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= 0088.0018.p (368 letters) Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF 2,715,099 sequences; 757,237,578 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value ref|NP_954416.1| GGDEF/response regulator receiver domain protei... 129 8e-29 ref|ZP_00081495.1| COG3706: Response regulator containing a CheY... 126 7e-28 ref|NP_213011.1| hypothetical protein [Aquifex aeolicus] >gi|751... 125 2e-27 ref|ZP_00151880.1| hypothetical protein Daro003401 [Dechloromona... 123 7e-27 ref|ZP_00082359.1| COG2199: FOG: GGDEF domain [Geobacter metalli... 122 2e-26 >ref|NP_954416.1| GGDEF/response regulator receiver domain protein [Geobacter sulfurreducens PCA] gb|AAR36766.1| GGDEF/response regulator receiver domain protein [Geobacter sulfurreducens PCA] Length = 308 Score = 129 bits (325), Expect = 8e-29, Method: Compositional matrix adjust. Identities = 80/202 (39%), Positives = 115/202 (56%), Gaps = 19/202 (9%) Query: 177 ELVSDLEASLMAK--QDLLIE-NAVMRKLSTTDALTDLYNHISFHEFYDKALEYGD-QGA 232 ELV+ + + K QD L N ++RKLS TD LT L+N E DK + +G Sbjct: 113 ELVARVRVQMKVKGLQDELKRSNELLRKLSITDPLTHLHNRRHLMEMVDKEFQRASRKGG 172 Query: 233 PFHLALIDIDNFKLINDKYGHRAGDIILARVAKVIRDLISSADIAARYGGEEFAILFFEK 292 L ++DID FK IND YGH+ GD +L +A ++R + S D+AARYGGEEF +L E Sbjct: 173 ALSLVILDIDYFKKINDTYGHQEGDKVLVALADIVRLRLRSYDVAARYGGEEFVLLLPET 232 Query: 293 TFEEAEAIADKIRLRLS-----GTPHEEMDGAAVTVSIGLKSYS----QGTTKEQLFEEV 343 +EA+AIA+++RL + G+ H G +T+S+G+ +Y +GT + LF + Sbjct: 233 PLQEAQAIAERLRLEVQDHVFDGSLH----GQVITISLGVATYPSPRIEGT--DSLFRQA 286 Query: 344 DALLYAAKHEGKNKVRTPYSST 365 D LY AK G+N+V ST Sbjct: 287 DEALYRAKQNGRNRVELMSGST 308 >ref|ZP_00081495.1| COG3706: Response regulator containing a CheY-like receiver domain and a GGDEF domain [Geobacter metallireducens] Length = 331 Score = 126 bits (317), Expect = 7e-28, Method: Compositional matrix adjust. Identities = 77/189 (40%), Positives = 112/189 (59%), Gaps = 7/189 (3%) Query: 177 ELVSDLEASLMAK--QDLLIE-NAVMRKLSTTDALTDLYNHISFHEFYDKALEYGD-QGA 232 ELV+ + L K QD L N ++R LS TD LT L+N E DK + +GA Sbjct: 130 ELVARVRVQLKMKGLQDELKRSNEMLRTLSITDPLTHLHNRRHLMEMVDKEFQRSSRKGA 189 Query: 233 PFHLALIDIDNFKLINDKYGHRAGDIILARVAKVIRDLISSADIAARYGGEEFAILFFEK 292 P L ++DID FK IND YGH+ GD +L +A ++R + S D+AARYGGEEF +L E Sbjct: 190 PLSLVILDIDYFKKINDTYGHQEGDRVLTILADIVRRRLRSYDLAARYGGEEFVLLLPET 249 Query: 293 TFEEAEAIADKIRLRLSGTPHE-EMDGAAVTVSIGLKSY--SQGTTKEQLFEEVDALLYA 349 +EA +IA+++RL + E + G +T+S+G+ +Y S+ + + LF + D LY Sbjct: 250 PVQEALSIAERLRLEVQEHVFEGSLGGLVITISLGVATYPSSRVESIDSLFRQADEALYR 309 Query: 350 AKHEGKNKV 358 AK G+N+V Sbjct: 310 AKQGGRNRV 318 >ref|NP_213011.1| hypothetical protein [Aquifex aeolicus] pir||H70302 conserved hypothetical protein aq_035 - Aquifex aeolicus gb|AAC06416.1| hypothetical protein [Aquifex aeolicus VF5] Length = 431 Score = 125 bits (314), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 65/167 (38%), Positives = 99/167 (59%), Gaps = 3/167 (1%) Query: 195 ENAVMRKLSTTDALTDLYNHISFHEFYDKALEYGDQ-GAPFHLALIDIDNFKLINDKYGH 253 E + +++ TD LT LYN F E +K L + G F + +IDIDNFK IND YGH Sbjct: 256 EKTLYERMALTDPLTGLYNRRVFTEMAEKELAKAKRYGYNFSILMIDIDNFKKINDTYGH 315 Query: 254 RAGDIILARVAKVIRDLISSADIAARYGGEEFAILFFEKTFEEAEAIADKIRLRLSGTPH 313 GD++L +++++++ + AD+ AR+GGEEF ++ A A+++R + TP Sbjct: 316 DVGDLVLKKISEILKRNVRGADLVARFGGEEFIVMLSNTNLNGAVKKAEQLRRMIEQTPI 375 Query: 314 EEMDGAA--VTVSIGLKSYSQGTTKEQLFEEVDALLYAAKHEGKNKV 358 E +G VTVSIG+ +Y + E+L +E D LY AK +GKN+V Sbjct: 376 ELPNGEKLRVTVSIGVSTYRGHESLEELIKEADQALYEAKRKGKNRV 422 >ref|ZP_00151880.1| hypothetical protein Daro003401 [Dechloromonas aromatica RCB] Length = 449 Score = 123 bits (308), Expect = 7e-27, Method: Compositional matrix adjust. Identities = 78/226 (34%), Positives = 110/226 (48%), Gaps = 12/226 (5%) Query: 139 YRWDYWFKYFFSSFDLI---AIPIFLVVGTLVASIMIINGRELVSDLEASLMAKQDLLIE 195 Y + +F +F S + A P+ G ++ +I E + D+ A++ L Sbjct: 223 YEAEDFFPHFGESGRWLFFTAAPLRNGAGQVIGAI------ETLQDVTERRRAEEALRES 276 Query: 196 NAVMRKLSTTDALTDLYNHISFHEFYDKALEY-GDQGAPFHLALIDIDNFKLINDKYGHR 254 R LS TD+LT L+N HE LE G G P L ++D DNFK +ND+YGH Sbjct: 277 EERYRSLSQTDSLTGLFNSRHLHEQLPNELERAGRYGRPLSLLVLDCDNFKCVNDRYGHL 336 Query: 255 AGDIILARVAKVIRDLISSADIAARYGGEEFAILFFEKTFEEAEAIADKIRLRLSG--TP 312 GD +L +A I + +D A RYGGEEF +L E + A AIA+++R + + TP Sbjct: 337 GGDKVLQSLATAIGHCLRRSDFAFRYGGEEFVVLLPETAIQAALAIAERLRSQFASIETP 396 Query: 313 HEEMDGAAVTVSIGLKSYSQGTTKEQLFEEVDALLYAAKHEGKNKV 358 D TVSIG+ G ++ L D Y AK GKN V Sbjct: 397 APSGDAICCTVSIGVAECVPGESEASLVRRADEACYMAKARGKNCV 442 >ref|ZP_00082359.1| COG2199: FOG: GGDEF domain [Geobacter metallireducens] Length = 353 Score = 122 bits (305), Expect = 2e-26, Method: Compositional matrix adjust. Identities = 70/174 (40%), Positives = 100/174 (57%), Gaps = 9/174 (5%) Query: 194 IENAVM----RKLSTTDALTDLYNHISFHEFYDKALEYGDQ-GAPFHLALIDIDNFKLIN 248 I+NA + R ++ TDALT LYN F + + + L + G P L ++D+D+FK N Sbjct: 171 IDNAQLHERTRLMAITDALTGLYNRRYFQQMFSRELNRAKRYGNPLSLIMMDVDDFKKFN 230 Query: 249 DKYGHRAGDIILARVAKVIRDLISSADIAARYGGEEFAILFFEKTFEEAEAIADKIRLRL 308 D YGH GD +L + ++ + + + D A RYGGEEF +L E F A +A+++R + Sbjct: 231 DTYGHPLGDKLLGSMGDILTEALRNTDFAFRYGGEEFIVLLPETDFSSALNVAERLRESV 290 Query: 309 SGTPHEEMDG---AAVTVSIGLKSYSQ-GTTKEQLFEEVDALLYAAKHEGKNKV 358 +EM G AVTVS+G+ SY Q G T + L VD LLY AK GKN+V Sbjct: 291 EQKSVDEMRGIALNAVTVSVGVVSYPQDGETSDDLLNGVDELLYRAKEYGKNRV 344 Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF Posted date: Mar 24, 2004 1:53 AM Number of letters in database: 757,237,578 Number of sequences in database: 2,715,099 Lambda K H 0.327 0.141 0.414 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 2715099 Number of Hits to DB: 504,590,495 Number of extensions: 19911475 Number of successful extensions: 75417 Number of sequences better than 1.0e-05: 2066 Number of HSP's gapped: 74101 Number of HSP's successfully gapped: 2066 Length of query: 368 Length of database: 757,237,578 Length adjustment: 127 Effective length of query: 241 Effective length of database: 412,420,005 Effective search space: 99393221205 Effective search space used: 99393221205 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: 126 (53.1 bits)