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= 0001.3410.p (308 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... 158 3e-40 gi|134093581|ref|YP_001098656.1| LysR family transcriptional reg... 97 1e-21 gi|134094687|ref|YP_001099762.1| putative DNA-binding transcript... 80 1e-16 gi|134095306|ref|YP_001100381.1| LysR family transcriptional reg... 70 9e-14 gi|134094120|ref|YP_001099195.1| putative transcriptional regula... 70 9e-14 >gi|134093979|ref|YP_001099054.1| LysR family transcriptional regulator [Herminiimonas arsenicoxydans] Length = 297 Score = 158 bits (400), Expect = 3e-40, Method: Compositional matrix adjust. Identities = 104/293 (35%), Positives = 163/293 (55%), Gaps = 18/293 (6%) Query: 4 SIDLRLLRYFIAVAEEGHLTKAAERIGIQQPPLSQQIRLLERELGVTLFNRLPRGMELTD 63 +I+LR LRYF+ VAEE H +AA R+ + QPPLSQ I+ LE LGV LF R R + LT Sbjct: 2 NIELRQLRYFVTVAEEMHFGRAAIRLHMTQPPLSQAIQSLEAMLGVQLFRRTSRSVALTP 61 Query: 64 SGTALLTDARALLAQLDTTVASVRRIAQGKMGRIAVGFTESAS---LHPFVHSVIRAFRA 120 +G+ALL +A+ +L Q +RR+ G GR+++ F +A L PF +R FR Sbjct: 62 AGSALLPEAQRILQQTAALPDLMRRVTSGASGRLSLAFVSTADYSVLPPF----LREFRE 117 Query: 121 DAPDVVMTVEESNTNELIEALRAKRLDLAFVRSPVGDASGLTIETM--LVEEMVAALPID 178 P V + + E+ T+ ++ L R+D+ + P+ D + L ++ + L E ++ A P Sbjct: 118 SYPGVEIDLREATTDVQLDDLMQGRIDVGLLIPPLPDKAKLQLDYLPVLSEPLILAAP-- 175 Query: 179 HPLAEHGKRKSIALHALAEQAFIMTRRPNGPGLYDTIIAACHAAGFSPQVTQEARKNLST 238 L ++S+AL +LAE I+ R P +D I++ AG +P + QEA + + Sbjct: 176 KGLKALKGKQSVALQSLAELPLIIFPRRIAPAFHDAILSCYRDAGLTPHIGQEAIQMQTI 235 Query: 239 LSLVAAGVGVAVIPASMTRVNAEGVVYLKLTGAPELKAPL---HLAYRTGSVS 288 + LV+AG+G+A++P S++ + GV Y L K PL LA+R + S Sbjct: 236 IGLVSAGMGIALVPQSVSNLKRPGVDYKPLAN----KTPLVETGLAWRRDNAS 284 >gi|134093581|ref|YP_001098656.1| LysR family transcriptional regulator [Herminiimonas arsenicoxydans] Length = 315 Score = 96.7 bits (239), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 79/255 (30%), Positives = 126/255 (49%), Gaps = 25/255 (9%) Query: 10 LRYFIAVAEEGHLTKAAERIGIQQPPLSQQIRLLERELGVTLFNRLPRGMELTDSGTALL 69 L+Y +AVA E H AAE + QP LS I+ LE ELGVTLF R + +T G ++ Sbjct: 6 LKYIVAVAREKHFGHAAEACHVAQPTLSVAIKKLEDELGVTLFERGGSEISMTPLGVQIV 65 Query: 70 TDARALLAQLDTTVASVRRIAQGKMG------RIAVGFTESASLHPFVHSVIRAFRADAP 123 A +L Q A+++ IA+ R+ + +T + L P +++A P Sbjct: 66 AQAERVLEQ----TAAIKEIAKQNKDPLVGPFRLGIIYTIAPYLLP---PLVKAMIERVP 118 Query: 124 DVVMTVEESNTNELIEALRAKRLDLAFVRSPVGDASGLTIETMLVEEMVAALPIDHPLAE 183 + + ++E+ T +L+E LR +D A V P+ D GL ++ + E V A+P HP AE Sbjct: 119 QMPLVLQENFTVKLLEQLRQGEIDAAIVALPIPD-QGLLVQPVYDEPFVVAVPKHHPWAE 177 Query: 184 HGKRKSIALHALAEQAFIMTRRPNGPGLYDTIIAAC-HAAGFSPQVTQEAR----KNLST 238 R S+ L + ++ NG D ++ C + FS AR +L T Sbjct: 178 ---RSSVTTDNLKSETMLLLG--NGHCFRDQVLEVCPEMSRFSTSGDGIARTFEGSSLET 232 Query: 239 L-SLVAAGVGVAVIP 252 + +VA+G+G+ V+P Sbjct: 233 IRHMVASGIGITVLP 247 >gi|134094687|ref|YP_001099762.1| putative DNA-binding transcriptional regulatory transcription regulator protein [Herminiimonas arsenicoxydans] Length = 305 Score = 80.1 bits (196), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 62/248 (25%), Positives = 115/248 (46%), Gaps = 7/248 (2%) Query: 5 IDLRLLRYFIAVAEEGHLTKAAERIGIQQPPLSQQIRLLERELGVTLFNRLPRGMELTDS 64 DL L F+ VA G +T+ A++ + S++I LE LG L R G+ LTD+ Sbjct: 6 FDLITLSLFVDVARTGSITRGAQQANLALAAASKRISDLEAHLGTVLLYRHANGVTLTDA 65 Query: 65 GTALLTDARALLAQLDTTVASVRRIAQGKMGRIAVGFTESASLHPFVHSVIRAFRADAPD 124 G A A ++ ++ + A G G++ + + ++++ F+ + AF Sbjct: 66 GNACFQHALGIIQDVERMSGVMSDYASGIRGQVRI-WANTSAITQFLPDDLHAFMQAHAG 124 Query: 125 VVMTVEESNTNELIEALRAKRLDLAFVRSPVGDASGLTIETMLVEEMVAALPIDHPLAEH 184 V + +EE N+ +++ +R R D+ P A G+ + T +++ +P +HPLA H Sbjct: 125 VRIDIEERNSGDVVAGIRENRTDIGIFADPT-PAEGIAVFTYRKQKLGLVVPKNHPLAAH 183 Query: 185 GKRKSIALHALAEQAFIMTRRPNGPGLYDTIIAACHAAGFSPQVTQEARKNLSTLSLVAA 244 K ++L + F+ L + + AAC ++ + R + +V A Sbjct: 184 ---KQVSLSDALDYDFVSL--AEATSLTERLHAACSRLQKPLKLRAQVRSFDAVCRMVKA 238 Query: 245 GVGVAVIP 252 GVG+ V+P Sbjct: 239 GVGIGVVP 246 >gi|134095306|ref|YP_001100381.1| LysR family transcriptional regulator [Herminiimonas arsenicoxydans] Length = 294 Score = 70.5 bits (171), Expect = 9e-14, Method: Compositional matrix adjust. Identities = 69/248 (27%), Positives = 108/248 (43%), Gaps = 7/248 (2%) Query: 5 IDLRLLRYFIAVAEEGHLTKAAERIGIQQPPLSQQIRLLERELGVTLFNRLPRGMELTDS 64 DL L F+ E G +T AER + S +IR +E LG+ L R RG+E T Sbjct: 3 FDLTDLTLFLHSVETGSITAGAERSHLSLASASARIRGMEEMLGIPLLIRGQRGVEATPV 62 Query: 65 GTALLTDARALLAQLDTTVASVRRIAQGKMGRIAVGFTESASLHPFVHSVIRAFRADAPD 124 G AL+ AR L Q + + AQG G + + + + SL F+ + F A P+ Sbjct: 63 GKALVHHARIALRQQERMRGELSEYAQGLKGHVRI-MSNTVSLTEFLPEALSNFLATHPN 121 Query: 125 VVMTVEESNTNELIEALRAKRLDLAFVRSPVGDASGLTIETMLVEEMVAALPIDHPLAEH 184 V + +EE + E++ AL +D+ + V D SG + + + DHPL+ Sbjct: 122 VNIDLEERLSFEIVSALTEGTIDIGILSDSV-DFSGFETFPFHDDRLTLVVARDHPLS-- 178 Query: 185 GKRKSIALHALAEQAFIMTRRPNGPGLYDTIIAACHAAGFSPQVTQEARKNLSTLSLVAA 244 R SI + FI + + Y + AA F +V R + ++ Sbjct: 179 -VRSSIHFAETLDYDFIGLQEGSALQEYLSEQAAKMGRRFKYRV--RLRSFDAVCRMIER 235 Query: 245 GVGVAVIP 252 VG+ V+P Sbjct: 236 NVGIGVVP 243 >gi|134094120|ref|YP_001099195.1| putative transcriptional regulator [Herminiimonas arsenicoxydans] Length = 284 Score = 70.5 bits (171), Expect = 9e-14, Method: Compositional matrix adjust. Identities = 81/281 (28%), Positives = 126/281 (44%), Gaps = 30/281 (10%) Query: 5 IDLRLLRYFIAVAEEGHLTKAAERIGIQQPPLSQQIRLLERELGVTLFNRLPRGMELTDS 64 +D LLR F+AV + G T+AA+ + + Q +SQQIR LE ++G L NR R + T Sbjct: 2 LDPVLLRSFVAVVDTGSFTRAADSVHLTQSTISQQIRRLEMQVGCDLLNRSGRYVTTTLE 61 Query: 65 GTALLTDARALLAQLDTTVASVRRIAQGKMGRIAVGFTESA---SLHPFVHSVIRAFRAD 121 G LL A + +D + + + A GK G + +G E +L P + + I + A Sbjct: 62 GERLLRYAHRIAQLMDEAMEQIAQSA-GK-GEVRLGVPEDFVGRALTPTLSAFIDTYSA- 118 Query: 122 APDVVMTVEESNTNELIEALRAKRLDLAFVRSPVGDASGLTIETMLVEEMVAALPIDHPL 181 V + V ++EL + + LDLA ++ VG GL + E + P Sbjct: 119 ---VRLEVSSGMSHELWQRFQRGELDLALIKQRVGSMPGLASWS---ERLCWVESRSRPN 172 Query: 182 AEHGKRKSIALHALAEQAFIMTRRPNGPGLYDT-IIAACHAAGFSPQVTQEARKNLSTLS 240 A H + P G GLY + ++ A AAG ++T + S + Sbjct: 173 AMHDPIPLVVF-------------PIG-GLYRSEMMHALDAAGLRWRITYVSASLASVSA 218 Query: 241 LVAAGVGVAVIPASMTRVNAEGVVYLKLTGAPELKAPLHLA 281 V AG+GV ++P R+ A G L ++ PL LA Sbjct: 219 AVEAGLGVTLLP---RRLLAAGHRMLDAASGFKVVPPLELA 256 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 0.133 0.366 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: 501,108 Number of extensions: 18282 Number of successful extensions: 109 Number of sequences better than 1.0e-08: 17 Number of HSP's gapped: 101 Number of HSP's successfully gapped: 17 Length of query: 308 Length of database: 1,000,347 Length adjustment: 81 Effective length of query: 227 Effective length of database: 733,452 Effective search space: 166493604 Effective search space used: 166493604 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: 128 (53.9 bits)