HEADER TRANSCRIPTION 25-JUN-18 6A60 TITLE CRYSTAL STRUCTURE OF HUMAN FXR/RXR-LBD HETERODIMER BOUND TO GW4064 AND TITLE 2 9CRA AND SRC1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: BILE ACID RECEPTOR; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: LIGAND BINDING DOMAIN; COMPND 5 SYNONYM: FARNESOID X-ACTIVATED RECEPTOR,FARNESOL RECEPTOR HRR-1, COMPND 6 NUCLEAR RECEPTOR SUBFAMILY 1 GROUP H MEMBER 4,RETINOID X RECEPTOR- COMPND 7 INTERACTING PROTEIN 14,RXR-INTERACTING PROTEIN 14; COMPND 8 ENGINEERED: YES; COMPND 9 MUTATION: YES; COMPND 10 MOL_ID: 2; COMPND 11 MOLECULE: NUCLEAR RECEPTOR COACTIVATOR 1; COMPND 12 CHAIN: B, F; COMPND 13 FRAGMENT: LIGAND BINDING DOMAIN; COMPND 14 ENGINEERED: YES; COMPND 15 MOL_ID: 3; COMPND 16 MOLECULE: RETINOIC ACID RECEPTOR RXR-ALPHA; COMPND 17 CHAIN: D; COMPND 18 SYNONYM: NUCLEAR RECEPTOR SUBFAMILY 2 GROUP B MEMBER 1,RETINOID X COMPND 19 RECEPTOR ALPHA; COMPND 20 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: NR1H4, BAR, FXR, HRR1, RIP14; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ROSETTA2(DE3); SOURCE 9 MOL_ID: 2; SOURCE 10 SYNTHETIC: YES; SOURCE 11 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 12 ORGANISM_COMMON: HUMAN; SOURCE 13 ORGANISM_TAXID: 9606; SOURCE 14 MOL_ID: 3; SOURCE 15 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 16 ORGANISM_COMMON: HUMAN; SOURCE 17 ORGANISM_TAXID: 9606; SOURCE 18 GENE: RXRA, NR2B1; SOURCE 19 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 20 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS NUCLEAR RECEPTOR HETERODIMER, TRANSCRIPTION EXPDTA X-RAY DIFFRACTION AUTHOR N.WANG,J.LIU REVDAT 4 27-MAR-24 6A60 1 REMARK REVDAT 3 05-DEC-18 6A60 1 JRNL REVDAT 2 17-OCT-18 6A60 1 COMPND JRNL REVDAT 1 10-OCT-18 6A60 0 JRNL AUTH N.WANG,Q.ZOU,J.XU,J.ZHANG,J.LIU JRNL TITL LIGAND BINDING AND HETERODIMERIZATION WITH RETINOID X JRNL TITL 2 RECEPTOR ALPHA (RXR ALPHA ) INDUCE FARNESOID X RECEPTOR JRNL TITL 3 (FXR) CONFORMATIONAL CHANGES AFFECTING COACTIVATOR BINDING JRNL REF J. BIOL. CHEM. V. 293 18180 2018 JRNL REFN ESSN 1083-351X JRNL PMID 30275017 JRNL DOI 10.1074/JBC.RA118.004652 REMARK 2 REMARK 2 RESOLUTION. 3.05 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0189 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.05 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 74.95 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.5 REMARK 3 NUMBER OF REFLECTIONS : 11002 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) : 0.228 REMARK 3 R VALUE (WORKING SET) : 0.225 REMARK 3 FREE R VALUE : 0.288 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.500 REMARK 3 FREE R VALUE TEST SET COUNT : 521 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 3.05 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.13 REMARK 3 REFLECTION IN BIN (WORKING SET) : 808 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.06 REMARK 3 BIN R VALUE (WORKING SET) : 0.3400 REMARK 3 BIN FREE R VALUE SET COUNT : 37 REMARK 3 BIN FREE R VALUE : 0.4110 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3638 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 58 REMARK 3 SOLVENT ATOMS : 1 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 123.2 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.79000 REMARK 3 B22 (A**2) : -1.79000 REMARK 3 B33 (A**2) : 3.57000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.520 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.425 