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= 0407.0017.p (219 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_348133.1| Response regulator (CheY-like receiver domain a... 226 4e-58 ref|ZP_00019778.1| hypothetical protein [Chloroflexus aurantiacus] 182 3e-45 ref|ZP_00062053.1| COG0745: Response regulators consisting of a ... 182 5e-45 ref|NP_781768.1| transcriptional regulatory protein [Clostridium... 182 7e-45 ref|NP_348326.1| Response regulator (CheY-like receiver domain a... 180 2e-44 >ref|NP_348133.1| Response regulator (CheY-like receiver domain and a HTH) [Clostridium acetobutylicum] pir||F97085 response regulator (CheY-like receiver domain and a HTH) [imported] - Clostridium acetobutylicum gb|AAC12853.1| PhoP [Clostridium acetobutylicum] gb|AAK79473.1| Response regulator (CheY-like receiver domain and a HTH) [Clostridium acetobutylicum] Length = 217 Score = 226 bits (575), Expect = 4e-58, Method: Compositional matrix adjust. Identities = 102/216 (47%), Positives = 158/216 (73%) Query: 1 MATILVVEDEKPISDLITMNLKLVGHRFFKAFDGEQMQQILEQEKIDLILLDVMLPVMDG 60 M IL++ED+ IS+LI +NL + G+ ++GE ++E DLILLD+MLP +DG Sbjct: 1 MINILIIEDDAAISNLIKLNLNMAGYISEAVYNGEAALDLIEGRNFDLILLDIMLPKIDG 60 Query: 61 FEWMRRRRHPGVPVIFITAKDSLADRITGFELGADDYIIKPFEILELLARINAVLRRSVK 120 F ++ ++ G+PVIF+TAK S+ D+++G +GADDYI KPF+ +ELLARI+ VLR K Sbjct: 61 FSLFQKIKYKGIPVIFLTAKTSVTDKVSGLRMGADDYITKPFDGMELLARIDNVLRHYDK 120 Query: 121 EEEGFLAGDVEVRLQARKIYKNGQLVELTAREFELLEVLIQNRNIALSREKLLELAWGYE 180 E+ D+EV+L+ ++ KNGQ+++LT +EFEL LI+N+NI L+RE++ E WGY+ Sbjct: 121 NEKSLKFEDIEVQLEEMRLKKNGQIIDLTVKEFELAAYLIKNKNIVLTRERIAEELWGYD 180 Query: 181 FEGDTRTVDVHIRQLRKKLGWEERINTVYKLGYRLE 216 + GD RT+D +I+++RKKL W++++ T++K+GYRLE Sbjct: 181 YLGDCRTIDNYIQKIRKKLDWKDKVKTIFKMGYRLE 216 >ref|ZP_00019778.1| hypothetical protein [Chloroflexus aurantiacus] Length = 276 Score = 182 bits (463), Expect = 3e-45, Method: Compositional matrix adjust. Identities = 101/226 (44%), Positives = 144/226 (63%), Gaps = 10/226 (4%) Query: 1 MATILVVEDEKPISDLITMNLKLVGHRFFKAFDGEQMQQILEQEKIDLILLDVMLPVMDG 60 MAT+L+VEDE +++ + NL+ G+ A DG Q +++ DL++LD+MLP +DG Sbjct: 45 MATVLIVEDETTLAETLRYNLEREGYSVIVAGDGVQGLDRARRDQPDLVVLDIMLPRLDG 104 Query: 61 FEWMR-RRRHPGVPVIFITAKDSLADRITGFELGADDYIIKPFEILELLARINAVLRRSV 119 F R R+ VP+I +TA+ DRI G ELGADDY+ KPF + E LAR+ A+LRRS Sbjct: 105 FSVCRILRQESDVPIIMLTARQDEVDRIAGLELGADDYMGKPFSLGEFLARVRAILRRSE 164 Query: 120 KEEEGFL-----AGDVEVRLQARKIYKNGQLVELTAREFELLEVLIQNRNIALSREKLLE 174 ++ + AG + V +R+ ++NGQ + L +EF+LL L++NR IAL+R+ LLE Sbjct: 165 RQPHSIVREVLEAGAIRVDTSSRRAWRNGQELNLPQKEFDLLTCLMRNRGIALTRDLLLE 224 Query: 175 LAWGYEFEGDTRTVDVHIRQLRKKL----GWEERINTVYKLGYRLE 216 WG +F GD+RTVDVHIR LR+K+ G I TV +GYR E Sbjct: 225 RVWGQDFIGDSRTVDVHIRWLREKIEPDPGKPVYIQTVRGVGYRFE 270 >ref|ZP_00062053.1| COG0745: Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Clostridium thermocellum ATCC 27405] Length = 228 Score = 182 bits (462), Expect = 5e-45, Method: Compositional matrix adjust. Identities = 97/220 (44%), Positives = 144/220 (65%), Gaps = 8/220 (3%) Query: 2 ATILVVEDEKPISDLITMNLKLVGHRFFKAFDGEQMQQILEQEKIDLILLDVMLPVMDGF 61 A IL+VEDE I + L G +A G++ +++E EK ++ILLD+MLP +DGF Sbjct: 3 AKILIVEDENDIGSFMVRTLNRKGFNAIRAETGKEALRLVELEKPEVILLDIMLPDIDGF 62 Query: 62 EWMRR--RRHPGVPVIFITAKDSLADRITGFELGADDYIIKPFEILELLARINAVLRRSV 119 E +R R+HP + +I +TA+ D+I G ELGADDYIIKPF +EL+ARI AV+RR+ Sbjct: 63 