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= 0001.3563.p (216 letters) Database: BlastDatabases/690/690 3295 sequences; 1,000,347 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|134094861|ref|YP_001099936.1| nitrate/nitrite response regula... 277 3e-76 gi|134095692|ref|YP_001100767.1| response regulator [Herminiimon... 111 3e-26 gi|134095064|ref|YP_001100139.1| LuxR family transcriptional reg... 107 6e-25 gi|134096209|ref|YP_001101284.1| response regulatory protein [He... 80 8e-17 gi|134093850|ref|YP_001098925.1| putative two-component system r... 69 2e-13 >gi|134094861|ref|YP_001099936.1| nitrate/nitrite response regulator protein [Herminiimonas arsenicoxydans] Length = 235 Score = 277 bits (709), Expect = 3e-76, Method: Compositional matrix adjust. Identities = 144/212 (67%), Positives = 184/212 (86%), Gaps = 3/212 (1%) Query: 3 IRILLVDDHTLFRSGIRLLLQRHPEFEVVGEAVDGLDGVKRARQLRPDVVLMDLNMPGLS 62 I +LL+DDHTLFRSGIR LLQR+PEF VVGEA DG++G+KRARQL+PDVVL+DLNMPG+S Sbjct: 18 ISVLLIDDHTLFRSGIRSLLQRYPEFSVVGEAADGVEGIKRARQLQPDVVLLDLNMPGIS 77 Query: 63 GLEAMQLIVEDLPETAVLMLSVSEEAEDLSTALHNGAAGYLLKNIEADYLVQAIKRAAAG 122 GL+ +QL+++D P TAV+ML+VSE+AEDL AL +GA GYL+KNI+ADYLV+AI+RAAAG Sbjct: 78 GLQTLQLMLQDCPNTAVIMLTVSEDAEDLGVALQSGARGYLIKNIDADYLVRAIQRAAAG 137 Query: 123 EPVISEAMTAKLVMQFRAA--RPGVAGDMKEKLTARERETMRCVAQGQSNKEIARSLDVA 180 E V++EAMT+KL+ Q + A R V ++ +KLT RER+ + C+A+G+SNK IAR+LDVA Sbjct: 138 EAVVAEAMTSKLIAQLQNAGQRTEVRSEL-DKLTPRERDILACLARGESNKLIARTLDVA 196 Query: 181 ESTVKIHVQNILKKLNLSSRVQIAVYAVEHGL 212 +STVKIHVQNILKKLNLSSRVQ A++AV HG+ Sbjct: 197 DSTVKIHVQNILKKLNLSSRVQAAIFAVGHGV 228 >gi|134095692|ref|YP_001100767.1| response regulator [Herminiimonas arsenicoxydans] Length = 210 Score = 111 bits (277), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 67/210 (31%), Positives = 111/210 (52%), Gaps = 3/210 (1%) Query: 3 IRILLVDDHTLFRSGIRLLLQRHPEFEVVGEAVDGLDGVKRARQLRPDVVLMDLNMPGLS 62 I+IL+VDDH + R+G++ + + P+ + GEA + ++ R D+VL+D+NMP S Sbjct: 2 IKILVVDDHAVVRAGVQYFIAQVPDMCIEGEAATAQEAIRLVRAQDWDIVLLDINMPDKS 61 Query: 63 GLEAMQLIVEDLPETAVLMLSVSEEAEDLSTALHNGAAGYLLKNIEADYLVQAIKRAAAG 122 G+E ++ I + PE VL+LS+ E+ L +GA+GY+ K A+ LV AI+ G Sbjct: 62 GVEVLKQIKREKPELPVLILSMHPESRYAVQILRSGASGYVQKEALAEELVTAIQTILRG 121 Query: 123 EPVISEAMTAKLVMQFRAARPGVAGDMKEKLTARERETMRCVAQGQSNKEIARSLDVAES 182 IS + L + P + E L+ RE E + QG +IA L ++ Sbjct: 122 HKYISHTVAELLTAE---VDPNADKPLHETLSKREYEIFYKLCQGHGVTKIADELCLSVK 178 Query: 183 TVKIHVQNILKKLNLSSRVQIAVYAVEHGL 212 TV + +L+K+N+ + I YA++ L Sbjct: 179 TVSTYRARVLQKMNMENNAGIIYYAIKQNL 208 >gi|134095064|ref|YP_001100139.1| LuxR family transcriptional regulator [Herminiimonas arsenicoxydans] Length = 215 Score = 107 bits (266), Expect = 6e-25, Method: Compositional matrix adjust. Identities = 64/211 (30%), Positives = 120/211 (56%), Gaps = 3/211 (1%) Query: 2 SIRILLVDDHTLFRSGIRLLLQRHPEFEVVGEAVDGLDGVKRARQLRPDVVLMDLNMPGL 61 +I++L+ DDH + R G++ +L + V G A +G + ++ +R+ +V+L+D++MP Sbjct: 6 AIKVLIADDHAIVREGLKQILADTRDIVVAGHAENGSEAIRLSREGLCNVLLLDISMPDR 65 Query: 62 