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= 0495.0012.p (348 letters) Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF 2,715,099 sequences; 757,237,578 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value ref|NP_388577.1| similar to two-component response regulator [Ye... 142 1e-32 ref|NP_243594.1| two-component response regulator [Bacillus halo... 110 3e-23 ref|NP_244313.1| BH3446~unknown conserved protein [Bacillus halo... 102 1e-20 ref|ZP_00100010.1| COG4753: Response regulator containing CheY-l... 99 1e-19 ref|NP_358172.1| Response regulator [Streptococcus pneumoniae R6... 99 1e-19 >ref|NP_388577.1| similar to two-component response regulator [YesM] [Bacillus subtilis] pir||E69796 two-component response regulator [YesM] homolog yesN - Bacillus subtilis emb|CAB12515.1| yesN [Bacillus subtilis subsp. subtilis str. 168] Length = 368 Score = 142 bits (359), Expect = 1e-32, Method: Compositional matrix adjust. Identities = 113/383 (29%), Positives = 193/383 (50%), Gaps = 58/383 (15%) Query: 2 KILVVDDEVVIRKGLIKLLEQFSKGITDIDEAKNGEEALTRISVNKPDILITDIQMPIMN 61 KIL+ DDE +I G+ ++E S G + I +A+NG EA +I +P I+ITD++MP M+ Sbjct: 3 KILLADDERIILDGMAGIIEWESLGASLIGKAQNGHEAYEKIVHKQPHIVITDVKMPGMD 62 Query: 62 GLDLIGRVRAVYPELDVIVLSGYAEFDFVQQALRHQVADYLLKPVTQEQ----LNEVISK 117 GL+LI +V AV P + IVLSG+ EF++ ++A+++ V YLLKP ++Q L E+I++ Sbjct: 63 GLELIKKVSAVSPSVQFIVLSGFGEFEYAKEAMKYGVKHYLLKPCNEQQIISSLEEIIAE 122 Query: 118 ILLKD-PARWTSQMDGE--TIRTMKTTVTLLVKNVMAEDQQETDKIIEGWSAHCRKCGYT 174 + +D + T+ + E IR+ D+ +EG A G Sbjct: 123 LKRQDVHKKKTAHLKHELDHIRSFA-----------------ADQYLEGLIA-----GVA 160 Query: 175 WLELKQMMGHFQ---LLFRSELLLN--LKQATGDAL---------PVLQQTASSAEELFE 220 L + + L+ + E ++ ++A G AL VL ++AE++ E Sbjct: 161 QLSPPPSLAGKKIRLLILKGEQSIDAAAREALGSALTAVCSSGEWTVLAVEENAAEKVAE 220 Query: 221 VWKNYLASVILYVSERRAPRNKRIVEEVLGRIEA-------------QYGDASLNLQGLA 267 V+ + ++ R A + R E G + + G+ +L+L+ A Sbjct: 221 VFADRKMAISQAGELRHAGQLFRDTAEASGDLHGSAVISKMIRLIADELGNPNLSLKWAA 280 Query: 268 ESCGLTAP-YLSKIFREVMKKPITQYISEYRLEKARELLKYDAPAKINIVAEQCGFSDYP 326 + P YL K+F++ + +QY++ RLE A + +K ++ +AE+ GF D P Sbjct: 281 KDMLFMNPDYLGKLFKQETGEKFSQYVTRVRLEHAMKQMKIRRDVSVSEIAEEIGFGDNP 340 Query: 327 -YFSKIFKKNFGVSPLEYKEKNG 348 YFS +FKK G++P E++ K G Sbjct: 341 KYFSLVFKKYTGLTPSEFRRKQG 363 >ref|NP_243594.1| two-component response regulator [Bacillus halodurans] pir||H83990 two-component response regulator BH2728 [imported] - Bacillus halodurans (strain C-125) dbj|BAB06447.1| two-component response regulator [Bacillus halodurans] Length = 510 