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= 0001.1981.p (323 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311443|ref|YP_003775535.1| LysR family transcription regul... 616 e-178 gi|300309921|ref|YP_003774013.1| LysR family transcription regul... 194 6e-51 gi|300313769|ref|YP_003777861.1| transcription regulator protein... 176 3e-45 gi|300311424|ref|YP_003775516.1| LysR family transcription regul... 175 5e-45 gi|300312334|ref|YP_003776426.1| transcription regulator protein... 164 8e-42 >gi|300311443|ref|YP_003775535.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 324 Score = 616 bits (1589), Expect = e-178, Method: Compositional matrix adjust. Identities = 295/312 (94%), Positives = 305/312 (97%) Query: 1 MLDLNDIWLFVHVVRAGSFAAAGRRLSMPPNTISRRLQSLEAAMGVRLLQRSTRQLNMTA 60 MLDLNDIWLFVHVVRAGSFAAAGRRLSMPPNTISRRLQSLEAAMGVRLLQRSTRQLNMTA Sbjct: 1 MLDLNDIWLFVHVVRAGSFAAAGRRLSMPPNTISRRLQSLEAAMGVRLLQRSTRQLNMTA 60 Query: 61 AGREFFERCAPGLEDIEHASTSLTESQGEPAGSLRVAAPVDFFDNFSIEWMHEFMRLYPK 120 AGREFFERCAPGLEDIEHAS SLTESQGEPAGSLRVAAPVDFFDNFSIEWMHEFM LYPK Sbjct: 61 AGREFFERCAPGLEDIEHASASLTESQGEPAGSLRVAAPVDFFDNFSIEWMHEFMHLYPK 120 Query: 121 VQLEFVLNDGRADLIAEGIDLAFRGGVLPDSSLVARKLVQSHLALIASPRYLEREGSPQT 180 VQLEFVLNDGRADLIAEGIDLAFRGGVLPDSSLVARKLVQSHLALIASPRYLER+G+PQ+ Sbjct: 121 VQLEFVLNDGRADLIAEGIDLAFRGGVLPDSSLVARKLVQSHLALIASPRYLERQGTPQS 180 Query: 181 LADLVGHACLATSQAPQHTVWKLEGPHGPQSVRVAPRLCINTAQGQLRAARAGLGIALLP 240 L DL HACLATSQAPQHTVWKLEGPHGP+SV+V PRLC+NTAQGQLRAARAGLGIALLP Sbjct: 181 LTDLTAHACLATSQAPQHTVWKLEGPHGPESVKVTPRLCVNTAQGQLRAARAGLGIALLP 240 Query: 241 TMLASEDLRNGTLVNILPDYQRDTMGFYAVYVHRRQLPSAVSALIEFFADKLERGIADKG 300 TMLASEDLRNGTLVNILPDYQRDTMGFYAVYVHRRQLPSAVSALIEFFADKLERGIADKG Sbjct: 241 TMLASEDLRNGTLVNILPDYQRDTMGFYAVYVHRRQLPSAVSALIEFFADKLERGIADKG 300 Query: 301 AQACQRHLEDQA 312 AQAC++HLE ++ Sbjct: 301 AQACEKHLEGES 312 >gi|300309921|ref|YP_003774013.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 194 bits (494), Expect = 6e-51, Method: Compositional matrix adjust. Identities = 108/290 (37%), Positives = 159/290 (54%) Query: 1 MLDLNDIWLFVHVVRAGSFAAAGRRLSMPPNTISRRLQSLEAAMGVRLLQRSTRQLNMTA 60 M L +I F+ V GSF A L + +SR + LEA +G RL+QR+TR+L++T Sbjct: 1 MNKLREIECFIAVADLGSFVKAAEALGISKAAVSRTVLELEARLGSRLMQRTTRRLSLTE 60 Query: 61 AGREFFERCAPGLEDIEHASTSLTESQGEPAGSLRVAAPVDFFDNFSIEWMHEFMRLYPK 120 AG + ERC + +E A L+ +P G LR+ AP+ F F+ +P+ Sbjct: 61 AGALYLERCKQIVAALEEADDLLSSGSAKPTGLLRINAPLTFGVLHLAPLWPMFLERHPE 