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= 0544.0025.p (216 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value CAC0564 [TK] COG0745 Response regulators consisting of a CheY-li... 242 3e-64 BH1153 [TK] COG0745 Response regulators consisting of a CheY-lik... 214 7e-56 lin2516 [TK] COG0745 Response regulators consisting of a CheY-li... 201 9e-52 BH0820 [TK] COG0745 Response regulators consisting of a CheY-lik... 183 2e-46 STM1655 [LKJ] COG0513 Superfamily II DNA and RNA helicases 179 4e-45 >CAC0564 [TK] COG0745 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain Length = 233 Score = 242 bits (618), Expect = 3e-64, Method: Compositional matrix adjust. Identities = 120/209 (57%), Positives = 160/209 (76%), Gaps = 2/209 (0%) Query: 3 TVLVVDDDSEIRDIIHVYLRNEGYHVIEAADGEEALKVIESTPVQLVILDVMMPRMDGIK 62 TVLVVDD+ EIRD+I +YL NEG++VI+A +G EAL++++ T VQLV+LD+MMP+MDGI Sbjct: 5 TVLVVDDEKEIRDLIGIYLNNEGFNVIKAENGVEALEILKDTEVQLVLLDIMMPKMDGIT 64 Query: 63 TCLKIREVSDTPLIMLSAKEEDIDKITGLTTGADDYMTKPFNPLELLARVKAQFRRQALI 122 TC+KIRE +TP+IMLSAK ED+DKI GLTTGADDY++KPFNPLEL+ARVK+Q RR + Sbjct: 65 TCMKIREDKNTPIIMLSAKGEDMDKILGLTTGADDYISKPFNPLELIARVKSQIRRYTKL 124 Query: 123 GKA-DFNSL-LLIKDLVIDKSKHSVKVKGIDIPVTPLEFAILVLLASHPGQVFSSEHIYE 180 + NS + + ++ I+ H VK+ + +T EF ILVLL+ + G VFS+E IYE Sbjct: 125 NSTYESNSANIEVGEITINTDTHEVKIGDRTVSLTKREFDILVLLSRNKGVVFSTEKIYE 184 Query: 181 SVWKEPFGNSDNTVMVHIRNLREKLDDDP 209 SVW E F + NTVMVHIR +REK++ +P Sbjct: 185 SVWHEEFYDCHNTVMVHIRKIREKIEKNP 213 >BH1153 [TK] COG0745 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain Length = 232 Score = 214 bits (545), Expect = 7e-56, Method: Compositional matrix adjust. Identities = 108/209 (51%), Positives = 146/209 (69%), Gaps = 2/209 (0%) Query: 3 TVLVVDDDSEIRDIIHVYLRNEGYHVIEAADGEEALKVIESTPVQLVILDVMMPRMDGIK 62 VLVVDDD EIR+ I +YL+NEG +V +A DG EAL+ + + L++LDVMMPR+DGI+ Sbjct: 6 NVLVVDDDKEIREGITIYLKNEGMNVFQAKDGIEALERLNEEDIHLMLLDVMMPRLDGIQ 65 Query: 63 TCLKIREVSDTPLIMLSAKEEDIDKITGLTTGADDYMTKPFNPLELLARVKAQFRRQALI 122 T LKIRE + P+I LSAK E+ DK+ GL G DDY+TKPFNPLEL+ARVK+Q RR + Sbjct: 66 TTLKIREARNIPIIFLSAKSEEADKVLGLQVGGDDYVTKPFNPLELIARVKSQLRRYVNL 125 Query: 123 GKADFNSLLL-IKDLVIDKSKHSVKVKGIDIPVTPLEFAILVLLASHPGQVFSSEHIYES 181 G + L+ + + +D VK G + +TP+E+ I+ LL ++ G+VFS IYE Sbjct: 126 GTYEQKKQLINLNGITLDLDAKEVKAYGEPVKLTPIEYRIIELLMTNAGRVFSIAEIYER 185 Query: 182 VWKEP-FGNSDNTVMVHIRNLREKLDDDP 209 VW EP F +S+NTV VHIR +REK++ DP Sbjct: 186 VWNEPSFQSSENTVAVHIRKIREKIEIDP 214 >lin2516 [TK] COG0745 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain Length = 231 Score = 201 bits (510), Expect = 9e-52, Method: Compositional matrix adjust. Identities = 104/209 (49%), Positives = 142/209 (67%), Gaps = 3/209 (1%) Query: 2 NTVLVVDDDSEIRDIIHVYLRNEGYHVIEAADGEEALKVIESTPVQLVILDVMMPRMDGI 61 ++L+ DDD EI D++ +YL+NEGY + +A DG E ++++ LVILD+MMP M+G+ Sbjct: 3 TSILIADDDKEIVDLVKLYLQNEGYTIYQAYDGAEVWRLVQEKQPTLVILDIMMPEMNGL 62 Query: 62 