HEADER TRANSCRIPTION 08-APR-14 3WT5 TITLE A MIXED POPULATION OF ANTAGONIST AND AGONIST BINDING CONFORMERS IN A TITLE 2 SINGLE CRYSTAL EXPLAINS PARTIAL AGONISM AGAINST VITAMIN D RECEPTOR: TITLE 3 ACTIVE VITAMIN D ANALOGUES WITH 22R-ALKYL GROUP COMPND MOL_ID: 1; COMPND 2 MOLECULE: VITAMIN D3 RECEPTOR; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: LIGAND BINDING DOMAIN, UNP RESIDUES 116-164, 212-423; COMPND 5 SYNONYM: VDR, 1,25-DIHYDROXYVITAMIN D3 RECEPTOR, NUCLEAR RECEPTOR COMPND 6 SUBFAMILY 1 GROUP I MEMBER 1; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: MEDIATOR OF RNA POLYMERASE II TRANSCRIPTION SUBUNIT 1; COMPND 10 CHAIN: C; COMPND 11 FRAGMENT: DRIP205 NR2 BOX PEPTIDE, UNP RESIDUES 640-652; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RATTUS NORVEGICUS; SOURCE 3 ORGANISM_COMMON: RATS; SOURCE 4 ORGANISM_TAXID: 10116; SOURCE 5 GENE: VDR, NR1I1; 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; SOURCE 13 OTHER_DETAILS: THE PEPTIDE WAS CHEMICALLY SYNTHESIZED. KEYWDS TRANSCRIPTION, VITAMIN D3, VDRE, RXR, CO-FACTORS, NUCLEAR EXPDTA X-RAY DIFFRACTION AUTHOR Y.ANAMI,T.ITOH,K.YAMAMOTO REVDAT 3 20-MAR-24 3WT5 1 REMARK SEQADV REVDAT 2 22-NOV-17 3WT5 1 REMARK REVDAT 1 11-JUN-14 3WT5 0 JRNL AUTH Y.ANAMI,T.ITOH,D.EGAWA,N.YOSHIMOTO,K.YAMAMOTO JRNL TITL A MIXED POPULATION OF ANTAGONIST AND AGONIST BINDING JRNL TITL 2 CONFORMERS IN A SINGLE CRYSTAL EXPLAINS PARTIAL AGONISM JRNL TITL 3 AGAINST VITAMIN D RECEPTOR: ACTIVE VITAMIN D ANALOGUES WITH JRNL TITL 4 22R-ALKYL GROUP. JRNL REF J.MED.CHEM. V. 57 4351 2014 JRNL REFN ISSN 0022-2623 JRNL PMID 24742174 JRNL DOI 10.1021/JM500392T REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0029 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) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 13.49 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.4 REMARK 3 NUMBER OF REFLECTIONS : 19357 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) : 0.164 REMARK 3 R VALUE (WORKING SET) : 0.163 REMARK 3 FREE R VALUE : 0.189 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.200 REMARK 3 FREE R VALUE TEST SET COUNT : 1053 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) : 1.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.95 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1455 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.61 REMARK 3 BIN R VALUE (WORKING SET) : 0.2360 REMARK 3 BIN FREE R VALUE SET COUNT : 76 REMARK 3 BIN FREE R VALUE : 0.2400 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1987 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 34 REMARK 3 SOLVENT ATOMS : 219 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.34 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.93000 REMARK 3 B22 (A**2) : 1.32000 REMARK 3 B33 (A**2) : 0.70000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -1.48000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.150 