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= 0541.0026.p (217 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3KB69.1 B3KB69_9BACI Response regulator receiver 333 4e-90 B1DDI4.1 B1DDI4_9BACL Two component transcriptional regulator, L... 296 1e-78 B7GJ10.1 B7GJ10_ANOFW DNA-binding response regulator, NarL famil... 176 1e-42 Q81T32.1 Q81T32_BACAN DNA-binding response regulator 174 4e-42 Q73B57.1 Q73B57_BACC1 DNA-binding response regulator 174 4e-42 >B3KB69.1 B3KB69_9BACI Response regulator receiver Length = 234 Score = 333 bits (855), Expect = 4e-90, Method: Compositional matrix adjust. Identities = 167/216 (77%), Positives = 183/216 (84%) Query: 1 MSIIKVLLVDDHDMVRMGLKTYLMLDPMFEVIGEAANGQEALNMLRNWGKEAXXXXXXXX 60 M I++LL DDHDMVRMGLKTYL LDP FEVIGEAANGQE ++MLRN + Sbjct: 18 MGTIRILLADDHDMVRMGLKTYLSLDPGFEVIGEAANGQEVVDMLRNGEEADRPDLILMD 77 Query: 61 XXXXXXNGAETTRAVLAEFPGLKIVILTSFLEDDLVVDAIEAGAVSYVLKTVSAEELIYA 120 NGAETTRAV++EFP KIVILTSFLED+LVV+ IEAGAVSYVLKTVSA+ELIYA Sbjct: 78 LMMPVMNGAETTRAVMSEFPDQKIVILTSFLEDELVVECIEAGAVSYVLKTVSADELIYA 137 Query: 121 LQGAFRGMPVMTGDVSQALTRGIRQRTVQGDSSGLTEREKEVLLLIAEGKTNKDIGEELH 180 LQGAFRGMPVMT DVS+ALTRGIR+ V GD SGLTEREKEVLLLIAEGK+NK+IGEELH Sbjct: 138 LQGAFRGMPVMTKDVSEALTRGIRRHMVNGDESGLTEREKEVLLLIAEGKSNKEIGEELH 197 Query: 181 ISIKTVKTHVSNLLMKCELDDRTQLAIYAHRKGWAQ 216 ISIKTVKTHVSNLLMKCEL+DRTQLAIYAHRKGW + Sbjct: 198 ISIKTVKTHVSNLLMKCELEDRTQLAIYAHRKGWVK 233 >B1DDI4.1 B1DDI4_9BACL Two component transcriptional regulator, LuxR family Length = 221 Score = 296 bits (757), Expect = 1e-78, Method: Compositional matrix adjust. Identities = 145/213 (68%), Positives = 169/213 (79%) Query: 4 IKVLLVDDHDMVRMGLKTYLMLDPMFEVIGEAANGQEALNMLRNWGKEAXXXXXXXXXXX 63 +KV++VDDHDMVR GL+TYLML+P FEV+ EA +GQ A++ML Sbjct: 7 LKVMIVDDHDMVRTGLRTYLMLEPKFEVVAEAGSGQAAISMLEAGLPSGLPDVILMDLMM 66 Query: 64 XXXNGAETTRAVLAEFPGLKIVILTSFLEDDLVVDAIEAGAVSYVLKTVSAEELIYALQG 123 +G ETTR ++ E+P LKI++LTSFLEDD V AIEAGAVSYVLKTVSAEELIYAL G Sbjct: 67 PGMDGIETTRQLIVEYPNLKIIMLTSFLEDDKVYGAIEAGAVSYVLKTVSAEELIYALHG 126 Query: 124 AFRGMPVMTGDVSQALTRGIRQRTVQGDSSGLTEREKEVLLLIAEGKTNKDIGEELHISI 183 A +GMPVMT DVSQALTRG+RQRT Q LTEREKEVLLLIAEG++NK+IGEELHIS+ Sbjct: 127 AVKGMPVMTADVSQALTRGLRQRTAQSGDEELTEREKEVLLLIAEGRSNKEIGEELHISV 186 Query: 184 KTVKTHVSNLLMKCELDDRTQLAIYAHRKGWAQ 216 KTVKTHVSNLLMKCEL+DRTQLA+ AHRKGW + Sbjct: 187 KTVKTHVSNLLMKCELEDRTQLAVLAHRKGWVK 219 >B7GJ10.1 B7GJ10_ANOFW DNA-binding response regulator, NarL family (REC-HTH domains) Length = 208 Score = 176 bits (447), Expect = 1e-42, Method: Compositional matrix adjust. Identities = 96/211 (45%), Positives = 135/211 (63%), Gaps = 6/211 (2%) Query: 3 IIKVLLVDDHDMVRMGLKTYLMLDPMFEVIGEAANGQEALNMLRNWGKEAXXXXXXXXXX 62 +IKVLLVDDH+MVR+G+ YL P EVIGEA +G++ + + + Sbjct: 1 MIKVLLVDDHEMVRLGVSAYLSAQPDMEVIGEAESGEKGVELALQLRPD----MILMDLV 56 Query: 63 XXXXNGAETTRAVLAEFPGLKIVILTSFLEDDLVVDAIEAGAVSYVLKTVSAEELIYALQ 122 +G E T+ +++ +P