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= 0001.0060.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... 428 e-121 gi|300313830|ref|YP_003777922.1| response regulator protein [Her... 161 5e-41 gi|300311469|ref|YP_003775561.1| oxidative stress resistance two... 154 4e-39 gi|300313665|ref|YP_003777757.1| two component transcription reg... 133 1e-32 gi|300310849|ref|YP_003774941.1| two component transcription reg... 132 3e-32 >gi|300311515|ref|YP_003775607.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 229 Score = 428 bits (1101), Expect = e-121, Method: Compositional matrix adjust. Identities = 203/229 (88%), Positives = 218/229 (95%) Query: 1 MSKVLLIDDDIELVDMLKEYLEQEKFEVRVAYDGESGVVEALSGQYAIVVLDVMMPRLNG 60 MSKVLLIDDD+ELVDMLKEYLEQEKFEV VAYDGE+G EAL+GQYAI VLDVMMPRLNG Sbjct: 1 MSKVLLIDDDVELVDMLKEYLEQEKFEVNVAYDGEAGAAEALTGQYAIAVLDVMMPRLNG 60 Query: 61 LETLRRIRAKSNLPVLMLTAKGDDTDRIIGLELGADDYVPKPCTPRELTARVRAILRRTV 120 ++TLRRIRAKS++PV+MLTAKGDDTDRIIGLELGADDYVPKPC+PRE+ AR+RAILRR Sbjct: 61 VDTLRRIRAKSSMPVVMLTAKGDDTDRIIGLELGADDYVPKPCSPREIAARIRAILRRAS 120 Query: 121 IDNPDHSPYSPLAVGALSMWPEQRRATWSGRPLELTSSEFNLLEVLARNAGKPVSKQHLS 180 +N + SPYSPLAVGALSMWPEQRRATW+G+PLELTSSEFNLLEVLARNAGKPVSKQHLS Sbjct: 121 AENNEQSPYSPLAVGALSMWPEQRRATWNGKPLELTSSEFNLLEVLARNAGKPVSKQHLS 180 Query: 181 EQGLGRPLARFDRNIDVHLSSIRQKIATLGSDKSCIQTVYRLGYQFIKE 229 EQGLGRPLARFDRNIDVHLSSIRQKIA LGSDKSCIQTVYRLGYQFIKE Sbjct: 181 EQGLGRPLARFDRNIDVHLSSIRQKIAALGSDKSCIQTVYRLGYQFIKE 229 >gi|300313830|ref|YP_003777922.1| response regulator protein [Herbaspirillum seropedicae SmR1] Length = 237 Score = 161 bits (407), Expect = 5e-41, Method: Compositional matrix adjust. Identities = 89/226 (39%), Positives = 137/226 (60%), Gaps = 3/226 (1%) Query: 3 KVLLIDDDIELVDMLKEYLEQEKFEVRVAYDGESGVVEA--LSGQYAIVVLDVMMPRLNG 60 K+L++DDD + +LK YLE+ ++EVR+A+DG + + E L+ + ++V+LDVM+P +G Sbjct: 4 KILIVDDDQKTRTLLKAYLEKNQYEVRLAHDGATFLAEFQRLADELSLVILDVMLPDTDG 63 Query: 61 LETLRRIRAKSNLPVLMLTAKGDDTDRIIGLELGADDYVPKPCTPRELTARVRAILRRTV 120 + +R KSN+PV+MLTA D+TDR++GLELGADDY+ KP +PREL AR++AI RR Sbjct: 64 FALCKAVRRKSNVPVIMLTASSDETDRVVGLELGADDYIAKPYSPRELLARIKAIHRRIG 123 Query: 121 IDNPDHSPYSPLAVGALSMWPEQRRATWSGRPLELTSSEFNLLEVLARNAGKPVSKQHLS 180 ID+ Y A +L E+ G + LT ++ LL+ + G + + L Sbjct: 124 IDSSAAPRYYRFAGFSLDTV-ERTLVDSQGDIVPLTGMDYQLLKYFVEHPGDVLDRNVLC 182 Query: 181 EQGLGRPLARFDRNIDVHLSSIRQKIATLGSDKSCIQTVYRLGYQF 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 = 154 bits (390), Expect = 4e-39, Method: Compositional matrix adjust. Identities = 89/214 (41%), Positives = 129/214 (60%), Gaps = 10/214 (4%) Query: 23 QEKFEVRVAYDGESGVVEALSGQYAIVVLDVMMPRLNGLETLRRIR-AKSNLPVLMLTAK 81 ++ F V A + ++ + +Y ++VLD+M+P +GL RR+R A P++MLTAK Sbjct: 39 EQGFNVVTAENAQAMNKLWIRERYDLLVLDLMLPGEDGLAICRRLRGAGDQTPIIMLTAK 98 Query: 82 GDDTDRIIGLELGADDYVPKPCTPRELTARVRAILRRTVIDNPDHSPYSP------LAVG 