HEADER NUCLEAR PROTEIN 05-DEC-17 5YXJ TITLE FXR LIGAND BINDING DOMAIN CAVEAT 5YXJ RESIDUES LEU A 245 AND THR A 246 ARE NOT PROPERLY LINKED COMPND MOL_ID: 1; COMPND 2 MOLECULE: BILE ACID RECEPTOR; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: FARNESOID X-ACTIVATED RECEPTOR,FARNESOL RECEPTOR HRR-1, COMPND 5 NUCLEAR RECEPTOR SUBFAMILY 1 GROUP H MEMBER 4,RETINOID X RECEPTOR- COMPND 6 INTERACTING PROTEIN 14,RXR-INTERACTING PROTEIN 14; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: PEPTIDE FROM NUCLEAR RECEPTOR COACTIVATOR 2; COMPND 10 CHAIN: C, D; COMPND 11 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 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 11 ORGANISM_COMMON: HUMAN; SOURCE 12 ORGANISM_TAXID: 9606 KEYWDS COMPLEX, NUCLEAR PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR L.YI,L.YONG REVDAT 2 27-MAR-24 5YXJ 1 REMARK REVDAT 1 13-MAR-19 5YXJ 0 JRNL AUTH L.YI,L.YONG JRNL TITL A LIGAND OF DRUG BINDING TO FXR JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.62 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.62 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 115.70 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 87.5 REMARK 3 NUMBER OF REFLECTIONS : 16902 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) : 0.209 REMARK 3 R VALUE (WORKING SET) : 0.207 REMARK 3 FREE R VALUE : 0.248 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 892 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) : 2.62 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.69 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1323 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 91.19 REMARK 3 BIN R VALUE (WORKING SET) : 0.2740 REMARK 3 BIN FREE R VALUE SET COUNT : 64 REMARK 3 BIN FREE R VALUE : 0.3190 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3842 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 70 REMARK 3 SOLVENT ATOMS : 115 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 54.42 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.82000 REMARK 3 B22 (A**2) : -3.21000 REMARK 3 B33 (A**2) : 2.80000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 1.94000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 1.296 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.337 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.232 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 11.153 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.937 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.914 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3991 ; 0.015 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3722 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5385 ; 1.812 ; 1.988 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8660 ; 1.115 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 460 ; 6.711 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 197 ;39.403 ;25.025 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 745 ;19.055 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 19 ;14.141 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 600 ; 0.096 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4303 ; 0.007 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 770 ; 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 : NULL 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 5YXJ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 11-DEC-17. REMARK 100 THE DEPOSITION ID IS D_1300006069. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-OCT-15 REMARK 200 TEMPERATURE (KELVIN) : 293 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL17U1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.05 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 20327 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.620 REMARK 200 RESOLUTION RANGE LOW (A) : 115.700 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 4.900 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.62 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 10.00 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL 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: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.79 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.98 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2M LITHIUM SULFATE MONOHYDRATE, 0.1M REMARK 280 TRIS PH 8.5, 25% W/V POLYETHYLENE GLYCOL 3350, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 81.67550 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 17.48800 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 81.67550 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 17.48800 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: 1000 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11990 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -6.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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: 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: 980 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12060 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -6.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, 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 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 LYS A 339 REMARK 465 LEU A 340 REMARK 465 PRO A 341 REMARK 465 GLN A 472 REMARK 465 LYS B 339 REMARK 465 LEU B 340 REMARK 465 PRO B 341 REMARK 465 SER B 342 REMARK 465 GLY B 343 REMARK 465 VAL B 456 REMARK 465 ASN B 457 REMARK 465 ASP B 458 REMARK 465 GLN B 472 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 LEU A 245 CG CD1 CD2 REMARK 470 ARG B 455 CG CD NE CZ NH1 NH2 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 O THR A 462 O HOH A 601 1.51 REMARK 500 O HOH A 608 O HOH A 662 1.66 REMARK 500 O HOH A 666 O HOH A 678 1.78 REMARK 500 N TRP A 469 O HOH A 602 1.79 REMARK 500 C ILE A 335 O HOH A 604 1.80 REMARK 500 O PRO A 463 O HOH A 603 1.89 REMARK 500 O ILE A 335 O HOH A 604 1.97 REMARK 500 O PRO A 463 O HOH A 605 2.00 REMARK 500 SD MET A 257 O HOH A 663 2.06 REMARK 500 C PRO A 463 O HOH A 603 2.06 REMARK 500 N CYS A 466 O HOH A 601 2.06 REMARK 500 O CYS A 466 O HOH A 606 2.09 REMARK 500 C ILE A 468 O HOH A 602 2.09 REMARK 500 CG2 ILE A 468 O HOH A 602 2.10 REMARK 500 OE1 GLU A 276 O HOH A 607 2.11 REMARK 500 N ASP A 470 O HOH A 606 2.13 REMARK 500 N LEU A 464 O HOH A 608 2.14 REMARK 500 OH TYR A 260 OE2 GLU A 334 2.17 REMARK 500 OH TYR B 382 O HOH B 601 2.17 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 CG GLN B 267 C ARG B 455 1565 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 LEU A 245 C THR A 246 N -0.206 REMARK 500 TRP B 454 CB TRP B 454 CG -0.131 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 LEU A 245 CB - CA - C ANGL. DEV. = 12.0 DEGREES REMARK 500 LEU A 245 CA - C - N ANGL. DEV. = 13.8 DEGREES REMARK 500 LEU A 245 O - C - N ANGL. DEV. = -21.1 DEGREES REMARK 500 THR A 246 N - CA - CB ANGL. DEV. = 16.8 DEGREES REMARK 500 THR A 246 N - CA - C ANGL. DEV. = -16.5 DEGREES REMARK 500 ASP B 312 CB - CA - C ANGL. DEV. = 28.3 DEGREES REMARK 500 ASP B 312 N - CA - C ANGL. DEV. = -20.4 DEGREES REMARK 500 ARG B 351 NE - CZ - NH1 ANGL. DEV. = 3.3 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 LEU A 245 131.81 113.61 REMARK 500 LEU A 391 45.26 -97.79 REMARK 500 GLU A 425 -37.34 -34.52 REMARK 500 VAL A 456 -33.64 -143.74 REMARK 500 LEU B 245 75.13 65.67 REMARK 500 ASP B 312 176.84 166.79 REMARK 500 