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= 0199.0011.p (253 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312111|ref|YP_003776203.1| LysR family transcription regul... 135 4e-33 gi|300312305|ref|YP_003776397.1| LysR family transcription regul... 117 7e-28 gi|300311542|ref|YP_003775634.1| LysR family transcription regul... 76 3e-15 gi|300313102|ref|YP_003777194.1| LysR family transcription regul... 71 7e-14 gi|300313085|ref|YP_003777177.1| LysR family transcription regul... 65 6e-12 >gi|300312111|ref|YP_003776203.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 321 Score = 135 bits (339), Expect = 4e-33, Method: Compositional matrix adjust. Identities = 78/245 (31%), Positives = 137/245 (55%), Gaps = 3/245 (1%) Query: 7 IVXRRSRGVEPTAAGLSIYQHAKSILGQLRQIDCDISEHRSGIKGNVRIWVNMTALCYYL 66 ++ R S+GV+ T AG ++ HA+ + Q+ + D+ ++ +GIKG +RI+ N TA+ ++ Sbjct: 49 LLYRESKGVQLTPAGHTLLHHAQQFMQQVEHLKSDMQQYNNGIKGYIRIFANTTAVTEFM 108 Query: 67 PAQLHAFMAEYPDVSIELVEKLSDAIPHAVKAGEADLGICAPTDSVAGVSEAIYVTDPLV 126 P L F+A +P V++ L E+L+ I ++ G AD+GI A G+ + TD LV Sbjct: 109 PEILGKFLARHPQVNVALEERLNHDILRGIQEGTADIGIVAGPVQGEGLQILNFSTDRLV 168 Query: 127 LIVPRDHKFASRKRIRFEDTLDEKHIMMQSGASIHT-MSQMAARALKRKIHLSVLVTSFD 185 L +H A + F TL+ +HI + G+++H +S++ A +R + L + V SF+ Sbjct: 169 LATALEHPLADAPSLPFIQTLEYEHIGLHEGSTLHHFLSKIVAENGQR-LKLRIQVRSFE 227 Query: 186 AIRNMVSEGLGIAVIPELALKGVDAT-RYSVVRLTDKWCLRKFKILWNDQLPQSPAAMRL 244 A+ M+ +GI ++P A + T + SVV L+D W +R+ ++ D SP A L Sbjct: 228 AMCRMIETNVGIGILPRSAAQRHQQTMQLSVVELSDPWSVRERSMVVQDIDTLSPHARNL 287 Query: 245 LRHLR 249 + +R Sbjct: 288 VEFIR 292 >gi|300312305|ref|YP_003776397.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 297 Score = 117 bits (294), Expect = 7e-28, Method: Compositional matrix adjust. Identities = 73/225 (32%), Positives = 119/225 (52%), Gaps = 3/225 (1%) Query: 7 IVXRRSRGVEPTAAGLSIYQHAKSILGQLRQIDCDISEHRSGIKGNVRIWVNMTALCYYL 66 ++ R RGV+ T AG ++ HA+ + Q+ Q+ ++ ++ G+KG++R+ N +A+ +L Sbjct: 51 LLERGRRGVQTTDAGRALAHHARMMAQQMEQLRDELGQYARGLKGHIRLLCNTSAMTEFL 110 Query: 67 PAQLHAFMAEYPDVSIELVEKLSDAIPHAVKAGEADLGICAPTDSVAGVSEAIYVTDPLV 126 P L F+A +P IEL EKLS + AV G AD+GI A + + + D LV Sbjct: 111 PEVLARFLARHPHTDIELEEKLSYEVVQAVIDGVADVGIIADSTDSGPLQTYPFRQDHLV 170 Query: 127 LIVPRDHKFASRKRIRFEDTLDEKHIMMQSGASIHT-MSQMAARALKRKIHLSVLVTSFD 185 ++ + H A RK + F + L E + + +++ +S A RA KR + V + SFD Sbjct: 171 AVLSKRHPLARRKSLAFAELLGEDFVGLSGDSALQQHLSGHATRAGKR-LQYRVRLRSFD 229 Query: 186 AIRNMVSEGLGIAVIPEL-ALKGVDATRYSVVRLTDKWCLRKFKI 229 I MV +G+AV+PE AL + L+D W R+ I Sbjct: 230 GICRMVEHQVGVAVLPETAALASTPHMDIRAIPLSDGWSRRQLLI 274 >gi|300311542|ref|YP_003775634.