120 Query: 121 VQLEFVLNDGRADLIAEGIDLAFRGGVLPDSSLVARKLVQSHLALIASPRYLEREGSPQT 180 + L+ L+D D+I EG D+A R L DS+LV RKL + L + ASP YL+ G+P Sbjct: 121 ISLDITLSDRIVDIIDEGYDMAIRIARLSDSTLVHRKLTSTSLHVCASPAYLDAHGTPAH 180 Query: 181 LADLVGHACLATSQAPQHTVWKLEGPHGPQSVRVAPRLCINTAQGQLRAARAGLGIALLP 240 +L H ++ S W+ GP GP SVRV+ RL +N ++AA G+GI P Sbjct: 181 PHELAQHQTISYSYNQSKDEWQFNGPEGPVSVRVSSRLHVNNGDSCVQAALGGIGITRQP 240 Query: 241 TMLASEDLRNGTLVNILPDYQRDTMGFYAVYVHRRQLPSAVSALIEFFAD 290 T + + LR+G LV+IL DY +G YAVY R LP+ + A+++F + Sbjct: 241 TFMIDQYLRSGQLVSILGDYGAPELGIYAVYPSRAHLPAKMRAMLDFLTE 290 >gi|300313769|ref|YP_003777861.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 318 Score = 176 bits (445), Expect = 3e-45, Method: Compositional matrix adjust. Identities = 116/298 (38%), Positives = 160/298 (53%), Gaps = 5/298 (1%) Query: 1 MLDLNDIWLFVHVVRAGSFAAAGRRLSMPPNTISRRLQSLEAAMGVRLLQRSTRQLNMTA 60 M DLND+ LF VV GSF+AA R L+ P + +SRR+ LE +GVRLLQRSTR + +T Sbjct: 1 MEDLNDLALFAAVVVHGSFSAAARALNTPKSRVSRRVAELEQRLGVRLLQRSTRVVRVTE 60 Query: 61 AGREFFERCAPGLEDIEHASTSLTESQG-EPAGSLRVAAPVDFFDNFSIEWMHEFMRLYP 119 G FF C + + A+ +TE G PAG LRV++P+ F + F+ +P Sbjct: 61 VGSAFFTHCE-AMTNAARAAVEVTEHAGARPAGRLRVSSPMGVAHVFLAPLLARFLCAHP 119 Query: 120 KVQLEFVLNDGRADLIAEGIDLAFR-GGVLPDSSLVARKLVQSHLALIASPRYLEREGSP 178 V+LE L++ R D+I EG D+A R L DSSLV R S L ASP Y+ G Sbjct: 120 DVRLELELSNRRVDVIGEGFDVAMRVRSTLEDSSLVVRTFGTSQQVLAASPAYVRAHGPF 179 Query: 179 QTLADLVGH-ACLATSQAPQHTVWKLEGPHGPQS-VRVAPRLCINTAQGQLRAARAGLGI 236 T+ L G Q W+L+GP G + + AP + + Q ++ A G+G+ Sbjct: 180 DTVQSLQGQRGLGPGGLPGQAQRWRLQGPDGEVAEIDYAPAMVTDDMQLVMQTAIGGVGL 239 Query: 237 ALLPTMLASEDLRNGTLVNILPDYQRDTMGFYAVYVHRRQLPSAVSALIEFFADKLER 294 ALLP +A + G LV +LP Y+ +AV+ RR L AV A IEF A +L + Sbjct: 240 ALLPFNVAHGAIARGELVVVLPQYRGAPHQLHAVFPSRRGLVPAVRAFIEFLAVELSQ 297 >gi|300311424|ref|YP_003775516.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 327 Score = 175 bits (443), Expect = 5e-45, Method: Compositional matrix adjust. Identities = 107/321 (33%), Positives = 173/321 (53%), Gaps = 6/321 (1%) Query: 1 MLD-LNDIWLFVHVVRAGSFAAAGRRLSMPPNTISRRLQSLEAAMGVRLLQRSTRQLNMT 59 M+D L ++ +F VV AGSF A +++ + +SR + LE + RL+ R+TR++ +T Sbjct: 1 MMDTLQNMRVFARVVEAGSFTQAAQQMGLTTAHVSRAVADLERHLRTRLMNRTTRRIALT 60 Query: 60 AAGREFFERCAPGLEDIEHASTSLTESQGEPAGSLRVAAPVDFFDNFSIEWMHEFMRLYP 119 AG + RC + ++ A + + +P+G LR+ A F + I + + + YP Sbjct: 61 EAGERYLLRCQQIMSYVDEAEAEASAAYVKPSGRLRIHAMTSFGQRYVIPSISGYHKRYP 