PDB Short entry for 4CN2 HEADER TRANSCRIPTION/DNA 21-JAN-14 4CN2 TITLE CRYSTAL STRUCTURE OF THE HUMAN RETINOID X RECEPTOR DNA-BINDING DOMAIN TITLE 2 BOUND TO THE HUMAN RAMP2 RESPONSE ELEMENT COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-D(*TP*GP*AP*GP*TP*TP*CP*AP*AP*GP*GP*GP*TP*DC *AP*AP*TP)- COMPND 3 3'; COMPND 4 CHAIN: A; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: 5'-D(*AP*TP*TP*GP*AP*CP*CP*CP*TP*TP*GP*AP*AP*DC *TP*CP*AP)- COMPND 8 3'; COMPND 9 CHAIN: B; COMPND 10 ENGINEERED: YES; COMPND 11 MOL_ID: 3; COMPND 12 MOLECULE: RETINOIC ACID RECEPTOR RXR-ALPHA; COMPND 13 CHAIN: C, D; COMPND 14 FRAGMENT: DNA-BINDING DOMAIN, RESIDUES 130-212; COMPND 15 SYNONYM: NUCLEAR RECEPTOR SUBFAMILY 2 GROUP B MEMBER 1, RETINOID X COMPND 16 RECEPTOR ALPHA, RETINOID X RECEPTOR; COMPND 17 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 4 ORGANISM_COMMON: HUMAN; SOURCE 5 ORGANISM_TAXID: 9606; SOURCE 6 MOL_ID: 2; SOURCE 7 SYNTHETIC: YES; SOURCE 8 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 9 ORGANISM_COMMON: HUMAN; SOURCE 10 ORGANISM_TAXID: 9606; SOURCE 11 MOL_ID: 3; SOURCE 12 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 13 ORGANISM_COMMON: HUMAN; SOURCE 14 ORGANISM_TAXID: 9606; SOURCE 15 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 16 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 17 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 18 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 19 EXPRESSION_SYSTEM_PLASMID: PHXGW KEYWDS TRANSCRIPTION-DNA COMPLEX, NUCLEAR RECEPTOR EXPDTA X-RAY DIFFRACTION AUTHOR A.G.MCEWEN,P.POUSSIN-COURMONTAGNE,J.OSZ,N.ROCHEL REVDAT 2 20-DEC-23 4CN2 1 REMARK LINK REVDAT 1 18-FEB-15 4CN2 0 JRNL AUTH J.OSZ,A.G.MCEWEN,P.POUSSIN-COURMONTAGNE,E.MOUTIER,C.BIRCK, JRNL AUTH 2 I.DAVIDSON,D.MORAS,N.ROCHEL JRNL TITL STRUCTURAL BASIS OF NATURAL PROMOTER RECOGNITION BY THE JRNL TITL 2 RETINOID X NUCLEAR RECEPTOR. JRNL REF SCI.REP. V. 5 8216 2015 JRNL REFN ESSN 2045-2322 JRNL PMID 25645674 JRNL DOI 10.1038/SREP08216 REMARK 2 REMARK 2 RESOLUTION. 2.07 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE) 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.07 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 23.90 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 87.8 REMARK 3 NUMBER OF REFLECTIONS : 18563 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.167 REMARK 3 R VALUE (WORKING SET) : 0.165 REMARK 3 FREE R VALUE : 0.214 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1616 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 23.9001 - 4.7260 0.87 2467 130 0.1549 0.1756 REMARK 3 2 4.7260 - 3.7559 0.90 2540 127 0.1327 0.1667 REMARK 3 3 3.7559 - 3.2825 0.95 2713 146 0.1493 0.1916 REMARK 3 4 3.2825 - 2.9830 0.98 2781 115 0.1684 0.2172 REMARK 3 5 2.9830 - 2.7695 0.98 2783 135 0.1851 0.2670 REMARK 3 6 2.7695 - 2.6064 0.97 2769 156 0.1809 0.2728 REMARK 3 7 2.6064 - 2.4761 0.96 2710 145 0.1872 0.2388 REMARK 3 8 2.4761 - 2.3684 0.95 2675 182 0.1683 0.2410 REMARK 3 9 2.3684 - 2.2773 0.94 2605 149 0.1753 0.2578 REMARK 3 10 2.2773 - 2.1987 0.81 2307 123 0.2051 0.2717 REMARK 3 11 2.1987 - 2.1300 0.71 1999 119 0.2055 0.2191 REMARK 3 12 2.1300 - 2.0692 0.53 1496 89 0.2131 0.2732 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 REMARK 3 SHRINKAGE RADIUS : 0.83 REMARK 3 K_SOL : 0.34 REMARK 3 B_SOL : 31.01 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.270 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 