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= 0109.0002.p (347 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313069|ref|YP_003777161.1| two component response regulato... 297 7e-82 gi|300311799|ref|YP_003775891.1| two component heavy metal respo... 70 4e-13 gi|300313896|ref|YP_003777988.1| two component transcription res... 66 3e-12 gi|300311469|ref|YP_003775561.1| oxidative stress resistance two... 65 6e-12 gi|300312356|ref|YP_003776448.1| cobalt/zinc/cadmium resistance ... 64 1e-11 >gi|300313069|ref|YP_003777161.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 236 Score = 297 bits (761), Expect = 7e-82, Method: Compositional matrix adjust. Identities = 159/263 (60%), Positives = 187/263 (71%), Gaps = 31/263 (11%) Query: 81 MLDHAGNIVFVEDDAHIRKLVRSALEQEGFIVHEARTAREGMVEAGTRKPDLVIVDLGLP 140 M +HAGNIVF+EDD HIRKLVRSALEQEGF+VHEA++AREG+ EAGTRKPDL+I+DLGLP Sbjct: 1 MQEHAGNIVFIEDDPHIRKLVRSALEQEGFVVHEAKSAREGVTEAGTRKPDLIILDLGLP 60 Query: 141 DQDGKQVIADIRSWSDVPIVILSARTVLHLFQLRRHDQSSFVEQADLEAQVALGIETRIG 200 D DGKQVI++IR+WS VPIVILSART +S VE D A L G Sbjct: 61 DGDGKQVISEIRNWSSVPIVILSART----------QESEKVEALDAGADDYL--VKPFG 108 Query: 201 ASTLAAVDEQRHNLHTRTEAGGLAKASAATGRFRLGXSQASAATGRFRLGDLLIDLPART 260 L A + H R S A ++GR+RLGD+++DLPAR+ Sbjct: 109 MPELLARMRAQLRRHARA-------------------SSAGQSSGRYRLGDVVVDLPARS 149 Query: 261 ASKGGEAVHLTQIEHRLIATLLRDAGRVITHRTLLAAGWGPSHTEDHHYLRIYMQRLRQK 320 S+ GEA+HLTQIE+RL++TLLRDAGRVITHR LL AGWGPSH ED HYLRIYMQRLRQK Sbjct: 150 VSRHGEALHLTQIEYRLLSTLLRDAGRVITHRQLLVAGWGPSHAEDGHYLRIYMQRLRQK 209 Query: 321 LEDDPAQPKYIVTEIGVGYRVVN 343 LE D AQP +I+TEIGVGYRV + Sbjct: 210 LERDAAQPVHILTEIGVGYRVAD 232 >gi|300311799|ref|YP_003775891.1| two component heavy metal response transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 230 Score = 69.7 bits (169), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 65/253 (25%), Positives = 113/253 (44%), Gaps = 37/253 (14%) Query: 87 NIVFVEDDAHIRKLVRSALEQEGFIVHEARTAREGMVEAGTRKPDLVIVDLGLPDQDGKQ 146 I+ VED+ + + + L ++G V A +G A D++++D+ LP DG Sbjct: 2 KILIVEDEQKMSEYLCKGLTEQGCAVDLAANGVDGQHLAIEHDYDVIVLDVMLPGLDGFS 61 Query: 147 VIADIRSWSDVPIVILSARTVLHLFQLRRHDQSSFVEQADLEAQVALGIETRIGASTLAA 206 V+ +R + P+++L+AR +E RI A Sbjct: 62 VLRALRKVKETPVIMLTARD---------------------------SVEDRIKGLHDGA 94 Query: 207 VDEQRHNLHTRTEAGGLAKASAATGRFRLGXSQASAATGRFRLGDLLIDLPARTASKGGE 266 D + + + LA+ A T R G +Q A + R+GDL IDL +R A +GG Sbjct: 95 DD---YLIKPFSFLELLARLQALTRR---GRAQEPA---QLRIGDLQIDLLSRKAFRGGL 145 Query: 267 AVHLTQIEHRLIATLLRDAGRVITHRTLLAAGWGPSHTEDHHYLRIYMQRLRQKLEDDPA 326 + LT E L+A + R G +++ + W + + + + + ++RLR K+ D P Sbjct: 146 RIDLTAKEFALLAVMARRQGEILSKTAIAELVWDMNFDSNTNVVEVAIKRLRAKI-DAPF 204 Query: 327 QPKYIVTEIGVGY 339 + K + T G+GY Sbjct: 205 EQKLLHTVRGMGY 217 >gi|300313896|ref|YP_003777988.1| two component transcription response regulator protein [Herbaspirillum seropedicae SmR1] Length = 244 Score = 66.2 bits (160), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 64/257 (24%), Positives = 113/257 (43%), Gaps = 36/257 (14%) Query: 85 AGNIVFVEDDAHIRKLVRSALEQEGFIVHEARTAREGMVEAGTRKPDLVIVDLGLPDQDG 144 + +I+ VED+ + +L++ L G+ + ++PDL+++D+ LP DG Sbjct: 15 SADILIVEDEPKLAELLQKYLALAGYSARHVARGDAALDAVRAQRPDLILLDIMLPGMDG 74 Query: 145 KQVIADIRSWSDVPIVILSARTVLHLFQLRRHDQSSFVEQADLEAQVALGIETRIGASTL 