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= 0271.0010.p (238 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value lin2644 [TK] COG0745 Response regulators consisting of a CheY-li... 218 5e-57 SP2082 [TK] COG0745 Response regulators consisting of a CheY-lik... 203 2e-52 BS_phoP [TK] COG0745 Response regulators consisting of a CheY-li... 201 8e-52 STM1655 [LKJ] COG0513 Superfamily II DNA and RNA helicases 195 4e-50 TM1655 [TK] COG0745 Response regulators consisting of a CheY-lik... 195 4e-50 >lin2644 [TK] COG0745 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain Length = 236 Score = 218 bits (556), Expect = 5e-57, Method: Compositional matrix adjust. Identities = 108/229 (47%), Positives = 157/229 (68%), Gaps = 1/229 (0%) Query: 1 LLVIEDEPTLSRLLSYNLTQEGYEVTVEDHGTAGYDRAAREPFDLIVLDLMLPGMNGIDI 60 +LV++DE ++ LL +N+ + G++V + G GY+ A E DLIVLDLMLP M+GI++ Sbjct: 4 ILVVDDEASIVTLLQFNIEKAGFDVVTAEDGRTGYELALSEKPDLIVLDLMLPEMDGIEV 63 Query: 61 LDKLRSQGIRTPVIVLTAKNAEEDVVRGLKSGADDYITKPFGVSELLARVSAVLRRISGL 120 KLR + P+++LTAK+ E D + GL+ GADDY+TKPF E++AR+ A+LRR G Sbjct: 64 TKKLRQDKVGVPILMLTAKDEELDKIIGLELGADDYMTKPFSPREVVARIKAILRRTEGK 123 Query: 121 AEEVQPEAAVSASTIILGQLEIYPERYEVSLGGQSINLRPKEFEVLLYLARKPGVVLTRD 180 AE + + + +TI++G L+I P+ YEV L ++L PKEFE+LL+LA G V +RD Sbjct: 124 AEVTEEKTEDTEATILIGDLKILPDSYEVYLQDDLLDLTPKEFELLLFLANHRGKVFSRD 183 Query: 181 DLMNAVWGFDYIGGQRTVDVHVSSLRKKLELDPES-VHIDSIRGVGYKL 228 L++ VW +DY+G R VDVHVS LR K+ELD + +I +IRG GYK+ Sbjct: 184 QLLDTVWNYDYVGETRIVDVHVSHLRDKIELDTKQPKYIKTIRGFGYKM 232 >SP2082 [TK] COG0745 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain Length = 235 Score = 203 bits (517), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 98/229 (42%), Positives = 156/229 (68%), Gaps = 2/229 (0%) Query: 1 LLVIEDEPTLSRLLSYNLTQEGYEVTVEDHGTAGYDRAAREPFDLIVLDLMLPGMNGIDI 60 +L+++DE + +LL Y+L++EG+ + +G A EPFD I+LD+MLP ++G+++ Sbjct: 5 VLLVDDEEHILKLLDYHLSKEGFSTQLVTNGRKALALAETEPFDFILLDIMLPQLDGMEV 64 Query: 61 LDKLRSQGIRTPVIVLTAKNAEEDVVRGLKSGADDYITKPFGVSELLARVSAVLRRISGL 120 +LR++G++TP+++++AK+ E D V L+ GADDY+TKPF ELLARV AVLRR G Sbjct: 65 CKRLRAKGVKTPIMMVSAKSDEFDKVLALELGADDYLTKPFSPRELLARVKAVLRRTKG- 123 Query: 121 AEEVQPEAAVSASTIILGQLEIYPERYEVSLGGQSINLRPKEFEVLLYLARKPGVVLTRD 180 +E ++ + + G L++YPER+EV + ++L PKEFE+LLYL + P + LTR+ Sbjct: 124 EQEGDDSDNIADDSWLFGTLKVYPERHEVYKANKLLSLTPKEFELLLYLMKHPNMTLTRE 183 Query: 181 DLMNAVWGFDYIGGQRTVDVHVSSLRKKLELDPESVH-IDSIRGVGYKL 228 L+ +WG+D+ R VDVH+ LR+K+E +P++ I +IRG GYK Sbjct: 184 RLLERIWGYDFGQETRLVDVHIGKLREKIEDNPKAPQFIRTIRGYGYKF 232 >BS_phoP [TK] COG0745 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain Length = 223 Score = 201 bits (511), Expect = 8e-52, Method: Compositional matrix adjust. Identities = 0/229 (0%), Positives = 0/229 (0%), Gaps = 1/229 (0%) Query: 1 LLVIEDEPTLSRLLSYNLTQEGYEVTVEDHGTAGYDRAAREPFDLIVLDLMLPGMNGIDI 60 ++ + + + Y ++ L L + Sbjct: 5 VVEDNALLRHHLKVQIQDAGHQVDDAEDAKEADYYLNEHIPDIAIVDLGLPDEDGLSLIR 64 Query: 61 