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= 0031.0024.p (301 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313216|ref|YP_003777308.1| LysR family transcription regul... 441 e-125 gi|300311633|ref|YP_003775725.1| LysR family transcription regul... 147 1e-36 gi|300309386|ref|YP_003773478.1| LysR family transcription regul... 64 1e-11 gi|300314076|ref|YP_003778168.1| LysR family transcription regul... 63 3e-11 gi|300312961|ref|YP_003777053.1| transcription regulator protein... 61 1e-10 >gi|300313216|ref|YP_003777308.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 303 Score = 441 bits (1133), Expect = e-125, Method: Compositional matrix adjust. Identities = 228/299 (76%), Positives = 266/299 (88%), Gaps = 2/299 (0%) Query: 1 MAALNYKHLHYFWTVAKTGGIARAGERLHLTAQTISGQITLFEETLGYRLFNRVGRKLEL 60 MA LNYKHLHYFWTVAKTGG+ARA ERLHLTAQTISGQ++LFEE+LGY LF RVGR+LEL Sbjct: 1 MAGLNYKHLHYFWTVAKTGGVARASERLHLTAQTISGQLSLFEESLGYPLFRRVGRRLEL 60 Query: 61 NDAGRTVFAYADQIFTLGEELEEVMRFRPGGRPLQFRVGVADA--XTIAYLLLETALKLE 118 ND GR VF YA++IF++GEELEE +R RPGGR LQ RVGVADA IAYLLLE+AL ++ Sbjct: 61 NDEGRMVFDYAERIFSIGEELEEALRLRPGGRALQLRVGVADAVPKAIAYLLLESALAMQ 120 Query: 119 DPVRIVCREGKLNNLLGDLAIHRLDIVIADSPMPGNIDVRGYSHLLGECSTSFFATPALA 178 DP+RI+CREGKL+ LL DLA+H+LDI+IADSPMP N+DVRGY HLLGEC TSFFATP LA Sbjct: 121 DPIRIICREGKLDVLLADLALHKLDIIIADSPMPPNVDVRGYHHLLGECDTSFFATPELA 180 Query: 179 KAHKKNFPQSLDGAPFLMPGEDAAVRPKLLRWFEKEKIRPQIAGEFDDGALLNAFGEAGT 238 + ++K FP S DGAPFLMPGEDAAVRP+LLRWFEKEKIRP+I GEFDDGALL AFG+AG Sbjct: 181 RRYRKGFPGSFDGAPFLMPGEDAAVRPRLLRWFEKEKIRPRITGEFDDGALLLAFGDAGA 240 Query: 239 GIFAAPSAVAAQLKQQLGVVQIGQTEQITEQFYAISVERRLTHPAVLAIQSAARESLII 297 GIFAAP+A+AAQ+++Q G+V+IG+TE I EQFYAISV+R+LTHPAVLAIQSAAR +LI+ Sbjct: 241 GIFAAPAAIAAQIRKQYGLVEIGRTEAIREQFYAISVQRKLTHPAVLAIQSAARGNLIV 299 >gi|300311633|ref|YP_003775725.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 306 Score = 147 bits (370), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 92/278 (33%), Positives = 135/278 (48%), Gaps = 6/278 (2%) Query: 1 MAALNYKHLHYFWTVAKTGGIARAGERLHLTAQTISGQITLFEETLGYRLFNRVGRKLEL 60 + LN+ HL YFW VAK G + RA E LH + +S QI E+ LG LF R GR+L L Sbjct: 3 LEQLNFHHLRYFWRVAKLGHLTRAAEELHTSQSAVSAQIRQLEKHLGEDLFIREGRRLSL 62 Query: 61 NDAGRTVFAYADQIFTLGEELEEVMRFRPGGRPLQFRVGVADAXTIAYLLLETALK--LE 118 +D G+ VF YAD IF L +E+ + R G R+ V T++ E L+ L Sbjct: 63 SDTGQLVFTYADNIFGLSQEMLGRLEGRSAGVT---RLRVGSVATLSRNYQENWLRPMLS 119 Query: 119 DP-VRIVCREGKLNNLLGDLAIHRLDIVIADSPMPGNIDVRGYSHLLGECSTSFFATPAL 177 DP V + G+L LL L H+LD+V+A+ +P + D + LG + S Sbjct: 120 DPSVALTLESGQLEGLLERLVQHQLDVVLANETVPADPDRPLHCRFLGSQAVSVVGPAHR 179 Query: 178 AKAHKKNFPQSLDGAPFLMPGEDAAVRPKLLRWFEKEKIRPQIAGEFDDGALLNAFGEAG 237 +A P+ L+G +PG A+R + +RP++ E DD A+L Sbjct: 180 WEAGSLRIPEDLEGIDMALPGPRHALRMRFDALCVSADVRPRLRAEVDDMAMLRLIARDS 239 Query: 238 TGIFAAPSAVAAQLKQQLGVVQIGQTEQITEQFYAISV 275 + P V + +V +GQT ++ E FYAI+ Sbjct: 240 GWLSVLPEVVVQDELRNGVLVTVGQTTELVENFYAITT 277 >gi|300309386|ref|YP_003773478.