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.126 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.079 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.970 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.961 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.943 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2134 ; 0.023 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 2094 ; 0.000 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2902 ; 2.089 ; 2.011 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4835 ; 3.507 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 254 ; 5.155 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 91 ;38.829 ;24.615 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 372 ;15.445 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 9 ;16.798 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 334 ; 0.128 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2322 ; 0.013 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 465 ; 0.024 ; 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 : 4 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 123 A 420 REMARK 3 ORIGIN FOR THE GROUP (A): 15.1045 0.4898 57.3832 REMARK 3 T TENSOR REMARK 3 T11: 0.0379 T22: 0.0271 REMARK 3 T33: 0.0316 T12: -0.0066 REMARK 3 T13: 0.0194 T23: 0.0088 REMARK 3 L TENSOR REMARK 3 L11: 0.3827 L22: 0.2319 REMARK 3 L33: 0.1452 L12: -0.0018 REMARK 3 L13: 0.0947 L23: -0.1224 REMARK 3 S TENSOR REMARK 3 S11: 0.0256 S12: -0.0128 S13: -0.0029 REMARK 3 S21: 0.0360 S22: -0.0350 S23: -0.0440 REMARK 3 S31: -0.0227 S32: -0.0190 S33: 0.0095 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 625 C 635 REMARK 3 ORIGIN FOR THE GROUP (A): 9.1499 -10.3362 43.1035 REMARK 3 T TENSOR REMARK 3 T11: 0.0615 T22: 0.2455 REMARK 3 T33: 0.0332 T12: 0.0881 REMARK 3 T13: -0.0338 T23: -0.0416 REMARK 3 L TENSOR REMARK 3 L11: 9.6940 L22: 3.4953 REMARK 3 L33: 2.4657 L12: 3.3295 REMARK 3 L13: -0.3789 L23: 2.2623 REMARK 3 S TENSOR REMARK 3 S11: 0.3790 S12: -0.2239 S13: -0.3910 REMARK 3 S21: 0.0794 S22: -0.4136 S23: -0.0619 REMARK 3 S31: -0.0569 S32: -0.2324 S33: 0.0346 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 501 A 501 REMARK 3 ORIGIN FOR THE GROUP (A): 6.7465 3.4080 59.0904 REMARK 3 T TENSOR REMARK 3 T11: 0.0865 T22: 0.0443 REMARK 3 T33: 0.0461 T12: -0.0165 REMARK 3 T13: 0.0595 T23: -0.0224 REMARK 3 L TENSOR REMARK 3 L11: 5.8349 L22: 1.4417 REMARK 3 L33: 10.6192 L12: 2.8989 REMARK 3 L13: -7.8687 L23: -3.9125 REMARK 3 S TENSOR REMARK 3 S11: -0.4263 S12: 0.1450 S13: -0.2291 REMARK 3 S21: -0.2257 S22: 0.0886 S23: -0.1210 REMARK 3 S31: 0.6118 S32: -0.1995 S33: 0.3378 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 601 A 815 REMARK 3 RESIDUE RANGE : C 701 C 704 REMARK 3 ORIGIN FOR THE GROUP (A): 17.7425 2.9929 55.3983 REMARK 3 T TENSOR REMARK 3 T11: 0.0394 T22: 0.0107 REMARK 3 T33: 0.0271 T12: -0.0067 REMARK 3 T13: 