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= 0251.0016.p (235 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_00099613.1| COG0745: Response regulators consisting of a ... 243 2e-63 emb|CAB93669.1| RumR protein [Ruminococcus gnavus] 210 2e-53 ref|NP_721532.1| putative response regulator; homolog of RumR an... 189 4e-47 pir||T09003 response regulator homolog scnR - Streptococcus pyog... 178 8e-44 ref|NP_346930.1| Response regulator (CheY domain, HTH domain) [C... 177 2e-43 >ref|ZP_00099613.1| COG0745: Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Desulfitobacterium hafniense] Length = 242 Score = 243 bits (621), Expect = 2e-63, Method: Compositional matrix adjust. Identities = 127/226 (56%), Positives = 157/226 (69%), Gaps = 2/226 (0%) Query: 6 KVMIVEDEPKIREMIELFLRKEGFFRIYAAGDYRTALALCRLEKPDVAILDVMLPDGDGF 65 K+++V+DEP +R M+ L KEGF R+ A + A L + E+P V ILDV LPDGDGF Sbjct: 11 KLLLVDDEPDLRGMLVEILHKEGFQRVRTAASCQQAKELFQTEQPQVVILDVSLPDGDGF 70 Query: 66 SLLSSIRTFSDMPVLFLSAXXXXXXXXXXXXXXXXXYIVKPFLPRELMLRLTAVLKRVY- 124 SL+S R+ S +PVLFLSA YI KPFLPREL+LRL AVL R Y Sbjct: 71 SLMSEFRSISAVPVLFLSARDEDENRLLGLGLGADDYITKPFLPRELLLRLKAVLTRTYF 130 Query: 125 -ASQIPERLPVFRLGEQVVDLEGAVVQKEGRELPLTAKEHAILIKLYEDRGRIVTSDAVC 183 + + P+FRLGE VVDL A+V + ++ LTAKE+ +L KLYE+RG IVT D++C Sbjct: 131 PPTLRQSKKPLFRLGEAVVDLNSALVTRPQGQVTLTAKEYILLAKLYENRGSIVTGDSLC 190 Query: 184 QAVWGDDSYGYENTLMVHMRRIREKIEADPSKPAYLLTVRGLGYKL 229 +AVWGDD YGYENTLMVH+RR+REKIE +PS P YLLTVRGLGYKL Sbjct: 191 RAVWGDDLYGYENTLMVHIRRLREKIEPEPSSPRYLLTVRGLGYKL 236 >emb|CAB93669.1| RumR protein [Ruminococcus gnavus] Length = 233 Score = 210 bits (535), Expect = 2e-53, Method: Compositional matrix adjust. Identities = 107/228 (46%), Positives = 148/228 (64%), Gaps = 4/228 (1%) Query: 2 MKNKKVMIVEDEPKIREMIELFLRKEGFFRIYAAGDYRTALALCRLEKPDVAILDVMLPD 61 +K+KK+++V+DEP++ M+ L +GF I A + A++ R EKPD+ LDVMLPD Sbjct: 6 LKSKKLLLVDDEPELLTMLTTILFDDGFNYIVMASTVQEAISKARSEKPDLIFLDVMLPD 65 Query: 62 GDGFSLLSSIRTFSDMPVLFLSAXXXXXXXXXXXXXXXXXYIVKPFLPRELMLRLTAVLK 121 GDGFSL+ +R F+D+PV+FL+A YIVKPF+P+EL+ R AVL+ Sbjct: 66 GDGFSLMQQLRKFTDVPVIFLTAKDEATAKLSGLGLGADDYIVKPFMPQELLFRTYAVLR 125 Query: 122 RVYASQIPERLPVFRLGEQVVDLEGAVVQKEGRELPLTAKEHAILIKLYEDRGRIVTSDA 181 R Y E L V L ++D A + K G LTAKEH +L L + G+IVT D Sbjct: 126 RCYKG---EALTV-SLDGCIIDFGRAEINKNGEIPSLTAKEHILLETLARNEGKIVTVDV 181 Query: 182 VCQAVWGDDSYGYENTLMVHMRRIREKIEADPSKPAYLLTVRGLGYKL 229 +C+A+WGD+ +G+EN+L H+RRIREKIE DPSKP L+T++GLGYKL Sbjct: 182 LCEALWGDNPFGFENSLNAHIRRIREKIEEDPSKPVSLITIKGLGYKL 229 >ref|NP_721532.1| putative response regulator; homolog of RumR and ScnR [Streptococcus mutans UA159] gb|AAN58838.1| putative response regulator; homolog of RumR and ScnR [Streptococcus mutans UA159] Length = 229 Score = 189 bits (480), Expect = 4e-47, Method: Compositional matrix adjust. Identities = 105/229 (45%), Positives = 139/229 (60%), Gaps = 4/229 (1%) Query: 3 KNKKVMIVEDEPKIREMIELFLRKEGFFRIYAAGDYRTALALCRLEKPDVAILDVMLPDG 62 K KK++I++D P+I EM++ L GF + + AL D+AILD+MLPDG Sbjct: 4 KEKKILILDDNPEILEMVQESLNIAGFNNLTGVQSKKEALEQLGKRSFDLAILDIMLPDG 63 Query: 63 DGFSLLSSIRTFSDMPVLFLSAXXXXXXXXXXXXXXXXXYIVKPFLPRELMLRLTAVLKR 122 GF +L IR S +PVLFLSA YIVKPF P+EL LR+ ++LKR Sbjct: 64 SGFEVLREIRKTSTIPVLFLSAVSDIEKQYQGFELGADDYIVKPFRPKELELRILSILKR 