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= 0034.0089.p (284 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313630|ref|YP_003777722.1| LysR family transcription regul... 181 8e-47 gi|300311929|ref|YP_003776021.1| LysR family transcription regul... 152 3e-38 gi|300312018|ref|YP_003776110.1| transcription regulator protein... 147 1e-36 gi|300309921|ref|YP_003774013.1| LysR family transcription regul... 143 2e-35 gi|300309660|ref|YP_003773752.1| LysR family transcription regul... 132 5e-32 >gi|300313630|ref|YP_003777722.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 310 Score = 181 bits (458), Expect = 8e-47, Method: Compositional matrix adjust. Identities = 103/275 (37%), Positives = 164/275 (59%), Gaps = 1/275 (0%) Query: 2 NFARAAAEMGVTPTAVSRTIKSVEAQLNVRLFNRTTRSVSLTEAGASLNAALAPALALIK 61 +F RAA +G++P+A+S+TI+ +E ++ RL NRTTRSV+ + G L +AP + Sbjct: 20 SFVRAAEHLGLSPSALSQTIRQLEDRIGARLLNRTTRSVAPSANGELLYRRVAPLFREMA 79 Query: 62 NSLSEVLLATDQPSGTVRINSSYVAYRILIEPHLDAFIESFPLINVEISLDNELSDIVNA 121 ++++ AT Q SG +RIN+ +A R +I P L F ++ P + ++I +D+ L+DIV Sbjct: 80 AAVAQASEATGQMSGRLRINTLGIAARTIIAPRLARFHQAHPDVVLDIVVDDTLTDIVAG 139 Query: 122 GFDMGIRMGKRVQNDMVAVQLGAVQKRIVVAAPDYFRERGEPQTIDELLKHNCIRQRYSV 181 FD GIR+G RV+ DMVA++L + VA+PDY RG P++ +L H CI R + Sbjct: 140 RFDAGIRVGNRVEKDMVAIRLTPDLNMVAVASPDYLARRGVPRSPKDLHDHTCINWRLQM 199 Query: 182 GGRFFEWKFEAQRQMVQIDVQGRLIFDEMRSVLDAAIQGQGIGFVFE-DFAKQELASGVL 240 GR + W+F+ + Q +++ V G +I + + AA+ G GI + FE D + L+ G L Sbjct: 200 DGRHYRWEFKKRGQQLEVAVDGPIITNHADIGIAAALGGLGIAYHFERDGVSELLSQGRL 259 Query: 241 RRILTQHSGLDDAFHLYYPHRKHMPGKLRAFVDFM 275 ++L S LYYP+R+H P L AF+D + Sbjct: 260 VQVLADWSISRPGLFLYYPNRQHRPALLGAFIDCL 294 >gi|300311929|ref|YP_003776021.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 304 Score = 152 bits (384), Expect = 3e-38, Method: Compositional matrix adjust. Identities = 99/283 (34%), Positives = 154/283 (54%), Gaps = 11/283 (3%) Query: 2 NFARAAAEMGVTPTAVSRTIKSVEAQLNVRLFNRTTRSVSLTEAGASLNAALAPALALIK 61 +F AA +G+TP +VSR+I +E++L VRLF RTTR + LT G AL I Sbjct: 23 SFTAAAEALGLTPASVSRSISRLESRLGVRLFARTTRQIRLTREGELYRDQCQQALEQIA 82 Query: 62 NSLSEVLLATDQ--PSGTVRIN--SSYVAYRILIEPHLDAFIESFPLINVEISLDNELSD 117 + +E +L Q PSG +RI+ + Y YR+L P L F +++P I VE+S+ N + D Sbjct: 83 