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= 0020.0007.p (285 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313028|ref|YP_003777120.1| two component response regulato... 306 1e-84 gi|300310565|ref|YP_003774657.1| response regulator containing a... 71 1e-13 gi|300310307|ref|YP_003774399.1| HD-GYP domain metal-dependent p... 67 1e-12 gi|300313282|ref|YP_003777374.1| HD-GYP domain-containing protei... 65 6e-12 gi|300310279|ref|YP_003774371.1| HD-GYP domain-containing protei... 64 2e-11 >gi|300313028|ref|YP_003777120.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 448 Score = 306 bits (784), Expect = 1e-84, Method: Compositional matrix adjust. Identities = 154/277 (55%), Positives = 204/277 (73%), Gaps = 5/277 (1%) Query: 1 VMRILLTGYSEITATISAINDGGIYHYLQKPWDEQDLLLTIQRALEQQHLKKEAARLNDL 60 MRILLTGYSEI +TISAINDGGI HYL KPWD+++LLL + ALE+Q L+K+ L Sbjct: 95 TMRILLTGYSEIGSTISAINDGGINHYLSKPWDDRELLLIVAHALEEQQLRKQKMALERK 154 Query: 61 VRKQNEELQTFNARLEKQVQSRTEEIRQTVMFLESSQAEIKLNFLTMLKVFSNMIELRSG 120 VR+QN +L FN +LE+QVQSRTEE+RQTVMFLES+Q E + +FL+ML+VFS++ ELR+G Sbjct: 155 VREQNLQLADFNRQLERQVQSRTEELRQTVMFLESAQEEEQKSFLSMLRVFSDISELRAG 214 Query: 121 MLGGQSDRVSGLSRKLGKKFKMHDVQLQDLAIAGLLHAIGKIGLPDELIRKPLEKMSGEE 180 + GQS RV+ +L + M +D +AG+LH IGK+ LPDEL+RKP+EKM+ +E Sbjct: 215 LATGQSARVARWCEQLALRMGMTTHHARDTMMAGMLHGIGKLELPDELVRKPIEKMNSDE 274 Query: 181 SRTFMAHPVKGHMVLTPVSAFDEVGRLILYQYERYDGRGTPEGMSGEAIPLGSRILAVAR 240 + F+ HPV+G M+LTP+ + E G +I +Q+ERYDGRG PE +SG+AIPLG+RILAV R Sbjct: 275 VQRFLWHPVRGQMLLTPIPSLAESGEIIRHQHERYDGRGVPESLSGDAIPLGARILAVVR 334 Query: 241 DFEALRSGAIASGXIFASGERVLS---RHGANRVERL 274 DFE L +G I S + AS E+ LS H +R + L Sbjct: 335 DFEGLCNGGITS--LNASPEKALSMLRAHAGHRYDPL 369 >gi|300310565|ref|YP_003774657.1| response regulator containing a CheY-like receiver domain and an HD-GYP domain [Herbaspirillum seropedicae SmR1] Length = 348 Score = 70.9 bits (172), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 41/123 (33%), Positives = 66/123 (53%), Gaps = 3/123 (2%) Query: 128 RVSGLSRKLGKKFKMHDVQLQDLAIAGLLHAIGKIGLPDELIRKPLEKMSGEESRTFMAH 187 R++ +R + + + Q + L A +H IGK+G+PD ++ KP ++ EE + H Sbjct: 177 RMANYARIIAARMGLDSQQQELLLNAAPMHDIGKMGIPDHILLKP-GRLDEEELKVMRMH 235 Query: 188 PVKGH--MVLTPVSAFDEVGRLILYQYERYDGRGTPEGMSGEAIPLGSRILAVARDFEAL 245 G +V +P ++ L +E++DG G P G+ GE IPL RI+AVA F+AL Sbjct: 236 ARIGADILVASPSPLLQTASQIALTHHEKWDGSGYPNGLKGEQIPLYGRIVAVADVFDAL 295 Query: 246 RSG 248 S Sbjct: 296 TSS 298 >gi|300310307|ref|YP_003774399.1| HD-GYP domain metal-dependent phosphohydrolase [Herbaspirillum seropedicae SmR1] Length = 406 Score = 67.4 bits (163), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 40/120 (33%), Positives = 62/120 (51%), Gaps = 2/120 (1%) Query: 129 VSGLSRKLGKKFKMHDVQLQDLAIAGLLHAIGKIGLPDELIRKPLEKMSGEESRTFMAHP 188 V L LG+ + + ++ + G LH +GK +P EL+ KP K+S EE HP Sbjct: 166 VCALMVALGRTLGLDETACREAGLGGFLHDVGKAFIPHELLNKP-GKLSDEEFSQIKKHP 224 Query: 189 VKGHMVLTPVSAFDEVGR-LILYQYERYDGRGTPEGMSGEAIPLGSRILAVARDFEALRS 247 G+ L+ + R + L+ +E+ DG G PEG+ AI L SR+ A+ ++AL S Sbjct: 225 ELGYKYLSQDPNVPDYARDVCLHHHEKIDGNGYPEGLRAGAITLYSRMAAICDVYDALTS 284 >gi|300313282|ref|YP_003777374.1| HD-GYP domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 410 Score = 65.1 bits (157), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 54/185 (29%), Positives = 86/185 (46%), Gaps = 18/185 (9%) Query: 69 QTFNA-RLEKQVQSRTEEIRQTVMFLESSQAEIKLNFLTMLKVFSNMIELRSGMLGGQSD 127 Q FNA R+ K V E+ Q V +E + + +L V ++L S Sbjct: 109 QMFNAARMGKMV-----ELPQCVALVEEIACSVLRDPNGLLSVLR--LKLNDEYTYLHSV 161 Query: 128 RVSGLSRKLGKKFKMHDVQLQDLAIAGLLHAIGKIGLPDELIRKPLEKMSGEESRTFMAH 187 V L LG+ + + ++ ++G LH +GK + DE++ KP K++ EE H Sbjct: 162 SVCALVIGLGRTLGLSEAACREAGLSGYLHDVGKAFIDDEILNKP-GKLTAEEFALIKRH 220 Query: 188 PVKGHMVLT-----PVSAFDEVGRLILYQYERYDGRGTPEGMSGEAIPLGSRILAVARDF 242 P G+ L P A D + + +ER DGRG P+ + E+I L +R+ AV + Sbjct: 221 PELGYQYLIQTPDMPAYASD----VCRHHHERLDGRGYPDALPAESITLYARMTAVCDVY 276 Query: 243 EALRS 247 +AL S Sbjct: 277 DALTS 281 >gi|300310279|ref|YP_003774371.1| HD-GYP domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 408 Score = 63.5 bits (153), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 38/120 (31%), Positives = 62/120 (51%), Gaps = 2/120 (1%) Query: 129 VSGLSRKLGKKFKMHDVQLQDLAIAGLLHAIGKIGLPDELIRKPLEKMSGEESRTFMAHP 188 V L L + M D+ ++ +AG LH +GK +P E++ KP +++S +E + HP Sbjct: 160 VCTLMVALARTLGMDDIACKEAGLAGYLHDVGKAFIPLEILNKP-DRLSEQEYKIIQRHP 218 Query: 189 VKGHMVLTPVSAF-DEVGRLILYQYERYDGRGTPEGMSGEAIPLGSRILAVARDFEALRS 247 G+ L S D V + L+ +E+ DG G P G I + SR+ AV ++A+ S Sbjct: 219 ALGYDYLKGFSGVPDYVLDVCLHHHEKIDGSGYPSRHQGNQISVYSRMAAVCDVYDAVTS 278 Database: BlastDatabases/689/689 Posted date: Apr 10, 2011 12:15 AM Number of letters in database: 1,619,870 Number of sequences in database: 4735 Lambda K H 0.319 0.136 0.379 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 4735 Number of Hits to DB: 846,248 Number of extensions: 35497 Number of successful extensions: 144 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 138 Number of HSP's successfully gapped: 8 Length of query: 285 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 201 Effective length of database: 1,222,130 Effective search space: 245648130 Effective search space used: 245648130 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 (21.8 bits) S2: 130 (54.7 bits)