LDKLRSQGIRTPVIVLTAKNAEEDVVRGLKSGADDYITKPFGVSELLARVSAVLRRISGL 120 + + V+ ++ V + + Sbjct: 65 RWRSNDVSLPILVLTARESWQDKVEVLSAGADDYVTKPFHIEEVMARMQALMRRNSGLAS 124 Query: 121 AEEVQPEAAVSASTIILGQLEIYPERYEVSLGGQSINLRPKEFEVLLYLARKPGVVLTRD 180 P V S L + + +R V Sbjct: 125 QVISLPPFQVDLSRRELSINDEVIKLTAFEYTIMETLIRNNGKVVSKDSLMLQLYPDAEL 184 Query: 181 DLMNAVWGFDYIGGQRTVDVHVSSLRKKLELDPES-VHIDSIRGVGYKL 228 + + ++ + + + Sbjct: 185 RESHTIDVLMGRLRKKIQAQYPQEVITTVRGQGYLF 233 >STM1655 [LKJ] COG0513 Superfamily II DNA and RNA helicases Length = 457 Score = 195 bits (496), Expect = 4e-50, Method: Compositional matrix adjust. Identities = 10/231 (4%), Positives = 38/231 (16%), Gaps = 7/231 (3%) Query: 1 LLVIEDEPTLSRLLSYNLTQEGYEVTVEDHGTAGYDRAAREPFDLIVLDLMLPGMNGIDI 60 L E + + D + + + L + Sbjct: 14 QLNNLTELGYLEMTPVQAAALPVILAGNDVRVQARTGSGKTAAFGLGLLHRIDVTLFQTQ 73 Query: 61 LDKLRS--QGIRTPVIVLTAKNAEEDVVRGLKSGADDYITKPFGVSELLARVSAVLRRIS 118 L + L + L + + Sbjct: 74 ALVLCPTRELADQVAGELRRLARFLPNTKILTLCGGQPFGAQRDSLQHAPHIIVATPGRL 133 Query: 119 GLAEEVQPEAAVSASTIILGQLEIYPERYEVSLGGQSINLRPKEFEVLLYLARKPGVVLT 178 + + + + + +R +I+ + Sbjct: 134 LDHLQKET----VSLDALHILVMDEADRMLDMGFSDAIDEVIRFAPATRQTLLFSATWPE 189 Query: 179 RDDLMNAVWGFDYIGGQRTVDVHVSSLRKKLELDPES-VHIDSIRGVGYKL 228 ++ I + + ++ ++ + Sbjct: 190 AIAAISGRVQQQPIRIEIDTVDALPAIEQQFFETSAHEKISLLQTLLSQHQ 240 >TM1655 [TK] COG0745 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain Length = 247 Score = 195 bits (496), Expect = 4e-50, Method: Compositional matrix adjust. Identities = 106/231 (45%), Positives = 148/231 (64%), Gaps = 7/231 (3%) Query: 1 LLVIEDEPTLSRLLSYNLTQEGYEVTVEDHGTAGYDRAAREPFDLIVLDLMLPGMNGIDI 60 +LV++D+P + L+ YNL++EGYEV G A E D+ ++D+MLPG++G ++ Sbjct: 14 ILVVDDDPAILELVGYNLSKEGYEVLKAYDGEEALKIANDEDVDMFIVDIMLPGIDGFEL 73 Query: 61 LDKLRS--QGIRTPVIVLTAKNAEEDVVRGLKSGADDYITKPFGVSELLARVSAVLRRIS 118 + K+RS + TPVI L+AK E D V GL+ GADDYITKPF V ELLARV A+ RR+S Sbjct: 74 VRKIRSMEKYKNTPVIFLSAKGEEFDKVLGLELGADDYITKPFSVRELLARVKAIFRRLS 133 Query: 119 GLAEEVQPEAAVSASTIILGQLEIYPERYEVSLGGQSINLRPKEFEVLLYLARKPGVVLT 178 + + II LEI E+YEV + G+ +NL P EFE+L +LA G V + Sbjct: 134 TATQSKEE----RPKKIIAKDLEIDVEKYEVKVRGKKVNLTPLEFELLRFLAENEGKVFS 189 Query: 179 RDDLMNAVWGFDYIGGQRTVDVHVSSLRKKLELDPES-VHIDSIRGVGYKL 228 RD L++ +WG+DY G RTVDVH+ LR K+E DP + +I ++RG GYK Sbjct: 190 RDVLLDKLWGYDYYGDTRTVDVHIRRLRTKIEEDPSNPKYIITVRGKGYKF 240 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 0.318 0.139 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: 17,873,077 Number of extensions: 784196 Number of successful extensions: 3175 Number of sequences better than 1.0e-05: 522 Number of HSP's gapped: 2702 Number of HSP's successfully gapped: 523 Length of query: 238 Length of database: 38,378,431 Length adjustment: 103 Effective length of query: 135 Effective length of database: 26,499,029 Effective search space: 3577368915 Effective search space used: 3577368915 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 (21.6 bits) S2: 114 (48.5 bits)