PDB Short entry for 1QKM HEADER NUCLEAR RECEPTOR 27-JUL-99 1QKM TITLE HUMAN OESTROGEN RECEPTOR BETA LIGAND-BINDING DOMAIN IN COMPLEX WITH TITLE 2 PARTIAL AGONIST GENISTEIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: ESTROGEN RECEPTOR BETA; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: LIGAND-BINDING DOMAIN; COMPND 5 SYNONYM: OESTROGEN RECEPTOR, ER-LBD; COMPND 6 ENGINEERED: YES; COMPND 7 OTHER_DETAILS: COMPLEXED WITH THE PHYTO-OESTROGEN GENISTEIN SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: OESTROGEN RECEPTOR BETA; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: GI724; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PLEX KEYWDS NUCLEAR RECEPTOR, TRANSCRIPTION FACTOR, PHYTO-OESTROGEN, PARTIAL KEYWDS 2 AGONIST EXPDTA X-RAY DIFFRACTION AUTHOR A.C.W.PIKE,A.M.BRZOZOWSKI,M.CARLQUIST REVDAT 4 13-DEC-23 1QKM 1 REMARK REVDAT 3 24-FEB-09 1QKM 1 VERSN REVDAT 2 22-FEB-05 1QKM 1 COMPND REMARK DBREF ATOM REVDAT 2 2 1 TER REVDAT 1 28-JUL-00 1QKM 0 JRNL AUTH A.C.W.PIKE,A.M.BRZOZOWSKI,R.E.HUBBARD,T.BONN,A.-G.THORSELL, JRNL AUTH 2 O.ENGSTROM,J.LJUNGGREN,J.-A.GUSTAFFSON,M.CARLQUIST JRNL TITL STRUCTURE OF THE LIGAND-BINDING DOMAIN OF OESTROGEN RECEPTOR JRNL TITL 2 BETA IN THE PRESENCE OF A PARTIAL AGONIST AND A FULL JRNL TITL 3 ANTAGONIST JRNL REF EMBO J. V. 18 4608 1999 JRNL REFN ISSN 0261-4189 JRNL PMID 10469641 JRNL DOI 10.1093/EMBOJ/18.17.4608 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH A.M.BRZOZOWSKI,A.C.W.PIKE,Z.DAUTER,R.E.HUBBARD,T.BONN, REMARK 1 AUTH 2 O.ENGSTROM,L.OHMAN,G.L.GREENE,J.-A.GUSTAFFSON,M.CARLQUIST REMARK 1 TITL MOLECULAR BASIS OF AGONISM AND ANTAGONISM IN THE OESTROGEN REMARK 1 TITL 2 RECEPTOR REMARK 1 REF NATURE V. 389 753 1997 REMARK 1 REFN ISSN 0028-0836 REMARK 1 PMID 9338790 REMARK 1 DOI 10.1038/39645 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 55.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 28460 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) : NULL REMARK 3 R VALUE (WORKING SET) : 0.215 REMARK 3 FREE R VALUE : 0.252 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1441 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1781 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 20 REMARK 3 SOLVENT ATOMS : 139 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 32.60 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 41.30 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 3.11500 REMARK 3 B22 (A**2) : 3.11600 REMARK 3 B33 (A**2) : -3.82700 REMARK 3 B12 (A**2) : -1.13800 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.127 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.126 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 DISTANCE RESTRAINTS. RMS SIGMA REMARK 3 BOND LENGTH (A) : 0.013 ; 0.020 REMARK 3 ANGLE DISTANCE (A) : 0.030 ; 0.040 REMARK 3 INTRAPLANAR 1-4 DISTANCE (A) : 0.041 ; 0.050 REMARK 3 H-BOND OR METAL COORDINATION (A) : NULL ; NULL REMARK 3 REMARK 3 PLANE RESTRAINT (A) : 0.012 ; 0.020 REMARK 3 CHIRAL-CENTER RESTRAINT (A**3) : 0.137 ; 0.150 REMARK 3 REMARK 3 NON-BONDED CONTACT RESTRAINTS. REMARK 3 SINGLE TORSION (A) : 0.181 ; 0.300 REMARK 3 MULTIPLE TORSION (A) : 0.361 ; 0.300 REMARK 3 H-BOND (X...Y) (A) : 0.116 ; 0.300 REMARK 3 H-BOND (X-H...Y) (A) : NULL ; NULL REMARK 3 REMARK 3 CONFORMATIONAL TORSION ANGLE RESTRAINTS. REMARK 3 SPECIFIED (DEGREES) : NULL ; NULL REMARK 3 PLANAR (DEGREES) : 2.600 ; 7.000 REMARK 3 STAGGERED (DEGREES) : 16.100; 15.000 REMARK 3 TRANSVERSE (DEGREES) : 23.700; 20.000 REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.851 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.847 ; 3.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.359 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 3.745 ; 3.000 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: BULK SOLVENT CORRECTION CALCULATED IN REMARK 3 XPLOR V3.843 WAS USED THROUGHOUT. DISCREPANCY BETWEEN REFINEMENT REMARK 3 STATISTICS GIVEN ABOVE AND PUBLISHED VALUES ARISE DUE TO A REMARK 3 SEQUENCE ERROR THAT HAS SUBSEQUENTLY BEEN CORRECTED. REMARK 4 REMARK 4 1QKM COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 27-JUL-99. REMARK 100 THE DEPOSITION ID IS D_1290002944. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-DEC-98 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 8.10 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-4 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.93 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL 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 : 28523 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 60.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 8.000 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.04900 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 15.