KI+I+TSFL+DD V AIEAGAVSY+LKT A E+ A++ Sbjct: 57 MEPMDGIEATKQIISAWPEAKIMIVTSFLDDDKVYPAIEAGAVSYMLKTSKASEIANAIR 116 Query: 123 GAFRGMPVMTGDVSQALTRGIRQRTVQGDSSGLTEREKEVLLLIAEGKTNKDIGEELHIS 182 F G V +V+ + +R+ ++ + LT RE EVLLLIA+GKTN++I EEL IS Sbjct: 117 ATFHGQSVFEPEVTGKMMNSMRKPSLPHEQ--LTSREMEVLLLIAQGKTNQEIAEELFIS 174 Query: 183 IKTVKTHVSNLLMKCELDDRTQLAIYAHRKG 213 +KTVK HVSN+L K ++ DRTQ IYA + G Sbjct: 175 LKTVKVHVSNILAKLDVQDRTQAVIYAFKHG 205 >Q81T32.1 Q81T32_BACAN DNA-binding response regulator Length = 210 Score = 174 bits (442), Expect = 4e-42, Method: Compositional matrix adjust. Identities = 95/209 (45%), Positives = 132/209 (63%), Gaps = 4/209 (1%) Query: 3 IIKVLLVDDHDMVRMGLKTYLMLDPMFEVIGEAANGQEALNMLRNWGKEAXXXXXXXXXX 62 +IKVLLVDDH+MVRMG+ YL P EV+GEA NG++ + + Sbjct: 1 MIKVLLVDDHEMVRMGVSAYLSTQPDIEVVGEAENGRKGSELALQLRPD----IILMDLV 56 Query: 63 XXXXNGAETTRAVLAEFPGLKIVILTSFLEDDLVVDAIEAGAVSYVLKTVSAEELIYALQ 122 +G E TRA++ E+P KIV++TSFL+D+ + IEAGA SY+LKT A ++ A++ Sbjct: 57 MDEMDGVEATRAIIQEWPEAKIVVVTSFLDDEKLYPVIEAGATSYLLKTSRASDIADAVR 116 Query: 123 GAFRGMPVMTGDVSQALTRGIRQRTVQGDSSGLTEREKEVLLLIAEGKTNKDIGEELHIS 182 + G V+ V+ + +RQ+ Q LTERE E+LLLIAEGK+N++I +EL I+ Sbjct: 117 ATYDGETVLEPKVTGKMMSRMRQKKEQPLHEELTERESEILLLIAEGKSNQEIADELFIA 176 Query: 183 IKTVKTHVSNLLMKCELDDRTQLAIYAHR 211 +KTVKTHVSN+L K + DRTQ IYA R Sbjct: 177 LKTVKTHVSNILNKLNVSDRTQAVIYAFR 205 >Q73B57.1 Q73B57_BACC1 DNA-binding response regulator Length = 210 Score = 174 bits (442), Expect = 4e-42, Method: Compositional matrix adjust. Identities = 95/209 (45%), Positives = 132/209 (63%), Gaps = 4/209 (1%) Query: 3 IIKVLLVDDHDMVRMGLKTYLMLDPMFEVIGEAANGQEALNMLRNWGKEAXXXXXXXXXX 62 +IKVLLVDDH+MVRMG+ YL P EV+GEA NG++ + + Sbjct: 1 MIKVLLVDDHEMVRMGVSAYLSTQPDIEVVGEAENGRKGSELALQLRPD----IILMDLV 56 Query: 63 XXXXNGAETTRAVLAEFPGLKIVILTSFLEDDLVVDAIEAGAVSYVLKTVSAEELIYALQ 122 +G E TRA++ E+P KIV++TSFL+D+ + IEAGA SY+LKT A ++ A++ Sbjct: 57 MDEMDGVEATRAIIQEWPEAKIVVVTSFLDDEKLYPVIEAGATSYLLKTSRASDIADAVR 116 Query: 123 GAFRGMPVMTGDVSQALTRGIRQRTVQGDSSGLTEREKEVLLLIAEGKTNKDIGEELHIS 182 + G V+ V+ + +RQ+ Q LTERE E+LLLIAEGK+N++I +EL I+ Sbjct: 117 ATYDGETVLEPKVTGKMMSRMRQKKEQPLHEELTERESEILLLIAEGKSNQEIADELFIA 176 Query: 183 IKTVKTHVSNLLMKCELDDRTQLAIYAHR 211 +KTVKTHVSN+L K + DRTQ IYA R Sbjct: 177 LKTVKTHVSNILNKLNVSDRTQAVIYAFR 205 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 0.135 0.374 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: 1,039,946,684 Number of extensions: 35317269 Number of successful extensions: 143723 Number of sequences better than 1.0e-05: 7184 Number of HSP's gapped: 135780 Number of HSP's successfully gapped: 7193 Length of query: 217 Length of database: 3,060,696,203 Length adjustment: 130 Effective length of query: 87 Effective length of database: 1,835,964,253 Effective search space: 159728890011 Effective search space used: 159728890011 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: 128 (53.9 bits)