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= 0342.0007.p (378 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value CC2462 [T] COG3706 Response regulator containing a CheY-like rec... 113 6e-25 CC1850 [T] COG2199 FOG: GGDEF domain 108 1e-23 AGc2387 [T] COG3706 Response regulator containing a CheY-like re... 108 1e-23 aq_035_2 [T] COG2199 FOG: GGDEF domain 105 1e-22 DR1090 [T] COG2199 FOG: GGDEF domain 103 7e-22 >CC2462 [T] COG3706 Response regulator containing a CheY-like receiver domain and a GGDEF domain Length = 454 Score = 113 bits (282), Expect = 6e-25, Method: Compositional matrix adjust. Identities = 69/184 (37%), Positives = 99/184 (53%), Gaps = 30/184 (16%) Query: 204 SYSMAFSDELTGLPSRRALKQDMMKL-------GFNYAIAMLDIDFFKKFNDTYGHDTGD 256 S +A +D+LTGL +RR + + L G + ++DIDFFKK NDT+GHD GD Sbjct: 285 SLELAVTDQLTGLHNRRYMTGQLDSLVKRATLGGDPVSALLIDIDFFKKINDTFGHDIGD 344 Query: 257 EVLR----LVASNIKEVTGGGRAFRYGGEEFTILFPGKTISDVLPHLEELRERISKQAFT 312 EVLR +ASN++ + RYGGEEF ++ P ++D L E +R +S FT Sbjct: 345 EVLREFALRLASNVRAID---LPCRYGGEEFVVIMPDTALADALRIAERIRMHVSGSPFT 401 Query: 313 IRAKGRSKTRSPKRSFSARTSKQIYITVSIGVSQKNEKYKTTETVMKSADTALYRAKKKG 372 + A GR + + +T+SIGVS + T E ++K AD +Y+AK G Sbjct: 402 V-AHGR---------------EMLNVTISIGVSATAGEGDTPEALLKRADEGVYQAKASG 445 Query: 373 RNCV 376 RN V Sbjct: 446 RNAV 449 >CC1850 [T] COG2199 FOG: GGDEF domain Length = 353 Score = 108 bits (270), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 73/210 (34%), Positives = 110/210 (52%), Gaps = 24/210 (11%) Query: 176 LHQNNNPLLYSIIFAASGIVFIISIIQDSYSMAFSDELTGLPSRRALKQDMMKL------ 229 +H+ N L + + + + + ++ A +D LT L +R+A ++ + Sbjct: 148 VHKENQSLEARLADSTAEVERLREHLEQVRRDATTDGLTNLANRKAFDDELDRACAEAEE 207 Query: 230 -GFNYAIAMLDIDFFKKFNDTYGHDTGDEVLRLVASNIKEVTGGGR-AFRYGGEEFTILF 287 G +A+LDID FK FNDT+GH TGD+V+R VAS I V R A RYGGEEF ++F Sbjct: 208 GGTTICLAVLDIDHFKGFNDTWGHQTGDQVIRYVASVIGRVAAPPRFAARYGGEEFAMIF 267 Query: 288 PGKTISDVLPHLEELRERISKQAFTIRAKGRSKTRSPKRSFSARTSKQIYITVSIGVSQK 347 P + S V LEE+R +S + K RS A ITVS G +++ Sbjct: 268 PREAASVVATTLEEIRVEVSSRML--------KRRSTNEDLGA-------ITVSSGFAER 312 Query: 348 NEKYKTTETVMKSADTALYRAKKKGRNCVS 377 + ++ +VM+ AD ALY +K+ GRN V+ Sbjct: 313 -KPGESGHSVMERADAALYASKRGGRNRVT 341 >AGc2387 [T] COG3706 Response regulator containing a CheY-like receiver domain and a GGDEF domain Length = 218 Score = 108 bits (270), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 0/185 (0%), Positives = 0/185 (0%), Gaps = 26/185 (14%) Query: 201 