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= 0023.0028.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|300313131|ref|YP_003777223.1| LysR family transcription regul... 408 e-115 gi|300313102|ref|YP_003777194.1| LysR family transcription regul... 118 5e-28 gi|300312750|ref|YP_003776842.1| LysR family transcription regul... 114 7e-27 gi|300309393|ref|YP_003773485.1| LysR family transcription regul... 112 4e-26 gi|300312961|ref|YP_003777053.1| transcription regulator protein... 108 7e-25 >gi|300313131|ref|YP_003777223.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 307 Score = 408 bits (1048), Expect = e-115, Method: Compositional matrix adjust. Identities = 206/305 (67%), Positives = 248/305 (81%), Gaps = 6/305 (1%) Query: 1 MISIKQLKYFVEIVAAGSYTRASERLYIAQSALSRQIKELENDIDVVLLRRDAKQVELTL 60 MISI+QL+YFVEIV A YTRA+ERL++AQSALSRQIKELE D+DVVLLRR+AK ELT Sbjct: 1 MISIRQLRYFVEIVEARGYTRAAERLFVAQSALSRQIKELEADLDVVLLRREAKTFELTQ 60 Query: 61 AGKDFYDRARKILDDMDQAIVQAHHIDKGERGAIRLLHSSSVPLSPPLGPCLNAVLQAFP 120 AG+DFY+R+RKIL D+D+A+ QA I KGE GA+RLLHSSSVPL+ PLGP LN L+AFP Sbjct: 61 AGQDFYERSRKILLDLDRAVAQARTIGKGEHGALRLLHSSSVPLTAPLGPMLNEALKAFP 120 Query: 121 GVTLEISQASSEHQALDVEEGRADLGLARTPILRKHPHLETITLYQEKLVVAVSLQHPLA 180 G++LEISQA SE+QA ++ EG AD+GLAR PILR +P+L + LY+E+LV AV H LA Sbjct: 121 GISLEISQAPSEYQAREIVEGSADIGLARLPILRANPNLASTVLYRERLVAAVPAGHRLA 180 Query: 181 QREVVGIAELRDELFVSMPHRERGGLSYLVAERCIAHGFFPRPARATSRKASLLSLVNAD 240 QR+ V IAELRDE FV++PHR+RGGLSYLVAERCIAHGF+PR ARATSRK SLLSLVNA Sbjct: 181 QRQEVEIAELRDEFFVTVPHRDRGGLSYLVAERCIAHGFYPRVARATSRKNSLLSLVNAG 240 Query: 241 FGIAIVPDSMRAIAV-AGVHFIDIREPDFQSAVVLMMRRDAPVMVGQFVQAFM-----QG 294 FGIA+VP SM + ++ AGV F +++PDF S V L+ RRDAP MVGQFV+AF+ G Sbjct: 241 FGIAVVPQSMASTSLAAGVSFPALKDPDFHSEVALLRRRDAPAMVGQFVEAFVARLHEAG 300 Query: 295 LQMPA 299 L PA Sbjct: 301 LSAPA 305 >gi|300313102|ref|YP_003777194.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 118 bits (296), Expect = 5e-28, Method: Compositional matrix adjust. Identities = 75/255 (29%), Positives = 135/255 (52%), Gaps = 7/255 (2%) Query: 1 MISIKQLKYFVEIVAAGSYTRASERLYIAQSALSRQIKELENDIDVVLLRRDAKQVELTL 60 MI ++ L YF + + RA+E L+I+Q L+RQI LE ++ L R + ++LT Sbjct: 1 MIELRHLTYFRTVAETLHFGRAAELLHISQPPLTRQIAALEKELGAQLFDRSKRAIQLTA 60 Query: 61 