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= 0005.0085.p (293 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312244|ref|YP_003776336.1| LysR family transcription regul... 462 e-131 gi|300312196|ref|YP_003776288.1| LysR family transcription regul... 202 3e-53 gi|300309921|ref|YP_003774013.1| LysR family transcription regul... 190 1e-49 gi|300312334|ref|YP_003776426.1| transcription regulator protein... 164 9e-42 gi|300311458|ref|YP_003775550.1| LysR family transcription regul... 163 1e-41 >gi|300312244|ref|YP_003776336.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 293 Score = 462 bits (1190), Expect = e-131, Method: Compositional matrix adjust. Identities = 218/293 (74%), Positives = 261/293 (89%) Query: 1 MAMQSDEMRIFIAVVEAGSLSAAAEVLEQTTSGVSRALTRLEEKLGTSLLTRTTRRMDLT 60 M++QS+E+R F+AVVEAG+LSAAAE+L QTTSGVSRAL+RLE+KLG SLLTRTTRRM+LT Sbjct: 1 MSLQSEELRTFVAVVEAGTLSAAAELLAQTTSGVSRALSRLEDKLGASLLTRTTRRMELT 60 Query: 61 EEGQVFLEQAREIVAAMERAEESIRIRSQKPVGKLRVDASAPFMLHCIVPHVGAFREAYP 120 EEG+ FLEQAR I+AAME A++SIR+R++KPVGKLRVDASAPFMLHC+VPHVG FR AYP Sbjct: 61 EEGRAFLEQARAILAAMESAQDSIRLRTRKPVGKLRVDASAPFMLHCVVPHVGQFRAAYP 120 Query: 121 DIELDLTTNDRFIDLVEQRTDIAIRIGELQDSTLHAKPLTSARLQLLASPEYLRRHGTPK 180 DIEL+LTTNDRFIDLVE R DIAIRIGELQDS+LHA+ L+SARL ++ASP YL RHG P+ Sbjct: 121 DIELELTTNDRFIDLVEHRADIAIRIGELQDSSLHARALSSARLNVVASPAYLARHGEPE 180 Query: 181 TVKDLDKHQLIGFTQPEGLNNWPLQHEDGDRYPIRPALRASSGETIRQLALHGQGIACLS 240 +V+ L++HQLIGF+QP+ LN+WPL+H GDRY RPA+RASSGETIR LAL GQGIACLS Sbjct: 181 SVEALEQHQLIGFSQPDQLNHWPLRHSAGDRYQTRPAIRASSGETIRHLALQGQGIACLS 240 Query: 241 NFMLDADVKEGRLVRLLEKSHTAFRQQIHAVYYRNTRISRRISCFLDFLQCKL 293 NFM DAD+ GRLVRLL ++ + +RQ+I AVYY +T++SRRISCFLDFLQ KL Sbjct: 241 NFMSDADIAAGRLVRLLPQADSGYRQKISAVYYYSTQLSRRISCFLDFLQEKL 293 >gi|300312196|ref|YP_003776288.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 308 Score = 202 bits (513), Expect = 3e-53, Method: Compositional matrix adjust. Identities = 106/284 (37%), Positives = 170/284 (59%), Gaps = 2/284 (0%) Query: 8 MRIFIAVVEAGSLSAAAEVLEQTTSGVSRALTRLEEKLGTSLLTRTTRRMDLTEEGQVFL 67 M+ F+AVVE+GS AA +V Q+ VSR ++ LE+ LG LL RTTRR+ LT+EG+V+ Sbjct: 7 MQTFVAVVESGSFVAAVDVTGQSKPAVSRQVSELEQFLGIRLLHRTTRRLSLTDEGRVYF 66 Query: 68 EQAREIVAAMERAEESIRIRSQKPVGKLRVDASAPFMLHCIVPHVGAFREAYPDIELDLT 127 + +E++ ++ E + + S + G+LR+ A F + + P G F E +P I L++T Sbjct: 67 