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= 0544.0025.p (216 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_976622.1| DNA-binding response regulator [Bacillus cereus... 247 1e-64 ref|NP_830149.1| Two-component response regulator [Bacillus cere... 247 1e-64 ref|NP_842823.1| DNA-binding response regulator [Bacillus anthra... 247 1e-64 ref|NP_347203.1| Response regulator (REC, HTH domains) [Clostrid... 242 4e-63 ref|NP_781466.1| two-component response regulator [Clostridium t... 241 7e-63 >ref|NP_976622.1| DNA-binding response regulator [Bacillus cereus ATCC 10987] gb|AAS39230.1| DNA-binding response regulator [Bacillus cereus ATCC 10987] Length = 233 Score = 247 bits (631), Expect = 1e-64, Method: Compositional matrix adjust. Identities = 117/209 (55%), Positives = 159/209 (76%), Gaps = 2/209 (0%) Query: 3 TVLVVDDDSEIRDIIHVYLRNEGYHVIEAADGEEALKVIESTPVQLVILDVMMPRMDGIK 62 T+LVVDD+ EIR++I +YL+NEGY V++A DGEE L+++E V LV+LD+MMP++DGI Sbjct: 5 TILVVDDEKEIRNLIKIYLKNEGYKVLQAGDGEEGLRLLEENEVHLVVLDIMMPKVDGIH 64 Query: 63 TCLKIREVSDTPLIMLSAKEEDIDKITGLTTGADDYMTKPFNPLELLARVKAQFRRQALI 122 C+K+RE + P+IMLSAK +D+DKI GLTTGADDY+TKPFNPLEL+AR+K+Q RR + Sbjct: 65 MCMKVREEKEMPIIMLSAKTQDMDKILGLTTGADDYVTKPFNPLELIARIKSQLRRYMKM 124 Query: 123 GKADFNS--LLLIKDLVIDKSKHSVKVKGIDIPVTPLEFAILVLLASHPGQVFSSEHIYE 180 + L I ++ I+ S H V V+G ++ +TP EF+IL LLA +PG VFS+E IYE Sbjct: 125 NGFSIQNEDELEIGEMKINISTHKVIVEGEEVKLTPREFSILELLARNPGMVFSAEQIYE 184 Query: 181 SVWKEPFGNSDNTVMVHIRNLREKLDDDP 209 VW E SDNTVMVHIR +REK++++P Sbjct: 185 KVWNERSFQSDNTVMVHIRKVREKIEENP 213 >ref|NP_830149.1| Two-component response regulator [Bacillus cereus ATCC 14579] gb|AAP07350.1| Two-component response regulator [Bacillus cereus ATCC 14579] Length = 233 Score = 247 bits (630), Expect = 1e-64, Method: Compositional matrix adjust. Identities = 120/209 (57%), Positives = 161/209 (77%), Gaps = 2/209 (0%) Query: 3 TVLVVDDDSEIRDIIHVYLRNEGYHVIEAADGEEALKVIESTPVQLVILDVMMPRMDGIK 62 T+LVVDD+ EIR++I +YL+NEGY V++A DGEE L+++E V LV+LD+MMP++DGI Sbjct: 5 TILVVDDEKEIRNLITIYLKNEGYKVLQAEDGEEGLRLLEENEVHLVVLDIMMPKVDGIH 64 Query: 63 TCLKIREVSDTPLIMLSAKEEDIDKITGLTTGADDYMTKPFNPLELLARVKAQFRR-QAL 121 C+K+RE + P+IMLSAK +D+DKI GLTTGADDY+TKPFNPLEL+AR+K+Q RR + Sbjct: 65 MCMKVREAKEMPIIMLSAKTQDMDKILGLTTGADDYVTKPFNPLELIARIKSQLRRYMKM 124 Query: 122 IGKADFNS-LLLIKDLVIDKSKHSVKVKGIDIPVTPLEFAILVLLASHPGQVFSSEHIYE 180 G A N L I ++ I+ S H V V+G ++ +TP EF+IL LLA +PG VFS+E IYE Sbjct: 125 NGFAIQNEDELEIGEMKINISTHKVIVEGEEVKLTPREFSILELLARNPGMVFSAEQIYE 184 Query: 181 SVWKEPFGNSDNTVMVHIRNLREKLDDDP 209 VW E SDNTVMVHIR +REK++++P Sbjct: 185 KVWNERSFQSDNTVMVHIRKVREKIEENP 213 >ref|NP_842823.1| DNA-binding response regulator [Bacillus anthracis str. Ames] gb|AAP24309.1| DNA-binding response regulator [Bacillus anthracis str. Ames] Length = 233 Score = 247 bits (630), Expect = 1e-64, Method: Compositional matrix adjust. Identities = 121/209 (57%), Positives = 161/209 (77%), Gaps = 2/209 (0%) Query: 3 TVLVVDDDSEIRDIIHVYLRNEGYHVIEAADGEEALKVIESTPVQLVILDVMMPRMDGIK 62 T+LVVDD+ EIR++I +YL+NEGY V++A DGEE L+++E V LV+LD+MMP++DGI Sbjct: 5 TILVVDDEKEIRNLITIYLKNEGYKVLQAGDGEEGLRLLEENEVHLVVLDIMMPKVDGIH 64 Query: 63 TCLKIREVSDTPLIMLSAKEEDIDKITGLTTGADDYMTKPFNPLELLARVKAQFRR-QAL 121 C+KIRE + P+IMLSAK +D+DKI GLTTGADDY+TKPFNPLEL+AR+K+Q