0.0195 T23: 0.0068 REMARK 3 L TENSOR REMARK 3 L11: 0.5276 L22: 0.2821 REMARK 3 L33: 0.1768 L12: 0.0657 REMARK 3 L13: -0.0041 L23: -0.0198 REMARK 3 S TENSOR REMARK 3 S11: 0.0364 S12: 0.0157 S13: 0.0146 REMARK 3 S21: 0.0381 S22: -0.0509 S23: -0.0360 REMARK 3 S31: -0.0258 S32: 0.0045 S33: 0.0145 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 REMARK 4 REMARK 4 3WT5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 17-APR-14. REMARK 100 THE DEPOSITION ID IS D_1000096759. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-DEC-12 REMARK 200 TEMPERATURE (KELVIN) : 95 REMARK 200 PH : 7 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : BL-5A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 REMARK 200 MONOCHROMATOR : NUMERICAL LINK TYPE SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 20411 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 13.500 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL 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: MOLECULAR REPLACEMENT REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 39.90 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.05 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: MOPS-NA, NA-FORMATE, PEG 4000, REMARK 280 ETHYLENEGLYCOL, PH 7, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 293K 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 63.92000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 22.40500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 63.92000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 22.40500 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1010 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11800 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -9.0 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 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 A 700 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 788 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 106 REMARK 465 SER A 107 REMARK 465 HIS A 108 REMARK 465 MET A 109 REMARK 465 GLY A 110 REMARK 465 SER A 111 REMARK 465 PRO A 112 REMARK 465 ASN A 113 REMARK 465 SER A 114 REMARK 465 PRO A 115 REMARK 465 LEU A 116 REMARK 465 LYS A 117 REMARK 465 ASP A 118 REMARK 465 SER A 119 REMARK 465 LEU A 120 REMARK 465 ARG A 121 REMARK 465 PRO A 122 REMARK 465 ASP A 207 REMARK 465 GLY A 208 REMARK 465 SER A 209 REMARK 465 THR A 210 REMARK 465 GLY A 211 REMARK 465 SER A 212 REMARK 465 VAL A 213 REMARK 465 THR A 214 REMARK 465 LEU A 215 REMARK 465 ASP A 216 REMARK 465 LEU A 217 REMARK 465 GLU A 421 REMARK 465 ILE A 422 REMARK 465 SER A 423 REMARK 465 ASP C 636 REMARK 465 ASN C 637 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 SER A 218 OG REMARK 470 ARG A 248 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 307 CG CD OE1 OE2 REMARK 470 ASP A 344 CG OD1 OD2 REMARK 470 ARG A 398 CG CD NE CZ NH1 NH2 REMARK 470 LYS C 625 CG CD CE NZ REMARK 470 