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= 0020.0039.p (291 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309777|ref|YP_003773869.1| transcription regulator protein... 575 e-165 gi|300309921|ref|YP_003774013.1| LysR family transcription regul... 127 1e-30 gi|300313769|ref|YP_003777861.1| transcription regulator protein... 119 3e-28 gi|300312196|ref|YP_003776288.1| LysR family transcription regul... 118 6e-28 gi|300311929|ref|YP_003776021.1| LysR family transcription regul... 100 1e-22 >gi|300309777|ref|YP_003773869.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 291 Score = 575 bits (1481), Expect = e-165, Method: Compositional matrix adjust. Identities = 289/291 (99%), Positives = 289/291 (99%) Query: 1 MDINALVDFQLVAAHGSFGRASRESGRAKATLSRRVAELEEELGVRLVERGTQRLTVTEA 60 MDINALVDFQLVAAHGSFGRASRESGRAKATLSRRVAELEEELGVRLVERGTQRLTVTEA Sbjct: 1 MDINALVDFQLVAAHGSFGRASRESGRAKATLSRRVAELEEELGVRLVERGTQRLTVTEA 60 Query: 61 GELLLQRSEGPLRELAEAMTQAREGSSAPRGRLRIAAPLVFSQLALGRLAASFHAAYPQV 120 GELLLQRSEGPLRELAEAMTQAREGSSAPRGRLRIAAPLVFSQLALGRLAASFHAAYPQV Sbjct: 61 GELLLQRSEGPLRELAEAMTQAREGSSAPRGRLRIAAPLVFSQLALGRLAASFHAAYPQV 120 Query: 121 EVDVVAEDRLVDLVQEHFDLCIRINPSDDGNLVGRCFARDSLALVAAPTLSMPRARAGKS 180 EVDVVAEDRLVDLVQEHFDLCIRINPSDDGNLVGRCFARDSLALVAAPTL MPRARAGKS Sbjct: 121 EVDVVAEDRLVDLVQEHFDLCIRINPSDDGNLVGRCFARDSLALVAAPTLPMPRARAGKS 180 Query: 181 HPVPAVVMPTFRDGDLWSLREGKLLIAPQPVLRLSSLMMVKDAVCAGAGAALLPWSLASA 240 HPVPAVVMPTFRD DLWSLREGKLLIAPQPVLRLSSLMMVKDAVCAGAGAALLPWSLASA Sbjct: 181 HPVPAVVMPTFRDSDLWSLREGKLLIAPQPVLRLSSLMMVKDAVCAGAGAALLPWSLASA 240 Query: 241 LVEAGQLKLWGKLGGEVELWVLHTSRRLQSPKVRAFVDFMCRQYPDGRFVV 291 LVEAGQLKLWGKLGGEVELWVLHTSRRLQSPKVRAFVDFMCRQYPDGRFVV Sbjct: 241 LVEAGQLKLWGKLGGEVELWVLHTSRRLQSPKVRAFVDFMCRQYPDGRFVV 291 >gi|300309921|ref|YP_003774013.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 127 bits (319), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 97/285 (34%), Positives = 142/285 (49%), Gaps = 11/285 (3%) Query: 9 FQLVAAHGSFGRASRESGRAKATLSRRVAELEEELGVRLVERGTQRLTVTEAGELLLQRS 68 F VA GSF +A+ G +KA +SR V ELE LG RL++R T+RL++TEAG L L+R Sbjct: 10 FIAVADLGSFVKAAEALGISKAAVSRTVLELEARLGSRLMQRTTRRLSLTEAGALYLERC 69 Query: 69 EGPLRELAEAMTQAREGSSAPRGRLRIAAPLVFSQLALGRLAASFHAAYPQVEVDVVAED 128 + + L EA GS+ P G LRI APL F L L L F +P++ +D+ D Sbjct: 70 