21.500 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 26.17 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 38.28 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.21780 REMARK 3 B22 (A**2) : -2.46830 REMARK 3 B33 (A**2) : 1.25040 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -7.78750 REMARK 3 B23 (A**2) : 0.00000 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 : 0.006 2160 REMARK 3 ANGLE : 1.164 3029 REMARK 3 CHIRALITY : 0.067 313 REMARK 3 PLANARITY : 0.003 273 REMARK 3 DIHEDRAL : 21.790 897 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN D REMARK 3 ORIGIN FOR THE GROUP (A): 25.4818 14.9001 52.8709 REMARK 3 T TENSOR REMARK 3 T11: 0.4656 T22: 0.1328 REMARK 3 T33: 0.1763 T12: 0.0070 REMARK 3 T13: -0.0960 T23: 0.1029 REMARK 3 L TENSOR REMARK 3 L11: 0.7956 L22: 0.5466 REMARK 3 L33: 0.9501 L12: 0.4502 REMARK 3 L13: -0.1033 L23: 0.2002 REMARK 3 S TENSOR REMARK 3 S11: 0.1000 S12: -0.2512 S13: -0.4150 REMARK 3 S21: 0.2940 S22: 0.2199 S23: -0.2394 REMARK 3 S31: 0.6957 S32: 0.0940 S33: 0.2218 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN C REMARK 3 ORIGIN FOR THE GROUP (A): 13.8696 39.2023 35.0897 REMARK 3 T TENSOR REMARK 3 T11: 0.1376 T22: 0.0980 REMARK 3 T33: 0.1585 T12: 0.0162 REMARK 3 T13: 0.0272 T23: -0.0069 REMARK 3 L TENSOR REMARK 3 L11: 0.6860 L22: 0.9985 REMARK 3 L33: 0.5097 L12: -0.3955 REMARK 3 L13: 0.3491 L23: -0.0995 REMARK 3 S TENSOR REMARK 3 S11: -0.1233 S12: -0.0403 S13: 0.0995 REMARK 3 S21: 0.0622 S22: 0.1001 S23: -0.0952 REMARK 3 S31: -0.1731 S32: 0.0431 S33: 0.0161 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN A) OR (CHAIN B) REMARK 3 ORIGIN FOR THE GROUP (A): 13.2674 30.2469 48.9802 REMARK 3 T TENSOR REMARK 3 T11: 0.1947 T22: 0.2923 REMARK 3 T33: 0.1904 T12: 0.0376 REMARK 3 T13: 0.0151 T23: 0.0572 REMARK 3 L TENSOR REMARK 3 L11: 0.4588 L22: 1.0726 REMARK 3 L33: 0.7012 L12: -0.7133 REMARK 3 L13: 0.3134 L23: -0.2464 REMARK 3 S TENSOR REMARK 3 S11: -0.2131 S12: -0.4281 S13: -0.1930 REMARK 3 S21: 0.3103 S22: 0.3068 S23: 0.1629 REMARK 3 S31: -0.0942 S32: -0.4114 S33: -0.0960 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 4CN2 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 21-JAN-14. REMARK 100 THE DEPOSITION ID IS D_1290059516. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-MAY-12 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 : ID23-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.283 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : TOROIDAL MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 18563 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.060 REMARK 200 RESOLUTION RANGE LOW (A) : 25.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.3 REMARK 200 DATA REDUNDANCY : 3.100 REMARK 200 R MERGE (I) : 0.08000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 15.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.06 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.10 REMARK 200 COMPLETENESS FOR SHELL (%) : 70.8 REMARK 200 DATA REDUNDANCY IN SHELL : 1.80 REMARK 200 R MERGE FOR SHELL (I) : 0.22000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 4.200 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: PDB ENTRY 1DSZ REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.30 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.45 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG 3350, 0.2M NH4CL, 0.1M MGCL2, REMARK 280 0.1M MES PH 6 