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= 0225.0032.p (312 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300314076|ref|YP_003778168.1| LysR family transcription regul... 449 e-127 gi|300310159|ref|YP_003774251.1| LysR family transcription regul... 102 3e-23 gi|300309386|ref|YP_003773478.1| LysR family transcription regul... 90 3e-19 gi|300310436|ref|YP_003774528.1| LysR family transcription regul... 89 4e-19 gi|300310637|ref|YP_003774729.1| LysR family transcription regul... 85 6e-18 >gi|300314076|ref|YP_003778168.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 294 Score = 449 bits (1155), Expect = e-127, Method: Compositional matrix adjust. Identities = 218/292 (74%), Positives = 255/292 (87%) Query: 20 MDFTQLRAFIAVAEEGNLTRAADRLHVTQPAVSLQIKLLQERLKLQLFVRTSAGMRLTNE 79 MD TQLRAFI+VA EGNLTRAAD+LH+TQPAVSLQIK LQE L LQLF R++AGM LT E Sbjct: 1 MDLTQLRAFISVAHEGNLTRAADKLHLTQPAVSLQIKGLQESLGLQLFNRSAAGMVLTAE 60 Query: 80 GSKLLPVAERVLNTLQEFHQHADALHTSAGTLSGTLSLGTILDPEFIRLGAFLKLLVERY 139 G+KLLP+AERVL +QE +HA +S G LSG+L++GTILDPEFIRLG FLKLLVER+ Sbjct: 61 GNKLLPLAERVLADVQELRRHAADFRSSTGELSGSLAIGTILDPEFIRLGGFLKLLVERH 120 Query: 140 PQLSTRLQHHMSGSVLQLVKNGELDVGFFLGTPGKGFHSLTLTPFTYNVIAPAGWKNRVA 199 PQLST+L HHMSGSVL ++ G+LDVGFFLG PG+GF S+ LT FTY VIAPAGWKNRV+ Sbjct: 121 PQLSTQLAHHMSGSVLNEIRAGKLDVGFFLGAPGQGFQSMELTSFTYKVIAPAGWKNRVS 180 Query: 200 GKGWKELAQLPWIWTPPESAHHRLLNRVFTQYKLTPNTVALVDQESSMLDLVKSGVGLSL 259 GKGWKEL++LPWIWTPPESAHHRLL+R+F Q+++ P+TVALVDQESSMLDLVKSGVGLSL Sbjct: 181 GKGWKELSRLPWIWTPPESAHHRLLSRIFAQHQVKPHTVALVDQESSMLDLVKSGVGLSL 240 Query: 260 ARESIALSQSHAHGLVIADAVDLSTELSFIALEKRRNEPAISAVFALLQNVW 311 AR SIAL+Q+HAHGLVIADAV+LST+LSFI LEK +++P I AVF LLQ +W Sbjct: 241 ARASIALNQAHAHGLVIADAVELSTQLSFICLEKWQHDPVIQAVFRLLQEIW 292 >gi|300310159|ref|YP_003774251.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 309 Score = 102 bits (255), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 95/308 (30%), Positives = 146/308 (47%), Gaps = 23/308 (7%) Query: 20 MDFTQLRAFIAVAEEGNLTRAADRLHVTQPAVSLQIKLLQERLKLQLFVRTSAGMRLTNE 79 M+F LR F+ V E G++ AA RLH+ QPA+S QIK L+E L LF R+ G LT Sbjct: 1 MEFRHLRYFLGVVEHGSVAEAARRLHIAQPALSRQIKYLEEELGAALFDRSVRGATLTAA 60 Query: 80 GSKLLPVAERVLNTLQEFHQHADALHTSAGTLSGTLSLGTILDPEF---IRLGAFLKLLV 136 G +L+ A R+L LQE Q + A L G L +G + P F R+ L+ Sbjct: 61 GQQLVIDARRMLADLQETRQRVARV---AEGLEGNLRMG--ITPNFGWHPRILGSLRHFH 115 Query: 137 ERYPQLSTRLQHHMSGSVLQLVKNGELDVGFFL--GTPGKGF--HSL-TLTPFTYNVIAP 191 + PQ++ L+ +S L+ +++G+LD GF P F H + F + Sbjct: 116 QAEPQIAVSLEPGLSARQLERIRSGDLDAGFLAWRYPPNDQFLAHEFGEIQVFECRLKLA 175 Query: 192 AGWKNRVAGKGWKELAQL---PWIWTPPESA--HHRLLNRVFTQYKLTPNTVALVDQESS 246 +++A + + LA L P IW P E A + + LN L P L S Sbjct: 176 LPRDSQLARQVPRHLAALHDEPAIWFPAEVAPGYDQFLNYQCQMVNLVPRKAQLASDVLS 235 Query: 247 MLDLVKSGVGLSLARESIALSQSHAHGLVIADAVDLSTE--LSFIALEKRRNEPAISAVF 304 +L LV +GVG ++ + A + G+V+ D +L+ +SF+ N P ++ Sbjct: 236 ILGLVAAGVGYAIVSDVSAYTCP--EGVVLVDHPELTLRHPVSFVYRADNGN-PTLARYM 292 Query: 305 ALLQNVWS 312 A L+ + S Sbjct: 293 AHLERMRS 300 >gi|300309386|ref|YP_003773478.