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= 0040.0008.p (302 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value YPO0333 [K] COG2207 AraC-type DNA-binding domain-containing prot... 71 2e-12 BS_ydeC [K] COG2207 AraC-type DNA-binding domain-containing prot... 68 2e-11 lin0157 [K] COG2207 AraC-type DNA-binding domain-containing prot... 67 3e-11 BH2109 [T] COG4753 Response regulator containing CheY-like recei... 65 1e-10 BH0724 [K] COG2207 AraC-type DNA-binding domain-containing proteins 63 5e-10 >YPO0333 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 290 Score = 70.9 bits (172), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 61/279 (21%), Positives = 130/279 (46%), Gaps = 15/279 (5%) Query: 4 DTKNFVISMERFMPHTFQAEKGEGLFMSHSHEYDELTLILEGEGYYSSAEQNIKVSKGDL 63 +++++++S + MP + F+ H+H++ E+ ++ G G + + +++ GD+ Sbjct: 8 ESRDYLLSEQ--MPVAVTNRYPQETFVEHTHQFCEIVIVWRGNGLHVLNDHPYRITCGDV 65 Query: 64 ILIPSRLHHGFVCTEPWQGISVHFYHDKLPAYCQY--LFHNAEREQDRIRSAY--LSEED 119 I + HH + ++ + ++L Q+ L EQ++ Y L+ + Sbjct: 66 FYIQAADHHSYESVHDLVLDNIIYCPERLHLNAQWHKLLPPLGPEQNQ---GYWRLTTQG 122 Query: 120 MRWAEISLIQLEKEWKLESYNADSYV--LMRVALETILLLFQRNRVTMLLPHVLNDQFTI 177 M A + QL +E S DS+ L V L + ++ +R+R H+L D + Sbjct: 123 MAQARPIIQQLAQE----SRKTDSWSIQLTEVLLLQLAIVLKRHRYRAEQAHLLPDGEQL 178 Query: 178 QEVLKEIHAGYHTQITVSELASRYFLSESNLRKKFTELIGVSPKQYIINLRLREAKRLLQ 237 ++ + +++ + L E +L++ F + G+S Y+ +RL AK LL+ Sbjct: 179 DLIMSALQQSLGAYFDMADFCHKNQLVERSLKQLFRQQTGMSISHYLRQIRLCHAKCLLR 238 Query: 238 QTDKAVEIISHEVGFTSSSRFYHFFVKAAGATPLEWRKK 276 ++ + I+ GF S+ F F + AG TP ++R++ Sbjct: 239 GSEHRISDIAARCGFEDSNYFSAVFTREAGMTPRDYRQR 277 >BS_ydeC [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 291 Score = 67.8 bits (164), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 66/266 (24%), Positives = 126/266 (47%), Gaps = 30/266 (11%) Query: 27 GLFMSHSHEYDELTLILEGEGYYSSAEQNIKVSKGDLILIPSRLHH------GFVCTEPW 80 G H H+ + LIL+G + E+ I+V +GD + I S H G CT Sbjct: 36 GYIPLHWHDEIQFVLILKGIALFQINEEKIEVHEGDGLFINSGYLHMAEEKEGSDCTYIC 95 Query: 81 QGISVHFY--HDKLPAYCQ-YLFHNAEREQDRIRSAYLSEEDMRWAEISLIQLEK----- 132 +S HF + +Y Q Y+F + +L+ + +WA+ L ++K Sbjct: 96 LNVSPHFVLSQELYSSYVQPYMF------STNLPYLFLAG-NQQWAKNILDAVKKINQLI 148 Query: 133 EWKLESYNADSYVLMRVALETILL---LFQRNRVTMLLPHVLNDQFTIQEVLKEIHAGYH 189 + K Y D + + + + +++ + ++ M+ H ++++L IH Y Sbjct: 149 QQKTSLYEIDITMQLTLMWKNLVVNGFQLEYDQSEMIKSH------RMKQMLNWIHLHYV 202 Query: 190 TQITVSELASRYFLSESNLRKKFTELIGVSPKQYIINLRLREAKRLLQQTDKAVEIISHE 249 +IT+ ++A LS S + F ++ +P +Y+++ R++++ LLQ + V +S++ Sbjct: 203 EKITLEDIAKAGQLSRSECCRYFKRMLNKTPLRYVMDYRIQKSLLLLQHPESNVTEVSYQ 262 Query: 250 VGFTSSSRFYHFFVKAAGATPLEWRK 275 VGF S+S F F +A TPL ++K Sbjct: 263 VGFNSTSYFISKFQQAMNMTPLSYKK 288 >lin0157 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 277 Score = 67.4 bits (163), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 61/259 (23%), Positives = 118/259 (45%), Gaps = 26/259 (10%) Query: 31 SHSHEYDELTLILEGEGYYSSAEQNIKVSKGDLILIPSRLHHGFVCTEPWQG---ISVHF 87 +H H++ E+++I EG Y + + + KGD+++ ++H + TEP + + F Sbjct: 