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: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value BH2728 [T] COG4753 Response regulator containing CheY-like recei... 110 2e-24 SP0661 [T] COG4753 Response regulator containing CheY-like recei... 99 1e-20 SPy1587 [T] COG4753 Response regulator containing CheY-like rece... 96 7e-20 BH1910 [T] COG4753 Response regulator containing CheY-like recei... 96 1e-19 BH3679 [T] COG4753 Response regulator containing CheY-like recei... 92 1e-18 >BH2728 [T] COG4753 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain Length = 510 Score = 110 bits (276), Expect = 2e-24, 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 = 5e-09, 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 >SP0661 [T] COG4753 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain Length = 245 Score = 99.0 bits (245), Expect = 1e-20, 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: 5 ILIVEDEYLVRQGLTKLVNVAAYDMEIIGQAENGRQAWELIQKQVPDIILTDINMPHLNG 64 Query: 63 LDLIGRVRAVYPELDVIVLSGYAEFDFVQQALRHQVADYLLKPVTQEQLNEVISKI 118 + L VR YP++ ++ L+GY +FD+ A++ V DYLLKP +++ + E++ KI Sbjct: 65 IQLASLVRETYPQVHLVFLTGYDDFDYALSAVKLGVDDYLLKPFSRQDIEEMLGKI 120 Score = 52.8 bits (125), Expect = 7e-07, 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: 148 KIQSHLADSQFSLKSLASDLGFSPTYLSSLIKKELGLPFQDYLVRERVKQAKLLLLT-TD 206 Query: 311 AKINIVAEQCGFSDYPYFSKIFKKNFGVSPLEYKE 345 KI +AE+ GF D YF++ FK+ GV+P ++K+ Sbjct: 207 LKIYEIAEKVGFEDMNYFTQRFKQIAGVTPRQFKK 241 >SPy1587 [T] COG4753 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain Length = 494 Score = 96.3 bits (238), Expect = 7e-20, Method: Compositional matrix adjust. Identities = 50/135 (37%), Positives = 82/135 (60%), Gaps = 5/135 (3%) Query: 2 KILVVDDEVVIRKGLIKLLEQFSKGITDIDEAKNGEEALTRISVNKPDILITDIQMPIMN 61 K+L+VDDE +I +GL +++ + G + A++G+EAL ++ D++I+D+ MP M Sbjct: 3 KVLLVDDEYMILQGLTMIIDWQALGFEVVQTARSGKEALAYLTQYPVDVMISDVTMPGMT 62 Query: 62 GLDLIGRVRAVYPELDVIVLSGYAEFDFVQQALRHQVADYLLKPVTQEQLNEVISKILLK 121 GLDLI + +P+L ++LSGY EF +VQ+A+ + YLLKPV + +L + + K Sbjct: 63 GLDLIEAAKTYHPQLQTLILSGYQEFSYVQKAMELETKGYLLKPVDKAELQAKMKQ--FK 120 Query: 122 DPARWTSQMDGETIR 136 D W E+IR Sbjct: 121 D---WLDAQQAESIR 132 Score = 62.4 bits (150), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 37/123 (30%), Positives = 69/123 (56%), Gaps = 4/123 (3%) Query: 226 LASVILYVSERRAP--RNKRIVEEVLGRIEAQYGDASLNLQGLAESCGLTAPYLSKIFRE 283 L V+ ++ +P R +V E + I +Y L L+ +A+ + YL + F+ Sbjct: 362 LKKVLDVTNQNNSPEKRYSDLVSETIDCIRKEYH-QELTLKAIADRLHVNGVYLGQCFKN 420 Query: 284 VMKKPITQYISEYRLEKARELLKYDAPAKINIVAEQCGFSDYPYFSKIFKKNFGVSPLEY 343 ++ TQY++ R++KA++LL Y + IN +A + G++ YF K+FKK G+SP E+ Sbjct: 421 ETERSFTQYLNHVRIQKAQQLLLYTNQS-INEIAYETGYNTNHYFIKMFKKLNGLSPKEF 479 Query: 344 KEK 346 +++ Sbjct: 480 RDR 482 >BH1910 [T] COG4753 