HEADER HORMONE/GROWTH FACTOR 06-NOV-03 1RDT TITLE CRYSTAL STRUCTURE OF A NEW REXINOID BOUND TO THE RXRALPHA LIGAND TITLE 2 BINDING DOAMIN IN THE RXRALPHA/PPARGAMMA HETERODIMER COMPND MOL_ID: 1; COMPND 2 MOLECULE: RETINOIC ACID RECEPTOR RXR-ALPHA; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: LIGAND BINDING DOAMIN; COMPND 5 SYNONYM: RXRALPHA; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: LXXLL MOTIF COACTIVATOR; COMPND 9 CHAIN: B; COMPND 10 FRAGMENT: LXXLL PEPTIDE; COMPND 11 ENGINEERED: YES; COMPND 12 MOL_ID: 3; COMPND 13 MOLECULE: PEROXISOME PROLIFERATOR ACTIVATED RECEPTOR GAMMA; COMPND 14 CHAIN: D; COMPND 15 FRAGMENT: LIGAND BINDING DOAMIN; COMPND 16 SYNONYM: PPAR-GAMMA; COMPND 17 ENGINEERED: YES; COMPND 18 MOL_ID: 4; COMPND 19 MOLECULE: LXXLL MOTIF COACTIVATOR; COMPND 20 CHAIN: E; COMPND 21 FRAGMENT: LXXLL PEPTIDE; COMPND 22 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: RXRA, NR2B1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PACYC184; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 MOL_ID: 3; SOURCE 14 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 15 ORGANISM_COMMON: HUMAN; SOURCE 16 ORGANISM_TAXID: 9606; SOURCE 17 GENE: PPARG, NR1C3; SOURCE 18 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 19 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 20 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 21 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 22 EXPRESSION_SYSTEM_PLASMID: PRSET; SOURCE 23 MOL_ID: 4; SOURCE 24 SYNTHETIC: YES KEYWDS HORMONE, RECEPTOR, POLYMORPHISM, HORMONE-GROWTH FACTOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR C.D.HAFFNER,J.M.LENHARD,A.B.MILLER,D.L.MCDOUGALD,K.DWORNIK, AUTHOR 2 O.R.ITTOOP,R.T.GAMPE JR.,H.E.XU,S.BLANCHARD,V.G.MONTANA REVDAT 3 23-AUG-23 1RDT 1 REMARK SEQADV HETSYN REVDAT 2 24-FEB-09 1RDT 1 VERSN REVDAT 1 09-NOV-04 1RDT 0 JRNL AUTH C.D.HAFFNER,J.M.LENHARD,A.B.MILLER,D.L.MCDOUGALD,K.DWORNIK, JRNL AUTH 2 O.R.ITTOOP,R.T.GAMPE JR.,H.E.XU,S.BLANCHARD,V.G.MONTANA, JRNL AUTH 3 T.G.CONSLER,R.K.BLEDSOE,A.AYSCUE,D.CROOM JRNL TITL STRUCTURE-BASED DESIGN OF POTENT RETINOID X RECEPTOR ALPHA JRNL TITL 2 AGONISTS. JRNL REF J.MED.CHEM. V. 47 2010 2004 JRNL REFN ISSN 0022-2623 JRNL PMID 15056000 JRNL DOI 10.1021/JM030565G REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNX 2000 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN,ACCELRYS REMARK 3 : SOFTWARE INC.(BADGER,BERARD,KUMAR,SZALMA, REMARK 3 : YIP,DZAKULA) REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : 330222. REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 97.1 REMARK 3 NUMBER OF REFLECTIONS : 21429 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.221 REMARK 3 R VALUE (WORKING SET) : 0.221 REMARK 3 FREE R VALUE : 0.259 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.900 REMARK 3 FREE R VALUE TEST SET