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PPAR tll DAF hFR mGR tAR ~GR ECR hVDR -IR3 R HNF-4 X hRXR o¢ ¢COUP h.ear-2 ARP-1 K hTR25 h.ear-3 svpA NAK NGR-B nur/T? 40000037

Me L E,'~CO - 1 ~.~2 Vo~, 6 ~',~.3.1 6 Zn finger domain 0 25% 50% 75% 95% 0 100 200 400 800 Fig. 2. Similarity Matrices for the DNA-Bindlng Oomalns and Ligand-Binding Domains in Nuclear Receptor Proteins Similarity scores were calculated from either the DNA-blnding domain or the Ilgand-bincling domain sequences for each pair of nuclear receptors using the Smith-Waterman algorithm (7). The value plotted for the DNAJoinding domalns Is percent similarity (see text). Some of the DNA-bInding domains are described in the legend to Fig. 1; the additional, nonidentical ones are described below. The raw s~ilarity scores were used for the matrix representation of the Ilgand-binding domains. The ligand-bincling domain sequences included a~l amino acid residues from the encl of the DNA-binding domain to the C-terminus of the protein. Sequences for the ligand-b|nding domains of the cVDR, ECR, DAF, nRAR, end DHR3 proteins were not available, and these receptors were not included in thls analysis. The additional receptors and the~r sources are: hTR(x2, human thyrold receptor-=2 (#A30893); rTR=J, rat thyroid receptoro=l ($RATTHR); h-ear-7, human esr-7 gene product (#B32286); erb62, rat thyroid receptor (#A31820); rTR, rat thyroid receptor (#A30226); mRAR=, mouse ret~nolc acid receptor-= (#S05052); mRART=, mouse retinolc acid receptor--/= (#A35991); mRAR3"~, mc4Jse ret~no[c acid receptor-of~ (35); hl:~R~, human retino~c ec{d receptoro~ (#S02827); mRAR#, mouse retinoic acid receptoro/~'(#S05051 }; rbPR, rabbit progesterone receptor (#A25923); cFR, chicken progesterone receptor (#S06284); rGR, rat glucocorticoid receptor (#ORRTG); mGRc~, mouse glucoco~coid receptor-= (#S02212); rER, rat estrogen receptor (#S07379); cER, chicken estrogen receptor ($GHKERR); rVDRo rat vitamin D receptor (#A31761); svpB, Drosophila seven-up germs product B (-#B32693); hTR290 human thyroid-related receptor 29 ($HUMTR29); ~nd hTR211, human thyroid-related receptor 211 ($HU?,TrR211). ~nce of the nut!ear receptor precurs(:r, naturrJ se,~tion has retained the configuration of DNA-b!ndlng damon w;th cognate I,~gand-binding demon because damon shut,rig or loss would produce unde~.~rab!e phys[o!og- ica] consequences. Acknowted_qments ° Present address: D~pa.rtment (~f Molacul3r and Ce.,tulat Blcche~st~y, LoyoI~ Un:vers~ty Med!cal Center, Maywood, Th~s wof~ w~s supported by NIH Grant 5-S07-RR-05431- 28 and Amer'c'~J1 C~cer Society Grant IN 149F N]H Grant GM-39271 (to At~n L. Bsy~r), NASA Gr'a~t NAGW- 1233 (to R.H.K.), NSF Grant DM~-8"/16787 (to K.R.Y.), and NIH Grant LM-04969 (to W.R.P.). REFERF.~CES 40000038

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