LEU B 391 53.90 -101.88 REMARK 500 ILE B 421 -74.04 -66.16 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 LEU A 245 -20.53 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 93U A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 93U B 501 DBREF 5YXJ A 244 472 UNP Q96RI1 NR1H4_HUMAN 258 486 DBREF 5YXJ B 244 472 UNP Q96RI1 NR1H4_HUMAN 258 486 DBREF 5YXJ C 745 755 UNP E7EWM1 E7EWM1_HUMAN 741 751 DBREF 5YXJ D 745 755 UNP E7EWM1 E7EWM1_HUMAN 741 751 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 CYS 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 CYS GLU ILE TRP ASP VAL GLN SEQRES 1 B 229 GLU LEU THR PRO ASP GLN GLN THR LEU LEU HIS PHE ILE SEQRES 2 B 229 MET ASP SER TYR ASN LYS GLN ARG MET PRO GLN GLU ILE SEQRES 3 B 229 THR ASN LYS ILE LEU LYS GLU GLU PHE SER ALA GLU GLU SEQRES 4 B 229 ASN PHE LEU ILE LEU THR GLU MET ALA THR ASN HIS VAL SEQRES 5 B 229 GLN VAL LEU VAL GLU PHE THR LYS LYS LEU PRO GLY PHE SEQRES 6 B 229 GLN THR LEU ASP HIS GLU ASP GLN ILE ALA LEU LEU LYS SEQRES 7 B 229 GLY SER ALA VAL GLU ALA MET PHE LEU ARG SER ALA GLU SEQRES 8 B 229 ILE PHE ASN LYS LYS LEU PRO SER GLY HIS SER ASP LEU SEQRES 9 B 229 LEU GLU GLU ARG ILE ARG ASN SER GLY ILE SER ASP GLU SEQRES 10 B 229 TYR ILE THR PRO MET PHE SER PHE TYR LYS SER ILE GLY SEQRES 11 B 229 GLU LEU LYS MET THR GLN GLU GLU TYR ALA LEU LEU THR SEQRES 12 B 229 ALA ILE VAL ILE LEU SER PRO ASP ARG GLN TYR ILE LYS SEQRES 13 B 229 ASP ARG GLU ALA VAL GLU LYS LEU GLN GLU PRO LEU LEU SEQRES 14 B 229 ASP VAL LEU GLN LYS LEU CYS LYS ILE HIS GLN PRO GLU SEQRES 15 B 229 ASN PRO GLN HIS PHE ALA CYS LEU LEU GLY ARG LEU THR SEQRES 16 B 229 GLU LEU ARG THR PHE ASN HIS HIS HIS ALA GLU MET LEU SEQRES 17 B 229 MET SER TRP ARG VAL ASN ASP HIS LYS PHE THR PRO LEU SEQRES 18 B 229 LEU CYS GLU ILE TRP ASP VAL GLN SEQRES 1 C 11 GLU ASN ALA LEU LEU ARG TYR LEU LEU ASP LYS SEQRES 1 D 11 GLU ASN ALA LEU LEU ARG TYR LEU LEU ASP LYS HET 93U A 501 35 HET 93U B 501 35 HETNAM 93U 2-[BENZYL(METHYL)AMINO]ETHYL METHYL 2,6-DIMETHYL-4-(3- HETNAM 2 93U NITROPHENYL)PYRIDINE-3,5-DICARBOXYLATE FORMUL 5 93U 2(C26 H27 N3 O6) FORMUL 7 HOH *115(H2 O) HELIX 1 AA1 THR A 246 GLN A 263 1 18 HELIX 2 AA2 PRO A 266 GLU A 276 1 11 HELIX 3 AA3 SER A 279 LEU A 305 1 27 HELIX 4 AA4 GLY A 307 LEU A 311 5 5 HELIX 5 AA5 ASP A 312 LYS A 338 1 27 HELIX 6 AA6 GLY A 343 ARG A 353 1 11 HELIX 7 AA7 SER A 358 GLU A 374 1 17 HELIX 8 AA8 THR A 378 LEU A 391 1 14 HELIX 9 AA9 ASP A 400 GLN A 423 1 24 HELIX 10 AB1 GLN A 428 THR A 442 1 15 HELIX 11 AB2 THR A 442 SER A 453 1 12 HELIX 12 AB3 SER A 453 ASP A 458 1 6 HELIX 13 AB4 THR A 462 TRP A 469 1 8 HELIX 14 AB5 THR B 246 ASN B 261 1 16 HELIX 15 AB6 PRO B 266 GLU B 276 1 11 HELIX 16 AB7 SER B 279 LYS B 303 1 25 HELIX 17 AB8 GLY B 307 LEU B 311 5 5 HELIX 18 AB9 HIS B 313 LYS B 338 1 26 HELIX 19 AC1 SER B 345 ASN B 354 1 10 HELIX 20 AC2 SER B 358 LEU B 375 1 18 HELIX 21 AC3 THR B 378 LEU B 391 1 14 HELIX 22 AC4 ASP B 400 GLN B 423 1 24 HELIX 23 AC5 GLN B 428 THR B 442 1 15 HELIX 24 AC6 THR B 442 ARG B 455 1 14 HELIX 25 AC7 THR B 462 ASP B 470 1 9 HELIX 26 AC8 ASN C 746 LYS C 755 1 10 HELIX 27 AC9 ASN D 746 LYS D 755 1 10 SITE 1 AC1 12 HIS A 294 MET A 328 PHE A 329 SER A 332 SITE 2 AC1 12 ILE A 357 ILE A 362 MET A 365 TYR A 369 SITE 3 AC1 12 HIS A 447 MET A 450 LEU A 451 TRP A 469 SITE 1 AC2 13 PHE B 284 LEU B 287 MET B 290 HIS B 294 SITE 2 AC2 13 MET B 328 PHE B 329 SER B 332 ILE B 357 SITE 3 AC2 13 TYR B 361 HIS B 447 MET B 450 TRP B 454 SITE 4 AC2 13 TRP B 469 CRYST1 163.351 34.976 118.926 90.00 103.38 90.00 C 1 2 1 8 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 0.006122 0.000000 0.001457 0.00000 SCALE2 0.000000 0.028591 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008643 0.00000