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= 0286.0003.p (240 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 pir||I40084 gtcR protein - Bacillus brevis >gi|468745|emb|CAA552... 283 3e-75 ref|NP_687727.1| DNA-binding response regulator [Streptococcus a... 215 7e-55 ref|NP_781509.1| transcriptional regulatory protein [Clostridium... 214 1e-54 ref|NP_562109.1| two-component response regulator [Clostridium p... 206 4e-52 ref|NP_563280.1| two-component response regulator [Clostridium p... 201 1e-50 >pir||I40084 gtcR protein - Bacillus brevis emb|CAA55264.1| gtcR [Brevibacillus brevis] Length = 242 Score = 283 bits (723), Expect = 3e-75, Method: Compositional matrix adjust. Identities = 138/238 (57%), Positives = 171/238 (71%), Gaps = 2/238 (0%) Query: 3 VQRTVLLVDDNRXXXXXXXXXXXXXGLRILEAYNGAQAWTCIQQESIDLAVLDIMMPELN 62 + +T+L+ DD RI+EAY+G QAW I+Q +DLA++DIMMP L+ Sbjct: 1 MSKTILIADDEPEIIELLKLFLERESYRIIEAYDGEQAWNYIRQHPVDLAIIDIMMPALD 60 Query: 63 GVQLLQLLRAEYKLPVILLSAKNQDSDKILGLRLGADDFISKPFNPLEVVARIHAMLRRT 122 G QL++ L EYKLPVI+LSAKN+DSDKILGL LGADDFISKPFNPLE VARI A LRR Sbjct: 61 GFQLIKRLTNEYKLPVIILSAKNRDSDKILGLGLGADDFISKPFNPLEAVARIQAQLRRA 120 Query: 123 YDFNEPAEPVQDTLGHTSIGELMLDHTDCMLYKAGREIPLTAIEYKLLSTLMNAP-GRIF 181 ++FNEP E T T++G L L HT C++Y+ +T +EY+LL+T M IF Sbjct: 121 FEFNEPEEKAIST-QSTTVGRLTLLHTACVVYRGDETYSVTPLEYRLLNTFMQCSRTSIF 179 Query: 182 TKKQLFEQVWSEHYYEDANTIMVHISRLRDKVEETPKQPEYIRTIRGLGYKFAKKDDF 239 TK+QLFEQ WSE Y+ED NTIMV ISRLRDK+E+ P+QP YI+T+RGLGYKFA KDDF Sbjct: 180 TKQQLFEQAWSETYWEDDNTIMVQISRLRDKIEDQPRQPVYIKTVRGLGYKFASKDDF 237 >ref|NP_687727.1| DNA-binding response regulator [Streptococcus agalactiae 2603V/R] ref|NP_735135.1| Unknown [Streptococcus agalactiae NEM316] gb|AAM99599.1| DNA-binding response regulator [Streptococcus agalactiae 2603V/R] emb|CAD46329.1| Unknown [Streptococcus agalactiae NEM316] Length = 234 Score = 215 bits (547), Expect = 7e-55, Method: Compositional matrix adjust. Identities = 106/231 (45%), Positives = 156/231 (67%), Gaps = 3/231 (1%) Query: 5 RTVLLVDDNRXXXXXXXXXXXXXGLRILEAYNGAQAWTCIQQESIDLAVLDIMMPELNGV 64 RTVL+V + +++ A +G +A++ QQ IDLA++DI +P+++G Sbjct: 2 RTVLVVQGDDETIELLRSYLEGALYKVVMASDGEEAFSLFQQHQIDLAIIDITLPKIDGY 61 Query: 65 QLLQLLRAEYKLPVILLSAKNQDSDKILGLRLGADDFISKPFNPLEVVARIHAMLRRTYD 124 +L +L+R + ++P+I+L+AK D D+ILGL +GADDFI+KPFN LEV+ARI++ LRR Y+ Sbjct: 62 ELTRLIRQDSQIPIIMLAAKTTDMDRILGLNIGADDFITKPFNSLEVLARINSQLRRYYE 121 Query: 125 FNEPAEPVQDTLGHTSIGELMLDHTDCMLYKAGREIPLTAIEYKLLSTLMNAPGRIFTKK 184 FN A+P + IGEL LD L K G+ I LTA E+K+L LM++PGRI+TK Sbjct: 122 FNSLAKPKNQFI---KIGELELDEEHVELTKNGKHIKLTATEFKILHILMSSPGRIYTKT 178 Query: 185 QLFEQVWSEHYYEDANTIMVHISRLRDKVEETPKQPEYIRTIRGLGYKFAK 235 QL+E++ + D TIMVHIS +RDK+E+ K P+YI+T+RG+GYK K Sbjct: 179 QLYEKINGRYLEGDETTIMVHISNIRDKIEDDSKYPKYIKTLRGVGYKIEK 229 >ref|NP_781509.1| transcriptional regulatory protein [Clostridium tetani E88] gb|AAO35446.1| transcriptional regulatory protein [Clostridium tetani E88] Length = 230 Score = 214 bits (546), Expect = 1e-54, Method: Compositional matrix adjust. Identities = 100/205 (48%), Positives = 140/205 (68%), Gaps = 3/205 (1%) Query: 31 ILEAYNGAQAWTCIQQESIDLAVLDIMMPELNGVQLLQLLRAEYKLPVILLSAKNQDSDK 90 + EA NG +A + IDLA+LDIMMP L+G ++L+ +R + +PVI ++A+ +D +K Sbjct: 27 VYEACNGIEALDVFNKNDIDLAILDIMMPGLDGFKVLKKIREKSNIPVIFITARGEDENK 86 