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= 0541.0094.p (363 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value aq_035_2 [T] COG2199 FOG: GGDEF domain 125 1e-28 AGc2387 [T] COG3706 Response regulator containing a CheY-like re... 115 1e-25 BH2234 [T] COG3706 Response regulator containing a CheY-like rec... 114 3e-25 CC2462 [T] COG3706 Response regulator containing a CheY-like rec... 112 7e-25 CC1850 [T] COG2199 FOG: GGDEF domain 111 2e-24 >aq_035_2 [T] COG2199 FOG: GGDEF domain Length = 251 Score = 125 bits (314), Expect = 1e-28, Method: Compositional matrix adjust. Identities = 70/180 (38%), Positives = 104/180 (57%), Gaps = 2/180 (1%) Query: 170 LEQLTKSEQELMVERAISDKLLKIDALTGLYNHKTFHEYLVSLLEQCESNGLRLQLALFD 229 +E L K E E+ + +++ D LTGLYN + F E L + + G + + D Sbjct: 63 IETLKKILIETSKEKTLYERMALTDPLTGLYNRRVFTEMAEKELAKAKRYGYNFSILMID 122 Query: 230 IDNFKRVNDTYGHWVGDLVLKEVAAKVGGLIGLNDFAARYGGEEFAVIFTDKSIHEAYAA 289 IDNFK++NDTYGH VGDLVLK+++ + + D AR+GGEEF V+ ++ +++ A Sbjct: 123 IDNFKKINDTYGHDVGDLVLKKISEILKRNVRGADLVARFGGEEFIVMLSNTNLNGAVKK 182 Query: 290 AEELRLKI--AAMEHPYAGGKPITVSIGLCDYQLGDGKEKLFRKTDHALYAAKHSGKNAV 347 AE+LR I +E P +TVSIG+ Y+ + E+L ++ D ALY AK GKN V Sbjct: 183 AEQLRRMIEQTPIELPNGEKLRVTVSIGVSTYRGHESLEELIKEADQALYEAKRKGKNRV 242 >AGc2387 [T] COG3706 Response regulator containing a CheY-like receiver domain and a GGDEF domain Length = 218 Score = 115 bits (287), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 0/198 (0%), Positives = 0/198 (0%), Gaps = 18/198 (9%) Query: 161 IRAREVREHLEQLTKSEQELMVERAISDKLLKIDALTGLYNHKTFHEYLVSLLEQCESNG 220 Sbjct: 271 ---------- 320 Query: 221 LRLQLALFDIDNFKRVNDTYGHWVGDLVLKEVAAKVGGLIGLNDFAARYGGEEFAVIFTD 280 Sbjct: 321 380 Query: 281 KSIHEAYAAAEELRLKIAAMEHPY-----AGGKPITVSIGLCDYQLGDG-KEKLFRKTDH 334 Sbjct: 381 -- 438 Query: 335 ALYAAKHSGKNAVVTASA 352 Sbjct: 439 456 >BH2234 [T] COG3706 Response regulator containing a CheY-like receiver domain and a GGDEF domain Length = 314 Score = 114 bits (285), Expect = 3e-25, Method: Compositional matrix adjust. Identities = 69/204 (33%), Positives = 108/204 (52%), Gaps = 5/204 (2%) Query: 153 VVMAQAVIIRAREVREHLEQLTK--SEQELMVERAIS--DKLLKIDALTGLYNHKTFHEY 208 +V+ +++ R+ LEQ K EQ ++ I D+L ++D LT L N + E Sbjct: 110 LVLRMKSLLKQESSRKRLEQHVKVLEEQNEKLKGKIQKVDRLSRVDFLTNLMNRRDMQEK 169 Query: 209 LVSLLEQCESNGLRLQLALFDIDNFKRVNDTYGHWVGDLVLKEVAAKVGGLIGLNDFAAR 268 + + + + +G LA+ DID FK +NDTYGH GD VLK + + + +D+ +R Sbjct: 170 IRAEINRSIRHGRSFTLAIVDIDFFKNINDTYGHDCGDHVLKHFVSTLKNSVRSSDYVSR 229 Query: 269 