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 56.61700 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 21.97600 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 56.61700 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 21.97600 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, 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 GLY C 126 REMARK 465 SER C 127 REMARK 465 HIS C 128 REMARK 465 ARG C 211 REMARK 465 GLY C 212 REMARK 465 GLY D 126 REMARK 465 SER D 127 REMARK 465 HIS D 128 REMARK 465 MET D 129 REMARK 465 PHE D 130 REMARK 465 THR D 131 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 GLN C 210 CG CD OE1 NE2 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 DG A 2 O4' - C1' - N9 ANGL. DEV. = 2.5 DEGREES REMARK 500 DA A 8 O4' - C1' - N9 ANGL. DEV. = -4.9 DEGREES REMARK 500 DA A 9 C3' - C2' - C1' ANGL. DEV. = -5.3 DEGREES REMARK 500 DG A 12 O4' - C1' - N9 ANGL. DEV. = 4.7 DEGREES REMARK 500 DT A 13 O4' - C1' - N1 ANGL. DEV. = -4.2 DEGREES REMARK 500 DC B 7 O4' - C1' - N1 ANGL. DEV. = 3.7 DEGREES REMARK 500 DT B 9 O4' - C1' - N1 ANGL. DEV. = -5.0 DEGREES REMARK 500 DA B 12 O4' - C1' - N9 ANGL. DEV. = -8.4 DEGREES REMARK 500 DC B 14 O4' - C4' - C3' ANGL. DEV. = -2.9 DEGREES REMARK 500 DC B 14 C1' - O4' - C4' ANGL. DEV. = -6.8 DEGREES REMARK 500 DC B 14 O4' - C1' - N1 ANGL. DEV. = 3.3 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 PHE C 130 45.23 -107.05 REMARK 500 ASP C 173 -129.91 -108.19 REMARK 500 ASP C 176 40.60 -149.54 REMARK 500 ASP D 140 -177.61 -68.51 REMARK 500 ASP D 173 -106.40 -120.80 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 MG A1035 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DG A 2 OP2 REMARK 620 2 HOH A2039 O 136.4 REMARK 620 3 LYS C 145 O 88.6 126.0 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A1036 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DG A 10 OP2 REMARK 620 2 HOH A2029 O 118.2 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG D1218 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DG B 4 OP2 REMARK 620 2 GLY D 154 O 88.4 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B1035 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DT B 9 OP2 REMARK 620 2 HOH B2031 O 115.7 REMARK 620 3 HOH B2032 O 102.1 126.5 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG C1217 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DA B 12 OP1 REMARK 620 2 ASP C 140 OD2 126.7 REMARK 620 3 HOH C2037 O 95.0 129.6 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN C1211 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS C 135 SG REMARK 620 2 CYS C 138 SG 112.1 REMARK 620 3 CYS C 152 SG 114.3 104.7 REMARK 620 4 CYS C 155 SG 108.8 113.7 102.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN C1212 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS C 171 SG REMARK 620 2 CYS C 177 SG 107.1 REMARK 620 3 CYS C 187 SG 108.2 117.7 REMARK 620 4 CYS C 190 SG 111.1 104.2 108.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG C1216 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LEU C 196 O REMARK 620 2 MET C 200 O 114.2 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN D1213 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS D 135 SG REMARK 620 2 CYS D 138 SG 104.4 REMARK 620 3 CYS D 152 SG 114.3 102.4 REMARK 620 4 CYS D 155 SG 109.2 114.3 112.