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= 0017.0093.p (321 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312373|ref|YP_003776465.1| LysR family transcription regul... 227 8e-61 gi|300312300|ref|YP_003776392.1| LysR family transcription regul... 139 3e-34 gi|300310059|ref|YP_003774151.1| LysR family transcription regul... 135 3e-33 gi|300310322|ref|YP_003774414.1| LysR family transcription regul... 134 1e-32 gi|300312785|ref|YP_003776877.1| transcription regulator protein... 133 2e-32 >gi|300312373|ref|YP_003776465.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 305 Score = 227 bits (579), Expect = 8e-61, Method: Compositional matrix adjust. Identities = 110/287 (38%), Positives = 175/287 (60%), Gaps = 1/287 (0%) Query: 4 FDWNDLQAFLAVVRAGRLTVAARQLGIDHSTLSRRIVGLEESLGVALFDRRSAGYALTVE 63 DW++L+ FL + R+ L AA++LGIDHST+SRR+ EE +G LFDR + GY LT + Sbjct: 2 LDWDNLRIFLELTRSQGLVDAAKKLGIDHSTVSRRMKRFEEQVGSQLFDRNNHGYKLTAD 61 Query: 64 GERLIPEAEAMESLAVRIHARQDDAAQGLTGSIRIGTPEAWGTYFLAPQLSLLAQRHPQL 123 G RL+ AE +ES L+G +R+G E +GT+ LAP ++ R+P + Sbjct: 62 GYRLVEYAEQVESTLYAATEELGGHNSKLSGQVRLGATEGFGTFVLAPHIAHFCARNPHI 121 Query: 124 EVELIANPRMFSLSKREADIAVSMTRPEQGRLYARRLNDYELGIYAARDYLRRKPAVEDK 183 V+++ PR +LSK EADI+VS+ RP G +L+DY L +YA+RDYL + P + Sbjct: 122 TVDMLPMPRFVNLSKHEADISVSIERPLSGNYVVTKLSDYVLKLYASRDYLAQHPPIHTM 181 Query: 184 SQLETHPWVGYVEDLMWSRELDYLSEISPALRPHIRISNIISQMAAVVGGAGLGVLPCFM 243 L H ++GY++DL++S EL Y ++P R +++++Q A G L +LPCF+ Sbjct: 182 DDLAQHHFIGYIDDLVFSEELRYKDTVAPDAFRAFRSTSVVAQYTAACAGRALAILPCFL 241 Query: 244 ARGEKKLVRLLP-QVKLYRSYWLITHADARDIVRVNVVADFIAERVE 289 A+ ++L +LP Q+ + RS+WL+ ++ R + RV+ + ++ E VE Sbjct: 242 AQQSEELAPVLPQQIAITRSFWLVASSEQRHVARVSALWSYLRECVE 288 >gi|300312300|ref|YP_003776392.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 305 Score = 139 bits (350), Expect = 3e-34, Method: Compositional matrix adjust. Identities = 93/298 (31%), Positives = 157/298 (52%), Gaps = 15/298 (5%) Query: 1 MNKFDWNDLQAFLAVVRAGRLTVAARQLGIDHSTLSRRIVGLEESLGVALFDRRSAGYAL 60 MN W+D++ FL + R G L+ +AR L ++HST++R + LE++L V LFDR + G+ L Sbjct: 20 MNTLQWDDVRYFLTLSREGSLSASARVLKVEHSTVARHVGNLEKTLRVKLFDRLARGWVL 79 Query: 61 TVEGERLIPEAEAMESLAVRIHA--RQDDAAQGLTGSIRIGTPEAWGTYFLAPQLSLLAQ 118 T EG L +AE +E V +H+ R A L+G +R+ P + FL P+L + Sbjct: 80 TTEGAELSKQAEQLE---VEMHSLWRAALANTTLSGKVRVSAPPILMSDFLVPRLPAFQE 