HEADER TRANSCRIPTION/DNA 25-JAN-05 1YNW TITLE CRYSTAL STRUCTURE OF VITAMIN D RECEPTOR AND 9-CIS RETINOIC ACID TITLE 2 RECEPTOR DNA-BINDING DOMAINS BOUND TO A DR3 RESPONSE ELEMENT COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-D(*TP*TP*AP*GP*GP*TP*CP*AP*CP*GP*AP*AP*GP*GP*TP*CP*AP*A) COMPND 3 -3'; COMPND 4 CHAIN: C; COMPND 5 ENGINEERED: YES; COMPND 6 OTHER_DETAILS: DR3 RESPONSE ELEMENT; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: 5'-D(*TP*TP*TP*GP*AP*CP*CP*TP*TP*CP*GP*TP*GP*AP*CP*CP*TP*A) COMPND 9 -3'; COMPND 10 CHAIN: D; COMPND 11 ENGINEERED: YES; COMPND 12 OTHER_DETAILS: DR3 RESPONSE ELEMENT; COMPND 13 MOL_ID: 3; COMPND 14 MOLECULE: VITAMIN D3 RECEPTOR; COMPND 15 CHAIN: A; COMPND 16 FRAGMENT: DNA-BINDING DOMAIN (RESIDUES 16-125); COMPND 17 SYNONYM: VDR; 1,25-DIHYDROXYVITAMIN D3 RECEPTOR; COMPND 18 ENGINEERED: YES; COMPND 19 MUTATION: YES; COMPND 20 MOL_ID: 4; COMPND 21 MOLECULE: RETINOIC ACID RECEPTOR RXR-ALPHA; COMPND 22 CHAIN: B; COMPND 23 FRAGMENT: DNA-BINDING DOMAIN (RESIDUES 130-228); COMPND 24 SYNONYM: 9-CIS RETINOIC ACID RECEPTOR; RETINOID X RECEPTOR ALPHA; COMPND 25 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 MOL_ID: 2; SOURCE 4 SYNTHETIC: YES; SOURCE 5 MOL_ID: 3; SOURCE 6 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 7 ORGANISM_COMMON: HUMAN; SOURCE 8 ORGANISM_TAXID: 9606; SOURCE 9 GENE: VDR, NR1I1; SOURCE 10 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 11 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 12 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 13 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 14 EXPRESSION_SYSTEM_PLASMID: PET11A-VDR(RPKLS); SOURCE 15 MOL_ID: 4; SOURCE 16 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 17 ORGANISM_COMMON: HUMAN; SOURCE 18 ORGANISM_TAXID: 9606; SOURCE 19 GENE: RXRA, NR2B1; SOURCE 20 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 21 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 22 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 23 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 24 EXPRESSION_SYSTEM_PLASMID: PGEX-RXR(SANE) KEYWDS VDR; RXR; NUCLEAR RECEPTOR; PROTEIN-DNA COMPLEX, TRANSCRIPTION-DNA KEYWDS 2 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR P.L.SHAFFER,D.T.GEWIRTH REVDAT 5 23-AUG-23 1YNW 1 REMARK REVDAT 4 20-OCT-21 1YNW 1 REMARK SEQADV LINK REVDAT 3 26-OCT-11 1YNW 1 TITLE VERSN REVDAT 2 24-FEB-09 1YNW 1 VERSN REVDAT 1 15-FEB-05 1YNW 0 JRNL AUTH P.L.SHAFFER,D.T.GEWIRTH JRNL TITL STRUCTURAL ANALYSIS OF RXR-VDR INTERACTIONS ON DR3 DNA JRNL REF J.STEROID BIOCHEM.MOL.BIOL. V.9-90 215 2004 JRNL REFN ISSN 0960-0760 JRNL PMID 15225774 JRNL DOI 10.1016/J.JSBMB.2004.03.084 REMARK 2 REMARK 2 RESOLUTION. 3.00 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 800311.580 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 87.6 REMARK 3 NUMBER OF REFLECTIONS : 8849 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) : 0.232 REMARK 3 FREE R VALUE : 0.283 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 823 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.010 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 10 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 3.