EICKRVSRQHPEISIIMVTARGEDVDKIRGLELGADDYIIKPFNPMELIARIKAVIRRTN 122 Query: 120 KEEEG--FLAGDVEVRLQARKIYKNGQLVELTAREFELLEVLIQNRNIALSREKLLELAW 177 K + + G + + R++YKNG +++LT REF LL+V + N N AL+R+++L W Sbjct: 123 KPDNSNEVVIGPLRIDYNCRQVYKNGVVLDLTPREFCLLKVFVNNLNKALTRDEILNWVW 182 Query: 178 GYEFEGDTRTVDVHIRQLRKKL----GWEERINTVYKLGY 213 G ++ GDT+TVDVH+R+LR+K+ + I TV+ GY Sbjct: 183 GEDYIGDTKTVDVHVRRLREKIEDDPSHPKYIETVWGKGY 222 >ref|NP_781768.1| transcriptional regulatory protein [Clostridium tetani E88] gb|AAO35705.1| transcriptional regulatory protein [Clostridium tetani E88] Length = 232 Score = 182 bits (461), Expect = 7e-45, Method: Compositional matrix adjust. Identities = 101/222 (45%), Positives = 150/222 (67%), Gaps = 10/222 (4%) Query: 4 ILVVEDEKPISDLITMNLKLVGHRFFKAFDGEQMQQILEQEKIDLILLDVMLPVMDGFEW 63 IL+V+DE+ I +L+ NL+ G++ F A +G++ +I +++K LILLDVMLP MDG++ Sbjct: 6 ILIVDDEEHIRELLRYNLEKEGYKIFCAENGKEALEIAKEKKPTLILLDVMLPQMDGYDV 65 Query: 64 MRRRRHPG----VPVIFITAKDSLADRITGFELGADDYIIKPFEILELLARINAVLRRSV 119 + R P+I ITAK D++ G ELGADDYI KPF I EL+ARI AVLRR++ Sbjct: 66 CKEIRKDNSISTTPIIMITAKGEELDKVLGLELGADDYITKPFSIRELIARIKAVLRRTL 125 Query: 120 --KEEEGFLAGDVEVRLQARKIYKNGQLVELTAREFELLEVLIQNRNIALSREKLLELAW 177 EE F +++ + ++ K+G+ V+LT +EF+LLE+LI+N+ L+RE LL+ W Sbjct: 126 LKSTEEPFKFEGLKMDFEKHEVMKDGEKVDLTLKEFQLLEILIKNKGRVLTREYLLDKIW 185 Query: 178 GYEFEGDTRTVDVHIRQLRKKLGWEER----INTVYKLGYRL 215 GYE+ G+TRTVDVHIR LR+K+ +++ I T+ +GYR Sbjct: 186 GYEYIGETRTVDVHIRHLRQKVEDDDKNPKYIETIRGVGYRF 227 >ref|NP_348326.1| Response regulator (CheY-like receiver domain and DNA-binding HTH domain) [Clostridium acetobutylicum] pir||G97109 response regulator (CheY-like receiver domain and DNA-binding HTH domain) [imported] - Clostridium acetobutylicum gb|AAK79666.1| Response regulator (CheY-like receiver domain and DNA-binding HTH domain) [Clostridium acetobutylicum] Length = 232 Score = 180 bits (457), Expect = 2e-44, Method: Compositional matrix adjust. Identities = 101/222 (45%), Positives = 146/222 (65%), Gaps = 10/222 (4%) Query: 4 ILVVEDEKPISDLITMNLKLVGHRFFKAFDGEQMQQILEQEKIDLILLDVMLPVMDGFEW 63 ILVV+DE+ I LI NL+ G++ A DG + + + E L+LLD+MLPVMDG++ Sbjct: 6 ILVVDDEEHIVKLIKFNLENNGYKVITAADGGEALEKAKGEVPQLVLLDLMLPVMDGYDV 65 Query: 64 MRRRRH----PGVPVIFITAKDSLADRITGFELGADDYIIKPFEILELLARINAVLRRSV 119 R R +PVI ITAK D+I G ELGADDYI KPF + EL+AR+ AVLRR+ Sbjct: 66 CREIRRDQSISNMPVIMITAKGEELDKILGLELGADDYITKPFSVRELVARVKAVLRRTK 125 Query: 120 KE--EEGFLAGDVEVRLQARKIYKNGQLVELTAREFELLEVLIQNRNIALSREKLLELAW 177 + ++ F G++++ Q + K G+ VELT +EFELL+VLI+N+ ++R+ LL+ W Sbjct: 126 VDYIDKTFKFGNIQIDFQRHNVTKEGEKVELTLKEFELLQVLIKNKGRVMTRDFLLDKIW 185 Query: 178 GYEFEGDTRTVDVHIRQLRKKLGWEER----INTVYKLGYRL 215 GYE+ G+TRTVDVH+R LR+K+ +++ I T+ +GYR Sbjct: 186 GYEYIGETRTVDVHVRHLRQKIEDDDKNPKYIETIRGIGYRF 227 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 0.324 0.142 0.403 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: 309,745,302 Number of extensions: 12238781 Number of successful extensions: 49158 Number of sequences better than 1.0e-05: 4850 Number of HSP's gapped: 44400 Number of HSP's successfully gapped: 4871 Length of query: 219 Length of database: 757,237,578 Length adjustment: 121 Effective length of query: 98 Effective length of database: 428,710,599 Effective search space: 42013638702 Effective search space used: 42013638702 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 123 (52.0 bits)