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= 0001.2007.p (253 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311469|ref|YP_003775561.1| oxidative stress resistance two... 509 e-145 gi|300310849|ref|YP_003774941.1| two component transcription reg... 200 1e-52 gi|300313665|ref|YP_003777757.1| two component transcription reg... 182 2e-47 gi|300311515|ref|YP_003775607.1| two component response regulato... 179 1e-46 gi|300313830|ref|YP_003777922.1| response regulator protein [Her... 169 3e-43 >gi|300311469|ref|YP_003775561.1| oxidative stress resistance two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 253 Score = 509 bits (1310), Expect = e-145, Method: Compositional matrix adjust. Identities = 251/253 (99%), Positives = 253/253 (100%) Query: 1 MNTTNGNNTNTTTSANQFKVLVVDDDIRLRDLLRRYLTEQGFNVVTAENAQAMNKLWIRE 60 MNTTNGNN+NTTTSANQFKVLVVDDDIRLRDLLRRYLTEQGFNVVTAENAQAMNKLWIRE Sbjct: 1 MNTTNGNNSNTTTSANQFKVLVVDDDIRLRDLLRRYLTEQGFNVVTAENAQAMNKLWIRE 60 Query: 61 RYDLLVLDLMLPGEDGLAICRRLRGAGDQTPIIMLTAKGEDVDRIIGLEMGADDYLPKPF 120 RYDLLVLDLMLPGEDGLAICRRLRGAGDQTPIIMLTAKGEDVDRIIGLEMGADDYLPKPF Sbjct: 61 RYDLLVLDLMLPGEDGLAICRRLRGAGDQTPIIMLTAKGEDVDRIIGLEMGADDYLPKPF 120 Query: 121 NPRELVARINAVLRRKGPDELPGAPSETPETFEFGDFILDLGTRTLKKNGETISLTTGEF 180 NPRELVARINAVLRRKGPDELPGAPSETPETFEFGDFILDLGTRTLKKNG+TISLTTGEF Sbjct: 121 NPRELVARINAVLRRKGPDELPGAPSETPETFEFGDFILDLGTRTLKKNGDTISLTTGEF 180 Query: 181 SVLKVFARNARQPLSREKLMEMARGREYEVFDRSLDVQISRLRKLIEPDPANPLYIQTVW 240 SVLKVFARNARQPLSREKLMEMARGREYEVFDRSLDVQISRLRKLIEPDPANPLYIQTVW Sbjct: 181 SVLKVFARNARQPLSREKLMEMARGREYEVFDRSLDVQISRLRKLIEPDPANPLYIQTVW 240 Query: 241 GLGYVFIPEGKPR 253 GLGYVFIPEGKPR Sbjct: 241 GLGYVFIPEGKPR 253 >gi|300310849|ref|YP_003774941.1| two component transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 248 Score = 200 bits (508), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 111/229 (48%), Positives = 144/229 (62%), Gaps = 3/229 (1%) Query: 19 KVLVVDDDIRLRDLLRRYLTEQGFNVVTAENAQAMNKLWIRERYDLLVLDLMLPGEDGLA 78 +LVVDDD +R LL YL G +TA N M ++ R DL+VLDL LPGEDGL Sbjct: 9 HILVVDDDRDIRTLLAEYLDSNGLRTLTATNGSEMRRVLEESRVDLIVLDLTLPGEDGLT 68 Query: 79 ICRRLRGAGDQTPIIMLTAKGEDVDRIIGLEMGADDYLPKPFNPRELVARINAVLRRKGP 138 +CR LR A P+IMLTA+GE +DRI+GLEMGADDYL KPF PREL ARI +VLRR Sbjct: 69 LCRNLR-ATSSVPVIMLTARGEPLDRILGLEMGADDYLAKPFEPRELFARIRSVLRRTQA 127 Query: 139 DELPGAPSETPETFEFGDFILDLGTRTL-KKNGETISLTTGEFSVLKVFARNARQPLSRE 197 P F + LDL R L ++G ++L+ EF +LKVF + + L+R+ Sbjct: 128 LP-PNMAQPDVAAMRFAGWTLDLTARHLVNRDGVVVALSGAEFRLLKVFLDHPNRVLNRD 186 Query: 198 KLMEMARGREYEVFDRSLDVQISRLRKLIEPDPANPLYIQTVWGLGYVF 246 +L+E+ +GRE + FDRS+D+QISRLR+ + D P I+TV GYV Sbjct: 187 QLLELTQGRESDPFDRSVDIQISRLRQKLGDDARTPTIIKTVRNEGYVL 235 >gi|300313665|ref|YP_003777757.1| two component transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 240 Score = 182 bits (462), Expect = 2e-47, Method: Compositional matrix adjust. Identities = 103/238 (43%), Positives = 147/238 (61%), Gaps = 7/238 (2%) Query: 15 ANQFKVLVVDDDIRLRDLLRRYLTEQGFNVVTAENAQAMNKLWIRERYDLLVLDLMLPGE 74 Q VL+VDDD +R LL YL + TA Q M ++ ER D+++LDLM+PGE Sbjct: 2 GKQDHVLIVDDDPDIRHLLADYLEAASYRPFTAAGGQEMWRILGSERIDIIILDLMMPGE 61 Query: 75 