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= 0015.0543.p (300 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312460|ref|YP_003776552.1| LysR family transcription regul... 576 e-166 gi|300310906|ref|YP_003774998.1| LysR family transcription regul... 139 4e-34 gi|300314051|ref|YP_003778143.1| transcription regulator protein... 124 8e-30 gi|300313964|ref|YP_003778056.1| LysR family transcription regul... 124 9e-30 gi|300310443|ref|YP_003774535.1| LysR family transcription regul... 106 2e-24 >gi|300312460|ref|YP_003776552.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 312 Score = 576 bits (1484), Expect = e-166, Method: Compositional matrix adjust. Identities = 290/300 (96%), Positives = 297/300 (99%) Query: 1 VFEAAVRTRSLTLAAHELFITHSAVSQQIKTLEEYFEQPLFLRQSRGVEPTEAALAFYAE 60 VFEAAVRTRSLTLAAHELFITHSAVSQQIK+LEEYFEQPLFLRQSRGVEPTEAAL+FYAE Sbjct: 13 VFEAAVRTRSLTLAAHELFITHSAVSQQIKSLEEYFEQPLFLRQSRGVEPTEAALSFYAE 72 Query: 61 VKASLDRIALAAEQLSLAGKSRVVRLIAAPSVAMRWLIPRLSQFQIDNPRIEVRVTTTMS 120 VKASLDRIALAAEQL+LAGKSRVVRLIAAPSVAMRWLIPRLSQFQIDNPRIEVRVTTTMS Sbjct: 73 VKASLDRIALAAEQLALAGKSRVVRLIAAPSVAMRWLIPRLSQFQIDNPRIEVRVTTTMS 132 Query: 121 EYFEDVKDPFDVIIWRSPLERSGYDCVRFLDDVSVPLASPHFLETHPIRVPRDFVEVPLI 180 EYFEDVKDPFDVIIWRSPLERSGY+C+RFLDDVSVPLASPHFLETHPIRVPRDFVEVPLI Sbjct: 133 EYFEDVKDPFDVIIWRSPLERSGYECMRFLDDVSVPLASPHFLETHPIRVPRDFVEVPLI 192 Query: 181 HLSSRSAAWSQWLGKAGVAVRRKMPGTVYEHSFLSLQAAATDQGVGMGTLALVDDDLAAG 240 HLSSRSAAWSQWL KAGVAVRRKMPGTVYEHSFLSLQAAATDQGVGMGTLALVDDDLAAG Sbjct: 193 HLSSRSAAWSQWLSKAGVAVRRKMPGTVYEHSFLSLQAAATDQGVGMGTLALVDDDLAAG 252 Query: 241 RLVRLFPEIVLHGEGYHMLYRSSADTNPALKTFITWLKQMGQASSFDPQQTWPADFPGEY 300 RLVRLFPEIVLHGEGYHML RS A+TNPALKTFITWLKQMGQASSFDPQ+TWPADFPGEY Sbjct: 253 RLVRLFPEIVLHGEGYHMLCRSGAETNPALKTFITWLKQMGQASSFDPQRTWPADFPGEY 312 >gi|300310906|ref|YP_003774998.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 139 bits (349), Expect = 4e-34, Method: Compositional matrix adjust. Identities = 97/284 (34%), Positives = 140/284 (49%), Gaps = 4/284 (1%) Query: 2 FEAAVRTRSLTLAAHELFITHSAVSQQIKTLEEYFEQPLFLRQSRGVEPTEAALAFYAEV 61 F AA R +S TLAAHEL +TH A+S+QIK LE Y PLF R++R V TE F+ E Sbjct: 14 FLAAARHQSFTLAAHELNVTHGAISRQIKNLEGYLGMPLFERRTRQVLLTERGRQFFEEA 73 Query: 62 KASLDRIALAAEQLSLAGKSRVVRLIAAPSVAMRWLIPRLSQFQIDNPRIEVRVTTTMSE 121 +L+ +A AA ++ +R V + PS A+RWLIP LS F P I +V T+ + Sbjct: 74 SPALEILANAARRVMRDAPTRTVVINVRPSFAVRWLIPHLSDFVERYPGIAPQVVTSTAT 133 Query: 122 YFEDVKDPFDVIIWRSPLE-RSGYDCVRFLDDVSVPLASPHFLETHPIRVPRDFVEVPLI 180 + FD+ + R RF++D V +ASP L+ P+ ++ Sbjct: 134 VGK-AGSSFDIAVRRGETNWPETLKVQRFMEDELVLVASPALLQAMPLEDVSGLARHTVL 192 Query: 181 HLSSRSAAWSQWLGKAGVAVRRKMPGTVYEHSFLSLQAAATDQGVGMGTLALVDDDLAAG 240 SR W W AG+ R ++H LQA GV + ++L D+DL +G Sbjct: 193 LSRSRRNDWEDWRKLAGLKRSRSQAMLHFDHVHFVLQAVVDGLGVALSPVSLADNDLRSG 252 Query: 241 RLVRLFPEIVLHGEGYHMLYRSSADTNPALKTFITWLKQMGQAS 284 RLV FP++ L Y++ + A + L F WL + AS Sbjct: 253 RLVCPFPDLRLTLAPYYLGINAQAGSEAQL--FARWLAEYRGAS 294 >gi|300314051|ref|YP_003778143.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 306 Score = 124 bits (312), Expect = 8e-30, Method: Compositional matrix adjust. Identities = 84/284 (29%), Positives = 138/284 (48%), Gaps = 8/284 (2%) Query: 14 AAHELFITHSAVSQQIKTLEEYFEQPLFLRQSRGVEPTEAALAFYAEVKASLDRIALAAE 73 AA E+ +T A+S Q++ LEE LFLR + + TE F A ++ SL IALAAE Sbjct: 28 AAEEVHVTPGAISHQVRALEEDLGLQLFLRHGKRISITETGQRFAATIRKSLSEIALAAE 87 Query: 74 QLSLAGKSRVVRLIAAPSVAMRWLIPRLSQFQIDNPRIEVRVTTTMSEYFEDVK-DPFDV 132 L + + + + PS A RWL PRL +F +P +EV + + + + D++ D DV Sbjct: 88 HLRSQNRQQRLVISTTPSFASRWLAPRLWRFIDAHPELEVVLQS--AAHLNDLRLDGIDV 145 Query: 133 IIWRSPLERSGYDCVRFLDDVSVPLASPHFLETHPIRV--PRDFVEVPLIHLSSRSAAWS 190 + SG + DD P+A+P + ++ P D L+ + SR +W Sbjct: 146 GLRFGRGNYSGLVSEKLSDDYYYPVAAPGYRGKRSKKLARPADLAHCSLLRVDSRE-SWQ 204 Query: 191 QWLGKAGVAVRRKMPGTVYEHSFLSLQAAATDQGVGMGTLALVDDDLAAGRLVRLFPEIV 250 WL +AG+ + G + E S L+L+ AA +GV + + +++ G LVRLF +V Sbjct: 205 PWLAEAGLELPEPTGGLLVEDSSLTLRQAAEGKGVALARHVIASQEISTGELVRLFDVVV 264 Query: 251 LHGEGYHMLYRSSADTNPALKTFITWLKQMGQASSFDPQQTWPA 294 + ++ ++ A P + F W+ + + F WP Sbjct: 265 PSEDAHYFVHLPEALEKPGVAAFKEWIFE--EMRLFHASAAWPG 306 >gi|300313964|ref|YP_003778056.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 314 Score = 124 bits (311), Expect = 9e-30, Method: Compositional matrix adjust. Identities = 89/297 (29%), Positives = 133/297 (44%), Gaps = 15/297 (5%) Query: 2 FEAAVRTRSLTLAAHELFITHSAVSQQIKTLEEYFEQPLFLRQSRGVEPTEAALAFYAEV 61 FEA R S T AA EL +T SAVS+Q++ LE + EQ LF+R +R +E T A A++ ++ Sbjct: 13 FEATARLLSFTAAADELHVTQSAVSRQVRILEAHLEQKLFVRLTRRIELTRAGAAYFQQI 72 Query: 62 KASLDRIALAAEQLSLAGKSRVVRLIAAPSVAMRWLIPRLSQFQIDNPRIEVRVT----- 116 + + +RI A EQL + + + P +A WL+PRL F +N I+VR+ Sbjct: 73 RQAFERICAAGEQLHARRQRHTLTIGVLPGLASLWLVPRLELFWRENKEIDVRIVVATGA 132 Query: 117 -----TTMSEYFEDVKDPFDVIIWRSPLERSGYDCVRFLDDVSVP-----LASPHFLETH 166 TTM + P +R D D+ P L P H Sbjct: 133 ADFGRTTMDMSIQVGNLPGTTSQGLPLKKRMAVDWHDLRADLLFPDALVALCHPRLWRQH 192 Query: 167 PIRVPRDFVEVPLIHLSSRSAAWSQWLGKAGVAVRRKMPGTVYEHSFLSLQAAATDQGVG 226 P+R D + LIH + R AW+ WL + G + + G ++LQAA +G+ Sbjct: 193 PVRSVADLSQHRLIHTAIRPDAWAHWLQQHGSRLGARQAGMECSQYPVALQAAMNGEGIA 252 Query: 227 MGTLALVDDDLAAGRLVRLFPEIVLHGEGYHMLYRSSADTNPALKTFITWLKQMGQA 283 + L + RL RLF Y++L + A++ F WL QA Sbjct: 253 LVPSVLAESFDPQHRLRRLFGGPTPSAGQYYLLTPGDRYDDSAVRRFRQWLLMQAQA 309 >gi|300310443|ref|YP_003774535.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 295 Score = 106 bits (265), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 81/284 (28%), Positives = 132/284 (46%), Gaps = 13/284 (4%) Query: 2 FEAAVRTRSLTLAAHELFITHSAVSQQIKTLEEYFEQPLFLRQSRGVEPTEAALAFYAEV 61 FEA R +S LAA EL +T SAVS Q+ LE Y LF R + GV T A A+ A + Sbjct: 13 FEAVARRKSFALAAAELHLTASAVSHQVARLESYLGIRLFERSAHGVRITTAGEAYLARI 72 Query: 62 KASLDRIALAAEQLSLAGKSRVVRLIAAPSVAMRWLIPRLSQFQIDNPRIEVRVTTTMSE 121 + ++ I A+ + G S + + +APS+A WL+ RL+ F P I ++ S+ Sbjct: 73 QGAISAITAASMDVR-QGVSNTLYIHSAPSIASLWLMARLNDFARSYPEITFNLSAAHSQ 131 Query: 122 -YFE----DVKDPFDVIIWRSPLERSGYDCVRFLDDVSVPLASPHFLETHPIRVPRDFVE 176 FE D+ + + W G ++ VPLASP F+ + +R P D + Sbjct: 132 SNFELGEVDIDIRYGIPNW------PGLVVEPLFEERIVPLASPAFIREYRLRKPADLLG 185 Query: 177 VPLIHLSSRSAAWSQWLGKAGVAVRRKMPGTVYEHSFLSLQAAATDQGVGMGTLALVDDD 236 V LI + W+ W G+ + ++ + +SL AA GV + + + Sbjct: 186 VKLIRSNVSVVQWADWFGEFADVRAPEQFAVRFDRAQMSLDAATQGLGVALESATVAARH 245 Query: 237 LAAGRLVRLFP-EIVLHGEGYHMLYRSSADTNPALKTFITWLKQ 279 L +L +F E + + + +Y + PA+ F+ WL++ Sbjct: 246 LEEKKLKPIFGLERAIKVKAHFAVYPAHHARRPAVAAFLEWLRE 289 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 0.322 0.135 0.403 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: 972,302 Number of extensions: 39914 Number of successful extensions: 222 Number of sequences better than 1.0e-08: 25 Number of HSP's gapped: 214 Number of HSP's successfully gapped: 25 Length of query: 300 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 215 Effective length of database: 1,217,395 Effective search space: 261739925 Effective search space used: 261739925 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)