123 Query: 123 VYASQIPERLPVFRLGEQVVDLEGAVVQKEGRELPLTAKEHAILIKLYEDRGRIVTSDAV 182 Y PE+ L V+ A++ K E+ LTAKE++IL LY ++ RIVT D + Sbjct: 124 AY----PEKDDTLILPTCQVNFSQALITKGELEIQLTAKEYSILKVLYNNQNRIVTFDQL 179 Query: 183 CQAVWGDDSYGYENTLMVHMRRIREKIEADPSKPAYLLTVRGLGYKLIV 231 + VWG GYENT+M H+R+IR+KIEA+PSKP LLTV+GLGYKL V Sbjct: 180 LEKVWGLQYQGYENTMMAHIRKIRQKIEANPSKPECLLTVKGLGYKLKV 228 >pir||T09003 response regulator homolog scnR - Streptococcus pyogenes gb|AAB92599.1| ScnR [Streptococcus pyogenes] Length = 232 Score = 178 bits (452), Expect = 8e-44, Method: Compositional matrix adjust. Identities = 92/228 (40%), Positives = 135/228 (59%), Gaps = 4/228 (1%) Query: 4 NKKVMIVEDEPKIREMIELFLRKEGFFRIYAAGDYRTALALCRLEKPDVAILDVMLPDGD 63 NK+++IV+D+ + + I+ L F I A + + + K D+ ILDVMLPDG+ Sbjct: 9 NKRILIVDDDVALSKSIKEVLISRDFKNISCAYSISEGIDIFSVSKIDLIILDVMLPDGE 68 Query: 64 GFSLLSSIRTFSDMPVLFLSAXXXXXXXXXXXXXXXXXYIVKPFLPRELMLRLTAVLKRV 123 G L IR +SD+P+LFL+A Y+ KPFLP+ L R+ A+L+R Sbjct: 69 GHLLAKYIRKYSDVPILFLTAKNNPDDEIRGLESGGDDYVTKPFLPKSLTYRIIALLRRA 128 Query: 124 YASQIPERLPVFRLGEQVVDLEGAVVQKEGRELPLTAKEHAILIKLYEDRGRIVTSDAVC 183 Y + + L +DL A V+K G+ L LT E IL KL+ ++ I +++++C Sbjct: 129 YKDE----SELIELTNCTIDLNNASVEKNGQHLSLTPTEIQILRKLFSNKNYIASTESIC 184 Query: 184 QAVWGDDSYGYENTLMVHMRRIREKIEADPSKPAYLLTVRGLGYKLIV 231 VWG +S GYE +LMVH+R IREKIE PSKP +L+TV+GLGYKL++ Sbjct: 185 DTVWGLESLGYEKSLMVHIRNIREKIEITPSKPNHLITVKGLGYKLVI 232 >ref|NP_346930.1| Response regulator (CheY domain, HTH domain) [Clostridium acetobutylicum] pir||C96935 response regulator (CheY domain, HTH domain) [imported] - Clostridium acetobutylicum gb|AAK78270.1| Response regulator (CheY domain, HTH domain) [Clostridium acetobutylicum] Length = 235 Score = 177 bits (448), Expect = 2e-43, Method: Compositional matrix adjust. Identities = 90/233 (38%), Positives = 135/233 (57%), Gaps = 5/233 (2%) Query: 2 MKN---KKVMIVEDEPKIREMIELFLRKEGFFRIYAAGDYRTALALCRLEKPDVAILDVM 58 MKN K+++V+DE I +++ L+KEGF + + + + CR P++ ILD+M Sbjct: 1 MKNIEDSKILLVDDEESILKLLTTVLKKEGFSNVITSTNGMDGVKKCRENAPEIIILDIM 60 Query: 59 LPDGDGFSLLSSIRTFSDMPVLFLSAXXXXXXXXXXXXXXXXXYIVKPFLPRELMLRLTA 118 LPD DGF + IR FS +P++FLSA YI KPF P+E+ LR+ A Sbjct: 61 LPDIDGFEVFRQIRNFSSVPIMFLSAKSEDTDKIIGLGLGADDYITKPFSPKEVALRVKA 120 Query: 119 VLKRV--YASQIPERLPVFRLGEQVVDLEGAVVQKEGRELPLTAKEHAILIKLYEDRGRI 176 LKR+ + R + + +D E + K + L AKE +L L E++ I Sbjct: 121 HLKRIEMVKKSLTNRENIIKTEHFTIDFEKGEIIKNDKSTILRAKELLLLKYLVENKNII 180 Query: 177 VTSDAVCQAVWGDDSYGYENTLMVHMRRIREKIEADPSKPAYLLTVRGLGYKL 229 ++ + + AVW DD GY+NT+MVH+R++R+K+E DPS P Y+LTV+GLGYKL Sbjct: 181 LSKEKIVNAVWEDDYVGYDNTIMVHIRKLRQKLEDDPSNPKYILTVKGLGYKL 233 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 0.324 0.142 0.407 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: 305,238,762 Number of extensions: 11053104 Number of successful extensions: 40206 Number of sequences better than 1.0e-05: 2941 Number of HSP's gapped: 36150 Number of HSP's successfully gapped: 2943 Length of query: 235 Length of database: 757,237,578 Length adjustment: 122 Effective length of query: 113 Effective length of database: 425,995,500 Effective search space: 48137491500 Effective search space used: 48137491500 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 124 (52.4 bits)