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 24.502 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.935 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.937 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3768 ; 0.012 ; 0.014 REMARK 3 BOND LENGTHS OTHERS (A): 3513 ; 0.001 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5084 ; 1.732 ; 1.665 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8220 ; 1.029 ; 1.636 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 441 ; 6.806 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 209 ;39.253 ;22.010 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 701 ;20.601 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 24 ;19.290 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 482 ; 0.102 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4122 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 670 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 6A60 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 26-JUN-18. REMARK 100 THE DEPOSITION ID IS D_1300008204. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-NOV-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL19U1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9785 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.5.32 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 11678 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.050 REMARK 200 RESOLUTION RANGE LOW (A) : 102.850 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 13.80 REMARK 200 R MERGE (I) : 0.07100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 19.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.05 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.26 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.7 REMARK 200 DATA REDUNDANCY IN SHELL : 14.40 REMARK 200 R MERGE FOR SHELL (I) : 1.01500 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: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.27 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.52 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M SODIUM ACETATE TRIHYDRATE, 12% REMARK 280 PEG3350, PH 7.0, VAPOR DIFFUSION, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 54.72800 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 51.42450 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 51.42450 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 82.09200 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 51.42450 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 51.42450 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 27.36400 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 51.42450 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 51.42450 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 82.09200 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 51.42450 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 51.42450 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 27.36400 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 54.72800 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, F 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 ILE A 273 REMARK 465 LEU A 274 REMARK 465 LYS A 275 REMARK 465 GLU A 276 REMARK 465 GLU A 277 REMARK 465 PRO A 341 REMARK 465 SER A 342 REMARK 465 GLY A 343 REMARK 465 HIS A 344 REMARK 465 GLN A 472 REMARK 465 GLU B 744 REMARK 465 ARG B 745 REMARK 465 HIS B 746 REMARK 