LYS C 635 CG CD CE NZ 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 ND1 HIS A 393 O HOH A 744 2.01 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 CYS A 284 31.04 -99.60 REMARK 500 ASP A 344 62.95 -101.53 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 YA1 A 501 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3WT6 RELATED DB: PDB REMARK 900 RELATED ID: 3WT7 RELATED DB: PDB DBREF 3WT5 A 116 423 UNP P13053 VDR_RAT 116 423 DBREF 3WT5 C 625 637 UNP Q15648 MED1_HUMAN 640 652 SEQADV 3WT5 GLY A 106 UNP P13053 EXPRESSION TAG SEQADV 3WT5 SER A 107 UNP P13053 EXPRESSION TAG SEQADV 3WT5 HIS A 108 UNP P13053 EXPRESSION TAG SEQADV 3WT5 MET A 109 UNP P13053 EXPRESSION TAG SEQADV 3WT5 GLY A 110 UNP P13053 EXPRESSION TAG SEQADV 3WT5 SER A 111 UNP P13053 EXPRESSION TAG SEQADV 3WT5 PRO A 112 UNP P13053 EXPRESSION TAG SEQADV 3WT5 ASN A 113 UNP P13053 EXPRESSION TAG SEQADV 3WT5 SER A 114 UNP P13053 EXPRESSION TAG SEQADV 3WT5 PRO A 115 UNP P13053 EXPRESSION TAG SEQADV 3WT5 A UNP P13053 SER 165 DELETION SEQADV 3WT5 A UNP P13053 TYR 166 DELETION SEQADV 3WT5 A UNP P13053 SER 167 DELETION SEQADV 3WT5 A UNP P13053 PRO 168 DELETION SEQADV 3WT5 A UNP P13053 ARG 169 DELETION SEQADV 3WT5 A UNP P13053 PRO 170 DELETION SEQADV 3WT5 A UNP P13053 THR 171 DELETION SEQADV 3WT5 A UNP P13053 LEU 172 DELETION SEQADV 3WT5 A UNP P13053 SER 173 DELETION SEQADV 3WT5 A UNP P13053 PHE 174 DELETION SEQADV 3WT5 A UNP P13053 SER 175 DELETION SEQADV 3WT5 A UNP P13053 GLY 176 DELETION SEQADV 3WT5 A UNP P13053 ASN 177 DELETION SEQADV 3WT5 A UNP P13053 SER 178 DELETION SEQADV 3WT5 A UNP P13053 SER 179 DELETION SEQADV 3WT5 A UNP P13053 SER 180 DELETION SEQADV 3WT5 A UNP P13053 SER 181 DELETION SEQADV 3WT5 A UNP P13053 SER 182 DELETION SEQADV 3WT5 A UNP P13053 SER 183 DELETION SEQADV 3WT5 A UNP P13053 ASP 184 DELETION SEQADV 3WT5 A UNP P13053 LEU 185 DELETION SEQADV 3WT5 A UNP P13053 TYR 186 DELETION SEQADV 3WT5 A UNP P13053 THR 187 DELETION SEQADV 3WT5 A UNP P13053 THR 188 DELETION SEQADV 3WT5 A UNP P13053 SER 189 DELETION SEQADV 3WT5 A UNP P13053 LEU 190 DELETION SEQADV 3WT5 A UNP P13053 ASP 191 DELETION SEQADV 3WT5 A UNP P13053 MET 192 DELETION SEQADV 3WT5 A UNP P13053 MET 193 DELETION SEQADV 3WT5 A UNP P13053 GLU 194 DELETION SEQADV 3WT5 A UNP P13053 PRO 195 DELETION SEQADV 3WT5 A UNP P13053 SER 196 DELETION SEQADV 3WT5 A UNP P13053 GLY 197 DELETION SEQADV 3WT5 A UNP P13053 PHE 198 DELETION SEQADV 3WT5 A UNP P13053 SER 199 DELETION SEQADV 3WT5 A UNP P13053 ASN 200 DELETION SEQADV 3WT5 A UNP P13053 LEU 201 DELETION SEQADV 3WT5 A UNP P13053 ASP 202 DELETION SEQADV 3WT5 A UNP P13053 LEU 203 DELETION SEQADV 3WT5 A UNP P13053 ASN 204 DELETION SEQADV 3WT5 A UNP P13053 GLY 205 DELETION SEQADV 3WT5 A UNP P13053 GLU 206 DELETION SEQADV 3WT5 A UNP P13053 ASP 207 DELETION SEQADV 3WT5 A UNP P13053 SER 208 DELETION SEQADV 3WT5 A UNP P13053 ASP 209 DELETION SEQADV 3WT5 A UNP P13053 ASP 210 DELETION