HEADER TRANSCRIPTION/TRANSCRIPTION ACTIVATOR 02-AUG-17 5Y49 TITLE A MODERATOR XD22 BINDING TO BILE ACID RECEPTOR CAVEAT 5Y49 LIGANDS XD5 WITH 0 OCCUPANCY. COMPND MOL_ID: 1; COMPND 2 MOLECULE: BILE ACID RECEPTOR; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 255-481; 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 MOL_ID: 2; COMPND 10 MOLECULE: PEPTIDE FROM NUCLEAR RECEPTOR COACTIVATOR 2; COMPND 11 CHAIN: D, E; COMPND 12 SYNONYM: NCOA-2,CLASS E BASIC HELIX-LOOP-HELIX PROTEIN 75,BHLHE75, COMPND 13 TRANSCRIPTIONAL INTERMEDIARY FACTOR 2,HTIF2; 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: NR1H4, BAR, FXR, HRR1, RIP14; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(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 KEYWDS COMPLEX, NUCLEAR RECEPTOR, TRANSCRIPTION-TRANSCRIPTION ACTIVATOR KEYWDS 2 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR Y.LU,Y.LI REVDAT 2 22-NOV-23 5Y49 1 REMARK REVDAT 1 20-FEB-19 5Y49 0 JRNL AUTH Y.LU,Y.LI JRNL TITL A MODERATOR XD22 BINDING TO BILE ACID RECEPTOR JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0135 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) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.2 REMARK 3 NUMBER OF REFLECTIONS : 21761 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) : 0.212 REMARK 3 FREE R VALUE : 0.253 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1116 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) : 2.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.46 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1229 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 73.65 REMARK 3 BIN R VALUE (WORKING SET) : 0.2800 REMARK 3 BIN FREE R VALUE SET COUNT : 51 REMARK 3 BIN FREE R VALUE : 0.3450 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3882 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 34 REMARK 3 SOLVENT ATOMS : 114 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 42.15 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.03000 REMARK 3 B22 (A**2) : -0.01000 REMARK 3 B33 (A**2) : 0.04000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.01000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.435 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.268 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.210 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 9.176 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.933 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.910 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3961 ; 0.016 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3840 ; 0.007 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5348 ; 1.818 ; 1.970 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8859 ; 1.102 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 467 ; 5.726 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 198 ;40.939 ;24.949 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 750 ;17.848 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 20 ;20.249 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 604 ; 0.103 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4376 ; 0.009 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 892 ; 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 5Y49 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 10-AUG-17. REMARK 100 THE DEPOSITION ID IS D_1300004634. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-DEC-16 REMARK 200 TEMPERATURE (KELVIN) : 293.15 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) : 1.0050 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 : NULL REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23701 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 5.100 REMARK 200 R MERGE (I) : 0.08600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.44 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 5.10 REMARK 200 R MERGE FOR SHELL (I) : 0.85800 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: NULL REMARK 200 STARTING MODEL: 3DCT REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.10 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.68 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M MAGNESIUM SULFATE, 12% W/V REMARK 280 POLYETHYLENE GLYCOL 8000, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 293.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 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 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 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: 1090 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11800 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -4.0 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: 1020 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11680 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -5.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, 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 LYS A 348 REMARK 465 LYS A 349 REMARK 465 LEU A 350 REMARK 465 LYS E 696 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 E 688 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 NH1 ARG E 691 O HOH E 701 1.08 REMARK 500 OE1 GLU B 477 O HOH B 601 2.12 REMARK 500 OE2 GLU A 359 NH1 ARG A 363 2.13 REMARK 500 O SER B 352 N HIS B 354 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 O HOH B 601 O HOH B 601 2557 2.04 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 410 CB - CG - OD1 ANGL. DEV. = 6.7 DEGREES REMARK 500 ASP A 410 CB - CG - OD2 ANGL. DEV. = -5.8 DEGREES REMARK 500 PRO B 351 C - N - CD ANGL. DEV. = -25.1 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 HIS A 354 -28.02 82.73 REMARK 500 LYS A 386 39.86 30.35 REMARK 500 MET A 387 153.74 -48.32 REMARK 500 LEU A 401 45.75 -87.73 REMARK 500 GLN A 433 44.59 -151.75 REMARK 500 LYS B 348 -27.24 -143.45 REMARK 500 SER B 352 -139.23 112.85 REMARK 500 SER B 365 23.91 -140.96 REMARK 500 LYS B 386 62.53 39.73 REMARK 500 LEU B 401 51.49 -94.37 REMARK 500 ILE B 431 -72.31 -78.55 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 GLY A 353 HIS A 354 -32.50 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 B 666 DISTANCE = 6.37 ANGSTROMS REMARK 615 REMARK 615 ZERO OCCUPANCY ATOM REMARK 615 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 615 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 615 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 615 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 615 M RES C SSEQI REMARK 615 XD5 A 501 REMARK 615 XD5 B 501 DBREF 5Y49 A 255 481 UNP Q96RI1 NR1H4_HUMAN 255 481 DBREF 5Y49 B 255 481 UNP Q96RI1 NR1H4_HUMAN 255 481 DBREF 5Y49 D 686 696 UNP Q15596 NCOA2_HUMAN 741 751 DBREF 5Y49 E 686 696 UNP Q15596 NCOA2_HUMAN 741 751 SEQADV 5Y49 LEU D 688 UNP Q15596 ALA 743 CONFLICT SEQADV 5Y49 LEU E 688 UNP Q15596 ALA 743 CONFLICT SEQRES 1 A 227 LEU THR PRO ASP GLN GLN THR LEU LEU HIS PHE ILE MET SEQRES 2 A 227 ASP SER TYR ASN LYS GLN ARG MET PRO GLN GLU ILE THR SEQRES 3 A 227 ASN LYS ILE LEU LYS GLU GLU PHE SER ALA GLU GLU ASN SEQRES 4 A 227 PHE LEU ILE LEU THR GLU MET ALA THR ASN HIS VAL GLN SEQRES 5 A 227 VAL LEU VAL GLU