HEADER TRANSCRIPTION 05-JAN-22 7QPP TITLE HIGH RESOLUTION STRUCTURE OF HUMAN VDR LIGAND BINDING DOMAIN IN TITLE 2 COMPLEX WITH CALCITRIOL COMPND MOL_ID: 1; COMPND 2 MOLECULE: VITAMIN D3 RECEPTOR; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: VDR,1,25-DIHYDROXYVITAMIN D3 RECEPTOR,NUCLEAR RECEPTOR COMPND 5 SUBFAMILY 1 GROUP I MEMBER 1; COMPND 6 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: VDR, NR1I1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS VDR, CALCITRIOL, TRANSCRIPTION EXPDTA X-RAY DIFFRACTION AUTHOR N.ROCHEL REVDAT 2 31-JAN-24 7QPP 1 REMARK REVDAT 1 28-DEC-22 7QPP 0 JRNL AUTH R.SIGUEIRO,L.BIANCHETTI,C.PELUSO-ILTIS,S.CHALHOUB, JRNL AUTH 2 A.DEJAEGERE,J.OSZ,N.ROCHEL JRNL TITL ADVANCES IN VITAMIN D RECEPTOR FUNCTION AND EVOLUTION BASED JRNL TITL 2 ON THE 3D STRUCTURE OF THE LAMPREY LIGAND-BINDING DOMAIN. JRNL REF J.MED.CHEM. V. 65 5821 2022 JRNL REFN ISSN 0022-2623 JRNL PMID 35302785 JRNL DOI 10.1021/ACS.JMEDCHEM.2C00171 REMARK 2 REMARK 2 RESOLUTION. 1.52 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.17_3644 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.52 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.80 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.8 REMARK 3 NUMBER OF REFLECTIONS : 46307 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.142 REMARK 3 R VALUE (WORKING SET) : 0.139 REMARK 3 FREE R VALUE : 0.166 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.050 REMARK 3 FREE R VALUE TEST SET COUNT : 4655 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 19.8000 - 4.7100 0.97 1546 156 0.2079 0.2219 REMARK 3 2 4.7100 - 3.7400 0.99 1477 158 0.1370 0.1668 REMARK 3 3 3.7400 - 3.2700 0.99 1477 149 0.1428 0.1660 REMARK 3 4 3.2700 - 2.9800 1.00 1457 163 0.1448 0.1626 REMARK 3 5 2.9800 - 2.7600 1.00 1455 167 0.1459 0.1639 REMARK 3 6 2.7600 - 2.6000 1.00 1439 161 0.1357 0.1611 REMARK 3 7 2.6000 - 2.4700 0.99 1432 158 0.1265 0.1525 REMARK 3 8 2.4700 - 2.3600 0.99 1386 180 0.1254 0.1691 REMARK 3 9 2.3600 - 2.2700 1.00 1430 189 0.1215 0.1540 REMARK 3 10 2.2700 - 2.1900 0.99 1420 157 0.1213 0.1593 REMARK 3 11 2.1900 - 2.1300 0.99 1419 154 0.1232 0.1577 REMARK 3 12 2.1300 - 2.0600 0.99 1416 159 0.1259 0.1626 REMARK 3 13 2.0600 - 2.0100 0.99 1428 165 0.1295 0.1537 REMARK 3 14 2.0100 - 1.9600 0.99 1382 179 0.1298 0.1591 REMARK 3 15 1.9600 - 1.9200 0.99 1419 165 0.1312 0.1718 REMARK 3 16 1.9200 - 1.8800 0.99 1394 155 0.1362 0.1686 REMARK 3 17 1.8800 - 1.8400 0.98 1400 155 0.1357 0.1516 REMARK 3 18 1.8400 - 1.8000 0.99 1402 152 0.1326 0.1594 REMARK 3 19 1.8000 - 1.7700 0.98 1415 141 0.1298 0.1626 REMARK 3 20 1.7700 - 1.7400 0.97 1388 148 0.1284 0.1733 REMARK 3 21 1.7400 - 1.7100 0.97 1336 185 0.1335 0.1674 REMARK 3 22 1.7100 - 1.6900 0.96 1395 146 0.1305 0.1652 REMARK 3 23 1.6900 - 1.6600 0.96 1329 138 0.1282 0.1570 REMARK 3 24 1.6600 - 1.6400 0.94 1345 165 0.1305 0.1578 REMARK 3 25 1.6400 - 1.6200 0.95 1334 131 0.1314 0.1786 REMARK 3 26 1.6200 - 1.6000 0.93 1332 130 0.1260 0.1713 REMARK 3 27 1.6000 - 1.5800 0.93 1349 139 0.1348 0.1528 REMARK 3 28 1.5800 - 1.5600 0.92 1260 141 0.1248 0.1387 REMARK 3 29 1.5600 - 1.5400 0.90 1298 145 0.1347 0.1606 REMARK 