DGLAICRRLRGAGDQTPIIMLTAKGEDVDRIIGLEMGADDYLPKPFNPRELVARINAVLR 134 DGL +CR LR + TP++MLTA+G +DRI+GLE+GADDYLPKPF+PREL+ARI +LR Sbjct: 62 DGLELCRELRKKRN-TPLVMLTARGTLIDRIVGLEVGADDYLPKPFDPRELLARIKVILR 120 Query: 135 --RKGPDELPGAPSETPETFEFGDFILDLGTR-TLKKNGETISLTTGEFSVLKVFARNAR 191 R P++L ++ F + LD R + +G TI+L ++ VL+ + R Sbjct: 121 RARSFPEKL---EADRVSHIHFAGWKLDTQARQAISPSGVTITLGGSDYQVLRALLEHPR 177 Query: 192 QPLSREKLMEMARGREYEVFDRSLDVQISRLRKLIEPDPANPLYIQTVWGLGYVFIPE 249 + LSR+ L+ G+E FDRS+DV ISRLR+ + +P P I+TV GY+ + + Sbjct: 178 RALSRDFLLNTVYGKEAMPFDRSIDVCISRLRQQLGDNPREPALIRTVRNTGYMLMAD 235 >gi|300311515|ref|YP_003775607.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 229 Score = 179 bits (455), Expect = 1e-46, Method: Compositional matrix adjust. Identities = 98/231 (42%), Positives = 144/231 (62%), Gaps = 4/231 (1%) Query: 19 KVLVVDDDIRLRDLLRRYLTEQGFNVVTAENAQAMNKLWIRERYDLLVLDLMLPGEDGLA 78 KVL++DDD+ L D+L+ YL ++ F V A + +A + +Y + VLD+M+P +G+ Sbjct: 3 KVLLIDDDVELVDMLKEYLEQEKFEVNVAYDGEAGAAEALTGQYAIAVLDVMMPRLNGVD 62 Query: 79 ICRRLRGAGDQTPIIMLTAKGEDVDRIIGLEMGADDYLPKPFNPRELVARINAVLRRKGP 138 RR+R A P++MLTAKG+D DRIIGLE+GADDY+PKP +PRE+ ARI A+LRR Sbjct: 63 TLRRIR-AKSSMPVVMLTAKGDDTDRIIGLELGADDYVPKPCSPREIAARIRAILRRASA 121 Query: 139 DELPGAPSETPETFEFGDFILDLGTRTLKKNGETISLTTGEFSVLKVFARNARQPLSREK 198 + +P G + R NG+ + LT+ EF++L+V ARNA +P+S++ Sbjct: 122 ENNEQSPY---SPLAVGALSMWPEQRRATWNGKPLELTSSEFNLLEVLARNAGKPVSKQH 178 Query: 199 LMEMARGREYEVFDRSLDVQISRLRKLIEPDPANPLYIQTVWGLGYVFIPE 249 L E GR FDR++DV +S +R+ I ++ IQTV+ LGY FI E Sbjct: 179 LSEQGLGRPLARFDRNIDVHLSSIRQKIAALGSDKSCIQTVYRLGYQFIKE 229 >gi|300313830|ref|YP_003777922.1| response regulator protein [Herbaspirillum seropedicae SmR1] Length = 237 Score = 169 bits (427), Expect = 3e-43, Method: Compositional matrix adjust. Identities = 97/231 (41%), Positives = 135/231 (58%), Gaps = 9/231 (3%) Query: 19 KVLVVDDDIRLRDLLRRYLTEQGFNVVTAENAQAMNKLWIR--ERYDLLVLDLMLPGEDG 76 K+L+VDDD + R LL+ YL + + V A + + R + L++LD+MLP DG Sbjct: 4 KILIVDDDQKTRTLLKAYLEKNQYEVRLAHDGATFLAEFQRLADELSLVILDVMLPDTDG 63 Query: 77 LAICRRLRGAGDQTPIIMLTAKGEDVDRIIGLEMGADDYLPKPFNPRELVARINAVLRRK 136 A+C+ +R + P+IMLTA ++ DR++GLE+GADDY+ KP++PREL+ARI A+ RR Sbjct: 64 FALCKAVRRKSN-VPVIMLTASSDETDRVVGLELGADDYIAKPYSPRELLARIKAIHRRI 122 Query: 137 GPDELPGAPSETPETFEFGDFILDLGTRTL-KKNGETISLTTGEFSVLKVFARNARQPLS 195 G D S P + F F LD RTL G+ + LT ++ +LK F + L Sbjct: 123 GIDS-----SAAPRYYRFAGFSLDTVERTLVDSQGDIVPLTGMDYQLLKYFVEHPGDVLD 177 Query: 196 REKLMEMARGREYEVFDRSLDVQISRLRKLIEPDPANPLYIQTVWGLGYVF 246 R L E RGR+ DRSLDVQIS+LR + P I+TV G GYVF Sbjct: 178 RNVLCEETRGRDAGPLDRSLDVQISKLRLRLNDGGRQPHLIKTVRGAGYVF 228 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 0.139 0.404 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: 747,710 Number of extensions: 32643 Number of successful extensions: 231 Number of sequences better than 1.0e-08: 44 Number of HSP's gapped: 199 Number of HSP's successfully gapped: 44 Length of query: 253 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 170 Effective length of database: 1,226,865 Effective search space: 208567050 Effective search space used: 208567050 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)