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= 0239.0008.p (177 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313922|ref|YP_003778014.1| LysR family transcription regul... 183 7e-48 gi|300309660|ref|YP_003773752.1| LysR family transcription regul... 91 4e-20 gi|300311458|ref|YP_003775550.1| LysR family transcription regul... 90 9e-20 gi|300309921|ref|YP_003774013.1| LysR family transcription regul... 90 9e-20 gi|300312334|ref|YP_003776426.1| transcription regulator protein... 88 4e-19 >gi|300313922|ref|YP_003778014.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 308 Score = 183 bits (465), Expect = 7e-48, Method: Compositional matrix adjust. Identities = 92/138 (66%), Positives = 105/138 (76%), Gaps = 12/138 (8%) Query: 14 LVRAVTEYCKRYPDVAVDLVMLDRTVNLVEERIDLAIRMTTRLDSSLIARKLSVCRSTIC 73 L++AV EY +RYP VAVDL+ LDRTVNLVEERIDLAIRMT RL+ +LIAR L VCRS IC Sbjct: 107 LIQAVVEYGRRYPGVAVDLLALDRTVNLVEERIDLAIRMTNRLEPNLIARPLGVCRSIIC 166 Query: 74 ASPAYLREHGTPKKVEDLALHNCLTHSYVGKSLWEFDYKGTRS------------SVAVG 121 A+P YL HG P+KVEDLALHNCLTHSYVG+SLW+FD K ++ SVAVG Sbjct: 167 ATPDYLARHGLPRKVEDLALHNCLTHSYVGRSLWQFDPKKKKARSGRGASAAKPQSVAVG 226 Query: 122 GNISANEAMVLLAAALAA 139 G+ISANE VLL A LA Sbjct: 227 GSISANEVTVLLQAVLAG 244 >gi|300309660|ref|YP_003773752.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 337 Score = 91.3 bits (225), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 44/124 (35%), Positives = 73/124 (58%), Gaps = 3/124 (2%) Query: 20 EYCKRYPDVAVDLVMLDRTVNLVEERIDLAIRMTTRLDSSLIARKLSVCRSTICASPAYL 79 ++ RYPD+ + + M DR V+LV+E +D IR+ DSS++AR++ ++ CA+PAYL Sbjct: 113 DFYTRYPDIELMMGMGDRPVDLVQEAVDCVIRIGELQDSSMVARRIGTFQTVTCAAPAYL 172 Query: 80 REHGTPKKVEDLALHNCLTH--SYVGKSL-WEFDYKGTRSSVAVGGNISANEAMVLLAAA 136 HG P +EDL H + + S G+++ W+F +G V + G ++ NEA + A Sbjct: 173 ERHGVPHTIEDLQQHKAVHYFSSRTGRTIDWDFVVEGVTREVKMNGKLAVNEADAYVECA 232 Query: 137 LAAW 140 L + Sbjct: 233 LQGF 236 >gi|300311458|ref|YP_003775550.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 303 Score = 90.1 bits (222), Expect = 9e-20, Method: Compositional matrix adjust. Identities = 47/132 (35%), Positives = 78/132 (59%), Gaps = 5/132 (3%) Query: 18 VTEYCKRYPDVAVDLVMLDRTVNLVEERIDLAIRMT-TRLDSSLIARKLSVCRSTICASP 76 ++ Y + YP+VA+D+ + +R+++LVEE ID+ + + D+S+I R+L V R +C SP Sbjct: 111 LSAYSQAYPEVALDISLSERSIDLVEEGIDIGFFSSMQKFDASMIVRQLGVARVILCTSP 170 Query: 77 AYLREHGTPKKVEDLALHNCL--THSYVGKSLWEFDYKGTRSSVAVGGNISANEAMVLLA 134 AY+ G P++ EDL+ HNCL +H Y+ + W + G V + + +N ++L Sbjct: 171 AYIARQGAPEQPEDLSRHNCLNFSHEYL-RHHWHVNTNGGVLDVPIVSKVVSNSGVLLRD 229 Query: 135 AALAAWRIC-RP 145 ALA I RP Sbjct: 230 LALAGMGIVLRP 241 >gi|300309921|ref|YP_003774013.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 90.1 bits (222), Expect = 9e-20, Method: Compositional matrix adjust. Identities = 45/125 (36%), Positives = 72/125 (57%), Gaps = 1/125 (0%) Query: 21 YCKRYPDVAVDLVMLDRTVNLVEERIDLAIRMTTRLDSSLIARKLSVCRSTICASPAYLR 80 + +R+P++++D+ + DR V++++E D+AIR+ DS+L+ RKL+ +CASPAYL Sbjct: 114 FLERHPEISLDITLSDRIVDIIDEGYDMAIRIARLSDSTLVHRKLTSTSLHVCASPAYLD 173 Query: 81 EHGTPKKVEDLALHNCLTHSY-VGKSLWEFDYKGTRSSVAVGGNISANEAMVLLAAALAA 139 HGTP +LA H +++SY K W+F+ SV V + N + AAL Sbjct: 174 AHGTPAHPHELAQHQTISYSYNQSKDEWQFNGPEGPVSVRVSSRLHVNNGDSCVQAALGG 233 Query: 140 WRICR 144 I R Sbjct: 234 IGITR 238 >gi|300312334|ref|YP_003776426.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 302 Score = 87.8 bits (216), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 51/126 (40%), Positives = 70/126 (55%), Gaps = 5/126 (3%) Query: 21 YCKRYPDVAVDLVMLDRTVNLVEERIDLAIRMTTRLDSSLIARKLSVCRSTICASPAYLR 80 + + DV + L + DR +++ E ID+AIR+ T DS+L++ KL+ I A+PAYLR Sbjct: 114 FLAEHRDVTLTLNLNDRIADVIGEGIDVAIRIATLTDSNLVSVKLAENHRVIVAAPAYLR 173 Query: 81 EHGTPKKVEDLALHNCLTHSYVGKSL-WEFDYKGTRSSVAVGGNISANEAMVLLAAALA- 138 HGTP+ ++L HNCL S G W G S VGGN+ N+ VL ALA Sbjct: 174 RHGTPQSPDELMRHNCLAMSSEGSQRGWTLRQSGKVSVYKVGGNMVCNDGEVLHNWALAG 233 Query: 139 ---AWR 141 AWR Sbjct: 234 RGLAWR 239 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 0.325 0.136 0.413 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: 393,951 Number of extensions: 13073 Number of successful extensions: 112 Number of sequences better than 1.0e-08: 21 Number of HSP's gapped: 106 Number of HSP's successfully gapped: 21 Length of query: 177 Length of database: 1,619,870 Length adjustment: 79 Effective length of query: 98 Effective length of database: 1,245,805 Effective search space: 122088890 Effective search space used: 122088890 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 (21.7 bits) S2: 127 (53.5 bits)