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= 0042.0011.p (232 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3K874.1 B3K874_9BACI Response regulator receiver 311 3e-83 C0ZK69.1 C0ZK69_BREBN Two-component response regulator 283 7e-75 Q65CY0.1 Q65CY0_BACLD YxdJ 273 8e-72 Q4MLB7.1 Q4MLB7_BACCE DNA-binding response regulator 261 4e-68 B5UZF3.1 B5UZF3_BACCE DNA-binding response regulator 260 6e-68 >B3K874.1 B3K874_9BACI Response regulator receiver Length = 233 Score = 311 bits (797), Expect = 3e-83, Method: Compositional matrix adjust. Identities = 150/233 (64%), Positives = 177/233 (75%), Gaps = 1/233 (0%) Query: 1 MDTILIVEXXXXXXXXXXXXXXXXXFRTVVVEDFNRVLETFEQAAPSLVLLDVNLPRYDG 60 M TILIVE F ++EDFNRV++ F + P LVLLDVNLP+YDG Sbjct: 1 MYTILIVEDDERIADKLRSAISKYDFNVRIIEDFNRVMDIFAETKPDLVLLDVNLPKYDG 60 Query: 61 FYWCRQLRKSSLCPILFISARDSGMDQVMALENGGDDYITKPFQYEVVLAKIRSHLRRAY 120 FYWCRQ+R S CPI+FISARDSGMDQ+MALENG DDYITKPF E+VLAK+RSHLRRA Sbjct: 61 FYWCRQIRTQSHCPIIFISARDSGMDQIMALENGADDYITKPFDMELVLAKVRSHLRRAV 120 Query: 121 GSYAQSQEER-RLETGGLTLLPERYIIQYAGQSAELTQKEAVLLEALMLKEGRVVTRERL 179 G+YA QEE +E+ GL L PER ++ Y +SAELTQKEA LL LM K+GRVV+RERL Sbjct: 121 GAYASGQEEEPTVESAGLLLYPERLLVTYGDRSAELTQKEAALLTMLMEKDGRVVSRERL 180 Query: 180 LDLMWEDQHFIDDNTLNVYITRVRKKLKDLGLEEIVETVRGAGYRLSASGDSL 232 LDLMWEDQHFIDDNTLNVYITRVR+KL++LG +++ETVRGAGYR ++L Sbjct: 181 LDLMWEDQHFIDDNTLNVYITRVRRKLRELGAGDLIETVRGAGYRFMTGKETL 233 >C0ZK69.1 C0ZK69_BREBN Two-component response regulator Length = 232 Score = 283 bits (725), Expect = 7e-75, Method: Compositional matrix adjust. Identities = 143/228 (62%), Positives = 169/228 (74%), Gaps = 1/228 (0%) Query: 1 MDTILIVEXXXXXXXXXXXXXXXXXFRTVVVEDFNRVLETFEQAAPSLVLLDVNLPRYDG 60 M TI+IVE F+TV VE F+RV+E F Q+ P LVLLDVNLP++DG Sbjct: 1 MSTIMIVEDDPKINQLLQEQLEKYGFQTVNVEHFDRVMEVFTQSRPDLVLLDVNLPKFDG 60 Query: 61 FYWCRQLRKSSLCPILFISARDSGMDQVMALENGGDDYITKPFQYEVVLAKIRSHLRRAY 120 FYWCRQ+R+ S CPILFISAR+S MDQVMALENG DDYITKPF Y+VVLAKIRS LRRAY Sbjct: 61 FYWCRQMRQESNCPILFISARESKMDQVMALENGADDYITKPFDYDVVLAKIRSQLRRAY 120 Query: 121 GSYAQSQEERRLETGGLTLLPERYIIQYAGQSAELTQKEAVLLEALMLKEGRVVTRERLL 180 G YA + ER +E GL L ER + EL++KEA+LLEALM + RVV+RERLL Sbjct: 121 GQYAPQEGERTVEVAGLKLFLERMELSMYETKIELSKKEALLLEALMNQHPRVVSRERLL 180 Query: 181 DLMWEDQHFIDDNTLNVYITRVRKKLKDLGLEEIVETVRGAGYRLSAS 228 + +W D+ F+D+NTLNVYITRVR KLKDLGLE VETVRG+GYRL A+ Sbjct: 181 EKLW-DEQFVDENTLNVYITRVRSKLKDLGLEGAVETVRGSGYRLRAT 227 >Q65CY0.1 Q65CY0_BACLD YxdJ Length = 235 Score = 273 bits (699), Expect = 8e-72, Method: Compositional matrix adjust. Identities = 130/228 (57%), Positives = 166/228 (72%) Query: 1 MDTILIVEXXXXXXXXXXXXXXXXXFRTVVVEDFNRVLETFEQAAPSLVLLDVNLPRYDG 60 M ++IVE + VV+DF+RV++ F AP LVLLD+NLP +DG Sbjct: 1 MQKVMIVEDDPKIADLLKSHIVKYGYNVHVVKDFDRVMDEFRSTAPDLVLLDINLPSFDG 60 Query: 61 FYWCRQLRKSSLCPILFISARDSGMDQVMALENGGDDYITKPFQYEVVLAKIRSHLRRAY 120 +YWCRQ+R+ S+CP+LFISAR MDQVMALENGGDD+ITKPF E+V+AKIRS LRRAY Sbjct: 61 YYWCRQIRQESICPVLFISARTGEMDQVMALENGGDDFITKPFHAEIVMAKIRSQLRRAY 120 