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= 0012.0031.p (310 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... 453 e-129 gi|300313964|ref|YP_003778056.1| LysR family transcription regul... 148 4e-37 gi|300310906|ref|YP_003774998.1| LysR family transcription regul... 141 6e-35 gi|300314051|ref|YP_003778143.1| transcription regulator protein... 130 1e-31 gi|300310443|ref|YP_003774535.1| LysR family transcription regul... 117 1e-27 >gi|300312460|ref|YP_003776552.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 312 Score = 453 bits (1166), Expect = e-129, Method: Compositional matrix adjust. Identities = 224/307 (72%), Positives = 261/307 (85%) Query: 1 MSLSLPPLKALKVFEAAVRTRSLTIAAHELHITHSAVSQQIKLLEEHFGQPLFIRLPRGV 60 M SLPPLKALKVFEAAVRTRSLT+AAHEL ITHSAVSQQIK LEE+F QPLF+R RGV Sbjct: 1 MPSSLPPLKALKVFEAAVRTRSLTLAAHELFITHSAVSQQIKSLEEYFEQPLFLRQSRGV 60 Query: 61 EATEAAQAFYTEVRAALDRIAMAAEQLTLTGKNRIVRVITAPSVAMRWLIPRLSQFQIDN 120 E TEAA +FY EV+A+LDRIA+AAEQL L GK+R+VR+I APSVAMRWLIPRLSQFQIDN Sbjct: 61 EPTEAALSFYAEVKASLDRIALAAEQLALAGKSRVVRLIAAPSVAMRWLIPRLSQFQIDN 120 Query: 121 PRIEVRVTTTVSEHFEDLKAPFDVVLWRSPLERSGFECVRFLDDVSAPLASPHYLELHSI 180 PRIEVRVTTT+SE+FED+K PFDV++WRSPLERSG+EC+RFLDDVS PLASPH+LE H I Sbjct: 121 PRIEVRVTTTMSEYFEDVKDPFDVIIWRSPLERSGYECMRFLDDVSVPLASPHFLETHPI 180 Query: 181 TKPADLLQASLIHLSVRAEAWQQWLIKAGVPVKKKLPGTSYEHFFLSLQAASTDLGIAMG 240 P D ++ LIHLS R+ AW QWL KAGV V++K+PGT YEH FLSLQAA+TD G+ MG Sbjct: 181 RVPRDFVEVPLIHLSSRSAAWSQWLSKAGVAVRRKMPGTVYEHSFLSLQAAATDQGVGMG 240 Query: 241 SLALVDDDLSHGRLRQLFPEVVLHGQGFHMLHRTGETNGNALKTFIAWLMQMGVASAYDP 300 +LALVDDDL+ GRL +LFPE+VLHG+G+HML R+G ALKTFI WL QMG AS++DP Sbjct: 241 TLALVDDDLAAGRLVRLFPEIVLHGEGYHMLCRSGAETNPALKTFITWLKQMGQASSFDP 300 Query: 301 DKRYSAD 307 + + AD Sbjct: 301 QRTWPAD 307 >gi|300313964|ref|YP_003778056.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 314 Score = 148 bits (374), Expect = 4e-37, Method: Compositional matrix adjust. Identities = 98/302 (32%), Positives = 143/302 (47%), Gaps = 15/302 (4%) Query: 4 SLPPLKALKVFEAAVRTRSLTIAAHELHITHSAVSQQIKLLEEHFGQPLFIRLPRGVEAT 63 LPPL AL+ FEA R S T AA ELH+T SAVS+Q+++LE H Q LF+RL R +E T Sbjct: 3 KLPPLTALRAFEATARLLSFTAAADELHVTQSAVSRQVRILEAHLEQKLFVRLTRRIELT 62 Query: 64 EAAQAFYTEVRAALDRIAMAAEQLTLTGKNRIVRVITAPSVAMRWLIPRLSQFQIDNPRI 123 A A++ ++R A +RI A EQL + + + P +A WL+PRL F +N I Sbjct: 63 