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= 0001.4481.p (247 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313896|ref|YP_003777988.1| two component transcription res... 422 e-119 gi|300310592|ref|YP_003774684.1| phosphate regulon two-component... 150 1e-37 gi|300309361|ref|YP_003773453.1| response regulator for cobalt/z... 147 9e-37 gi|300313245|ref|YP_003777337.1| two component response regulato... 146 1e-36 gi|300310718|ref|YP_003774810.1| phosphate regulon two-component... 142 2e-35 >gi|300313896|ref|YP_003777988.1| two component transcription response regulator protein [Herbaspirillum seropedicae SmR1] Length = 244 Score = 422 bits (1086), Expect = e-119, Method: Compositional matrix adjust. Identities = 213/247 (86%), Positives = 223/247 (90%), Gaps = 3/247 (1%) Query: 1 MNGTPEAFQFAPPARADILIVEDEPKLAELLQKYLALAGYTARHVARGDAALEAVRTQRP 60 M+ FQFAPPA ADILIVEDEPKLAELLQKYLALAGY+ARHVARGDAAL+AVR QRP Sbjct: 1 MSDPTTEFQFAPPASADILIVEDEPKLAELLQKYLALAGYSARHVARGDAALDAVRAQRP 60 Query: 61 DLILLDIMLPGMDGWEICRQLRSFSDVPVLMLTARAEEEDRLRGLELGADDYIGKTPFSP 120 DLILLDIMLPGMDGWEICRQLR+FSDVPVLMLTARAEEEDRLRGLELGADDYIGKTPFSP Sbjct: 61 DLILLDIMLPGMDGWEICRQLRTFSDVPVLMLTARAEEEDRLRGLELGADDYIGKTPFSP 120 Query: 121 REIVARVKSMLRRNALVQRAVQTQQPRRTDWPLHIDEASHQASVRGEPLNLTPLELRLLK 180 REIVARVKSMLRRNALVQ+ Q P R+ LHID+ HQASVRGE LNLTPLELRLLK Sbjct: 121 REIVARVKSMLRRNALVQQRT-AQAPARS--LLHIDDVRHQASVRGEALNLTPLELRLLK 177 Query: 181 TFAAAPGQVFSRDQLLNHLHDDDRFVTDRVVDTHIKNLRRKLEPFFPGHNAIQAVYGVGY 240 TFA+APGQVFSR+QLLNHLHDDDR VTDR VDTHIKNLRRKLEP FPGHNAIQAVYGVGY Sbjct: 178 TFASAPGQVFSREQLLNHLHDDDRSVTDRAVDTHIKNLRRKLEPCFPGHNAIQAVYGVGY 237 Query: 241 SFALPPA 247 F LPP+ Sbjct: 238 CFELPPS 244 >gi|300310592|ref|YP_003774684.1| phosphate regulon two-component response regulator transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 245 Score = 150 bits (378), Expect = 1e-37, Method: Compositional matrix adjust. Identities = 92/237 (38%), Positives = 138/237 (58%), Gaps = 12/237 (5%) Query: 10 FAPPARADILIVEDEPKLAELLQKYLALAGYTARHVARGDAALEAVRTQRPDLILLDIML 69 +P ILIVEDEP +AEL+ L AG+++ V+ AA + V+ + P L+LLD ML Sbjct: 16 ISPIPMTTILIVEDEPSIAELIAFTLKEAGWSSFVVSNAAAAWDFVQHRAPQLVLLDWML 75 Query: 70 PGMDGWEICRQLRS---FSDVPVLMLTARAEEEDRLRGLELGADDYIGKTPFSPREIVAR 126 P G + ++R+ + V+MLTA++ EED++ GL+ GADDYI K PFSPRE+ AR Sbjct: 76 PDRSGLHLLSRIRADRQLQQLSVIMLTAKSMEEDKIAGLDNGADDYITK-PFSPRELTAR 134 Query: 127 VKSMLRRNALVQRAVQTQQPRRTDWPLHIDEASHQASVRGEPLNLTPLELRLLKTFAAAP 186 +K++LRR ++ + Q + P+ +D AS S+ G +++ E +LLK F A P Sbjct: 135 IKALLRR-----KSPEHAQEVMSAGPITLDPASCSVSLSGARIDIGHAEYKLLKFFLAHP 189 Query: 187 GQVFSRDQLLNHLHDDDRFVTDRVVDTHIKNLRRKLEPFFPGHNAIQAVYGVGYSFA 243 +VFSR QLL+ + D + +R VD H+ LR+ L I+ V VGY + Sbjct: 190 DRVFSRSQLLDRVWGDHVVIEERTVDVHVLRLRKALR---DAEYLIKTVRSVGYMLS 243 >gi|300309361|ref|YP_003773453.1| response regulator for cobalt/zinc/cadmium resistance transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 235 Score = 147 bits (371), Expect = 9e-37, Method: Compositional matrix adjust. Identities = 91/225 (40%), Positives = 130/225 (57%), Gaps = 8/225 (3%) Query: 18 ILIVEDEPKLAELLQKYLALAGYTARHVARGDAALEAVRTQRPDLILLDIMLPGMDGWEI 77 IL+VEDEPK + L++ L +G+ V G L RT LI+LD+MLPGM+GW+I Sbjct: 3 