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= 0001.2471.p (297 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311633|ref|YP_003775725.1| LysR family transcription regul... 540 e-155 gi|300313216|ref|YP_003777308.1| LysR family transcription regul... 112 3e-26 gi|300309386|ref|YP_003773478.1| LysR family transcription regul... 73 3e-14 gi|300313217|ref|YP_003777309.1| LysR family transcription regul... 67 1e-12 gi|300310159|ref|YP_003774251.1| LysR family transcription regul... 66 3e-12 >gi|300311633|ref|YP_003775725.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 306 Score = 540 bits (1391), Expect = e-155, Method: Compositional matrix adjust. Identities = 263/297 (88%), Positives = 279/297 (93%) Query: 1 MRLEQLNFHHLRYFWRVAKLGHLTRAAEELHTSQSAVSAQIRQLEKQLEEDLFLREGRRL 60 MRLEQLNFHHLRYFWRVAKLGHLTRAAEELHTSQSAVSAQIRQLEK L EDLF+REGRRL Sbjct: 1 MRLEQLNFHHLRYFWRVAKLGHLTRAAEELHTSQSAVSAQIRQLEKHLGEDLFIREGRRL 60 Query: 61 TLTDTGQLVFTYADNIFGLSQEMLGRLEGRSAGVTRLRVGSVATLSRNYQENWIRPMLSD 120 +L+DTGQLVFTYADNIFGLSQEMLGRLEGRSAGVTRLRVGSVATLSRNYQENW+RPMLSD Sbjct: 61 SLSDTGQLVFTYADNIFGLSQEMLGRLEGRSAGVTRLRVGSVATLSRNYQENWLRPMLSD 120 Query: 121 PSVSLTLESGLLEGLLERLMQHQLDVVLANETVPSDPDRPLHCRFLGSQAVSVVGPAHRW 180 PSV+LTLESG LEGLLERL+QHQLDVVLANETVP+DPDRPLHCRFLGSQAVSVVGPAHRW Sbjct: 121 PSVALTLESGQLEGLLERLVQHQLDVVLANETVPADPDRPLHCRFLGSQAVSVVGPAHRW 180 Query: 181 EARSLRIPQDLEGLDMALPGPRHALRMQFDALCISNDVRPRMRAEVDDMAMLRLIARDSG 240 EA SLRIP+DLEG+DMALPGPRHALRM+FDALC+S DVRPR+RAEVDDMAMLRLIARDSG Sbjct: 181 EAGSLRIPEDLEGIDMALPGPRHALRMRFDALCVSADVRPRLRAEVDDMAMLRLIARDSG 240 Query: 241 WLTVLPEVVVQDELRNGTLVAAGQASELVESFYAITTPHHHYADLLEPLLGEGAQAA 297 WL+VLPEVVVQDELRNG LV GQ +ELVE+FYAITTP HHY L+E LL A A Sbjct: 241 WLSVLPEVVVQDELRNGVLVTVGQTTELVENFYAITTPQHHYGGLVERLLNGSAATA 297 >gi|300313216|ref|YP_003777308.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 303 Score = 112 bits (280), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 84/275 (30%), Positives = 126/275 (45%), Gaps = 4/275 (1%) Query: 6 LNFHHLRYFWRVAKLGHLTRAAEELHTSQSAVSAQIRQLEKQLEEDLFLREGRRLTLTDT 65 LN+ HL YFW VAK G + RA+E LH + +S Q+ E+ L LF R GRRL L D Sbjct: 4 LNYKHLHYFWTVAKTGGVARASERLHLTAQTISGQLSLFEESLGYPLFRRVGRRLELNDE 63 Query: 66 GQLVFTYADNIFGLSQEMLGRLEGRSAG-VTRLRVGSVATLSRNYQENWIRPMLS--DPS 122 G++VF YA+ IF + +E+ L R G +LRVG + + + L+ DP Sbjct: 64 GRMVFDYAERIFSIGEELEEALRLRPGGRALQLRVGVADAVPKAIAYLLLESALAMQDP- 122 Query: 123 VSLTLESGLLEGLLERLMQHQLDVVLANETVPSDPDRPLHCRFLGSQAVSVVGPAHRWEA 182 + + G L+ LL L H+LD+++A+ +P + D + LG S Sbjct: 123 IRIICREGKLDVLLADLALHKLDIIIADSPMPPNVDVRGYHHLLGECDTSFFATPELARR 182 Query: 183 RSLRIPQDLEGLDMALPGPRHALRMQFDALCISNDVRPRMRAEVDDMAMLRLIARDSGWL 242 P +G +PG A+R + +RPR+ E DD A+L + Sbjct: 183 YRKGFPGSFDGAPFLMPGEDAAVRPRLLRWFEKEKIRPRITGEFDDGALLLAFGDAGAGI 242 Query: 243 TVLPEVVVQDELRNGTLVAAGQASELVESFYAITT 277 P + + LV G+ + E FYAI+ Sbjct: 243 FAAPAAIAAQIRKQYGLVEIGRTEAIREQFYAISV 277 >gi|300309386|ref|YP_003773478.