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= 0542.0013.p (250 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value SP0661 [T] COG4753 Response regulator containing CheY-like recei... 135 4e-32 BH3679 [T] COG4753 Response regulator containing CheY-like recei... 128 7e-30 SPy1556 [T] COG4753 Response regulator containing CheY-like rece... 122 4e-28 SPy1062 [T] COG4753 Response regulator containing CheY-like rece... 109 4e-24 BH0793 [T] COG4753 Response regulator containing CheY-like recei... 96 5e-20 >SP0661 [T] COG4753 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain Length = 245 Score = 135 bits (341), Expect = 4e-32, Method: Compositional matrix adjust. Identities = 84/238 (35%), Positives = 133/238 (55%), Gaps = 8/238 (3%) Query: 3 VLIVDDEPLILNGLVKIIGEAAPLGTEVFKANNAFEALDLMKDYMPDVTVTDLHMPEKNG 62 +LIV+DE L+ GL K++ AA + +A N +A +L++ +PD+ +TD++MP NG Sbjct: 5 ILIVEDEYLVRQGLTKLVNVAAYDMEIIGQAENGRQAWELIQKQVPDIILTDINMPHLNG 64 Query: 63 FELIEAARDSGLCDRFIILTGYDEFEYVRKALRTGVVDYLLKPIDKNEIALLLARIDQEL 122 +L R++ + LTGYD+F+Y A++ GV DYLLKP + +I +L +I Q+L Sbjct: 65 IQLASLVRETYPQVHLVFLTGYDDFDYALSAVKLGVDDYLLKPFSRQDIEEMLGKIKQKL 124 Query: 123 PSEADPE-----CSGHAKRILAYTKTHYMND--LSLDHLAELMKLHPNYISSLFKKVTGD 175 E E + + +A ++ D SL LA + P Y+SSL KK G Sbjct: 125 DKEEKEEQLQDLLTNRFEGNMAQKIQSHLADSQFSLKSLASDLGFSPTYLSSLIKKELGL 184 Query: 176 TFVSYLNAFRIKEAQKLLRSQRQLSVNAIGKKVGFENKHYFTKVFKKYTGITPGAYRE 233 F YL R+K+A+ L L + I +KVGFE+ +YFT+ FK+ G+TP +++ Sbjct: 185 PFQDYLVRERVKQAKL-LLLTTDLKIYEIAEKVGFEDMNYFTQRFKQIAGVTPRQFKK 241 >BH3679 [T] COG4753 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain Length = 257 Score = 128 bits (322), Expect = 7e-30, Method: Compositional matrix adjust. Identities = 80/256 (31%), Positives = 132/256 (51%), Gaps = 26/256 (10%) Query: 3 VLIVDDEPLILNGLVKIIGEAAPLGTEVFKANNAFEALDLMKDYMPDVTVTDLHMPEKNG 62 VLIVDDEP GL + + +P V A +A EA+ + + D+ +TD+ MPE +G Sbjct: 6 VLIVDDEPRSRRGLKRTLEAWSPKLLNVQTAASAKEAITRLNEETIDLIITDIRMPEMSG 65 Query: 63 FELIEAARDSGLCDRFIILTGYDEFEYVRKALRTGVVDYLLKPIDKNEIALLLARIDQEL 122 L++A ++ I+++ Y EFEY AL GV YLLKP+ K + L+ ++ L Sbjct: 66 LHLVKALQEQNPKPVCIVISAYSEFEYAHTALELGVRHYLLKPVKKEK---LIEAVESAL 122 Query: 123 PSEADPECSGHAKRI----------------------LAYTKTHYMNDLSLDHLAELMKL 160 + + + G +++ L Y H + L +A+ + L Sbjct: 123 QMKKEQDRFGQVEKVWDEKIDAIEKERLSSSDSIHEALHYIDAHLDQKIGLKDVAKSVHL 182 Query: 161 HPNYISSLFKKVTGDTFVSYLNAFRIKEAQKLLRSQRQLSVNAIGKKVGFENKHYFTKVF 220 +P+Y+S+LFK+ T TF YL R++ A+ LL S + ++ I +K G++ YF K+F Sbjct: 183 NPSYLSALFKEKTNMTFSEYLTRKRLQHAKHLLVSTDR-PISDIAEKCGYQTAKYFIKIF 241 Query: 221 KKYTGITPGAYREEGE 236 K++ G+TP YR+ E Sbjct: 242 KEHEGMTPTQYRKGTE 257 >SPy1556 [T] COG4753 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain Length = 246 Score = 122 bits (307), Expect = 4e-28, Method: Compositional matrix adjust. Identities = 84/247 (34%), Positives = 132/247 (53%), Gaps = 16/247 (6%) Query: 3 VLIVDDEPLILNGLVKIIGEAAPLGTEVFKANNAFEALDLMKDYMPDVTVTDLHMPEKNG 62 +LIV+DE L+ G+ ++ + V +A N A DL + D+ +TD++MP+ NG Sbjct: 4 LLIVEDEYLVRQGIRSLVDFSQFKIDRVNEAENGQLAWDLFQKEPYDIVLTDINMPKLNG 63 Query: 63 FELIEAARDSGLCDRFIILTGYDEFEYVRKALRTGVVDYLLKPIDKNEIALLLARID--- 119 +L E + + LTGYD+F Y AL+ G DYLLKP K ++ +L ++ Sbjct: 64 IQLAELIKQESPQTHLVFLTGYDDFNYALSALKLGADDYLLKPFSKADVEDMLGKLRKKL 123 Query: 120 ---------QELPSEADPECSGHAKRILAYTKTHYMNDLSLDHLAELMKLHPNYISSLFK 170 QEL + E S A +A + +DL+L