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: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value C4L8H5.1 C4L8H5_TOLAT Putative uncharacterized protein 235 2e-60 O05251.1 MALR_BACSU Transcriptional regulatory protein malR 229 2e-58 B7IWV4.1 B7IWV4_BACC2 Response regulator 228 3e-58 A7GL42.1 A7GL42_BACCN Response regulator receiver 227 6e-58 Q65FJ7.1 Q65FJ7_BACLD YufM 227 8e-58 >C4L8H5.1 C4L8H5_TOLAT Putative uncharacterized protein Length = 240 Score = 235 bits (600), Expect = 2e-60, Method: Compositional matrix adjust. Identities = 115/234 (49%), Positives = 164/234 (70%), Gaps = 2/234 (0%) Query: 3 IKVLIVEDDPMVAKFNRHYVEQVQGFEFAGWAASVDEARKLL--AGLKVDLILLDIYMPR 60 I VLIV+DDPMVA+ NR Y+EQV GF + G +++ A++ L + +DL+LLDIYM + Sbjct: 2 INVLIVDDDPMVAELNRRYLEQVDGFRWLGSVSTIQAAKQKLLESEPPIDLVLLDIYMQK 61 Query: 61 TSGLQLLSSLREQGSVVDIIVISAASDNASIRKALQLGAVDYLIKPFEFARFQAALSAYQ 120 +GL LL +R+ + +D+I+IS+ASD +I+KAL+ G VDYLIKPF+FARFQ ALSAY+ Sbjct: 62 DNGLDLLPVIRQMPNNIDVIMISSASDMPAIKKALRYGVVDYLIKPFQFARFQEALSAYR 121 Query: 121 EDYMLMKHREHLSQEQLDKLLRHSTGTEEDKSGALPKGLTEGTLESIWSTIQKLESPVFS 180 E+ ++ RE L+Q +LD L+R S + LPKGLT TL+++W I++ FS Sbjct: 122 EERQMLAQREELNQSELDNLIRRSNSRPASEKLRLPKGLTRLTLQAVWEWIKQGHRQGFS 181 Query: 181 TEEITAEAPISRISVRKYLTFLTEAGVLEMEISYGAVGRPVYMYTVTASGHEII 234 TEE+ E ISR+S RKYL ++ E GVL+ +I YG+VGRPVY+Y + + EI+ Sbjct: 182 TEEMANEIGISRVSCRKYLVYMAEIGVLDTDIFYGSVGRPVYLYKLVPAKVEIM 235 >O05251.1 MALR_BACSU Transcriptional regulatory protein malR Length = 235 Score = 229 bits (583), Expect = 2e-58, 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 >B7IWV4.1 B7IWV4_BACC2 Response regulator Length = 235 Score = 228 bits (581), Expect = 3e-58, Method: Compositional matrix adjust. Identities = 114/219 (52%), Positives = 148/219 (67%) Query: 3 IKVLIVEDDPMVAKFNRHYVEQVQGFEFAGWAASVDEARKLLAGLKVDLILLDIYMPRTS 62 IKVLIVEDDPMVA N HY+EQV GFE A SV A ++L +VDL+LLDI+MP + Sbjct: 2 IKVLIVEDDPMVAMLNTHYLEQVGGFELVQAANSVKSAIEVLETSRVDLVLLDIFMPEET 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 FTFMKEQQKISQSELDSLILQKEKREPTVTKELPKGLTKQTLQLIWQKIESLNGRVFTTD 181 Query: 183 EITAEAPISRISVRKYLTFLTEAGVLEMEISYGAVGRPV 221 E+ ISR+S+RKY+ FLT+ GVLE E+ Y VGRPV Sbjct: 182 EMAQLVGISRVSIRKYVMFLTDIGVLENEMMYQHVGRPV 220 >A7GL42.1 A7GL42_BACCN Response regulator receiver Length = 235 Score = 227 bits (579), Expect = 6e-58, Method: Compositional matrix adjust. Identities = 113/219 (51%), Positives = 149/219 (68%) Query: 3 