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= 0012.0063.p (271 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310675|ref|YP_003774767.1| LysR family transcription regul... 154 7e-39 gi|300314079|ref|YP_003778171.1| LysR family transcription regul... 149 2e-37 gi|300313281|ref|YP_003777373.1| LysR family transcription regul... 139 4e-34 gi|300310448|ref|YP_003774540.1| transcription regulator protein... 136 2e-33 gi|300310812|ref|YP_003774904.1| LysR family transcription regul... 129 2e-31 >gi|300310675|ref|YP_003774767.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 309 Score = 154 bits (389), Expect = 7e-39, Method: Compositional matrix adjust. Identities = 102/269 (37%), Positives = 141/269 (52%), Gaps = 11/269 (4%) Query: 1 VSQPAMSGILTRLRENFDDPLFARSQRGIVPTPRALELAQPVQRVLRDI-DGLLHPPVFD 59 +SQPA+S L RLR+ FDDPLF R++ G+ PTP ALELA+P+ R L+ + D L + FD Sbjct: 33 LSQPAVSYALGRLRQIFDDPLFIRTKEGMQPTPAALELAKPINRALQAVQDALRYTERFD 92 Query: 60 PATAHLDFTIAATDYALRAVALPFLTALKQHAPFIRVALASMEDAPLQERLERGEIDLAL 119 PA + F + TD A L AP +R+ + + A L+E L G++D A Sbjct: 93 PAQSTRVFRASMTDVAEMMFLPDLCEILTAQAPDVRLQVEQVPPAHLEEALRTGQLDFAF 152 Query: 120 TTPPDTPPGLHARRLFDEHYVCAMREDHPVVRGQRLTLKQFCALDHALVSYAGDPFHGVT 179 P P LF E YVC MR+ + + +L L +F A+ H LV A H V Sbjct: 153 GNLPALKPVTCHELLFRETYVCLMRQRDGLPQRAQLELDEFLAMSHVLVESAESSHHQV- 211 Query: 180 DEALAQRGLQRRVSLSVKRFLVLPEILRSTDLVAVVPSRLVA-------GVEGLKLLPPP 232 + + + G+QRR+SLS+ F VLP IL +DLVA VP+R+ GV L P Sbjct: 212 ENSFQKLGVQRRISLSIPHFTVLPRILGKSDLVATVPARIARLFHSEHPGVFVSYQL--P 269 Query: 233 LEIAGFTKTAAWHERTHRDPAQRWLRQLL 261 + I T WH+ D WLRQ++ Sbjct: 270 VNIPVVEVTLHWHQSFDHDAGNSWLRQIV 298 >gi|300314079|ref|YP_003778171.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 319 Score = 149 bits (376), Expect = 2e-37, Method: Compositional matrix adjust. Identities = 102/280 (36%), Positives = 147/280 (52%), Gaps = 20/280 (7%) Query: 1 VSQPAMSGILTRLRENFDDPLFARSQRGIVPTPRALELAQPVQRVLRDIDGLLHPPVFDP 60 ++QPA+S L RLR+ +D L R+ G+ PTPRA EL V+R L +++ ++ P FD Sbjct: 32 MTQPAVSNALRRLRDTLNDDLVIRTAHGVKPTPRAEELWPTVRRALSELEAVIAPESFDI 91 Query: 61 ATAHLDFTIAATDYALRAVALPFLT-ALKQHAPFIRVALASMEDAPLQERLERGEIDLAL 119 + A F +A D A A+ LP L + + AP I++ + + + L RG+IDLA+ Sbjct: 92 SRAQNTFRMAMVD-ATAALWLPSLVRTIMRDAPRIKIRMMPLTTRDPRAMLLRGDIDLAV 150 Query: 120 TTPPDTPPGL------------HARRLFDEHYVCAMREDHPVVRGQRLTLKQFCALDHAL 167 P L HA RL+ YVC M + HP+ GQ LTL +C DH L Sbjct: 151 GFFPGVTAQLADGQGMAKSQISHA-RLYTGQYVCVMHKSHPLA-GQPLTLDSYCNADHLL 208 Query: 168 VSYAGDPFHGVTDEALAQRGLQRRVSLSVKRFLVLPEILRSTDLVAVVPSRLVAGV---E 224 VS +G P H V D+ LA +R++ L+V +F I+ S++L+ V+P LVA E Sbjct: 209 VSLSGKP-HAVIDDVLAGMNRERKILLTVNQFFTAGRIVASSELITVLPRHLVAATGMAE 267 Query: 225 GLKLLPPPLEIAGFTKTAAWHERTHRDPAQRWLRQLLFAT 264 L + P + WHER R+PA +WLR L AT Sbjct: 268 ALVVKELPFQTPEEHVDMLWHERDARNPAHKWLRAHLSAT 307 >gi|300313281|ref|YP_003777373.1| LysR family transcription regulator [Herbaspirillum seropedicae SmR1] Length = 323 Score = 139 bits (349), Expect = 4e-34, Method: Compositional matrix adjust. Identities = 88/265 (33%), Positives = 136/265 (51%), Gaps = 7/265 (2%) Query: 1 VSQPAMSGILTRLRENFDDPLFARSQRGIVPTPRALELAQPVQRVLRDIDG-LLHPPVFD 59 +SQPA+S L +LR DPLF ++ RG+ PTPRA+ L P + +L+ + +L F Sbjct: 30 MSQPAVSVALNKLRSALGDPLFVKTGRGMQPTPRAVSLIGPTREILQRVHAEVLSSDQFT 89 Query: 60 PATAHLDFTIAATDYALRAVALPFLTALKQHAPFIRVALASMEDAPLQERLERGEIDLAL 119 PAT F +A +D + L ++ AP V +M