AGKDFYDRARKILDDMDQAIVQAHHIDKGERGAIR--LLHSSSVPLSPPLGPCLNAVLQA 118 AGK FY +I +++A G+ GA++ + S++ + P + +A A Sbjct: 61 AGKYFYRDTTEIFKALERAKRNVSSSSTGKSGALKVGFMMSTAYNILPSVTRHYSA---A 117 Query: 119 FPGVTLEISQASSEHQALDVEEGRADLGLARTPILRKHPHLETITLYQEKLVVAVSLQHP 178 +P V + +++ A D+E+ + D+G+ P L++ T+Y E L+ + H Sbjct: 118 YPEVDMRLTEYVPNLLATDIEDEKIDVGIMYRP--EDCRRLDSHTIYAEPLLAVLPRDHR 175 Query: 179 LAQREVVGIAELRDELFVSMPHRERGGLSYLVAERCIAHGFFPRPARATSRKASLLSLVN 238 LA R+ + AEL ++ F+S+P + L+ + C HGF PR T+ + ++++LV Sbjct: 176 LAGRQSISAAELAEDAFISIPRMIAPVVYDLIQQHCQLHGFRPRIVLETNLQQTIVNLVG 235 Query: 239 ADFGIAIVPDSMRAI 253 G+A+VP SM+A+ Sbjct: 236 EGLGVALVPTSMQAM 250 >gi|300312750|ref|YP_003776842.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 322 Score = 114 bits (286), Expect = 7e-27, Method: Compositional matrix adjust. Identities = 81/281 (28%), Positives = 139/281 (49%), Gaps = 7/281 (2%) Query: 2 ISIKQLKYFVEIVAAGSYTRASERLYIAQSALSRQIKELENDIDVVLLRRDAKQVELTLA 61 I ++ L+YF+ + G T+A+ER+ I Q LS+QI+ LE ++ V L R + +ELT + Sbjct: 19 IDLRLLRYFIAVAEEGHLTKAAERIGIQQPPLSQQIRVLERELGVTLFNRLPRGMELTDS 78 Query: 62 GKDFYDRARKILDDMDQAIVQAHHIDKGERGAIRLLHSSSVPLSPPLGPCLNAVLQAFPG 121 G AR +L +D + I +G+ G I + + S L P + + A P Sbjct: 79 GAALLIDARALLAQLDTTVASVRRIAQGKMGRIAVGFTESASLHPFVHSVIRAFRADAPD 138 Query: 122 VTLEISQASSEHQALDVEEGRADLGLARTPILRKHPHLETITLYQEKLVVAVSLQHPL-- 179 V + + ++++ + R DL R+P+ L T+ +E +V A+ + HPL Sbjct: 139 VAMTVEESNTNELIEALRGKRLDLAFVRSPV-GDSGGLTIETMLEEDMVAALPIDHPLVD 197 Query: 180 -AQREVVGIAELRDELFVSMPHRERG-GLSYLVAERCIAHGFFPRPARATSRKASLLSLV 237 +R+ + + L +E F+ M R G GL + C A GF P+ + + S LSLV Sbjct: 198 GGKRKSIALHALAEESFI-MTRRPNGPGLYDTIIAACHAAGFSPQVIQEARKNLSTLSLV 256 Query: 238 NADFGIAIVPDSMRAIAVAGVHFIDIR-EPDFQSAVVLMMR 277 A G+ ++P SM + GV ++ + PD ++ + L R Sbjct: 257 AAGVGVTVIPASMTRVNAEGVVYLKLTGAPDLKAPLHLAYR 297 >gi|300309393|ref|YP_003773485.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 296 Score = 112 bits (280), Expect = 4e-26, Method: Compositional matrix adjust. Identities = 78/279 (27%), Positives = 142/279 (50%), Gaps = 1/279 (0%) Query: 2 ISIKQLKYFVEIVAAGSYTRASERLYIAQSALSRQIKELENDIDVVLLRRDAKQVELTLA 61 + ++ L+YF+ + S+TRA+E++ I Q LS QIK LE ++ L R ++ VEL+ Sbjct: 1 MELRHLRYFLAVAEQRSFTRAAEKVGIGQPPLSMQIKALEEEVGGALFLRSSQGVELSEV 60 Query: 62 GKDFYDRARKILDDMDQAIVQAHHIDKGERGAIRLLHSSSVPLSPPLGPCLNAVLQAFPG 