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= 0223.0004.p (300 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309921|ref|YP_003774013.1| LysR family transcription regul... 451 e-128 gi|300312196|ref|YP_003776288.1| LysR family transcription regul... 268 3e-73 gi|300313922|ref|YP_003778014.1| LysR family transcription regul... 219 2e-58 gi|300311424|ref|YP_003775516.1| LysR family transcription regul... 219 2e-58 gi|300311458|ref|YP_003775550.1| LysR family transcription regul... 214 6e-57 >gi|300309921|ref|YP_003774013.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 451 bits (1161), Expect = e-128, Method: Compositional matrix adjust. Identities = 208/299 (69%), Positives = 251/299 (83%) Query: 1 LNKLREIESFIAVAELGSFVKAADALNVSKAAVSRTILELEARLGARLMQRTTRRLSLTE 60 +NKLREIE FIAVA+LGSFVKAA+AL +SKAAVSRT+LELEARLG+RLMQRTTRRLSLTE Sbjct: 1 MNKLREIECFIAVADLGSFVKAAEALGISKAAVSRTVLELEARLGSRLMQRTTRRLSLTE 60 Query: 61 AGVLYLDRCKQIVSALEDADQMLTAGNTDPTGLLRINVPQTFGVLHLVKVWPCLLRRYPG 120 AG LYL+RCKQIV+ALE+AD +L++G+ PTGLLRIN P TFGVLHL +WP L R+P Sbjct: 61 AGALYLERCKQIVAALEEADDLLSSGSAKPTGLLRINAPLTFGVLHLAPLWPMFLERHPE 120 Query: 121 IKLDITLSDRIVDIVEEGYDMAIRIARLPSSSLIYRKLASTRIVVCAAPDYLERHGTPQH 180 I LDITLSDRIVDI++EGYDMAIRIARL S+L++RKL ST + VCA+P YL+ HGTP H Sbjct: 121 ISLDITLSDRIVDIIDEGYDMAIRIARLSDSTLVHRKLTSTSLHVCASPAYLDAHGTPAH 180 Query: 181 PEDLKDHTVLGYSYSADKDEWHFEGPDGPVSVKTNVRMHANNGDTCVAAALAGIGITRQP 240 P +L H + YSY+ KDEW F GP+GPVSV+ + R+H NNGD+CV AAL GIGITRQP Sbjct: 181 PHELAQHQTISYSYNQSKDEWQFNGPEGPVSVRVSSRLHVNNGDSCVQAALGGIGITRQP 240 Query: 241 TFMLNEHIRSGKLVRVMPDYTAVELGIYAVYPSRTHLPAKVRATIDFLVHAFEEVKWDD 299 TFM+++++RSG+LV ++ DY A ELGIYAVYPSR HLPAK+RA +DFL AF +V W+D Sbjct: 241 TFMIDQYLRSGQLVSILGDYGAPELGIYAVYPSRAHLPAKMRAMLDFLTEAFAQVHWND 299 >gi|300312196|ref|YP_003776288.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 308 Score = 268 bits (686), Expect = 3e-73, Method: Compositional matrix adjust. Identities = 133/299 (44%), Positives = 190/299 (63%), Gaps = 2/299 (0%) Query: 1 LNKLREIESFIAVAELGSFVKAADALNVSKAAVSRTILELEARLGARLMQRTTRRLSLTE 60 ++KL+ +++F+AV E GSFV A D SK AVSR + ELE LG RL+ RTTRRLSLT+ Sbjct: 1 MDKLQAMQTFVAVVESGSFVAAVDVTGQSKPAVSRQVSELEQFLGIRLLHRTTRRLSLTD 60 Query: 61 AGVLYLDRCKQIVSALEDADQMLTAGNTDPTGLLRINVPQTFGVLHLVKVWPCLLRRYPG 120 G +Y RCK+++ ++D + + + G LRI PQ FGV L +W ++P Sbjct: 61 EGRVYFARCKELLETIQDVESEVGLNSDQACGRLRIGAPQDFGVEQLAPLWGKFTEQHPL 120 Query: 121 IKLDITLSDRIVDIVEEGYDMAIRIARLPSSSLIYRKLASTRIVVCAAPDYLERHGTPQH 