ARCKELLETIQDVESEVGLNSDQACGRLRIGAPQDFGVEQLAPLWGKFTEQHPLITLNIT 126 Query: 128 TNDRFIDLVEQRTDIAIRIGELQDSTLHAKPLTSARLQLLASPEYLRRHGTPKTVKDLDK 187 +DR IDL+E+ D+AIRI L DS + A+PL R+ A+PE+L RHGTP T +L Sbjct: 127 LSDRTIDLLEEGFDMAIRISALGDSRMVARPLAPVRMIACAAPEFLARHGTPGTPAELRD 186 Query: 188 HQLIGFTQPEGLNNWPLQHEDGD--RYPIRPALRASSGETIRQLALHGQGIACLSNFMLD 245 + I ++ G ++W +H GD + +R + ++G T R +A+ GQGIA +F+++ Sbjct: 187 YPFISYSYRAGGDDWSFRHVHGDTCQVRVRSTVYVNNGATCRAMAIAGQGIAIQPDFIVN 246 Query: 246 ADVKEGRLVRLLEKSHTAFRQQIHAVYYRNTRISRRISCFLDFL 289 A ++ G+LV L E T + +H +Y T + ++ DFL Sbjct: 247 AAIQAGQLVELFEGWSTGEQLVVHTLYPTRTHLPPKVQRMRDFL 290 >gi|300309921|ref|YP_003774013.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 190 bits (482), Expect = 1e-49, Method: Compositional matrix adjust. Identities = 108/284 (38%), Positives = 164/284 (57%), Gaps = 2/284 (0%) Query: 7 EMRIFIAVVEAGSLSAAAEVLEQTTSGVSRALTRLEEKLGTSLLTRTTRRMDLTEEGQVF 66 E+ FIAV + GS AAE L + + VSR + LE +LG+ L+ RTTRR+ LTE G ++ Sbjct: 6 EIECFIAVADLGSFVKAAEALGISKAAVSRTVLELEARLGSRLMQRTTRRLSLTEAGALY 65 Query: 67 LEQAREIVAAMERAEESIRIRSQKPVGKLRVDASAPFMLHCIVPHVGAFREAYPDIELDL 126 LE+ ++IVAA+E A++ + S KP G LR++A F + + P F E +P+I LD+ Sbjct: 66 LERCKQIVAALEEADDLLSSGSAKPTGLLRINAPLTFGVLHLAPLWPMFLERHPEISLDI 125 Query: 127 TTNDRFIDLVEQRTDIAIRIGELQDSTLHAKPLTSARLQLLASPEYLRRHGTPKTVKDLD 186 T +DR +D++++ D+AIRI L DSTL + LTS L + ASP YL HGTP +L Sbjct: 126 TLSDRIVDIIDEGYDMAIRIARLSDSTLVHRKLTSTSLHVCASPAYLDAHGTPAHPHELA 185 Query: 187 KHQLIGFTQPEGLNNWPLQHEDGD-RYPIRPALRASSGETIRQLALHGQGIACLSNFMLD 245 +HQ I ++ + + W +G + L ++G++ Q AL G GI FM+D Sbjct: 186 QHQTISYSYNQSKDEWQFNGPEGPVSVRVSSRLHVNNGDSCVQAALGGIGITRQPTFMID 245 Query: 246 ADVKEGRLVRLLEKSHTAFRQQIHAVYYRNTRISRRISCFLDFL 289 ++ G+LV +L + A I+AVY + ++ LDFL Sbjct: 246 QYLRSGQLVSIL-GDYGAPELGIYAVYPSRAHLPAKMRAMLDFL 288 >gi|300312334|ref|YP_003776426.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 302 Score = 164 bits (415), Expect = 9e-42, Method: Compositional matrix adjust. Identities = 101/288 (35%), Positives = 153/288 (53%), Gaps = 2/288 (0%) Query: 4 QSDEMRIFIAVVEAGSLSAAAEVLEQTTSGVSRALTRLEEKLGTSLLTRTTRRMDLTEEG 63 Q ++ F V GSLSAAA + + R L LEE+LG LL RTTR++ LT EG Sbjct: 3 QFKQISTFAEVAARGSLSAAARAEGIAPAMIGRRLDALEERLGVKLLQRTTRKIVLTNEG 62 Query: 64 QVFLEQAREIVAAMERAEESIRIRSQKPVGKLRVDASAPFMLHCIVPHVGAFREAYPDIE 123 FLE + I+A +E AE ++ RS + G+L + A A F + P + +F + D+ Sbjct: 63 