IQDSYSMAFSDELTGLPSRRALKQDMMKLGFNYA--------IAMLDIDFFKKFNDTYGH 252 Sbjct: 284 - 342 Query: 253 DTGDEVLRLVASNIKE-VTGGGRAFRYGGEEFTILFPGKTISDVLPHLEELRERISKQAF 311 Sbjct: 343 402 Query: 312 TIRAKGRSKTRSPKRSFSARTSKQIYITVSIGVSQKNEKYKTTETVMKSADTALYRAKKK 371 Sbjct: 403 ---------------- 446 Query: 372 GRNCV 376 Sbjct: 447 451 >aq_035_2 [T] COG2199 FOG: GGDEF domain Length = 251 Score = 105 bits (262), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 64/179 (35%), Positives = 96/179 (53%), Gaps = 26/179 (14%) Query: 207 MAFSDELTGLPSRRALKQ-------DMMKLGFNYAIAMLDIDFFKKFNDTYGHDTGDEVL 259 MA +D LTGL +RR + + G+N++I M+DID FKK NDTYGHD GD VL Sbjct: 83 MALTDPLTGLYNRRVFTEMAEKELAKAKRYGYNFSILMIDIDNFKKINDTYGHDVGDLVL 142 Query: 260 RLVASNIK-EVTGGGRAFRYGGEEFTILFPGKTISDVLPHLEELRERISKQAFTIRAKGR 318 + ++ +K V G R+GGEEF ++ ++ + E+LR I + + Sbjct: 143 KKISEILKRNVRGADLVARFGGEEFIVMLSNTNLNGAVKKAEQLRRMIEQTPIEL----- 197 Query: 319 SKTRSPKRSFSARTSKQIYITVSIGVSQKNEKYKTTETVMKSADTALYRAKKKGRNCVS 377 P +++ +TVSIGVS +++ E ++K AD ALY AK+KG+N V Sbjct: 198 -----P-------NGEKLRVTVSIGVST-YRGHESLEELIKEADQALYEAKRKGKNRVE 243 >DR1090 [T] COG2199 FOG: GGDEF domain Length = 356 Score = 103 bits (256), Expect = 7e-22, Method: Compositional matrix adjust. Identities = 65/183 (35%), Positives = 93/183 (50%), Gaps = 26/183 (14%) Query: 197 IISIIQDSYSMAFSDELTGLPSRRALKQDMMKLGFNYAIAMLDIDFFKKFNDTYGHDTGD 256 ++S+I A D L+ LP+RR D +++ + ++DID FKK NDTYGH GD Sbjct: 186 LLSLIATYEQQAHQDALSDLPNRRQFDLDFVRMDVGDLLCLVDIDHFKKINDTYGHAAGD 245 Query: 257 EVLRLVASNIK-EVTGGGRAFRYGGEEFTILF--PGKTISDVLPHLEELRERISKQAFTI 313 EVL + +K + +A+RYGGEEF ++F PG ++L E LR+ + +FT Sbjct: 246 EVLTQLGGVLKGRLRSHDQAYRYGGEEFAVIFRSPGNAAPELLA--ERLRQAVEHTSFTA 303 Query: 314 RAKGRSKTRSPKRSFSARTSKQIYITVSIGVSQKNEKYKTTETVMKSADTALYRAKKKGR 373 A P +TVSIGV+++ +T AD ALY AK GR Sbjct: 304 LAG------HP-------------LTVSIGVTRRGA--APLDTCFLEADQALYAAKTAGR 342 Query: 374 NCV 376 N V Sbjct: 343 NQV 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 0.139 0.401 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: 25,185,825 Number of extensions: 1038647 Number of successful extensions: 2966 Number of sequences better than 1.0e-05: 130 Number of HSP's gapped: 2756 Number of HSP's successfully gapped: 130 Length of query: 378 Length of database: 38,378,431 Length adjustment: 108 Effective length of query: 270 Effective length of database: 25,922,359 Effective search space: 6999036930 Effective search space used: 6999036930 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 117 (49.7 bits)