RAGAAYFQQIRQAFERICAAGEQLHARRQRHTLTIGVLPGLASLWLVPRLELFWRENKEI 122 Query: 124 EVR-VTTTVSEHFEDLKAPFDVVLWRSPLERS-GFECVR-------------FLDDVSAP 168 +VR V T + F + + P S G + D Sbjct: 123 DVRIVVATGAADFGRTTMDMSIQVGNLPGTTSQGLPLKKRMAVDWHDLRADLLFPDALVA 182 Query: 169 LASPHYLELHSITKPADLLQASLIHLSVRAEAWQQWLIKAGVPVKKKLPGTSYEHFFLSL 228 L P H + ADL Q LIH ++R +AW WL + G + + G + ++L Sbjct: 183 LCHPRLWRQHPVRSVADLSQHRLIHTAIRPDAWAHWLQQHGSRLGARQAGMECSQYPVAL 242 Query: 229 QAASTDLGIAMGSLALVDDDLSHGRLRQLFPEVVLHGQGFHMLHRTGETNGNALKTFIAW 288 QAA GIA+ L + RLR+LF +++L + +A++ F W Sbjct: 243 QAAMNGEGIALVPSVLAESFDPQHRLRRLFGGPTPSAGQYYLLTPGDRYDDSAVRRFRQW 302 Query: 289 LM 290 L+ Sbjct: 303 LL 304 >gi|300310906|ref|YP_003774998.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 141 bits (356), Expect = 6e-35, Method: Compositional matrix adjust. Identities = 95/291 (32%), Positives = 147/291 (50%), Gaps = 4/291 (1%) Query: 7 PLKALKVFEAAVRTRSLTIAAHELHITHSAVSQQIKLLEEHFGQPLFIRLPRGVEATEAA 66 PL A++ F AA R +S T+AAHEL++TH A+S+QIK LE + G PLF R R V TE Sbjct: 7 PLNAIRAFLAAARHQSFTLAAHELNVTHGAISRQIKNLEGYLGMPLFERRTRQVLLTERG 66 Query: 67 QAFYTEVRAALDRIAMAAEQLTLTGKNRIVRVITAPSVAMRWLIPRLSQFQIDNPRIEVR 126 + F+ E AL+ +A AA ++ R V + PS A+RWLIP LS F P I + Sbjct: 67 RQFFEEASPALEILANAARRVMRDAPTRTVVINVRPSFAVRWLIPHLSDFVERYPGIAPQ 126 Query: 127 VTTTVSEHFEDLKAPFDVVLWRSPLE-RSGFECVRFLDDVSAPLASPHYLELHSITKPAD 185 V T+ + + FD+ + R + RF++D +ASP L+ + + Sbjct: 127 VVTSTAT-VGKAGSSFDIAVRRGETNWPETLKVQRFMEDELVLVASPALLQAMPLEDVSG 185 Query: 186 LLQASLIHLSVRAEAWQQWLIKAGVPVKKKLPGTSYEHFFLSLQAASTDLGIAMGSLALV 245 L + +++ R W+ W AG+ + ++H LQA LG+A+ ++L Sbjct: 186 LARHTVLLSRSRRNDWEDWRKLAGLKRSRSQAMLHFDHVHFVLQAVVDGLGVALSPVSLA 245 Query: 246 DDDLSHGRLRQLFPEVVLHGQGFHMLHRTGETNGNALKTFIAWLMQMGVAS 296 D+DL GRL FP++ L +++ G+ + F WL + AS Sbjct: 246 DNDLRSGRLVCPFPDLRLTLAPYYL--GINAQAGSEAQLFARWLAEYRGAS 294 >gi|300314051|ref|YP_003778143.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 306 Score = 130 bits (328), Expect = 1e-31, Method: Compositional matrix adjust. Identities = 87/269 (32%), Positives = 134/269 (49%), Gaps = 6/269 (2%) Query: 26 AAHELHITHSAVSQQIKLLEEHFGQPLFIRLPRGVEATEAAQAFYTEVRAALDRIAMAAE 85 AA E+H+T A+S Q++ LEE G LF+R + + TE Q F +R +L IA+AAE Sbjct: 28 AAEEVHVTPGAISHQVRALEEDLGLQLFLRHGKRISITETGQRFAATIRKSLSEIALAAE 87 Query: 86 QLTLTGKNRIVRVITAPSVAMRWLIPRLSQFQIDNPRIEVRVTTTVSEHFEDLKAP-FDV 