180 I L+ITLSDR +D++EEG+DMAIRI+ L S ++ R LA R++ CAAP++L RHGTP Sbjct: 121 ITLNITLSDRTIDLLEEGFDMAIRISALGDSRMVARPLAPVRMIACAAPEFLARHGTPGT 180 Query: 181 PEDLKDHTVLGYSYSADKDEWHFEGPDG-PVSVKTNVRMHANNGDTCVAAALAGIGITRQ 239 P +L+D+ + YSY A D+W F G V+ ++ NNG TC A A+AG GI Q Sbjct: 181 PAELRDYPFISYSYRAGGDDWSFRHVHGDTCQVRVRSTVYVNNGATCRAMAIAGQGIAIQ 240 Query: 240 PTFMLNEHIRSGKLVRVMPDY-TAVELGIYAVYPSRTHLPAKVRATIDFLVHAFEEVKW 297 P F++N I++G+LV + + T +L ++ +YP+RTHLP KV+ DFL+ F W Sbjct: 241 PDFIVNAAIQAGQLVELFEGWSTGEQLVVHTLYPTRTHLPPKVQRMRDFLIEQFRVPPW 299 >gi|300313922|ref|YP_003778014.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 308 Score = 219 bits (559), Expect = 2e-58, Method: Compositional matrix adjust. Identities = 120/304 (39%), Positives = 171/304 (56%), Gaps = 13/304 (4%) Query: 1 LNKLREIESFIAVAELGSFVKAADALNVSKAAVSRTILELEARLGARLMQRTTRRLSLTE 60 +++L ++ F+ V + GS AA+ L++S+ VSR + ELE +GARL+ RTTRRLSLT Sbjct: 1 MDRLMAMQVFVTVVDSGSLSAAAEQLDLSRPVVSRYVAELEDWVGARLLHRTTRRLSLTP 60 Query: 61 AGVLYLDRCKQIVSALEDADQMLTAGNTDPTGLLRINVPQTFGVLHLVKVWPCLLRRYPG 120 AG L RC+Q++ ED L A + P GLLRI +F L++ RRYPG Sbjct: 61 AGNELLPRCRQMLEYSEDMRHALDAPDETPRGLLRITASTSFAQTQLIQAVVEYGRRYPG 120 Query: 121 IKLDITLSDRIVDIVEEGYDMAIRIARLPSSSLIYRKLASTRIVVCAAPDYLERHGTPQH 180 + +D+ DR V++VEE D+AIR+ +LI R L R ++CA PDYL RHG P+ Sbjct: 121 VAVDLLALDRTVNLVEERIDLAIRMTNRLEPNLIARPLGVCRSIICATPDYLARHGLPRK 180 Query: 181 PEDLKDHTVLGYSYSADKDEWHFE------------GPDGPVSVKTNVRMHANNGDTCVA 228 EDL H L +SY + W F+ P SV + AN + Sbjct: 181 VEDLALHNCLTHSY-VGRSLWQFDPKKKKARSGRGASAAKPQSVAVGGSISANEVTVLLQ 239 Query: 229 AALAGIGITRQPTFMLNEHIRSGKLVRVMPDYTAVELGIYAVYPSRTHLPAKVRATIDFL 288 A LAG+GI P + + + SG+LV+++PDY ++LG+Y VY SR H+PA +R +DFL Sbjct: 240 AVLAGVGIGHMPAYTVAPLVASGQLVQLLPDYEPLQLGMYGVYASRKHMPATLRTMLDFL 299 Query: 289 VHAF 292 F Sbjct: 300 AQRF 303 >gi|300311424|ref|YP_003775516.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 327 Score = 219 bits (557), Expect = 2e-58, Method: Compositional matrix adjust. Identities = 116/302 (38%), Positives = 184/302 (60%), Gaps = 2/302 (0%) Query: 1 LNKLREIESFIAVAELGSFVKAADALNVSKAAVSRTILELEARLGARLMQRTTRRLSLTE 60 ++ L+ + F V E GSF +AA + ++ A VSR + +LE L RLM RTTRR++LTE Sbjct: 2 MDTLQNMRVFARVVEAGSFTQAAQQMGLTTAHVSRAVADLERHLRTRLMNRTTRRIALTE 61 Query: 61 AGVLYLDRCKQIVSALEDADQMLTAGNTDPTGLLRINVPQTFGVLHLVKVWPCLLRRYPG 120 AG YL RC+QI+S +++A+ +A P+G LRI+ +FG +++ +RYP Sbjct: 62 AGERYLLRCQQIMSYVDEAEAEASAAYVKPSGRLRIHAMTSFGQRYVIPSISGYHKRYPD 121 Query: 