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= 0011.0086.p (203 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312785|ref|YP_003776877.1| transcription regulator protein... 261 3e-71 gi|300310322|ref|YP_003774414.1| LysR family transcription regul... 105 2e-24 gi|300312373|ref|YP_003776465.1| LysR family transcription regul... 77 1e-15 gi|300312300|ref|YP_003776392.1| LysR family transcription regul... 74 9e-15 gi|300310059|ref|YP_003774151.1| LysR family transcription regul... 74 1e-14 >gi|300312785|ref|YP_003776877.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 297 Score = 261 bits (667), Expect = 3e-71, Method: Compositional matrix adjust. Identities = 125/202 (61%), Positives = 156/202 (77%) Query: 1 VRGTVRITASEVIGVEVLPPILLALKRSHPELVIELALSSRIEDLLKREADIAVRMVQPT 60 VRGTVR+TASEVI VEVLPPIL AL+ HPEL +EL LS++ +DLL+READIAVRM +P Sbjct: 94 VRGTVRLTASEVISVEVLPPILAALRHRHPELRVELVLSNKADDLLQREADIAVRMFRPA 153 Query: 61 QEVLVARRIGAIELGMHAHKDYLAQHGTPKDLAQLNEHAIIGFDKETAFIRSAAKHMPAL 120 Q+ LVA+R+G+IELG+HAH+ YL HG PK + L +H +IGFD+E+A++R+ K +P L Sbjct: 154 QDALVAKRLGSIELGLHAHQSYLTVHGAPKSVDALADHTLIGFDQESAYVRNVLKQIPWL 213 Query: 121 RRSQFALRTSSDIAQLAMIRAGYGIGFCQTPLARRDASLVRVLAKQFSFALETWVVMHED 180 R+ ALRT SD+AQLA IRAG+GIG CQ LA RD +LVR+L +QF+ +ETWV MHED Sbjct: 214 SRAALALRTDSDLAQLAAIRAGFGIGICQVALAARDVALVRLLPRQFALKMETWVAMHED 273 Query: 181 LRNSARVRVAFDALAAGLQEYI 202 LR S R V F AL AGL YI Sbjct: 274 LRASPRCAVTFAALVAGLGAYI 295 >gi|300310322|ref|YP_003774414.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 288 Score = 105 bits (263), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 60/197 (30%), Positives = 107/197 (54%), Gaps = 1/197 (0%) Query: 3 GTVRITASEVIGVEVLPPILLALKRSHPELVIELALSSRIEDLLKREADIAVRMVQPTQE 62 G VR+ A++V L P L L++ HP + + L+ S++I +L KREADIAVR ++P Sbjct: 91 GVVRLAATDVTARHFLIPALHRLRQEHPHIRVVLSTSTQITNLTKREADIAVRTLRPDAP 150 Query: 63 VLVARRIGAIELGMHAHKDYLAQHGTPKDLAQLNEHAIIGFDKETAFIRSAAKHMPALRR 122 L+AR + + ++A + Y+ + G P+ L H ++ + + + +S ++ Sbjct: 151 DLIARHLKRLHTAIYASRSYVKKRGLPEPGTGLKGHDVVIYQRSVSPAKSEQICGESIIN 210 Query: 123 SQFALRTSSDIAQLAMIRAGYGIGFCQTPLARRDASLVRVLAKQFSFALETWVVMHEDLR 182 +Q A+ S+ + ++AG+G+G T + + + LVRV Q + W+V+H DL Sbjct: 211 AQVAMEVSTGLVMYDCLQAGFGLGELPTHVGDKASGLVRVW-PQRETPYDMWLVLHSDLN 269 Query: 183 NSARVRVAFDALAAGLQ 199 +ARVR DA+ A + Sbjct: 270 RTARVRAVADAIIAAYE 286 >gi|300312373|ref|YP_003776465.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 305 Score = 77.0 bits (188), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 56/195 (28%), Positives = 90/195 (46%), Gaps = 6/195 (3%) Query: 3 GTVRITASEVIGVEVLPPILLALKRSHPELVIELALSSRIEDLLKREADIAVRMVQPTQE 62 G VR+ A+E G VL P + +P + +++ R +L K EADI+V + +P Sbjct: 92 GQVRLGATEGFGTFVLAPHIAHFCARNPHITVDMLPMPRFVNLSKHEADISVSIERPLSG 151 Query: 63 VLVARRIGAIELGMHAHKDYLAQHGTPKDLAQLNEHAIIGFDKETAF---IRSAAKHMPA 