D--AERILTGQQKVPSGLLRISVGTPYAHYRLL--PLLPRFQQAYPQIEVELSIANRVVD 138 Query: 118 IVNAGFDMGIRMGKRVQNDMVAVQLGAVQKRIVVAAPDYFRERGEPQTIDELLKHNCIRQ 177 V G+D+ IR+G + ++A L + AAP Y RG+P++I EL +H+CI+ Sbjct: 139 FVEEGYDLAIRLGVPPDSRLIAHTLEEATLGL-FAAPAYLARRGQPRSIAELEQHDCIQF 197 Query: 178 RYSVGGRFFEWKF-EAQRQMVQIDVQGRL-IFDEMRSVLDAAIQGQGIGFVFEDFAKQEL 235 GR W F +AQ + + + R I D++ ++ AI G G+ ++ A + Sbjct: 198 ILPSSGRAMPWIFKDAQGRDMDFHFKSRQRIHDDVLGCVNWAIAGGGLFQIYHFIADAAV 257 Query: 236 ASGVLRRILTQHSGLDDAFHLYYPHRKHMPGKLRAFVDFMRSA 278 G L +L Q F + YPH +H+ ++RAFV+F+R A Sbjct: 258 RRGELVEVLQQAGYRTRRFSILYPHNRHLSARVRAFVEFLRQA 300 >gi|300312018|ref|YP_003776110.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 305 Score = 147 bits (371), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 87/275 (31%), Positives = 142/275 (51%), Gaps = 1/275 (0%) Query: 2 NFARAAAEMGVTPTAVSRTIKSVEAQLNVRLFNRTTRSVSLTEAGASLNAALAPALALIK 61 +F AA ++G+TP+A S +K +E +L +L R++R++S T AG+ L A L I Sbjct: 23 SFKAAAIQLGLTPSATSHAMKRLEERLATQLLYRSSRAISPTAAGSELAARLEQGFEQIG 82 Query: 62 NSLSEVLLATDQPSGTVRINSSYVAYRILIEPHLDAFIESFPLINVEISLDNELSDIVNA 121 +LS++ + G +RIN A +LIEP + F+ P + + I +D++ DIV+ Sbjct: 83 AALSQLDSSAAGSLGELRINVFADAAHLLIEPAIPEFVRQCPKVRLTIVVDDKPIDIVSE 142 Query: 122 GFDMGIRMGKRVQNDMVAVQLGAVQKRIVVAAPDYFRERGEPQTIDELLKHNCIRQRYSV 181 G+D GIR G V MV L + + AAP Y G P T+ +L +H C+ Q Sbjct: 143 GYDAGIRYGHYVPEGMVTAPLTRAHRWVAAAAPAYLDRHGRPLTLQDLQQHTCL-QLLLG 201 Query: 182 GGRFFEWKFEAQRQMVQIDVQGRLIFDEMRSVLDAAIQGQGIGFVFEDFAKQELASGVLR 241 ++W+F + +I V G + + + + AA G GI ++ E +E+ G L Sbjct: 202 DNSSYQWEFGRGKHRQRIRVPGLVTINNTAATIAAAKAGVGIAYLLEGRISKEIEEGSLE 261 Query: 242 RILTQHSGLDDAFHLYYPHRKHMPGKLRAFVDFMR 276 IL + + + FH+YY R+H LR +D +R Sbjct: 262 TILEEWAAPSEPFHMYYSSRRHAHPALRKLIDIIR 296 >gi|300309921|ref|YP_003774013.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 143 bits (360), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 90/277 (32%), Positives = 141/277 (50%), Gaps = 3/277 (1%) Query: 2 NFARAAAEMGVTPTAVSRTIKSVEAQLNVRLFNRTTRSVSLTEAGASLNAALAPALALIK 61 +F +AA +G++ AVSRT+ +EA+L RL RTTR +SLTEAGA +A ++ Sbjct: 18 SFVKAAEALGISKAAVSRTVLELEARLGSRLMQRTTRRLSLTEAGALYLERCKQIVAALE 77 Query: 62 NSLSEVLLATDQPSGTVRINSSYVAYRILIEPHLDAFIESFPLINVEISLDNELSDIVNA 121 + + + +P+G +RIN+ + + P F+E P I+++I+L + + DI++ Sbjct: 78 