Query: 91 ILGLRLGADDFISKPFNPLEVVARIHAMLRRTYDFNEPAEPVQDTLGHTSIGELMLDHTD 150 ILGL LGADD+I KPF+P+EVVAR+ A+ RR +++ + + GEL L+ Sbjct: 87 ILGLGLGADDYIVKPFSPMEVVARVKALFRRVGTYSQNS---SKDINKIENGELSLNKDS 143 Query: 151 CMLYKAGREIPLTAIEYKLLSTLMNAPGRIFTKKQLFEQVWSEHYYEDANTIMVHISRLR 210 C YK G I L A EYK++ LM GR+ TKKQ++E+VW YY DANTIMVHIS +R Sbjct: 144 CTFYKNGNPIELNAKEYKIMEFLMENKGRVHTKKQIYEKVWGYEYYGDANTIMVHISHIR 203 Query: 211 DKVEETPKQPEYIRTIRGLGYKFAK 235 DK+E+ PK+P Y++TIRG+GYK K Sbjct: 204 DKIEDNPKEPIYLKTIRGIGYKLEK 228 >ref|NP_562109.1| two-component response regulator [Clostridium perfringens] dbj|BAB80899.1| two-component response regulator [Clostridium perfringens str. 13] Length = 225 Score = 206 bits (523), Expect = 4e-52, Method: Compositional matrix adjust. Identities = 104/230 (45%), Positives = 146/230 (63%), Gaps = 7/230 (3%) Query: 6 TVLLVDDNRXXXXXXXXXXXXXGLRILEAYNGAQAWTCIQQESIDLAVLDIMMPELNGVQ 65 +L+ +D + G + +A NG +A +++E I LA+LD+MM ++G Sbjct: 2 NILIAEDEQDIRNLLELHLLKEGYTVFKAVNGLEALDILKKEHIHLALLDVMMDGIDGFN 61 Query: 66 LLQLLRAEYKLPVILLSAKNQDSDKILGLRLGADDFISKPFNPLEVVARIHAMLRRTYDF 125 LL++LR ++PVI L+AK +D DKILGL LGADD++ KPF P+E++ARI + LRR Y + Sbjct: 62 LLKMLREWSQIPVIFLTAKIEDDDKILGLGLGADDYVIKPFKPVELMARIKSNLRRCYKY 121 Query: 126 NEPAEPVQDTLGHTSIGELMLDHTDCMLYKAGREIPLTAIEYKLLSTLMNAPGRIFTKKQ 185 + E ++ IG L L C + K G + L A E+K+L LM+ GR+FTKKQ Sbjct: 122 SGENELIK-------IGNLELSKEGCTVKKDGEIVTLNAKEFKILEMLMSNIGRVFTKKQ 174 Query: 186 LFEQVWSEHYYEDANTIMVHISRLRDKVEETPKQPEYIRTIRGLGYKFAK 235 ++E VW E Y D NTIMVHIS LRDK+EE PK P I+TIRG+GY+F K Sbjct: 175 IYENVWQEEYLGDDNTIMVHISHLRDKIEEDPKNPCKIKTIRGIGYRFEK 224 >ref|NP_563280.1| two-component response regulator [Clostridium perfringens] dbj|BAB82070.1| two-component response regulator [Clostridium perfringens str. 13] Length = 232 Score = 201 bits (510), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 102/230 (44%), Positives = 151/230 (65%), Gaps = 4/230 (1%) Query: 6 TVLLVDDNRXXXXXXXXXXXXXGLRILEAYNGAQAWTCIQQESIDLAVLDIMMPELNGVQ 65 VL+VDD + G+ +++A +G +A + +E I L VLDIMMP+L+G++ Sbjct: 7 NVLVVDDEKEIRDAIDIYLRGEGINVIKAGDGFEALEILDKEDIHLVVLDIMMPKLDGMR 66 Query: 66 LLQLLRAEYKLPVILLSAKNQDSDKILGLRLGADDFISKPFNPLEVVARIHAMLRRTYDF 125 +R +P+ILLSAK++DSDKILGL +GADD+++KPFN LE+VAR+ + LRR YD+ Sbjct: 67 TCLKIRESRNIPIILLSAKSEDSDKILGLNIGADDYVTKPFNHLELVARVKSQLRR-YDY 125 Query: 126 NEPAEPVQDTLGHTSIGELMLDHTDCMLYKAGREIPLTAIEYKLLSTLMNAPGRIFTKKQ 185 E QD + I +L +D + + G I LTA EYK+L+ L + PGRIF+ K+ Sbjct: 126 PLNRENTQDLI---VIKDLTIDTVNKQVSLRGENIKLTATEYKILTLLASHPGRIFSIKE 182 Query: 186 LFEQVWSEHYYEDANTIMVHISRLRDKVEETPKQPEYIRTIRGLGYKFAK 235 ++E+VW E +Y+ NT+ VHI R+R+K+E K+PEYI+ + GLGYK K Sbjct: 183 IYERVWEEPFYKSENTVTVHIRRMREKIEINSKEPEYIKVVWGLGYKIDK 232 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 0.321 0.139 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: 329,290,323 Number of extensions: 12696745 Number of successful extensions: 42350 Number of sequences better than 1.0e-05: 4077 Number of HSP's gapped: 39480 Number of HSP's successfully gapped: 4095 Length of query: 240 Length of database: 757,237,578 Length adjustment: 122 Effective length of query: 118 Effective length of database: 425,995,500 Effective search space: 50267469000 Effective search space used: 50267469000 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: 124 (52.4 bits)