KQIVAALEEADDLLSSGSAKPTGLLRINAPLTFGVLHLAPLWPMFLERHPEISLDITLSD 129 Query: 129 RLVDLVQEHFDLCIRINPSDDGNLVGRCFARDSLALVAAPTLSMPRARAGKSHPVPAVVM 188 R+VD++ E +D+ IRI D LV R SL + A+P + A +HP Sbjct: 130 RIVDIIDEGYDMAIRIARLSDSTLVHRKLTSTSLHVCASP--AYLDAHGTPAHPHELAQH 187 Query: 189 PTFRDGDLWSLREGKLLIAPQPV-LRLSSLMMVKD------AVCAGAGAALLPWSLASAL 241 T S E + PV +R+SS + V + A G G P + Sbjct: 188 QTISYSYNQSKDEWQFNGPEGPVSVRVSSRLHVNNGDSCVQAALGGIGITRQPTFMIDQY 247 Query: 242 VEAGQL-KLWGKLGG-EVELWVLHTSRRLQSPKVRAFVDFMCRQY 284 + +GQL + G G E+ ++ ++ SR K+RA +DF+ + Sbjct: 248 LRSGQLVSILGDYGAPELGIYAVYPSRAHLPAKMRAMLDFLTEAF 292 >gi|300313769|ref|YP_003777861.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 318 Score = 119 bits (298), Expect = 3e-28, Method: Compositional matrix adjust. Identities = 95/294 (32%), Positives = 147/294 (50%), Gaps = 18/294 (6%) Query: 2 DINALVDFQLVAAHGSFGRASRESGRAKATLSRRVAELEEELGVRLVERGTQRLTVTEAG 61 D+N L F V HGSF A+R K+ +SRRVAELE+ LGVRL++R T+ + VTE G Sbjct: 3 DLNDLALFAAVVVHGSFSAAARALNTPKSRVSRRVAELEQRLGVRLLQRSTRVVRVTEVG 62 Query: 62 ELLLQRSEGPLRELAEAMTQAREGSSA-PRGRLRIAAPLVFSQLALGRLAASFHAAYPQV 120 E + A A + E + A P GRLR+++P+ + + L L A F A+P V Sbjct: 63 SAFFTHCEA-MTNAARAAVEVTEHAGARPAGRLRVSSPMGVAHVFLAPLLARFLCAHPDV 121 Query: 121 EVDVVAEDRLVDLVQEHFDLCIRINPS-DDGNLVGRCFARDSLALVAAPTLSMPRARAGK 179 +++ +R VD++ E FD+ +R+ + +D +LV R F L A+P + RA G Sbjct: 122 RLELELSNRRVDVIGEGFDVAMRVRSTLEDSSLVVRTFGTSQQVLAASP--AYVRAH-GP 178 Query: 180 SHPVPAV-------VMPTFRDGDLWSLR--EGKLL-IAPQPVLRLSSLMMVKDAVCAGAG 229 V ++ W L+ +G++ I P + + +V G G Sbjct: 179 FDTVQSLQGQRGLGPGGLPGQAQRWRLQGPDGEVAEIDYAPAMVTDDMQLVMQTAIGGVG 238 Query: 230 AALLPWSLASALVEAGQL--KLWGKLGGEVELWVLHTSRRLQSPKVRAFVDFMC 281 ALLP+++A + G+L L G +L + SRR P VRAF++F+ Sbjct: 239 LALLPFNVAHGAIARGELVVVLPQYRGAPHQLHAVFPSRRGLVPAVRAFIEFLA 292 >gi|300312196|ref|YP_003776288.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 308 Score = 118 bits (295), Expect = 6e-28, Method: Compositional matrix adjust. Identities = 91/298 (30%), Positives = 144/298 (48%), Gaps = 18/298 (6%) Query: 1 MD-INALVDFQLVAAHGSFGRASRESGRAKATLSRRVAELEEELGVRLVERGTQRLTVTE 59 MD + A+ F V GSF A +G++K +SR+V+ELE+ LG+RL+ R T+RL++T+ Sbjct: 1 MDKLQAMQTFVAVVESGSFVAAVDVTGQSKPAVSRQVSELEQFLGIRLLHRTTRRLSLTD 60 Query: 60 AGELLLQRSEGPLRELAEAMTQAREGSSAPRGRLRIAAPLVFSQLALGRLAASFHAAYPQ 119 G + R + L + + ++ S GRLRI AP F L L F +P