3 30 1.5400 - 1.5200 0.78 1092 124 0.1364 0.1708 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.087 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 13.888 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 11.22 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 17.37 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.011 2135 REMARK 3 ANGLE : 1.268 2901 REMARK 3 CHIRALITY : 0.238 333 REMARK 3 PLANARITY : 0.009 368 REMARK 3 DIHEDRAL : 21.949 818 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 10 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 119 THROUGH 142 ) REMARK 3 ORIGIN FOR THE GROUP (A): 23.3220 7.6404 53.9264 REMARK 3 T TENSOR REMARK 3 T11: 0.1770 T22: 0.1325 REMARK 3 T33: 0.1026 T12: 0.0443 REMARK 3 T13: -0.0625 T23: -0.0101 REMARK 3 L TENSOR REMARK 3 L11: 1.8382 L22: 0.6442 REMARK 3 L33: 1.8278 L12: 0.7903 REMARK 3 L13: 1.2842 L23: 0.4275 REMARK 3 S TENSOR REMARK 3 S11: 0.1177 S12: -0.1955 S13: -0.1922 REMARK 3 S21: 0.3437 S22: 0.0410 S23: -0.1251 REMARK 3 S31: 0.3334 S32: 0.2371 S33: -0.1436 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 143 THROUGH 226 ) REMARK 3 ORIGIN FOR THE GROUP (A): 8.8867 23.2171 24.5323 REMARK 3 T TENSOR REMARK 3 T11: 0.0696 T22: 0.0940 REMARK 3 T33: 0.0941 T12: 0.0057 REMARK 3 T13: -0.0089 T23: 0.0029 REMARK 3 L TENSOR REMARK 3 L11: 0.9832 L22: 1.7064 REMARK 3 L33: 0.9791 L12: -0.7836 REMARK 3 L13: 0.1980 L23: -0.3149 REMARK 3 S TENSOR REMARK 3 S11: 0.1191 S12: 0.1600 S13: 0.1070 REMARK 3 S21: -0.2434 S22: -0.1285 S23: 0.0081 REMARK 3 S31: -0.0381 S32: 0.0329 S33: 0.0224 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 227 THROUGH 255 ) REMARK 3 ORIGIN FOR THE GROUP (A): 7.5141 12.2420 42.2053 REMARK 3 T TENSOR REMARK 3 T11: 0.0518 T22: 0.0531 REMARK 3 T33: 0.0731 T12: -0.0173 REMARK 3 T13: 0.0004 T23: -0.0053 REMARK 3 L TENSOR REMARK 3 L11: 0.7256 L22: 1.0396 REMARK 3 L33: 1.2886 L12: -0.2394 REMARK 3 L13: 0.4204 L23: 0.0039 REMARK 3 S TENSOR REMARK 3 S11: 0.0180 S12: -0.0826 S13: -0.0062 REMARK 3 S21: 0.0920 S22: -0.0507 S23: 0.0804 REMARK 3 S31: 0.1610 S32: -0.1085 S33: -0.0484 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 256 THROUGH 290 ) REMARK 3 ORIGIN FOR THE GROUP (A): 13.5135 20.0842 39.7482 REMARK 3 T TENSOR REMARK 3 T11: 0.0476 T22: 0.0422 REMARK 3 T33: 0.0611 T12: -0.0061 REMARK 3 T13: -0.0255 T23: -0.0125 REMARK 3 L TENSOR REMARK 3 L11: 3.0077 L22: 1.5589 REMARK 3 L33: 3.8757 L12: 0.8694 REMARK 3 L13: -2.0840 L23: -1.0000 REMARK 3 S TENSOR REMARK 3 S11: -0.0090 S12: -0.0001 S13: 0.1142 REMARK 3 S21: 0.0457 S22: -0.0298 S23: 0.0079 REMARK 3 S31: -0.0414 S32: -0.1177 S33: 0.0292 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 291 THROUGH 306 ) REMARK 3 ORIGIN FOR THE GROUP (A): 13.1654 26.6227 26.2303 REMARK 3 T TENSOR REMARK 3 T11: 0.0842 T22: 0.1102 REMARK 3 T33: 0.0860 T12: -0.0273 REMARK 3 T13: -0.0338 T23: 0.0341 REMARK 3 L TENSOR REMARK 3 L11: 3.4917 L22: 6.6620 REMARK 3 L33: 2.5286 L12: -1.3964 REMARK 3 L13: 0.7347 L23: 0.4516 REMARK 3 S TENSOR REMARK 3 S11: 0.0113 S12: 0.2719 S13: 0.1483 REMARK 3 S21: -0.3244 S22: -0.0686 S23: -0.1339 REMARK 3 S31: -0.1222 S32: 0.1625 S33: 0.0301 