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN D1214 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS D 171 SG REMARK 620 2 CYS D 177 SG 107.5 REMARK 620 3 CYS D 187 SG 111.1 110.7 REMARK 620 4 CYS D 190 SG 111.2 107.0 109.2 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 C 1211 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN C 1212 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MES C 1213 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN D 1213 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN D 1214 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL D 1215 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL C 1214 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL D 1216 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL D 1217 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG C 1215 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG C 1216 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 1035 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG D 1218 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG C 1217 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 1036 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 1035 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4CN3 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE HUMAN RETINOID X RECEPTOR DNA -BINDING REMARK 900 DOMAIN BOUND TO THE HUMAN GDE1SPA RESPONSE ELEMENT REMARK 900 RELATED ID: 4CN5 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE HUMAN RETINOID X RECEPTOR DNA -BINDING REMARK 900 DOMAIN BOUND TO THE HUMAN NR1D1 RESPONSE ELEMENT REMARK 900 RELATED ID: 4CN7 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE HUMAN RETINOID X RECEPTOR DNA -BINDING REMARK 900 DOMAIN BOUND TO AN IDEALIZED DR1 RESPONSE ELEMENT DBREF 4CN2 A 1 17 PDB 4CN2 4CN2 1 17 DBREF 4CN2 B 1 17 PDB 4CN2 4CN2 1 17 DBREF 4CN2 C 130 212 UNP P19793 RXRA_HUMAN 130 212 DBREF 4CN2 D 130 212 UNP P19793 RXRA_HUMAN 130 212 SEQADV 4CN2 GLY C 126 UNP P19793 EXPRESSION TAG SEQADV 4CN2 SER C 127 UNP P19793 EXPRESSION TAG SEQADV 4CN2 HIS C 128 UNP P19793 EXPRESSION TAG SEQADV 4CN2 MET C 129 UNP P19793 EXPRESSION TAG SEQADV 4CN2 GLY D 126 UNP P19793 EXPRESSION TAG SEQADV 4CN2 SER D 127 UNP P19793 EXPRESSION TAG SEQADV 4CN2 HIS D 128 UNP P19793 EXPRESSION TAG SEQADV 4CN2 MET D 129 UNP P19793 EXPRESSION TAG SEQRES 1 A 17 DT DG DA DG DT DT DC DA DA DG DG DG DT SEQRES 2 A 17 DC DA DA DT SEQRES 1 B 17 DA DT DT DG DA DC DC DC DT DT DG DA DA SEQRES 2 B 17 DC DT DC DA SEQRES 1 C 87 GLY SER HIS MET PHE THR LYS HIS ILE CYS ALA ILE CYS SEQRES 2 C 87 GLY ASP ARG SER SER GLY LYS HIS TYR GLY VAL TYR SER SEQRES 3 C 87 CYS GLU GLY CYS LYS GLY PHE PHE LYS ARG THR VAL ARG SEQRES 4 C 87 LYS ASP LEU THR TYR THR CYS ARG ASP ASN LYS ASP CYS SEQRES 5 C 87 LEU ILE ASP LYS ARG GLN ARG ASN ARG CYS GLN TYR CYS SEQRES 6 C 87 ARG TYR GLN LYS CYS LEU ALA MET GLY MET LYS ARG GLU SEQRES 7 C 87 ALA VAL GLN GLU GLU ARG GLN ARG GLY SEQRES 1 D 87 GLY SER HIS MET PHE THR LYS HIS ILE CYS ALA ILE CYS SEQRES 2 D 87 GLY ASP ARG SER SER GLY LYS HIS TYR GLY VAL TYR SER SEQRES 3 D 87 CYS GLU GLY CYS LYS GLY PHE PHE LYS ARG THR VAL ARG SEQRES 4 D 87 LYS ASP LEU THR TYR THR CYS ARG ASP ASN LYS ASP CYS SEQRES 5 D 87 LEU ILE ASP LYS ARG GLN ARG ASN ARG CYS GLN TYR CYS SEQRES 6 D 87 ARG TYR GLN LYS CYS LEU ALA MET GLY MET LYS ARG GLU SEQRES 7 D 87 ALA VAL GLN GLU GLU ARG GLN ARG GLY HET MG A1035 1 HET MG A1036 1 HET MG B1035 1 HET ZN C1211 1 HET ZN C1212 1 HET MES C1213 12 HET CL C1214 1 HET MG C1215 1 HET MG C1216 1 HET MG C1217 1 HET ZN D1213 1 HET