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 335 Score = 75.9 bits (185), Expect = 3e-15, Method: Compositional matrix adjust. Identities = 51/199 (25%), Positives = 91/199 (45%), Gaps = 1/199 (0%) Query: 7 IVXRRSRGVEPTAAGLSIYQHAKSILGQLRQIDCDISEHRSGIKGNVRIWVNMTALCYYL 66 + R +R V T G Q A+ ++ + D+S++ + KG V I + +L Sbjct: 51 LFERDTRNVTLTPEGELFVQVARQLVSDIEAAFSDMSDYVARRKGRVAIAALPSLAAGWL 110 Query: 67 PAQLHAFMAEYPDVSIELVEKLSDAIPHAVKAGEADLGICAPTDSVAGVSEAIYVTDPLV 126 P L + YP V++EL + +SD ++ G+ D+ + AP ++ +DP Sbjct: 111 PPVLADYRQRYPGVTVELFDAISDQCLDLLRHGKVDIALTAPGPNLLEFDTRPLCSDPFY 170 Query: 127 LIVPRDHKFASRKRIRFEDTLDEKHIMMQSGASIHTMSQMAARALKRKIHLSVLVTSFDA 186 L+ +DHK AS++RI+ + I + S+ R IH + V Sbjct: 171 LVCRKDHKLASKRRIKVPQLAGCEMIHLARSTSVRQHLDAVLRP-GGVIHTGLEVEHLAT 229 Query: 187 IRNMVSEGLGIAVIPELAL 205 + ++ GLG++V+PEL L Sbjct: 230 VAALIESGLGVSVVPELTL 248 >gi|300313102|ref|YP_003777194.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 71.2 bits (173), Expect = 7e-14, Method: Compositional matrix adjust. Identities = 49/195 (25%), Positives = 92/195 (47%), Gaps = 4/195 (2%) Query: 10 RRSRGVEPTAAGLSIYQHAKSILGQLRQIDCDISEHRSGIKGNVRIWVNMTALCYYLPAQ 69 R R ++ TAAG Y+ I L + ++S +G G +++ M+ LP+ Sbjct: 51 RSKRAIQLTAAGKYFYRDTTEIFKALERAKRNVSSSSTGKSGALKVGFMMSTAYNILPSV 110 Query: 70 LHAFMAEYPDVSIELVEKLSDAIPHAVKAGEADLGICA-PTDSVAGVSEAIYVTDPLVLI 128 + A YP+V + L E + + + ++ + D+GI P D S IY +PL+ + Sbjct: 111 TRHYSAAYPEVDMRLTEYVPNLLATDIEDEKIDVGIMYRPEDCRRLDSHTIYA-EPLLAV 169 Query: 129 VPRDHKFASRKRIRFEDTLDEKHIMMQS--GASIHTMSQMAARALKRKIHLSVLVTSFDA 186 +PRDH+ A R+ I + ++ I + ++ + Q + + + + Sbjct: 170 LPRDHRLAGRQSISAAELAEDAFISIPRMIAPVVYDLIQQHCQLHGFRPRIVLETNLQQT 229 Query: 187 IRNMVSEGLGIAVIP 201 I N+V EGLG+A++P Sbjct: 230 IVNLVGEGLGVALVP 244 >gi|300313085|ref|YP_003777177.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 315 Score = 64.7 bits (156), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 53/217 (24%), Positives = 95/217 (43%), Gaps = 7/217 (3%) Query: 7 IVXRRSRGVEPTAAGLSIYQHAKSILGQLRQIDCDISEHRSGIKGNVRIWVNMTALCYYL 66 I R V T G I A+ +L Q I ++++ + G +R+ + T Y L Sbjct: 47 IFERGGTEVSVTPLGAQIVAQAERVLEQTAAIKEIANQNKDPLSGPLRLGIIYTIGPYLL 106 Query: 67 PAQLHAFMAEYPDVSIELVEKLSDAIPHAVKAGEADLGICAPTDSVAGVSEAIYVTDPLV 126 P+ + + P + + L E + + ++ GE D I A G++ + + Sbjct: 107 PSLVKTMIERVPQMPLILQENFTTRLIELLRQGELDAAIMALPFPEHGLNVLPLYDEEFM 166 Query: 127 LIVPRDHKFASRKRIRFEDTLDEKHIMMQSGASIHTMSQMAARALKR------KIHLSVL 180 + +PR HK+A RK I + E +++ +G + R I + Sbjct: 167 VALPRQHKWAERKEIDARELKSETMLLLGNGHCFRDQVLEVCPEMSRFSTNGDGIARTFE 226 Query: 181 VTSFDAIRNMVSEGLGIAVIPELALKGVDATRYSVVR 217 +S + IR+MVS G+G+ V+P ++ VD TR +VR Sbjct: 227 GSSLETIRHMVSSGIGVTVLPRASIPDVD-TRDGMVR 262 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 0.324 0.136 0.400 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: 741,133 Number of extensions: 28199 Number of successful extensions: 173 Number of sequences better than 1.0e-08: 13 Number of HSP's gapped: 177 Number of HSP's successfully gapped: 13 Length of query: 253 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 170 Effective length of database: 1,226,865 Effective search space: 208567050 Effective search space used: 208567050 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: 129 (54.3 bits)