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= 0346.0044.p (510 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value BH3842 [T] COG4753 Response regulator containing CheY-like recei... 122 1e-27 BH2109 [T] COG4753 Response regulator containing CheY-like recei... 88 3e-17 BH3679 [T] COG4753 Response regulator containing CheY-like recei... 86 1e-16 BH2728 [T] COG4753 Response regulator containing CheY-like recei... 84 7e-16 YPO0401 [K] COG2207 AraC-type DNA-binding domain-containing prot... 82 2e-15 >BH3842 [T] COG4753 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain Length = 530 Score = 122 bits (307), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 129/535 (24%), Positives = 232/535 (43%), Gaps = 44/535 (8%) Query: 1 MYDILLVDDEPAHXXXXXXXXXXXXPDYGIATARSGREALDICSGRCFQIIITDIRMPQM 60 M ++L+VDDE + + A +GR+A++ +++ DI+MP + Sbjct: 1 MINVLIVDDEQIEREGLKLFLKDRPNIHIVGEASNGRQAIEKALETQPDLMMMDIKMPGV 60 Query: 61 DGLHFLEQISPSATPRRVIYLSGYSRFEYAQKAMSLGSFEYMLKPLDPQKFIAVLEKTEK 120 DG+ +++I I +S + FEYA++ M G EY+LKP + + L++ Sbjct: 61 DGVQAVKEIKQQLPETEFIMVSAFDTFEYAREVMRYGVKEYLLKPTTKEDVLTALDRIVG 120 Query: 121 SLEQEFAARQQYERLAVRLD-----VAEPAYRHRLLNG-----WIEGKQLMAAEKAEIAG 170 +EQ + +L RL+ V + + L++ W+E + + E+ A Sbjct: 121 EIEQAREEKNDQYKLQQRLEQISSFVQTESILYLLMDHIQDYEWMEWNEWLRTEQEGYAV 180 Query: 171 ILGFSGRGSLLVAHTEEE---AAQERGMALLRQQGWCTAFASRQDPGLLVAAG-----GA 222 + F +G + TE++ A ++ + L + F P L++ Sbjct: 181 VFSFHQQGK-EIRKTEKQQWHARIKKEIGLQLPKSTVGPFIGHHLPILMLTENENGMTKQ 239 Query: 223 EPDSGLLQGLVRLGLTV-------GVSAPLE-HFIDEXXXXXXXXXXXXXXXFYARPAEP 274 E + ++Q L ++ V GV HF Y Sbjct: 240 EREQVVIQLLHKVKQAVQPAKVKTGVGGIYRLHFFS----TSYREALLALDIIYDHKQAS 295 Query: 275 QVYWAAEGGLDAGRNLTFDKRLPGRLREVIDGWDGHEAFQSAAAEAVRRILGEGAPPMPE 334 ++ + A L ++ +L E I DG +A Q A V+ IL P+ Sbjct: 296 YYFYDKNVKIRADEQLPIERE--NKLIEAIKSGDGEKALQ-AFDHYVQAILRCSKHPL-H 351 Query: 335 ELVRGVQQLLYKVIYDLESVREELLAGL-LKRASCFAEGITVYHELIDSTAGLLKDIACA 393 ++ + +QQL +I L + E+ GL + A FA TV H++ + + I Sbjct: 352 DMRKYLQQLF--II--LGRLLNEM--GLHWETAQDFARFSTV-HQVTEHGKSEILHIVRT 404 Query: 394 VAEAKRERKEGVMSRCLDYIDSHYMEDLSQETVAAMFHFSSSYFCQFFKSRLHMTFNQYV 453 + E + ++ +M DY+ H+ E L+ + +A S Y + FK R +TF++YV Sbjct: 405 LQEWRTTDEQSLMLLARDYVHDHFREPLTLDDLAKHIGLSPYYVSKLFKERFDLTFSEYV 464 Query: 454 TRLRLNKAKEMLKSSNVKVYRVAEQLGYHDVKYFNRVFKKETGLTPEEYR-SLTG 507 T+LR+ AK++L + + + ++GY D YF+RVFKK TG +P +YR S+ G Sbjct: 465 TQLRVEHAKQLLSLTQKSLKEITYEIGYKDPNYFSRVFKKLTGKSPSDYRKSING 519 >BH2109 [T] COG4753 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain Length = 525 Score = 88.2 bits (217), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 38/114 (33%), Positives = 74/114 (64%) Query: 391 ACAVAEAKRERKEGVMSRCLDYIDSHYMEDLSQETVAAMFHFSSSYFCQFFKSRLHMTFN 450 A + E ++E + + + YI++HY E++S +++A++F+ + Y Q FK + F Sbjct: 408 AVIIQELRKENMKSDIYKVKTYIENHYHENISLKSIASLFYMNPVYMGQLFKKTFGVYFK 467 Query: 451 QYVTRLRLNKAKEMLKSSNVKVYRVAEQLGYHDVKYFNRVFKKETGLTPEEYRS 504 +Y+ +LR+N+AK++L+ ++++VY VAE++G+ YF F+K +TP EYR+ Sbjct: 468 EYLLKLRMNEAKKLLRQTDMRVYEVAERVGFGSTDYFVTQFEKINKMTPTEYRN 521 Score = 76.6 bits (187), Expect = 9e-14, Method: Compositional matrix adjust. Identities = 45/137 (32%), Positives = 73/137 (53%), Gaps = 2/137 (1%) Query: 1 MYDILLVDDEPAHXXXXXXXXXXXXPDYGIAT-ARSGREALDICSGRCFQIIITDIRMPQ 59 MY +LL DDE Y +A A +G +A + ++ITDIRMP Sbjct: 1 MYKVLLADDEFFVRHGLKSLIEWEKCGYEVAAEADNGEDAFKLVQEIKPDLVITDIRMPV 60 Query: 60 MDGLHFLEQISPSAT-PRRVIYLSGYSRFEYAQKAMSLGSFEYMLKPLDPQKFIAVLEKT 118 DGL +++++ + + + I +SGY+ F YAQKA+ G+ +++LKP+D + A L K Sbjct: 61 FDGLQLIQKVNETLSFNTKFIIISGYNDFSYAQKAVRFGAVDFVLKPIDQDELEAALIKL 120 Query: 119 EKSLEQEFAARQQYERL 135 +L+QE A E++ Sbjct: 121 AATLDQEKATNSDQEKV 137 >BH3679 [T] COG4753 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain Length = 257 Score = 85.9 bits (211), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 41/111 (36%), Positives = 64/111 (57%) Query: 396 EAKRERKEGVMSRCLDYIDSHYMEDLSQETVAAMFHFSSSYFCQFFKSRLHMTFNQYVTR 455 E +R + L YID+H + + + VA H + SY FK + +MTF++Y+TR Sbjct: 146 EKERLSSSDSIHEALHYIDAHLDQKIGLKDVAKSVHLNPSYLSALFKEKTNMTFSEYLTR 205 Query: 456 LRLNKAKEMLKSSNVKVYRVAEQLGYHDVKYFNRVFKKETGLTPEEYRSLT 506 RL AK +L S++ + +AE+ GY KYF ++FK+ G+TP +YR T Sbjct: 206 KRLQHAKHLLVSTDRPISDIAEKCGYQTAKYFIKIFKEHEGMTPTQYRKGT 256 Score = 80.5 bits (197), Expect = 5e-15, Method: Compositional matrix adjust. Identities = 42/114 (36%), Positives = 59/114 (51%), Gaps = 1/114 (0%) Query: 4 ILLVDDEPAHXXXXXXXXXXXXPDY-GIATARSGREALDICSGRCFQIIITDIRMPQMDG 62 +L+VDDEP P + TA S +EA+ + +IITDIRMP+M G Sbjct: 6 VLIVDDEPRSRRGLKRTLEAWSPKLLNVQTAASAKEAITRLNEETIDLIITDIRMPEMSG 65 Query: 63 LHFLEQISPSATPRRVIYLSGYSRFEYAQKAMSLGSFEYMLKPLDPQKFIAVLE 116 LH ++ + I +S YS FEYA A+ LG Y+LKP+ +K I +E Sbjct: 66 LHLVKALQEQNPKPVCIVISAYSEFEYAHTALELGVRHYLLKPVKKEKLIEAVE 119 >BH2728 [T] COG4753 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain Length = 510 Score = 83.6 bits (205), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 39/98 (39%), Positives = 59/98 (60%) Query: 406 MSRCLDYIDSHYMEDLSQETVAAMFHFSSSYFCQFFKSRLHMTFNQYVTRLRLNKAKEML 465 + + L YI+ H+ E LS +A FHF+ SY +F+ F++Y+ ++R+ KAKE L Sbjct: 402 IQKMLAYIEEHHSEPLSLSQLANYFHFNPSYLSAYFRQHHDEGFSEYLNKVRIRKAKEWL 461 Query: 466 KSSNVKVYRVAEQLGYHDVKYFNRVFKKETGLTPEEYR 503 KSS + + + +GY D YF +VFKK TG+ P YR Sbjct: 462 KSSTIPISEIYALVGYSDHSYFCKVFKKRTGMPPSRYR 499 Score = 55.5 bits (132), Expect = 2e-07, Method: Compositional matrix adjust. Identities = 32/106 (30%), Positives = 53/106 (50%), Gaps = 1/106 (0%) Query: 1 MYDILLVDDEPAHXXXXXXXXXXXXPDYGIA-TARSGREALDICSGRCFQIIITDIRMPQ 59 M ++L+VDDE + I A +G++AL++ S I++TDI MP Sbjct: 1 MCNVLIVDDEKLIRQGIINFFDWEKEGFQIVGEAANGKDALELISKNEPHIVMTDIVMPV 60 Query: 60 MDGLHFLEQISPSATPRRVIYLSGYSRFEYAQKAMSLGSFEYMLKP 105 MDG+ ++++ +I LS + FEY + G +Y+LKP Sbjct: 61 MDGIDLVKRVKRDFPEVEIIVLSSFEEFEYVRSTFHSGVADYILKP 106 >YPO0401 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 291 Score = 82.4 bits (202), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 41/103 (39%), Positives = 62/103 (60%) Query: 401 RKEGVMSRCLDYIDSHYMEDLSQETVAAMFHFSSSYFCQFFKSRLHMTFNQYVTRLRLNK 460 R + + +YI+ +Y E L++E+VA +FH S +Y F++ ++ FN+ V RL Sbjct: 176 RSQTLFESIREYIERNYSEPLTRESVAHVFHISPNYLSHLFRNAGNIGFNESVNSARLEN 235 Query: 461 AKEMLKSSNVKVYRVAEQLGYHDVKYFNRVFKKETGLTPEEYR 503 AK +LK +K+ VA G+ D YF R+F+KET LTP EYR Sbjct: 236 AKILLKFYEMKIKEVANVCGFIDSNYFCRLFRKETELTPSEYR 278 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 0.321 0.137 0.400 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: 34,941,300 Number of extensions: 1389989 Number of successful extensions: 5968 Number of sequences better than 1.0e-05: 131 Number of HSP's gapped: 6057 Number of HSP's successfully gapped: 142 Length of query: 510 Length of database: 38,378,431 Length adjustment: 111 Effective length of query: 399 Effective length of database: 25,576,357 Effective search space: 10204966443 Effective search space used: 10204966443 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)