Score = 110 bits (276), Expect = 3e-23, Method: Compositional matrix adjust. Identities = 53/123 (43%), Positives = 87/123 (70%), Gaps = 1/123 (0%) Query: 3 ILVVDDEVVIRKGLIKLLEQFSKGITDIDEAKNGEEALTRISVNKPDILITDIQMPIMNG 62 +L+VDDE +IR+G+I + +G + EA NG++AL IS N+P I++TDI MP+M+G Sbjct: 4 VLIVDDEKLIRQGIINFFDWEKEGFQIVGEAANGKDALELISKNEPHIVMTDIVMPVMDG 63 Query: 63 LDLIGRVRAVYPELDVIVLSGYAEFDFVQQALRHQVADYLLKP-VTQEQLNEVISKILLK 121 +DL+ RV+ +PE+++IVLS + EF++V+ VADY+LKP + ++ L + +S++ K Sbjct: 64 IDLVKRVKRDFPEVEIIVLSSFEEFEYVRSTFHSGVADYILKPRLNEKDLLKTLSEVRGK 123 Query: 122 DPA 124 PA Sbjct: 124 IPA 126 Score = 60.1 bits (144), Expect = 7e-08, Method: Compositional matrix adjust. Identities = 33/104 (31%), Positives = 58/104 (55%), Gaps = 2/104 (1%) Query: 245 VEEVLGRIEAQYGDASLNLQGLAESCGLTAPYLSKIFREVMKKPITQYISEYRLEKAREL 304 ++++L IE + + L+L LA YLS FR+ + ++Y+++ R+ KA+E Sbjct: 402 IQKMLAYIEEHHSEP-LSLSQLANYFHFNPSYLSAYFRQHHDEGFSEYLNKVRIRKAKEW 460 Query: 305 LKYDAPAKINIVAEQCGFSDYPYFSKIFKKNFGVSPLEYKEKNG 348 LK + I+ + G+SD+ YF K+FKK G+ P Y+ +N Sbjct: 461 LK-SSTIPISEIYALVGYSDHSYFCKVFKKRTGMPPSRYRRENA 503 >ref|NP_244313.1| BH3446~unknown conserved protein [Bacillus halodurans] pir||F84080 hypothetical protein BH3446 [imported] - Bacillus halodurans (strain C-125) dbj|BAB07165.1| BH3446~unknown conserved protein [Bacillus halodurans] Length = 200 Score = 102 bits (254), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 49/120 (40%), Positives = 80/120 (66%) Query: 2 KILVVDDEVVIRKGLIKLLEQFSKGITDIDEAKNGEEALTRISVNKPDILITDIQMPIMN 61 +L+ DDE++IR+G+ + +T + EA++GEEAL ++ DIL+ D+ MPIMN Sbjct: 5 NVLIADDEIIIREGIRDAINWSELQLTVVAEAEDGEEALELALEHQVDILLADLNMPIMN 64 Query: 62 GLDLIGRVRAVYPELDVIVLSGYAEFDFVQQALRHQVADYLLKPVTQEQLNEVISKILLK 121 GL LI ++R P VI+++G+ EF + Q+A+R V DY++KPV +QL EV+ K+ ++ Sbjct: 65 GLTLIKQLRTALPHCKVIIITGHDEFVYAQEAIRLSVVDYIIKPVDADQLYEVLKKVCIE 124 >ref|ZP_00100010.1| COG4753: Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Desulfitobacterium hafniense] Length = 289 Score = 99.4 bits (246), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 52/132 (39%), Positives = 88/132 (66%), Gaps = 2/132 (1%) Query: 2 KILVVDDEVVIRKGLIKLLEQFSKGITDIDEAKNGEEALTRISVNKPDILITDIQMPIMN 61 K+L+VDDE +IR+G+ +L+ + I+++ EA++G AL + +PDI++ DI MP ++ Sbjct: 33 KLLIVDDEPIIRQGIKQLINFQEQSISEVYEAEDGALALDIVKEKRPDIVLADINMPNLD 92 Query: 62 GLDLIGRVRAVYPELDVIVLSGYAEFDFVQQALRHQVADYLLKPVTQEQLNEVISKIL-- 119 GL+L ++AV PE+ V V++GY F++ AL+ V DYLLKPV++ + E++SK++ Sbjct: 93 GLNLAREIKAVDPEIRVAVITGYDYFEYAVTALKAGVDDYLLKPVSRSDILELLSKLVND 152 Query: 120 LKDPARWTSQMD 