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= 0003.0028.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... 466 e-133 gi|300309361|ref|YP_003773453.1| response regulator for cobalt/z... 127 8e-31 gi|300310718|ref|YP_003774810.1| phosphate regulon two-component... 118 4e-28 gi|300312356|ref|YP_003776448.1| cobalt/zinc/cadmium resistance ... 117 7e-28 gi|300310849|ref|YP_003774941.1| two component transcription reg... 116 1e-27 >gi|300313069|ref|YP_003777161.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 236 Score = 466 bits (1199), Expect = e-133, Method: Compositional matrix adjust. Identities = 232/236 (98%), Positives = 235/236 (99%) Query: 1 MQEHAGNIVFIEDDPHIRKLVRSALEQEGFIVHEAKSAREGVTEAGTRKPDLIILDLGLP 60 MQEHAGNIVFIEDDPHIRKLVRSALEQEGF+VHEAKSAREGVTEAGTRKPDLIILDLGLP Sbjct: 1 MQEHAGNIVFIEDDPHIRKLVRSALEQEGFVVHEAKSAREGVTEAGTRKPDLIILDLGLP 60 Query: 61 DGDGKQVISEIRNWSSVPIVILSARTQESEKVEALDAGADDYLVKPFGMPELLARMRAQL 120 DGDGKQVISEIRNWSSVPIVILSARTQESEKVEALDAGADDYLVKPFGMPELLARMRAQL Sbjct: 61 DGDGKQVISEIRNWSSVPIVILSARTQESEKVEALDAGADDYLVKPFGMPELLARMRAQL 120 Query: 121 RRHARASGAGQSSGRYRLGDVVVDLPARSVSRNGEALHLTQIEYRLLATLLRDAGRVITH 180 RRHARAS AGQSSGRYRLGDVVVDLPARSVSR+GEALHLTQIEYRLL+TLLRDAGRVITH Sbjct: 121 RRHARASSAGQSSGRYRLGDVVVDLPARSVSRHGEALHLTQIEYRLLSTLLRDAGRVITH 180 Query: 181 RQLLVAGWGPSHAEDGHYLRIYMQRLRQKLERDAAQPVHILTEIGVGYRVADVVAE 236 RQLLVAGWGPSHAEDGHYLRIYMQRLRQKLERDAAQPVHILTEIGVGYRVADVVAE 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 = 127 bits (319), Expect = 8e-31, Method: Compositional matrix adjust. Identities = 77/222 (34%), Positives = 124/222 (55%), Gaps = 6/222 (2%) Query: 7 NIVFIEDDPHIRKLVRSALEQEGFIVHEAKSAREGVTEAGTRKPDLIILDLGLPDGDGKQ 66 +I+ +ED+P +R 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 SGAGQSSGRYRLGDVVVDLPARSVSRNGEALHLTQIEYRLLATLLRDAGRVITHRQLLVA 186 G + DVV+D+ R V+R G+ + LT E+ LL L+R G V++ Q+ Sbjct: 118 -GPSREVDLIEYDDVVLDVLRRKVTRAGQRIDLTAKEFALLHMLIRRPGEVLSRPQIASQ 176 Query: 187 GWGPSHAEDGHYLRIYMQRLRQKLERDAAQPVHILTEIGVGY 228 W + D + + + ++RLR KL+ + + + T G+GY Sbjct: 177 VWDMNFDSDTNVVDVAVRRLRAKLDEGFEKKL-LHTVWGMGY 217 >gi|300310718|ref|YP_003774810.1| phosphate regulon two-component response regulator transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 230 Score = 118 bits (295), Expect = 4e-28, Method: Compositional matrix adjust. Identities = 78/237 (32%), Positives = 137/237 (57%), Gaps = 16/237 (6%) Query: 1 MQEHAGNIVFIEDDPHIRKLVRSALEQEGF---IVHEAKSAREGVTEAGTRKPDLIILDL 57 M + +I+ +ED+P I +L+R ++ GF I + AR+ + E+ P +++LD Sbjct: 1 MSKELPHILMVEDEPSIAELLRFTMQGAGFATTIATDVAQARKHIAES---LPHVVLLDW 57 Query: 58 GLPDGDGKQVISEIRN---WSSVPIVILSARTQESEKVEALDAGADDYLVKPFGMPELLA 114 LPD G +++E+R +S+P+++L+A+ E +KV+ L+ GADDY+ KPF EL+A Sbjct: 58 MLPDSSGLVLLNELRRDQRTASLPVIMLTAKGMEEDKVKGLNEGADDYVTKPFSPKELVA 117 Query: 115 RMRAQLRRHARASGAGQSSGRYRLGDVVVDLPARSVSRNGEALHLTQIEYRLLATLLRDA 174 R++A LRR +A G + +YR D+ +D+ R VS + + L Q E++LL L+ Sbjct: 118 RVQALLRR--KAPEIGSQALKYR--DISIDVERRQVSVADKPVLLDQAEFKLLRYLVAHP 173 Query: 175 GRVITHRQLLVAGWGPSHAEDGHYLRIYMQRLRQKLERDAAQPVHILTEIGVGYRVA 231 R+ + QLL WG + + +++ RLR+ L D A ++ T G+GY+++ Sbjct: 174 ERIFSRAQLLDKVWGDHTFIEERTVDVHIMRLRKSLG-DLAH--YVQTVRGMGYKLS 227 >gi|300312356|ref|YP_003776448.1| cobalt/zinc/cadmium resistance two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 223 Score = 117 bits (294), Expect = 7e-28, Method: Compositional matrix adjust. Identities = 67/204 (32%), Positives = 112/204 (54%), Gaps = 5/204 (2%) Query: 8 IVFIEDDPHIRKLVRSALEQEGFIVHEAKSAREGVTEAGTRKPDLIILDLGLPDGDGKQV 67 I+ IEDDP +R L + G+ V A++ +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 GAGQSSGRYRLGDVVVDLPARSVSRNGEALHLTQIEYRLLATLLRDAGRVITHRQLLVAG 187 G + + Y + D+ +D V+R G + LT E+ LL L++ G ++ + Sbjct: 118 GVTREAEVYEIADLQLDHVRHKVTRQGVNIALTNKEFMLLHLLIKRQGEALSRSVIASQI 177 Query: 188 WGPSHAEDGHYLRIYMQRLRQKLE 211 W + D + + + ++RLR K++ Sbjct: 178 WDMNFDSDTNVVDVAIKRLRAKID 201 >gi|300310849|ref|YP_003774941.1| two component transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 248 Score = 116 bits (291), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 84/231 (36%), Positives = 115/231 (49%), Gaps = 3/231 (1%) Query: 8 IVFIEDDPHIRKLVRSALEQEGFIVHEAKSAREGVTEAGTRKPDLIILDLGLPDGDGKQV 67 I+ ++DD IR L+ L+ G A + 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-GRYRLGDVVVDLPARS-VSRNGEALHLTQIEYRLLATLLRDAGRVITHRQLL 184 Q R +DL AR V+R+G + L+ E+RLL L RV+ QLL Sbjct: 130 PNMAQPDVAAMRFAGWTLDLTARHLVNRDGVVVALSGAEFRLLKVFLDHPNRVLNRDQLL 189 Query: 185 VAGWGPSHAEDGHYLRIYMQRLRQKLERDAAQPVHILTEIGVGYRVADVVA 235 G + I + RLRQKL DA P I T GY +A V Sbjct: 190 ELTQGRESDPFDRSVDIQISRLRQKLGDDARTPTIIKTVRNEGYVLATTVT 240 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 0.137 0.390 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: 698,890 Number of extensions: 28235 Number of successful extensions: 208 Number of sequences better than 1.0e-08: 42 Number of HSP's gapped: 202 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 (21.8 bits) S2: 129 (54.3 bits)