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= 0599.0151.p (151 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|ZP_00060556.1| COG0745: Response regulators consisting of a ... 126 1e-28 ref|NP_764655.1| putative response regulator ArlR [Staphylococcu... 115 3e-25 ref|ZP_00108817.1| COG0745: Response regulators consisting of a ... 113 1e-24 ref|NP_371939.1| truncated (putative response regulator) [Staphy... 113 1e-24 ref|NP_688782.1| DNA-binding response regulator [Streptococcus a... 113 2e-24 >ref|ZP_00060556.1| COG0745: Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Clostridium thermocellum ATCC 27405] Length = 225 Score = 126 bits (317), Expect = 1e-28, Method: Compositional matrix adjust. Identities = 63/148 (42%), Positives = 89/148 (60%) Query: 1 VIMLTAKGEITDMVAGLDYGADDYIAKPFSSEELMARIRAALRRKGEVIPDDTLKLGDME 60 V++LTAK + + V GLD GADDY+ KPFS EL+ARIRA RR+ E+ ++ + +G+M Sbjct: 75 VLILTAKDSVKNRVEGLDSGADDYLTKPFSKSELLARIRALGRRQSEIFVNEEINIGNMS 134 Query: 61 LNTANLRLSVKGXXXXXXXXXXXXXXXXXXRKQAITSKEQIIEKLWGFDSEAEHNNVEVY 120 N + V G K + SKEQ++EK+WGF ++ E NN+EVY Sbjct: 135 FNCMKGEIKVNGQTIKLTSKESQILEILIKNKNIVVSKEQLLEKVWGFQTDIELNNIEVY 194 Query: 121 ISFLRKKLVFLNSEVRINTIRNVGYVLE 148 +S+LRKKL L+ + I TIR GY L+ Sbjct: 195 LSYLRKKLSKLDCGIVIETIRARGYCLK 222 >ref|NP_764655.1| putative response regulator ArlR [Staphylococcus epidermidis ATCC 12228] gb|AAO04697.1| putative response regulator ArlR [Staphylococcus epidermidis ATCC 12228] Length = 219 Score = 115 bits (288), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 62/143 (43%), Positives = 83/143 (58%), Gaps = 5/143 (3%) Query: 6 AKGEITDMVAGLDYGADDYIAKPFSSEELMARIRAALRRKGEVIPD-DTLKLGDMELNTA 64 AK E D VAGLDYGADDYI KPF EEL+ARIRA LRR+ PD D L + + ++ Sbjct: 80 AKSETYDKVAGLDYGADDYIVKPFDIEELLARIRAVLRRQ----PDKDVLDINGIIIDKD 135 Query: 65 NLRLSVKGXXXXXXXXXXXXXXXXXXRKQAITSKEQIIEKLWGFDSEAEHNNVEVYISFL 124 +++V G + + +EQI++ +WG++SE E N V+VYI +L Sbjct: 136 AFKVTVNGHQLELTKTEYDLLYVLAENRNHVMQREQILDHVWGYNSEVETNVVDVYIRYL 195 Query: 125 RKKLVFLNSEVRINTIRNVGYVL 147 R KL N E I T+R VGYV+ Sbjct: 196 RNKLKPFNKEKSIETVRGVGYVI 218 >ref|ZP_00108817.1| COG0745: Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Nostoc punctiforme] Length = 242 Score = 113 bits (283), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 64/151 (42%), Positives = 88/151 (58%), Gaps = 1/151 (0%) Query: 1 VIMLTAKGEITDMVAGLDYGADDYIAKPFSSEELMARIRAALRRKGEVIPDDTLKLGDME 60 VI+LTAK E++D VAGLD GADDY+ KPFS EEL+ARIRA LRR E +D L+ D+ Sbjct: 93 VILLTAKDEVSDRVAGLDAGADDYVVKPFSIEELLARIRAHLRRTQET-AEDLLQFEDLS 151 Query: 61 LNTANLRLSVKGXXXXXXXXXXXXXXXXXXRKQAITSKEQIIEKLWGFDSEAEHNNVEVY 120 LN + + + + +++QI+EK+WG+D + N +EVY Sbjct: 152 LNRRTREVFREKRSIELTAKEFDLLEYLLSHPRQVFTRDQILEKVWGYDFMGDSNIIEVY 211 Query: 121 ISFLRKKLVFLNSEVRINTIRNVGYVLEVTS 151 I +LR KL N + I+T+R VGY L S Sbjct: 212 IRYLRLKLEENNEKRLIHTVRGVGYALREQS 