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= 0342.0014.p (291 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B1DLK2.1 B1DLK2_9BACL Transcriptional regulator, LysR family 464 e-129 B1DA88.1 B1DA88_9BACL Transcriptional regulator, LysR family 281 5e-74 B3KEH4.1 B3KEH4_9BACI LysR substrate-binding 273 2e-71 A3IEU5.1 A3IEU5_9BACI Transcriptional regulatory protein 257 8e-67 B0TCS4.1 B0TCS4_HELMI Transcriptional regulator, lysr family 256 1e-66 >B1DLK2.1 B1DLK2_9BACL Transcriptional regulator, LysR family Length = 292 Score = 464 bits (1195), Expect = e-129, Method: Compositional matrix adjust. Identities = 220/290 (75%), Positives = 252/290 (86%) Query: 2 NNFELYKVFYWAAKTGSLTQAAKSLYITQPSVSHAIKQLEDSFGLTLFTRNSKGVVLTPE 61 NN+ELYKVFYWAAKTGSLTQAAK LY+TQPSVSHAIKQLE+SFGLTLF RNSKGV LT E Sbjct: 3 NNYELYKVFYWAAKTGSLTQAAKVLYLTQPSVSHAIKQLEESFGLTLFFRNSKGVSLTQE 62 Query: 62 GATLYSYIEQSHILITQAEKKMAELKNLDNGELRIGGSDSLFKHYLLPFIEVFHQRYPGI 121 G LYSYIEQS ILI AE+KM LKNLDNGELRIGGSDSLFKHYLLP++E F ++YPGI Sbjct: 63 GTILYSYIEQSQILINTAEEKMIALKNLDNGELRIGGSDSLFKHYLLPYLEDFIKKYPGI 122 Query: 122 RLHLIHGTTPEVISYLKEGLVDLGVVRMPITDPQLEVRQGLQLQDCFIAGSHYAGLNQKV 181 +LHL HGTTPEVI++LKEG +DLGVVRMPI DPQLEV++ QLQDCF+AG+ Y L ++ Sbjct: 123 KLHLNHGTTPEVITFLKEGKIDLGVVRMPIVDPQLEVKESFQLQDCFVAGAVYNDLKNRI 182 Query: 182 LSIEELLQYPIILFSRSSRARMAITDLFRGYGYELKPEFEVGSVGLLIEFARKGLGISFV 241 LS+ LLQYPIILFSR+SRARM IT++F YGY +KPE EVGSV LLIEFAR+GLGIS+V Sbjct: 183 LSLNTLLQYPIILFSRNSRARMTITEIFHSYGYMIKPEIEVGSVDLLIEFARRGLGISYV 242 Query: 242 TREFVSKELEEGSLFEIQLDVQLPPAQVGMMTMRNMPLTTAASKFIELTK 291 TREFV+KEL EGSLFEIQLD+ LPP+ +GMM MRNMPL++AA +FIE K Sbjct: 243 TREFVAKELAEGSLFEIQLDIPLPPSHIGMMNMRNMPLSSAAKRFIEQIK 292 >B1DA88.1 B1DA88_9BACL Transcriptional regulator, LysR family Length = 293 Score = 281 bits (719), Expect = 5e-74, Method: Compositional matrix adjust. Identities = 131/288 (45%), Positives = 193/288 (67%), Gaps = 1/288 (0%) Query: 3 NFELYKVFYWAAKTGSLTQAAKSLYITQPSVSHAIKQLEDSFGLTLFTRNSKGVVLTPEG 62 N E Y+VFYW AKTGSL++AA+ L+ITQP+VSH +KQLE + G LF R +GV LT EG Sbjct: 4 NLEWYRVFYWIAKTGSLSKAAEQLHITQPAVSHTVKQLESTLGGQLFFRTPRGVTLTKEG 63 Query: 63 ATLYSYIEQSHILITQAEKKMAELKNLDNGELRIGGSDSLFKHYLLPFIEVFHQRYPGIR 122 L YIEQ+ + EK +AE+ NL GE+ IG SD+L KHYLLP++E FH+++PG+R Sbjct: 64 TVLLQYIEQAFQSVQIGEKAIAEMNNLHTGEIAIGASDTLCKHYLLPYLEQFHEQHPGVR 123 Query: 123 LHLIHGTTPEVISYLKEGLVDLGVVRMPITDPQLEVRQGLQLQDCFIAGSHYAGLN-QKV 