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= 0002.0020.p (280 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312894|ref|YP_003776986.1| LysR family transcription regul... 204 5e-54 gi|300312645|ref|YP_003776737.1| LysR family transcription regul... 138 6e-34 gi|300313964|ref|YP_003778056.1| LysR family transcription regul... 129 3e-31 gi|300309577|ref|YP_003773669.1| transcription regulator protein... 124 1e-29 gi|300310443|ref|YP_003774535.1| LysR family transcription regul... 118 5e-28 >gi|300312894|ref|YP_003776986.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 204 bits (520), Expect = 5e-54, Method: Compositional matrix adjust. Identities = 113/284 (39%), Positives = 164/284 (57%), Gaps = 21/284 (7%) Query: 2 LEAFESAARHLSFTRAADELSFTESAISRKIALLEEYLGVQLFTRVKKRLQLTDAGKSYS 61 L AFE+AARH SF RAA+EL+ TE AISR+I+ LE +LGV LF R+ R++L G+ Y+ Sbjct: 11 LMAFEAAARHGSFARAAEELALTEGAISRQISRLEGFLGVTLFERIGNRVRLLPHGQRYA 70 Query: 62 QRVQESLDKLEMDTTLTMAHDAGRISLELAVLPTFALKWLMPRLHEFNALHPEVTIHVAA 121 V+E+L++L+ D+ M+ SL++AV PTFA++WL+PRL F ALHP +T+H++ Sbjct: 71 SHVRETLERLDRDSQHLMSQPPNGASLDIAVSPTFAMRWLIPRLPRFAALHPHITVHLSE 130 Query: 122 REEPFLFSEAPFDAAIHFDHPVWANATSTYLFTEELIPICSPQLIGGKHCRKPADLLDYV 181 R EPFL + DAAIHF HP W + L E L+P+C P L+ G D L Sbjct: 131 RMEPFLLPGSGLDAAIHFLHPAWTGMQTYSLLDEVLVPVCHPALVAGTSGVPALDALPR- 189 Query: 182 LMHKTGRPEAWSRW----------------FELAGCPDARARGGMXPGIALVPRTYVMDD 225 +H+ +AW R+ ++L G A G+ G+ALVPR YV + Sbjct: 190 -LHRRQNHDAWQRYAAQTGISLSHSAQGPRYDLHGMLIEAALAGL--GVALVPRLYVETE 246 Query: 226 IESGQLTVPWEMVVPGAKDYYFVVPEQKQ-ASQGVQLFLAWLLK 268 + G+L PW +K + V+PE Q S+ ++ F W+L+ Sbjct: 247 LAQGRLVAPWPQDSRISKTFCLVLPEPLQLGSEPLKAFAQWILE 290 >gi|300312645|ref|YP_003776737.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 287 Score = 138 bits (347), Expect = 6e-34, Method: Compositional matrix adjust. Identities = 93/279 (33%), Positives = 136/279 (48%), Gaps = 20/279 (7%) Query: 2 LEAFESAARHLSFTRAADELSFTESAISRKIALLEEYLGVQLFTRVKKRLQLTDAGKSYS 61 L AFE +ARHLSFTRAA+ELS T++A+S ++ LE+ LGV LF R+ + L LTD G + Sbjct: 8 LRAFEVSARHLSFTRAAEELSVTQTAVSMQVKNLEQRLGVALFRRLPRGLALTDEGLALL 67 Query: 62 QRVQESLDKLEMDTTLTMAHDAGRISLELAVLPTFALKWLMPRLHEFNALHPEVTIHVAA 121 V +S ++ D R L + V+ TFA+ WLMPRL +F HP V + + Sbjct: 68 PVVAQSFGRIA-DVLAQFEDGRRREVLTVGVVGTFAVGWLMPRLRQFQQQHPFVDLRLLT 126 Query: 122 REEPFLFSEAPFDAAIHFDHPVWANATSTYLFTEELIPICSPQLIGGKHCRKPADLLDYV 181 + D AI F W + LF L P+C+P + R PADL Sbjct: 127 NNNRVDLAGEGLDYAIRFGDGAWHGTQAERLFEAPLAPMCAPAI--AARLRSPADLGAET 184 Query: 182 LMHKTGRPEAWSRWFELAG--CPDARA-----------RGGMXPGIALVPRTYVMDDIES 228 L+ ++ R + W RWF AG CP R G+AL+P +++ Sbjct: 185 LL-RSYRSDEWGRWFAAAGAACPPLRGFVFDSSLALAEAAAQEAGVALLPVLMFERELQQ 243 Query: 229 GQLTVPW-EMVVPGAKDYYFVVPEQKQASQGVQLFLAWL 266 G+L P+ + +V GA Y+ + + + + F WL Sbjct: 244 GRLVCPFGQRIVLGA--YWLTSLKSRPQTAAMAAFRQWL 280 >gi|300313964|ref|YP_003778056.