29 NHHHDFLEISIICEGNVIYDIEGERVALEKGDMLIFNPGVNH-YDITEPGMTNAQLHIGF 87 Query: 88 YHDKLPAYCQYLFHNAEREQDRIRSAYLSEEDMRWAEISL---IQLEKEWKLESYNADSY 144 + L Y + F + A+L +++ A +S+ I EK+ + Y+ Sbjct: 88 RNFALEGYSRNTF--------PFKKAFLRKKEDESAILSISKQIIEEKDAEKPGYDL--- 136 Query: 145 VLMRVALETILLLFQR-------NRVTMLLPHVLNDQFTIQEVLKEIHAGYHTQITVSEL 197 +L ++ I+ + + N L Q + E++ + + +++S L Sbjct: 137 ILKAFVMQLIIHVLREATPEQLENNGVKLSTDEQQKQMLVNEIIHYMEKHHTEDVSLSTL 196 Query: 198 ASRYFLSESNLRKKFTELIGVSPKQYIINLRLREAKRLLQQTDKAVEIISHEVGFTSSSR 257 + ++S + + K F E G SP Y+I +RL A+ LL+ D V+ ++ VG+ + Sbjct: 197 SQTMYISPAYISKVFKEETGESPINYLIKIRLTRAEELLKNKDVTVKQAANMVGYNDAYY 256 Query: 258 FYHFFVKAAGATPLE-WRK 275 F F K G P E WRK Sbjct: 257 FSKLFKKYYGFPPSENWRK 275 >BH2109 [T] COG4753 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain Length = 525 Score = 65.5 bits (158), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 41/120 (34%), Positives = 63/120 (52%), Gaps = 12/120 (10%) Query: 170 VLNDQFTIQEVLKE------------IHAGYHTQITVSELASRYFLSESNLRKKFTELIG 217 VL IQE+ KE I YH I++ +AS ++++ + + F + G Sbjct: 404 VLEAAVIIQELRKENMKSDIYKVKTYIENHYHENISLKSIASLFYMNPVYMGQLFKKTFG 463 Query: 218 VSPKQYIINLRLREAKRLLQQTDKAVEIISHEVGFTSSSRFYHFFVKAAGATPLEWRKKV 277 V K+Y++ LR+ EAK+LL+QTD V ++ VGF S+ F F K TP E+R K+ Sbjct: 464 VYFKEYLLKLRMNEAKKLLRQTDMRVYEVAERVGFGSTDYFVTQFEKINKMTPTEYRNKL 523 >BH0724 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 298 Score = 63.2 bits (152), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 66/266 (24%), Positives = 118/266 (44%), Gaps = 30/266 (11%) Query: 27 GLFMSHSHEYDELTLILEGEGYYSSAEQNIKVSKGDLILIPSRLHHG----------FVC 76 G H H+ + +I++GE + E+ I V +GD + I S H ++C Sbjct: 38 GYMPLHWHDELQFVVIIQGEARFQVNEEAIIVQEGDGLFINSGCLHMVEDGNGSNCVYIC 97 Query: 77 TE-PWQGI-SVHFYHDKLPAYCQYLFHNAEREQDRIRSAYLSEEDMRWAEISLIQLEKEW 134 P Q I S Y + Y Q I S+ + +++ A +++ Q +E Sbjct: 98 LNVPAQSIISRELYTAYVAPYVQ----ATNLPYVLIPSSEMWGQNIIEATLNIHQCLEE- 152 Query: 135 KLESYNADSYVLMRVALETILLLFQRNRVTMLLPHVLNDQFTIQE-----VLKEIHAGYH 189 + Y D + T L + ++ +T P + I+ +L+ IH Y Sbjct: 153 QPPYYEMD--------ITTKLTVIWKSLITNGFPLEYDQSAMIKNQRMKAMLQWIHLHYG 204 Query: 190 TQITVSELASRYFLSESNLRKKFTELIGVSPKQYIINLRLREAKRLLQQTDKAVEIISHE 249 I + ++A LS S + F + ++P QY+ + R++++ LLQQ + V ++++ Sbjct: 205 ENIRLDDIAKAGQLSRSECCRYFKRTLKMTPLQYVTDYRIQKSVTLLQQPESNVTDVAYQ 264 Query: 250 VGFTSSSRFYHFFVKAAGATPLEWRK 275 VGF S+S F F KA TPL ++K Sbjct: 265 VGFNSTSYFIDQFRKAMNMTPLRYKK 290 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 0.136 0.399 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: 21,593,422 Number of extensions: 830208 Number of successful extensions: 1775 Number of sequences better than 1.0e-05: 69 Number of HSP's gapped: 1773 Number of HSP's successfully gapped: 69 Length of query: 302 Length of database: 38,378,431 Length adjustment: 106 Effective length of query: 196 Effective length of database: 26,153,027 Effective search space: 5125993292 Effective search space used: 5125993292 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 (21.9 bits) S2: 115 (48.9 bits)