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 307 THROUGH 323 ) REMARK 3 ORIGIN FOR THE GROUP (A): 19.1873 30.4588 39.1131 REMARK 3 T TENSOR REMARK 3 T11: 0.0834 T22: 0.0547 REMARK 3 T33: 0.1559 T12: -0.0235 REMARK 3 T13: -0.0388 T23: 0.0206 REMARK 3 L TENSOR REMARK 3 L11: 5.5678 L22: 3.4244 REMARK 3 L33: 3.5221 L12: -2.4018 REMARK 3 L13: 1.4131 L23: -1.1707 REMARK 3 S TENSOR REMARK 3 S11: -0.1491 S12: 0.1802 S13: 0.6896 REMARK 3 S21: 0.0324 S22: -0.1277 S23: -0.1745 REMARK 3 S31: -0.2232 S32: 0.1022 S33: 0.2077 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 324 THROUGH 348 ) REMARK 3 ORIGIN FOR THE GROUP (A): 14.3543 17.8815 51.7092 REMARK 3 T TENSOR REMARK 3 T11: 0.0764 T22: 0.0491 REMARK 3 T33: 0.0399 T12: -0.0021 REMARK 3 T13: -0.0219 T23: -0.0142 REMARK 3 L TENSOR REMARK 3 L11: 4.0027 L22: 1.7426 REMARK 3 L33: 2.7757 L12: -0.2809 REMARK 3 L13: -1.0382 L23: 0.0907 REMARK 3 S TENSOR REMARK 3 S11: 0.0718 S12: -0.0049 S13: 0.1256 REMARK 3 S21: 0.1409 S22: -0.0508 S23: 0.0065 REMARK 3 S31: -0.0214 S32: -0.1579 S33: 0.0086 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 349 THROUGH 378 ) REMARK 3 ORIGIN FOR THE GROUP (A): 23.0434 16.8026 57.5641 REMARK 3 T TENSOR REMARK 3 T11: 0.1373 T22: 0.1179 REMARK 3 T33: 0.0993 T12: 0.0144 REMARK 3 T13: -0.0452 T23: -0.0141 REMARK 3 L TENSOR REMARK 3 L11: 4.1400 L22: 1.6394 REMARK 3 L33: 2.6264 L12: 0.3311 REMARK 3 L13: -0.9033 L23: -0.1838 REMARK 3 S TENSOR REMARK 3 S11: -0.0203 S12: -0.2736 S13: 0.1678 REMARK 3 S21: 0.2247 S22: 0.0146 S23: -0.2478 REMARK 3 S31: 0.0262 S32: 0.3173 S33: 0.0216 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 379 THROUGH 406 ) REMARK 3 ORIGIN FOR THE GROUP (A): 10.1391 29.2456 44.8288 REMARK 3 T TENSOR REMARK 3 T11: 0.0920 T22: 0.0865 REMARK 3 T33: 0.1225 T12: 0.0084 REMARK 3 T13: -0.0200 T23: -0.0236 REMARK 3 L TENSOR REMARK 3 L11: 6.4444 L22: 0.8398 REMARK 3 L33: 4.8561 L12: -1.4765 REMARK 3 L13: 5.3986 L23: -1.0996 REMARK 3 S TENSOR REMARK 3 S11: -0.2829 S12: -0.3727 S13: 0.4493 REMARK 3 S21: 0.0899 S22: 0.0542 S23: -0.0978 REMARK 3 S31: -0.2886 S32: -0.3080 S33: 0.2038 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 407 THROUGH 424 ) REMARK 3 ORIGIN FOR THE GROUP (A): -3.4703 22.8169 33.4180 REMARK 3 T TENSOR REMARK 3 T11: 0.0557 T22: 0.1098 REMARK 3 T33: 0.1474 T12: 0.0080 REMARK 3 T13: -0.0041 T23: -0.0130 REMARK 3 L TENSOR REMARK 3 L11: 2.4710 L22: 5.7219 REMARK 3 L33: 2.6413 L12: -2.0839 REMARK 3 L13: 0.9140 L23: -2.8494 REMARK 3 S TENSOR REMARK 3 S11: -0.0646 S12: -0.2411 S13: -0.0749 REMARK 3 S21: 0.1825 S22: 0.1386 S23: 0.2988 REMARK 3 S31: -0.0917 S32: -0.2421 S33: -0.0769 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 7QPP COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 05-JAN-22. REMARK 100 THE DEPOSITION ID IS D_1292120049. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 02-MAY-00 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : BM30A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.98 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 345 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 46307 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.520 REMARK 200 RESOLUTION RANGE LOW (A) : 20.100 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.2 REMARK 200 DATA REDUNDANCY : 3.400 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.00500 REMARK 200 FOR THE DATA SET : 20.