COUNT : 2121 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.060 REMARK 3 REMARK 3 FIT/AGREEMENT OF MODEL WITH ALL DATA. REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : NULL REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : NULL REMARK 3 FREE R VALUE (NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : NULL REMARK 3 ESTIMATED ERROR OF FREE R VALUE (NO CUTOFF) : NULL REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.55 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 94.30 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 3032 REMARK 3 BIN R VALUE (WORKING SET) : 0.2350 REMARK 3 BIN FREE R VALUE : 0.2830 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 10.60 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 359 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.015 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3753 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 69 REMARK 3 SOLVENT ATOMS : 205 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 34.50 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 41.30 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.27 REMARK 3 ESD FROM SIGMAA (A) : 0.16 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.34 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.23 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.005 REMARK 3 BOND ANGLES (DEGREES) : 1.300 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 19.70 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.690 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : ANISOTROPIC REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 3 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 TOPOLOGY FILE 2 : NULL REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1RDT COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 14-NOV-03. REMARK 100 THE DEPOSITION ID IS D_1000020670. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-AUG-99 REMARK 200 TEMPERATURE (KELVIN) : 93.0 REMARK 200 PH : 7.50 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 17-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 25137 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.07100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 36.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : 86.6 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.42200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CNX 2000 REMARK 200 STARTING MODEL: PDB ENTRY 1FM9 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.43 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.21 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 17% PEG 4K, 200MM NASCN, 8% ETHYLENE REMARK 280 GLYCOL, 8% GLYCEROL, PH 7.5, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 295K, PH 7.50 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 