144 L + + + + T PS A RWL PRL +F +P +EV + + H DL+ DV Sbjct: 88 HLRSQNRQQRLVISTTPSFASRWLAPRLWRFIDAHPELEVVLQSAA--HLNDLRLDGIDV 145 Query: 145 VLWRSPLERSGFECVRFLDDVSAPLASPHYLELHS--ITKPADLLQASLIHLSVRAEAWQ 202 L SG + DD P+A+P Y S + +PADL SL+ + R E+WQ Sbjct: 146 GLRFGRGNYSGLVSEKLSDDYYYPVAAPGYRGKRSKKLARPADLAHCSLLRVDSR-ESWQ 204 Query: 203 QWLIKAGVPVKKKLPGTSYEHFFLSLQAASTDLGIAMGSLALVDDDLSHGRLRQLFPEVV 262 WL +AG+ + + G E L+L+ A+ G+A+ + ++S G L +LF VV Sbjct: 205 PWLAEAGLELPEPTGGLLVEDSSLTLRQAAEGKGVALARHVIASQEISTGELVRLFDVVV 264 Query: 263 LHGQGFHMLHRTGETNGNALKTFIAWLMQ 291 + +H + F W+ + Sbjct: 265 PSEDAHYFVHLPEALEKPGVAAFKEWIFE 293 >gi|300310443|ref|YP_003774535.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 295 Score = 117 bits (294), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 88/294 (29%), Positives = 140/294 (47%), Gaps = 15/294 (5%) Query: 5 LPPLKALKVFEAAVRTRSLTIAAHELHITHSAVSQQIKLLEEHFGQPLFIRLPRGVEATE 64 LPPL L+ FEA R +S +AA ELH+T SAVS Q+ LE + G LF R GV T Sbjct: 4 LPPLPNLQAFEAVARRKSFALAAAELHLTASAVSHQVARLESYLGIRLFERSAHGVRITT 63 Query: 65 AAQAFYTEVRAALDRIAMAAEQLTLTGKNRIVRVITAPSVAMRWLIPRLSQFQIDNPRIE 124 A +A+ ++ A+ I AA G + + + +APS+A WL+ RL+ F P I Sbjct: 64 AGEAYLARIQGAISAI-TAASMDVRQGVSNTLYIHSAPSIASLWLMARLNDFARSYPEIT 122 Query: 125 VRVTTTVSE-HFE----DLKAPFDVVLWRSPLERSGFECVRFLDDVSAPLASPHYLELHS 179 ++ S+ +FE D+ + + W G ++ PLASP ++ + Sbjct: 123 FNLSAAHSQSNFELGEVDIDIRYGIPNW------PGLVVEPLFEERIVPLASPAFIREYR 176 Query: 180 ITKPADLLQASLIHLSVRAEAWQQWLIK-AGVPVKKKLPGTSYEHFFLSLQAASTDLGIA 238 + KPADLL LI +V W W + A V ++ ++ +SL AA+ LG+A Sbjct: 177 LRKPADLLGVKLIRSNVSVVQWADWFGEFADVRAPEQF-AVRFDRAQMSLDAATQGLGVA 235 Query: 239 MGSLALVDDDLSHGRLRQLFP-EVVLHGQGFHMLHRTGETNGNALKTFIAWLMQ 291 + S + L +L+ +F E + + ++ A+ F+ WL + Sbjct: 236 LESATVAARHLEEKKLKPIFGLERAIKVKAHFAVYPAHHARRPAVAAFLEWLRE 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 0.134 0.394 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: 986,459 Number of extensions: 40276 Number of successful extensions: 218 Number of sequences better than 1.0e-08: 33 Number of HSP's gapped: 202 Number of HSP's successfully gapped: 33 Length of query: 310 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 225 Effective length of database: 1,217,395 Effective search space: 273913875 Effective search space used: 273913875 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)