181 + + + TTPE ++ LKEG +D G+V +P++D Q+ + + LQDCF+ G Y L+ Sbjct: 124 VRVTNRTTPETLALLKEGKIDFGIVSLPVSDKQVAISESTLLQDCFVGGKGYQSLSGGPP 183 Query: 182 LSIEELLQYPIILFSRSSRARMAITDLFRGYGYELKPEFEVGSVGLLIEFARKGLGISFV 241 L++E+L YP++L + S R + D +G PEFE+GSV LL++FA+ G G++FV Sbjct: 184 LTLEQLNAYPLLLLEKGSSTRRYLDDYAASHGSTFTPEFELGSVDLLVQFAKSGFGLAFV 243 Query: 242 TREFVSKELEEGSLFEIQLDVQLPPAQVGMMTMRNMPLTTAASKFIEL 289 R +V++EL+ G L EI L P +G+ T+R +P+++A F+ L Sbjct: 244 IRNYVAEELQRGELVEIPLTETFPGRPIGIATLRGIPMSSATKSFLAL 291 >B3KEH4.1 B3KEH4_9BACI LysR substrate-binding Length = 295 Score = 273 bits (697), Expect = 2e-71, Method: Compositional matrix adjust. Identities = 131/290 (45%), Positives = 189/290 (65%), Gaps = 4/290 (1%) Query: 3 NFELYKVFYWAAKTGSLTQAAKSLYITQPSVSHAIKQLEDSFGLTLFTRNSKGVVLTPEG 62 N E Y+VFYW A+ GSL++AA L+ITQP+VSH +K LE++ G LF R +KGV LT EG Sbjct: 5 NMEWYRVFYWTARLGSLSRAADHLHITQPAVSHTVKHLEETIGGPLFFRTTKGVKLTSEG 64 Query: 63 ATLYSYIEQSHILITQAEKKMAELKNLDNGELRIGGSDSLFKHYLLPFIEVFHQRYPGIR 122 L+ YIEQ+ LI EK +A++ NL +GE+ IG SD+L K+YLLP +E FH YP IR Sbjct: 65 DVLFRYIEQAFGLIEIGEKAIADMHNLHSGEINIGASDTLCKYYLLPHLEYFHAAYPDIR 124 Query: 123 LHLIHGTTPEVISYLKEGLVDLGVVRMPITDPQLEVRQGLQLQDCFIAGSHY---AGLNQ 179 + + + TTPE +S LKEG +D G+V +P +D Q++ R + DC +AG Y AGL Sbjct: 125 IRITNRTTPETLSLLKEGKIDFGIVHLPASDKQIDFRPSSPIHDCLVAGRSYAERAGLPN 184 Query: 180 KVLSIEELLQYPIILFSRSSRARMAITDLFRGYGYELKPEFEVGSVGLLIEFARKGLGIS 239 LS+ ++ YP+++ RM + G +LKPEFE+GS+ LL++FAR G G++ Sbjct: 185 P-LSLHDIGNYPLLMLETGGSTRMYVDQYAELQGVKLKPEFELGSIELLVQFARSGFGLA 243 Query: 240 FVTREFVSKELEEGSLFEIQLDVQLPPAQVGMMTMRNMPLTTAASKFIEL 289 FV R++ E++ G L E+ LD +P +G+ T+R +PL+ AA F+ L Sbjct: 244 FVIRDYAKDEMQTGQLIEVPLDPPIPERSIGIATLRGIPLSAAAKSFLAL 293 >A3IEU5.1 A3IEU5_9BACI Transcriptional regulatory protein Length = 305 Score = 257 bits (657), Expect = 8e-67, Method: Compositional matrix adjust. Identities = 120/285 (42%), Positives = 182/285 (63%) Query: 5 ELYKVFYWAAKTGSLTQAAKSLYITQPSVSHAIKQLEDSFGLTLFTRNSKGVVLTPEGAT 64 +LY+VF AK S ++AAK LY+TQP+VS A+ QLE G LF R KGV LT EG+ Sbjct: 6 DLYRVFSVVAKNNSFSRAAKDLYMTQPAVSQAMMQLEKELGTRLFNRTPKGVTLTTEGSL 65 Query: 65 LYSYIEQSHILITQAEKKMAELKNLDNGELRIGGSDSLFKHYLLPFIEVFHQRYPGIRLH 124 L+ Y + L+ E+K+ E KNL G+L+IG D++ + +L+P++E FH YP I+L Sbjct: 66 LFEYTNSALGLLDAGEEKLLEFKNLTTGQLKIGVGDTISRFFLMPYLEAFHTMYPNIKLE 125 Query: 125 LIHGTTPEVISYLKEGLVDLGVVRMPITDPQLEVRQGLQLQDCFIAGSHYAGLNQKVLSI 