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= 0010.0093.p (211 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312244|ref|YP_003776336.1| LysR family transcription regul... 372 e-104 gi|300312196|ref|YP_003776288.1| LysR family transcription regul... 119 2e-28 gi|300313017|ref|YP_003777109.1| LysR family transcription regul... 102 2e-23 gi|300309921|ref|YP_003774013.1| LysR family transcription regul... 100 8e-23 gi|300311929|ref|YP_003776021.1| LysR family transcription regul... 99 2e-22 >gi|300312244|ref|YP_003776336.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 293 Score = 372 bits (954), Expect = e-104, Method: Compositional matrix adjust. Identities = 180/211 (85%), Positives = 192/211 (90%), Gaps = 3/211 (1%) Query: 1 MRTRKPVGKLRVDAAVPFMLHCVVPHVGAFRAAYPEIELELTTNDRFIDLVEQRADIAIR 60 +RTRKPVGKLRVDA+ PFMLHCVVPHVG FRAAYP+IELELTTNDRFIDLVE RADIAIR Sbjct: 86 LRTRKPVGKLRVDASAPFMLHCVVPHVGQFRAAYPDIELELTTNDRFIDLVEHRADIAIR 145 Query: 61 IGELQDSTLHARPLSSARLNIVASPDYLALSCRXCAPESVEALEQHQLIGFSQPDSLNHW 120 IGELQDS+LHAR LSSARLN+VASP YLA R PESVEALEQHQLIGFSQPD LNHW Sbjct: 146 IGELQDSSLHARALSSARLNVVASPAYLA---RHGEPESVEALEQHQLIGFSQPDQLNHW 202 Query: 121 PLRHTAGDRYQVRPAIRASSGETIRHLALQGQGIACLSDFMTAADLAASRLVRLLDHYDS 180 PLRH+AGDRYQ RPAIRASSGETIRHLALQGQGIACLS+FM+ AD+AA RLVRLL DS Sbjct: 203 PLRHSAGDRYQTRPAIRASSGETIRHLALQGQGIACLSNFMSDADIAAGRLVRLLPQADS 262 Query: 181 GFRQKISAVYYHNTQLSRRISCFLDFLQCKL 211 G+RQKISAVYY++TQLSRRISCFLDFLQ KL Sbjct: 263 GYRQKISAVYYYSTQLSRRISCFLDFLQEKL 293 >gi|300312196|ref|YP_003776288.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 308 Score = 119 bits (298), Expect = 2e-28, Method: Compositional matrix adjust. Identities = 71/202 (35%), Positives = 107/202 (52%), Gaps = 5/202 (2%) Query: 8 GKLRVDAAVPFMLHCVVPHVGAFRAAYPEIELELTTNDRFIDLVEQRADIAIRIGELQDS 67 G+LR+ A F + + P G F +P I L +T +DR IDL+E+ D+AIRI L DS Sbjct: 92 GRLRIGAPQDFGVEQLAPLWGKFTEQHPLITLNITLSDRTIDLLEEGFDMAIRISALGDS 151 Query: 68 TLHARPLSSARLNIVASPDYLALSCRXCAPESVEALEQHQLIGFSQPDSLNHWPLRHTAG 127 + ARPL+ R+ A+P++LA R P + L + I +S + W RH G Sbjct: 152 RMVARPLAPVRMIACAAPEFLA---RHGTPGTPAELRDYPFISYSYRAGGDDWSFRHVHG 208 Query: 128 DRYQ--VRPAIRASSGETIRHLALQGQGIACLSDFMTAADLAASRLVRLLDHYDSGFRQK 185 D Q VR + ++G T R +A+ GQGIA DF+ A + A +LV L + + +G + Sbjct: 209 DTCQVRVRSTVYVNNGATCRAMAIAGQGIAIQPDFIVNAAIQAGQLVELFEGWSTGEQLV 268 Query: 186 ISAVYYHNTQLSRRISCFLDFL 207 + +Y T L ++ DFL Sbjct: 269 VHTLYPTRTHLPPKVQRMRDFL 290 >gi|300313017|ref|YP_003777109.