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= 0002.0108.p (336 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... 638 0.0 gi|300310906|ref|YP_003774998.1| LysR family transcription regul... 148 6e-37 gi|300313964|ref|YP_003778056.1| LysR family transcription regul... 136 2e-33 gi|300314051|ref|YP_003778143.1| transcription regulator protein... 123 3e-29 gi|300309845|ref|YP_003773937.1| LysR family transcription regul... 121 6e-29 >gi|300312460|ref|YP_003776552.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 312 Score = 638 bits (1645), Expect = 0.0, Method: Compositional matrix adjust. Identities = 312/312 (100%), Positives = 312/312 (100%) Query: 25 MPSSLPPLKALKVFEAAVRTRSLTLAAHELFITHSAVSQQIKSLEEYFEQPLFLRQSRGV 84 MPSSLPPLKALKVFEAAVRTRSLTLAAHELFITHSAVSQQIKSLEEYFEQPLFLRQSRGV Sbjct: 1 MPSSLPPLKALKVFEAAVRTRSLTLAAHELFITHSAVSQQIKSLEEYFEQPLFLRQSRGV 60 Query: 85 EPTEAALSFYAEVKASLDRIALAAEQLALAGKSRVVRLIAAPSVAMRWLIPRLSQFQIDN 144 EPTEAALSFYAEVKASLDRIALAAEQLALAGKSRVVRLIAAPSVAMRWLIPRLSQFQIDN Sbjct: 61 EPTEAALSFYAEVKASLDRIALAAEQLALAGKSRVVRLIAAPSVAMRWLIPRLSQFQIDN 120 Query: 145 PRIEVRVTTTMSEYFEDVKDPFDVIIWRSPLERSGYECMRFLDDVSVPLASPHFLETHPI 204 PRIEVRVTTTMSEYFEDVKDPFDVIIWRSPLERSGYECMRFLDDVSVPLASPHFLETHPI Sbjct: 121 PRIEVRVTTTMSEYFEDVKDPFDVIIWRSPLERSGYECMRFLDDVSVPLASPHFLETHPI 180 Query: 205 RVPRDFVEVPLIHLSSRSAAWSQWLSKAGVAVRRKMPGTVYEHSFLSLQAAATDQGVGMG 264 RVPRDFVEVPLIHLSSRSAAWSQWLSKAGVAVRRKMPGTVYEHSFLSLQAAATDQGVGMG Sbjct: 181 RVPRDFVEVPLIHLSSRSAAWSQWLSKAGVAVRRKMPGTVYEHSFLSLQAAATDQGVGMG 240 Query: 265 TLALVDDDLAAGRLVRLFPEIVLHGEGYHMLCRSGAETNPALKTFITWLKQMGQASSFDP 324 TLALVDDDLAAGRLVRLFPEIVLHGEGYHMLCRSGAETNPALKTFITWLKQMGQASSFDP Sbjct: 241 TLALVDDDLAAGRLVRLFPEIVLHGEGYHMLCRSGAETNPALKTFITWLKQMGQASSFDP 300 Query: 325 QRTWPADFPGEY 336 QRTWPADFPGEY Sbjct: 301 QRTWPADFPGEY 312 >gi|300310906|ref|YP_003774998.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 148 bits (374), Expect = 6e-37, Method: Compositional matrix adjust. Identities = 100/291 (34%), Positives = 147/291 (50%), Gaps = 4/291 (1%) Query: 31 PLKALKVFEAAVRTRSLTLAAHELFITHSAVSQQIKSLEEYFEQPLFLRQSRGVEPTEAA 90 PL A++ F AA R +S TLAAHEL +TH A+S+QIK+LE Y PLF R++R V TE Sbjct: 7 PLNAIRAFLAAARHQSFTLAAHELNVTHGAISRQIKNLEGYLGMPLFERRTRQVLLTERG 66 Query: 91 LSFYAEVKASLDRIALAAEQLALAGKSRVVRLIAAPSVAMRWLIPRLSQFQIDNPRIEVR 150 F+ E +L+ +A AA ++ +R V + PS A+RWLIP LS F P I + Sbjct: 67 RQFFEEASPALEILANAARRVMRDAPTRTVVINVRPSFAVRWLIPHLSDFVERYPGIAPQ 