204 ++ +R++SDVP+++L+AR E+ D + LG + IG + Sbjct: 75 WEICRQLRTFSDVPVLMLTARA----------------EEEDRLRGLELGADDYIGKTPF 118 Query: 205 AAVDEQRHNLHTRTEAGGLAKASAATGRFRLGXSQASAATGRFRLGDLLIDLPARTASKG 264 + + +A+ + R L + + A R L ID AS Sbjct: 119 SPRE-------------IVARVKSMLRRNALVQQRTAQAPARSLLH---IDDVRHQASVR 162 Query: 265 GEAVHLTQIEHRLIATLLRDAGRVITHRTLLAAGWGPSHTEDHHYLRIYMQRLRQKLEDD 324 GEA++LT +E RL+ T G+V + LL + + +++ LR+KLE Sbjct: 163 GEALNLTPLELRLLKTFASAPGQVFSREQLLNHLHDDDRSVTDRAVDTHIKNLRRKLE-- 220 Query: 325 PAQPKY--IVTEIGVGY 339 P P + I GVGY Sbjct: 221 PCFPGHNAIQAVYGVGY 237 >gi|300311469|ref|YP_003775561.1| oxidative stress resistance two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 253 Score = 65.5 bits (158), Expect = 6e-12, Method: Compositional matrix adjust. Identities = 63/236 (26%), Positives = 99/236 (41%), Gaps = 33/236 (13%) Query: 107 QEGFIVHEARTAREGMVEAGTR-KPDLVIVDLGLPDQDGKQVIADIRSWSD-VPIVILSA 164 ++GF V A A + M + R + DL+++DL LP +DG + +R D PI++L+A Sbjct: 39 EQGFNVVTAENA-QAMNKLWIRERYDLLVLDLMLPGEDGLAICRRLRGAGDQTPIIMLTA 97 Query: 165 RTVLHLFQLRRHDQSSFVEQADLEAQVALGIETRIGASTLAAVDEQRHNLHTRTEAGGLA 224 + E D RI + A D + R + Sbjct: 98 KG----------------EDVD-----------RIIGLEMGADDYLPKPFNPRELVARIN 130 Query: 225 KASAATGRFRL-GXSQASAATGRFRLGDLLIDLPARTASKGGEAVHLTQIEHRLIATLLR 283 G L G + T F GD ++DL RT K G+ + LT E ++ R Sbjct: 131 AVLRRKGPDELPGAPSETPET--FEFGDFILDLGTRTLKKNGDTISLTTGEFSVLKVFAR 188 Query: 284 DAGRVITHRTLLAAGWGPSHTEDHHYLRIYMQRLRQKLEDDPAQPKYIVTEIGVGY 339 +A + ++ L+ G + L + + RLR+ +E DPA P YI T G+GY Sbjct: 189 NARQPLSREKLMEMARGREYEVFDRSLDVQISRLRKLIEPDPANPLYIQTVWGLGY 244 >gi|300312356|ref|YP_003776448.1| cobalt/zinc/cadmium resistance two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 223 Score = 64.3 bits (155), Expect = 1e-11, Method: Compositional matrix adjust. Identities = 64/259 (24%), Positives = 111/259 (42%), Gaps = 38/259 (14%) Query: 88 IVFVEDDAHIRKLVRSALEQEGFIVHEARTAREGMVEAGTRKPDLVIVDLGLPDQDGKQV 147 I+ +EDD +R L + G+ V AR +G+ A + DLV++D+ LP DG QV Sbjct: 3 ILVIEDDPKTGDYLRKGLRESGYAVDLARNGADGLHMALEQDYDLVVLDVMLPGLDGWQV 62 Query: 148 IADIRSWSDVPIVILSARTVLHLFQLRRHDQSSFVEQADLEAQVALGIETRIGASTLAAV 207 ++ +RS D+P++ L+AR ++ RI L A Sbjct: 63 MSALRSKRDLPVLFLTARD---------------------------HVDDRIRGLQLGA- 94 Query: 208 DEQRHNLHTRTEAGGLAKASAATGRFRLGXSQASAATGRFRLGDLLIDLPARTASKGGEA 267 D+ + TE R G ++ + + + DL +D ++ G Sbjct: 95 DDYLVKPFSFTEL-----VLRIRTLLRRGVTREAEV---YEIADLQLDHVRHKVTRQGVN 146 Query: 268 VHLTQIEHRLIATLLRDAGRVITHRTLLAAGWGPSHTEDHHYLRIYMQRLRQKLEDDPAQ 327 + LT E L+ L++ G ++ + + W + D + + + ++RLR K+ D P Sbjct: 147 IALTNKEFMLLHLLIKRQGEALSRSVIASQIWDMNFDSDTNVVDVAIKRLRAKI-DAPFD 205 Query: 328 PKYIVTEIGVGYRVVNAEP 346 K I T VGY + + EP Sbjct: 206 KKLIHTVRSVGY-MFSEEP 223 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 0.321 0.134 0.391 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: 1,015,128 Number of extensions: 39875 Number of successful extensions: 241 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 251 Number of HSP's successfully gapped: 6 Length of query: 347 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 261 Effective length of database: 1,212,660 Effective search space: 316504260 Effective search space used: 316504260 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: 131 (55.1 bits)