PDB Short entry for 1P8D HEADER MEMBRANE PROTEIN/PROTEIN BINDING 06-MAY-03 1P8D TITLE X-RAY CRYSTAL STRUCTURE OF LXR LIGAND BINDING DOMAIN WITH 24(S),25- TITLE 2 EPOXYCHOLESTEROL COMPND MOL_ID: 1; COMPND 2 MOLECULE: OXYSTEROLS RECEPTOR LXR-BETA; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: LIVER X RECEPTOR BETA LIGAND BINDING DOMAIN (RESIDUES 214- COMPND 5 461); COMPND 6 SYNONYM: LIVER X RECEPTOR BETA, NUCLEAR ORPHAN RECEPTOR LXR-BETA, COMPND 7 UBIQUITOUSLY-EXPRESSED NUCLEAR RECEPTOR, NUCLEAR RECEPTOR NER; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: NUCLEAR RECEPTOR COACTIVATOR 1 ISOFORM 3; COMPND 11 CHAIN: C, D; COMPND 12 FRAGMENT: STEROID RECEPTOR CO-ACTIVATOR 1 (RESIDUES 676-700); COMPND 13 SYNONYM: STEROID RECEPTOR CO-ACTIVATOR 1, SRC1; COMPND 14 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: NR1H2 OR LXRB OR UNR OR NER; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21[DE3]; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PHTC; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 OTHER_DETAILS: PEPETIDE SYNTHESIS KEYWDS LXR, EPOXYCHOLESTEROL, NUCLEAR RECEPTOR, STEROID RECEPTOR, LIVER X KEYWDS 2 RECEPTOR, TRANSCRIPTION, MEMBRANE PROTEIN-PROTEIN BINDING COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR S.WILLIAMS,R.K.BLEDSOE,J.L.COLLINS,S.BOGGS,M.H.LAMBERT,A.B.MILLER, AUTHOR 2 J.MOORE,D.D.MCKEE,L.MOORE,J.NICHOLS,D.PARKS,M.WATSON,B.WISELY, AUTHOR 3 T.M.WILLSON REVDAT 7 03-APR-24 1P8D 1 REMARK REVDAT 6 14-FEB-24 1P8D 1 COMPND REMARK SEQADV HETNAM REVDAT 5 11-OCT-17 1P8D 1 REMARK REVDAT 4 16-NOV-11 1P8D 1 VERSN HETATM REVDAT 3 24-FEB-09 1P8D 1 VERSN REVDAT 2 22-JUL-03 1P8D 1 JRNL REVDAT 1 08-JUL-03 1P8D 0 JRNL AUTH S.WILLIAMS,R.K.BLEDSOE,J.L.COLLINS,S.BOGGS,M.H.LAMBERT, JRNL AUTH 2 A.B.MILLER,J.MOORE,D.D.MCKEE,L.MOORE,J.NICHOLS,D.PARKS, JRNL AUTH 3 M.WATSON,B.WISELY,T.M.WILLSON JRNL TITL X-RAY CRYSTAL STRUCTURE OF THE LIVER X RECEPTOR BETA LIGAND JRNL TITL 2 BINDING DOMAIN: REGULATION BY A HISTIDINE-TRYPTOPHAN SWITCH. JRNL REF J.BIOL.CHEM. V. 278 27138 2003 JRNL REFN ISSN 0021-9258 JRNL PMID 12736258 JRNL DOI 10.1074/JBC.M302260200 REMARK 2 REMARK 2 RESOLUTION. 2.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.80 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)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 98.5 REMARK 3 NUMBER OF REFLECTIONS : 15658 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 SET) : 0.214 REMARK 3 FREE R VALUE : 0.277 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 1124 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4116 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 58 REMARK 3 SOLVENT ATOMS : 99 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 19.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.015 REMARK 3 BOND ANGLES (DEGREES) : 1.700 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : ISOTROPIC 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 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1P8D COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-MAY-03. REMARK 100 THE DEPOSITION ID IS D_1000019135. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-DEC-01 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 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) : 1.0 REMARK 200 MONOCHROMATOR : SAGITALLY FOCUSED SI(111) REMARK 200 OPTICS : MONOCHROMATOR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MAR REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 15658 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.800 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.5 REMARK 200 DATA REDUNDANCY : 3.000 REMARK 200 R MERGE (I) : 0.10000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 12.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.90 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.3 REMARK 200 DATA REDUNDANCY IN SHELL : 3.00 REMARK 200 R MERGE FOR SHELL (I) : 0.36000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: RXR LBD REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.73 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.50 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10-12% PEG3350-8000, 0.2M NACL , PH REMARK 280 8.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 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 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 73.78000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 73.78000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 35.58300 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 60.00600 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 35.58300 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 60.00600 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 73.78000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 35.58300 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 60.00600 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 73.78000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 35.58300 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 60.00600 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2480 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12480 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -12.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2200 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12530 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -11.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, D 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 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6730 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22950 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -33.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH B 33 LIES ON A SPECIAL POSITION. 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 GLY A 212 REMARK 465 SER A 213 REMARK 465 GLU A 214 REMARK 465 GLY A 215 REMARK 465 GLU A 216 REMARK 465 GLY A 217 REMARK 465 GLY A 255 REMARK 465 ALA A 256 REMARK 465 ASP A 257 REMARK 465 PRO A 258 REMARK 465 GLY B 212 REMARK 465 SER B 213 REMARK 465 GLU B 214 REMARK 465 GLY B 215 REMARK 465 GLU B 216 REMARK 465 GLY B 217 REMARK 465 ASP B 257 REMARK 465 PRO B 258 REMARK 465 GLN B 259 REMARK 465 HIS B 460 REMARK 465 GLU B 461 REMARK 465 CYS C -9 REMARK 465 PRO C -8 REMARK 465 SER C -7 REMARK 465 SER C -6 REMARK 465 HIS C -5 REMARK 465 SER C -4 REMARK 465 SER C 13 REMARK 465 PRO C 14 REMARK 465 SER C 15 REMARK 465 CYS D -9 REMARK 465 PRO D -8 REMARK 465 SER D -7 REMARK 465 SER D -6 REMARK 465 HIS D -5 REMARK 465 SER D -4 REMARK 465 SER D -3 REMARK 465 LEU D -2 REMARK 465 THR D -1 REMARK 465 GLU D 0 REMARK 465 PRO D 14 REMARK 465 SER D 15 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 VAL