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.52 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.56 REMARK 200 COMPLETENESS FOR SHELL (%) : 66.6 REMARK 200 DATA REDUNDANCY IN SHELL : 3.40 REMARK 200 R MERGE FOR SHELL (I) : 0.12200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 9.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: 1DB1 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.93 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.56 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: AMMONIUM SULFATE, PH 6.0, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 277K 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 22.46300 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 66.15850 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 25.65850 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 66.15850 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 22.46300 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 25.65850 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1180 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12220 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -11.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 GLY A 114 REMARK 465 SER A 115 REMARK 465 HIS A 116 REMARK 465 MET A 117 REMARK 465 ASP A 118 REMARK 465 GLU A 425 REMARK 465 ILE A 426 REMARK 465 SER A 427 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 HIS A 377 CG ND1 CD2 CE1 NE2 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 HD22 ASN A 290 O HOH A 603 1.41 REMARK 500 HH12 ARG A 402 O HOH A 609 1.47 REMARK 500 HH TYR A 147 O HOH A 601 1.58 REMARK 500 OH TYR A 147 O HOH A 601 1.71 REMARK 500 O HOH A 618 O HOH A 665 1.80 REMARK 500 O HOH A 900 O HOH A 941 1.95 REMARK 500 O HOH A 915 O HOH A 961 1.96 REMARK 500 O HOH A 933 O HOH A 1000 1.98 REMARK 500 O HOH A 736 O HOH A 847 2.00 REMARK 500 O HOH A 944 O HOH A 967 2.01 REMARK 500 O HOH A 604 O HOH A 859 2.02 REMARK 500 O HOH A 640 O HOH A 833 2.02 REMARK 500 O HOH A 643 O HOH A 889 2.02 REMARK 500 O HOH A 988 O HOH A 999 2.04 REMARK 500 O HOH A 672 O HOH A 889 2.04 REMARK 500 O HOH A 969 O HOH A 1004 2.07 REMARK 500 O HOH A 869 O HOH A 941 2.09 REMARK 500 OE1 GLN A 129 O HOH A 602 2.12 REMARK 500 O HOH A 747 O HOH A 918 2.13 REMARK 500 O HOH A 842 O HOH A 915 2.13 REMARK 500 O HOH A 901 O HOH A 902 2.14 REMARK 500 O HOH A 657 O HOH A 896 2.15 REMARK 500 O HOH A 915 O HOH A 974 2.16 REMARK 500 O HOH A 820 O HOH A 879 2.17 REMARK 500 ND2 ASN A 290 O HOH A 603 2.17 REMARK 500 NH2 ARG A 130 O HOH A 604 2.18 REMARK 500 O HOH A 809 O HOH A 830 2.18 REMARK 500 NZ LYS A 123 O HOH A 605 2.19 REMARK 500 O HOH A 951 O HOH A 968 2.19 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 A 764 O HOH A 896 1455 2.18 REMARK 500 O HOH A 618 O HOH A 903 3655 2.18 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 ASP A 161 47.84 -149.05 REMARK 500 LEU A 224 50.98 39.17 REMARK 500 ASP A 283 