24.84500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 105.85000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 27.29000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 105.85000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 24.84500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 27.29000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TETRAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, D, E REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 221 REMARK 465 LYS A 222 REMARK 465 LYS A 223 REMARK 465 GLY A 224 REMARK 465 SER A 225 REMARK 465 ALA A 226 REMARK 465 ASN A 227 REMARK 465 LYS A 245 REMARK 465 THR A 246 REMARK 465 GLU A 247 REMARK 465 THR A 248 REMARK 465 TYR A 249 REMARK 465 VAL A 250 REMARK 465 GLU A 251 REMARK 465 ALA A 252 REMARK 465 ASN A 253 REMARK 465 MET A 254 REMARK 465 GLY A 255 REMARK 465 LEU A 256 REMARK 465 ASN A 257 REMARK 465 PRO A 258 REMARK 465 SER A 259 REMARK 465 SER A 260 REMARK 465 PRO A 261 REMARK 465 ASN A 262 REMARK 465 ALA A 457 REMARK 465 PRO A 458 REMARK 465 HIS A 459 REMARK 465 GLN A 460 REMARK 465 MET A 461 REMARK 465 THR A 462 REMARK 465 CYS B 676 REMARK 465 PRO B 677 REMARK 465 SER B 678 REMARK 465 SER B 679 REMARK 465 HIS B 680 REMARK 465 SER B 681 REMARK 465 SER B 682 REMARK 465 LEU B 683 REMARK 465 THR B 684 REMARK 465 GLU B 685 REMARK 465 ARG B 686 REMARK 465 GLU B 696 REMARK 465 GLY B 697 REMARK 465 SER B 698 REMARK 465 PRO B 699 REMARK 465 SER B 700 REMARK 465 MET D 194 REMARK 465 LYS D 195 REMARK 465 LYS D 196 REMARK 465 GLY D 197 REMARK 465 HIS D 198 REMARK 465 HIS D 199 REMARK 465 HIS D 200 REMARK 465 HIS D 201 REMARK 465 HIS D 202 REMARK 465 HIS D 203 REMARK 465 GLY D 204 REMARK 465 ARG D 205 REMARK 465 MET D 257 REMARK 465 GLY D 258 REMARK 465 GLU D 259 REMARK 465 ASP D 260 REMARK 465 LYS D 261 REMARK 465 ILE D 262 REMARK 465 LYS D 263 REMARK 465 PHE D 264 REMARK 465 LYS D 265 REMARK 465 HIS D 266 REMARK 465 ILE D 267 REMARK 465 THR D 268 REMARK 465 PRO D 269 REMARK 465 LEU D 270 REMARK 465 GLN D 271 REMARK 465 GLU D 272 REMARK 465 GLN D 273 REMARK 465 SER D 274 REMARK 465 LYS D 275 REMARK 465 ASN E 57 REMARK 465 LEU E 58 REMARK 465 VAL E 59 REMARK 465 PRO E 60 REMARK 465 ASP E 61 REMARK 465 ALA E 62 REMARK 465 ALA E 63 REMARK 465 SER E 64 REMARK 465 LYS E 65 REMARK 465 HIS E 66 REMARK 465 ARG E 74 REMARK 465 GLY E 75 REMARK 465 GLY E 76 REMARK 465 SER E 77 REMARK 465 GLY E 78 REMARK 465 SER E 79 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 ASP A 263 CB CG OD1 OD2 REMARK 470 LEU A 330 CG CD1 CD2 REMARK 470 ASP A 444 CB CG OD1 OD2 REMARK 470 THR A 445 CB OG1 CG2 REMARK 470 PRO A 446 CB CG CD REMARK 470 ILE A 447 CB CG1 CG2 CD1 REMARK 470 ASP A 448 CB CG OD1 OD2 REMARK 470 LYS B 688 CG CD CE NZ REMARK 470 TYR D 250 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 MET D 252 CB CG SD CE REMARK 