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 314 Score = 129 bits (324), Expect = 3e-31, Method: Compositional matrix adjust. Identities = 90/300 (30%), Positives = 139/300 (46%), Gaps = 31/300 (10%) Query: 2 LEAFESAARHLSFTRAADELSFTESAISRKIALLEEYLGVQLFTRVKKRLQLTDAGKSYS 61 L AFE+ AR LSFT AADEL T+SA+SR++ +LE +L +LF R+ +R++LT AG +Y Sbjct: 10 LRAFEATARLLSFTAAADELHVTQSAVSRQVRILEAHLEQKLFVRLTRRIELTRAGAAYF 69 Query: 62 QRVQESLDKLEMDTTLTMAHDAGRISLELAVLPTFALKWLMPRLHEFNALHPEVTIHVAA 121 Q+++++ +++ A R +L + VLP A WL+PRL F + E+ + + Sbjct: 70 QQIRQAFERICAAGEQLHARRQ-RHTLTIGVLPGLASLWLVPRLELFWRENKEIDVRIVV 128 Query: 122 REEPFLFSEAPFDAAIHFDH---------PV-------WANATSTYLFTEELIPICSPQL 165 F D +I + P+ W + + LF + L+ +C P+L Sbjct: 129 ATGAADFGRTTMDMSIQVGNLPGTTSQGLPLKKRMAVDWHDLRADLLFPDALVALCHPRL 188 Query: 166 IGGKHCRKPADLLDYVLMHKTGRPEAWSRWFELAGCPDARARGGMX-------------- 211 R ADL + L+H RP+AW+ W + G + GM Sbjct: 189 WRQHPVRSVADLSQHRLIHTAIRPDAWAHWLQQHGSRLGARQAGMECSQYPVALQAAMNG 248 Query: 212 PGIALVPRTYVMDDIESGQLTVPWEMVVPGAKDYYFVVPEQKQASQGVQLFLAWLLKVAE 271 GIALVP +L + P A YY + P + V+ F WLL A+ Sbjct: 249 EGIALVPSVLAESFDPQHRLRRLFGGPTPSAGQYYLLTPGDRYDDSAVRRFRQWLLMQAQ 308 >gi|300309577|ref|YP_003773669.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 301 Score = 124 bits (310), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 95/289 (32%), Positives = 133/289 (46%), Gaps = 22/289 (7%) Query: 2 LEAFESAARHLSFTRAADELSFTESAISRKIALLEEYLGVQLFTRVKKRLQLTDAGKSYS 61 L AFE+A RH SFTRAA EL T+SAISR+IA LE +LG +LF R + L+LT +G+ Y+ Sbjct: 12 LIAFEAAMRHGSFTRAAAELHLTQSAISRQIAQLERFLGKKLFLREPRALRLTVSGQRYA 71 Query: 62 QRVQESLDKLEMDTTLTMAHDAGRISLELAVLPTFALKWLMPRLHEFNALHPEVTIHVAA 121 VQ L T M G L +A A+ WL PRL F A HP+ + + Sbjct: 72 ALVQRLLVDCAEATEDIMKRK-GHQELTVACSQGVAVLWLTPRLARFRARHPDCHLRLVV 130 Query: 122 REEPFLFSEAPFDAAIHF--DHPVWANATSTYLFTEELIPICSPQLIGGKHCRKPADLLD 179 + SE FD I+F D P A + L+ EE+ P+CSP + G+ P DL Sbjct: 131 NDSLAQLSETDFDMGIYFLRDGPP-AGLAARRLYDEEVFPVCSPGYLDGR-LLAPEDLRH 188 Query: 180 YVLMH-KTGRPE--AWSRWFELAGCPDARARGGMXP--------------GIALVPRTYV 222 L+ + G+ + +W W G PD R + G+ L R + Sbjct: 189 QTLLTLEDGQRQWMSWQNWMAHNGMPDVRIEHQILSNQYPVLLQLAMEGQGVVLAWRHMI 248 Query: 223 MDDIESGQLTVPWEMVVPGAKDYYFVVPEQKQASQGVQLFLAWLLKVAE 271 +E G L + YY V P + + F +WL+ +E Sbjct: 249 DACMEQGLLVRACQASASLGGGYYAVWPRDRIEHAAARAFRSWLVAESE 297 >gi|300310443|ref|YP_003774535.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 295 Score = 118 bits (296), Expect = 5e-28, Method: Compositional matrix adjust. Identities = 69/198 (34%), Positives = 104/198 (52%), Gaps = 8/198 (4%) Query: 2 LEAFESAARHLSFTRAADELSFTESAISRKIALLEEYLGVQLFTRVKKRLQLTDAGKSYS 61 L+AFE+ AR SF AA EL T SA+S ++A LE YLG++LF R +++T AG++Y Sbjct: 10 LQAFEAVARRKSFALAAAELHLTASAVSHQVARLESYLGIRLFERSAHGVRITTAGEAYL 69 Query: 62 QRVQESLDKL---EMDTTLTMAHDAGRISLELAVLPTFALKWLMPRLHEFNALHPEVTIH 118 R+Q ++ + MD +++ +L + P+ A WLM RL++F +PE+T + Sbjct: 70 ARIQGAISAITAASMDVRQGVSN-----TLYIHSAPSIASLWLMARLNDFARSYPEITFN 124 Query: 119 VAAREEPFLFSEAPFDAAIHFDHPVWANATSTYLFTEELIPICSPQLIGGKHCRKPADLL 178 ++A F D I + P W LF E ++P+ SP I RKPADLL Sbjct: 125 LSAAHSQSNFELGEVDIDIRYGIPNWPGLVVEPLFEERIVPLASPAFIREYRLRKPADLL 184 Query: 179 DYVLMHKTGRPEAWSRWF 196 L+ W+ WF Sbjct: 185 GVKLIRSNVSVVQWADWF 202 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 0.135 0.410 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: 901,010 Number of extensions: 37885 Number of successful extensions: 209 Number of sequences better than 1.0e-08: 39 Number of HSP's gapped: 190 Number of HSP's successfully gapped: 39 Length of query: 280 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 196 Effective length of database: 1,222,130 Effective search space: 239537480 Effective search space used: 239537480 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)