AAFLEDCQRILADLEDAESAVSERSARASGQLLISAPAGFGRQHVAPLLPSFLAEHRDVT 122 Query: 124 LDLTTNDRFIDLVEQRTDIAIRIGELQDSTLHAKPLTSARLQLLASPEYLRRHGTPKTVK 183 L L NDR D++ + D+AIRI L DS L + L ++A+P YLRRHGTP++ Sbjct: 123 LTLNLNDRIADVIGEGIDVAIRIATLTDSNLVSVKLAENHRVIVAAPAYLRRHGTPQSPD 182 Query: 184 DLDKHQLIGFTQPEGLNNWPL-QHEDGDRYPIRPALRASSGETIRQLALHGQGIACLSNF 242 +L +H + + W L Q Y + + + GE + AL G+G+A S + Sbjct: 183 ELMRHNCLAMSSEGSQRGWTLRQSGKVSVYKVGGNMVCNDGEVLHNWALAGRGLAWRSMW 242 Query: 243 MLDADVKEGRLVRLLEKSHTAFRQQIHAVYYRNTRISRRISCFLDFLQ 290 + A ++ G LV +L+K A I+AV+ + + RI F+DFL+ Sbjct: 243 EVGAAIEAGELVTVLDK-FAAPAPSIYAVFAQRRHLPLRIRAFVDFLR 289 >gi|300311458|ref|YP_003775550.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 303 Score = 163 bits (413), Expect = 1e-41, Method: Compositional matrix adjust. Identities = 98/290 (33%), Positives = 164/290 (56%), Gaps = 7/290 (2%) Query: 8 MRIFIAVVEAGSLSAAAEVLEQTTSGVSRALTRLEEKLGTSLLTRTTRRMDLTEEGQVFL 67 MR+F VVE GS AAE+L+ + + +R + LE LGT LL R+TRR+ LTE GQ +L Sbjct: 7 MRVFAKVVEQGSFVRAAELLDISNAVATRFIADLEAHLGTRLLNRSTRRLSLTEAGQAYL 66 Query: 68 EQAREIVAAMERAEESIRIRSQKPVGKLRVDASAPFMLHCIVPHVGAFREAYPDIELDLT 127 E+ R I+A ++ AE + + +++P G L + +A F + + A+ +AYP++ LD++ Sbjct: 67 ERVRMILAEVDDAEALVSLETKRPAGTLAIYCNAGFGQSQLGEMLSAYSQAYPEVALDIS 126 Query: 128 TNDRFIDLVEQRTDIAIRIGELQ--DSTLHAKPLTSARLQLLASPEYLRRHGTPKTVKDL 185 ++R IDLVE+ DI +Q D+++ + L AR+ L SP Y+ R G P+ +DL Sbjct: 127 LSERSIDLVEEGIDIGF-FSSMQKFDASMIVRQLGVARVILCTSPAYIARQGAPEQPEDL 185 Query: 186 DKHQLIGFTQPEGLNNWPLQHEDGD-RYPIRPALRASSGETIRQLALHGQGIACLSNFML 244 +H + F+ ++W + G PI + ++SG +R LAL G GI ++ L Sbjct: 186 SRHNCLNFSHEYLRHHWHVNTNGGVLDVPIVSKVVSNSGVLLRDLALAGMGIVLRPSYSL 245 Query: 245 DADVKEGRLVRLLEKSHTAFRQQIHAVYYRNTR-ISRRISCFLDFLQCKL 293 D++ GRLV++L Q I ++ Y + R +S ++ F +F+ + Sbjct: 246 GDDLRSGRLVQVLPGFDMG--QVIMSMVYPSRRLLSAKVRSFAEFISARF 293 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 0.383 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: 829,400 Number of extensions: 34641 Number of successful extensions: 255 Number of sequences better than 1.0e-08: 75 Number of HSP's gapped: 202 Number of HSP's successfully gapped: 75 Length of query: 293 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 209 Effective length of database: 1,222,130 Effective search space: 255425170 Effective search space used: 255425170 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)