLLAEVSKRG 60 Query: 73 TEQFMERLRISIMGE--EDSREAISLLGQAYVDFFIENPQYFQFLYYHSGII-----IDL 125 E+ ++++++I E + +++ +G AY++F +E + + + HS II +L Sbjct: 61 FEELTDKMKLAISKENIKSAKDRFLEMGLAYLEFGLEKRKTYNLM--HSPIIDKVEFPEL 118 Query: 126 DNYSSDNYPPFALFRTTAFHMFRSTGLPEASYSHQLIVLWSMVHGIASL 174 N + + T F G+ E + I W+M+HG+ L Sbjct: 119 LNAAQGAFDELVQVLTELF-----PGISEDDLGKKCIKFWAMMHGLVGL 162 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 0.321 0.136 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: 303,924,484 Number of extensions: 11671032 Number of successful extensions: 29872 Number of sequences better than 1.0e-05: 89 Number of HSP's gapped: 29867 Number of HSP's successfully gapped: 89 Length of query: 202 Length of database: 757,237,578 Length adjustment: 120 Effective length of query: 82 Effective length of database: 431,425,698 Effective search space: 35376907236 Effective search space used: 35376907236 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: 123 (52.0 bits)