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= 0002.0343.p (238 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... 344 4e-96 gi|300312196|ref|YP_003776288.1| LysR family transcription regul... 203 1e-53 gi|300311424|ref|YP_003775516.1| LysR family transcription regul... 166 2e-42 gi|300313017|ref|YP_003777109.1| LysR family transcription regul... 162 2e-41 gi|300311443|ref|YP_003775535.1| LysR family transcription regul... 162 2e-41 >gi|300309921|ref|YP_003774013.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 344 bits (882), Expect = 4e-96, Method: Compositional matrix adjust. Identities = 155/237 (65%), Positives = 191/237 (80%) Query: 1 VLYLDRCKQIVSALEDADQMLTAGNTDPAGLLRINVPQTFGVLHLVKVWPCLLQRYPGIK 60 LYL+RCKQIV+ALE+AD +L++G+ P GLLRIN P TFGVLHL +WP L+R+P I Sbjct: 63 ALYLERCKQIVAALEEADDLLSSGSAKPTGLLRINAPLTFGVLHLAPLWPMFLERHPEIS 122 Query: 61 LDITLSDRIVDIIEEGYDMAIRIARLPSSSLIYRKLASTRIVVCASPEYLERHGTPLHPE 120 LDITLSDRIVDII+EGYDMAIRIARL S+L++RKL ST + VCASP YL+ HGTP HP Sbjct: 123 LDITLSDRIVDIIDEGYDMAIRIARLSDSTLVHRKLTSTSLHVCASPAYLDAHGTPAHPH 182 Query: 121 DLKDHMVLGYSYSADKDEWHFDGPDGPVSVKTNVRMHANNGDTCVAAALAGIGITRQPTF 180 +L H + YSY+ KDEW F+GP+GPVSV+ + R+H NNGD+CV AAL GIGITRQPTF Sbjct: 183 ELAQHQTISYSYNQSKDEWQFNGPEGPVSVRVSSRLHVNNGDSCVQAALGGIGITRQPTF 242 Query: 181 MLNDHIRSGKLVRVMPDYTAVELGIYAVYPSRTHLPAKVRATIDFLVHAFEEVTWDD 237 M++ ++RSG+LV ++ DY A ELGIYAVYPSR HLPAK+RA +DFL AF +V W+D Sbjct: 243 MIDQYLRSGQLVSILGDYGAPELGIYAVYPSRAHLPAKMRAMLDFLTEAFAQVHWND 299 >gi|300312196|ref|YP_003776288.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 308 Score = 203 bits (516), Expect = 1e-53, Method: Compositional matrix adjust. Identities = 98/236 (41%), Positives = 146/236 (61%), Gaps = 2/236 (0%) Query: 2 LYLDRCKQIVSALEDADQMLTAGNTDPAGLLRINVPQTFGVLHLVKVWPCLLQRYPGIKL 61 +Y RCK+++ ++D + + + G LRI PQ FGV L +W +++P I L Sbjct: 64 VYFARCKELLETIQDVESEVGLNSDQACGRLRIGAPQDFGVEQLAPLWGKFTEQHPLITL 123 Query: 62 DITLSDRIVDIIEEGYDMAIRIARLPSSSLIYRKLASTRIVVCASPEYLERHGTPLHPED 121 +ITLSDR +D++EEG+DMAIRI+ L S ++ R LA R++ CA+PE+L RHGTP P + Sbjct: 124 NITLSDRTIDLLEEGFDMAIRISALGDSRMVARPLAPVRMIACAAPEFLARHGTPGTPAE 183 Query: 122 LKDHMVLGYSYSADKDEWHFDGPDG-PVSVKTNVRMHANNGDTCVAAALAGIGITRQPTF 180 L+D+ + YSY A D+W F G V+ ++ NNG TC A A+AG GI QP F Sbjct: 184 LRDYPFISYSYRAGGDDWSFRHVHGDTCQVRVRSTVYVNNGATCRAMAIAGQGIAIQPDF 243 Query: 181 MLNDHIRSGKLVRVMPDY-TAVELGIYAVYPSRTHLPAKVRATIDFLVHAFEEVTW 235 ++N I++G+LV + + T +L ++ +YP+RTHLP KV+ DFL+ F W Sbjct: 244 IVNAAIQAGQLVELFEGWSTGEQLVVHTLYPTRTHLPPKVQRMRDFLIEQFRVPPW 299 >gi|300311424|ref|YP_003775516.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 327 Score = 166 bits (420), Expect = 2e-42, Method: Compositional matrix adjust. Identities = 88/238 (36%), Positives = 142/238 (59%), Gaps = 2/238 (0%) Query: 3 YLDRCKQIVSALEDADQMLTAGNTDPAGLLRINVPQTFGVLHLVKVWPCLLQRYPGIKLD 62 YL RC+QI+S +++A+ +A P+G LRI+ +FG +++ +RYP + ++ Sbjct: 66 YLLRCQQIMSYVDEAEAEASAAYVKPSGRLRIHAMTSFGQRYVIPSISGYHKRYPDVAVE 125 Query: 63 ITLSDRIVDIIEEGYDMAIRIAR-LPSSSLIYRKLASTRIVVCASPEYLERHGTPLHPED 121 +TL+ RI D++EEGYD+++ +AR LP S LIYR+L ST ++CASP