SGLEAMQLIVEDLPETAVLMLSVSEEAEDLSTALHNGAAGYLLKNIEADYLVQAIKRAAA 121 SG+E ++ + ++ P+ A+LMLS+ E + +L GAAGYL K LV AI++ AA Sbjct: 66 SGIEVLKQVRKESPKIAILMLSMHREDQYAIRSLKAGAAGYLNKQSAPAELVTAIRQVAA 125 Query: 122 GEPVISEAMTAKLVMQFRAARPGVAGDMKEKLTARERETMRCVAQGQSNKEIARSLDVAE 181 G IS + +L Q + E L+ RE +T+ +A G++ +IA L ++ Sbjct: 126 GRKYISAELAQELANQINDNHE---TPLHETLSDREYQTLTMIASGKTVSDIAAELVLSV 182 Query: 182 STVKIHVQNILKKLNLSSRVQIAVYAVEHGL 212 T+ ++ +L+K+ L ++ YA+++ L Sbjct: 183 KTISMYRSRLLQKMKLRHNAELTHYAIKNHL 213 >gi|134096209|ref|YP_001101284.1| response regulatory protein [Herminiimonas arsenicoxydans] Length = 238 Score = 80.1 bits (196), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 61/216 (28%), Positives = 110/216 (50%), Gaps = 17/216 (7%) Query: 3 IRILLVDDHTLFRSGIRLLLQRHPEFEVVGEAVDGLDGVKRARQL---RP-DVVLMDLNM 58 I +L+V+D R + L +++ P +++ LD VK A +P DV+L+DL + Sbjct: 11 ITVLVVEDDVATRRALCLGIKKEPALKLLA----ALDCVKSALDWLLHQPVDVLLVDLGL 66 Query: 59 PGLSGLEAMQLIVEDLPETAVLMLSVSEEAEDLSTALHNGAAGYLLKNIEADYLVQAIKR 118 P SG++ ++ + P +++++ S + + ++ GA+GY+LK+ + +A+ Sbjct: 67 PDGSGIDIIRFCADRHPSCNIMVITTSSDQGSVVDSIEAGASGYVLKDAGPLDIGRALME 126 Query: 119 AAAGEPVISEAMTAKLVMQFRAARPG--------VAGDMKEKLTARERETMRCVAQGQSN 170 AG IS + K++ + R G K LT RE + +A+G S Sbjct: 127 LHAGGSPISPVIARKVLARMRDGNKADGAVRAENAPGGQKVFLTRREATILDLIARGDSY 186 Query: 171 KEIARSLDVAESTVKIHVQNILKKLNLSSRVQIAVY 206 E+AR L ++ TV+ H++NI KL++ SR AVY Sbjct: 187 CEVARELALSVGTVQTHIKNIYDKLSVHSR-GAAVY 221 >gi|134093850|ref|YP_001098925.1| putative two-component system response regulator [Herminiimonas arsenicoxydans] Length = 232 Score = 68.6 bits (166), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 61/217 (28%), Positives = 104/217 (47%), Gaps = 16/217 (7%) Query: 5 ILLVDDHTLFRSGIR-LLLQRHPEFEVVGEAVDGLDGVKRARQLRPDVV-------LMDL 56 +LLV+D L R + LLLQ +G + D L + R +V L+DL Sbjct: 21 VLLVEDEPLIRRRLEGLLLQ-------LGYSSDALVMTGSLAEARACMVNQPIALALVDL 73 Query: 57 NMPGLSGLEAMQLIVEDLPETAVLMLSVSEEAEDLSTALHNGAAGYLLKNIEADYLVQAI 116 +P SG++ + + P +L++S + + AL GA GY+LK + + +I Sbjct: 74 GLPDGSGIDLIAEMHMADPALPILVISAWSTEDAILAALRAGATGYVLKERDDMEVALSI 133 Query: 117 KRAAAGEPVISEAMTAKLVMQFRA-ARPGVAGDMKEKLTARERETMRCVAQGQSNKEIAR 175 + G I + +++ + R P E L+ RE E + VAQG +N+EI+ Sbjct: 134 RSVLRGGAPIDPFIARRIIDELRPKTMPHEKAPNNETLSPRESEILGLVAQGLANREISE 193 Query: 176 SLDVAESTVKIHVQNILKKLNLSSRVQIAVYAVEHGL 212 L ++ T++ H+++I +KL +SSR + A GL Sbjct: 194 QLHLSRYTIECHIKHIYRKLAVSSRTKAIHEARSRGL 230 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 0.318 0.133 0.357 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: 354,891 Number of extensions: 12621 Number of successful extensions: 118 Number of sequences better than 1.0e-08: 10 Number of HSP's gapped: 121 Number of HSP's successfully gapped: 10 Length of query: 216 Length of database: 1,000,347 Length adjustment: 78 Effective length of query: 138 Effective length of database: 743,337 Effective search space: 102580506 Effective search space used: 102580506 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 127 (53.5 bits)