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= 0005.0206.p (313 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311424|ref|YP_003775516.1| LysR family transcription regul... 528 e-151 gi|300309921|ref|YP_003774013.1| LysR family transcription regul... 222 3e-59 gi|300311458|ref|YP_003775550.1| LysR family transcription regul... 211 8e-56 gi|300313922|ref|YP_003778014.1| LysR family transcription regul... 186 3e-48 gi|300311443|ref|YP_003775535.1| LysR family transcription regul... 179 3e-46 >gi|300311424|ref|YP_003775516.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 327 Score = 528 bits (1359), Expect = e-151, Method: Compositional matrix adjust. Identities = 254/308 (82%), Positives = 288/308 (93%) Query: 1 MDTLQNMRIFMRVVDAGSFTLAAQQMELTTAHVSRAVADLERHLRTRLLNRTTRRIALTE 60 MDTLQNMR+F RVV+AGSFT AAQQM LTTAHVSRAVADLERHLRTRL+NRTTRRIALTE Sbjct: 2 MDTLQNMRVFARVVEAGSFTQAAQQMGLTTAHVSRAVADLERHLRTRLMNRTTRRIALTE 61 Query: 61 AGERYLLRCEQIVSYVQEAEAEASDAYVRPSGRLRIHTMTSFGQRYVIPAVSSYQKRYPD 120 AGERYLLRC+QI+SYV EAEAEAS AYV+PSGRLRIH MTSFGQRYVIP++S Y KRYPD Sbjct: 62 AGERYLLRCQQIMSYVDEAEAEASAAYVKPSGRLRIHAMTSFGQRYVIPSISGYHKRYPD 121 Query: 121 VAIELTLAQRIPDLLEEGFDVSLVLARELPDSGLIFRQLSSIYSILCASPLYLEKHGTPQ 180 VA+ELTLAQRIPD+LEEG+DVSLVLARELPDSGLI+RQL S +S+LCASP YL+K+G PQ Sbjct: 122 VAVELTLAQRIPDMLEEGYDVSLVLARELPDSGLIYRQLGSTFSMLCASPAYLDKYGAPQ 181 Query: 181 KPQELLNHNCLQLVSPVSPLDEWAMEGPDGREVVAIKSNFHVNVAEAMLLSLKEGMGIGV 240 +P +LLNH CLQLVSP+SPLDEW +EGP+G VVA+KSNF VNVAEAML +++EGMGIGV Sbjct: 182 QPADLLNHACLQLVSPISPLDEWILEGPEGGTVVAVKSNFQVNVAEAMLTAIREGMGIGV 241 Query: 241 LPLYSAVDALRAGTIVRVLPRYRMQDMGVYALYPSRQYLDAKISTWVDWMHESVDKALQD 300 LP+YSAVDALRAGTIVRVLP++R+Q+MGVYALYPSRQYLDAKISTWVDWMHE+VD+ LQ+ Sbjct: 242 LPIYSAVDALRAGTIVRVLPQHRLQNMGVYALYPSRQYLDAKISTWVDWMHETVDRTLQE 301 Query: 301 DHQALDRL 308 DHQAL+RL Sbjct: 302 DHQALERL 309 >gi|300309921|ref|YP_003774013.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 222 bits (566), Expect = 3e-59, Method: Compositional matrix adjust. Identities = 116/301 (38%), Positives = 187/301 (62%), Gaps = 2/301 (0%) Query: 1 MDTLQNMRIFMRVVDAGSFTLAAQQMELTTAHVSRAVADLERHLRTRLLNRTTRRIALTE 60 M+ L+ + F+ V D GSF AA+ + ++ A VSR V +LE L +RL+ RTTRR++LTE Sbjct: 1 MNKLREIECFIAVADLGSFVKAAEALGISKAAVSRTVLELEARLGSRLMQRTTRRLSLTE 60 Query: 61 AGERYLLRCEQIVSYVQEAEAEASDAYVRPSGRLRIHTMTSFGQRYVIPAVSSYQKRYPD 120 AG YL RC+QIV+ ++EA+ S +P+G LRI+ +FG ++ P + +R+P+ Sbjct: 61 AGALYLERCKQIVAALEEADDLLSSGSAKPTGLLRINAPLTFGVLHLAPLWPMFLERHPE 