465 GLU B 755 REMARK 465 GLY B 756 REMARK 465 SER B 757 REMARK 465 PRO B 758 REMARK 465 SER B 759 REMARK 465 SER D 225 REMARK 465 ALA D 226 REMARK 465 ASN D 227 REMARK 465 GLU D 243 REMARK 465 PRO D 244 REMARK 465 LYS D 245 REMARK 465 THR D 246 REMARK 465 GLU D 247 REMARK 465 THR D 248 REMARK 465 TYR D 249 REMARK 465 VAL D 250 REMARK 465 GLU D 251 REMARK 465 ALA D 252 REMARK 465 ASN D 253 REMARK 465 MET D 254 REMARK 465 GLY D 255 REMARK 465 LEU D 256 REMARK 465 ASN D 257 REMARK 465 PRO D 258 REMARK 465 SER D 259 REMARK 465 SER D 260 REMARK 465 PRO D 261 REMARK 465 ASN D 262 REMARK 465 PRO D 458 REMARK 465 HIS D 459 REMARK 465 GLN D 460 REMARK 465 MET D 461 REMARK 465 THR D 462 REMARK 465 GLU F 628 REMARK 465 GLY F 640 REMARK 465 SER F 641 REMARK 465 PRO F 642 REMARK 465 SER F 643 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 OD1 ASP A 248 OG1 THR A 251 2.15 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 GLN A 249 -151.26 56.35 REMARK 500 MET A 265 60.07 -155.09 REMARK 500 GLU A 268 50.53 -103.18 REMARK 500 THR A 270 79.01 54.15 REMARK 500 THR A 378 147.51 82.70 REMARK 500 LEU A 391 51.02 -90.37 REMARK 500 TYR A 397 80.86 63.85 REMARK 500 ASP A 400 60.94 -103.55 REMARK 500 VAL A 456 -159.38 -124.18 REMARK 500 ASN A 457 59.91 -114.63 REMARK 500 HIS A 459 -155.30 -139.69 REMARK 500 PRO A 463 -39.05 -34.36 REMARK 500 ASP A 470 162.73 70.72 REMARK 500 MET D 230 77.84 -108.32 REMARK 500 HIS D 288 -8.29 82.79 REMARK 500 ASP D 322 76.11 33.71 REMARK 500 ARG D 414 -35.80 -135.79 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 436 0.10 SIDE CHAIN REMARK 500 ARG D 414 0.09 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 ARG F 635 10.46 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 601 DISTANCE = 6.32 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 064 A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 9CR D 501 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6A5W RELATED DB: PDB REMARK 900 RELATED ID: 6A5X RELATED DB: PDB REMARK 900 RELATED ID: 6A5Y RELATED DB: PDB REMARK 900 RELATED ID: 6A5Z RELATED DB: PDB DBREF 6A60 A 244 472 UNP Q96RI1 NR1H4_HUMAN 258 486 DBREF 6A60 B 744 759 UNP B5MCN7 B5MCN7_HUMAN 534 549 DBREF 6A60 D 225 462 UNP P19793 RXRA_HUMAN 225 462 DBREF 6A60 F 628 643 UNP B5MCN7 B5MCN7_HUMAN 534 549 SEQADV 6A60 GLU A 432 UNP Q96RI1 CYS 446 ENGINEERED MUTATION SEQADV 6A60 GLU A 466 UNP Q96RI1 CYS 480 ENGINEERED MUTATION SEQRES 1 A 229 GLU LEU THR PRO ASP GLN GLN THR LEU LEU HIS PHE ILE SEQRES 2 A 229 MET ASP SER TYR ASN LYS GLN ARG MET PRO GLN GLU ILE SEQRES 3 A 229 THR ASN LYS ILE LEU LYS GLU GLU PHE SER ALA GLU GLU SEQRES 4 A 229 ASN PHE LEU ILE LEU THR GLU MET ALA THR ASN HIS VAL SEQRES 5 A 229 GLN VAL LEU VAL GLU PHE THR LYS LYS LEU PRO GLY PHE SEQRES 6 A 229 GLN THR LEU ASP HIS GLU ASP GLN ILE ALA LEU LEU LYS SEQRES 7 A 229 GLY SER ALA VAL GLU ALA MET PHE LEU ARG SER ALA GLU SEQRES 8 A 229 ILE PHE ASN LYS LYS LEU PRO SER GLY HIS SER ASP LEU SEQRES 9 A 229 LEU GLU GLU ARG ILE ARG ASN SER GLY ILE SER ASP GLU SEQRES 10 A 229 TYR ILE THR PRO MET PHE SER PHE TYR LYS SER ILE GLY SEQRES 11 A 229 GLU LEU LYS MET THR GLN GLU GLU TYR ALA LEU LEU THR SEQRES 12 A 229 ALA ILE VAL ILE LEU SER PRO ASP ARG GLN TYR ILE LYS SEQRES 13 A 229 ASP ARG GLU ALA VAL GLU LYS LEU GLN GLU PRO LEU LEU SEQRES 14 A 229 ASP VAL LEU GLN LYS LEU CYS LYS ILE HIS GLN PRO GLU SEQRES 15 A 229 ASN PRO GLN HIS PHE ALA GLU LEU LEU GLY ARG LEU THR SEQRES 