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= 0039.0027.p (542 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value BH2109 [T] COG4753 Response regulator containing CheY-like recei... 99 3e-20 VC1825 [K] COG2207 AraC-type DNA-binding domain-containing proteins 92 3e-18 BS_yesS [K] COG2207 AraC-type DNA-binding domain-containing prot... 86 2e-16 BH1123 [T] COG4753 Response regulator containing CheY-like recei... 84 5e-16 BH2728 [T] COG4753 Response regulator containing CheY-like recei... 83 1e-15 >BH2109 [T] COG4753 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain Length = 525 Score = 98.6 bits (244), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 48/121 (39%), Positives = 78/121 (64%), Gaps = 1/121 (0%) Query: 2 KALIVDDEARVRKAVRLLVDWDAHQIGEVLEAGNGNEAIELIRKEKPALVIMDMMMESGN 61 K L+ DDE VR ++ L++W+ EA NG +A +L+++ KP LVI D+ M + Sbjct: 3 KVLLADDEFFVRHGLKSLIEWEKCGYEVAAEADNGEDAFKLVQEIKPDLVITDIRMPVFD 62 Query: 62 GIELMSWVNE-FAGNTKFIVVSGHNDFDFVRQTVRHGGIDYILKPIEPEMINNAVAKAVA 120 G++L+ VNE + NTKFI++SG+NDF + ++ VR G +D++LKPI+ + + A+ K A Sbjct: 63 GLQLIQKVNETLSFNTKFIIISGYNDFSYAQKAVRFGAVDFVLKPIDQDELEAALIKLAA 122 Query: 121 A 121 Sbjct: 123 T 123 Score = 71.6 bits (174), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 35/114 (30%), Positives = 71/114 (62%), Gaps = 2/114 (1%) Query: 427 QELTARAVKERNPMAEIVKYIEQNYPSDLSLQEVAGKFYVSREYISRKFKQEYGINFSDY 486 QEL +K + + ++ YIE +Y ++SL+ +A FY++ Y+ + FK+ +G+ F +Y Sbjct: 412 QELRKENMK--SDIYKVKTYIENHYHENISLKSIASLFYMNPVYMGQLFKKTFGVYFKEY 469 Query: 487 IGSVRIEKAKLLLQNPNLKLSQISEMVGFHDVKYFSKVFKKQVGLSPKDYRAQI 540 + +R+ +AK LL+ ++++ +++E VGF YF F+K ++P +YR ++ Sbjct: 470 LLKLRMNEAKKLLRQTDMRVYEVAERVGFGSTDYFVTQFEKINKMTPTEYRNKL 523 >VC1825 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 279 Score = 91.7 bits (226), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 44/125 (35%), Positives = 77/125 (61%), Gaps = 4/125 (3%) Query: 420 AVLQRLSQELTARAVKERNPMAEIVK----YIEQNYPSDLSLQEVAGKFYVSREYISRKF 475 A+LQ L A + +N + ++ + YI++N+ ++ + +A +F +S ++SR F Sbjct: 155 ALLQYTQTMLNAPTEQPQNRVQDLYQGICIYIQENFHRPITRESIASRFSISANHLSRLF 214 Query: 476 KQEYGINFSDYIGSVRIEKAKLLLQNPNLKLSQISEMVGFHDVKYFSKVFKKQVGLSPKD 535 +Q+ + +DYI VR+++AK +L+ N KL+++S GF DV YF +VFK + G +P D Sbjct: 215 RQQGHMTLADYITWVRVDRAKFMLKKYNFKLNEVSLRCGFKDVNYFCRVFKNRTGRTPTD 274 Query: 536 YRAQI 540 YRA I Sbjct: 275 YRASI 279 >BS_yesS [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 761 Score = 85.5 bits (210), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 48/118 (40%), Positives = 73/118 (61%), Gaps = 4/118 (3%) Query: 428 ELTARAVKERNPMAE-IVKYIEQNYPSDLSLQEVAGKFYVSREYISRKFKQEYGINFSDY 486 +L R +++ +AE ++ I + Y +D+SL+ A ++ +S+ FKQ GINF DY Sbjct: 645 KLEGRKNRQQKQLAERVIAMIHEQYMADISLESCADALGMNSYTLSKAFKQVTGINFIDY 704 Query: 487 IGSVRIEKAKLLLQNPNLKLSQISEMVGFHDVKYFSKVFKKQVGLSPKDYRA--QITP 542 + +RIEKAK LL N N K+ +SE VG+ YF+++FKKQVG+ P +R Q TP Sbjct: 705 VTQIRIEKAKELLVNTNKKIHDVSEEVGYRH-NYFNRIFKKQVGMPPGVFRQMYQETP 