121 G+ A++ +D +QA+ A GE G +R+ +SS P + L + Sbjct: 61 GRVLLPHAQRAVDQAEQALRAARQAASGETGLLRMGFTSSAVFHPLVSHALQQFRERHRK 120 Query: 122 VTLEISQASSEHQALDVEEGRADLGLARTPILRKHPHLETITLYQEKLVVAVSLQHPLAQ 181 + + +S+ +E D+ + D R + L + L EKL VA+ HPLA+ Sbjct: 121 LEISLSEGITEQLLADIAASQLDAAFVRI-VTTPSAALGVVELPAEKLKVALPRSHPLAR 179 Query: 182 REVVGIAELRDELFVSMPHRERGGLSYLVAERCIAHGFFPRPARATSRKASLLSLVNADF 241 R+ + + +L E F+ +P + L + C A GF P+ + + S ++LV + Sbjct: 180 RKSLRLQDLASENFIMVPRGKGSALYDSIFSACQAAGFDPQVIQLAPQLTSAINLVASGL 239 Query: 242 GIAIVPDSMRAIAVAGVHFIDIREPDFQSAVVLMMRRDA 280 GI+IVP+++ + +A V +++I EP ++ + L R + Sbjct: 240 GISIVPEAIEQVQLAQVRYVEIVEPAPRAQLSLAYHRQS 278 >gi|300312961|ref|YP_003777053.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 108 bits (269), Expect = 7e-25, Method: Compositional matrix adjust. Identities = 80/284 (28%), Positives = 142/284 (50%), Gaps = 15/284 (5%) Query: 2 ISIKQLKYFVEIVAAGSYTRASERLYIAQSALSRQIKELENDIDVVLLRRDAKQVELTLA 61 + ++ LKYF + + S++RA+E L+IAQ LSRQI++LE + V L+ R ++ + LT+A Sbjct: 1 MELRHLKYFNAVASTLSFSRAAELLHIAQPPLSRQIRQLEEMLGVELIDRASRPIALTMA 60 Query: 62 GKDFYDRARKILDDMDQAIVQAHHIDKGERGAIR-LLHSSSVPLSPP-LGPCLNAVLQAF 119 GK FY++ ++L ++Q I++G R R H ++ P L L +++ F Sbjct: 61 GKFFYEQTLQVLSRLEQ-------IEEGTRVIARGRQHWFNIGFVPSALYGLLPEMIKRF 113 Query: 120 ----PGVTLEISQASSEHQALDVEEGRADLGLARTPILRKHPHLETITLYQEKLVVAVSL 175 P + + S+ + Q ++ GR D+G R PI P + T+ +E LV L Sbjct: 114 RTEMPEIEIGFSEIVTMEQVEALKSGRIDVGFGRLPI--SDPDIVCETIVEEPLVAVFPL 171 Query: 176 QHPLAQREVVGIAELRDELFVSMPHRERGGLSYLVAERCIAHGFFPRPARATSRKASLLS 235 HPL R V +A+L + F+ P R R + V + + P + + + + Sbjct: 172 GHPLLARNKVTLAQLAAQRFILYPARPRPSYADQVLDIFSSRALRPSIVKEANEMQTAIG 231 Query: 236 LVNADFGIAIVPDSMRAIAVAGVHFIDIREPDFQSAVVLMMRRD 279 LV A G+ +VP S++ + + V + + S V++ R + Sbjct: 232 LVAAGVGVTLVPRSVQGLHRSDVVYRPLSNKGVHSPVIMNFRAN 275 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 0.323 0.137 0.384 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: 822,846 Number of extensions: 31776 Number of successful extensions: 221 Number of sequences better than 1.0e-08: 47 Number of HSP's gapped: 194 Number of HSP's successfully gapped: 47 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 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 130 (54.7 bits)