126 Query: 151 VTTTMSEYFEDVKDPFDVIIWRSPLE-RSGYECMRFLDDVSVPLASPHFLETHPIRVPRD 209 V T+ + + FD+ + R + RF++D V +ASP L+ P+ Sbjct: 127 VVTSTATVGK-AGSSFDIAVRRGETNWPETLKVQRFMEDELVLVASPALLQAMPLEDVSG 185 Query: 210 FVEVPLIHLSSRSAAWSQWLSKAGVAVRRKMPGTVYEHSFLSLQAAATDQGVGMGTLALV 269 ++ SR W W AG+ R ++H LQA GV + ++L Sbjct: 186 LARHTVLLSRSRRNDWEDWRKLAGLKRSRSQAMLHFDHVHFVLQAVVDGLGVALSPVSLA 245 Query: 270 DDDLAAGRLVRLFPEIVLHGEGYHMLCRSGAETNPALKTFITWLKQMGQAS 320 D+DL +GRLV FP++ L Y++ + A + L F WL + AS Sbjct: 246 DNDLRSGRLVCPFPDLRLTLAPYYLGINAQAGSEAQL--FARWLAEYRGAS 294 >gi|300313964|ref|YP_003778056.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 314 Score = 136 bits (342), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 93/308 (30%), Positives = 141/308 (45%), Gaps = 15/308 (4%) Query: 27 SSLPPLKALKVFEAAVRTRSLTLAAHELFITHSAVSQQIKSLEEYFEQPLFLRQSRGVEP 86 + LPPL AL+ FEA R S T AA EL +T SAVS+Q++ LE + EQ LF+R +R +E Sbjct: 2 NKLPPLTALRAFEATARLLSFTAAADELHVTQSAVSRQVRILEAHLEQKLFVRLTRRIEL 61 Query: 87 TEAALSFYAEVKASLDRIALAAEQLALAGKSRVVRLIAAPSVAMRWLIPRLSQFQIDNPR 146 T A +++ +++ + +RI A EQL + + + P +A WL+PRL F +N Sbjct: 62 TRAGAAYFQQIRQAFERICAAGEQLHARRQRHTLTIGVLPGLASLWLVPRLELFWRENKE 121 Query: 147 IEVRVT----------TTMSEYFEDVKDPFDV-----IIWRSPLERSGYECMRFLDDVSV 191 I+VR+ TTM + P + R ++ D V Sbjct: 122 IDVRIVVATGAADFGRTTMDMSIQVGNLPGTTSQGLPLKKRMAVDWHDLRADLLFPDALV 181 Query: 192 PLASPHFLETHPIRVPRDFVEVPLIHLSSRSAAWSQWLSKAGVAVRRKMPGTVYEHSFLS 251 L P HP+R D + LIH + R AW+ WL + G + + G ++ Sbjct: 182 ALCHPRLWRQHPVRSVADLSQHRLIHTAIRPDAWAHWLQQHGSRLGARQAGMECSQYPVA 241 Query: 252 LQAAATDQGVGMGTLALVDDDLAAGRLVRLFPEIVLHGEGYHMLCRSGAETNPALKTFIT 311 LQAA +G+ + L + RL RLF Y++L + A++ F Sbjct: 242 LQAAMNGEGIALVPSVLAESFDPQHRLRRLFGGPTPSAGQYYLLTPGDRYDDSAVRRFRQ 301 Query: 312 WLKQMGQA 319 WL QA Sbjct: 302 WLLMQAQA 309 >gi|300314051|ref|YP_003778143.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 306 Score = 123 bits (308), Expect = 3e-29, Method: Compositional matrix adjust. Identities = 84/284 (29%), Positives = 139/284 (48%), Gaps = 8/284 (2%) Query: 50 AAHELFITHSAVSQQIKSLEEYFEQPLFLRQSRGVEPTEAALSFYAEVKASLDRIALAAE 109 AA E+ +T A+S Q+++LEE LFLR + + TE F A ++ SL IALAAE Sbjct: 28 AAEEVHVTPGAISHQVRALEEDLGLQLFLRHGKRISITETGQRFAATIRKSLSEIALAAE 87 Query: 110 QLALAGKSRVVRLIAAPSVAMRWLIPRLSQFQIDNPRIEVRVTTTMSEYFEDVK-DPFDV 168 L + + + + PS A RWL PRL +F +P +EV + + + + D++ D DV Sbjct: 88 