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.11 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 66.90 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 1179 REMARK 3 BIN R VALUE (WORKING SET) : 0.4310 REMARK 3 BIN FREE R VALUE : 0.3730 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 6.00 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 75 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.043 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1335 REMARK 3 NUCLEIC ACID ATOMS : 731 REMARK 3 HETEROGEN ATOMS : 4 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 97.60 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -20.69000 REMARK 3 B22 (A**2) : 24.55000 REMARK 3 B33 (A**2) : -3.86000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -18.54000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.45 REMARK 3 ESD FROM SIGMAA (A) : 0.63 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.53 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.53 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.014 REMARK 3 BOND ANGLES (DEGREES) : 1.600 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 21.50 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.420 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 0.910 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 1.610 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 1.630 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.650 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.29 REMARK 3 BSOL : 34.80 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 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : DNA-RNA_REP.PARAM REMARK 3 PARAMETER FILE 3 : ION.PARAM REMARK 3 PARAMETER FILE 4 : PARAM_ZN REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : DNA-RNA.TOP REMARK 3 TOPOLOGY FILE 3 : ION.TOP REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1YNW COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-FEB-05. REMARK 100 THE DEPOSITION ID IS D_1000031732. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-MAR-02 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 14-ID-B REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.1808 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 18127 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.000 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.3 REMARK 200 DATA REDUNDANCY : 3.400 REMARK 200 R MERGE (I) : 0.04500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 31.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.11 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.5 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.34000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: PDB ENTRY 1KB4 AND 1DSZ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 70.30 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.20 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 8000, AMMONIUM CITRATE, TRIS, REMARK 280 GLYCEROL, DTT, PH 8.5, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 291K 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 61.55200 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 28.52450 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 61.55200 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 28.52450 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: TETRAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D, 