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= 0567.0033.p (276 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value lin0157 [K] COG2207 AraC-type DNA-binding domain-containing prot... 94 3e-19 PA0748 [K] COG2207 AraC-type DNA-binding domain-containing proteins 84 3e-16 BS_ybbB_1 [K] COG2207 AraC-type DNA-binding domain-containing pr... 80 3e-15 CAC1333 [K] COG2207 AraC-type DNA-binding domain-containing prot... 79 9e-15 lin1152 [K] COG2207 AraC-type DNA-binding domain-containing prot... 75 7e-14 >lin0157 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 277 Score = 94.0 bits (232), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 67/248 (27%), Positives = 122/248 (49%), Gaps = 22/248 (8%) Query: 33 DHHELILVSAGKGSITIERKKYPFKAGMLFYLTPGLPHTIEMDRQEPGRFQS-VHFSYGY 91 D E+ ++ G IE ++ + G + PG+ H D EPG + +H + Sbjct: 33 DFLEISIICEGNVIYDIEGERVALEKGDMLIFNPGVNH---YDITEPGMTNAQLHIGFRN 89 Query: 92 VGLREGEWFVRPEAENLPLQAA--QQLKDYYQVEEQFHKLVDCWDAKLPGYEYVSKTAFQ 149 L E + R P + A ++ +D + ++++ DA+ PGY+ + K Sbjct: 90 FAL---EGYSR---NTFPFKKAFLRKKEDESAILSISKQIIEEKDAEKPGYDLILKAFVM 143 Query: 150 QLLIAIYHN-TKKQNQNYATSLK---------VEKLIQYMRENIHRKLTLTELSGQAQLS 199 QL+I + T +Q +N L V ++I YM ++ ++L+ LS +S Sbjct: 144 QLIIHVLREATPEQLENNGVKLSTDEQQKQMLVNEIIHYMEKHHTEDVSLSTLSQTMYIS 203 Query: 200 PTYLSRAFKEITGTTIIEFFNQLKMDAAKEMLLEGDLRIKEVAGALGFADEFYFSRIFKK 259 P Y+S+ FKE TG + I + ++++ A+E+L D+ +K+ A +G+ D +YFS++FKK Sbjct: 204 PAYISKVFKEETGESPINYLIKIRLTRAEELLKNKDVTVKQAANMVGYNDAYYFSKLFKK 263 Query: 260 TEGISPSQ 267 G PS+ Sbjct: 264 YYGFPPSE 271 >PA0748 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 306 Score = 83.6 bits (205), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 40/123 (32%), Positives = 72/123 (58%) Query: 148 FQQLLIAIYHNTKKQNQNYATSLKVEKLIQYMRENIHRKLTLTELSGQAQLSPTYLSRAF 207 Q LL ++ + + L ++ + MR ++H L L EL+ Q +LS + ++ + Sbjct: 180 LQGLLTSLAVRPARASLKSGRVLDIDAVQALMRAHLHDSLNLDELAAQFKLSRFHFAKTY 239 Query: 208 KEITGTTIIEFFNQLKMDAAKEMLLEGDLRIKEVAGALGFADEFYFSRIFKKTEGISPSQ 267 + +TG I+ F Q+KM A +L EG L ++++A LG+AD +YFSR+F+K G++PS Sbjct: 240 RALTGQAPIQDFIQMKMAHACRLLDEGALEVRQIAEQLGYADPYYFSRLFRKVVGMAPSH 299 Query: 268 FHS 270 + + Sbjct: 300 YRA 302 >BS_ybbB_1 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 364 Score = 80.5 bits (197), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 6/97 (6%), Positives = 17/97 (17%) Query: 172 VEKLIQYMRENIHRKLTLTELSGQAQLSPTYLSRAFKEITGTTIIEFFNQLKMDAAKEML 231 L R + L+ + + + Sbjct: 165 GVDLEGLARHRGSAFGRTLQPQLSQASFENLLAAEMLKTDARQNLRLWVLEDESRMIGSN 224 Query: 232 LEGDLRIKEVAGALGFADEFYFSRIFKKTEGISPSQF 268 + + + A E F ++ + Sbjct: 225 HLPECLRERMTQAAIAVVEDPFEIRLERLNEEYFLRM 261 >CAC1333 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 286 Score = 78.6 bits (192), Expect = 9e-15, Method: Compositional matrix adjust. Identities = 67/256 (26%), Positives = 119/256 (46%), Gaps = 31/256 (12%) Query: 33 DHHELILVSAGKGSITIERKKYPFKAGMLFYLTPGLPHTIEMDRQEPGRFQSVHFSYGYV 92 D +E +G + IE K Y +G + + H ++ Q ++ + V Sbjct: 38 DFYEFYFFISGDVTYLIEGKSYCLNSGNIILINSRELHQAIINSQREN-YERIVLWISRV 96 Query: 93 GLRE--------GEWFVRPEAENLPLQAAQQLKDYYQVEEQFHKLVDCWDAKLPGYEYVS 144 L++ F + +N+ + +Q K+ + +K++ + K GYE + Sbjct: 97 FLQKLSSNEIDLSLCFESNKKKNVLIADFEQEKN---IRAILNKIISLENYKAMGYELLY 153 Query: 145 KTAFQQLLIAIYH-----------NTKKQNQNYATSLKVEKLIQYMRENIHRKLTLTELS 193 K +L++ IY+ +TKK N ++++I+Y+ NI +T+ +++ Sbjct: 154 KAYITELMVNIYNLEFSGDTQLSVDTKKSNL-------IDEIIEYITFNIEEDITIDKIA 206 Query: 194 GQAQLSPTYLSRAFKEITGTTIIEFFNQLKMDAAKEMLLEGDLRIKEVAGALGFADEFYF 253 Q LS +LSR FK+ TGTTI + Q K+ AKE++L+ D+ I +V GF D F Sbjct: 207 EQFYLSKFHLSREFKKYTGTTIHRYIIQKKLIQAKELILK-DISITDVYKKCGFGDYSNF 265 Query: 254 SRIFKKTEGISPSQFH 269 R FK I+P QF+ Sbjct: 266 FRAFKNEYKITPKQFY 281 >lin1152 [K] COG2207 AraC-type DNA-binding domain-containing proteins Length = 183 Score = 75.5 bits (184), Expect = 7e-14, Method: Compositional matrix adjust. Identities = 36/97 (37%), Positives = 59/97 (60%) Query: 172 VEKLIQYMRENIHRKLTLTELSGQAQLSPTYLSRAFKEITGTTIIEFFNQLKMDAAKEML 231 +++ I+Y+++NIHR +TL E++ LSP YLS+ FK I + N+ KM AKE L Sbjct: 82 IKQAIRYIKKNIHRSITLEEVANYVYLSPFYLSKLFKNELNINFINYVNEQKMLYAKEQL 141 Query: 232 LEGDLRIKEVAGALGFADEFYFSRIFKKTEGISPSQF 268 + D + +A LGF+ YF ++FKK ++P ++ Sbjct: 142 EKSDWAVHTIAKNLGFSRASYFCKVFKKEFDMTPKEY 178 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 0.403 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: 19,849,184 Number of extensions: 818011 Number of successful extensions: 3068 Number of sequences better than 1.0e-05: 106 Number of HSP's gapped: 3067 Number of HSP's successfully gapped: 106 Length of query: 276 Length of database: 38,378,431 Length adjustment: 105 Effective length of query: 171 Effective length of database: 26,268,361 Effective search space: 4491889731 Effective search space used: 4491889731 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)