YGGEEFAVIFTDKSIHEAYAAAEELRLKIAAMEHPYAG-GKPITVSIGLCDYQLGDGKEK 327 +GGEEF ++F + + E A E++R KI Y G IT + G+ +Y+ E+ Sbjct: 230 WGGEEFLLLFPETKLEEGKRACEKIRQKINESPVIYKGMSISITATFGISEYRPSVRIEE 289 Query: 328 LFRKTDHALYAAKHSGKNAVVTAS 351 L + D ALY K +GKN VV S Sbjct: 290 LIKAADDALYKGKKTGKNQVVVQS 313 >CC2462 [T] COG3706 Response regulator containing a CheY-like receiver domain and a GGDEF domain Length = 454 Score = 112 bits (281), Expect = 7e-25, Method: Compositional matrix adjust. Identities = 63/163 (38%), Positives = 93/163 (57%), Gaps = 4/163 (2%) Query: 194 DALTGLYNHKTFHEYLVSLLEQCESNGLRLQLALFDIDNFKRVNDTYGHWVGDLVLKEVA 253 D LTGL+N + L SL+++ G + L DID FK++NDT+GH +GD VL+E A Sbjct: 292 DQLTGLHNRRYMTGQLDSLVKRATLGGDPVSALLIDIDFFKKINDTFGHDIGDEVLREFA 351 Query: 254 AKVGGLIGLNDFAARYGGEEFAVIFTDKSIHEAYAAAEELRLKIAAMEHPYAGGKP---I 310 ++ + D RYGGEEF VI D ++ +A AE +R+ ++ A G+ + Sbjct: 352 LRLASNVRAIDLPCRYGGEEFVVIMPDTALADALRIAERIRMHVSGSPFTVAHGREMLNV 411 Query: 311 TVSIGL-CDYQLGDGKEKLFRKTDHALYAAKHSGKNAVVTASA 352 T+SIG+ GD E L ++ D +Y AK SG+NAVV +A Sbjct: 412 TISIGVSATAGEGDTPEALLKRADEGVYQAKASGRNAVVGKAA 454 >CC1850 [T] COG2199 FOG: GGDEF domain Length = 353 Score = 111 bits (278), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 66/191 (34%), Positives = 97/191 (50%), Gaps = 18/191 (9%) Query: 166 VREHLEQLTKSEQELMVERAISDKLLKIDALTGLYNHKTFHEYLVSLLEQCESNGLRLQL 225 +REHLEQ+ + D LT L N K F + L + E G + L Sbjct: 169 LREHLEQVRRD--------------ATTDGLTNLANRKAFDDELDRACAEAEEGGTTICL 214 Query: 226 ALFDIDNFKRVNDTYGHWVGDLVLKEVAAKVGGLIGLNDFAARYGGEEFAVIFTDKSIHE 285 A+ DID+FK NDT+GH GD V++ VA+ +G + FAARYGGEEFA+IF ++ Sbjct: 215 AVLDIDHFKGFNDTWGHQTGDQVIRYVASVIGRVAAPPRFAARYGGEEFAMIFPREAASV 274 Query: 286 AYAAAEELRLKIAA----MEHPYAGGKPITVSIGLCDYQLGDGKEKLFRKTDHALYAAKH 341 EE+R+++++ ITVS G + + G+ + + D ALYA+K Sbjct: 275 VATTLEEIRVEVSSRMLKRRSTNEDLGAITVSSGFAERKPGESGHSVMERADAALYASKR 334 Query: 342 SGKNAVVTASA 352 G+N V A + Sbjct: 335 GGRNRVTAAES 345 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 0.326 0.140 0.411 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: 24,387,955 Number of extensions: 880406 Number of successful extensions: 2634 Number of sequences better than 1.0e-05: 142 Number of HSP's gapped: 2506 Number of HSP's successfully gapped: 142 Length of query: 363 Length of database: 38,378,431 Length adjustment: 108 Effective length of query: 255 Effective length of database: 25,922,359 Effective search space: 6610201545 Effective search space used: 6610201545 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.7 bits) S2: 116 (49.3 bits)