Query: 121 GSYAQSQEERRLETGGLTLLPERYIIQYAGQSAELTQKEAVLLEALMLKEGRVVTRERLL 180 G YA EER LE GL L PER + +AGQ+A LT+KEA ++E+LM + R+ RE LL Sbjct: 121 GEYAAKAEERLLEKEGLRLYPERLELTFAGQTAALTKKEADIIESLMERHPRISGREDLL 180 Query: 181 DLMWEDQHFIDDNTLNVYITRVRKKLKDLGLEEIVETVRGAGYRLSAS 228 +W+DQ ++D+NTLNV ITRVRKK ++LG+E+ VETVRGAGYRL+ S Sbjct: 181 AKLWDDQAYVDENTLNVNITRVRKKFQELGIEDAVETVRGAGYRLNVS 228 >Q4MLB7.1 Q4MLB7_BACCE DNA-binding response regulator Length = 235 Score = 261 bits (666), Expect = 4e-68, Method: Compositional matrix adjust. Identities = 124/231 (53%), Positives = 160/231 (69%) Query: 1 MDTILIVEXXXXXXXXXXXXXXXXXFRTVVVEDFNRVLETFEQAAPSLVLLDVNLPRYDG 60 M I+IVE + ++V DF+ VL F + P LVLLD+NLP +DG Sbjct: 1 MVKIMIVEDDMKIAELLSTHVAKYGYEGIIVSDFHNVLNIFLEEQPELVLLDINLPSFDG 60 Query: 61 FYWCRQLRKSSLCPILFISARDSGMDQVMALENGGDDYITKPFQYEVVLAKIRSHLRRAY 120 +YWCRQ+R S CPILFISAR+ MDQVMALENGGDD+I+KPF YEVV+AKIRSHLRRAY Sbjct: 61 YYWCRQIRGVSTCPILFISAREGTMDQVMALENGGDDFISKPFHYEVVMAKIRSHLRRAY 120 Query: 121 GSYAQSQEERRLETGGLTLLPERYIIQYAGQSAELTQKEAVLLEALMLKEGRVVTRERLL 180 G YA EER +E GL L PER +++ Q ++T+ EA+LLE LM RVV+RE LL Sbjct: 121 GDYAPKVEERMVEQHGLCLYPERLVLKLKNQEIDVTRNEAILLEMLMKNYPRVVSREVLL 180 Query: 181 DLMWEDQHFIDDNTLNVYITRVRKKLKDLGLEEIVETVRGAGYRLSASGDS 231 + +W+ + ++DDNTL+V TRVRKKLK L +E+ +ET+R GYRL + D+ Sbjct: 181 NKLWDSESYVDDNTLSVNTTRVRKKLKTLHIEDAIETIRSVGYRLHITWDT 231 >B5UZF3.1 B5UZF3_BACCE DNA-binding response regulator Length = 235 Score = 260 bits (665), Expect = 6e-68, Method: Compositional matrix adjust. Identities = 124/231 (53%), Positives = 160/231 (69%) Query: 1 MDTILIVEXXXXXXXXXXXXXXXXXFRTVVVEDFNRVLETFEQAAPSLVLLDVNLPRYDG 60 M I+IVE + ++V DF+ VL F + P LVLLD+NLP +DG Sbjct: 1 MVKIMIVEDDMKIAKLLSTHVAKYGYEGIIVSDFHNVLNIFLEEQPELVLLDINLPSFDG 60 Query: 61 FYWCRQLRKSSLCPILFISARDSGMDQVMALENGGDDYITKPFQYEVVLAKIRSHLRRAY 120 +YWCRQ+R S CPILFISAR+ MDQVMALENGGDD+I+KPF YEVV+AKIRSHLRRAY Sbjct: 61 YYWCRQIRGVSTCPILFISAREGTMDQVMALENGGDDFISKPFHYEVVMAKIRSHLRRAY 120 Query: 121 GSYAQSQEERRLETGGLTLLPERYIIQYAGQSAELTQKEAVLLEALMLKEGRVVTRERLL 180 G YA EER +E GL L PER +++ Q ++T+ EA+LLE LM RVV+RE LL Sbjct: 121 GDYAPKVEERMVEQHGLCLYPERLVLKLKNQEIDVTRNEAILLEMLMKNYPRVVSREVLL 180 Query: 181 DLMWEDQHFIDDNTLNVYITRVRKKLKDLGLEEIVETVRGAGYRLSASGDS 231 + +W+ + ++DDNTL+V TRVRKKLK L +E+ +ET+R GYRL + D+ Sbjct: 181 NKLWDSESYVDDNTLSVNTTRVRKKLKTLQIEDAIETIRSVGYRLHITWDT 231 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 0.321 0.138 0.393 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: 1,205,608,008 Number of extensions: 46608713 Number of successful extensions: 196486 Number of sequences better than 1.0e-05: 18740 Number of HSP's gapped: 177033 Number of HSP's successfully gapped: 18752 Length of query: 232 Length of database: 3,060,696,203 Length adjustment: 131 Effective length of query: 101 Effective length of database: 1,826,543,238 Effective search space: 184480867038 Effective search space used: 184480867038 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: 129 (54.3 bits)