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= 0001.3776.p (324 letters) Database: BlastDatabases/690/690 3295 sequences; 1,000,347 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|134093979|ref|YP_001099054.1| LysR family transcriptional reg... 82 3e-17 gi|134095567|ref|YP_001100642.1| transcriptional regulator CysB-... 74 1e-14 gi|134095322|ref|YP_001100397.1| methionine biosynthesis [Hermin... 73 2e-14 gi|134095306|ref|YP_001100381.1| LysR family transcriptional reg... 70 1e-13 gi|134093581|ref|YP_001098656.1| LysR family transcriptional reg... 63 2e-11 >gi|134093979|ref|YP_001099054.1| LysR family transcriptional regulator [Herminiimonas arsenicoxydans] Length = 297 Score = 82.4 bits (202), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 87/306 (28%), Positives = 146/306 (47%), Gaps = 25/306 (8%) Query: 30 LRFRQVALLTALDEQGSLHKAAEVMHMTQPAATKALHEMEDALGVTLFDRSPRGIEATEL 89 + RQ+ + E+ +AA +HMTQP ++A+ +E LGV LF R+ R + T Sbjct: 3 IELRQLRYFVTVAEEMHFGRAAIRLHMTQPPLSQAIQSLEAMLGVQLFRRTSRSVALTPA 62 Query: 90 GRCVIRYARLIQSDVANLREELQNMISGRGGRLSIGTIMGA-----APFVTRALSRLREI 144 G ++ A+ I A L + ++ + SG GRLS+ + A PF L RE Sbjct: 63 GSALLPEAQRILQQTAALPDLMRRVTSGASGRLSLAFVSTADYSVLPPF----LREFRES 118 Query: 145 QPEVSIEISEDTSARQLLLLDQGRIDLMIGRSSVSSQPNL-YHYEMLRGEPMCIVS--GI 201 P V I++ E T+ QL L QGRID+ + + + L Y + EP+ + + G+ Sbjct: 119 YPGVEIDLREATTDVQLDDLMQGRIDVGLLIPPLPDKAKLQLDYLPVLSEPLILAAPKGL 178 Query: 202 DHPLATAQKVRLQELAGASWILYSSNMPMRIWIE-HEFKLEGVKVPG---NVIETASPFV 257 L Q V LQ LA I++ P RI H+ L + G ++ + A Sbjct: 179 KA-LKGKQSVALQSLAELPLIIF----PRRIAPAFHDAILSCYRDAGLTPHIGQEAIQMQ 233 Query: 258 TITLLAQSNM-VAVMPLDIAHFFAARQMLGILPVNLKTRIEHYGIVTRKNSTLSSLAKMF 316 TI L + M +A++P +++ R + P+ KT + G+ R+++ S + K F Sbjct: 234 TIIGLVSAGMGIALVPQSVSNL--KRPGVDYKPLANKTPLVETGLAWRRDNA-SPVLKAF 290 Query: 317 IQILRQ 322 +++LR+ Sbjct: 291 LELLRK 296 >gi|134095567|ref|YP_001100642.1| transcriptional regulator CysB-like protein [Herminiimonas arsenicoxydans] Length = 313 Score = 73.6 bits (179), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 59/224 (26%), Positives = 108/224 (48%), Gaps = 14/224 (6%) Query: 40 ALDEQGSLHKAAEVMHMTQPAATKALHEMEDALGVTLFDRSPRGIEA-TELGRCVIRYAR 98 A+ + +L +AA+ + +QP +KA+ E+E+ LGV +F R + I TE GR V++ Sbjct: 12 AVRQNFNLTEAAKALFTSQPGVSKAIIELEEELGVDIFSRHGKRIRGLTEPGRAVLKSVE 71 Query: 99 LIQSDVANLREELQNMISGRGGRLSIGTIMGAAPF-VTRALSRLREIQPEVSIEISEDTS 157 I ++ L+ + G +I T A + + + + + P+V + + + Sbjct: 72 AIMLEIEGLKRIGNEFAAHDSGSFTIATTHTQARYSLPKVVQAFTQKFPKVRLSLLQGNP 131 Query: 158 AR--QLLLLDQGRIDLMIGRSSVSSQPNLYHYEMLRGEPMCIVSGIDHPLATAQKVRLQE 215 + +++L+DQ DL I ++++ L + E IV +DHPL ++ + L+E Sbjct: 132 KQIAEMVLMDQA--DLAIATEAIANMDGLISLPCYQWEHQ-IVLPLDHPLLKSKSITLEE 188 Query: 216 LAGASWILYSSNMPMRIWIEHEFKLEGVK-------VPGNVIET 252 LA I Y S R I+H F L +K + +VI+T Sbjct: 189 LAAYPIITYDSAFAGRNKIDHAFNLRNLKPDILLEAIDADVIKT 232 >gi|134095322|ref|YP_001100397.1| methionine biosynthesis [Herminiimonas arsenicoxydans] Length = 306 Score = 72.8 bits (177), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 66/259 (25%), Positives = 116/259 (44%), Gaps = 5/259 (1%) Query: 28 SRLRFRQVALLTALDEQGSLHKAAEVMHMTQPAATKALHEMEDALGVTLFDRSPRGIEAT 87 S L R + L AL E G+L +AA ++++TQ A + L ++ED G LF+R + T Sbjct: 3 