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= 0001.2053.p (229 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311515|ref|YP_003775607.1| two component response regulato... 451 e-128 gi|300313830|ref|YP_003777922.1| response regulator protein [Her... 160 8e-41 gi|300311469|ref|YP_003775561.1| oxidative stress resistance two... 152 2e-38 gi|300313665|ref|YP_003777757.1| two component transcription reg... 137 7e-34 gi|300310849|ref|YP_003774941.1| two component transcription reg... 129 2e-31 >gi|300311515|ref|YP_003775607.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 229 Score = 451 bits (1159), Expect = e-128, Method: Compositional matrix adjust. Identities = 219/229 (95%), Positives = 227/229 (99%) Query: 1 MSKVLLIDDDVELVEMLKEYLEQEKFEVNVAYDGEAGAAEALSGQYAIAVLDVMMPRLNG 60 MSKVLLIDDDVELV+MLKEYLEQEKFEVNVAYDGEAGAAEAL+GQYAIAVLDVMMPRLNG Sbjct: 1 MSKVLLIDDDVELVDMLKEYLEQEKFEVNVAYDGEAGAAEALTGQYAIAVLDVMMPRLNG 60 Query: 61 VDTLRRIRAKSNMPVVMLTAKGDDTDRIIGLELGADDYVPKPCTPREIAARIRAILRRAS 120 VDTLRRIRAKS+MPVVMLTAKGDDTDRIIGLELGADDYVPKPC+PREIAARIRAILRRAS Sbjct: 61 VDTLRRIRAKSSMPVVMLTAKGDDTDRIIGLELGADDYVPKPCSPREIAARIRAILRRAS 120 Query: 121 AETSEQAPYSPLAVGALSMWPEQRRATWSGRPLELTSSEFNLLEVLARNAGKPVSKQILS 180 AE +EQ+PYSPLAVGALSMWPEQRRATW+G+PLELTSSEFNLLEVLARNAGKPVSKQ LS Sbjct: 121 AENNEQSPYSPLAVGALSMWPEQRRATWNGKPLELTSSEFNLLEVLARNAGKPVSKQHLS 180 Query: 181 EQGLGRPLARFDRNIDVHLSSIRQKIAALGSDKSCIQTVYRLGYQFIKE 229 EQGLGRPLARFDRNIDVHLSSIRQKIAALGSDKSCIQTVYRLGYQFIKE Sbjct: 181 EQGLGRPLARFDRNIDVHLSSIRQKIAALGSDKSCIQTVYRLGYQFIKE 229 >gi|300313830|ref|YP_003777922.1| response regulator protein [Herbaspirillum seropedicae SmR1] Length = 237 Score = 160 bits (405), Expect = 8e-41, Method: Compositional matrix adjust. Identities = 87/226 (38%), Positives = 135/226 (59%), Gaps = 3/226 (1%) Query: 3 KVLLIDDDVELVEMLKEYLEQEKFEVNVAYDGEAGAAEA--LSGQYAIAVLDVMMPRLNG 60 K+L++DDD + +LK YLE+ ++EV +A+DG AE L+ + ++ +LDVM+P +G Sbjct: 4 KILIVDDDQKTRTLLKAYLEKNQYEVRLAHDGATFLAEFQRLADELSLVILDVMLPDTDG 63 Query: 61 VDTLRRIRAKSNMPVVMLTAKGDDTDRIIGLELGADDYVPKPCTPREIAARIRAILRRAS 120 + +R KSN+PV+MLTA D+TDR++GLELGADDY+ KP +PRE+ ARI+AI RR Sbjct: 64 FALCKAVRRKSNVPVIMLTASSDETDRVVGLELGADDYIAKPYSPRELLARIKAIHRRIG 123 Query: 121 AETSEQAPYSPLAVGALSMWPEQRRATWSGRPLELTSSEFNLLEVLARNAGKPVSKQILS 180 ++S Y A +L E+ G + LT ++ LL+ + G + + +L Sbjct: 124 IDSSAAPRYYRFAGFSLDTV-ERTLVDSQGDIVPLTGMDYQLLKYFVEHPGDVLDRNVLC 182 Query: 181 EQGLGRPLARFDRNIDVHLSSIRQKIAALGSDKSCIQTVYRLGYQF 226 E+ GR DR++DV +S +R ++ G I+TV GY F Sbjct: 183 EETRGRDAGPLDRSLDVQISKLRLRLNDGGRQPHLIKTVRGAGYVF 228 >gi|300311469|ref|YP_003775561.1| oxidative stress resistance two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 253 Score = 152 bits (385), Expect = 2e-38, Method: Compositional matrix adjust. Identities = 88/211 (41%), Positives = 128/211 (60%), Gaps = 4/211 (1%) Query: 23 QEKFEVNVAYDGEAGAAEALSGQYAIAVLDVMMPRLNGVDTLRRIR-AKSNMPVVMLTAK 81 ++ F V A + +A + +Y + VLD+M+P +G+ RR+R A P++MLTAK Sbjct: 39 EQGFNVVTAENAQAMNKLWIRERYDLLVLDLMLPGEDGLAICRRLRGAGDQTPIIMLTAK 98 Query: 82 GDDTDRIIGLELGADDYVPKPCTPREIAARIRAILRRASAETSEQAPY-SP--LAVGALS 