HEADER NUCLEAR PROTEIN 05-DEC-17 5YXL TITLE A LIGAND M BINDING TO FXR COMPND MOL_ID: 1; COMPND 2 MOLECULE: BILE ACID RECEPTOR; COMPND 3 CHAIN: A, C; 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: B, 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 5YXL 1 REMARK REVDAT 1 13-MAR-19 5YXL 0 JRNL AUTH L.YI,L.YONG JRNL TITL A LIGAND M BINDING TO FXR JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.24 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) : 2.24 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 92.69 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 29865 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) : 0.214 REMARK 3 R VALUE (WORKING SET) : 0.214 REMARK 3 FREE R VALUE : 0.223 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1537 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) : 2.24 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.30 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2111 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.51 REMARK 3 BIN R VALUE (WORKING SET) : 0.2100 REMARK 3 BIN FREE R VALUE SET COUNT : 127 REMARK 3 BIN FREE R VALUE : 0.2440 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3660 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 60 REMARK 3 SOLVENT ATOMS : 296 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 27.91 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.35000 REMARK 3 B22 (A**2) : 0.30000 REMARK 3 B33 (A**2) : 0.05000 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): 0.264 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.187 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.925 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.917 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3792 ; 0.019 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3561 ; 0.000 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5120 ; 1.947 ; 1.990 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8280 ; 3.520 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 438 ; 5.118 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 186 ;38.427 ;24.946 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 707 ;15.931 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 19 ;19.021 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 578 ; 0.109 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4079 ; 0.010 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 726 ; 0.013 ; 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 5YXL COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 12-DEC-17. REMARK 100 THE DEPOSITION ID IS D_1300006094. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-DEC-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 : 31434 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.240 REMARK 200 RESOLUTION RANGE LOW (A) : 92.700 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 10.80 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 32.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.24 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 (%): 58.14 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.94 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2% V/V TACSIMATE PH 7.0, 0.1M HEPES PH REMARK 280 7.5, 20% W/V POLYETHYLENE GLYCOL 3350, VAPOR DIFFUSION, HANGING REMARK 280 DROP, TEMPERATURE 298K 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 17.75450 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 75.56850 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 58.67050 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 75.56850 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 17.75450 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 58.67050 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: 850 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11760 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -6.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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: 900 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11320 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -7.