120 Query: 121 VAIELTLAQRIPDLLEEGFDVSLVLARELPDSGLIFRQLSSIYSILCASPLYLEKHGTPQ 180 +++++TL+ RI D+++EG+D+++ +AR L DS L+ R+L+S +CASP YL+ HGTP Sbjct: 121 ISLDITLSDRIVDIIDEGYDMAIRIAR-LSDSTLVHRKLTSTSLHVCASPAYLDAHGTPA 179 Query: 181 KPQELLNHNCLQLVSPVSPLDEWAMEGPDGREVVAIKSNFHVNVAEAMLLSLKEGMGIGV 240 P EL H + S DEW GP+G V + S HVN ++ + + G+GI Sbjct: 180 HPHELAQHQTISYSYNQSK-DEWQFNGPEGPVSVRVSSRLHVNNGDSCVQAALGGIGITR 238 Query: 241 LPLYSAVDALRAGTIVRVLPRYRMQDMGVYALYPSRQYLDAKISTWVDWMHESVDKALQD 300 P + LR+G +V +L Y ++G+YA+YPSR +L AK+ +D++ E+ + + Sbjct: 239 QPTFMIDQYLRSGQLVSILGDYGAPELGIYAVYPSRAHLPAKMRAMLDFLTEAFAQVHWN 298 Query: 301 D 301 D Sbjct: 299 D 299 >gi|300311458|ref|YP_003775550.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 303 Score = 211 bits (536), Expect = 8e-56, Method: Compositional matrix adjust. Identities = 116/290 (40%), Positives = 176/290 (60%), Gaps = 1/290 (0%) Query: 1 MDTLQNMRIFMRVVDAGSFTLAAQQMELTTAHVSRAVADLERHLRTRLLNRTTRRIALTE 60 MD LQ+MR+F +VV+ GSF AA+ ++++ A +R +ADLE HL TRLLNR+TRR++LTE Sbjct: 1 MDRLQSMRVFAKVVEQGSFVRAAELLDISNAVATRFIADLEAHLGTRLLNRSTRRLSLTE 60 Query: 61 AGERYLLRCEQIVSYVQEAEAEASDAYVRPSGRLRIHTMTSFGQRYVIPAVSSYQKRYPD 120 AG+ YL R I++ V +AEA S RP+G L I+ FGQ + +S+Y + YP+ Sbjct: 61 AGQAYLERVRMILAEVDDAEALVSLETKRPAGTLAIYCNAGFGQSQLGEMLSAYSQAYPE 120 Query: 121 VAIELTLAQRIPDLLEEGFDVSLVLARELPDSGLIFRQLSSIYSILCASPLYLEKHGTPQ 180 VA++++L++R DL+EEG D+ + + D+ +I RQL ILC SP Y+ + G P+ Sbjct: 121 VALDISLSERSIDLVEEGIDIGFFSSMQKFDASMIVRQLGVARVILCTSPAYIARQGAPE 180 Query: 181 KPQELLNHNCLQLVSPVSPLDEWAMEGPDGREVVAIKSNFHVNVAEAMLLSLKEGMGIGV 240 +P++L HNCL S W + G V I S N + GMGI + Sbjct: 181 QPEDLSRHNCLNF-SHEYLRHHWHVNTNGGVLDVPIVSKVVSNSGVLLRDLALAGMGIVL 239 Query: 241 LPLYSAVDALRAGTIVRVLPRYRMQDMGVYALYPSRQYLDAKISTWVDWM 290 P YS D LR+G +V+VLP + M + + +YPSR+ L AK+ ++ +++ Sbjct: 240 RPSYSLGDDLRSGRLVQVLPGFDMGQVIMSMVYPSRRLLSAKVRSFAEFI 289 >gi|300313922|ref|YP_003778014.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 308 Score = 186 bits (471), Expect = 3e-48, Method: Compositional matrix adjust. Identities = 109/302 (36%), Positives = 172/302 (56%), Gaps = 11/302 (3%) Query: 1 MDTLQNMRIFMRVVDAGSFTLAAQQMELTTAHVSRAVADLERHLRTRLLNRTTRRIALTE 60 MD L M++F+ VVD+GS + AA+Q++L+ VSR VA+LE + RLL+RTTRR++LT Sbjct: 1 MDRLMAMQVFVTVVDSGSLSAAAEQLDLSRPVVSRYVAELEDWVGARLLHRTTRRLSLTP 60 Query: 61 AGERYLLRCEQIVSYVQEAEAEASDAYVRPSGRLRIHTMTSFGQRYVIPAVSSYQKRYPD 120 AG L RC Q++ Y ++ P G LRI TSF Q +I AV Y +RYP Sbjct: 61 