470 ASN D 253 CB CG OD1 ND2 REMARK 470 ILE D 279 CG1 CG2 CD1 REMARK 470 LYS D 354 CG CD CE NZ REMARK 470 THR D 461 CB OG1 CG2 REMARK 470 MET D 463 CG SD CE REMARK 470 LYS E 67 CG CD CE NZ REMARK 470 GLN E 68 CG CD OE1 NE2 REMARK 470 LEU E 69 CB CG CD1 CD2 REMARK 470 SER E 70 OG REMARK 470 GLU E 71 CG CD OE1 OE2 REMARK 470 LEU E 72 CG CD1 CD2 REMARK 470 LEU E 73 CG CD1 CD2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 CG GLU A 233 O HOH A 103 1.65 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 CD1 LEU A 240 NE ARG B 692 3645 1.66 REMARK 500 CD1 LEU A 240 CD ARG B 692 3645 1.76 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ASP A 229 -37.77 83.80 REMARK 500 MET A 230 63.74 -152.79 REMARK 500 HIS A 288 -13.73 79.09 REMARK 500 LYS A 321 -92.45 -57.30 REMARK 500 ASP A 322 68.45 -117.86 REMARK 500 HIS A 338 44.54 -79.75 REMARK 500 SER A 339 -18.41 -152.72 REMARK 500 LEU A 353 -70.27 -124.23 REMARK 500 ASN A 385 77.99 -150.51 REMARK 500 LEU A 441 52.06 -69.22 REMARK 500 ILE A 442 -27.13 -161.92 REMARK 500 ASP A 444 41.94 87.08 REMARK 500 THR A 445 53.93 90.19 REMARK 500 PRO A 446 -173.94 -48.23 REMARK 500 ASP D 243 -49.63 -153.29 REMARK 500 LYS D 244 115.62 169.19 REMARK 500 SER D 342 71.39 52.02 REMARK 500 GLU D 343 14.41 56.71 REMARK 500 LYS D 358 -146.87 28.85 REMARK 500 GLN D 430 28.60 46.34 REMARK 500 ASP D 462 56.20 -100.58 REMARK 500 MET D 463 -79.14 -48.00 REMARK 500 SER D 464 109.78 56.65 REMARK 500 LEU D 476 -119.00 -90.08 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE L79 A 463 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 570 D 478 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1FM9 RELATED DB: PDB REMARK 900 THE 2.1A CRYSTAL STRUCTURE OF 9CIS RETINOIC ACID AND GI262570 REMARK 900 RESPECTIVELY BOUND TO THE RXRALPHA / PPARGAMMA HETERODIMER REMARK 900 COACTIVATED WITH SRC1(2) PEPTIDES REMARK 900 RELATED ID: 1FM6 RELATED DB: PDB REMARK 900 THE 2.1A CRYSTAL STRUCTURE OF 9CIS RETINOIC ACID AND ROSIGLITAZONE REMARK 900 RESPECTIVELY BOUND TO THE RXRALPHA / PPARGAMMA HETERODIMER REMARK 900 COACTIVATED WITH SRC1(2) PEPTIDES DBREF 1RDT A 225 462 UNP P19793 RXRA_HUMAN 225 462 DBREF 1RDT D 207 477 UNP P37231 PPAT_HUMAN 235 505 DBREF 1RDT B 676 700 PDB 1RDT 1RDT 676 700 DBREF 1RDT E 57 79 PDB 1RDT 1RDT 57 79 SEQADV 1RDT MET A 221 UNP P19793 CLONING ARTIFACT SEQADV 1RDT LYS A 222 UNP P19793 CLONING ARTIFACT SEQADV 1RDT LYS A 223 UNP P19793 CLONING ARTIFACT SEQADV 1RDT GLY A 224 UNP P19793 CLONING ARTIFACT SEQADV 1RDT MET D 194 UNP P37231 CLONING ARTIFACT SEQADV 1RDT LYS D 195 UNP P37231 CLONING ARTIFACT SEQADV 1RDT LYS D 196 UNP P37231 CLONING ARTIFACT SEQADV 1RDT GLY D 197 UNP P37231 CLONING ARTIFACT SEQADV 1RDT HIS D 198 UNP P37231 CLONING ARTIFACT SEQADV 1RDT HIS D 199 UNP P37231 CLONING ARTIFACT SEQADV 1RDT HIS D 200 UNP P37231 CLONING ARTIFACT SEQADV 