SEQADV 3WT5 A UNP P13053 PRO 211 DELETION SEQRES 1 A 271 GLY SER HIS MET GLY SER PRO ASN SER PRO LEU LYS ASP SEQRES 2 A 271 SER LEU ARG PRO LYS LEU SER GLU GLU GLN GLN HIS ILE SEQRES 3 A 271 ILE ALA ILE LEU LEU ASP ALA HIS HIS LYS THR TYR ASP SEQRES 4 A 271 PRO THR TYR ALA ASP PHE ARG ASP PHE ARG PRO PRO VAL SEQRES 5 A 271 ARG MET ASP GLY SER THR GLY SER VAL THR LEU ASP LEU SEQRES 6 A 271 SER PRO LEU SER MET LEU PRO HIS LEU ALA ASP LEU VAL SEQRES 7 A 271 SER TYR SER ILE GLN LYS VAL ILE GLY PHE ALA LYS MET SEQRES 8 A 271 ILE PRO GLY PHE ARG ASP LEU THR SER ASP ASP GLN ILE SEQRES 9 A 271 VAL LEU LEU LYS SER SER ALA ILE GLU VAL ILE MET LEU SEQRES 10 A 271 ARG SER ASN GLN SER PHE THR MET ASP ASP MET SER TRP SEQRES 11 A 271 ASP CYS GLY SER GLN ASP TYR LYS TYR ASP VAL THR ASP SEQRES 12 A 271 VAL SER LYS ALA GLY HIS THR LEU GLU LEU ILE GLU PRO SEQRES 13 A 271 LEU ILE LYS PHE GLN VAL GLY LEU LYS LYS LEU ASN LEU SEQRES 14 A 271 HIS GLU GLU GLU HIS VAL LEU LEU MET ALA ILE CYS ILE SEQRES 15 A 271 VAL SER PRO ASP ARG PRO GLY VAL GLN ASP ALA LYS LEU SEQRES 16 A 271 VAL GLU ALA ILE GLN ASP ARG LEU SER ASN THR LEU GLN SEQRES 17 A 271 THR TYR ILE ARG CYS ARG HIS PRO PRO PRO GLY SER HIS SEQRES 18 A 271 GLN LEU TYR ALA LYS MET ILE GLN LYS LEU ALA ASP LEU SEQRES 19 A 271 ARG SER LEU ASN GLU GLU HIS SER LYS GLN TYR ARG SER SEQRES 20 A 271 LEU SER PHE GLN PRO GLU ASN SER MET LYS LEU THR PRO SEQRES 21 A 271 LEU VAL LEU GLU VAL PHE GLY ASN GLU ILE SER SEQRES 1 C 13 LYS ASN HIS PRO MET LEU MET ASN LEU LEU LYS ASP ASN HET YA1 A 501 68 HETNAM YA1 (1R,3R,7E,17BETA)-17-[(2R,3R)-3-BUTYL-6-HYDROXY-6- HETNAM 2 YA1 METHYLHEPTAN-2-YL]-2-METHYLIDENE-9,10-SECOESTRA-5,7- HETNAM 3 YA1 DIENE-1,3-DIOL FORMUL 3 YA1 C31 H52 O3 FORMUL 4 HOH *219(H2 O) HELIX 1 1 SER A 125 TYR A 143 1 19 HELIX 2 2 TYR A 147 PHE A 153 5 7 HELIX 3 3 MET A 222 LYS A 242 1 21 HELIX 4 4 GLY A 246 LEU A 250 5 5 HELIX 5 5 THR A 251 SER A 271 1 21 HELIX 6 6 ASP A 292 LYS A 298 1 7 HELIX 7 7 THR A 302 LEU A 319 1 18 HELIX 8 8 HIS A 322 VAL A 335 1 14 HELIX 9 9 ASP A 344 HIS A 367 1 24 HELIX 10 10 GLN A 374 GLN A 403 1 30 HELIX 11 11 GLN A 403 MET A 408 1 6 HELIX 12 12 THR A 411 GLY A 419 1 9 HELIX 13 13 HIS C 627 LYS C 635 1 9 SHEET 1 A 3 PHE A 275 THR A 276 0 SHEET 2 A 3 SER A 281 ASP A 283 -1 O SER A 281 N THR A 276 SHEET 3 A 3 LYS A 290 TYR A 291 -1 O TYR A 291 N TRP A 282 CISPEP 1 SER A 218 PRO A 219 0 -16.23 CISPEP 2 PRO A 369 PRO A 370 0 -2.94 SITE 1 AC1 19 TYR A 143 VAL A 230 SER A 233 ILE A 264 SITE 2 AC1 19 MET A 268 ARG A 270 SER A 271 SER A 274 SITE 3 AC1 19 TRP A 282 CYS A 284 VAL A 296 HIS A 301 SITE 4 AC1 19 ILE A 306 LEU A 309 HIS A 393 LEU A 400 SITE 5 AC1 19 PHE A 418 HOH A 766 HOH A 812 CRYST1 127.840 44.810 46.060 90.00 93.57 90.00 C 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 0.007822 0.000000 0.000488 0.00000 SCALE2 0.000000 0.022316 0.000000 0.00000 SCALE3 0.000000 0.000000 0.021753 0.00000