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= 0505.0003.p (221 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_835072.1| Two-component response regulator yhcZ [Bacillus... 137 2e-31 ref|NP_653879.1| REC, cheY-homologous receiver domain [Bacillus ... 134 1e-30 ref|ZP_00186880.1| hypothetical protein Rxyl222501 [Rubrobacter ... 134 1e-30 ref|NP_981832.1| DNA-binding response regulator [Bacillus cereus... 134 2e-30 ref|ZP_00017699.1| hypothetical protein [Chloroflexus aurantiacus] 132 7e-30 >ref|NP_835072.1| Two-component response regulator yhcZ [Bacillus cereus ATCC 14579] gb|AAP12273.1| Two-component response regulator yhcZ [Bacillus cereus ATCC 14579] Length = 215 Score = 137 bits (345), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 74/213 (34%), Positives = 120/213 (56%), Gaps = 5/213 (2%) Query: 3 RCRVLVVDDHAHAREAMCEILAMDERFEVIGAVGSGAEAIERTGLWMPDLILIDIQMPEM 62 + +VL+VDDH + + L+ E E++G +G EA+ + G PD+IL+D+ MPEM Sbjct: 2 KIKVLLVDDHTVVLKGLAFFLSTQEDLELVGEANNGKEALVKVGETNPDVILMDLYMPEM 61 Query: 63 DGLETTRRIKLEFPYVKIVIVTVSDEISYLFEALKQGAQGYLLKNLAPSTWIEYLLAIVS 122 DG+E T IK E+P VK++++T + +++ AL+ GA GY+LK++ P +E + + Sbjct: 62 DGVEATAYIKKEYPNVKVIVLTSFSDQAHVLPALRAGASGYILKDVEPDQLVEAIRSAYK 121 Query: 123 EEVPLSRELAFQILKEFAVASVKEER-----EALTAREKEILGCVSSGSTNKEIAATLGI 177 + L ++A +L + KEE + LTARE E+L ++ G +NKEIA+ L I Sbjct: 122 GNIQLHPDIANALLSQTLPVEEKEEESSIQVDVLTARENEVLQLLAKGMSNKEIASVLVI 181 Query: 178 SEHTVXXXXXXXXXXXXXXXRTQLTRYAMEQGL 210 +E TV RTQ YA++ G+ Sbjct: 182 TEKTVKAHVSSILSKLNLSDRTQAALYAVKNGI 214 >ref|NP_653879.1| REC, cheY-homologous receiver domain [Bacillus anthracis A2012] ref|NP_847809.1| DNA-binding response regulator [Bacillus anthracis str. Ames] gb|AAP29295.1| DNA-binding response regulator [Bacillus anthracis str. Ames] Length = 215 Score = 134 bits (338), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 73/213 (34%), Positives = 120/213 (56%), Gaps = 5/213 (2%) Query: 3 RCRVLVVDDHAHAREAMCEILAMDERFEVIGAVGSGAEAIERTGLWMPDLILIDIQMPEM 62 + +VL+VDDH + + L+ E E++G +G EA+ + G PD++L+D+ MPEM Sbjct: 2 KIKVLLVDDHTVVLKGLAFFLSTQEDIELVGEASNGKEALVKVGETNPDVVLMDLYMPEM 61 Query: 63 DGLETTRRIKLEFPYVKIVIVTVSDEISYLFEALKQGAQGYLLKNLAPSTWIEYLLAIVS 122 DG+E T IK E+P VK++++T + +++ AL+ GA GY+LK++ P +E + + Sbjct: 62 DGVEATACIKKEYPDVKVIVLTSFSDQAHVLPALRAGASGYILKDVEPDQLVEAIRSAYK 121 Query: 123 EEVPLSRELAFQILKEFAVASVKEER-----EALTAREKEILGCVSSGSTNKEIAATLGI 177 + L ++A +L + KEE + LTARE E+L ++ G +NKEIA+ L I Sbjct: 122 GNIQLHPDIANALLSQTLPVEEKEEEPSIQVDVLTARENEVLQLLAKGMSNKEIASVLVI 181 Query: 178 SEHTVXXXXXXXXXXXXXXXRTQLTRYAMEQGL 210 +E TV RTQ YA++ G+ Sbjct: 182 TEKTVKAHVSSILSKLHLSDRTQAALYAVKNGI 214 >ref|ZP_00186880.1| hypothetical protein Rxyl222501 [Rubrobacter xylanophilus DSM 9941] Length = 232 Score = 134 bits (338), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 83/211 (39%), Positives = 115/211 (54%), Gaps = 4/211 (1%) Query: 4 CRVLVVDDHAHAREAMCEILAMDERFEVIGAVGSGAEAIERTGLWMPDLILIDIQMPEMD 63 R++VVDDH R +L + FEV+G SG EAIE PD++++D+ MP +D Sbjct: 11 VRLIVVDDHDLIRAGFRLVLEQEPDFEVVGEASSGREAIELCRRLRPDVVVMDLAMPGVD 70 