EADDLLSSGSAKPTGLLRINAPLTFGVLHLAPLWPMFLERHPEISLDITLSDRIVDIIDE 137 Query: 122 GFDMGIRMGKRVQNDMVAVQLGAVQKRIVVAAPDYFRERGEPQTIDELLKHNCIRQRYSV 181 G+DM IR+ + + +V +L + V A+P Y G P EL +H I YS Sbjct: 138 GYDMAIRIARLSDSTLVHRKLTSTSLH-VCASPAYLDAHGTPAHPHELAQHQTI--SYSY 194 Query: 182 GGRFFEWKFEAQRQMVQIDVQGRLIFDEMRSVLDAAIQGQGIGFVFEDFAKQELASGVLR 241 EW+F V + V RL + S + AA+ G GI Q L SG L Sbjct: 195 NQSKDEWQFNGPEGPVSVRVSSRLHVNNGDSCVQAALGGIGITRQPTFMIDQYLRSGQLV 254 Query: 242 RILTQHSGLDDAFHLYYPHRKHMPGKLRAFVDFMRSA 278 IL + + + YP R H+P K+RA +DF+ A Sbjct: 255 SILGDYGAPELGIYAVYPSRAHLPAKMRAMLDFLTEA 291 >gi|300309660|ref|YP_003773752.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 337 Score = 132 bits (331), Expect = 5e-32, Method: Compositional matrix adjust. Identities = 80/274 (29%), Positives = 136/274 (49%), Gaps = 1/274 (0%) Query: 2 NFARAAAEMGVTPTAVSRTIKSVEAQLNVRLFNRTTRSVSLTEAGASLNAALAPALALIK 61 +F RAA + + T V+ ++ +E+ L VRL NRTTR +SLT GA+ LA + Sbjct: 18 SFTRAADNLNLPRTTVTTLVQGLESMLQVRLLNRTTRRISLTPDGAAYYERCVRILADLD 77 Query: 62 NSLSEVLLATDQPSGTVRINSSYVAYRILIEPHLDAFIESFPLINVEISLDNELSDIVNA 121 + T P G +RI+ R+++ P+L F +P I + + + + D+V Sbjct: 78 ETEQSFRNVTRGPQGRLRIDVPASVGRLMLLPNLCDFYTRYPDIELMMGMGDRPVDLVQE 137 Query: 122 GFDMGIRMGKRVQNDMVAVQLGAVQKRIVVAAPDYFRERGEPQTIDELLKHNCIRQRYSV 181 D IR+G+ + MVA ++G Q + AAP Y G P TI++L +H + S Sbjct: 138 AVDCVIRIGELQDSSMVARRIGTFQT-VTCAAPAYLERHGVPHTIEDLQQHKAVHYFSSR 196 Query: 182 GGRFFEWKFEAQRQMVQIDVQGRLIFDEMRSVLDAAIQGQGIGFVFEDFAKQELASGVLR 241 GR +W F + ++ + G+L +E + ++ A+QG G+ + + G L Sbjct: 197 TGRTIDWDFVVEGVTREVKMNGKLAVNEADAYVECALQGFGMVQAPLYMVTRHIDEGRLV 256 Query: 242 RILTQHSGLDDAFHLYYPHRKHMPGKLRAFVDFM 275 +L+Q + Y H +H+ K+RAFVD++ Sbjct: 257 EVLSQWKPAPMPISVVYLHNRHLSPKVRAFVDWV 290 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 0.323 0.136 0.383 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: 749,103 Number of extensions: 28612 Number of successful extensions: 235 Number of sequences better than 1.0e-08: 39 Number of HSP's gapped: 179 Number of HSP's successfully gapped: 39 Length of query: 284 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 200 Effective length of database: 1,222,130 Effective search space: 244426000 Effective search space used: 244426000 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 130 (54.7 bits)