136 Query: 119 RHPQLEVELIANPRMFSLSKREADIAVSMTRPEQGRLYARRLNDYELGIYAARDYLRRKP 178 ++P +E+E+I R L++ EADIA+ M P L AR L + +Y +L R P Sbjct: 137 KYPDIELEVIGEARGVDLTRGEADIALRMGEPVSPLLVARMLCNVSYSVYGIPAWLER-P 195 Query: 179 AVEDKSQLETHPWVGYVEDLMWSRELDYLSEISPALRPHIRISNIISQMAAVVGGAGLGV 238 E ++G ++ R+ +L R +R ++I + A + G GL + Sbjct: 196 ESE-------RSFIGLDQE-SPCRQKAWLESQVDQRRYALRTNDIRAMCHAAMSGIGLAL 247 Query: 239 LPCFMARGEKKLVRL-LPQVKLYRSYWLITHADARDIVRVNVVADFIAERVEAEGASF 295 LP FM + +LV + +P+ +L+ H+D R R+ ADF+ + ++++ +F Sbjct: 248 LPRFMVAEDTRLVAIPMPETPPPCPLYLVMHSDVRRAPRIRATADFLIDLIQSQAHNF 305 >gi|300310059|ref|YP_003774151.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 283 Score = 135 bits (341), Expect = 3e-33, Method: Compositional matrix adjust. Identities = 91/283 (32%), Positives = 147/283 (51%), Gaps = 13/283 (4%) Query: 5 DWNDLQAFLAVVRAGRLTVAARQLGIDHSTLSRRIVGLEESLGVALFDRRSAGYALTVEG 64 DW L++F A V AG + AAR LG+ H+T+ RR+ LE++L LF RR+ LT G Sbjct: 4 DWESLRSFAAFVDAGSFSGAARVLGVTHATIGRRLQQLEQTLAAPLFIRRADDIELTRLG 63 Query: 65 ERLIPEAEAMESLAVRIHARQDDAAQGLTGSIRIGTPEAWGTYFLAPQLSLLAQRHPQLE 124 E ++ A AM+ ++ + G +R+ +A GT FLAP+L L Q+ P L+ Sbjct: 64 ESVLAAARAMQDQTRQLARTLAGEDLRMEGKLRLACTDAMGTLFLAPRLPSLLQQWPALD 123 Query: 125 VELIANPRMFSLSKREADIAVSMTRPEQGRLYARRLNDYELGIYAARDYLRRKPAVEDKS 184 +EL + SL++READ+A+ RP+ G L ARRL + D + + Sbjct: 124 IELAMGHQTLSLARREADLALRFARPQDGELIARRLGVVRFYLCGTADQV-----AAWRH 178 Query: 185 QLETHPWVGY---VEDLMWSRELDYLSEISPALRPHIRISNIISQMAAVVGGAGLGVLPC 241 Q + P +GY V D+ +R L ++ +P +R +++++Q A G GL +LP Sbjct: 179 QRGSAPVIGYDDSVPDIPETRWLAAHADGNPV---RLRSASLVAQCMAARAGVGLALLPS 235 Query: 242 FMARGEKKLVRLLPQVKLYRSYWLITHADARDIVRVNVVADFI 284 ++ E + V PQ L R W + H D + + R+ V +++ Sbjct: 236 YLLAPELQTVESTPQ--LVRELWAVFHRDLKALPRLRAVLEWL 276 >gi|300310322|ref|YP_003774414.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 288 Score = 134 bits (337), Expect = 1e-32, Method: Compositional matrix adjust. Identities = 95/287 (33%), Positives = 139/287 (48%) Query: 4 FDWNDLQAFLAVVRAGRLTVAARQLGIDHSTLSRRIVGLEESLGVALFDRRSAGYALTVE 63 DW++ + FLA+ R G L AA L +D +T+ RR+ LE SLG LF R GY T Sbjct: 1 MDWDNARIFLAIYRVGTLRGAAETLELDQATVGRRLAALERSLGARLFLRTPNGYVPTPA 60 Query: 64 GERLIPEAEAMESLAVRIHARQDDAAQGLTGSIRIGTPEAWGTYFLAPQLSLLAQRHPQL 123 GE A+ ME A ++ + + L G +R+ + +FL P L L Q HP + Sbjct: 61 