Query: 64 GLETTRRIKLEFPYVKIVIVTVSDEISYLFEALKQGAQGYLLKNLAPSTWIEYLLAIVSE 123 GLE TRRIK E P V +++VT ++ Y+ EALK GA GY+LK+ I L ++S Sbjct: 71 GLEATRRIKEEHPQVAVLVVTALEDPEYMLEALKAGAAGYVLKSSPLPRVISALRRLLSG 130 Query: 124 EVPLSRELAFQILKEFA----VASVKEEREALTAREKEILGCVSSGSTNKEIAATLGISE 179 E PL++ELA +++++ A E LTARE+E+L ++ G TN EIA L IS Sbjct: 131 ESPLNQELAARLIQDLARRPGGGGNPPPAEELTAREREVLVLMARGRTNPEIARELVISR 190 Query: 180 HTVXXXXXXXXXXXXXXXRTQLTRYAMEQGL 210 T RTQ A E GL Sbjct: 191 GTAKSHVQNIIRKLGVSDRTQAVARAFELGL 221 >ref|NP_981832.1| DNA-binding response regulator [Bacillus cereus ATCC 10987] gb|AAS44440.1| DNA-binding response regulator [Bacillus cereus ATCC 10987] Length = 215 Score = 134 bits (336), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 73/213 (34%), Positives = 120/213 (56%), Gaps = 5/213 (2%) Query: 3 RCRVLVVDDHAHAREAMCEILAMDERFEVIGAVGSGAEAIERTGLWMPDLILIDIQMPEM 62 + +VL+VDDH + + L+ E E++G +G EA+ + G PD++L+D+ MPEM Sbjct: 2 KIKVLLVDDHTVVLKGLAFFLSTQEDIELVGEASNGKEALIKVGETNPDVVLMDLYMPEM 61 Query: 63 DGLETTRRIKLEFPYVKIVIVTVSDEISYLFEALKQGAQGYLLKNLAPSTWIEYLLAIVS 122 DG+E T IK E+P VK++++T + +++ AL+ GA GY+LK++ P +E + + Sbjct: 62 DGVEATACIKKEYPDVKVIVLTSFSDQAHVLPALRAGASGYILKDVEPDQLVEAIRSAYK 121 Query: 123 EEVPLSRELAFQILKEFAVASVKEER-----EALTAREKEILGCVSSGSTNKEIAATLGI 177 + L ++A +L + KEE + LTARE E+L ++ G +NKEIA+ L I Sbjct: 122 GNIQLHPDIANALLSQTLPVEEKEEEPSIQVDVLTARENEVLQLLAKGMSNKEIASVLVI 181 Query: 178 SEHTVXXXXXXXXXXXXXXXRTQLTRYAMEQGL 210 +E TV RTQ YA++ G+ Sbjct: 182 TEKTVKAHVSSILSKLNLSDRTQAALYAVKNGV 214 >ref|ZP_00017699.1| hypothetical protein [Chloroflexus aurantiacus] Length = 218 Score = 132 bits (331), Expect = 7e-30, Method: Compositional matrix adjust. Identities = 75/211 (35%), Positives = 118/211 (55%), Gaps = 1/211 (0%) Query: 1 MNRCRVLVVDDHAHAREAMCEILAMDERFEVIGAVGSGAEAIERTGLWMPDLILIDIQMP 60 M + VL++DDH R+ + + L + EV+G GSGAE +E +PD++L+D+ MP Sbjct: 1 MEQITVLLIDDHRVVRQGLRDFLELQPDIEVVGEAGSGAEGVELARELLPDVVLMDLVMP 60 Query: 61 EMDGLETTRRIKLEFPYVKIVIVTVSDEISYLFEALKQGAQGYLLKNLAPSTWIEYLLAI 120 +DG+ETTRR+K P +++++T + +F A+K GA YLLK+++P + A Sbjct: 61 GIDGVETTRRLKAVSPSSQVIVLTSFADDDKVFPAIKAGAISYLLKDISPEDLAHAIRAA 120 Query: 121 VSEEVPLSRELAFQILKEFAVASVKEER-EALTAREKEILGCVSSGSTNKEIAATLGISE 179 E L ++A ++++EF E E LT RE ++L V+ G +NKEIA TL +SE Sbjct: 121 CRGEAVLHPDVAAKLMQEFNTPRPNEAPVEQLTPREMDVLRLVAKGMSNKEIAETLIVSE 180 Query: 180 HTVXXXXXXXXXXXXXXXRTQLTRYAMEQGL 210 TV RTQ+ YA+ + L Sbjct: 181 KTVKTHISNILSKLHLADRTQVAIYALRKRL 211 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 0.134 0.376 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: 270,555,727 Number of extensions: 9469321 Number of successful extensions: 35018 Number of sequences better than 1.0e-05: 1848 Number of HSP's gapped: 36256 Number of HSP's successfully gapped: 1849 Length of query: 221 Length of database: 757,237,578 Length adjustment: 121 Effective length of query: 100 Effective length of database: 428,710,599 Effective search space: 42871059900 Effective search space used: 42871059900 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: 123 (52.0 bits)