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 301 Score = 89.7 bits (221), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 72/246 (29%), Positives = 115/246 (46%), Gaps = 13/246 (5%) Query: 20 MDFTQLRAFIAVAEEGNLTRAADRLHVTQPAVSLQIKLLQERLKLQLFVRTSAGMRLTNE 79 MD LR F + +RAAD LHVTQ VS ++ L+E + L +R ++LT+ Sbjct: 1 MDIRALRYFTETVRHSSFSRAADALHVTQSTVSKMVRQLEEEVDAPLLIRDGRRLQLTDT 60 Query: 80 GSKLLPVAERVLNTLQEFHQHADALHTSAGTLSGTLSLGTILDPEFIRL--GAFLKLLVE 137 G + +++L +Q HA+ T A SG L +G P I + LK E Sbjct: 61 GRVVYEQGQQILAAMQRL--HAEVRDTKA-LRSGRLEIGI---PPMINILCTPVLKAFRE 114 Query: 138 RYPQLSTRLQHHMSGSVLQLVKNGELDVGFFL--GTPGKGFHSLTLTPFTYNVIAPAG-- 193 R+P ++ LQ + Q V NGEL++G + P G +L + + +A AG Sbjct: 115 RHPDIAVVLQEDTGPQIEQRVANGELEIGMTVLPADPELGLETLPVASYPMWAVAQAGSF 174 Query: 194 WKNRVAGKGWKELAQLPWIWTPPESAHHRLLNRVFTQYKLTPNTVALVDQESSMLDLVKS 253 KNR + + +L +P + E R L VF ++ + P VA Q ++ + + Sbjct: 175 QKNRASLR-CAQLDGMPLVLLNNEFGLTRSLRGVFREHGIKPEIVAQSAQWDWLVAMALA 233 Query: 254 GVGLSL 259 G+G +L Sbjct: 234 GMGTAL 239 >gi|300310436|ref|YP_003774528.1| LysR family transcription regulator [Herbaspirillum seropedicae SmR1] Length = 300 Score = 89.4 bits (220), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 82/252 (32%), Positives = 123/252 (48%), Gaps = 9/252 (3%) Query: 20 MDFTQLRAFIAVAEEGNLTRAADRLHVTQPAVSLQIKLLQERLKLQLFVRTSAGMRLTNE 79 ++ QLR F AVAEE + RAA RLH+TQP +S I L+E L LF RT + LT Sbjct: 7 LELRQLRYFAAVAEEMHFGRAAARLHMTQPPLSQTIAALEELLGTPLFQRTKRSVALTAA 66 Query: 80 GSKLLPVAERVLNTLQEFHQHADALHTSAGTLSGTLSLGTILDPEFIRLGAFLKLLVERY 139 G+ LLP A+R+ LQ+ D + +A SG LSL I ++ L L+ Y Sbjct: 67 GAALLPEAQRL---LQQAAALPDLVRRAASGASGLLSLSFISSADYSILPPLLQRFRAHY 123 Query: 140 PQLSTRLQHHMSGSVLQLVKNGELDVGFFLGT-PGKGFHSLTLTP-FTYNVIA--PAGWK 195 PQ+ L+ + L+ + G++D G L P K L + P + +IA P G Sbjct: 124 PQVQIELREATTDVQLEDLLQGKIDAGLLLPPLPEKAAALLEVRPVLSEPLIAALPEGAV 183 Query: 196 NRVAGKGWKELAQLPWIWTPPE--SAHHRLLNRVFTQYKLTPNTVALVDQESSMLDLVKS 253 + K L +LP I P A H + F +TP+ Q +++ LV + Sbjct: 184 RKRGPVSLKSLRELPLIIFPRRIAPAFHDTILSCFRDAGVTPHIGQEAIQMQTIVGLVSA 243 Query: 254 GVGLSLARESIA 265 G+G++L +S++ Sbjct: 244 GMGMALVPQSVS 255 >gi|300310637|ref|YP_003774729.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 326 Score = 85.1 bits (209), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 52/148 (35%), Positives = 80/148 (54%), Gaps = 3/148 (2%) Query: 20 MDFTQLRAFIAVAEEGNLTRAADRLHVTQPAVSLQIKLLQERLKLQLFVRTSAGMRLTNE 79 MD QL+ F+AVA N TRA+++LH+ QP +S QI+LL+E L +QL +R S +RLT Sbjct: 1 MDIRQLKYFVAVANTRNFTRASEQLHIAQPPLSRQIQLLEEELGVQLLLRNSRPLRLTEA 60 Query: 80 GSKLLPVAERVLNTLQEFHQHADALHTSAGTLSGTLSLGTILDPEFIRLGAFLKLLVERY 139 G A ++LN L + +A TLS+G + + L ++ L + Y Sbjct: 61 GRVFYEQALQILNRLDQLK---NATQQIGLNQRQTLSIGFVASTLYGGLPMLVRKLRQHY 117 Query: 140 PQLSTRLQHHMSGSVLQLVKNGELDVGF 167 P++ +L S +K+G +DVGF Sbjct: 118 PEVDIQLLELTSMQQFAALKSGRIDVGF 145 Database: BlastDatabases/689/689 Posted date: Apr 10, 2011 12:15 AM Number of letters in database: 1,619,870 Number of sequences in database: 4735 Lambda K H 0.321 0.134 0.395 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 4735 Number of Hits to DB: 912,038 Number of extensions: 35377 Number of successful extensions: 209 Number of sequences better than 1.0e-08: 47 Number of HSP's gapped: 191 Number of HSP's successfully gapped: 47 Length of query: 312 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 227 Effective length of database: 1,217,395 Effective search space: 276348665 Effective search space used: 276348665 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: 130 (54.7 bits)