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 301 Score = 63.9 bits (154), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 64/271 (23%), Positives = 112/271 (41%), Gaps = 19/271 (7%) Query: 4 LNYKHLHYFWTVAKTGGIARAGERLHLTAQTISGQITLFEETLGYRLFNRVGRKLELNDA 63 ++ + L YF + +RA + LH+T T+S + EE + L R GR+L+L D Sbjct: 1 MDIRALRYFTETVRHSSFSRAADALHVTQSTVSKMVRQLEEEVDAPLLIRDGRRLQLTDT 60 Query: 64 GRTVFAYADQIFTLGEELEEVMRFRPGGRPLQFRVGVADAXTIAYLLLETALKLEDP-VR 122 GR V+ QI + L +R R + +G+ I + A + P + Sbjct: 61 GRVVYEQGQQILAAMQRLHAEVRDTKALRSGRLEIGIPPMINILCTPVLKAFRERHPDIA 120 Query: 123 IVCREGKLNNLLGDLAIHRLDIVIADSPMPGNIDVRGYSHLLGECSTSFFATPALAKAHK 182 +V +E + +A L+I + + +P + + LG + + P A A Sbjct: 121 VVLQEDTGPQIEQRVANGELEIGM--TVLPADPE-------LGLETLPVASYPMWAVAQA 171 Query: 183 KNFPQS--------LDGAPFLMPGEDAAVRPKLLRWFEKEKIRPQIAGEFDDGALLNAFG 234 +F ++ LDG P ++ + + L F + I+P+I + L A Sbjct: 172 GSFQKNRASLRCAQLDGMPLVLLNNEFGLTRSLRGVFREHGIKPEIVAQSAQWDWLVAMA 231 Query: 235 EAGTGIFAAPSAVAAQL-KQQLGVVQIGQTE 264 AG G P +L QQL V++ + E Sbjct: 232 LAGMGTALLPEPFIHRLATQQLQAVRLVEPE 262 >gi|300314076|ref|YP_003778168.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 294 Score = 62.8 bits (151), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 68/294 (23%), Positives = 123/294 (41%), Gaps = 20/294 (6%) Query: 4 LNYKHLHYFWTVAKTGGIARAGERLHLTAQTISGQITLFEETLGYRLFNRVGRKLELNDA 63 ++ L F +VA G + RA ++LHLT +S QI +E+LG +LFNR + L Sbjct: 1 MDLTQLRAFISVAHEGNLTRAADKLHLTQPAVSLQIKGLQESLGLQLFNRSAAGMVLTAE 60 Query: 64 GRTVFAYADQIFTLGEEL-EEVMRFRPGGRPLQFRVGVADAXTIAYLLLETALKLEDPVR 122 G + A+++ +EL FR L + + ++ L LKL Sbjct: 61 GNKLLPLAERVLADVQELRRHAADFRSSTGELSGSLAIGTILDPEFIRLGGFLKL----- 115 Query: 123 IVCREGKLNNLLGDLAIHRLDIVIADSPMPGNIDVRGYSHLLGECSTSF----FATPALA 178 +V R +L+ L H + + + G +DV + G+ S F +A Sbjct: 116 LVERHPQLSTQLA----HHMSGSVLNEIRAGKLDVGFFLGAPGQGFQSMELTSFTYKVIA 171 Query: 179 KAHKKNFP-----QSLDGAPFLMPGEDAAVRPKLLRWFEKEKIRPQIAGEFDDGALLNAF 233 A KN + L P++ ++A L R F + +++P D + + Sbjct: 172 PAGWKNRVSGKGWKELSRLPWIWTPPESAHHRLLSRIFAQHQVKPHTVALVDQESSMLDL 231 Query: 234 GEAGTGIFAAPSAVAAQLKQQLGVVQIGQTEQITEQFYAISVERRLTHPAVLAI 287 ++G G+ A +++A G+V I +++ Q I +E+ P + A+ Sbjct: 232 VKSGVGLSLARASIALNQAHAHGLV-IADAVELSTQLSFICLEKWQHDPVIQAV 284 >gi|300312961|ref|YP_003777053.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 60.8 bits (146), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 75/267 (28%), Positives = 106/267 (39%), Gaps = 44/267 (16%) Query: 4 LNYKHLHYFWTVAKTGGIARAGERLHLTAQTISGQITLFEETLGYRLFNRVGRKLELNDA 63 + +HL YF VA T +RA E LH+ +S QI EE LG L +R R + L A Sbjct: 1 MELRHLKYFNAVASTLSFSRAAELLHIAQPPLSRQIRQLEEMLGVELIDRASRPIALTMA 60 Query: 64 GRTVFAYADQIFTLGEELEEVMRFRPGGRPLQFRVGVADAXTIAYLLLETALK---LEDP 120 G+ + Q+ + E++EE R GR F +G + Y LL +K E P Sbjct: 61 GKFFYEQTLQVLSRLEQIEEGTRVIARGRQHWFNIGFVPSAL--YGLLPEMIKRFRTEMP 118 Query: 121 ------VRIVCRE-------GKLNNLLGDLAIHRLDIV---IADSPMPGNIDVRGYSHLL 164 IV E G+++ G L I DIV I + P+ + V H Sbjct: 119 EIEIGFSEIVTMEQVEALKSGRIDVGFGRLPISDPDIVCETIVEEPL---VAVFPLGH-- 173 Query: 165 GECSTSFFATPALAKAHKKNFPQSLDGAPFLMPGEDAAVRP----KLLRWFEKEKIRPQI 220 P LA+ +K Q L P A RP ++L F +RP I Sbjct: 174 ----------PLLAR-NKVTLAQLAAQRFILYP---ARPRPSYADQVLDIFSSRALRPSI 219 Query: 221 AGEFDDGALLNAFGEAGTGIFAAPSAV 247 E ++ AG G+ P +V Sbjct: 220 VKEANEMQTAIGLVAAGVGVTLVPRSV 246 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 0.138 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: 972,344 Number of extensions: 42604 Number of successful extensions: 183 Number of sequences better than 1.0e-08: 10 Number of HSP's gapped: 182 Number of HSP's successfully gapped: 10 Length of query: 301 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 216 Effective length of database: 1,217,395 Effective search space: 262957320 Effective search space used: 262957320 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)