ZN D1214 1 HET CL D1215 1 HET CL D1216 1 HET CL D1217 1 HET MG D1218 1 HETNAM MG MAGNESIUM ION HETNAM ZN ZINC ION HETNAM MES 2-(N-MORPHOLINO)-ETHANESULFONIC ACID HETNAM CL CHLORIDE ION FORMUL 5 MG 7(MG 2+) FORMUL 8 ZN 4(ZN 2+) FORMUL 10 MES C6 H13 N O4 S FORMUL 11 CL 4(CL 1-) FORMUL 21 HOH *156(H2 O) HELIX 1 1 CYS C 152 LYS C 165 1 14 HELIX 2 2 CYS C 187 GLY C 199 1 13 HELIX 3 3 LYS C 201 VAL C 205 5 5 HELIX 4 4 CYS D 152 ASP D 166 1 15 HELIX 5 5 CYS D 187 MET D 198 1 12 HELIX 6 6 LYS D 201 VAL D 205 5 5 SHEET 1 CA 2 HIS C 133 ILE C 134 0 SHEET 2 CA 2 ARG C 141 SER C 142 -1 O SER C 142 N HIS C 133 SHEET 1 CB 2 GLY C 144 HIS C 146 0 SHEET 2 CB 2 VAL C 149 SER C 151 -1 O VAL C 149 N HIS C 146 SHEET 1 DA 2 LYS D 145 HIS D 146 0 SHEET 2 DA 2 VAL D 149 TYR D 150 -1 O VAL D 149 N HIS D 146 LINK OP2 DG A 2 MG MG A1035 1555 1555 2.85 LINK OP2 DG A 10 MG MG A1036 1555 1555 2.75 LINK MG MG A1035 O HOH A2039 1555 1555 2.71 LINK MG MG A1035 O LYS C 145 1555 1555 2.79 LINK MG MG A1036 O HOH A2029 1555 1555 2.83 LINK OP2 DG B 4 MG MG D1218 1555 1555 2.84 LINK OP2 DT B 9 MG MG B1035 1555 1555 2.91 LINK OP2 DA B 12 MG MG C1215 1555 1555 2.65 LINK OP1 DA B 12 MG MG C1217 1555 1555 2.75 LINK MG MG B1035 O HOH B2031 1555 1555 2.85 LINK MG MG B1035 O HOH B2032 1555 1555 2.55 LINK SG CYS C 135 ZN ZN C1211 1555 1555 2.36 LINK SG CYS C 138 ZN ZN C1211 1555 1555 2.35 LINK OD2 ASP C 140 MG MG C1217 1555 1555 2.61 LINK SG CYS C 152 ZN ZN C1211 1555 1555 2.35 LINK SG CYS C 155 ZN ZN C1211 1555 1555 2.36 LINK SG CYS C 171 ZN ZN C1212 1555 1555 2.42 LINK SG CYS C 177 ZN ZN C1212 1555 1555 2.40 LINK SG CYS C 187 ZN ZN C1212 1555 1555 2.35 LINK SG CYS C 190 ZN ZN C1212 1555 1555 2.46 LINK O LEU C 196 MG MG C1216 1555 1555 2.65 LINK O MET C 200 MG MG C1216 1555 1555 2.90 LINK MG MG C1217 O HOH C2037 1555 1555 2.70 LINK SG CYS D 135 ZN ZN D1213 1555 1555 2.39 LINK SG CYS D 138 ZN ZN D1213 1555 1555 2.43 LINK SG CYS D 152 ZN ZN D1213 1555 1555 2.41 LINK O GLY D 154 MG MG D1218 1555 1555 2.70 LINK SG CYS D 155 ZN ZN D1213 1555 1555 2.34 LINK SG CYS D 171 ZN ZN D1214 1555 1555 2.70 LINK SG CYS D 177 ZN ZN D1214 1555 1555 2.52 LINK SG CYS D 187 ZN ZN D1214 1555 1555 2.36 LINK SG CYS D 190 ZN ZN D1214 1555 1555 2.45 SITE 1 AC1 4 CYS C 135 CYS C 138 CYS C 152 CYS C 155 SITE 1 AC2 4 CYS C 171 CYS C 177 CYS C 187 CYS C 190 SITE 1 AC3 9 THR C 162 ASP C 166 LEU C 167 THR C 168 SITE 2 AC3 9 TYR C 169 TYR C 189 TYR C 192 GLN C 193 SITE 3 AC3 9 ARG C 202 SITE 1 AC4 4 CYS D 135 CYS D 138 CYS D 152 CYS D 155 SITE 1 AC5 4 CYS D 171 CYS D 177 CYS D 187 CYS D 190 SITE 1 AC6 3 ARG D 172 CYS D 187 GLN D 188 SITE 1 AC7 3 VAL C 149 TYR C 150 HOH D2025 SITE 1 AC8 4 HOH B2019 HOH B2020 GLN D 206 ARG D 209 SITE 1 AC9 3 TYR D 169 THR D 170 ARG D 186 SITE 1 BC1 8 DG B 11 DA B 12 ASP C 140 CYS C 152 SITE 2 BC1 8 GLU C 153 GLY C 154 ARG C 184 MG C1217 SITE 1 BC2 4 LEU C 196 GLY C 199 MET C 200 LYS C 201 SITE 1 BC3 5 DT A 1 DG A 2 HOH A2039 GLY C 144 SITE 2 BC3 5 LYS C 145 SITE 1 BC4 5 DT B 3 DG B 4 GLY D 154 PHE D 158 SITE 2 BC4 5 ARG D 161 SITE 1 BC5 6 DA B 12 ASP C 140 LYS C 181 ARG C 184 SITE 2 BC5 6 MG C1215 HOH C2037 SITE 1 BC6 3 DG A 10 HOH A2029 HIS D 146 SITE 1 BC7 4 DT B 9 HOH B2031 HOH B2032 LYS C 165 CRYST1 113.234 43.952 63.316 90.00 106.02 90.00 C 1 2 1 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 0.008831 0.000000 0.002536 0.00000 SCALE2 0.000000 0.022752 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016432 0.00000