135 G+D DRIIGLE+GADDY+PKP PREL AR+ A+LRR PD P +P G Sbjct: 99 GEDVDRIIGLEMGADDYLPKPFNPRELVARINAVLRRK---GPDELPGAPSETPETFEFG 155 Query: 136 ALSMWPEQRRATWSGRPLELTSSEFNLLEVLARNAGKPVSKQHLSEQGLGRPLARFDRNI 195 + R +G + LT+ EF++L+V ARNA +P+S++ L E GR FDR++ Sbjct: 156 DFILDLGTRTLKKNGDTISLTTGEFSVLKVFARNARQPLSREKLMEMARGREYEVFDRSL 215 Query: 196 DVHLSSIRQKIATLGSDKSCIQTVYRLGYQFIKE 229 DV +S +R+ I ++ IQTV+ LGY FI E Sbjct: 216 DVQISRLRKLIEPDPANPLYIQTVWGLGYVFIPE 249 >gi|300313665|ref|YP_003777757.1| two component transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 240 Score = 133 bits (335), Expect = 1e-32, Method: Compositional matrix adjust. Identities = 81/229 (35%), Positives = 130/229 (56%), Gaps = 3/229 (1%) Query: 4 VLLIDDDIELVDMLKEYLEQEKFEVRVAYDGESGVVEALSGQYAIVVLDVMMPRLNGLET 63 VL++DDD ++ +L +YLE + A G+ S + I++LD+MMP +GLE Sbjct: 7 VLIVDDDPDIRHLLADYLEAASYRPFTAAGGQEMWRILGSERIDIIILDLMMPGEDGLEL 66 Query: 64 LRRIRAKSNLPVLMLTAKGDDTDRIIGLELGADDYVPKPCTPRELTARVRAILR--RTVI 121 R +R K N P++MLTA+G DRI+GLE+GADDY+PKP PREL AR++ ILR R+ Sbjct: 67 CRELRKKRNTPLVMLTARGTLIDRIVGLEVGADDYLPKPFDPRELLARIKVILRRARSFP 126 Query: 122 DNPDHSPYSPLAVGALSMWPEQRRA-TWSGRPLELTSSEFNLLEVLARNAGKPVSKQHLS 180 + + S + + + R+A + SG + L S++ +L L + + +S+ L Sbjct: 127 EKLEADRVSHIHFAGWKLDTQARQAISPSGVTITLGGSDYQVLRALLEHPRRALSRDFLL 186 Query: 181 EQGLGRPLARFDRNIDVHLSSIRQKIATLGSDKSCIQTVYRLGYQFIKE 229 G+ FDR+IDV +S +RQ++ + + I+TV GY + + Sbjct: 187 NTVYGKEAMPFDRSIDVCISRLRQQLGDNPREPALIRTVRNTGYMLMAD 235 >gi|300310849|ref|YP_003774941.1| two component transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 248 Score = 132 bits (332), Expect = 3e-32, Method: Compositional matrix adjust. Identities = 78/227 (34%), Positives = 127/227 (55%), Gaps = 5/227 (2%) Query: 2 SKVLLIDDDIELVDMLKEYLEQEKFEVRVAYDGESGVVEALSGQYAIVVLDVMMPRLNGL 61 + +L++DDD ++ +L EYL+ A +G + ++VLD+ +P +GL Sbjct: 8 THILVVDDDRDIRTLLAEYLDSNGLRTLTATNGSEMRRVLEESRVDLIVLDLTLPGEDGL 67 Query: 62 ETLRRIRAKSNLPVLMLTAKGDDTDRIIGLELGADDYVPKPCTPRELTARVRAILRRTVI 121 R +RA S++PV+MLTA+G+ DRI+GLE+GADDY+ KP PREL AR+R++LRRT Sbjct: 68 TLCRNLRATSSVPVIMLTARGEPLDRILGLEMGADDYLAKPFEPRELFARIRSVLRRTQA 127 Query: 122 DNPDHSPYSPLAVGALSMW----PEQRRATWSGRPLELTSSEFNLLEVLARNAGKPVSKQ 177 P+ + +A + W + G + L+ +EF LL+V + + +++ Sbjct: 128 LPPNMA-QPDVAAMRFAGWTLDLTARHLVNRDGVVVALSGAEFRLLKVFLDHPNRVLNRD 186 Query: 178 HLSEQGLGRPLARFDRNIDVHLSSIRQKIATLGSDKSCIQTVYRLGY 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 0.319 0.137 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: 662,658 Number of extensions: 27872 Number of successful extensions: 228 Number of sequences better than 1.0e-08: 34 Number of HSP's gapped: 214 Number of HSP's successfully gapped: 34 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 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 129 (54.3 bits)