119 V ++ L ++A +DYLAQH + L +H IG+ + F +R P Sbjct: 152 NYVVTKLSDYVLKLYASRDYLAQHPPIHTMDDLAQHHFIGYIDDLVFSEELRYKDTVAPD 211 Query: 120 LRRSQFALRTSSDIAQLAMIRAGYGIGFCQTPLARRDASLVRVLAKQFSFALETWVVMHE 179 R A R++S +AQ AG + LA++ L VL +Q + W+V Sbjct: 212 AFR---AFRSTSVVAQYTAACAGRALAILPCFLAQQSEELAPVLPQQIAITRSFWLVASS 268 Query: 180 DLRNSARVRVAFDAL 194 + R+ ARV + L Sbjct: 269 EQRHVARVSALWSYL 283 >gi|300312300|ref|YP_003776392.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 305 Score = 73.9 bits (180), Expect = 9e-15, Method: Compositional matrix adjust. Identities = 53/192 (27%), Positives = 95/192 (49%), Gaps = 9/192 (4%) Query: 3 GTVRITASEVIGVEVLPPILLALKRSHPELVIELALSSRIEDLLKREADIAVRMVQPTQE 62 G VR++A ++ + L P L A + +P++ +E+ +R DL + EADIA+RM +P Sbjct: 112 GKVRVSAPPILMSDFLVPRLPAFQEKYPDIELEVIGEARGVDLTRGEADIALRMGEPVSP 171 Query: 63 VLVARRIGAIELGMHAHKDYLAQHGTPKDLAQLNEHAIIGFDKETAFIRSAAKHMPALRR 122 +LVAR + + ++ +L + P+ +E + IG D+E+ R A + + Sbjct: 172 LLVARMLCNVSYSVYGIPAWLER---PE-----SERSFIGLDQESP-CRQKAWLESQVDQ 222 Query: 123 SQFALRTSSDIAQLAMIRAGYGIGFCQTPLARRDASLVRVLAKQFSFALETWVVMHEDLR 182 ++ALRT+ A +G G+ + D LV + + ++VMH D+R Sbjct: 223 RRYALRTNDIRAMCHAAMSGIGLALLPRFMVAEDTRLVAIPMPETPPPCPLYLVMHSDVR 282 Query: 183 NSARVRVAFDAL 194 + R+R D L Sbjct: 283 RAPRIRATADFL 294 >gi|300310059|ref|YP_003774151.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 283 Score = 73.6 bits (179), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 59/208 (28%), Positives = 95/208 (45%), Gaps = 24/208 (11%) Query: 1 VRGTVRITASEVIGVEVLPPILLALKRSHPELVIELALSSRIEDLLKREADIAVRMVQPT 60 + G +R+ ++ +G L P L +L + P L IELA+ + L +READ+A+R +P Sbjct: 91 MEGKLRLACTDAMGTLFLAPRLPSLLQQWPALDIELAMGHQTLSLARREADLALRFARPQ 150 Query: 61 QEVLVARRIGAIELGMHAHKDYLA--QHGTPKDLAQLNEHAIIGFDK------ETAFIRS 112 L+ARR+G + + D +A +H Q +IG+D ET ++ + Sbjct: 151 DGELIARRLGVVRFYLCGTADQVAAWRH-------QRGSAPVIGYDDSVPDIPETRWLAA 203 Query: 113 AAKHMPALRRSQFALRTSSDIAQLAMIRAGYGIGFCQTPLARRDASLVRVLAKQFSFALE 172 A P LR++S +AQ RAG G+ + L A ++ + E Sbjct: 204 HADGNP------VRLRSASLVAQCMAARAGVGLALLPSYLL---APELQTVESTPQLVRE 254 Query: 173 TWVVMHEDLRNSARVRVAFDALAAGLQE 200 W V H DL+ R+R + L A E Sbjct: 255 LWAVFHRDLKALPRLRAVLEWLQACCGE 282 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 0.324 0.136 0.380 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: 574,632 Number of extensions: 21250 Number of successful extensions: 144 Number of sequences better than 1.0e-08: 15 Number of HSP's gapped: 144 Number of HSP's successfully gapped: 15 Length of query: 203 Length of database: 1,619,870 Length adjustment: 81 Effective length of query: 122 Effective length of database: 1,236,335 Effective search space: 150832870 Effective search space used: 150832870 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 128 (53.9 bits)