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 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 PHE A 16 REMARK 465 ASP A 17 REMARK 465 GLU A 114 REMARK 465 ALA 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 LYS A 123 REMARK 465 LEU A 124 REMARK 465 SER A 125 REMARK 465 PHE B 230 REMARK 465 THR B 231 REMARK 465 LYS B 232 REMARK 465 HIS B 233 REMARK 465 GLU B 307 REMARK 465 GLU B 308 REMARK 465 ARG B 309 REMARK 465 GLN B 310 REMARK 465 ARG B 311 REMARK 465 GLY B 312 REMARK 465 LYS B 313 REMARK 465 ASP B 314 REMARK 465 ARG B 315 REMARK 465 ASN B 316 REMARK 465 GLU B 317 REMARK 465 ASN B 318 REMARK 465 GLU B 319 REMARK 465 VAL B 320 REMARK 465 GLU B 321 REMARK 465 SER B 322 REMARK 465 THR B 323 REMARK 465 SER B 324 REMARK 465 SER B 325 REMARK 465 ALA B 326 REMARK 465 ASN B 327 REMARK 465 GLU B 328 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 GLU A 98 CG CD OE1 OE2 REMARK 470 GLN A 101 CG CD OE1 NE2 REMARK 470 LYS B 245 CG CD CE NZ REMARK 470 ARG B 282 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 286 CG CD NE CZ NH1 NH2 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 ASN A 19 2.03 81.50 REMARK 500 PRO A 21 124.65 -30.06 REMARK 500 ARG A 22 43.28 -70.74 REMARK 500 VAL A 26 -64.42 -97.77 REMARK 500 ASP A 29 179.49 -58.21 REMARK 500 PHE A 36 50.83 26.73 REMARK 500 ALA A 62 -156.39 -52.78 REMARK 500 ASN A 63 46.71 -99.41 REMARK 500 ASP A 65 36.71 -169.81 REMARK 500 ARG A 73 -73.15 -14.24 REMARK 500 ARG A 74 -10.51 -43.28 REMARK 500 GLU A 98 -77.96 -47.15 REMARK 500 GLU A 99 -56.06 -27.31 REMARK 500 ARG A 102 -71.00 -41.46 REMARK 500 ARG A 110 34.68 -76.00 REMARK 500 GLU A 112 98.78 -43.00 REMARK 500 ILE B 237 -72.41 -99.30 REMARK 500 ASP B 240 165.30 -34.71 REMARK 500 TYR B 247 43.02 27.26 REMARK 500 SER B 251 148.77 -172.36 REMARK 500 LYS B 260 -70.09 -74.66 REMARK 500 ASP B 273 -122.10 -139.24 REMARK 500 ASP B 276 26.38 -155.20 REMARK 500 GLN B 283 61.66 -112.26 REMARK 500 ARG B 291 -75.23 -63.86 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 DT C 401 0.07 SIDE CHAIN REMARK 500 DA C 412 0.06 SIDE CHAIN REMARK 500 DT D 419 0.11 SIDE CHAIN REMARK 500 DA D 423 0.08 SIDE CHAIN REMARK 500 DC D 425 0.06 SIDE CHAIN REMARK 500 DT D 430 0.07 SIDE CHAIN REMARK 500 DA D 436 0.06 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 150 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 24 SG REMARK 620 2 CYS A 27 SG 106.1 REMARK 620 3 CYS A 41 SG 136.8 95.0 REMARK 620 4 CYS A 44 SG 122.5 102.0 87.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 151 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 60 SG REMARK 620 2 CYS A 66 SG 129.8 REMARK 620 3 CYS A 76 SG 105.7 89.3 REMARK 620 4 CYS A 79 SG 118.7 92.4 118.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 350 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 235 SG REMARK 620 2 CYS B 238 SG 133.2 REMARK 620 3 CYS B 252 SG 117.0 83.0 REMARK 620 4 CYS B 255 SG 112.9 109.7 87.