Sbjct: 61 EGRVYFARCKELLETIQDVESEVGLNSDQACGRLRIGAPQDFGVEQLAPLWGKFTEQHPL 120 Query: 120 VEVDVVAEDRLVDLVQEHFDLCIRINPSDDGNLVGRCFARDSLALVAAPTLSMPRARAGK 179 + +++ DR +DL++E FD+ IRI+ D +V R A + AAP G Sbjct: 121 ITLNITLSDRTIDLLEEGFDMAIRISALGDSRMVARPLAPVRMIACAAPEFLARHGTPGT 180 Query: 180 S---HPVPAVVMPTFRDGDLWSLREGKLLIAPQPVLRLSSLMMVKD-AVC-----AGAGA 230 P + GD WS R + +R+ S + V + A C AG G Sbjct: 181 PAELRDYPFISYSYRAGGDDWSFRH---VHGDTCQVRVRSTVYVNNGATCRAMAIAGQGI 237 Query: 231 ALLPWSLASALVEAGQL----KLWGKLGGEVELWVLHTSRRLQSPKVRAFVDFMCRQY 284 A+ P + +A ++AGQL + W G ++ + L+ +R PKV+ DF+ Q+ Sbjct: 238 AIQPDFIVNAAIQAGQLVELFEGWST-GEQLVVHTLYPTRTHLPPKVQRMRDFLIEQF 294 >gi|300311929|ref|YP_003776021.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 304 Score = 100 bits (250), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 81/279 (29%), Positives = 129/279 (46%), Gaps = 17/279 (6%) Query: 16 GSFGRASRESGRAKATLSRRVAELEEELGVRLVERGTQRLTVTEAGELLLQRSEGPLREL 75 GSF A+ G A++SR ++ LE LGVRL R T+++ +T GEL + + L ++ Sbjct: 22 GSFTAAAEALGLTPASVSRSISRLESRLGVRLFARTTRQIRLTREGELYRDQCQQALEQI 81 Query: 76 AEAMTQAREGSSAPRGRLRIAAPLVFSQLALGRLAASFHAAYPQVEVDVVAEDRLVDLVQ 135 A+A P G LRI+ ++ L L F AYPQ+EV++ +R+VD V+ Sbjct: 82 ADAERILTGQQKVPSGLLRISVGTPYAHYRLLPLLPRFQQAYPQIEVELSIANRVVDFVE 141 Query: 136 EHFDLCIRINPSDDGNLVGRCFARDSLALVAAPTL----SMPRARAG-KSHPVPAVVMPT 190 E +DL IR+ D L+ +L L AAP PR+ A + H ++P+ Sbjct: 142 EGYDLAIRLGVPPDSRLIAHTLEEATLGLFAAPAYLARRGQPRSIAELEQHDCIQFILPS 201 Query: 191 FRDGDLWSLREGKLLIAPQPVLRLSSLMMVKDAV-------CAGAGAALLPWSLASALVE 243 W ++ + S + D V AG G + +A A V Sbjct: 202 SGRAMPWIFKDAQ---GRDMDFHFKSRQRIHDDVLGCVNWAIAGGGLFQIYHFIADAAVR 258 Query: 244 AGQL-KLWGKLGGEVELW-VLHTSRRLQSPKVRAFVDFM 280 G+L ++ + G + +L+ R S +VRAFV+F+ Sbjct: 259 RGELVEVLQQAGYRTRRFSILYPHNRHLSARVRAFVEFL 297 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 0.136 0.397 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: 822,360 Number of extensions: 31419 Number of successful extensions: 207 Number of sequences better than 1.0e-08: 47 Number of HSP's gapped: 198 Number of HSP's successfully gapped: 47 Length of query: 291 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 207 Effective length of database: 1,222,130 Effective search space: 252980910 Effective search space used: 252980910 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)