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= 0541.0087.p (238 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_391031.1| similar to two-component response regulator [Yu... 229 5e-59 ref|NP_830395.1| Two-component response regulator yufM [Bacillus... 226 3e-58 ref|NP_654517.1| REC, cheY-homologous receiver domain [Bacillus ... 223 2e-57 ref|NP_241264.1| two-component response regulator [Bacillus halo... 222 4e-57 ref|NP_976965.1| response regulator [Bacillus cereus ATCC 10987]... 220 2e-56 >ref|NP_391031.1| similar to two-component response regulator [YufL] [Bacillus subtilis] pir||B70009 two-component response regulator [YufL] homolog yufM - Bacillus subtilis emb|CAB07935.1| unknown [Bacillus subtilis] emb|CAB15142.1| yufM [Bacillus subtilis subsp. subtilis str. 168] Length = 235 Score = 229 bits (583), Expect = 5e-59, Method: Compositional matrix adjust. Identities = 116/237 (48%), Positives = 158/237 (66%), Gaps = 4/237 (1%) Query: 3 IKVLIVEDDPMVAKFNRHYVEQVQGFEFAGWAASVDEARKLLAGLKVDLILLDIYMPRTS 62 I VLIVEDDPMV + N+ Y+ Q+ GF+ G A+S A +L +DLILLDIYMP + Sbjct: 2 INVLIVEDDPMVGELNKRYLSQIDGFQLKGIASSFQSALHILGEHHIDLILLDIYMPGKN 61 Query: 63 GLQLLSSLREQGSVVDIIVISAASDNASIRKALQLGAVDYLIKPFEFARFQAALSAYQED 122 GL+LL+ LR Q VD+IVISAAS+ I+K L+ GAVDYLIKPFEF RFQ ALS Y+ Sbjct: 62 GLELLTELRAQNEAVDVIVISAASELDVIKKTLRYGAVDYLIKPFEFERFQTALSDYRRK 121 Query: 123 YMLMKHREHLSQEQLD-KLLRHSTGTEEDKSGALPKGLTEGTLESIWSTIQKLESPVFST 181 + ++SQ++LD +L + TE+ + LPKGLT+ TL+ IWS+IQ E+ F+T Sbjct: 122 QKVYSTHRNMSQKELDAELFQKKEATEKVQ---LPKGLTKSTLKLIWSSIQSFENESFTT 178 Query: 182 EEITAEAPISRISVRKYLTFLTEAGVLEMEISYGAVGRPVYMYTVTASGHEIIAAYI 238 E++ IS++S+RKYL FL + VL +E++YG +GRPV+ Y V S I Y+ Sbjct: 179 EDLAKHTEISQVSIRKYLKFLEDIQVLNVEMAYGTIGRPVFQYNVNNSNINGIKQYL 235 >ref|NP_830395.1| Two-component response regulator yufM [Bacillus cereus ATCC 14579] gb|AAP07596.1| Two-component response regulator yufM [Bacillus cereus ATCC 14579] Length = 235 Score = 226 bits (577), Expect = 3e-58, Method: Compositional matrix adjust. Identities = 114/219 (52%), Positives = 146/219 (66%) Query: 3 IKVLIVEDDPMVAKFNRHYVEQVQGFEFAGWAASVDEARKLLAGLKVDLILLDIYMPRTS 62 IKVLIVEDDPMVA N HY+EQV GFE SV A ++L +VDL+LLDI+MP + Sbjct: 2 IKVLIVEDDPMVAMLNTHYLEQVGGFELVQAVNSVKSAIEILEKSRVDLVLLDIFMPEET 61 Query: 63 GLQLLSSLREQGSVVDIIVISAASDNASIRKALQLGAVDYLIKPFEFARFQAALSAYQED 122 G +LL +R Q +DII+ISA D SI+KALQ G VDYLIKPF F RF+ AL+ Y+E Sbjct: 62 GFELLMYIRNQEKEIDIIMISAVHDMGSIKKALQYGVVDYLIKPFTFERFKEALTIYREK 121 Query: 123 YMLMKHREHLSQEQLDKLLRHSTGTEEDKSGALPKGLTEGTLESIWSTIQKLESPVFSTE 182 MK ++ +SQ +LD L+ E + LPKGLT+ TL+ IW I+ L VF+T+ Sbjct: 122 LTFMKEQQKISQSELDSLILQKEKREPTVTKELPKGLTKQTLQLIWQKIESLNGRVFTTD 181 Query: 183 EITAEAPISRISVRKYLTFLTEAGVLEMEISYGAVGRPV 221 E+ ISR+S+RKY+ FLT+ GVLE E+ Y VGRPV Sbjct: 182 EMAQLVGISRVSIRKYVMFLTDIGVLENEMMYQHVGRPV 220 >ref|NP_654517.1| REC, cheY-homologous receiver domain [Bacillus anthracis A2012] Length = 235 Score = 223 bits (569), Expect = 2e-57, Method: Compositional matrix adjust. Identities = 111/219 (50%), Positives = 146/219 (66%) Query: 3 IKVLIVEDDPMVAKFNRHYVEQVQGFEFAGWAASVDEARKLLAGLKVDLILLDIYMPRTS 62 IKVLIVEDDPMVA N HY+EQV GFE S+ A ++L ++DL+LLDI+MP + Sbjct: 2 IKVLIVEDDPMVAMLNTHYLEQVGGFELVQAVNSIKSAIEVLEESRIDLVLLDIFMPEET 61 Query: 63 GLQLLSSLREQGSVVDIIVISAASDNASIRKALQLGAVDYLIKPFEFARFQAALSAYQED 122 G +LL +R Q +DI++ISA D SI+KALQ G VDYLIKPF F RF+ AL+ Y+E Sbjct: 62 GFELLMYIRNQEKEIDIMMISAVHDMGSIKKALQYGVVDYLIKPFTFERFKEALTIYREK 121 Query: 123 YMLMKHREHLSQEQLDKLLRHSTGTEEDKSGALPKGLTEGTLESIWSTIQKLESPVFSTE 182 MK ++ +SQ +LD L+ E + LPKGLT+ TL+ IW I+ L VF+T+ Sbjct: 122 LTFMKEQQKISQSELDSLILQKEKREPTVTKELPKGLTKQTLQLIWQKIESLNGRVFTTD 181 Query: 183 EITAEAPISRISVRKYLTFLTEAGVLEMEISYGAVGRPV 221 E+ ISR+S+RKY+ FLT+ GVLE E+ Y VGRPV Sbjct: 182 EMAQLVGISRVSIRKYVMFLTDIGVLENEMMYQHVGRPV 220 >ref|NP_241264.1| two-component response regulator [Bacillus halodurans] pir||F83699 two-component response regulator BH0398 [imported] - Bacillus halodurans (strain C-125) dbj|BAB04117.1| two-component response regulator [Bacillus halodurans] Length = 237 Score = 222 bits (566), Expect = 4e-57, Method: Compositional matrix adjust. Identities = 115/236 (48%), Positives = 161/236 (68%), Gaps = 2/236 (0%) Query: 3 IKVLIVEDDPMVAKFNRHYVEQVQGFEFAGWAASVDEARKLLAGLKVDLILLDIYMPRTS 62 I VLIVEDDPMVA+FN+ YV+ V GF G A V+EA+ ++ KVDLILLD+YMP + Sbjct: 2 IHVLIVEDDPMVAEFNKRYVKNVDGFHLVGIAYHVEEAKTVIEEKKVDLILLDVYMPGEN 61 Query: 63 GLQLLSSLREQGSVVDIIVISAASDNASIRKALQLGAVDYLIKPFEFARFQAALSAYQED 122 GL+LLS +R + +D+I+I+AASD I+ AL+ GAVDYLIKPFEF RF+ AL +Y++ Sbjct: 62 GLELLSYIRAEKLGIDVILITAASDADHIQTALRYGAVDYLIKPFEFERFEQALLSYKDK 121 Query: 123 YMLMKHREHLSQEQLDKLLRHSTGTEEDKSGALPKGLTEGTLESIWSTIQKLESPVFSTE 182 ++ +E L+QE+LD+LL S + D+ ALPKGLT+ TL+ I I+K+ FST+ Sbjct: 122 QYALREKEQLNQEELDQLLL-SDDKDPDQEIALPKGLTQSTLQIIVEEIRKIGETPFSTD 180 Query: 183 EITAEAPISRISVRKYLTFLTEAGVLEMEISYGAVGRPVYMYTVTASGHEIIAAYI 238 E+ + ISR+S+RKYL FL + LE ++YG +GRPVY Y + + Y+ Sbjct: 181 ELAEQTEISRVSIRKYLKFLVDIECLEERLTYG-IGRPVYSYQYIKENGDRLKQYL 235 >ref|NP_976965.1| response regulator [Bacillus cereus ATCC 10987] gb|AAS39573.1| response regulator [Bacillus cereus ATCC 10987] Length = 235 Score = 220 bits (561), Expect = 2e-56, Method: Compositional matrix adjust. Identities = 110/219 (50%), Positives = 143/219 (65%) Query: 3 IKVLIVEDDPMVAKFNRHYVEQVQGFEFAGWAASVDEARKLLAGLKVDLILLDIYMPRTS 62 IKVLIVEDDPMVA N HY+EQ GFE SV A ++L +VDL+LLDI+MP + Sbjct: 2 IKVLIVEDDPMVAMLNTHYLEQAGGFELVQAVNSVKSAIEVLEASRVDLVLLDIFMPEET 61 Query: 63 GLQLLSSLREQGSVVDIIVISAASDNASIRKALQLGAVDYLIKPFEFARFQAALSAYQED 122 G +LL +R Q +DI++ISA D SI+KALQ G VDYLIKPF F RF+ AL+ Y+E Sbjct: 62 GFELLMYIRNQEKEIDIMMISAVHDMGSIKKALQYGVVDYLIKPFTFERFKEALTIYREK 121 Query: 123 YMLMKHREHLSQEQLDKLLRHSTGTEEDKSGALPKGLTEGTLESIWSTIQKLESPVFSTE 182 MK ++ +SQ +LD L+ E LPKGLT+ T++ IW I+ L F+T+ Sbjct: 122 LTFMKEQQKISQSELDSLILQKEKREPTVMKELPKGLTKQTMQLIWKKIESLNGRAFTTD 181 Query: 183 EITAEAPISRISVRKYLTFLTEAGVLEMEISYGAVGRPV 221 E+ +SR+S+RKY+ FLTE GVLE E+ Y VGRPV Sbjct: 182 EMAQLVGVSRVSIRKYVMFLTEIGVLENEMVYQHVGRPV 220 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 0.318 0.133 0.367 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: 310,558,406 Number of extensions: 11368377 Number of successful extensions: 44891 Number of sequences better than 1.0e-05: 2043 Number of HSP's gapped: 46767 Number of HSP's successfully gapped: 2044 Length of query: 238 Length of database: 757,237,578 Length adjustment: 122 Effective length of query: 116 Effective length of database: 425,995,500 Effective search space: 49415478000 Effective search space used: 49415478000 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 (21.7 bits) S2: 124 (52.4 bits)