1RDT HIS D 201 UNP P37231 CLONING ARTIFACT SEQADV 1RDT HIS D 202 UNP P37231 CLONING ARTIFACT SEQADV 1RDT HIS D 203 UNP P37231 CLONING ARTIFACT SEQADV 1RDT GLY D 204 UNP P37231 CLONING ARTIFACT SEQADV 1RDT ARG D 205 UNP P37231 CLONING ARTIFACT SEQADV 1RDT ALA D 206 UNP P37231 CLONING ARTIFACT SEQRES 1 A 242 MET LYS LYS GLY SER ALA ASN GLU ASP MET PRO VAL GLU SEQRES 2 A 242 ARG ILE LEU GLU ALA GLU LEU ALA VAL GLU PRO LYS THR SEQRES 3 A 242 GLU THR TYR VAL GLU ALA ASN MET GLY LEU ASN PRO SER SEQRES 4 A 242 SER PRO ASN ASP PRO VAL THR ASN ILE CYS GLN ALA ALA SEQRES 5 A 242 ASP LYS GLN LEU PHE THR LEU VAL GLU TRP ALA LYS ARG SEQRES 6 A 242 ILE PRO HIS PHE SER GLU LEU PRO LEU ASP ASP GLN VAL SEQRES 7 A 242 ILE LEU LEU ARG ALA GLY TRP ASN GLU LEU LEU ILE ALA SEQRES 8 A 242 SER PHE SER HIS ARG SER ILE ALA VAL LYS ASP GLY ILE SEQRES 9 A 242 LEU LEU ALA THR GLY LEU HIS VAL HIS ARG ASN SER ALA SEQRES 10 A 242 HIS SER ALA GLY VAL GLY ALA ILE PHE ASP ARG VAL LEU SEQRES 11 A 242 THR GLU LEU VAL SER LYS MET ARG ASP MET GLN MET ASP SEQRES 12 A 242 LYS THR GLU LEU GLY CYS LEU ARG ALA ILE VAL LEU PHE SEQRES 13 A 242 ASN PRO ASP SER LYS GLY LEU SER ASN PRO ALA GLU VAL SEQRES 14 A 242 GLU ALA LEU ARG GLU LYS VAL TYR ALA SER LEU GLU ALA SEQRES 15 A 242 TYR CYS LYS HIS LYS TYR PRO GLU GLN PRO GLY ARG PHE SEQRES 16 A 242 ALA LYS LEU LEU LEU ARG LEU PRO ALA LEU ARG SER ILE SEQRES 17 A 242 GLY LEU LYS CYS LEU GLU HIS LEU PHE PHE PHE LYS LEU SEQRES 18 A 242 ILE GLY ASP THR PRO ILE ASP THR PHE LEU MET GLU MET SEQRES 19 A 242 LEU GLU ALA PRO HIS GLN MET THR SEQRES 1 B 25 CYS PRO SER SER HIS SER SER LEU THR GLU ARG HIS LYS SEQRES 2 B 25 ILE LEU HIS ARG LEU LEU GLN GLU GLY SER PRO SER SEQRES 1 D 284 MET LYS LYS GLY HIS HIS HIS HIS HIS HIS GLY ARG ALA SEQRES 2 D 284 GLU SER ALA ASP LEU ARG ALA LEU ALA LYS HIS LEU TYR SEQRES 3 D 284 ASP SER TYR ILE LYS SER PHE PRO LEU THR LYS ALA LYS SEQRES 4 D 284 ALA ARG ALA ILE LEU THR GLY LYS THR THR ASP LYS SER SEQRES 5 D 284 PRO PHE VAL ILE TYR ASP MET ASN SER LEU MET MET GLY SEQRES 6 D 284 GLU ASP LYS ILE LYS PHE LYS HIS ILE THR PRO LEU GLN SEQRES 7 D 284 GLU GLN SER LYS GLU VAL ALA ILE ARG ILE PHE GLN GLY SEQRES 8 D 284 CYS GLN PHE ARG SER VAL GLU ALA VAL GLN GLU ILE THR SEQRES 9 D 284 GLU TYR ALA LYS SER ILE PRO GLY PHE VAL ASN LEU ASP SEQRES 10 D 284 LEU ASN ASP GLN VAL THR LEU LEU LYS TYR GLY VAL HIS SEQRES 11 D 284 GLU ILE ILE TYR THR MET LEU ALA SER LEU MET ASN LYS SEQRES 12 D 284 ASP GLY VAL LEU ILE SER GLU GLY GLN GLY PHE MET THR SEQRES 13 D 284 ARG GLU PHE LEU LYS SER LEU ARG LYS PRO PHE GLY ASP SEQRES 14 D 284 PHE MET GLU PRO LYS PHE GLU PHE ALA VAL LYS PHE ASN SEQRES 15 D 284 ALA LEU GLU LEU ASP ASP SER ASP LEU ALA ILE PHE ILE SEQRES 16 D 284 ALA VAL ILE ILE LEU SER GLY ASP ARG PRO GLY LEU LEU SEQRES 17 D 284 ASN VAL LYS PRO ILE GLU ASP ILE GLN ASP ASN LEU LEU SEQRES 18 D 