A 218 CG1 CG2 REMARK 470 GLN A 219 CG CD OE1 NE2 REMARK 470 LYS A 248 CG CD CE NZ REMARK 470 GLN A 259 CG CD OE1 NE2 REMARK 470 GLU A 461 CG CD OE1 OE2 REMARK 470 VAL B 218 CG1 CG2 REMARK 470 GLN B 219 CG CD OE1 NE2 REMARK 470 LYS B 240 CG CD CE NZ REMARK 470 SER C -3 OG REMARK 470 THR C -1 OG1 CG2 REMARK 470 GLU C 0 CG CD OE1 OE2 REMARK 470 SER D 13 OG 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 NE2 GLN A 397 O HOH A 99 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 TRP B 252 NE1 TRP B 252 CE2 0.113 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 LYS B 331 CA - C - N ANGL. DEV. = -16.8 DEGREES REMARK 500 LYS B 331 O - C - N ANGL. DEV. = 10.0 DEGREES REMARK 500 GLN B 445 N - CA - C ANGL. DEV. = -17.4 DEGREES 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 246 94.23 -51.67 REMARK 500 PRO A 247 148.49 -27.57 REMARK 500 THR A 250 128.64 -34.86 REMARK 500 PRO A 253 -156.49 -69.17 REMARK 500 SER A 260 -177.49 -175.09 REMARK 500 ALA A 343 -9.32 -56.83 REMARK 500 ASP A 366 -165.97 -106.92 REMARK 500 PHE A 379 52.02 -91.10 REMARK 500 GLU A 388 66.59 -114.61 REMARK 500 PHE B 329 -81.58 -47.76 REMARK 500 ASP B 332 -9.53 163.62 REMARK 500 LEU B 442 41.64 -101.67 REMARK 500 THR C -1 -37.72 166.72 REMARK 500 GLU D 11 77.06 162.97 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 LYS B 331 ASP B 332 149.37 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 TYR A 335 0.10 SIDE CHAIN 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 CO1 A 108 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CO1 B 109 DBREF 1P8D A 214 461 UNP P55055 NR1H2_HUMAN 214 461 DBREF 1P8D B 214 461 UNP P55055 NR1H2_HUMAN 214 461 DBREF 1P8D C -9 15 GB 22538459 NP_671766 676 700 DBREF 1P8D D -9 15 GB 22538459 NP_671766 676 700 SEQADV 1P8D GLY A 212 UNP P55055 CLONING ARTIFACT SEQADV 1P8D SER A 213 UNP P55055 CLONING ARTIFACT SEQADV 1P8D GLY B 212 UNP P55055 CLONING ARTIFACT SEQADV 1P8D SER B 213 UNP P55055 CLONING ARTIFACT SEQRES 1 A 250 GLY SER GLU GLY GLU GLY VAL GLN LEU THR ALA ALA GLN SEQRES 2 A 250 GLU LEU MET ILE GLN GLN LEU VAL ALA ALA GLN LEU GLN SEQRES 3 A 250 CYS ASN LYS ARG SER PHE SER ASP GLN PRO LYS VAL THR SEQRES 4 A 250 PRO TRP PRO LEU GLY ALA ASP PRO GLN SER ARG ASP ALA SEQRES 5 A 250 ARG GLN GLN ARG PHE ALA HIS PHE THR GLU LEU ALA ILE SEQRES 6 A 250 ILE SER VAL GLN GLU ILE VAL ASP PHE ALA LYS GLN VAL SEQRES 7 A 250 PRO GLY PHE LEU GLN LEU GLY ARG GLU ASP GLN ILE ALA SEQRES 8 A 250 LEU LEU LYS ALA SER THR ILE GLU ILE MET LEU LEU GLU SEQRES 9 A 250 THR ALA ARG ARG TYR ASN HIS GLU THR GLU CYS ILE THR SEQRES 10 A 250 PHE LEU LYS ASP PHE THR TYR SER LYS ASP ASP PHE HIS SEQRES 11 A 250 ARG ALA GLY LEU GLN VAL GLU PHE ILE ASN PRO ILE PHE SEQRES 12 A 250 GLU PHE SER ARG ALA MET ARG ARG LEU GLY LEU ASP ASP SEQRES 13 A 250 ALA GLU TYR ALA LEU LEU ILE ALA ILE ASN ILE PHE SER SEQRES 14 A 250 ALA ASP ARG PRO ASN VAL GLN GLU PRO GLY ARG VAL GLU SEQRES 15 A 250 ALA LEU GLN GLN PRO TYR VAL GLU ALA LEU LEU SER TYR SEQRES 16 A 250 THR ARG ILE LYS ARG PRO GLN ASP GLN LEU ARG PHE PRO SEQRES 17 A 250 ARG MET LEU MET LYS LEU VAL SER LEU ARG THR LEU SER SEQRES 18 A 250 SER VAL HIS SER GLU GLN VAL PHE ALA LEU ARG LEU GLN SEQRES 19 A 250 ASP LYS LYS LEU PRO PRO LEU LEU SER GLU ILE TRP ASP SEQRES 20 A 250 VAL HIS GLU SEQRES 1 B 250 GLY SER GLU GLY GLU GLY VAL GLN LEU THR ALA ALA GLN SEQRES 2 B 250 GLU LEU MET ILE