SILELRHLKTLIALREAGNLLRAASLLNVTQSALSHQLKQLEDHHGTQLFERKSVPVRFT 62 Query: 88 ELGRCVIRYARLIQSDVANLREELQNMISGRGGRLSIGT-IMGAAPFVTRALSRLREIQP 146 G +++ A + VA +L + G G+L I ++ A+ R P Sbjct: 63 PAGERLLKLADTVLPQVAETERDLVRLAQGVAGQLRIAVECHTCFDWLMPAMDVFRGRWP 122 Query: 147 EVSIEISEDTSARQLLLLDQGRIDLMIGRSSVSSQPNLYHYEMLRGEPMCIVSGIDHPLA 206 EV ++I A + LL + R D+ I + + + ++ + R E + +V+ DHPLA Sbjct: 123 EVELDIVSGFQADPVGLLYEHRADVAIV-AEIDPDETVDYHALFRFEIVALVAH-DHPLA 180 Query: 207 TAQKVRLQELAGASWILYSSNMPMRIWIEHEFKLEGVKVPGNVIETASPFVTITLLAQSN 266 + + ++ G + I Y M + K G+KV E + L+A Sbjct: 181 DKEFLVAEDFIGDTLITYPVPDDMLDVVRQVLKPAGIKVERRTTELT--VAMLQLVASRR 238 Query: 267 MVAVMPLDIAHFFAARQML 285 +A +P+ A + R + Sbjct: 239 GIATLPVWAAQNYLNRDYV 257 >gi|134095306|ref|YP_001100381.1| LysR family transcriptional regulator [Herminiimonas arsenicoxydans] Length = 294 Score = 70.1 bits (170), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 51/183 (27%), Positives = 84/183 (45%), Gaps = 7/183 (3%) Query: 43 EQGSLHKAAEVMHMTQPAATKALHEMEDALGVTLFDRSPRGIEATELGRCVIRYARLIQS 102 E GS+ AE H++ +A+ + ME+ LG+ L R RG+EAT +G+ ++ +AR+ Sbjct: 16 ETGSITAGAERSHLSLASASARIRGMEEMLGIPLLIRGQRGVEATPVGKALVHHARIALR 75 Query: 103 DVANLREELQNMISGRGGRLSI-GTIMGAAPFVTRALSRLREIQPEVSIEISEDTSARQL 161 +R EL G G + I + F+ ALS P V+I++ E S + Sbjct: 76 QQERMRGELSEYAQGLKGHVRIMSNTVSLTEFLPEALSNFLATHPNVNIDLEERLSFEIV 135 Query: 162 LLLDQGRIDLMIGRSSVSSQPNLYHYEM--LRGEPMCIVSGIDHPLATAQKVRLQELAGA 219 L +G ID+ I SV + +E + + +V DHPL+ + E Sbjct: 136 SALTEGTIDIGILSDSV----DFSGFETFPFHDDRLTLVVARDHPLSVRSSIHFAETLDY 191 Query: 220 SWI 222 +I Sbjct: 192 DFI 194 >gi|134093581|ref|YP_001098656.1| LysR family transcriptional regulator [Herminiimonas arsenicoxydans] Length = 315 Score = 63.2 bits (152), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 51/203 (25%), Positives = 88/203 (43%), Gaps = 3/203 (1%) Query: 30 LRFRQVALLTALDEQGSLHKAAEVMHMTQPAATKALHEMEDALGVTLFDRSPRGIEATEL 89 + ++ + A+ + AAE H+ QP + A+ ++ED LGVTLF+R I T L Sbjct: 1 MTLTELKYIVAVAREKHFGHAAEACHVAQPTLSVAIKKLEDELGVTLFERGGSEISMTPL 60 Query: 90 GRCVIRYARLIQSDVANLREELQNMISGRGGRLSIGTIMGAAPFVTRALSR-LREIQPEV 148 G ++ A + A ++E + G +G I AP++ L + + E P++ Sbjct: 61 GVQIVAQAERVLEQTAAIKEIAKQNKDPLVGPFRLGIIYTIAPYLLPPLVKAMIERVPQM 120 Query: 149 SIEISEDTSARQLLLLDQGRIDLMIGRSSVSSQPNLYHYEMLRGEPMCIVSGIDHPLATA 208 + + E+ + + L L QG ID I + Q L + + EP + HP A Sbjct: 121 PLVLQENFTVKLLEQLRQGEIDAAIVALPIPDQGLL--VQPVYDEPFVVAVPKHHPWAER 178 Query: 209 QKVRLQELAGASWILYSSNMPMR 231 V L + +L + R Sbjct: 179 SSVTTDNLKSETMLLLGNGHCFR 201 Database: BlastDatabases/690/690 Posted date: Apr 9, 2011 4:48 AM Number of letters in database: 1,000,347 Number of sequences in database: 3295 Lambda K H 0.320 0.134 0.373 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 3295 Number of Hits to DB: 562,721 Number of extensions: 21697 Number of successful extensions: 101 Number of sequences better than 1.0e-08: 10 Number of HSP's gapped: 97 Number of HSP's successfully gapped: 10 Length of query: 324 Length of database: 1,000,347 Length adjustment: 82 Effective length of query: 242 Effective length of database: 730,157 Effective search space: 176697994 Effective search space used: 176697994 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: 129 (54.3 bits)