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 351 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 271 SG REMARK 620 2 CYS B 277 SG 99.0 REMARK 620 3 CYS B 287 SG 113.9 130.8 REMARK 620 4 CYS B 290 SG 70.4 70.7 86.6 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 150 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 151 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 350 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 351 DBREF 1YNW A 16 125 UNP P11473 VDR_HUMAN 16 125 DBREF 1YNW B 230 328 UNP P19793 RXRA_HUMAN 130 228 DBREF 1YNW C 401 418 PDB 1YNW 1YNW 401 418 DBREF 1YNW D 419 436 PDB 1YNW 1YNW 419 436 SEQADV 1YNW ALA A 61 UNP P11473 PRO 61 ENGINEERED MUTATION SEQADV 1YNW ALA A 62 UNP P11473 PHE 62 ENGINEERED MUTATION SEQADV 1YNW ALA A 75 UNP P11473 HIS 75 ENGINEERED MUTATION SEQRES 1 C 18 DT DT DA DG DG DT DC DA DC DG DA DA DG SEQRES 2 C 18 DG DT DC DA DA SEQRES 1 D 18 DT DT DT DG DA DC DC DT DT DC DG DT DG SEQRES 2 D 18 DA DC DC DT DA SEQRES 1 A 110 PHE ASP ARG ASN VAL PRO ARG ILE CYS GLY VAL CYS GLY SEQRES 2 A 110 ASP ARG ALA THR GLY PHE HIS PHE ASN ALA MET THR CYS SEQRES 3 A 110 GLU GLY CYS LYS GLY PHE PHE ARG ARG SER MET LYS ARG SEQRES 4 A 110 LYS ALA LEU PHE THR CYS ALA ALA ASN GLY ASP CYS ARG SEQRES 5 A 110 ILE THR LYS ASP ASN ARG ARG ALA CYS GLN ALA CYS ARG SEQRES 6 A 110 LEU LYS ARG CYS VAL ASP ILE GLY MET MET LYS GLU PHE SEQRES 7 A 110 ILE LEU THR ASP GLU GLU VAL GLN ARG LYS ARG GLU MET SEQRES 8 A 110 ILE LEU LYS ARG LYS GLU GLU GLU ALA LEU LYS ASP SER SEQRES 9 A 110 LEU ARG PRO LYS LEU SER SEQRES 1 B 99 PHE THR LYS HIS ILE CYS ALA ILE CYS GLY ASP ARG SER SEQRES 2 B 99 SER GLY LYS HIS TYR GLY VAL TYR SER CYS GLU GLY CYS SEQRES 3 B 99 LYS GLY PHE PHE LYS ARG THR VAL ARG LYS ASP LEU THR SEQRES 4 B 99 TYR THR CYS ARG ASP ASN LYS ASP CYS LEU ILE ASP LYS SEQRES 5 B 99 ARG GLN ARG ASN ARG CYS GLN TYR CYS ARG TYR GLN LYS SEQRES 6 B 99 CYS LEU ALA MET GLY MET LYS ARG GLU ALA VAL GLN GLU SEQRES 7 B 99 GLU ARG GLN ARG GLY LYS ASP ARG ASN GLU ASN GLU VAL SEQRES 8 B 99 GLU SER THR SER SER ALA ASN GLU HET ZN A 150 1 HET ZN A 151 1 HET ZN B 350 1 HET ZN B 351 1 HETNAM ZN ZINC ION FORMUL 5 ZN 4(ZN 2+) HELIX 1 1 CYS A 41 LYS A 55 1 15 HELIX 2 2 ASN A 72 ALA A 75 5 4 HELIX 3 3 CYS A 76 ILE A 87 1 12 HELIX 4 4 MET A 90 ILE A 94 5 5 HELIX 5 5 THR A 96 ARG A 110 1 15 HELIX 6 6 GLU B 253 LYS B 265 1 13 HELIX 7 7 CYS B 287 MET B 298 1 12 SHEET 1 A 2 PHE A 34 HIS A 35 0 SHEET 2 A 2 ALA A 38 MET A 39 -1 O ALA A 38 N HIS A 35 LINK SG CYS A 24 ZN ZN A 150 1555 1555 2.47 LINK SG CYS A 27 ZN ZN A 150 1555 1555 2.66 LINK SG CYS A 41 ZN ZN A 150 1555 1555 2.61 LINK SG CYS A 44 ZN ZN A 150 1555 1555 2.54 LINK SG CYS A 60 ZN ZN A 151 1555 1555 2.43 LINK SG CYS A 66 ZN ZN A 151 1555 1555 2.27 LINK SG CYS A 76 ZN ZN A 151 1555 1555 2.35 LINK SG CYS A 79 ZN ZN A 151 1555 1555 2.38 LINK SG CYS B 235 ZN ZN B 350 1555 1555 2.42 LINK SG CYS B 238 ZN ZN B 350 1555 1555 2.47 LINK SG CYS B 252 ZN ZN B 350 1555 1555 2.55 LINK SG CYS B 255 ZN ZN B 350 1555 1555 2.22 LINK SG CYS B 271 ZN ZN B 351 1555 1555 2.58 LINK SG CYS B 277 ZN ZN B 351 1555 1555 2.46 LINK SG CYS B 287 ZN ZN B 351 1555 1555 2.23 LINK SG CYS B 290 ZN ZN B 351 1555 1555 2.76 SITE 1 AC1 4 CYS A 24 CYS A 27 CYS A 41 CYS A 44 SITE 1 AC2 4 CYS A 60 CYS A 66 CYS A 76 CYS A 79 SITE 1 AC3 4 CYS B 235 CYS B 238 CYS B 252 CYS B 255 SITE 1 AC4 4 CYS B 271 CYS B 277 CYS B 287 CYS B 290 CRYST1 123.104 57.049 73.438 90.00 110.31 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 0.008123 0.000000 0.003006 0.00000 SCALE2 0.000000 0.017529 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014520 0.00000