761 >BH1123 [T] COG4753 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain Length = 526 Score = 84.3 bits (207), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 37/126 (29%), Positives = 78/126 (61%), Gaps = 4/126 (3%) Query: 414 WRDWSFAVLQRLSQELTARA----VKERNPMAEIVKYIEQNYPSDLSLQEVAGKFYVSRE 469 W++W + +++ + +K + + +++ YIE++ +++LQ++A + Y+SR Sbjct: 396 WQEWIRFLCEQIEHICYHQQWDENIKHKQLIEQVMIYIEKHLAENITLQDIADELYISRN 455 Query: 470 YISRKFKQEYGINFSDYIGSVRIEKAKLLLQNPNLKLSQISEMVGFHDVKYFSKVFKKQV 529 Y+ + FK+ G +F +Y+ +R+EKAK ++Q N + ++SE VG+ + YF+ +FKK Sbjct: 456 YLGQIFKKVVGESFKNYVTRLRMEKAKKMIQEGNFLIYEVSEKVGYVNPAYFTTMFKKYT 515 Query: 530 GLSPKD 535 G +P+D Sbjct: 516 GYTPRD 521 Score = 65.5 bits (158), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 29/118 (24%), Positives = 66/118 (55%) Query: 2 KALIVDDEARVRKAVRLLVDWDAHQIGEVLEAGNGNEAIELIRKEKPALVIMDMMMESGN 61 K +I+DDE V + ++ ++ W A V EA NG ++++R+ P +V+ D+ M Sbjct: 3 KVVIIDDEEHVVRGLKKIISWKALGCECVGEAANGRRGLDIVRETSPHIVLTDIYMPIMY 62 Query: 62 GIELMSWVNEFAGNTKFIVVSGHNDFDFVRQTVRHGGIDYILKPIEPEMINNAVAKAV 119 G++++ + E + + +++SG+++F+ R+ ++ DY+ KP + I + + + Sbjct: 63 GLDMIQILREDGFDGEVVILSGYSEFEHARKAMQLNITDYLSKPASVDTIETVLKRVI 120 >BH2728 [T] COG4753 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain Length = 510 Score = 82.8 bits (203), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 41/124 (33%), Positives = 74/124 (59%) Query: 416 DWSFAVLQRLSQELTARAVKERNPMAEIVKYIEQNYPSDLSLQEVAGKFYVSREYISRKF 475 D + L+ Q ++ + + + + +++ YIE+++ LSL ++A F+ + Y+S F Sbjct: 378 DCFYQFLEVTKQIISVYSNEGSSSIQKMLAYIEEHHSEPLSLSQLANYFHFNPSYLSAYF 437 Query: 476 KQEYGINFSDYIGSVRIEKAKLLLQNPNLKLSQISEMVGFHDVKYFSKVFKKQVGLSPKD 535 +Q + FS+Y+ VRI KAK L++ + +S+I +VG+ D YF KVFKK+ G+ P Sbjct: 438 RQHHDEGFSEYLNKVRIRKAKEWLKSSTIPISEIYALVGYSDHSYFCKVFKKRTGMPPSR 497 Query: 536 YRAQ 539 YR + Sbjct: 498 YRRE 501 Score = 79.3 bits (194), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 41/102 (40%), Positives = 60/102 (58%) Query: 4 LIVDDEARVRKAVRLLVDWDAHQIGEVLEAGNGNEAIELIRKEKPALVIMDMMMESGNGI 63 LIVDDE +R+ + DW+ V EA NG +A+ELI K +P +V+ D++M +GI Sbjct: 5 LIVDDEKLIRQGIINFFDWEKEGFQIVGEAANGKDALELISKNEPHIVMTDIVMPVMDGI 64 Query: 64 ELMSWVNEFAGNTKFIVVSGHNDFDFVRQTVRHGGIDYILKP 105 +L+ V + IV+S +F++VR T G DYILKP Sbjct: 65 DLVKRVKRDFPEVEIIVLSSFEEFEYVRSTFHSGVADYILKP 106 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 0.320 0.137 0.408 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: 38,047,376 Number of extensions: 1493221 Number of successful extensions: 6281 Number of sequences better than 1.0e-05: 211 Number of HSP's gapped: 6405 Number of HSP's successfully gapped: 223 Length of query: 542 Length of database: 38,378,431 Length adjustment: 111 Effective length of query: 431 Effective length of database: 25,576,357 Effective search space: 11023409867 Effective search space used: 11023409867 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 (21.8 bits) S2: 118 (50.1 bits)