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 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 GLU A 1 REMARK 465 LEU A 2 REMARK 465 LYS A 96 REMARK 465 LEU A 97 REMARK 465 PRO A 98 REMARK 465 SER A 99 REMARK 465 GLY A 100 REMARK 465 HIS A 101 REMARK 465 GLN A 229 REMARK 465 ASP B 9 REMARK 465 GLU C 1 REMARK 465 LEU C 2 REMARK 465 LYS C 95 REMARK 465 LYS C 96 REMARK 465 LEU C 97 REMARK 465 PRO C 98 REMARK 465 SER C 99 REMARK 465 GLY C 100 REMARK 465 HIS C 101 REMARK 465 MET C 209 REMARK 465 SER C 210 REMARK 465 TRP C 211 REMARK 465 ARG C 212 REMARK 465 VAL C 213 REMARK 465 ASN C 214 REMARK 465 ASP C 215 REMARK 465 HIS C 216 REMARK 465 LYS C 217 REMARK 465 GLN C 229 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 CD1 TYR A 17 NE2 GLN A 20 2.18 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 NZ LYS A 32 CE3 TRP A 211 1455 1.30 REMARK 500 NZ LYS A 32 CZ3 TRP A 211 1455 1.42 REMARK 500 CE LYS A 32 CH2 TRP A 211 1455 1.69 REMARK 500 CE LYS A 32 CZ3 TRP A 211 1455 1.80 REMARK 500 NZ LYS A 32 CD2 TRP A 211 1455 1.83 REMARK 500 NZ LYS A 32 CH2 TRP A 211 1455 2.06 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 A 211 CE3 TRP A 211 CZ3 0.150 REMARK 500 TRP A 211 CZ3 TRP A 211 CH2 0.116 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 ASP A 15 CB - CG - OD2 ANGL. DEV. = -5.4 DEGREES REMARK 500 ARG A 152 NE - CZ - NH1 ANGL. DEV. = 3.6 DEGREES REMARK 500 ARG A 152 NE - CZ - NH2 ANGL. DEV. = -3.9 DEGREES REMARK 500 ARG C 152 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 CYS C 223 CA - CB - SG ANGL. DEV. = 9.3 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 148 47.43 -88.04 REMARK 500 GLU C 34 153.67 -47.94 REMARK 500 LEU C 148 52.91 -90.90 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 C 521 DISTANCE = 6.18 ANGSTROMS REMARK 525 HOH C 522 DISTANCE = 6.46 ANGSTROMS REMARK 525 HOH C 523 DISTANCE = 8.01 ANGSTROMS REMARK 525 HOH C 524 DISTANCE = 8.48 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NIW A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NIW C 301 DBREF 5YXL A 1 229 UNP Q96RI1 NR1H4_HUMAN 258 486 DBREF 5YXL B 2 9 UNP E7EWM1 E7EWM1_HUMAN 743 750 DBREF 5YXL C 1 229 UNP Q96RI1 NR1H4_HUMAN 258 486 DBREF 5YXL D 2 9 UNP E7EWM1 E7EWM1_HUMAN 743 750 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 8 ALA LEU LEU ARG TYR LEU LEU ASP SEQRES 1 C 229 GLU LEU THR PRO ASP GLN GLN THR LEU LEU HIS PHE ILE SEQRES 2 C 229 MET ASP SER TYR ASN LYS GLN ARG MET PRO GLN GLU ILE SEQRES 3 C 229 THR ASN LYS ILE LEU LYS GLU GLU PHE SER ALA GLU GLU SEQRES 4 C 229 ASN PHE LEU ILE LEU THR GLU MET ALA THR ASN HIS VAL SEQRES 5 C 229 GLN VAL LEU VAL GLU PHE THR LYS LYS LEU PRO GLY PHE SEQRES 6 C 229 GLN THR LEU ASP HIS GLU ASP GLN ILE ALA LEU LEU LYS SEQRES 7 C 229 GLY SER ALA VAL GLU ALA MET PHE LEU ARG SER ALA GLU SEQRES 8 C 229 ILE PHE ASN LYS LYS LEU PRO SER GLY HIS SER ASP LEU SEQRES 9 C 229 LEU GLU GLU ARG ILE ARG ASN SER GLY ILE SER ASP GLU SEQRES 10 C 229 TYR ILE THR PRO MET PHE SER PHE TYR LYS SER ILE GLY SEQRES 11 C 229 GLU LEU LYS MET THR GLN GLU GLU TYR ALA LEU LEU THR SEQRES 12 C 229 ALA ILE VAL ILE LEU SER PRO ASP ARG GLN TYR ILE LYS SEQRES 13 C 229 ASP ARG GLU ALA VAL GLU LYS LEU GLN GLU PRO LEU LEU SEQRES 14 C 229 ASP VAL LEU GLN LYS LEU CYS LYS ILE HIS GLN PRO GLU SEQRES 15 C 229 ASN PRO GLN HIS PHE ALA CYS LEU LEU GLY ARG LEU THR SEQRES 16 C 229 GLU LEU ARG THR PHE ASN HIS HIS HIS ALA GLU MET LEU SEQRES 17 C 229 MET SER TRP ARG VAL ASN ASP HIS LYS PHE THR PRO LEU SEQRES 18 C 229 LEU CYS GLU ILE TRP ASP VAL GLN SEQRES 1 D 8 ALA LEU LEU ARG TYR LEU LEU ASP HET NIW A 301 30 HET NIW C 301 30 HETNAM NIW 2-METHOXYETHYL PROPAN-2-YL 2,6-DIMETHYL-4-(3- HETNAM 2 NIW NITROPHENYL)PYRIDINE-3,5-DICARBOXYLATE HETSYN NIW NIMODIPINE M (DEHYDRO) FORMUL 5 NIW 2(C21 H24 N2 O7) FORMUL 7 HOH *296(H2 O) HELIX 1 AA1 THR A 3 LYS A 19 1 17 HELIX 2 AA2 PRO A 23 GLU A 33 1 11 HELIX 3 AA3 SER A 36 LYS A 61 1 26 HELIX 4 AA4 GLY A 64 LEU A 68 5 5 HELIX 5 AA5 ASP A 69 LYS A 95 1 27 HELIX 6 AA6 ASP A 103 ASN A 111 1 9 HELIX 7 AA7 SER A 115 LEU A 132 1 18 HELIX 8 AA8 THR A 135 LEU A 148 1 14 HELIX 9 AA9 ASP A 157 GLN A 180 1 24 HELIX 10 AB1 PRO A 184 THR A 199 1 16 HELIX 11 AB2 THR A 199 SER A 210 1 12 HELIX 12 AB3 SER A 210 ASP A 215 1 6 HELIX 13 AB4 THR A 219 TRP A 226 1 8 HELIX 14 AB5 LEU B 3 LEU B 8 1 6 HELIX 15 AB6 PRO C 4 ASN C 18 1 15 HELIX 16 AB7 PRO C 23 GLU C 33 1 11 HELIX 17 AB8 SER C 36 LYS C 61 1 26 HELIX 18 AB9 GLY C 64 LEU C 68 5 5 HELIX 19 AC1 ASP C 69 ASN C 94 1 26 HELIX 20 AC2 ASP C 103 ARG C 110 1 8 HELIX 21 AC3 SER C 115 LEU C 132 1 18 HELIX 22 AC4 THR C 135 LEU C 148 1 14 HELIX 23 AC5 ASP C 157 GLN C 180 1 24 HELIX 24 AC6 GLN C 185 ARG C 198 1 14 HELIX 25 AC7 THR C 199 LEU C 208 1 10 HELIX 26 AC8 THR C 219 TRP C 226 1 8 HELIX 27 AC9 LEU D 3 ASP D 9 1 7 SITE 1 AC1 13 PHE A 41 THR A 45 HIS A 51 MET A 85 SITE 2 AC1 13 PHE A 86 SER A 89 ILE A 114 TYR A 118 SITE 3 AC1 13 MET A 122 HIS A 204 MET A 207 VAL A 213 SITE 4 AC1 13 TRP A 226 SITE 1 AC2 15 PHE C 41 LEU C 44 THR C 45 ALA C 48 SITE 2 AC2 15 HIS C 51 MET C 85 PHE C 86 ILE C 114 SITE 3 AC2 15 TYR C 118 MET C 122 PHE C 200 HIS C 203 SITE 4 AC2 15 HIS C 204 MET C 207 TRP C 226 CRYST1 35.509 117.341 151.137 90.00 90.00 90.00 P 21 21 21 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 0.028162 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008522 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006617 0.00000