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= 0001.4129.p (233 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313558|ref|YP_003777650.1| two component response regulato... 278 2e-76 gi|300310718|ref|YP_003774810.1| phosphate regulon two-component... 69 4e-13 gi|300310163|ref|YP_003774255.1| response regulator protein [Her... 69 5e-13 gi|300311469|ref|YP_003775561.1| oxidative stress resistance two... 68 5e-13 gi|300312356|ref|YP_003776448.1| cobalt/zinc/cadmium resistance ... 66 2e-12 >gi|300313558|ref|YP_003777650.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 233 Score = 278 bits (712), Expect = 2e-76, Method: Compositional matrix adjust. Identities = 149/233 (63%), Positives = 181/233 (77%) Query: 1 MKIGIISSDADTVTLVTQLAERHDTTVYTGAEGFAAACDDGAHLMVLDLDDLQRHPHAIT 60 MKIG++SSDADTV+LV+QL HD T T E + DGA L+VLDLDDL + Sbjct: 1 MKIGLLSSDADTVSLVSQLGYPHDCTHCTSLEELTSLSADGAQLLVLDLDDLLPQADELV 60 Query: 61 TIVHDHRPPVRSKVRPLVLLICTPAHQHWLRNLRLAGADDFLVKPVRRQELALRLDLLLL 120 +V RPP+ + P VLL+ TPAHQ WL LR AGA + LVKP+RRQELALR+DLL+ Sbjct: 61 ELVRRLRPPLATGPAPAVLLLATPAHQDWLWALRQAGAQELLVKPLRRQELALRMDLLMR 120 Query: 121 AAQPYEAPPNIVEAAGFVVDLARLRVTHPARPDLDATLTRKEAELALLFMQHLGRPLSRA 180 A+P EA ++ A GF++DLARLRVTHP RP+L+A+LTRKEAELALLF+Q+LGRPLSRA Sbjct: 121 TAEPAEAQTRVIAAGGFLLDLARLRVTHPQRPELEASLTRKEAELALLFLQNLGRPLSRA 180 Query: 181 FLLERIWGNEQETPTRTIDTHVSRIRTKLGLQPSNGYQLATVYGYGYQLEKLE 233 FL E++WG E E PTRTIDTHVSR+RTKLGLQP +GY+LATVYGYGYQLE+L+ Sbjct: 181 FLQEKVWGAEPELPTRTIDTHVSRVRTKLGLQPGHGYRLATVYGYGYQLERLD 233 >gi|300310718|ref|YP_003774810.1| phosphate regulon two-component response regulator transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 230 Score = 68.6 bits (166), Expect = 4e-13, Method: Compositional matrix adjust. Identities = 49/169 (28%), Positives = 84/169 (49%), Gaps = 8/169 (4%) Query: 61 TIVHDHRPPVRSKVRPLVLLICTPAHQHWLRNLRLAGADDFLVKPVRRQELALRLDLLLL 120 ++++ R R+ P+++L + ++ L GADD++ KP +EL R+ LL Sbjct: 66 VLLNELRRDQRTASLPVIMLTAKGMEEDKVKGLN-EGADDYVTKPFSPKELVARVQALLR 124 Query: 121 AAQPYEAPPNIVEAAGFVVDLARLRVTHPARPDLDATLTRKEAELALLFMQHLGRPLSRA 180 P E ++ +D+ R +V+ +P L L + E +L + H R SRA Sbjct: 125 RKAP-EIGSQALKYRDISIDVERRQVSVADKPVL---LDQAEFKLLRYLVAHPERIFSRA 180 Query: 181 FLLERIWGNEQETPTRTIDTHVSRIRTKLGLQPSNGYQLATVYGYGYQL 229 LL+++WG+ RT+D H+ R+R LG + + TV G GY+L Sbjct: 181 QLLDKVWGDHTFIEERTVDVHIMRLRKSLG---DLAHYVQTVRGMGYKL 226 >gi|300310163|ref|YP_003774255.1| response regulator protein [Herbaspirillum seropedicae SmR1] Length = 239 Score = 68.6 bits (166), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 42/137 (30%), Positives = 69/137 (50%), Gaps = 4/137 (2%) Query: 97 GADDFLVKPVRRQELALRLDLLLLAAQPYEAPPNIVEAAGFVVDLARLRVTHPARPDLDA 156 GADDFL +P EL R++ ++ P + ++E AGF + + ++ + Sbjct: 94 GADDFLQRPFDAVELVARINAVMRRCAP-KNNRRVIEYAGFQLQRDTAKFSYQG---MGI 149 Query: 157 TLTRKEAELALLFMQHLGRPLSRAFLLERIWGNEQETPTRTIDTHVSRIRTKLGLQPSNG 216 +LT +E +A LF G +SR L IW + E RTI+ HV ++R KL + N Sbjct: 150 SLTPREFSMAWLFFSSPGVYISRETLGSVIWSTDSEIAGRTIEQHVYKLRKKLQIDNRNV 209 Query: 217 YQLATVYGYGYQLEKLE 233 + T Y GY+L+ ++ Sbjct: 210 VVIRTAYSQGYRLDPVD 226 >gi|300311469|ref|YP_003775561.1| oxidative stress resistance two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 253 Score = 68.2 bits (165), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 49/159 (30%), Positives = 78/159 (49%), Gaps = 12/159 (7%) Query: 76 PLVLLICTPAHQHWLRNLRLAGADDFLVKPVRRQELALRLDLLLLAAQPYEAP------P 129 P+++L + L + GADD+L KP +EL R++ +L P E P P Sbjct: 91 PIIMLTAKGEDVDRIIGLEM-GADDYLPKPFNPRELVARINAVLRRKGPDELPGAPSETP 149 Query: 130 NIVEAAGFVVDLARLRVTHPARPDLDA-TLTRKEAELALLFMQHLGRPLSRAFLLERIWG 188 E F++DL T + + D +LT E + +F ++ +PLSR L+E G Sbjct: 150 ETFEFGDFILDLG----TRTLKKNGDTISLTTGEFSVLKVFARNARQPLSREKLMEMARG 205 Query: 189 NEQETPTRTIDTHVSRIRTKLGLQPSNGYQLATVYGYGY 227 E E R++D +SR+R + P+N + TV+G GY Sbjct: 206 REYEVFDRSLDVQISRLRKLIEPDPANPLYIQTVWGLGY 244 >gi|300312356|ref|YP_003776448.1| cobalt/zinc/cadmium resistance two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 223 Score = 66.2 bits (160), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 65/209 (31%), Positives = 93/209 (44%), Gaps = 25/209 (11%) Query: 29 TGAEGFAAACDDGAHLMVLD-----LDDLQRHPHAITTIVHDHRPPVRSKVRPLVLLICT 83 GA+G A + L+VLD LD Q +RSK VL + Sbjct: 32 NGADGLHMALEQDYDLVVLDVMLPGLDGWQVMS------------ALRSKRDLPVLFLTA 79 Query: 84 PAH-QHWLRNLRLAGADDFLVKPVRRQELALRLDLLLLAAQPYEAPPNIVEAAGFVVDLA 142 H +R L+L GADD+LVKP EL LR+ LL EA + E A +D Sbjct: 80 RDHVDDRIRGLQL-GADDYLVKPFSFTELVLRIRTLLRRGVTREA--EVYEIADLQLDHV 136 Query: 143 RLRVTHPARPDLDATLTRKEAELALLFMQHLGRPLSRAFLLERIWGNEQETPTRTIDTHV 202 R +VT R ++ LT KE L L ++ G LSR+ + +IW ++ T +D + Sbjct: 137 RHKVT---RQGVNIALTNKEFMLLHLLIKRQGEALSRSVIASQIWDMNFDSDTNVVDVAI 193 Query: 203 SRIRTKLGLQPSNGYQLATVYGYGYQLEK 231 R+R K+ P + + TV GY + Sbjct: 194 KRLRAKID-APFDKKLIHTVRSVGYMFSE 221 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 0.323 0.138 0.411 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: 726,717 Number of extensions: 27749 Number of successful extensions: 129 Number of sequences better than 1.0e-08: 14 Number of HSP's gapped: 130 Number of HSP's successfully gapped: 14 Length of query: 233 Length of database: 1,619,870 Length adjustment: 82 Effective length of query: 151 Effective length of database: 1,231,600 Effective search space: 185971600 Effective search space used: 185971600 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)