121 IKLDITLSDRIVDIVEEGYDMAIRIAR-LPSSSLIYRKLASTRIVVCAAPDYLERHGTPQ 179 + +++TL+ RI D++EEGYD+++ +AR LP S LIYR+L ST ++CA+P YL+++G PQ Sbjct: 122 VAVELTLAQRIPDMLEEGYDVSLVLARELPDSGLIYRQLGSTFSMLCASPAYLDKYGAPQ 181 Query: 180 HPEDLKDHTVLGY-SYSADKDEWHFEGPDGPVSVKTNVRMHANNGDTCVAAALAGIGITR 238 P DL +H L S + DEW EGP+G V N + + A G+GI Sbjct: 182 QPADLLNHACLQLVSPISPLDEWILEGPEGGTVVAVKSNFQVNVAEAMLTAIREGMGIGV 241 Query: 239 QPTFMLNEHIRSGKLVRVMPDYTAVELGIYAVYPSRTHLPAKVRATIDFLVHAFEEVKWD 298 P + + +R+G +VRV+P + +G+YA+YPSR +L AK+ +D++ + + Sbjct: 242 LPIYSAVDALRAGTIVRVLPQHRLQNMGVYALYPSRQYLDAKISTWVDWMHETVDRTLQE 301 Query: 299 DY 300 D+ Sbjct: 302 DH 303 >gi|300311458|ref|YP_003775550.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 303 Score = 214 bits (545), Expect = 6e-57, Method: Compositional matrix adjust. Identities = 112/301 (37%), Positives = 180/301 (59%), Gaps = 1/301 (0%) Query: 1 LNKLREIESFIAVAELGSFVKAADALNVSKAAVSRTILELEARLGARLMQRTTRRLSLTE 60 +++L+ + F V E GSFV+AA+ L++S A +R I +LEA LG RL+ R+TRRLSLTE Sbjct: 1 MDRLQSMRVFAKVVEQGSFVRAAELLDISNAVATRFIADLEAHLGTRLLNRSTRRLSLTE 60 Query: 61 AGVLYLDRCKQIVSALEDADQMLTAGNTDPTGLLRINVPQTFGVLHLVKVWPCLLRRYPG 120 AG YL+R + I++ ++DA+ +++ P G L I FG L ++ + YP Sbjct: 61 AGQAYLERVRMILAEVDDAEALVSLETKRPAGTLAIYCNAGFGQSQLGEMLSAYSQAYPE 120 Query: 121 IKLDITLSDRIVDIVEEGYDMAIRIARLP-SSSLIYRKLASTRIVVCAAPDYLERHGTPQ 179 + LDI+LS+R +D+VEEG D+ + +S+I R+L R+++C +P Y+ R G P+ Sbjct: 121 VALDISLSERSIDLVEEGIDIGFFSSMQKFDASMIVRQLGVARVILCTSPAYIARQGAPE 180 Query: 180 HPEDLKDHTVLGYSYSADKDEWHFEGPDGPVSVKTNVRMHANNGDTCVAAALAGIGITRQ 239 PEDL H L +S+ + WH G + V ++ +N+G ALAG+GI + Sbjct: 181 QPEDLSRHNCLNFSHEYLRHHWHVNTNGGVLDVPIVSKVVSNSGVLLRDLALAGMGIVLR 240 Query: 240 PTFMLNEHIRSGKLVRVMPDYTAVELGIYAVYPSRTHLPAKVRATIDFLVHAFEEVKWDD 299 P++ L + +RSG+LV+V+P + ++ + VYPSR L AKVR+ +F+ F + D Sbjct: 241 PSYSLGDDLRSGRLVQVLPGFDMGQVIMSMVYPSRRLLSAKVRSFAEFISARFPHPENDP 300 Query: 300 Y 300 + Sbjct: 301 W 301 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 0.137 0.402 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: 942,250 Number of extensions: 39824 Number of successful extensions: 229 Number of sequences better than 1.0e-08: 57 Number of HSP's gapped: 169 Number of HSP's successfully gapped: 57 Length of query: 300 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 215 Effective length of database: 1,217,395 Effective search space: 261739925 Effective search space used: 261739925 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)