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 305 Score = 102 bits (254), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 63/205 (30%), Positives = 109/205 (53%), Gaps = 7/205 (3%) Query: 6 PVGKLRVDAAVPFMLHCVVPHVGAFRAAYPEIELELTTNDRFIDLVEQRADIAIRIGELQ 65 P G LR+ +++ F + + P + F YPE+ LE+ +R++DL++ D+AIR E + Sbjct: 90 PSGTLRITSSLSFCMKHISPLLPRFHQRYPEVRLEVIAANRYMDLLDSDIDLAIRTREFE 149 Query: 66 -DSTLHARPLSSARLNIVASPDYLALSCRXCAPESVEALEQHQLIGFSQPDSLN--HWPL 122 D+ + R L++ R + A+P YLA P +++ L QH L+ +S N H Sbjct: 150 PDANIAVRRLATTRRILAAAPGYLAAR---GTPRTLDDLAQHDLLVYSHAKEPNRLHLSG 206 Query: 123 RHTAGDRYQVRPAIRASSGETIRHLALQGQGIACLSDFMTAADLAASRLVRLLDHYDSGF 182 R + +++ ++++ G+ IR AL+G GI +++ D+ A RLV +LD +D Sbjct: 207 RDGSQRTLEIKSLMQSNDGQIIRAAALEGLGILIQPNYIIYDDIVAGRLVPVLDEWDLP- 265 Query: 183 RQKISAVYYHNTQLSRRISCFLDFL 207 R I+ Y L R+ F+DFL Sbjct: 266 RLSINIAYQGRKHLPARVRVFIDFL 290 >gi|300309921|ref|YP_003774013.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 100 bits (249), Expect = 8e-23, Method: Compositional matrix adjust. Identities = 69/204 (33%), Positives = 101/204 (49%), Gaps = 5/204 (2%) Query: 5 KPVGKLRVDAAVPFMLHCVVPHVGAFRAAYPEIELELTTNDRFIDLVEQRADIAIRIGEL 64 KP G LR++A + F + + P F +PEI L++T +DR +D++++ D+AIRI L Sbjct: 89 KPTGLLRINAPLTFGVLHLAPLWPMFLERHPEISLDITLSDRIVDIIDEGYDMAIRIARL 148 Query: 65 QDSTLHARPLSSARLNIVASPDYLALSCRXCAPESVEALEQHQLIGFSQPDSLNHWPLRH 124 DSTL R L+S L++ ASP YL P L QHQ I +S S + W Sbjct: 149 SDSTLVHRKLTSTSLHVCASPAYLDAHGTPAHPHE---LAQHQTISYSYNQSKDEWQFNG 205 Query: 125 TAGD-RYQVRPAIRASSGETIRHLALQGQGIACLSDFMTAADLAASRLVRLLDHYDSGFR 183 G +V + ++G++ AL G GI FM L + +LV +L Y + Sbjct: 206 PEGPVSVRVSSRLHVNNGDSCVQAALGGIGITRQPTFMIDQYLRSGQLVSILGDYGAP-E 264 Query: 184 QKISAVYYHNTQLSRRISCFLDFL 207 I AVY L ++ LDFL Sbjct: 265 LGIYAVYPSRAHLPAKMRAMLDFL 288 >gi|300311929|ref|YP_003776021.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 304 Score = 99.4 bits (246), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 69/209 (33%), Positives = 106/209 (50%), Gaps = 11/209 (5%) Query: 6 PVGKLRVDAAVPFMLHCVVPHVGAFRAAYPEIELELTTNDRFIDLVEQRADIAIRIGELQ 65 P G LR+ P+ + ++P + F+ AYP+IE+EL+ +R +D VE+ D+AIR+G Sbjct: 95 PSGLLRISVGTPYAHYRLLPLLPRFQQAYPQIEVELSIANRVVDFVEEGYDLAIRLGVPP 154 Query: 66 DSTLHARPLSSARLNIVASPDYLALSCRXCAPESVEALEQHQLIGFSQPDSLNH--WPLR 123 DS L A L A L + A+P YLA R P S+ LEQH I F P S W + Sbjct: 155 DSRLIAHTLEEATLGLFAAPAYLA---RRGQPRSIAELEQHDCIQFILPSSGRAMPWIFK 211 Query: 124 HTAGDRYQVRPAIRASSGETIR---HLALQGQGIACLSDFMTAADLAASRLVRLLDHYDS 180 G R + + + A+ G G+ + F+ A + LV +L + Sbjct: 212 DAQGRDMDFHFKSRQRIHDDVLGCVNWAIAGGGLFQIYHFIADAAVRRGELVEVLQQ--A 269 Query: 181 GFR-QKISAVYYHNTQLSRRISCFLDFLQ 208 G+R ++ S +Y HN LS R+ F++FL+ Sbjct: 270 GYRTRRFSILYPHNRHLSARVRAFVEFLR 298 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 0.137 0.411 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: 637,071 Number of extensions: 25173 Number of successful extensions: 194 Number of sequences better than 1.0e-08: 26 Number of HSP's gapped: 171 Number of HSP's successfully gapped: 26 Length of query: 211 Length of database: 1,619,870 Length adjustment: 81 Effective length of query: 130 Effective length of database: 1,236,335 Effective search space: 160723550 Effective search space used: 160723550 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: 128 (53.9 bits)