16 A 229 GLU LEU ARG THR PHE ASN HIS HIS HIS ALA GLU MET LEU SEQRES 17 A 229 MET SER TRP ARG VAL ASN ASP HIS LYS PHE THR PRO LEU SEQRES 18 A 229 LEU GLU GLU ILE TRP ASP VAL GLN SEQRES 1 B 16 GLU ARG HIS LYS ILE LEU HIS ARG LEU LEU GLN GLU GLY SEQRES 2 B 16 SER PRO SER SEQRES 1 D 238 SER ALA ASN GLU ASP MET PRO VAL GLU ARG ILE LEU GLU SEQRES 2 D 238 ALA GLU LEU ALA VAL GLU PRO LYS THR GLU THR TYR VAL SEQRES 3 D 238 GLU ALA ASN MET GLY LEU ASN PRO SER SER PRO ASN ASP SEQRES 4 D 238 PRO VAL THR ASN ILE CYS GLN ALA ALA ASP LYS GLN LEU SEQRES 5 D 238 PHE THR LEU VAL GLU TRP ALA LYS ARG ILE PRO HIS PHE SEQRES 6 D 238 SER GLU LEU PRO LEU ASP ASP GLN VAL ILE LEU LEU ARG SEQRES 7 D 238 ALA GLY TRP ASN GLU LEU LEU ILE ALA SER PHE SER HIS SEQRES 8 D 238 ARG SER ILE ALA VAL LYS ASP GLY ILE LEU LEU ALA THR SEQRES 9 D 238 GLY LEU HIS VAL HIS ARG ASN SER ALA HIS SER ALA GLY SEQRES 10 D 238 VAL GLY ALA ILE PHE ASP ARG VAL LEU THR GLU LEU VAL SEQRES 11 D 238 SER LYS MET ARG ASP MET GLN MET ASP LYS THR GLU LEU SEQRES 12 D 238 GLY CYS LEU ARG ALA ILE VAL LEU PHE ASN PRO ASP SER SEQRES 13 D 238 LYS GLY LEU SER ASN PRO ALA GLU VAL GLU ALA LEU ARG SEQRES 14 D 238 GLU LYS VAL TYR ALA SER LEU GLU ALA TYR CYS LYS HIS SEQRES 15 D 238 LYS TYR PRO GLU GLN PRO GLY ARG PHE ALA LYS LEU LEU SEQRES 16 D 238 LEU ARG LEU PRO ALA LEU ARG SER ILE GLY LEU LYS CYS SEQRES 17 D 238 LEU GLU HIS LEU PHE PHE PHE LYS LEU ILE GLY ASP THR SEQRES 18 D 238 PRO ILE ASP THR PHE LEU MET GLU MET LEU GLU ALA PRO SEQRES 19 D 238 HIS GLN MET THR SEQRES 1 F 16 GLU ARG HIS LYS ILE LEU HIS ARG LEU LEU GLN GLU GLY SEQRES 2 F 16 SER PRO SER HET 064 A 501 36 HET 9CR D 501 22 HETNAM 064 3-[(E)-2-(2-CHLORO-4-{[3-(2,6-DICHLOROPHENYL)-5-(1- HETNAM 2 064 METHYLETHYL)ISOXAZOL-4-YL]METHOXY}PHENYL) HETNAM 3 064 ETHENYL]BENZOIC ACID HETNAM 9CR (9CIS)-RETINOIC ACID FORMUL 5 064 C28 H22 CL3 N O4 FORMUL 6 9CR C20 H28 O2 FORMUL 7 HOH *(H2 O) HELIX 1 AA1 GLN A 249 ASP A 258 1 10 HELIX 2 AA2 SER A 279 LYS A 304 1 26 HELIX 3 AA3 ASP A 312 ASN A 337 1 26 HELIX 4 AA4 LEU A 347 ASN A 354 1 8 HELIX 5 AA5 SER A 358 GLU A 360 5 3 HELIX 6 AA6 TYR A 361 GLY A 373 1 13 HELIX 7 AA7 MET A 377 LEU A 391 1 15 HELIX 8 AA8 ASP A 400 GLN A 423 1 24 HELIX 9 AA9 GLN A 428 SER A 453 1 26 HELIX 10 AB1 THR A 462 TRP A 469 1 8 HELIX 11 AB2 LEU B 749 LEU B 753 5 5 HELIX 12 AB3 PRO D 231 VAL D 242 1 12 HELIX 13 AB4 PRO D 264 ARG D 285 1 22 HELIX 14 AB5 PRO D 293 SER D 317 1 25 HELIX 15 AB6 ARG D 334 SER D 339 1 6 HELIX 16 AB7 VAL D 342 LEU D 353 1 12 HELIX 17 AB8 LEU D 353 MET D 360 1 8 HELIX 18 AB9 ASP D 363 PHE D 376 1 14 HELIX 19 AC1 ASN D 385 TYR D 408 1 24 HELIX 20 AC2 ARG D 414 LEU D 420 1 7 HELIX 21 AC3 ARG D 421 GLY D 443 1 23 HELIX 22 AC4 ASP D 448 LEU D 455 1 8 HELIX 23 AC5 HIS F 630 GLN F 638 1 9 SHEET 1 AA1 2 GLY D 323 LEU D 325 0 SHEET 2 AA1 2 HIS D 331 HIS D 333 -1 O VAL D 332 N ILE D 324 SITE 1 AC1 14 GLN A 263 ARG A 264 HIS A 294 MET A 328 SITE 2 AC1 14 PHE A 329 ARG A 331 SER A 332 ILE A 335 SITE 3 AC1 14 MET A 365 TYR A 369 HIS A 447 TRP A 454 SITE 4 AC1 14 PHE A 461 LEU A 465 SITE 1 AC2 9 ILE D 268 ALA D 271 GLN D 275 LEU D 309 SITE 2 AC2 9 PHE D 313 ARG D 316 ALA D 327 ILE D 345 SITE 3 AC2 9 CYS D 432 CRYST1 102.849 102.849 109.456 90.00 90.00 90.00 P 43 21 2 16 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 0.009723 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009723 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009136 0.00000