PHE THR LYS LYS LEU PRO GLY PHE GLN SEQRES 6 A 227 THR LEU ASP HIS GLU ASP GLN ILE ALA LEU LEU LYS GLY SEQRES 7 A 227 SER ALA VAL GLU ALA MET PHE LEU ARG SER ALA GLU ILE SEQRES 8 A 227 PHE ASN LYS LYS LEU PRO SER GLY HIS SER ASP LEU LEU SEQRES 9 A 227 GLU GLU ARG ILE ARG ASN SER GLY ILE SER ASP GLU TYR SEQRES 10 A 227 ILE THR PRO MET PHE SER PHE TYR LYS SER ILE GLY GLU SEQRES 11 A 227 LEU LYS MET THR GLN GLU GLU TYR ALA LEU LEU THR ALA SEQRES 12 A 227 ILE VAL ILE LEU SER PRO ASP ARG GLN TYR ILE LYS ASP SEQRES 13 A 227 ARG GLU ALA VAL GLU LYS LEU GLN GLU PRO LEU LEU ASP SEQRES 14 A 227 VAL LEU GLN LYS LEU CYS LYS ILE HIS GLN PRO GLU ASN SEQRES 15 A 227 PRO GLN HIS PHE ALA CYS LEU LEU GLY ARG LEU THR GLU SEQRES 16 A 227 LEU ARG THR PHE ASN HIS HIS HIS ALA GLU MET LEU MET SEQRES 17 A 227 SER TRP ARG VAL ASN ASP HIS LYS PHE THR PRO LEU LEU SEQRES 18 A 227 CYS GLU ILE TRP ASP VAL SEQRES 1 B 227 LEU THR PRO ASP GLN GLN THR LEU LEU HIS PHE ILE MET SEQRES 2 B 227 ASP SER TYR ASN LYS GLN ARG MET PRO GLN GLU ILE THR SEQRES 3 B 227 ASN LYS ILE LEU LYS GLU GLU PHE SER ALA GLU GLU ASN SEQRES 4 B 227 PHE LEU ILE LEU THR GLU MET ALA THR ASN HIS VAL GLN SEQRES 5 B 227 VAL LEU VAL GLU PHE THR LYS LYS LEU PRO GLY PHE GLN SEQRES 6 B 227 THR LEU ASP HIS GLU ASP GLN ILE ALA LEU LEU LYS GLY SEQRES 7 B 227 SER ALA VAL GLU ALA MET PHE LEU ARG SER ALA GLU ILE SEQRES 8 B 227 PHE ASN LYS LYS LEU PRO SER GLY HIS SER ASP LEU LEU SEQRES 9 B 227 GLU GLU ARG ILE ARG ASN SER GLY ILE SER ASP GLU TYR SEQRES 10 B 227 ILE THR PRO MET PHE SER PHE TYR LYS SER ILE GLY GLU SEQRES 11 B 227 LEU LYS MET THR GLN GLU GLU TYR ALA LEU LEU THR ALA SEQRES 12 B 227 ILE VAL ILE LEU SER PRO ASP ARG GLN TYR ILE LYS ASP SEQRES 13 B 227 ARG GLU ALA VAL GLU LYS LEU GLN GLU PRO LEU LEU ASP SEQRES 14 B 227 VAL LEU GLN LYS LEU CYS LYS ILE HIS GLN PRO GLU ASN SEQRES 15 B 227 PRO GLN HIS PHE ALA CYS LEU LEU GLY ARG LEU THR GLU SEQRES 16 B 227 LEU ARG THR PHE ASN HIS HIS HIS ALA GLU MET LEU MET SEQRES 17 B 227 SER TRP ARG VAL ASN ASP HIS LYS PHE THR PRO LEU LEU SEQRES 18 B 227 CYS GLU ILE TRP ASP VAL SEQRES 1 D 11 GLU ASN LEU LEU LEU ARG TYR LEU LEU ASP LYS SEQRES 1 E 11 GLU ASN LEU LEU LEU ARG TYR LEU LEU ASP LYS HET XD5 A 501 17 HET XD5 B 501 17 HETNAM XD5 [(1R,2S,4S)-2-BICYCLO[2.2.1]HEPTANYL] 4-AZANYLBENZOATE FORMUL 5 XD5 2(C14 H17 N O2) FORMUL 7 HOH *114(H2 O) HELIX 1 AA1 THR A 256 GLN A 273 1 18 HELIX 2 AA2 PRO A 276 GLU A 286 1 11 HELIX 3 AA3 SER A 289 LYS A 314 1 26 HELIX 4 AA4 GLY A 317 LEU A 321 5 5 HELIX 5 AA5 ASP A 322 ASN A 347 1 26 HELIX 6 AA6 SER A 355 ASN A 364 1 10 HELIX 7 AA7 SER A 368 GLU A 384 1 17 HELIX 8 AA8 THR A 388 LEU A 401 1 14 HELIX 9 AA9 ASP A 410 GLN A 433 1 24 HELIX 10 AB1 GLN A 438 THR A 452 1 15 HELIX 11 AB2 THR A 452 ASN A 467 1 16 HELIX 12 AB3 THR A 472 TRP A 479 1 8 HELIX 13 AB4 THR B 256 LYS B 272 1 17 HELIX 14 AB5 PRO B 276 GLU B 286 1 11 HELIX 15 AB6 SER B 289 LYS B 313 1 25 HELIX 16 AB7 GLY B 317 LEU B 321 5 5 HELIX 17 AB8 ASP B 322 LYS B 349 1 28 HELIX 18 AB9 SER B 352 ASN B 364 1 13 HELIX 19 AC1 SER B 368 LEU B 385 1 18 HELIX 20 AC2 THR B 388 LEU B 401 1 14 HELIX 21 AC3 ASP B 410 GLN B 433 1 24 HELIX 22 AC4 PRO B 437 ARG B 451 1 15 HELIX 23 AC5 THR B 452 ASN B 467 1 16 HELIX 24 AC6 THR B 472 TRP B 479 1 8 HELIX 25 AC7 ASN D 687 LYS D 696 1 10 HELIX 26 AC8 ASN E 687 ASP E 695 1 9 CRYST1 73.805 34.853 117.305 90.00 98.21 90.00 P 1 2 1 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 0.013549 0.000000 0.001955 0.00000 SCALE2 0.000000 0.028692 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008613 0.00000