15.76 -142.69 REMARK 500 ASP A 342 64.17 -102.69 REMARK 500 LEU A 414 -154.05 -96.85 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 A1009 DISTANCE = 6.25 ANGSTROMS REMARK 525 HOH A1010 DISTANCE = 6.31 ANGSTROMS DBREF 7QPP A 118 216 UNP P11473 VDR_HUMAN 118 165 DBREF 7QPP A 217 427 UNP P11473 VDR_HUMAN 217 427 SEQADV 7QPP GLY A 114 UNP P11473 EXPRESSION TAG SEQADV 7QPP SER A 115 UNP P11473 EXPRESSION TAG SEQADV 7QPP HIS A 116 UNP P11473 EXPRESSION TAG SEQADV 7QPP MET A 117 UNP P11473 EXPRESSION TAG SEQRES 1 A 263 GLY SER HIS MET ASP SER LEU ARG PRO LYS LEU SER GLU SEQRES 2 A 263 GLU GLN GLN ARG ILE ILE ALA ILE LEU LEU ASP ALA HIS SEQRES 3 A 263 HIS LYS THR TYR ASP PRO THR TYR SER ASP PHE CYS GLN SEQRES 4 A 263 PHE ARG PRO PRO VAL ARG VAL ASN ASP GLY GLY GLY SER SEQRES 5 A 263 VAL THR LEU GLU LEU SER GLN LEU SER MET LEU PRO HIS SEQRES 6 A 263 LEU ALA ASP LEU VAL SER TYR SER ILE GLN LYS VAL ILE SEQRES 7 A 263 GLY PHE ALA LYS MET ILE PRO GLY PHE ARG ASP LEU THR SEQRES 8 A 263 SER GLU ASP GLN ILE VAL LEU LEU LYS SER SER ALA ILE SEQRES 9 A 263 GLU VAL ILE MET LEU ARG SER ASN GLU SER PHE THR MET SEQRES 10 A 263 ASP ASP MET SER TRP THR CYS GLY ASN GLN ASP TYR LYS SEQRES 11 A 263 TYR ARG VAL SER ASP VAL THR LYS ALA GLY HIS SER LEU SEQRES 12 A 263 GLU LEU ILE GLU PRO LEU ILE LYS PHE GLN VAL GLY LEU SEQRES 13 A 263 LYS LYS LEU ASN LEU HIS GLU GLU GLU HIS VAL LEU LEU SEQRES 14 A 263 MET ALA ILE CYS ILE VAL SER PRO ASP ARG PRO GLY VAL SEQRES 15 A 263 GLN ASP ALA ALA LEU ILE GLU ALA ILE GLN ASP ARG LEU SEQRES 16 A 263 SER ASN THR LEU GLN THR TYR ILE ARG CYS ARG HIS PRO SEQRES 17 A 263 PRO PRO GLY SER HIS LEU LEU TYR ALA LYS MET ILE GLN SEQRES 18 A 263 LYS LEU ALA ASP LEU ARG SER LEU ASN GLU GLU HIS SER SEQRES 19 A 263 LYS GLN TYR ARG CYS LEU SER PHE GLN PRO GLU CYS SER SEQRES 20 A 263 MET LYS LEU THR PRO LEU VAL LEU GLU VAL PHE GLY ASN SEQRES 21 A 263 GLU ILE SER HET VDX A 501 74 HET SO4 A 502 5 HETNAM VDX 5-{2-[1-(5-HYDROXY-1,5-DIMETHYL-HEXYL)-7A-METHYL- HETNAM 2 VDX OCTAHYDRO-INDEN-4-YLIDENE]-ETHYLIDENE}-4-METHYLENE- HETNAM 3 VDX CYCLOHEXANE-1,3-DIOL HETNAM SO4 SULFATE ION HETSYN VDX 1,25 DIHYDROXY VITAMIN D3 FORMUL 2 VDX C27 H44 O3 FORMUL 3 SO4 O4 S 2- FORMUL 4 HOH *410(H2 O) HELIX 1 AA1 SER A 125 TYR A 143 1 19 HELIX 2 AA2 ASP A 149 PHE A 153 5 5 HELIX 3 AA3 SER A 216 LEU A 224 1 9 HELIX 4 AA4 MET A 226 MET A 247 1 22 HELIX 5 AA5 GLY A 250 LEU A 254 5 5 HELIX 6 AA6 THR A 255 SER A 275 1 21 HELIX 7 AA7 ASN A 290 ASP A 292 5 3 HELIX 8 AA8 ARG A 296 LYS A 302 1 7 HELIX 9 AA9 SER A 306 LEU A 323 1 18 HELIX 10 AB1 HIS A 326 VAL A 339 1 14 HELIX 11 AB2 ASP A 348 HIS A 371 1 24 HELIX 12 AB3 LEU A 378 PHE A 406 1 29 HELIX 13 AB4 GLU A 409 LEU A 414 1 6 HELIX 14 AB5 THR A 415 GLY A 423 1 9 SHEET 1 AA1 3 PHE A 279 THR A 280 0 SHEET 2 AA1 3 SER A 285 THR A 287 -1 O SER A 285 N THR A 280 SHEET 3 AA1 3 LYS A 294 TYR A 295 -1 O TYR A 295 N TRP A 286 CISPEP 1 PRO A 373 PRO A 374 0 0.50 CRYST1 44.926 51.317 132.317 90.00 90.00 90.00 P 21 21 21 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 0.022259 0.000000 0.000000 0.00000 SCALE2 0.000000 0.019487 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007558 0.00000