LA+ + PNY+S L K Sbjct: 124 ELSKKTETIQELVEQPQKEVSAIA---MAIHERLADSDLTLKSLAQQLGFSPNYLSVLIK 180 Query: 171 KVTGDTFVSYLNAFRIKEAQKLLRSQRQLSVNAIGKKVGFENKHYFTKVFKKYTGITPGA 230 K G F YL R+K+A+ LL + L + I ++VGFE+ +YF++ FK+ G+TP Sbjct: 181 KELGMPFQDYLVQERLKKAKLLLLTSN-LKIYEIAEQVGFEDMNYFSQRFKQLVGVTPSQ 239 Query: 231 YREEGEA 237 Y++ G+A Sbjct: 240 YKKGGQA 246 >SPy1062 [T] COG4753 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain Length = 262 Score = 109 bits (272), Expect = 4e-24, Method: Compositional matrix adjust. Identities = 76/253 (30%), Positives = 126/253 (49%), Gaps = 25/253 (9%) Query: 2 RVLIVDDEPLILNGLVKIIGEAAPLGTEVFKANNAFEALDLMKDYMPDVTVTDLHMPEKN 61 +++I++DE +I L I A + +A + E L+K+ PD+ +TD++MP Sbjct: 3 KLVIIEDEHIIRKWLRYAIDYKALDILVIGEAKDGKEGAVLIKESQPDIVLTDINMPIMT 62 Query: 62 GFELIEAARDSGLCDRFIILTGYDEFEYVRKALRTGVVDYLLKPIDKNEI----ALLLAR 117 F++ E +D IIL+GY +F R A+ GV+++L KPI+K + ++A+ Sbjct: 63 AFDMFEVTKDQTYAK--IILSGYADFPNARSAIHYGVLEFLTKPIEKAALWECLQTIIAK 120 Query: 118 IDQE--------------LPSEAD--PECSGHAKRILAYTKTHYMNDLSLDHLAELMKLH 161 I+++ LP D PE K IL + H+ + +S LA + Sbjct: 121 IEKQKGSNQKTDACVYIPLPQMTDQIPEV---VKDILEWVHAHFQDKISTSRLAHDLGYS 177 Query: 162 PNYISSLFKKVTGDTFVSYLNAFRIKEAQKLLRSQRQLSVNAIGKKVGFENKHYFTKVFK 221 +YI KK Y+N +RI +A +L++ + L V I + VG + YF +VFK Sbjct: 178 ESYIYQNIKKHLQMPLSDYINQYRINQAIQLMQQEPDLMVYEIAQAVGIYDYRYFDRVFK 237 Query: 222 KYTGITPGAYREE 234 KY G T A++EE Sbjct: 238 KYLGQTVKAFKEE 250 >BH0793 [T] COG4753 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain Length = 508 Score = 95.9 bits (237), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 51/123 (41%), Positives = 79/123 (64%), Gaps = 2/123 (1%) Query: 1 MRVLIVDDEPLILNGLVKIIGEAAPLGTEVF-KANNAFEALDLMKDYMPDVTVTDLHMPE 59 +RV++VDDEPLIL GL +I + LG E+ A N EAL++ K D+ +TD+ MPE Sbjct: 2 IRVMLVDDEPLILEGLKHLI-DWGQLGYEIVATARNGVEALEIAKYVSFDLLITDIKMPE 60 Query: 60 KNGFELIEAARDSGLCDRFIILTGYDEFEYVRKALRTGVVDYLLKPIDKNEIALLLARID 119 K G ELI A + R I+L+G+ EF +V++ L G+ +YLLKPI++ E+ L+ + Sbjct: 61 KTGLELIAALNEREKTIRSIVLSGFQEFHFVKQGLTLGIENYLLKPINEKELISTLSHVK 120 Query: 120 QEL 122 +++ Sbjct: 121 EKI 123 Score = 75.9 bits (185), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 48/161 (29%), Positives = 81/161 (50%), Gaps = 7/161 (4%) Query: 74 LCDRFIILTGYDEF-EYVRKALRTGVVDYLLKPIDKNEIALLLARIDQELPSEADPECSG 132 L +FI+ +D++ + V++ + +K ID+ + ++ + E + S Sbjct: 349 LKSQFIVQLPFDQYVQIVQQIVHVETTSEAMKMIDR-----CIDLLEDDHLQENEKNYSP 403 Query: 133 HAKRILAYTKTHYMNDLSLDHLAELMKLHPNYISSLFKKVTGDTFVSYLNAFRIKEAQKL 192 + +L + H+ DLSL L ++P Y+ LF++ G +F YLN RI A+KL Sbjct: 404 IIQTVLQHIHQHFSQDLSLKTLGHSFHINPIYLGQLFQREVGCSFTKYLNQLRIDRAKKL 463 Query: 193 LRSQRQLSVNAIGKKVGFENKHYFTKVFKKYTGITPGAYRE 233 L + IGKKVG+ + YF K FKKY +TP +R+ Sbjct: 464 LLNSYD-RAGQIGKKVGYGDATYFYKQFKKYEAMTPTEWRK 503 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 0.396 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: 19,243,125 Number of extensions: 792357 Number of successful extensions: 4216 Number of sequences better than 1.0e-05: 318 Number of HSP's gapped: 5038 Number of HSP's successfully gapped: 326 Length of query: 250 Length of database: 38,378,431 Length adjustment: 104 Effective length of query: 146 Effective length of database: 26,383,695 Effective search space: 3852019470 Effective search space used: 3852019470 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: 114 (48.5 bits)