GEMAAAAAQQMEQGAEQLQRQMQGIDERLCGVVRLAATDVTARHFLIPALHRLRQEHPHI 120 Query: 124 EVELIANPRMFSLSKREADIAVSMTRPEQGRLYARRLNDYELGIYAARDYLRRKPAVEDK 183 V L + ++ +L+KREADIAV RP+ L AR L IYA+R Y++++ E Sbjct: 121 RVVLSTSTQITNLTKREADIAVRTLRPDAPDLIARHLKRLHTAIYASRSYVKKRGLPEPG 180 Query: 184 SQLETHPWVGYVEDLMWSRELDYLSEISPALRPHIRISNIISQMAAVVGGAGLGVLPCFM 243 + L+ H V Y + ++ E + + +S + + G GLG LP + Sbjct: 181 TGLKGHDVVIYQRSVSPAKSEQICGESIINAQVAMEVSTGLVMYDCLQAGFGLGELPTHV 240 Query: 244 ARGEKKLVRLLPQVKLYRSYWLITHADARDIVRVNVVADFIAERVEA 290 LVR+ PQ + WL+ H+D RV VAD I EA Sbjct: 241 GDKASGLVRVWPQRETPYDMWLVLHSDLNRTARVRAVADAIIAAYEA 287 >gi|300312785|ref|YP_003776877.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 297 Score = 133 bits (335), Expect = 2e-32, Method: Compositional matrix adjust. Identities = 92/281 (32%), Positives = 144/281 (51%), Gaps = 9/281 (3%) Query: 5 DWNDLQAFLAVVRAGRLTVAARQLGIDHSTLSRRIVGLEESLGVALFDRRSAGYALTVEG 64 +W ++FL V+ G L+ A R++G+ T+ R I LE +LG+ LF R G++ T Sbjct: 7 NWEWYRSFLKVLETGSLSAAGREMGLTQPTVGRHIENLESTLGLKLFVRSFDGFSPTDAA 66 Query: 65 ERLIPEAEAMESLAVRIHARQDDAAQGLTGSIRIGTPEAWGTYFLAPQLSLLAQRHPQLE 124 L P A A+ + + + + + G++R+ E L P L+ L RHP+L Sbjct: 67 LELKPYAAAIAANSAALRRAASSQGKEVRGTVRLTASEVISVEVLPPILAALRHRHPELR 126 Query: 125 VELIANPRMFSLSKREADIAVSMTRPEQGRLYARRLNDYELGIYAARDYLRRKPAVEDKS 184 VEL+ + + L +READIAV M RP Q L A+RL ELG++A + YL A + Sbjct: 127 VELVLSNKADDLLQREADIAVRMFRPAQDALVAKRLGSIELGLHAHQSYLTVHGAPKSVD 186 Query: 185 QLETHPWVGYVEDLMWSR----ELDYLSEISPALRPHIRISNIISQMAAVVGGAGLGVLP 240 L H +G+ ++ + R ++ +LS + AL R + ++Q+AA+ G G+G+ Sbjct: 187 ALADHTLIGFDQESAYVRNVLKQIPWLSRAALAL----RTDSDLAQLAAIRAGFGIGICQ 242 Query: 241 CFMARGEKKLVRLLP-QVKLYRSYWLITHADARDIVRVNVV 280 +A + LVRLLP Q L W+ H D R R V Sbjct: 243 VALAARDVALVRLLPRQFALKMETWVAMHEDLRASPRCAVT 283 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 0.320 0.135 0.395 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: 964,836 Number of extensions: 38740 Number of successful extensions: 279 Number of sequences better than 1.0e-08: 62 Number of HSP's gapped: 249 Number of HSP's successfully gapped: 62 Length of query: 321 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 236 Effective length of database: 1,217,395 Effective search space: 287305220 Effective search space used: 287305220 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 (21.8 bits) S2: 130 (54.7 bits)