A L LE GE+DLA+ Sbjct: 90 PATTTKRFVLALSDIGELMLLPRLLERIRDEAPHASVVTVTMAPAELVAALESGEVDLAI 149 Query: 120 TTPPDT-PPGLHARRLFDEHYVCAMREDHPVVRGQRLTLKQFCALDHALVSYAGDPFHGV 178 PD +RLF + +VC +R HP+ Q+++L+ + A H +V G + Sbjct: 150 GYFPDLRNRNFFQQRLFSQDFVCLLRAGHPLP-AQKISLEHYQAAGHIVVKAEGRD-QPM 207 Query: 179 TDEALAQRGLQRRVSLSVKRFLVLPEILRSTDLVAVVP---SRLVAGVEGLKLLPPPLEI 235 + L +R ++RRV LS F+ +P ++ ++DLVA VP V G++L+ P E+ Sbjct: 208 CERFLLRRKIRRRVVLSTAHFMAIPLLVATSDLVATVPRAFGEFVVRFAGIRLVEPGFEM 267 Query: 236 AGFTKTAAWHERTHRDPAQRWLRQL 260 WH + H+D WLR L Sbjct: 268 PMLDLKQHWHRKYHKDAGNAWLRGL 292 >gi|300310448|ref|YP_003774540.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 306 Score = 136 bits (342), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 87/267 (32%), Positives = 134/267 (50%), Gaps = 7/267 (2%) Query: 1 VSQPAMSGILTRLRENFDDPLFARSQRGIVPTPRALELAQPVQRVLRDIDGLLH-PPVFD 59 +SQPA+S L RLR +F+D LF R+ +G+ PTP A +LA+PV L+ + L+ F Sbjct: 35 LSQPAVSNALARLRRSFEDELFVRTAQGMQPTPFAEQLAEPVAAALQQVARALNLQEGFA 94 Query: 60 PATAHLDFTIAATDYALRAVALPFLTALKQHAPFIRVALASMEDAPLQERLERGEIDLAL 119 P T+ FTIA TD + A + AP + ++ L+ +E G +DLA+ Sbjct: 95 PQTSARRFTIAMTDVGEVYFMPALIEACARCAPGVSISTVRAGAIDLKSEMESGRVDLAI 154 Query: 120 TTPPDTPPGLHARRLFDEHYVCAMREDHPVVRGQR--LTLKQFCALDHALVSYAGDPFHG 177 + L+ RRLF + YV R H + + R ++LK+F A +H +VS P+ Sbjct: 155 GAFDNLSEALYQRRLFRQEYVSMFRIGHALDKPGRGEVSLKEFLAAEHLMVSSQESPYDR 214 Query: 178 VTDEALAQRGLQRRVSLSVKRFLVLPEILRSTDLVAVVPSRLVAGVE---GLKLLPPPLE 234 + ++ L + G+ V V F +P I+ ST LV VP +L GL+ + PPL Sbjct: 215 I-NQNLEKAGILPSVRFRVPHFTAVPYIVSSTALVVTVPRKLAESAAAPFGLRYIKPPLR 273 Query: 235 IAGFTKTAAWHERTHRDPAQRWLRQLL 261 + WH R ++D WLR + Sbjct: 274 LPSLQTNMFWHRRYNQDEGNVWLRGFI 300 >gi|300310812|ref|YP_003774904.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 311 Score = 129 bits (324), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 89/271 (32%), Positives = 134/271 (49%), Gaps = 8/271 (2%) Query: 1 VSQPAMSGILTRLRENFDDPLFARSQRGIVPTPRALELAQPVQRVLRDIDGLLHPPV-FD 59 ++QPA+S L RLRE FDDPLF RS +VPT A+ L +P+ R L + LH FD Sbjct: 35 LTQPAVSHALRRLREMFDDPLFVRSTSAMVPTETAIRLHEPIARALDILQEALHTHAQFD 94 Query: 60 PATAHLDFTIAATDYALRAVALPFLTALKQHAPFIRVALASMEDAPLQERLERGEIDLAL 119 PATA F + +D + V + L AP + + + M L + G++DLA Sbjct: 95 PATATRTFHLVMSDMSCSHVLPLLMEELAHAAPHVSIEVQQMAMENLGAAMRNGDVDLAF 154 Query: 120 TTPPDTPPGLHARRLFDEHYVCAMREDHPVVRGQRLTLKQFCALDHALVSYAGDPFHGVT 179 P P ++ + + Y+C +R +HP+ +G LTL+ L + + + H + Sbjct: 155 GYLPGLPEDCQSQLVLYDDYICMLRREHPLAQGP-LTLENLLQLRY-VYTVTNTTGHQLA 212 Query: 180 DEALAQRGLQRRVSLSVKRFLVLPEILRSTDLVAVVPSRLVAGVEGLK----LLPPPLEI 235 ++ L G++R V+L + F V P+I+R TDL +P R +A L LL PLE+ Sbjct: 213 EDVLRNAGVKRDVALRMPHFTVAPQIVRITDLALFLP-RSIAERNNLDHAFVLLDLPLEM 271 Query: 236 AGFTKTAAWHERTHRDPAQRWLRQLLFATAG 266 + H R D +WLR LL G Sbjct: 272 PRIPVSIYTHTRFSGDTGIQWLRSLLIEMFG 302 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 0.139 0.421 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: 897,720 Number of extensions: 37081 Number of successful extensions: 218 Number of sequences better than 1.0e-08: 9 Number of HSP's gapped: 204 Number of HSP's successfully gapped: 9 Length of query: 271 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 187 Effective length of database: 1,222,130 Effective search space: 228538310 Effective search space used: 228538310 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: 130 (54.7 bits)