184 +++GTT E+ +++K G VD+G PI D L++ +QD F+ G Y L K LS Sbjct: 126 MLNGTTSEICNFIKSGEVDIGFCNFPIEDSTLQLTVCTDIQDIFVCGEKYKTLASKSLSY 185 Query: 185 EELLQYPIILFSRSSRARMAITDLFRGYGYELKPEFEVGSVGLLIEFARKGLGISFVTRE 244 E+LL++P+I + S +R + D G ++PEFE+GS L++EFAR LGI+ VT+E Sbjct: 186 EDLLKFPLIFLEKKSNSRKYVEDFLLSNGVHIEPEFELGSHDLVLEFARSNLGIACVTKE 245 Query: 245 FVSKELEEGSLFEIQLDVQLPPAQVGMMTMRNMPLTTAASKFIEL 289 F L G L+E+ L+ ++PP +GM ++ +PL+ AA+KF+E+ Sbjct: 246 FSKDYLHRGLLYELSLNGKIPPRSIGMCFLKTVPLSRAATKFVEI 290 >B0TCS4.1 B0TCS4_HELMI Transcriptional regulator, lysr family Length = 310 Score = 256 bits (655), Expect = 1e-66, Method: Compositional matrix adjust. Identities = 129/290 (44%), Positives = 183/290 (63%), Gaps = 5/290 (1%) Query: 3 NFELYKVFYWAAKTGSLTQAAKSLYITQPSVSHAIKQLEDSFGLTLFTRNSKGVVLTPEG 62 N ELY+ FY A+ GS+++AA+ LYITQP+VS +I+QLE+ G LF R KGV LT EG Sbjct: 4 NTELYRAFYLVAREGSISKAAEQLYITQPAVSRSIQQLEEKLGCVLFFRTPKGVKLTKEG 63 Query: 63 ATLYSYIEQSHILITQAEKKMAELKNLDNGELRIGGSDSLFKHYLLPFIEVFHQRYPGIR 122 L+ YIEQ+ I EK +A++ L+NGE+ I D++ K+YL P ++ F + YPGIR Sbjct: 64 ELLFPYIEQAFNFIAVGEKTLAQITALENGEITIAAGDTICKNYLPPHLKRFKEAYPGIR 123 Query: 123 LHLIHGTTPEVISYLKEGLVDLGVVRMP-ITDPQ----LEVRQGLQLQDCFIAGSHYAGL 177 +H+ + TP I LK+G VD+G V P + DP L + + LQ+QDCF+ G Y L Sbjct: 124 IHVTNENTPSTIRLLKKGKVDIGFVHAPVVNDPSATALLSIHEVLQIQDCFVVGEKYKEL 183 Query: 178 NQKVLSIEELLQYPIILFSRSSRARMAITDLFRGYGYELKPEFEVGSVGLLIEFARKGLG 237 + S+EEL +YP+IL + S +R+ I + F + ELKPEFE+ LLI FA+ G Sbjct: 184 AARPRSLEELARYPLILLEKGSSSRIYIENFFAQHNIELKPEFELSDFELLIRFAQIDFG 243 Query: 238 ISFVTREFVSKELEEGSLFEIQLDVQLPPAQVGMMTMRNMPLTTAASKFI 287 + V + FV+ EL GSL+EIQ +PP VG+ ++ +PL TAA F+ Sbjct: 244 AACVIKNFVADELARGSLYEIQPLTPIPPRHVGVAHLQTIPLRTAAKAFL 293 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 0.391 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: 1,639,940,116 Number of extensions: 67926402 Number of successful extensions: 198254 Number of sequences better than 1.0e-05: 19788 Number of HSP's gapped: 189207 Number of HSP's successfully gapped: 19789 Length of query: 291 Length of database: 3,060,696,203 Length adjustment: 134 Effective length of query: 157 Effective length of database: 1,798,280,193 Effective search space: 282329990301 Effective search space used: 282329990301 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 (21.8 bits) S2: 130 (54.7 bits)