KTCLKIREVSD-TPLIMLSAKEEDIDKITGLTTGADDYMTKPFNPLELLARVKAQFRRQA 120 + C +R TP++MLSAK ED DKI GL TGADDYM KPFNPLEL RVKA RR Sbjct: 63 EVCRLMRNNGILTPILMLSAKAEDNDKIMGLLTGADDYMVKPFNPLELSVRVKAILRRMQ 122 Query: 121 LIGKADFNSL--LLIKDLVIDKSKHSVKVKGIDIPVTPLEFAILVLLASHPGQVFSSEHI 178 + +A+ S ++I +V+D+ H V V ++ +T EF IL LLAS PG+VFSSE+I Sbjct: 123 QMSQAEPVSQDKVIIGPIVVDRGLHVVTVGEKELHLTTSEFDILFLLASEPGRVFSSEYI 182 Query: 179 YESVWKEPFGNSDNTVMVHIRNLREKLDD 207 +E +W+E + TVMVHI NLR+KL D Sbjct: 183 FEKIWQEKALGASKTVMVHISNLRDKLRD 211 >BH0820 [TK] COG0745 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain Length = 234 Score = 183 bits (465), Expect = 2e-46, Method: Compositional matrix adjust. Identities = 93/211 (44%), Positives = 138/211 (65%), Gaps = 3/211 (1%) Query: 2 NTVLVVDDDSEIRDIIHVYLRNEGYHVIEAADGEEALKVIESTPVQLVILDVMMPRMDGI 61 + +L+++DD I +++ +L+ EGYHV A DGEEA ++ E LV+LD+M+PR +GI Sbjct: 4 HKILLIEDDVSISEMVKEHLQLEGYHVCCAFDGEEATRLFEQNTYDLVLLDLMLPRRNGI 63 Query: 62 KTCLKIREVSDTPLIMLSAKEEDIDKITGLTTGADDYMTKPFNPLELLARVKAQFRRQ-- 119 IR S P++++SAK+ D+DK GL GADDY+TKPF+ +EL ARVKA RR Sbjct: 64 DCLQWIRTKSVVPVLIMSAKDSDVDKALGLGFGADDYITKPFSMIELTARVKAAIRRTVN 123 Query: 120 -ALIGKADFNSLLLIKDLVIDKSKHSVKVKGIDIPVTPLEFAILVLLASHPGQVFSSEHI 178 A ++ N + I +LV++ S +VK KG +I +T EF IL L +HP +VF+ E + Sbjct: 124 YAQASQSAENERIKIHELVVELSSFTVKKKGEEIKLTAKEFQILKLFVTHPKKVFTKEQL 183 Query: 179 YESVWKEPFGNSDNTVMVHIRNLREKLDDDP 209 Y SVW + + + +N + VHIR LREK++D P Sbjct: 184 YRSVWNDDYYSDENVINVHIRRLREKIEDTP 214 >STM1655 [LKJ] COG0513 Superfamily II DNA and RNA helicases Length = 457 Score = 179 bits (453), Expect = 4e-45, Method: Compositional matrix adjust. Identities = 14/211 (6%), Positives = 43/211 (20%), Gaps = 5/211 (2%) Query: 4 VLVVDDDSEIRDIIHVYLRNEGYHVIEAADGEEALKVIESTPVQLVILDVMMPRMDGIKT 63 L + ++ V + +A T + L + Sbjct: 14 QLNNLTELGYLEMTPVQAAALPVILAGNDVRVQARTGSGKTAAFGLGLLHRIDVTLFQTQ 73 Query: 64 CLKIREV---SDTPLIMLSAKEEDIDKITGLTTGADDYMTKPFNPLELLARVKAQFRR-- 118 L + +D L + LT + L+ + Sbjct: 74 ALVLCPTRELADQVAGELRRLARFLPNTKILTLCGGQPFGAQRDSLQHAPHIIVATPGRL 133 Query: 119 QALIGKADFNSLLLIKDLVIDKSKHSVKVKGIDIPVTPLEFAILVLLASHPGQVFSSEHI 178 + K + L ++ + + I + Sbjct: 134 LDHLQKETVSLDALHILVMDEADRMLDMGFSDAIDEVIRFAPATRQTLLFSATWPEAIAA 193 Query: 179 YESVWKEPFGNSDNTVMVHIRNLREKLDDDP 209 ++ + + + + ++ + Sbjct: 194 ISGRVQQQPIRIEIDTVDALPAIEQQFFETS 224 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 0.138 0.389 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: 15,475,112 Number of extensions: 601877 Number of successful extensions: 3075 Number of sequences better than 1.0e-05: 509 Number of HSP's gapped: 2657 Number of HSP's successfully gapped: 510 Length of query: 216 Length of database: 38,378,431 Length adjustment: 102 Effective length of query: 114 Effective length of database: 26,614,363 Effective search space: 3034037382 Effective search space used: 3034037382 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: 113 (48.1 bits)