138 G+D DRIIGLE+GADDY+PKP PRE+ ARI A+LRR + AP +P G Sbjct: 99 GEDVDRIIGLEMGADDYLPKPFNPRELVARINAVLRRKGPDELPGAPSETPETFEFGDFI 158 Query: 139 MWPEQRRATWSGRPLELTSSEFNLLEVLARNAGKPVSKQILSEQGLGRPLARFDRNIDVH 198 + R +G + LT+ EF++L+V ARNA +P+S++ L E GR FDR++DV Sbjct: 159 LDLGTRTLKKNGDTISLTTGEFSVLKVFARNARQPLSREKLMEMARGREYEVFDRSLDVQ 218 Query: 199 LSSIRQKIAALGSDKSCIQTVYRLGYQFIKE 229 +S +R+ I ++ IQTV+ LGY FI E Sbjct: 219 ISRLRKLIEPDPANPLYIQTVWGLGYVFIPE 249 >gi|300313665|ref|YP_003777757.1| two component transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 240 Score = 137 bits (345), Expect = 7e-34, Method: Compositional matrix adjust. Identities = 83/230 (36%), Positives = 130/230 (56%), Gaps = 3/230 (1%) Query: 3 KVLLIDDDVELVEMLKEYLEQEKFEVNVAYDGEAGAAEALSGQYAIAVLDVMMPRLNGVD 62 VL++DDD ++ +L +YLE + A G+ S + I +LD+MMP +G++ Sbjct: 6 HVLIVDDDPDIRHLLADYLEAASYRPFTAAGGQEMWRILGSERIDIIILDLMMPGEDGLE 65 Query: 63 TLRRIRAKSNMPVVMLTAKGDDTDRIIGLELGADDYVPKPCTPREIAARIRAILRRASA- 121 R +R K N P+VMLTA+G DRI+GLE+GADDY+PKP PRE+ ARI+ ILRRA + Sbjct: 66 LCRELRKKRNTPLVMLTARGTLIDRIVGLEVGADDYLPKPFDPRELLARIKVILRRARSF 125 Query: 122 -ETSEQAPYSPLAVGALSMWPEQRRA-TWSGRPLELTSSEFNLLEVLARNAGKPVSKQIL 179 E E S + + + R+A + SG + L S++ +L L + + +S+ L Sbjct: 126 PEKLEADRVSHIHFAGWKLDTQARQAISPSGVTITLGGSDYQVLRALLEHPRRALSRDFL 185 Query: 180 SEQGLGRPLARFDRNIDVHLSSIRQKIAALGSDKSCIQTVYRLGYQFIKE 229 G+ FDR+IDV +S +RQ++ + + I+TV GY + + Sbjct: 186 LNTVYGKEAMPFDRSIDVCISRLRQQLGDNPREPALIRTVRNTGYMLMAD 235 >gi|300310849|ref|YP_003774941.1| two component transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 248 Score = 129 bits (324), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 77/227 (33%), Positives = 124/227 (54%), Gaps = 5/227 (2%) Query: 2 SKVLLIDDDVELVEMLKEYLEQEKFEVNVAYDGEAGAAEALSGQYAIAVLDVMMPRLNGV 61 + +L++DDD ++ +L EYL+ A +G + + VLD+ +P +G+ Sbjct: 8 THILVVDDDRDIRTLLAEYLDSNGLRTLTATNGSEMRRVLEESRVDLIVLDLTLPGEDGL 67 Query: 62 DTLRRIRAKSNMPVVMLTAKGDDTDRIIGLELGADDYVPKPCTPREIAARIRAILRRASA 121 R +RA S++PV+MLTA+G+ DRI+GLE+GADDY+ KP PRE+ ARIR++LRR A Sbjct: 68 TLCRNLRATSSVPVIMLTARGEPLDRILGLEMGADDYLAKPFEPRELFARIRSVLRRTQA 127 Query: 122 ETSEQAPYSPLAVGALSMW----PEQRRATWSGRPLELTSSEFNLLEVLARNAGKPVSKQ 177 A +A + W + G + L+ +EF LL+V + + +++ Sbjct: 128 LPPNMA-QPDVAAMRFAGWTLDLTARHLVNRDGVVVALSGAEFRLLKVFLDHPNRVLNRD 186 Query: 178 ILSEQGLGRPLARFDRNIDVHLSSIRQKIAALGSDKSCIQTVYRLGY 224 L E GR FDR++D+ +S +RQK+ + I+TV GY Sbjct: 187 QLLELTQGRESDPFDRSVDIQISRLRQKLGDDARTPTIIKTVRNEGY 233 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 0.318 0.134 0.376 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: 632,936 Number of extensions: 24285 Number of successful extensions: 233 Number of sequences better than 1.0e-08: 35 Number of HSP's gapped: 228 Number of HSP's successfully gapped: 35 Length of query: 229 Length of database: 1,619,870 Length adjustment: 82 Effective length of query: 147 Effective length of database: 1,231,600 Effective search space: 181045200 Effective search space used: 181045200 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 129 (54.3 bits)