AGNELLPRCRQMLEYSEDMRHALDAPDETPRGLLRITASTSFAQTQLIQAVVEYGRRYPG 120 Query: 121 VAIELTLAQRIPDLLEEGFDVSLVLARELPDSGLIFRQLSSIYSILCASPLYLEKHGTPQ 180 VA++L R +L+EE D+++ + L + LI R L SI+CA+P YL +HG P+ Sbjct: 121 VAVDLLALDRTVNLVEERIDLAIRMTNRL-EPNLIARPLGVCRSIICATPDYLARHGLPR 179 Query: 181 KPQELLNHNCLQ---LVSPVSPLDEWAMEGPDGR-------EVVAIKSNFHVNVAEAMLL 230 K ++L HNCL + + D + GR + VA+ + N +L Sbjct: 180 KVEDLALHNCLTHSYVGRSLWQFDPKKKKARSGRGASAAKPQSVAVGGSISANEVTVLLQ 239 Query: 231 SLKEGMGIGVLPLYSAVDALRAGTIVRVLPRYRMQDMGVYALYPSRQYLDAKISTWVDWM 290 ++ G+GIG +P Y+ + +G +V++LP Y +G+Y +Y SR+++ A + T +D++ Sbjct: 240 AVLAGVGIGHMPAYTVAPLVASGQLVQLLPDYEPLQLGMYGVYASRKHMPATLRTMLDFL 299 Query: 291 HE 292 + Sbjct: 300 AQ 301 >gi|300311443|ref|YP_003775535.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 324 Score = 179 bits (453), Expect = 3e-46, Method: Compositional matrix adjust. Identities = 100/300 (33%), Positives = 159/300 (53%), Gaps = 2/300 (0%) Query: 1 MDTLQNMRIFMRVVDAGSFTLAAQQMELTTAHVSRAVADLERHLRTRLLNRTTRRIALTE 60 M L ++ +F+ VV AGSF A +++ + +SR + LE + RLL R+TR++ +T Sbjct: 1 MLDLNDIWLFVHVVRAGSFAAAGRRLSMPPNTISRRLQSLEAAMGVRLLQRSTRQLNMTA 60 Query: 61 AGERYLLRCEQIVSYVQEAEAEASDAYVRPSGRLRIHTMTSFGQRYVIPAVSSYQKRYPD 120 AG + RC + ++ A A +++ P+G LR+ F + I + + YP Sbjct: 61 AGREFFERCAPGLEDIEHASASLTESQGEPAGSLRVAAPVDFFDNFSIEWMHEFMHLYPK 120 Query: 121 VAIELTLAQRIPDLLEEGFDVSLVLARELPDSGLIFRQLSSIYSILCASPLYLEKHGTPQ 180 V +E L DL+ EG D++ LPDS L+ R+L + L ASP YLE+ GTPQ Sbjct: 121 VQLEFVLNDGRADLIAEGIDLAF-RGGVLPDSSLVARKLVQSHLALIASPRYLERQGTPQ 179 Query: 181 KPQELLNHNCLQLVSPVSPLDEWAMEGPDGREVVAIKSNFHVNVAEAMLLSLKEGMGIGV 240 +L H CL S W +EGP G E V + VN A+ L + + G+GI + Sbjct: 180 SLTDLTAHACLA-TSQAPQHTVWKLEGPHGPESVKVTPRLCVNTAQGQLRAARAGLGIAL 238 Query: 241 LPLYSAVDALRAGTIVRVLPRYRMQDMGVYALYPSRQYLDAKISTWVDWMHESVDKALQD 300 LP A + LR GT+V +LP Y+ MG YA+Y R+ L + +S +++ + +++ + D Sbjct: 239 LPTMLASEDLRNGTLVNILPDYQRDTMGFYAVYVHRRQLPSAVSALIEFFADKLERGIAD 298 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 0.389 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: 900,134 Number of extensions: 36285 Number of successful extensions: 198 Number of sequences better than 1.0e-08: 56 Number of HSP's gapped: 151 Number of HSP's successfully gapped: 56 Length of query: 313 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 228 Effective length of database: 1,217,395 Effective search space: 277566060 Effective search space used: 277566060 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)