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= 0038.0062.p (176 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310443|ref|YP_003774535.1| LysR family transcription regul... 137 6e-34 gi|300309845|ref|YP_003773937.1| LysR family transcription regul... 133 6e-33 gi|300310906|ref|YP_003774998.1| LysR family transcription regul... 76 2e-15 gi|300313122|ref|YP_003777214.1| transcription regulator protein... 65 3e-12 gi|300312645|ref|YP_003776737.1| LysR family transcription regul... 59 2e-10 >gi|300310443|ref|YP_003774535.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 295 Score = 137 bits (344), Expect = 6e-34, Method: Compositional matrix adjust. Identities = 69/155 (44%), Positives = 94/155 (60%) Query: 19 GEIDLDIRYGAARWADLHVETISTEEVMPMISPALAQRLNLHNPHDLLQQSLIFSEVNLV 78 GE+D+DIRYG W L VE + E ++P+ SPA + L P DLL LI S V++V Sbjct: 137 GEVDIDIRYGIPNWPGLVVEPLFEERIVPLASPAFIREYRLRKPADLLGVKLIRSNVSVV 196 Query: 79 QWPQWFAAHGIQVSPSQYALSFDRAYLAIEAAIQGLGIALDSTWLAATALKEGRLVPVFP 138 QW WF +P Q+A+ FDRA ++++AA QGLG+AL+S +AA L+E +L P+F Sbjct: 197 QWADWFGEFADVRAPEQFAVRFDRAQMSLDAATQGLGVALESATVAARHLEEKKLKPIFG 256 Query: 139 DRKGIRVHAHHLVYPATHGKWAKVERFKRWLSAQA 173 + I+V AH VYPA H + V F WL QA Sbjct: 257 LERAIKVKAHFAVYPAHHARRPAVAAFLEWLREQA 291 >gi|300309845|ref|YP_003773937.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 294 Score = 133 bits (335), Expect = 6e-33, Method: Compositional matrix adjust. Identities = 65/155 (41%), Positives = 92/155 (59%) Query: 19 GEIDLDIRYGAARWADLHVETISTEEVMPMISPALAQRLNLHNPHDLLQQSLIFSEVNLV 78 G++DLDIR G W DL +E + +E V+PM SP R + P DL+ LI S +L+ Sbjct: 135 GQVDLDIRCGVPHWPDLEIEAVLSERVIPMASPDFLARHRIDTPDDLVLAPLIQSRGSLL 194 Query: 79 QWPQWFAAHGIQVSPSQYALSFDRAYLAIEAAIQGLGIALDSTWLAATALKEGRLVPVFP 138 QWP+WFA + + P + AL FDRA ++IEAA+QGLG+ +S A AL GRL PVF Sbjct: 195 QWPEWFARYAPDLRPERIALRFDRAMMSIEAAVQGLGVVFESDAFGAVALASGRLQPVFA 254 Query: 139 DRKGIRVHAHHLVYPATHGKWAKVERFKRWLSAQA 173 D + + H+ V PA + +V F +WL ++ Sbjct: 255 DGLALEITQHYAVCPARNKSRPEVMLFLQWLREES 289 >gi|300310906|ref|YP_003774998.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 75.9 bits (185), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 48/151 (31%), Positives = 78/151 (51%), Gaps = 4/151 (2%) Query: 21 IDLDIRYGAARWAD-LHVETISTEEVMPMISPALAQRLNLHNPHDLLQQSLIFSEVNLVQ 79 D+ +R G W + L V+ +E++ + SPAL Q + L + L + +++ S Sbjct: 141 FDIAVRRGETNWPETLKVQRFMEDELVLVASPALLQAMPLEDVSGLARHTVLLSRSRRND 200 Query: 80 WPQWFAAHGIQVSPSQYALSFDRAYLAIEAAIQGLGIALDSTWLAATALKEGRLVPVFPD 139 W W G++ S SQ L FD + ++A + GLG+AL LA L+ GRLV FPD Sbjct: 201 WEDWRKLAGLKRSRSQAMLHFDHVHFVLQAVVDGLGVALSPVSLADNDLRSGRLVCPFPD 260 Query: 140 RKGIRVHAHHLVYPATHGKWAKVERFKRWLS 170 + + + ++L A G A++ F RWL+ Sbjct: 261 LR-LTLAPYYLGINAQAGSEAQL--FARWLA 288 >gi|300313122|ref|YP_003777214.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 296 Score = 65.5 bits (158), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 51/167 (30%), Positives = 79/167 (47%), Gaps = 6/167 (3%) Query: 6 EIDLDIRYGAXSQGEIDLDIRYGAARWADLHVETISTEEVMPMISPALAQRLN-LHNPHD 64 E+ L + S E D++IR+GA + ++ E + E + SPA + L + +P D Sbjct: 126 ELYLSVPLYDLSLSESDVEIRFGAGNYPNIITEKLFEEPAFAVASPAYLKTLPPMKSPAD 185 Query: 65 LLQQSLIFSEVNLVQWPQWFAAHGIQ--VSPSQYALSFDRAYLAIEAAIQGLGIALDSTW 122 L Q +L+ S L W WF A G++ V PS L D L +EA G G+ L Sbjct: 186 LKQATLLRS--ALEPWQPWFEAAGLKDWVEPSA-GLRVDDLGLLLEAVRHGYGVGLTRQH 242 Query: 123 LAATALKEGRLVPVFPDRKGIRVHAHHLVYPATHGKWAKVERFKRWL 169 A L G +V +F R HA+++VY + +V+ F W+ Sbjct: 243 FAEELLARGEIVELFDIRLRTPPHAYYVVYERAVRERPEVDTFISWM 289 >gi|300312645|ref|YP_003776737.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 287 Score = 59.3 bits (142), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 49/153 (32%), Positives = 76/153 (49%), Gaps = 6/153 (3%) Query: 21 IDLDIRYGAARWADLHVETISTEEVMPMISPALAQRLNLHNPHDLLQQSLIFSEVNLVQW 80 +D IR+G W E + + PM +PA+A R L +P DL ++L+ S + +W Sbjct: 138 LDYAIRFGDGAWHGTQAERLFEAPLAPMCAPAIAAR--LRSPADLGAETLLRSYRS-DEW 194 Query: 81 PQWFAAHGIQVSPSQYALSFDRAYLAIEAAIQGLGIALDSTWLAATALKEGRLVPVFPDR 140 +WFAA G P + FD + EAA Q G+AL + L++GRLV F R Sbjct: 195 GRWFAAAGAACPPLR-GFVFDSSLALAEAAAQEAGVALLPVLMFERELQQGRLVCPFGQR 253 Query: 141 KGIRVHAHHLVYPATHGKWAKVERFKRWLSAQA 173 I + A+ L + + A + F++WL + A Sbjct: 254 --IVLGAYWLTSLKSRPQTAAMAAFRQWLQSHA 284 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 0.322 0.135 0.422 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: 588,597 Number of extensions: 22982 Number of successful extensions: 103 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 103 Number of HSP's successfully gapped: 6 Length of query: 176 Length of database: 1,619,870 Length adjustment: 79 Effective length of query: 97 Effective length of database: 1,245,805 Effective search space: 120843085 Effective search space used: 120843085 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: 127 (53.5 bits)