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= 0001.3687.p (236 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... 458 e-130 gi|300309361|ref|YP_003773453.1| response regulator for cobalt/z... 125 2e-30 gi|300310849|ref|YP_003774941.1| two component transcription reg... 120 7e-29 gi|300312356|ref|YP_003776448.1| cobalt/zinc/cadmium resistance ... 120 1e-28 gi|300313680|ref|YP_003777772.1| two component response regulato... 118 4e-28 >gi|300313069|ref|YP_003777161.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 236 Score = 458 bits (1178), Expect = e-130, Method: Compositional matrix adjust. Identities = 227/236 (96%), Positives = 233/236 (98%) Query: 1 MQEHAGNIVFIEDDPHIRKLVKSALEQEGFIVHEAKNAREGVTEAGTRKPDLIILDLGLP 60 MQEHAGNIVFIEDDPHIRKLV+SALEQEGF+VHEAK+AREGVTEAGTRKPDLIILDLGLP Sbjct: 1 MQEHAGNIVFIEDDPHIRKLVRSALEQEGFVVHEAKSAREGVTEAGTRKPDLIILDLGLP 60 Query: 61 DADGKQVISEIRNWSSVPIVILSARTQESEKVEALDAGADDYLVKPFGMPELLARMRAQL 120 D DGKQVISEIRNWSSVPIVILSARTQESEKVEALDAGADDYLVKPFGMPELLARMRAQL Sbjct: 61 DGDGKQVISEIRNWSSVPIVILSARTQESEKVEALDAGADDYLVKPFGMPELLARMRAQL 120 Query: 121 RRHARASGAGQSSGRYRLGEVVVDLPARSVSRNGEALHLTQIEYRLLSTLLRDAGRVITH 180 RRHARAS AGQSSGRYRLG+VVVDLPARSVSR+GEALHLTQIEYRLLSTLLRDAGRVITH Sbjct: 121 RRHARASSAGQSSGRYRLGDVVVDLPARSVSRHGEALHLTQIEYRLLSTLLRDAGRVITH 180 Query: 181 RQLLVAGWGPSHAEDGHYLRIYMQRLRQKLEHDAAQPVHILTEIGVGYRVAEVVAE 236 RQLLVAGWGPSHAEDGHYLRIYMQRLRQKLE DAAQPVHILTEIGVGYRVA+VVAE Sbjct: 181 RQLLVAGWGPSHAEDGHYLRIYMQRLRQKLERDAAQPVHILTEIGVGYRVADVVAE 236 >gi|300309361|ref|YP_003773453.1| response regulator for cobalt/zinc/cadmium resistance transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 235 Score = 125 bits (315), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 75/222 (33%), Positives = 123/222 (55%), Gaps = 6/222 (2%) Query: 7 NIVFIEDDPHIRKLVKSALEQEGFIVHEAKNAREGVTEAGTRKPDLIILDLGLPDADGKQ 66 +I+ +ED+P ++ L + GF+V + +G+ A T LIILD+ LP +G Sbjct: 2 HILLVEDEPKSGDYLRRGLTESGFVVDWVQTGVDGLHNARTLDYKLIILDVMLPGMNGWD 61 Query: 67 VISEIRNWSSVPIVILSARTQESEKVEALDAGADDYLVKPFGMPELLARMRAQLRRHARA 126 ++ E+R P++ L+AR + ++V+ L+ GADDYLVKPF ELLAR+R LRR Sbjct: 62 ILRELRRTHDTPVLFLTARDEVEDRVKGLELGADDYLVKPFAYTELLARVRTLLRR---- 117 Query: 127 SGAGQSSGRYRLGEVVVDLPARSVSRNGEALHLTQIEYRLLSTLLRDAGRVITHRQLLVA 186 G + +VV+D+ R V+R G+ + LT E+ LL L+R G V++ Q+ Sbjct: 118 -GPSREVDLIEYDDVVLDVLRRKVTRAGQRIDLTAKEFALLHMLIRRPGEVLSRPQIASQ 176 Query: 187 GWGPSHAEDGHYLRIYMQRLRQKLEHDAAQPVHILTEIGVGY 228 W + D + + + ++RLR KL+ + + + T G+GY Sbjct: 177 VWDMNFDSDTNVVDVAVRRLRAKLDEGFEKKL-LHTVWGMGY 217 >gi|300310849|ref|YP_003774941.1| two component transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 248 Score = 120 bits (302), Expect = 7e-29, Method: Compositional matrix adjust. Identities = 85/231 (36%), Positives = 115/231 (49%), Gaps = 3/231 (1%) Query: 8 IVFIEDDPHIRKLVKSALEQEGFIVHEAKNAREGVTEAGTRKPDLIILDLGLPDADGKQV 67 I+ ++DD IR L+ L+ G A N E + DLI+LDL LP DG + Sbjct: 10 ILVVDDDRDIRTLLAEYLDSNGLRTLTATNGSEMRRVLEESRVDLIVLDLTLPGEDGLTL 69 Query: 68 ISEIRNWSSVPIVILSARTQESEKVEALDAGADDYLVKPFGMPELLARMRAQLRR-HARA 126 +R SSVP+++L+AR + +++ L+ GADDYL KPF EL AR+R+ LRR A Sbjct: 70 CRNLRATSSVPVIMLTARGEPLDRILGLEMGADDYLAKPFEPRELFARIRSVLRRTQALP 129 Query: 127 SGAGQSS-GRYRLGEVVVDLPARS-VSRNGEALHLTQIEYRLLSTLLRDAGRVITHRQLL 184 Q R +DL AR V+R+G + L+ E+RLL L RV+ QLL Sbjct: 130 PNMAQPDVAAMRFAGWTLDLTARHLVNRDGVVVALSGAEFRLLKVFLDHPNRVLNRDQLL 189 Query: 185 VAGWGPSHAEDGHYLRIYMQRLRQKLEHDAAQPVHILTEIGVGYRVAEVVA 235 G + I + RLRQKL DA P I T GY +A V Sbjct: 190 ELTQGRESDPFDRSVDIQISRLRQKLGDDARTPTIIKTVRNEGYVLATTVT 240 >gi|300312356|ref|YP_003776448.1| cobalt/zinc/cadmium resistance two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 223 Score = 120 bits (300), Expect = 1e-28, Method: Compositional matrix adjust. Identities = 72/225 (32%), Positives = 121/225 (53%), Gaps = 6/225 (2%) Query: 8 IVFIEDDPHIRKLVKSALEQEGFIVHEAKNAREGVTEAGTRKPDLIILDLGLPDADGKQV 67 I+ IEDDP ++ L + G+ V A+N +G+ A + DL++LD+ LP DG QV Sbjct: 3 ILVIEDDPKTGDYLRKGLRESGYAVDLARNGADGLHMALEQDYDLVVLDVMLPGLDGWQV 62 Query: 68 ISEIRNWSSVPIVILSARTQESEKVEALDAGADDYLVKPFGMPELLARMRAQLRRHARAS 127 +S +R+ +P++ L+AR +++ L GADDYLVKPF EL+ R+R LRR Sbjct: 63 MSALRSKRDLPVLFLTARDHVDDRIRGLQLGADDYLVKPFSFTELVLRIRTLLRR----- 117 Query: 128 GAGQSSGRYRLGEVVVDLPARSVSRNGEALHLTQIEYRLLSTLLRDAGRVITHRQLLVAG 187 G + + Y + ++ +D V+R G + LT E+ LL L++ G ++ + Sbjct: 118 GVTREAEVYEIADLQLDHVRHKVTRQGVNIALTNKEFMLLHLLIKRQGEALSRSVIASQI 177 Query: 188 WGPSHAEDGHYLRIYMQRLRQKLEHDAAQPVHILTEIGVGYRVAE 232 W + D + + + ++RLR K++ + + I T VGY +E Sbjct: 178 WDMNFDSDTNVVDVAIKRLRAKIDAPFDKKL-IHTVRSVGYMFSE 221 >gi|300313680|ref|YP_003777772.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 218 Score = 118 bits (296), Expect = 4e-28, Method: Compositional matrix adjust. Identities = 71/224 (31%), Positives = 126/224 (56%), Gaps = 11/224 (4%) Query: 8 IVFIEDDPHIRKLVKSALEQEGFIVHEAKNAREGVTEAGTRKPDLIILDLGLPDADGKQV 67 ++ +EDDP + + V+ L Q+GF + ++ + T +++LDLGLP DG V Sbjct: 3 VLLVEDDPMVGEAVRKGLRQDGFAIDWVQDGKSADVALRTEDYAMLLLDLGLPQKDGLAV 62 Query: 68 ISEIRN-WSSVPIVILSARTQESEKVEALDAGADDYLVKPFGMPELLARMRAQLRRHARA 126 + +R +++P++I +AR +++V LDAGADDYL+KPF + EL ARMRA RR Sbjct: 63 LRTLRERGNAIPVLITTARDAVADRVAGLDAGADDYLIKPFDLEELSARMRALSRRQ--- 119 Query: 127 SGAGQSSGRYRLGEVVVDLPARSVSRNGEALHLTQIEYRLLSTLLRDAGRVITHRQLLVA 186 AG++ ++ EV+++ V+ +G+ ++L+ E+ LL + G V++ QL Sbjct: 120 --AGRAESLVQVREVILNPATHEVTVSGKPVNLSAREFTLLQAFMDRPGVVLSRAQLEEK 177 Query: 187 GWGPSHAEDGHYLRIYMQRLRQKLEHDAAQPVHILTEIGVGYRV 230 +G + + + + +++ LR+K+ D + V GVGY V Sbjct: 178 LYGWDDSIESNAVEVHIHALRKKVGSDFIKNVR-----GVGYLV 216 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 0.319 0.136 0.386 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: 693,889 Number of extensions: 27855 Number of successful extensions: 209 Number of sequences better than 1.0e-08: 43 Number of HSP's gapped: 200 Number of HSP's successfully gapped: 43 Length of query: 236 Length of database: 1,619,870 Length adjustment: 82 Effective length of query: 154 Effective length of database: 1,231,600 Effective search space: 189666400 Effective search space used: 189666400 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 (21.7 bits) S2: 129 (54.3 bits)