ILLVEDEPKSGDYLRRGLTESGFVVDWVQTGVDGLHNARTLDYKLIILDVMLPGMNGWDI 62 Query: 78 CRQLRSFSDVPVLMLTARAEEEDRLRGLELGADDYIGKTPFSPREIVARVKSMLRRNALV 137 R+LR D PVL LTAR E EDR++GLELGADDY+ K PF+ E++ARV+++LRR Sbjct: 63 LRELRRTHDTPVLFLTARDEVEDRVKGLELGADDYLVK-PFAYTELLARVRTLLRRGP-- 119 Query: 138 QRAVQTQQPRRTDWPLHIDEASHQASVRGEPLNLTPLELRLLKTFAAAPGQVFSRDQLLN 197 R V + + +D + + G+ ++LT E LL PG+V SR Q+ + Sbjct: 120 SREVDLIEYD----DVVLDVLRRKVTRAGQRIDLTAKEFALLHMLIRRPGEVLSRPQIAS 175 Query: 198 HLHDDDRFVTDRVVDTHIKNLRRKLEPFFPGHNAIQAVYGVGYSF 242 + D + VVD ++ LR KL+ F + V+G+GY F Sbjct: 176 QVWDMNFDSDTNVVDVAVRRLRAKLDEGFE-KKLLHTVWGMGYVF 219 >gi|300313245|ref|YP_003777337.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 267 Score = 146 bits (369), Expect = 1e-36, Method: Compositional matrix adjust. Identities = 100/233 (42%), Positives = 141/233 (60%), Gaps = 13/233 (5%) Query: 16 ADILIVEDEPKLAELLQKYLALAGYTARHVARGDAALEAVRTQRPDLILLDIMLPGMDGW 75 A ILI ED P++AE+L YLA G + H A G ALE +PDL+LLDI +P ++GW Sbjct: 38 ALILIAEDAPEIAEILAAYLARNGMRSVHAADGARALELHLALKPDLVLLDIQMPQVNGW 97 Query: 76 EICRQLRSFSDVPVLMLTARAEEEDRLRGLELGADDYIGKTPFSPREIVARVKSMLRRNA 135 ++ Q+R + PV++LTA ++ D+L GL +GADDY+ K PF+P E+VARV+++LRR+ Sbjct: 98 QVLSQIRQRDNTPVILLTALDQDVDKLTGLRIGADDYVVK-PFNPAEVVARVEAVLRRS- 155 Query: 136 LVQRAVQTQQPRRTDWPLHIDEASHQ--ASVRG--EPLNLTPLELRLLKTFAAAPGQVFS 191 L + +Q R P ID H+ A + G L LT E +LL A AP +VFS Sbjct: 156 LPREERDDRQVLRVP-PFVIDFEQHEVVAEIEGVSHTLVLTLTEFKLLAQLARAPRRVFS 214 Query: 192 RDQLL-NHLHDDDRFVTDRVVDTHIKNLRRKLEPFFPGHNAI-QAVYGVGYSF 242 R +LL + L + D +R VD+H+ LR+KLE G I ++ GVGY F Sbjct: 215 RAELLASCLPEGDTL--ERTVDSHVSKLRKKLEDL--GIAGIPVSIRGVGYRF 263 >gi|300310718|ref|YP_003774810.1| phosphate regulon two-component response regulator transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 230 Score = 142 bits (359), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 89/229 (38%), Positives = 132/229 (57%), Gaps = 12/229 (5%) Query: 18 ILIVEDEPKLAELLQKYLALAGYTARHVARGDAALEAVRTQRPDLILLDIMLPGMDGWEI 77 IL+VEDEP +AELL+ + AG+ A + + P ++LLD MLP G + Sbjct: 8 ILMVEDEPSIAELLRFTMQGAGFATTIATDVAQARKHIAESLPHVVLLDWMLPDSSGLVL 67 Query: 78 CRQLRS---FSDVPVLMLTARAEEEDRLRGLELGADDYIGKTPFSPREIVARVKSMLRRN 134 +LR + +PV+MLTA+ EED+++GL GADDY+ K PFSP+E+VARV+++LRR Sbjct: 68 LNELRRDQRTASLPVIMLTAKGMEEDKVKGLNEGADDYVTK-PFSPKELVARVQALLRRK 126 Query: 135 ALVQRAVQTQQPRRTDWPLHIDEASHQASVRGEPLNLTPLELRLLKTFAAAPGQVFSRDQ 194 A + +Q + D + ID Q SV +P+ L E +LL+ A P ++FSR Q Sbjct: 127 A---PEIGSQALKYRD--ISIDVERRQVSVADKPVLLDQAEFKLLRYLVAHPERIFSRAQ 181 Query: 195 LLNHLHDDDRFVTDRVVDTHIKNLRRKLEPFFPGHNAIQAVYGVGYSFA 243 LL+ + D F+ +R VD HI LR+ L + +Q V G+GY + Sbjct: 182 LLDKVWGDHTFIEERTVDVHIMRLRKSLGDL---AHYVQTVRGMGYKLS 227 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 0.322 0.138 0.410 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: 643,570 Number of extensions: 20126 Number of successful extensions: 254 Number of sequences better than 1.0e-08: 47 Number of HSP's gapped: 208 Number of HSP's successfully gapped: 47 Length of query: 247 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 164 Effective length of database: 1,226,865 Effective search space: 201205860 Effective search space used: 201205860 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: 129 (54.3 bits)