284 GLN ALA LEU GLU LEU GLN LEU LYS LEU ASN HIS PRO GLU SEQRES 19 D 284 SER SER GLN LEU PHE ALA LYS LEU LEU GLN LYS MET THR SEQRES 20 D 284 ASP LEU ARG GLN ILE VAL THR GLU HIS VAL GLN LEU LEU SEQRES 21 D 284 GLN VAL ILE LYS LYS THR GLU THR ASP MET SER LEU HIS SEQRES 22 D 284 PRO LEU LEU GLN GLU ILE TYR LYS ASP LEU TYR SEQRES 1 E 23 ASN LEU VAL PRO ASP ALA ALA SER LYS HIS LYS GLN LEU SEQRES 2 E 23 SER GLU LEU LEU ARG GLY GLY SER GLY SER HET L79 A 463 28 HET 570 D 478 41 HETNAM L79 (S)-(2E)-3[4-(5,5,8,8-TETRAMETHYL-5,6,7,8-TETRAHYDRO-2- HETNAM 2 L79 NAPHTHALENYL)TETRAHYDRO-1-BENZOFURAN-2-YL]-2-PROPENOIC HETNAM 3 L79 ACID HETNAM 570 2-(2-BENZOYL-PHENYLAMINO)-3-{4-[2-(5-METHYL-2-PHENYL- HETNAM 2 570 OXAZOL-4-YL)-ETHOXY]-PHENYL}-PROPIONIC ACID HETSYN 570 GI262570; FARGLITAZAR FORMUL 5 L79 C25 H30 O3 FORMUL 6 570 C34 H30 N2 O5 FORMUL 7 HOH *205(H2 O) HELIX 1 1 PRO A 231 ALA A 241 1 11 HELIX 2 2 ASP A 263 ARG A 285 1 23 HELIX 3 3 HIS A 288 LEU A 292 5 5 HELIX 4 4 PRO A 293 SER A 317 1 25 HELIX 5 5 ILE A 318 VAL A 320 5 3 HELIX 6 6 ARG A 334 HIS A 338 1 5 HELIX 7 7 VAL A 342 LEU A 353 1 12 HELIX 8 8 LEU A 353 MET A 360 1 8 HELIX 9 9 ASP A 363 PHE A 376 1 14 HELIX 10 10 ASN A 385 TYR A 408 1 24 HELIX 11 11 GLY A 413 LEU A 420 1 8 HELIX 12 12 ARG A 421 LEU A 441 1 21 HELIX 13 13 ASP A 448 LEU A 455 1 8 HELIX 14 14 HIS B 687 GLN B 695 1 9 HELIX 15 15 GLU D 207 PHE D 226 1 20 HELIX 16 16 THR D 229 GLY D 239 1 11 HELIX 17 17 ASP D 251 MET D 256 1 6 HELIX 18 18 GLU D 276 LYS D 301 1 26 HELIX 19 19 GLY D 305 LEU D 309 5 5 HELIX 20 20 ASP D 310 ALA D 331 1 22 HELIX 21 21 ARG D 350 SER D 355 1 6 HELIX 22 22 LEU D 356 PHE D 363 5 8 HELIX 23 23 MET D 364 ALA D 376 1 13 HELIX 24 24 ASP D 380 LEU D 393 1 14 HELIX 25 25 ASN D 402 HIS D 425 1 24 HELIX 26 26 GLN D 430 GLU D 460 1 31 HELIX 27 27 HIS D 466 LYS D 474 1 9 HELIX 28 28 LYS E 67 LEU E 73 1 7 SHEET 1 A 2 GLY A 323 LEU A 325 0 SHEET 2 A 2 HIS A 331 HIS A 333 -1 O VAL A 332 N ILE A 324 SHEET 1 B 4 PHE D 247 ILE D 249 0 SHEET 2 B 4 GLY D 346 THR D 349 1 O PHE D 347 N PHE D 247 SHEET 3 B 4 GLY D 338 ILE D 341 -1 N ILE D 341 O GLY D 346 SHEET 4 B 4 MET D 334 ASN D 335 -1 N ASN D 335 O GLY D 338 CISPEP 1 GLU A 243 PRO A 244 0 0.41 SITE 1 AC1 14 ILE A 268 ALA A 271 ALA A 272 GLN A 275 SITE 2 AC1 14 ASN A 306 LEU A 309 PHE A 313 ARG A 316 SITE 3 AC1 14 LEU A 326 ALA A 327 ILE A 345 PHE A 346 SITE 4 AC1 14 HIS A 435 LEU A 436 SITE 1 AC2 15 PHE D 282 GLY D 284 CYS D 285 GLN D 286 SITE 2 AC2 15 SER D 289 HIS D 323 TYR D 327 LEU D 330 SITE 3 AC2 15 ILE D 341 MET D 348 PHE D 363 HIS D 449 SITE 4 AC2 15 LEU D 465 LEU D 469 TYR D 473 CRYST1 49.690 54.580 211.700 90.00 90.00 90.00 P 21 21 21 4 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.020125 0.000000 0.000000 0.00000 SCALE2 0.000000 0.018322 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004724 0.00000