GLN GLN LEU VAL ALA ALA GLN LEU GLN SEQRES 3 B 250 CYS ASN LYS ARG SER PHE SER ASP GLN PRO LYS VAL THR SEQRES 4 B 250 PRO TRP PRO LEU GLY ALA ASP PRO GLN SER ARG ASP ALA SEQRES 5 B 250 ARG GLN GLN ARG PHE ALA HIS PHE THR GLU LEU ALA ILE SEQRES 6 B 250 ILE SER VAL GLN GLU ILE VAL ASP PHE ALA LYS GLN VAL SEQRES 7 B 250 PRO GLY PHE LEU GLN LEU GLY ARG GLU ASP GLN ILE ALA SEQRES 8 B 250 LEU LEU LYS ALA SER THR ILE GLU ILE MET LEU LEU GLU SEQRES 9 B 250 THR ALA ARG ARG TYR ASN HIS GLU THR GLU CYS ILE THR SEQRES 10 B 250 PHE LEU LYS ASP PHE THR TYR SER LYS ASP ASP PHE HIS SEQRES 11 B 250 ARG ALA GLY LEU GLN VAL GLU PHE ILE ASN PRO ILE PHE SEQRES 12 B 250 GLU PHE SER ARG ALA MET ARG ARG LEU GLY LEU ASP ASP SEQRES 13 B 250 ALA GLU TYR ALA LEU LEU ILE ALA ILE ASN ILE PHE SER SEQRES 14 B 250 ALA ASP ARG PRO ASN VAL GLN GLU PRO GLY ARG VAL GLU SEQRES 15 B 250 ALA LEU GLN GLN PRO TYR VAL GLU ALA LEU LEU SER TYR SEQRES 16 B 250 THR ARG ILE LYS ARG PRO GLN ASP GLN LEU ARG PHE PRO SEQRES 17 B 250 ARG MET LEU MET LYS LEU VAL SER LEU ARG THR LEU SER SEQRES 18 B 250 SER VAL HIS SER GLU GLN VAL PHE ALA LEU ARG LEU GLN SEQRES 19 B 250 ASP LYS LYS LEU PRO PRO LEU LEU SER GLU ILE TRP ASP SEQRES 20 B 250 VAL HIS GLU SEQRES 1 C 25 CYS PRO SER SER HIS SER SER LEU THR GLU ARG HIS LYS SEQRES 2 C 25 ILE LEU HIS ARG LEU LEU GLN GLU GLY SER PRO SER SEQRES 1 D 25 CYS PRO SER SER HIS SER SER LEU THR GLU ARG HIS LYS SEQRES 2 D 25 ILE LEU HIS ARG LEU LEU GLN GLU GLY SER PRO SER HET CO1 A 108 29 HET CO1 B 109 29 HETNAM CO1 17-[3-(3,3-DIMETHYL-OXIRANYL)-1-METHYL-PROPYL]-10,13- HETNAM 2 CO1 DIMETHYL-2,3,4,7,8,9,10,11,12,13,14,15,16,17- HETNAM 3 CO1 TETRADECAHYDRO-1H-CYC LOPENTA[A]PHENANTHREN-3-OL HETSYN CO1 24,25(S)-EPOXYCHOLESTEROL FORMUL 5 CO1 2(C27 H44 O2) FORMUL 7 HOH *99(H2 O) HELIX 1 1 THR A 221 SER A 244 1 24 HELIX 2 2 GLN A 266 LYS A 287 1 22 HELIX 3 3 GLY A 291 LEU A 295 5 5 HELIX 4 4 GLY A 296 ARG A 319 1 24 HELIX 5 5 SER A 336 ALA A 343 1 8 HELIX 6 6 GLN A 346 LEU A 363 1 18 HELIX 7 7 ASP A 366 PHE A 379 1 14 HELIX 8 8 GLU A 388 ARG A 411 1 24 HELIX 9 9 LEU A 416 ARG A 443 1 28 HELIX 10 10 PRO A 450 ASP A 458 1 9 HELIX 11 11 THR B 221 SER B 244 1 24 HELIX 12 12 SER B 260 LYS B 287 1 28 HELIX 13 13 GLY B 291 LEU B 295 5 5 HELIX 14 14 GLY B 296 ARG B 319 1 24 HELIX 15 15 SER B 336 ALA B 343 1 8 HELIX 16 16 GLN B 346 ARG B 362 1 17 HELIX 17 17 ASP B 366 PHE B 379 1 14 HELIX 18 18 GLU B 388 ARG B 411 1 24 HELIX 19 19 LEU B 416 LEU B 442 1 27 HELIX 20 20 PRO B 450 ASP B 458 1 9 HELIX 21 21 HIS C 2 GLU C 11 1 10 HELIX 22 22 HIS D 2 GLY D 12 1 11 SHEET 1 A 2 ILE A 327 LEU A 330 0 SHEET 2 A 2 PHE A 333 TYR A 335 -1 O TYR A 335 N ILE A 327 SHEET 1 B 2 ILE B 327 THR B 328 0 SHEET 2 B 2 THR B 334 TYR B 335 -1 O TYR B 335 N ILE B 327 SITE 1 AC1 13 HOH A 97 ASN A 239 PHE A 243 PHE A 271 SITE 2 AC1 13 SER A 278 GLU A 281 GLU A 315 THR A 316 SITE 3 AC1 13 ARG A 319 PHE A 329 HIS A 435 LEU A 442 SITE 4 AC1 13 TRP A 457 SITE 1 AC2 13 ASN B 239 PHE B 243 PHE B 271 LEU B 274 SITE 2 AC2 13 SER B 278 GLU B 281 GLU B 315 THR B 316 SITE 3 AC2 13 ARG B 319 PHE B 329 HIS B 435 LEU B 442 SITE 4 AC2 13 TRP B 457 CRYST1 71.166 120.012 147.560 90.00 90.00 90.00 C 2 2 21 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 0.014052 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008333 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006777 0.00000