242 >ref|NP_371939.1| truncated (putative response regulator) [Staphylococcus aureus subsp. aureus Mu50] ref|NP_646122.1| truncated (putative response regulator ArlR [Staphylococcus aureus subsp. aureus MW2] gb|AAF85896.1| putative response regulator ArlR [Staphylococcus aureus] dbj|BAB57577.1| truncated (putative response regulator) [Staphylococcus aureus subsp. aureus Mu50] dbj|BAB95170.1| truncated (putative response regulator ArlR [Staphylococcus aureus subsp. aureus MW2] Length = 219 Score = 113 bits (283), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 59/147 (40%), Positives = 86/147 (58%), Gaps = 3/147 (2%) Query: 1 VIMLTAKGEITDMVAGLDYGADDYIAKPFSSEELMARIRAALRRKGEVIPDDTLKLGDME 60 +I++TAK + D VAGLDYGADDYI KPF EEL+ARIRA LRR+ + D + + + Sbjct: 75 IIIITAKSDTYDKVAGLDYGADDYIVKPFDIEELLARIRAILRRQPQ---KDIIDVNGIT 131 Query: 61 LNTANLRLSVKGXXXXXXXXXXXXXXXXXXRKQAITSKEQIIEKLWGFDSEAEHNNVEVY 120 ++ +++V G K + +EQI+ +WG++SE E N V+VY Sbjct: 132 IDKNAFKVTVNGAEIELTKTEYDLLYLLAENKNHVMQREQILNHVWGYNSEVETNVVDVY 191 Query: 121 ISFLRKKLVFLNSEVRINTIRNVGYVL 147 I +LR KL + + I T+R VGYV+ Sbjct: 192 IRYLRNKLKPYDRDKMIETVRGVGYVI 218 >ref|NP_688782.1| DNA-binding response regulator [Streptococcus agalactiae 2603V/R] ref|NP_736269.1| Unknown [Streptococcus agalactiae NEM316] sp|Q8DXQ7|DLTR_STRA3 Transcriptional regulatory protein dltR emb|CAC83083.1| putative response regulator, DltR [Streptococcus agalactiae] gb|AAN00655.1| DNA-binding response regulator [Streptococcus agalactiae 2603V/R] emb|CAD47494.1| Unknown [Streptococcus agalactiae NEM316] Length = 224 Score = 113 bits (282), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 64/149 (42%), Positives = 87/149 (58%), Gaps = 3/149 (2%) Query: 1 VIMLTAKGEITDMVAGLDYGADDYIAKPFSSEELMARIRAALR-RKGEVIPDDTLKLGDM 59 +I LTAK + D V GLD GADDYI KPF ++EL+ARIR LR R+ +I + L+LG++ Sbjct: 75 IIFLTAKSQTYDKVNGLDLGADDYITKPFEADELLARIR--LRTRQSSLIRANQLRLGNI 132 Query: 60 ELNTANLRLSVKGXXXXXXXXXXXXXXXXXXRKQAITSKEQIIEKLWGFDSEAEHNNVEV 119 LNT + L K + I K Q+I K+WG +E+N +EV Sbjct: 133 RLNTDSHELESKESSVKLSNKEFLLMEVFMRNAKQIIPKNQLISKVWGPSDNSEYNQLEV 192 Query: 120 YISFLRKKLVFLNSEVRINTIRNVGYVLE 148 +ISFLRKKL FL +++ I T + GY LE Sbjct: 193 FISFLRKKLRFLKADIEIITTKGFGYSLE 221 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 0.317 0.135 0.365 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: 165,082,884 Number of extensions: 4938643 Number of successful extensions: 22379 Number of sequences better than 1.0e-05: 2317 Number of HSP's gapped: 21001 Number of HSP's successfully gapped: 2318 Length of query: 151 Length of database: 757,237,578 Length adjustment: 110 Effective length of query: 41 Effective length of database: 458,576,688 Effective search space: 18801644208 Effective search space used: 18801644208 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: 120 (50.8 bits)