120 Query: 120 KVQLEFVLNDGRADLIAEGIDLAF-RGGVLPDSSLVARKLVQSHLALIASPRYLEREGSP 178 V +E L D++ EG D++ LPDS L+ R+L + L ASP YL++ G+P Sbjct: 121 DVAVELTLAQRIPDMLEEGYDVSLVLARELPDSGLIYRQLGSTFSMLCASPAYLDKYGAP 180 Query: 179 QTLADLVGHACLA-TSQAPQHTVWKLEGPHGPQSVRVAPRLCINTAQGQLRAARAGLGIA 237 Q ADL+ HACL S W LEGP G V V +N A+ L A R G+GI Sbjct: 181 QQPADLLNHACLQLVSPISPLDEWILEGPEGGTVVAVKSNFQVNVAEAMLTAIREGMGIG 240 Query: 238 LLPTMLASEDLRNGTLVNILPDYQRDTMGFYAVYVHRRQLPSAVSALIEFFADKLERGIA 297 +LP A + LR GT+V +LP ++ MG YA+Y R+ L + +S +++ + ++R + Sbjct: 241 VLPIYSAVDALRAGTIVRVLPQHRLQNMGVYALYPSRQYLDAKISTWVDWMHETVDRTLQ 300 Query: 298 DKGAQACQR--HLEDQAKGAA 316 + QA +R L ++ +G A Sbjct: 301 ED-HQALERLGSLREEMQGLA 320 >gi|300312334|ref|YP_003776426.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 302 Score = 164 bits (415), Expect = 8e-42, Method: Compositional matrix adjust. Identities = 98/288 (34%), Positives = 142/288 (49%) Query: 1 MLDLNDIWLFVHVVRAGSFAAAGRRLSMPPNTISRRLQSLEAAMGVRLLQRSTRQLNMTA 60 M I F V GS +AA R + P I RRL +LE +GV+LLQR+TR++ +T Sbjct: 1 MDQFKQISTFAEVAARGSLSAAARAEGIAPAMIGRRLDALEERLGVKLLQRTTRKIVLTN 60 Query: 61 AGREFFERCAPGLEDIEHASTSLTESQGEPAGSLRVAAPVDFFDNFSIEWMHEFMRLYPK 120 G F E C L D+E A ++++E +G L ++AP F + F+ + Sbjct: 61 EGAAFLEDCQRILADLEDAESAVSERSARASGQLLISAPAGFGRQHVAPLLPSFLAEHRD 120 Query: 121 VQLEFVLNDGRADLIAEGIDLAFRGGVLPDSSLVARKLVQSHLALIASPRYLEREGSPQT 180 V L LND AD+I EGID+A R L DS+LV+ KL ++H ++A+P YL R G+PQ+ Sbjct: 121 VTLTLNLNDRIADVIGEGIDVAIRIATLTDSNLVSVKLAENHRVIVAAPAYLRRHGTPQS 180 Query: 181 LADLVGHACLATSQAPQHTVWKLEGPHGPQSVRVAPRLCINTAQGQLRAARAGLGIALLP 240 +L+ H CLA S W L +V + N + A AG G+A Sbjct: 181 PDELMRHNCLAMSSEGSQRGWTLRQSGKVSVYKVGGNMVCNDGEVLHNWALAGRGLAWRS 240 Query: 241 TMLASEDLRNGTLVNILPDYQRDTMGFYAVYVHRRQLPSAVSALIEFF 288 + G LV +L + YAV+ RR LP + A ++F Sbjct: 241 MWEVGAAIEAGELVTVLDKFAAPAPSIYAVFAQRRHLPLRIRAFVDFL 288 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 0.396 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: 947,231 Number of extensions: 36872 Number of successful extensions: 253 Number of sequences better than 1.0e-08: 56 Number of HSP's gapped: 223 Number of HSP's successfully gapped: 56 Length of query: 323 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 238 Effective length of database: 1,217,395 Effective search space: 289740010 Effective search space used: 289740010 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: 131 (55.1 bits)