RR + Sbjct: 65 MCMKIREEKEMPIIMLSAKTQDMDKILGLTTGADDYVTKPFNPLELIARIKSQLRRYMKM 124 Query: 122 IGKADFNS-LLLIKDLVIDKSKHSVKVKGIDIPVTPLEFAILVLLASHPGQVFSSEHIYE 180 G A N L I ++ I+ S H V V+G ++ +TP EF+IL LLA +PG VFS+E IYE Sbjct: 125 NGFAIQNEDELEIGEMKINISTHKVIVEGEEVKLTPREFSILELLARNPGMVFSAEQIYE 184 Query: 181 SVWKEPFGNSDNTVMVHIRNLREKLDDDP 209 VW E SDNTVMVHIR +REK++++P Sbjct: 185 KVWNERSFQSDNTVMVHIRKVREKIEENP 213 >ref|NP_347203.1| Response regulator (REC, HTH domains) [Clostridium acetobutylicum] pir||D96969 response regulator (REC, HTH domains) [imported] - Clostridium acetobutylicum gb|AAK78543.1| Response regulator (REC, HTH domains) [Clostridium acetobutylicum] Length = 233 Score = 242 bits (618), Expect = 4e-63, Method: Compositional matrix adjust. Identities = 120/209 (57%), Positives = 160/209 (76%), Gaps = 2/209 (0%) Query: 3 TVLVVDDDSEIRDIIHVYLRNEGYHVIEAADGEEALKVIESTPVQLVILDVMMPRMDGIK 62 TVLVVDD+ EIRD+I +YL NEG++VI+A +G EAL++++ T VQLV+LD+MMP+MDGI Sbjct: 5 TVLVVDDEKEIRDLIGIYLNNEGFNVIKAENGVEALEILKDTEVQLVLLDIMMPKMDGIT 64 Query: 63 TCLKIREVSDTPLIMLSAKEEDIDKITGLTTGADDYMTKPFNPLELLARVKAQFRRQALI 122 TC+KIRE +TP+IMLSAK ED+DKI GLTTGADDY++KPFNPLEL+ARVK+Q RR + Sbjct: 65 TCMKIREDKNTPIIMLSAKGEDMDKILGLTTGADDYISKPFNPLELIARVKSQIRRYTKL 124 Query: 123 GKA-DFNSL-LLIKDLVIDKSKHSVKVKGIDIPVTPLEFAILVLLASHPGQVFSSEHIYE 180 + NS + + ++ I+ H VK+ + +T EF ILVLL+ + G VFS+E IYE Sbjct: 125 NSTYESNSANIEVGEITINTDTHEVKIGDRTVSLTKREFDILVLLSRNKGVVFSTEKIYE 184 Query: 181 SVWKEPFGNSDNTVMVHIRNLREKLDDDP 209 SVW E F + NTVMVHIR +REK++ +P Sbjct: 185 SVWHEEFYDCHNTVMVHIRKIREKIEKNP 213 >ref|NP_781466.1| two-component response regulator [Clostridium tetani E88] gb|AAO35403.1| two-component response regulator [Clostridium tetani E88] Length = 233 Score = 241 bits (616), Expect = 7e-63, Method: Compositional matrix adjust. Identities = 121/211 (57%), Positives = 155/211 (73%), Gaps = 3/211 (1%) Query: 2 NTVLVVDDDSEIRDIIHVYLRNEGYHVIEAADGEEALKVIESTPVQLVILDVMMPRMDGI 61 NT++VVDD+ EIRD+I +YL NEGY VI+A +G +AL+++E V L+ILD+MMP MDGI Sbjct: 4 NTIIVVDDEKEIRDLICIYLENEGYRVIKAENGIKALELLEKEKVDLIILDIMMPNMDGI 63 Query: 62 KTCLKIREVSDTPLIMLSAKEEDIDKITGLTTGADDYMTKPFNPLELLARVKAQFRRQAL 121 + C KIRE + P+IMLSAK ED+DKI GLT GADDYMTKPFNPLEL+ARVK+Q RR Sbjct: 64 EACTKIREEKNMPIIMLSAKTEDMDKIWGLTAGADDYMTKPFNPLELIARVKSQLRRYKK 123 Query: 122 IGKADF---NSLLLIKDLVIDKSKHSVKVKGIDIPVTPLEFAILVLLASHPGQVFSSEHI 178 + + ++ I +L I+ + H V+V + +TP EF IL LLA + G VFS E I Sbjct: 124 FNVQNGYINDDIIEIDELTINTATHEVQVGEKKVRLTPREFDILELLARNKGIVFSIEKI 183 Query: 179 YESVWKEPFGNSDNTVMVHIRNLREKLDDDP 209 YE VWKE F SDNTVMVHIR LREK++++P Sbjct: 184 YERVWKEEFFKSDNTVMVHIRKLREKIEENP 214 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 0.138 0.389 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: 304,671,374 Number of extensions: 11649917 Number of successful extensions: 47705 Number of sequences better than 1.0e-05: 5764 Number of HSP's gapped: 43331 Number of HSP's successfully gapped: 5835 Length of query: 216 Length of database: 757,237,578 Length adjustment: 121 Effective length of query: 95 Effective length of database: 428,710,599 Effective search space: 40727506905 Effective search space used: 40727506905 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 (21.7 bits) S2: 123 (52.0 bits)