YL+++G P P D Sbjct: 126 LTLAQRIPDMLEEGYDVSLVLARELPDSGLIYRQLGSTFSMLCASPAYLDKYGAPQQPAD 185 Query: 122 LKDHMVLGY-SYSADKDEWHFDGPDGPVSVKTNVRMHANNGDTCVAAALAGIGITRQPTF 180 L +H L S + DEW +GP+G V N + + A G+GI P + Sbjct: 186 LLNHACLQLVSPISPLDEWILEGPEGGTVVAVKSNFQVNVAEAMLTAIREGMGIGVLPIY 245 Query: 181 MLNDHIRSGKLVRVMPDYTAVELGIYAVYPSRTHLPAKVRATIDFLVHAFEEVTWDDH 238 D +R+G +VRV+P + +G+YA+YPSR +L AK+ +D++ + +DH Sbjct: 246 SAVDALRAGTIVRVLPQHRLQNMGVYALYPSRQYLDAKISTWVDWMHETVDRTLQEDH 303 >gi|300313017|ref|YP_003777109.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 305 Score = 162 bits (411), Expect = 2e-41, Method: Compositional matrix adjust. Identities = 83/232 (35%), Positives = 139/232 (59%), Gaps = 2/232 (0%) Query: 7 CKQIVSALEDADQMLTAGNTDPAGLLRINVPQTFGVLHLVKVWPCLLQRYPGIKLDITLS 66 CK ++ +++A+Q + A + P+G LRI +F + H+ + P QRYP ++L++ + Sbjct: 69 CKAALTQMKEAEQQVNAASAAPSGTLRITSSLSFCMKHISPLLPRFHQRYPEVRLEVIAA 128 Query: 67 DRIVDIIEEGYDMAIRIARL-PSSSLIYRKLASTRIVVCASPEYLERHGTPLHPEDLKDH 125 +R +D+++ D+AIR P +++ R+LA+TR ++ A+P YL GTP +DL H Sbjct: 129 NRYMDLLDSDIDLAIRTREFEPDANIAVRRLATTRRILAAAPGYLAARGTPRTLDDLAQH 188 Query: 126 MVLGYSYSADKDEWHFDGPDGPV-SVKTNVRMHANNGDTCVAAALAGIGITRQPTFMLND 184 +L YS++ + + H G DG +++ M +N+G AAAL G+GI QP +++ D Sbjct: 189 DLLVYSHAKEPNRLHLSGRDGSQRTLEIKSLMQSNDGQIIRAAALEGLGILIQPNYIIYD 248 Query: 185 HIRSGKLVRVMPDYTAVELGIYAVYPSRTHLPAKVRATIDFLVHAFEEVTWD 236 I +G+LV V+ ++ L I Y R HLPA+VR IDFLV FEE+ ++ Sbjct: 249 DIVAGRLVPVLDEWDLPRLSINIAYQGRKHLPARVRVFIDFLVQHFEEMDYE 300 >gi|300311443|ref|YP_003775535.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 324 Score = 162 bits (410), Expect = 2e-41, Method: Compositional matrix adjust. Identities = 87/234 (37%), Positives = 121/234 (51%) Query: 3 YLDRCKQIVSALEDADQMLTAGNTDPAGLLRINVPQTFGVLHLVKVWPCLLQRYPGIKLD 62 + +RC + +E A LT +PAG LR+ P F ++ + YP ++L+ Sbjct: 65 FFERCAPGLEDIEHASASLTESQGEPAGSLRVAAPVDFFDNFSIEWMHEFMHLYPKVQLE 124 Query: 63 ITLSDRIVDIIEEGYDMAIRIARLPSSSLIYRKLASTRIVVCASPEYLERHGTPLHPEDL 122 L+D D+I EG D+A R LP SSL+ RKL + + + ASP YLER GTP DL Sbjct: 125 FVLNDGRADLIAEGIDLAFRGGVLPDSSLVARKLVQSHLALIASPRYLERQGTPQSLTDL 184 Query: 123 KDHMVLGYSYSADKDEWHFDGPDGPVSVKTNVRMHANNGDTCVAAALAGIGITRQPTFML 182 H L S + W +GP GP SVK R+ N + AA AG+GI PT + Sbjct: 185 TAHACLATSQAPQHTVWKLEGPHGPESVKVTPRLCVNTAQGQLRAARAGLGIALLPTMLA 244 Query: 183 NDHIRSGKLVRVMPDYTAVELGIYAVYPSRTHLPAKVRATIDFLVHAFEEVTWD 236 ++ +R+G LV ++PDY +G YAVY R LP+ V A I+F E D Sbjct: 245 SEDLRNGTLVNILPDYQRDTMGFYAVYVHRRQLPSAVSALIEFFADKLERGIAD 298 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 0.139 0.426 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: 809,899 Number of extensions: 35285 Number of successful extensions: 160 Number of sequences better than 1.0e-08: 33 Number of HSP's gapped: 116 Number of HSP's successfully gapped: 33 Length of query: 238 Length of database: 1,619,870 Length adjustment: 82 Effective length of query: 156 Effective length of database: 1,231,600 Effective search space: 192129600 Effective search space used: 192129600 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: 129 (54.3 bits)