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 301 Score = 73.2 bits (178), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 66/257 (25%), Positives = 114/257 (44%), Gaps = 30/257 (11%) Query: 6 LNFHHLRYFWRVAKLGHLTRAAEELHTSQSAVSAQIRQLEKQLEEDLFLREGRRLTLTDT 65 ++ LRYF + +RAA+ LH +QS VS +RQLE++++ L +R+GRRL LTDT Sbjct: 1 MDIRALRYFTETVRHSSFSRAADALHVTQSTVSKMVRQLEEEVDAPLLIRDGRRLQLTDT 60 Query: 66 GQLVFTYADNIFGLSQEMLGRLEGRSAGVTRLRVGSVATLSRNYQENWIRPMLS------ 119 G++V+ I Q RL LR G + E I PM++ Sbjct: 61 GRVVYEQGQQILAAMQ----RLHAEVRDTKALRSGRL--------EIGIPPMINILCTPV 108 Query: 120 -------DPSVSLTLESGLLEGLLERLMQHQLDVVLANETVPSDPDRPLHCRFLGSQAVS 172 P +++ L+ + +R+ +L++ + +P+DP+ L + S + Sbjct: 109 LKAFRERHPDIAVVLQEDTGPQIEQRVANGELEIGMT--VLPADPELGLETLPVASYPMW 166 Query: 173 VVGPAHRWEAR--SLRIPQDLEGLDMALPGPRHALRMQFDALCISNDVRPRMRAEVDDMA 230 V A ++ SLR Q L+G+ + L L + + ++P + A+ Sbjct: 167 AVAQAGSFQKNRASLRCAQ-LDGMPLVLLNNEFGLTRSLRGVFREHGIKPEIVAQSAQWD 225 Query: 231 MLRLIARDSGWLTVLPE 247 L +A +LPE Sbjct: 226 WLVAMALAGMGTALLPE 242 >gi|300313217|ref|YP_003777309.1| LysR family transcription regulator [Herbaspirillum seropedicae SmR1] Length = 296 Score = 67.4 bits (163), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 53/160 (33%), Positives = 80/160 (50%), Gaps = 17/160 (10%) Query: 6 LNFHHLRYFWRVAKLGHLTRAAEELHTSQSAVSAQIRQLEKQLEEDLFLREGRRLTLTDT 65 + L F V G +TRAAE L+ QS V+ +I+QLE+ + LF+R+ RR+ LT Sbjct: 10 MELAELEIFRTVVAEGGVTRAAERLNRVQSNVTTRIKQLEQSMGVPLFVRDRRRMVLTAA 69 Query: 66 GQLVFTYADNIFGLSQEMLGRLEGRSAGVTRLRVGSV--ATLSR------NYQENWIRPM 117 G+ + YA+ I L+QE + +S RLR+GS+ A SR + + W Sbjct: 70 GEALLDYAERILDLAQEARQAVAPQSPR-GRLRIGSMESAAASRLPGPLAEFHQRW---- 124 Query: 118 LSDPSVSLTLESGLLEGLLERLMQHQLDVVLANETVPSDP 157 P V L L + + L+ ++ +LD L V SDP Sbjct: 125 ---PEVRLELSTAPTDVLMAQVRACKLDAALVAGPV-SDP 160 >gi|300310159|ref|YP_003774251.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 309 Score = 66.2 bits (160), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 83/286 (29%), Positives = 127/286 (44%), Gaps = 41/286 (14%) Query: 6 LNFHHLRYFWRVAKLGHLTRAAEELHTSQSAVSAQIRQLEKQLEEDLFLREGRRLTLTDT 65 + F HLRYF V + G + AA LH +Q A+S QI+ LE++L LF R R TLT Sbjct: 1 MEFRHLRYFLGVVEHGSVAEAARRLHIAQPALSRQIKYLEEELGAALFDRSVRGATLTAA 60 Query: 66 GQLVFTYADNIFGLSQEMLGRLEGRSAGVT-RLRVGSVATLSRNYQENWIRPML------ 118 GQ + A + QE R+ + G+ LR+G ++ N+ W +L Sbjct: 61 GQQLVIDARRMLADLQETRQRVARVAEGLEGNLRMG----ITPNF--GWHPRILGSLRHF 114 Query: 119 --SDPSVSLTLESGLLEGLLERLMQHQLDV-VLANETVPSDPDRPLHCRFLGSQAVSVVG 175 ++P ++++LE GL LER+ LD LA P+D +FL + G Sbjct: 115 HQAEPQIAVSLEPGLSARQLERIRSGDLDAGFLAWRYPPND-------QFLAHE----FG 163 Query: 176 PAHRWEAR-SLRIPQDLEGLDMALPGPRHALRMQFD-ALCISNDVRPRMRAEVD-DMAML 232 +E R L +P+D + +A PRH + + A+ +V P ++ M+ Sbjct: 164 EIQVFECRLKLALPRDSQ---LARQVPRHLAALHDEPAIWFPAEVAPGYDQFLNYQCQMV 220 Query: 233 RLIARDSGWLTVLPEVVVQDELRNGTLVAAGQASELVESFYAITTP 278 L+ R + + D L LVAAG +V A T P Sbjct: 221 NLVPRKAQ--------LASDVLSILGLVAAGVGYAIVSDVSAYTCP 258 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 0.396 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: 892,924 Number of extensions: 34985 Number of successful extensions: 199 Number of sequences better than 1.0e-08: 28 Number of HSP's gapped: 196 Number of HSP's successfully gapped: 28 Length of query: 297 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 212 Effective length of database: 1,217,395 Effective search space: 258087740 Effective search space used: 258087740 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)