IKVLIVEDDPMVAKFNRHYVEQVQGFEFAGWAASVDEARKLLAGLKVDLILLDIYMPRTS 62 IKVLIVEDDPMVA N++Y+EQ+ GFE A SV EA ++L L V+ ILLDI+MP + Sbjct: 2 IKVLIVEDDPMVAMLNKYYLEQIGGFELVSVAYSVKEAIRILEKLNVEFILLDIFMPEDT 61 Query: 63 GLQLLSSLREQGSVVDIIVISAASDNASIRKALQLGAVDYLIKPFEFARFQAALSAYQED 122 G +LL +R Q +DI++ISA D +SI+KALQ G VDYLIKPF F RF+ AL AY+E Sbjct: 62 GFELLMYVRNQEKEIDIMMISAVHDMSSIKKALQYGVVDYLIKPFTFERFKEALIAYREK 121 Query: 123 YMLMKHREHLSQEQLDKLLRHSTGTEEDKSGALPKGLTEGTLESIWSTIQKLESPVFSTE 182 + MK ++ +SQ +LD L+ E + + LPKGLT+ TL+ IW I+ L F+T+ Sbjct: 122 FQFMKEQQQISQSELDTLILKKEKVEGNANQELPKGLTKQTLQLIWRQIELLYGKSFTTD 181 Query: 183 EITAEAPISRISVRKYLTFLTEAGVLEMEISYGAVGRPV 221 E+ ISR+S+RKY+ FL E GVLE E+ Y VGRPV Sbjct: 182 EMAQLVGISRVSIRKYVKFLIEIGVLENEMVYQQVGRPV 220 >Q65FJ7.1 Q65FJ7_BACLD YufM Length = 235 Score = 227 bits (578), Expect = 8e-58, Method: Compositional matrix adjust. Identities = 113/237 (47%), Positives = 159/237 (67%), Gaps = 4/237 (1%) Query: 3 IKVLIVEDDPMVAKFNRHYVEQVQGFEFAGWAASVDEARKLLAGLKVDLILLDIYMPRTS 62 I VLIVEDDPMV + N+ Y+ QV+GF+ G AAS EA L +DLILLDIYMP + Sbjct: 2 IDVLIVEDDPMVRELNKRYLSQVEGFQLKGIAASFQEALTFLREEHIDLILLDIYMPGRN 61 Query: 63 GLQLLSSLREQGSVVDIIVISAASDNASIRKALQLGAVDYLIKPFEFARFQAALSAYQED 122 G++LL+ +R Q VD+IVISAAS+ ++K L+ GAVDYLIKPFEF RFQ+AL+ Y+ Sbjct: 62 GVELLTEIRRQNQAVDVIVISAASEMDVVQKTLRFGAVDYLIKPFEFERFQSALTDYKRK 121 Query: 123 YMLMKHREHLSQEQLD-KLLRHSTGTEEDKSGALPKGLTEGTLESIWSTIQKLESPVFST 181 L ++SQ++LD +L + E+ LPKGLT+ TL+ IWS+I+ +S F+T Sbjct: 122 QQLYASNRNISQKELDFELFQKKRAPEK---VHLPKGLTKSTLKLIWSSIRSFDSLTFTT 178 Query: 182 EEITAEAPISRISVRKYLTFLTEAGVLEMEISYGAVGRPVYMYTVTASGHEIIAAYI 238 E++ IS++S+RKYL FL E VL +E++YG +GRPV+ Y + + +I Y+ Sbjct: 179 EDLANHTEISQVSIRKYLKFLEEIEVLNVEMAYGTIGRPVFQYKLNTNDLNVINQYL 235 Database: pfamseq Posted date: Aug 5, 2010 3:22 PM Number of letters in database: 3,060,696,203 Number of sequences in database: 9,421,015 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: 9421015 Number of Hits to DB: 1,266,372,893 Number of extensions: 47060375 Number of successful extensions: 222270 Number of sequences better than 1.0e-05: 12233 Number of HSP's gapped: 233099 Number of HSP's successfully gapped: 12239 Length of query: 238 Length of database: 3,060,696,203 Length adjustment: 132 Effective length of query: 106 Effective length of database: 1,817,122,223 Effective search space: 192614955638 Effective search space used: 192614955638 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: 129 (54.3 bits)