HLRSQNRQQRLVISTTPSFASRWLAPRLWRFIDAHPELEVVLQS--AAHLNDLRLDGIDV 145 Query: 169 IIWRSPLERSGYECMRFLDDVSVPLASPHFLETHPIRV--PRDFVEVPLIHLSSRSAAWS 226 + SG + DD P+A+P + ++ P D L+ + SR +W Sbjct: 146 GLRFGRGNYSGLVSEKLSDDYYYPVAAPGYRGKRSKKLARPADLAHCSLLRVDSRE-SWQ 204 Query: 227 QWLSKAGVAVRRKMPGTVYEHSFLSLQAAATDQGVGMGTLALVDDDLAAGRLVRLFPEIV 286 WL++AG+ + G + E S L+L+ AA +GV + + +++ G LVRLF +V Sbjct: 205 PWLAEAGLELPEPTGGLLVEDSSLTLRQAAEGKGVALARHVIASQEISTGELVRLFDVVV 264 Query: 287 LHGEGYHMLCRSGAETNPALKTFITWLKQMGQASSFDPQRTWPA 330 + ++ + A P + F W+ + + F WP Sbjct: 265 PSEDAHYFVHLPEALEKPGVAAFKEWIFE--EMRLFHASAAWPG 306 >gi|300309845|ref|YP_003773937.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 294 Score = 121 bits (304), Expect = 6e-29, Method: Compositional matrix adjust. Identities = 90/301 (29%), Positives = 149/301 (49%), Gaps = 19/301 (6%) Query: 29 LPPLKALKVFEAAVRTRSLTLAAHELFITHSAVSQQIKSLEEYFEQPLFLRQSRGVEPTE 88 +PPL +L FEA R +S LAA EL +T SA+S Q+ LE+ LF R ++GVE T Sbjct: 2 IPPLTSLMAFEAIARRKSFNLAAAELHLTPSAISHQVARLEKLLGLRLFERSTKGVELTP 61 Query: 89 AALSFYAEVKASLDRIALAAEQLALAGKSRVVRLIAAPSVAMRWLIPRLSQFQIDNPRIE 148 A S+ V +L I A + L G +++ ++PS A WL+PR+ +F +P I Sbjct: 62 AGQSYLNRVAGALGAINSATDDLR-HGVENSLQIHSSPSFASLWLMPRIGRFTQRHPDIA 120 Query: 149 VRVTTT--MSEYFEDVKDPFDVIIWRSPLERSG------YECMRFLDDVSVPLASPHFLE 200 + ++ + +S+ FE + D+ R G E L + +P+ASP FL Sbjct: 121 LGLSASPEISD-FEIGQVDLDI--------RCGVPHWPDLEIEAVLSERVIPMASPDFLA 171 Query: 201 THPIRVPRDFVEVPLIHLSSRSAAWSQWLSKAGVAVRRKMPGTVYEHSFLSLQAAATDQG 260 H I P D V PLI W +W ++ +R + ++ + +S++AA G Sbjct: 172 RHRIDTPDDLVLAPLIQSRGSLLQWPEWFARYAPDLRPERIALRFDRAMMSIEAAVQGLG 231 Query: 261 VGMGTLALVDDDLAAGRLVRLFPE-IVLHGEGYHMLCRSGAETNPALKTFITWLKQMGQA 319 V + A LA+GRL +F + + L ++ +C + ++ P + F+ WL++ A Sbjct: 232 VVFESDAFGAVALASGRLQPVFADGLALEITQHYAVCPARNKSRPEVMLFLQWLREESGA 291 Query: 320 S 320 + Sbjct: 292 A 292 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 0.401 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: 1,064,527 Number of extensions: 42718 Number of successful extensions: 232 Number of sequences better than 1.0e-08: 28 Number of HSP's gapped: 225 Number of HSP's successfully gapped: 29 Length of query: 336 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 250 Effective length of database: 1,212,660 Effective search space: 303165000 Effective search space used: 303165000 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: 131 (55.1 bits)