131 LK+ MD Sbjct: 153 LKEKTEQRRAMD 164 Score = 69.3 bits (168), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 37/103 (35%), Positives = 60/103 (58%), Gaps = 1/103 (0%) Query: 246 EEVLGRIEAQYGDASLNLQGLAESCGLTAPYLSKIFREVMKKPITQYISEYRLEKARELL 305 E +L + D + +L LAE+ L++ YLS +F++ P +Y++ RLE+++ LL Sbjct: 185 EMILQVMNHSLSDPAFSLGRLAEAINLSSGYLSTVFKQNFGIPFQEYLTTMRLERSKILL 244 Query: 306 KYDAPAKINIVAEQCGFSDYPYFSKIFKKNFGVSPLEYKEKNG 348 + KI +AE+ GF D YFS FKK +G+SP Y++ G Sbjct: 245 LVTS-YKIYEIAEKVGFDDPSYFSTCFKKRYGLSPNSYRDTMG 286 >ref|NP_358172.1| Response regulator [Streptococcus pneumoniae R6] pir||B97944 response regulator [imported] - Streptococcus pneumoniae (strain R6) gb|AAK99382.1| Response regulator [Streptococcus pneumoniae R6] Length = 251 Score = 99.0 bits (245), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 47/116 (40%), Positives = 77/116 (66%) Query: 3 ILVVDDEVVIRKGLIKLLEQFSKGITDIDEAKNGEEALTRISVNKPDILITDIQMPIMNG 62 IL+V+DE ++R+GL KL+ + + I +A+NG +A I PDI++TDI MP +NG Sbjct: 11 ILIVEDEYLVRQGLTKLVNVAAYDMEIIGQAENGRQAWELIQKQVPDIILTDINMPHLNG 70 Query: 63 LDLIGRVRAVYPELDVIVLSGYAEFDFVQQALRHQVADYLLKPVTQEQLNEVISKI 118 + L VR YP++ ++ L+GY +FD+ A++ V DYLLKP +++ + E++ KI Sbjct: 71 IQLASLVRETYPQVHLVFLTGYDDFDYALSAVKLGVDDYLLKPFSRQDIEEMLGKI 126 Score = 53.1 bits (126), Expect = 1e-05, Method: Compositional matrix adjust. Identities = 30/95 (31%), Positives = 55/95 (57%), Gaps = 1/95 (1%) Query: 251 RIEAQYGDASLNLQGLAESCGLTAPYLSKIFREVMKKPITQYISEYRLEKARELLKYDAP 310 +I++ D+ +L+ LA G + YLS + ++ + P Y+ R+++A+ LL Sbjct: 154 KIQSHLADSQFSLKSLASDLGFSPTYLSSLIKKELGLPFQDYLVRERVKQAKLLLLT-TD 212 Query: 311 AKINIVAEQCGFSDYPYFSKIFKKNFGVSPLEYKE 345 KI +AE+ GF D YF++ FK+ GV+P ++K+ Sbjct: 213 LKIYEIAEKVGFEDMNYFTQRFKQIAGVTPRQFKK 247 Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF Posted date: Mar 24, 2004 1:53 AM Number of letters in database: 757,237,578 Number of sequences in database: 2,715,099 Lambda K H 0.319 0.136 0.386 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 2715099 Number of Hits to DB: 489,010,491 Number of extensions: 18891517 Number of successful extensions: 71732 Number of sequences better than 1.0e-05: 2462 Number of HSP's gapped: 74181 Number of HSP's successfully gapped: 2507 Length of query: 348 Length of database: 757,237,578 Length adjustment: 126 Effective length of query: 222 Effective length of database: 415,135,104 Effective search space: 92159993088 Effective search space used: 92159993088 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 (21.7 bits) S2: 126 (53.1 bits)