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain Length = 506 Score = 95.5 bits (236), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 45/116 (38%), Positives = 77/116 (66%) Query: 3 ILVVDDEVVIRKGLIKLLEQFSKGITDIDEAKNGEEALTRISVNKPDILITDIQMPIMNG 62 +++VDDE ++R+GL L+ G ID A+NG+E T+ PD++I DI+MP ++G Sbjct: 4 VMIVDDEAMVREGLKALISWEEYGFRVIDTARNGKEGFTKYRQLSPDLMIVDIRMPEVDG 63 Query: 63 LDLIGRVRAVYPELDVIVLSGYAEFDFVQQALRHQVADYLLKPVTQEQLNEVISKI 118 L LI +RA + I+LSG+++F++ ++AL Q DYLLKP+ +++L + + K+ Sbjct: 64 LSLIESIRAEDSAIHFIILSGHSDFNYAKKALGCQCDDYLLKPLDEDELIDSLKKV 119 Score = 50.8 bits (120), Expect = 3e-06, Method: Compositional matrix adjust. Identities = 27/88 (30%), Positives = 48/88 (54%), Gaps = 2/88 (2%) Query: 260 SLNLQGLAESCGLTAPYLSKIFREVMKKPITQYISEYRLEKARELLKYDAPAKINIVAEQ 319 +L L+ LA YL K+F+ + Y+ + R+E + LL+ K+ VAE+ Sbjct: 413 NLRLETLASVFNYNRAYLGKLFKNYTGEYFNTYLDKVRIENGKRLLQ--KGYKVYEVAEK 470 Query: 320 CGFSDYPYFSKIFKKNFGVSPLEYKEKN 347 G+++ YF + FKK GVSP +++++ Sbjct: 471 IGYANVDYFHRKFKKYVGVSPSTFRKRH 498 >BH3679 [T] COG4753 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain Length = 257 Score = 92.0 bits (227), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 47/117 (40%), Positives = 75/117 (64%) Query: 3 ILVVDDEVVIRKGLIKLLEQFSKGITDIDEAKNGEEALTRISVNKPDILITDIQMPIMNG 62 +L+VDDE R+GL + LE +S + ++ A + +EA+TR++ D++ITDI+MP M+G Sbjct: 6 VLIVDDEPRSRRGLKRTLEAWSPKLLNVQTAASAKEAITRLNEETIDLIITDIRMPEMSG 65 Query: 63 LDLIGRVRAVYPELDVIVLSGYAEFDFVQQALRHQVADYLLKPVTQEQLNEVISKIL 119 L L+ ++ P+ IV+S Y+EF++ AL V YLLKPV +E+L E + L Sbjct: 66 LHLVKALQEQNPKPVCIVISAYSEFEYAHTALELGVRHYLLKPVKKEKLIEAVESAL 122 Score = 67.0 bits (162), Expect = 5e-11, Method: Compositional matrix adjust. Identities = 36/102 (35%), Positives = 61/102 (59%), Gaps = 4/102 (3%) Query: 245 VEEVLGRIEAQYGDASLNLQGLAESCGLTAPYLSKIFREVMKKPITQYISEYRLEKAREL 304 + E L I+A D + L+ +A+S L YLS +F+E ++Y++ RL+ A+ L Sbjct: 156 IHEALHYIDAHL-DQKIGLKDVAKSVHLNPSYLSALFKEKTNMTFSEYLTRKRLQHAKHL 214 Query: 305 L-KYDAPAKINIVAEQCGFSDYPYFSKIFKKNFGVSPLEYKE 345 L D P I+ +AE+CG+ YF KIFK++ G++P +Y++ Sbjct: 215 LVSTDRP--ISDIAEKCGYQTAKYFIKIFKEHEGMTPTQYRK 254 Database: COG Posted date: Aug 3, 2010 9:58 AM Number of letters in database: 38,378,431 Number of sequences in database: 115,334 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: 115334 Number of Hits to DB: 24,991,779 Number of extensions: 961411 Number of successful extensions: 4578 Number of sequences better than 1.0e-05: 368 Number of HSP's gapped: 4647 Number of HSP's successfully gapped: 379 Length of query: 348 Length of database: 38,378,431 Length adjustment: 107 Effective length of query: 241 Effective length of database: 26,037,693 Effective search space: 6275084013 Effective search space used: 6275084013 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: 116 (49.3 bits)