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= 0001.1039.p (203 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... 94 4e-21 gi|134095692|ref|YP_001100767.1| response regulator [Herminiimon... 84 7e-18 gi|134093850|ref|YP_001098925.1| putative two-component system r... 82 2e-17 gi|134095064|ref|YP_001100139.1| LuxR family transcriptional reg... 64 6e-12 gi|134096209|ref|YP_001101284.1| response regulatory protein [He... 64 6e-12 >gi|134094861|ref|YP_001099936.1| nitrate/nitrite response regulator protein [Herminiimonas arsenicoxydans] Length = 235 Score = 94.4 bits (233), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 66/222 (29%), Positives = 117/222 (52%), Gaps = 32/222 (14%) Query: 2 PISRLLIIDDHALFRCGLRLVLQAALPQATISEAGS-LEDAMRAEDAQAPDMVLLDIQLG 60 PIS +L+IDDH LFR G+R +LQ + + EA +E RA Q PD+VLLD+ + Sbjct: 17 PIS-VLLIDDHTLFRSGIRSLLQRYPEFSVVGEAADGVEGIKRARQLQ-PDVVLLDLNMP 74 Query: 61 GLNGIDGMAVLARKWPDVPIIILSADDTDGTVRAATQRGAAAFVSKAATAEHILQVL--- 117 G++G+ + ++ + P+ +I+L+ + + A Q GA ++ K A+++++ + Sbjct: 75 GISGLQTLQLMLQDCPNTAVIMLTVSEDAEDLGVALQSGARGYLIKNIDADYLVRAIQRA 134 Query: 118 ------------------LEVAGGRHTLPTPSGQVEASAKPQFTPRQYEVLGLLSQGLTN 159 L+ AG R + S + TPR+ ++L L++G +N Sbjct: 135 AAGEAVVAEAMTSKLIAQLQNAGQRTEV--------RSELDKLTPRERDILACLARGESN 186 Query: 160 KAIGRRLNLSENTIRGHVQAILAALEVDNRAEAAFAARRRGL 201 K I R L+++++T++ HVQ IL L + +R +AA A G+ Sbjct: 187 KLIARTLDVADSTVKIHVQNILKKLNLSSRVQAAIFAVGHGV 228 >gi|134095692|ref|YP_001100767.1| response regulator [Herminiimonas arsenicoxydans] Length = 210 Score = 83.6 bits (205), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 59/208 (28%), Positives = 109/208 (52%), Gaps = 11/208 (5%) Query: 5 RLLIIDDHALFRCGLRLVLQAALPQATIS-EAGSLEDAMRAEDAQAPDMVLLDIQLGGLN 63 ++L++DDHA+ R G++ + A +P I EA + ++A+R AQ D+VLLDI + + Sbjct: 3 KILVVDDHAVVRAGVQYFI-AQVPDMCIEGEAATAQEAIRLVRAQDWDIVLLDINMPDKS 61 Query: 64 GIDGMAVLARKWPDVPIIILSADDTDGTVRAATQRGAAAFVSKAATAEHILQVLLEVAGG 123 G++ + + R+ P++P++ILS + GA+ +V K A AE ++ + + G Sbjct: 62 GVEVLKQIKREKPELPVLILSMHPESRYAVQILRSGASGYVQKEALAEELVTAIQTILRG 121 Query: 124 R----HTLPT-PSGQVEASA-KP---QFTPRQYEVLGLLSQGLTNKAIGRRLNLSENTIR 174 HT+ + +V+ +A KP + R+YE+ L QG I L LS T+ Sbjct: 122 HKYISHTVAELLTAEVDPNADKPLHETLSKREYEIFYKLCQGHGVTKIADELCLSVKTVS 181 Query: 175 GHVQAILAALEVDNRAEAAFAARRRGLV 202 + +L + ++N A + A ++ L+ Sbjct: 182 TYRARVLQKMNMENNAGIIYYAIKQNLI 209 >gi|134093850|ref|YP_001098925.1| putative two-component system response regulator [Herminiimonas arsenicoxydans] Length = 232 Score = 82.0 bits (201), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 65/212 (30%), Positives = 107/212 (50%), Gaps = 14/212 (6%) Query: 6 LLIIDDHALFRCGLR-LVLQAALPQATISEAGSLEDAMRAEDAQAPDMVLLDIQLGGLNG 64 +L+++D L R L L+LQ + GSL +A Q + L+D+ L +G Sbjct: 21 VLLVEDEPLIRRRLEGLLLQLGYSSDALVMTGSLAEARACMVNQPIALALVDLGLPDGSG 80 Query: 65 IDGMAVLARKWPDVPIIILSADDTDGTVRAATQRGAAAFVSKAAT-AEHILQVLLEVAGG 123 ID +A + P +PI+++SA T+ + AA + GA +V K E L + + GG Sbjct: 81 IDLIAEMHMADPALPILVISAWSTEDAILAALRAGATGYVLKERDDMEVALSIRSVLRGG 140 Query: 124 RHTLPTPSGQVEASAKPQ------------FTPRQYEVLGLLSQGLTNKAIGRRLNLSEN 171 P + ++ +P+ +PR+ E+LGL++QGL N+ I +L+LS Sbjct: 141 APIDPFIARRIIDELRPKTMPHEKAPNNETLSPRESEILGLVAQGLANREISEQLHLSRY 200 Query: 172 TIRGHVQAILAALEVDNRAEAAFAARRRGLVS 203 TI H++ I L V +R +A AR RGL++ Sbjct: 201 TIECHIKHIYRKLAVSSRTKAIHEARSRGLLA 232 >gi|134095064|ref|YP_001100139.1| LuxR family transcriptional regulator [Herminiimonas arsenicoxydans] Length = 215 Score = 63.9 bits (154), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 51/207 (24%), Positives = 96/207 (46%), Gaps = 9/207 (4%) Query: 5 RLLIIDDHALFRCGLRLVLQAALPQATISEAGSLEDAMRAEDAQAPDMVLLDIQLGGLNG 64 ++LI DDHA+ R GL+ +L A + +A+R +++LLDI + +G Sbjct: 8 KVLIADDHAIVREGLKQILADTRDIVVAGHAENGSEAIRLSREGLCNVLLLDISMPDRSG 67 Query: 65 IDGMAVLARKWPDVPIIILSADDTDGTVRAATQRGAAAFVSKAATAEHILQVLLEVAGGR 124 I+ + + ++ P + I++LS D + + GAA +++K + ++ + +VA GR Sbjct: 68 IEVLKQVRKESPKIAILMLSMHREDQYAIRSLKAGAAGYLNKQSAPAELVTAIRQVAAGR 127 Query: 125 HTLPTPSGQV---------EASAKPQFTPRQYEVLGLLSQGLTNKAIGRRLNLSENTIRG 175 + Q E + R+Y+ L +++ G T I L LS TI Sbjct: 128 KYISAELAQELANQINDNHETPLHETLSDREYQTLTMIASGKTVSDIAAELVLSVKTISM 187 Query: 176 HVQAILAALEVDNRAEAAFAARRRGLV 202 + +L +++ + AE A + LV Sbjct: 188 YRSRLLQKMKLRHNAELTHYAIKNHLV 214 >gi|134096209|ref|YP_001101284.1| response regulatory protein [Herminiimonas arsenicoxydans] Length = 238 Score = 63.9 bits (154), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 60/221 (27%), Positives = 103/221 (46%), Gaps = 21/221 (9%) Query: 2 PISRLLIIDDHALFRCGLRLVLQAALPQATISEAGSLEDAMRAEDAQAPDMVLLDIQLGG 61 PI+ L++ DD A R L L ++ ++ ++ A+ Q D++L+D+ L Sbjct: 10 PITVLVVEDDVATRR-ALCLGIKKEPALKLLAALDCVKSALDWLLHQPVDVLLVDLGLPD 68 Query: 62 LNGIDGMAVLARKWPDVPIIILSADDTDGTVRAATQRGAAAFVSKAATAEHILQVLLEV- 120 +GID + A + P I++++ G+V + + GA+ +V K A I + L+E+ Sbjct: 69 GSGIDIIRFCADRHPSCNIMVITTSSDQGSVVDSIEAGASGYVLKDAGPLDIGRALMELH 128 Query: 121 AGGRHTLPT--------------PSGQVEASAKPQ-----FTPRQYEVLGLLSQGLTNKA 161 AGG P G V A P T R+ +L L+++G + Sbjct: 129 AGGSPISPVIARKVLARMRDGNKADGAVRAENAPGGQKVFLTRREATILDLIARGDSYCE 188 Query: 162 IGRRLNLSENTIRGHVQAILAALEVDNRAEAAFAARRRGLV 202 + R L LS T++ H++ I L V +R A + A RRGL+ Sbjct: 189 VARELALSVGTVQTHIKNIYDKLSVHSRGAAVYEAHRRGLL 229 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 0.374 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: 350,178 Number of extensions: 13442 Number of successful extensions: 110 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 108 Number of HSP's successfully gapped: 6 Length of query: 203 Length of database: 1,000,347 Length adjustment: 77 Effective length of query: 126 Effective length of database: 746,632 Effective search space: 94075632 Effective search space used: 94075632 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: 126 (53.1 bits)