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.83 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 8.00 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.43300 REMARK 200 <I/SIGMA(I)> FOR SHELL : 4.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 1ERE REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.44 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 6-9% (W/V) PEG 6000, 1.6-2.1M NACL, REMARK 280 0.1M TRIS-HCL, PH 8.1, PH 8.10 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 REMARK 290 7555 Y,X,-Z+1/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+2/3 REMARK 290 10555 -Y,-X,-Z+5/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+1/6 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 83.41000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 166.82000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 125.11500 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 208.52500 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 41.70500 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 83.41000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 166.82000 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 208.52500 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 125.11500 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 41.70500 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 300 REMARK: BIOLOGICAL_UNIT: DIMER 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 TOTAL BURIED SURFACE AREA: 3760 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 24810 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -30.4 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 350 BIOMT1 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 250.23000 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 VAL A 255 REMARK 465 ARG A 256 REMARK 465 GLU A 257 REMARK 465 LEU A 258 REMARK 465 LEU A 259 REMARK 465 SER A 286 REMARK 465 ALA A 287 REMARK 465 PRO A 288 REMARK 465 PHE A 289 REMARK 465 THR A 290 REMARK 465 GLU A 291 REMARK 465 THR A 415 REMARK 465 ALA A 416 REMARK 465 THR A 417 REMARK 465 GLN A 418 REMARK 465 ASP A 419 REMARK 465 ARG A 501 REMARK 465 GLY A 502 REMARK 465 CYS A 503 REMARK 465 LYS A 504 REMARK 465 SER A 505 REMARK 465 SER A 506 REMARK 465 ILE A 507 REMARK 465 THR A 508 REMARK 465 GLY A 509 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 A 260 CG CD1 CD2 REMARK 470 ASP A 261 CG OD1 OD2 REMARK 470 ARG A 284 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 300 CD CE NZ REMARK 470 GLU A 321 CD OE1 OE2 REMARK 470 ARG A 329 CD NE CZ NH1 NH2 REMARK 470 LYS A 353 CE NZ REMARK 470 ASP A 359 C REMARK 470 LYS A 471 NZ REMARK 470 LYS A 480 CG CD CE NZ REMARK 470 LYS A 482 CG CD CE NZ REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 ALA A 292 N CA CB 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 ND2 ASN A 470 ND2 ASN A 470 8556 2.05 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 ALA A 292 CB - CA - C ANGL. DEV. = -11.5 DEGREES REMARK 500 ARG A 388 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 ARG A 454 NE - CZ - NH1 ANGL. DEV. = 4.4 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 CYS A 481 -38.81 -38.03 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 ALA A 292 -22.97 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 GEN A 600 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1ERR RELATED DB: PDB REMARK 900 HUMAN ESTROGEN RECEPTOR LIGAND-BINDING DOMAIN IN COMPLEX WITH REMARK 900 RALOXIFENE REMARK 900 RELATED ID: 1QKN RELATED DB: PDB REMARK 900 RAT OESTROGEN RECEPTOR BETA LIGAND-BINDING DOMAIN IN COMPLEX WITH REMARK 900 ANTAGONIST RALOXIFENE DBREF 1QKM A 255 509 UNP Q92731 ESR2_HUMAN 255 509 SEQRES 1 A 255 VAL ARG GLU LEU LEU LEU ASP ALA LEU SER PRO GLU GLN SEQRES 2 A 255 LEU VAL LEU THR LEU LEU GLU ALA GLU PRO PRO HIS VAL SEQRES 3 A 255 LEU ILE SER ARG PRO SER ALA PRO PHE THR GLU ALA SER SEQRES 4 A 255 MET MET MET SER LEU THR LYS LEU ALA ASP LYS GLU LEU SEQRES 5 A 255 VAL HIS MET ILE SER TRP ALA LYS LYS ILE PRO GLY PHE SEQRES 6 A 255 VAL GLU LEU SER LEU PHE ASP GLN VAL ARG LEU LEU GLU SEQRES 7 A 255 SER CYS TRP MET GLU VAL LEU MET MET GLY LEU MET TRP SEQRES 8 A 255 ARG SER ILE ASP HIS PRO GLY LYS LEU ILE PHE ALA PRO SEQRES 9 A 255 ASP LEU VAL LEU ASP ARG ASP GLU GLY LYS CYS VAL GLU SEQRES 10 A 255 GLY ILE LEU GLU ILE PHE ASP MET LEU LEU ALA THR THR SEQRES 11 A 255 SER ARG PHE ARG GLU LEU LYS LEU GLN HIS LYS GLU TYR SEQRES 12 A 255 LEU CYS VAL LYS ALA MET ILE LEU LEU ASN SER SER MET SEQRES 13 A 255 TYR PRO LEU VAL THR ALA THR GLN ASP ALA ASP SER SER SEQRES 14 A 255 ARG LYS LEU ALA HIS LEU LEU ASN ALA VAL THR ASP ALA SEQRES 15 A 255 LEU VAL TRP VAL ILE ALA LYS SER GLY ILE SER SER GLN SEQRES 16 A 255 GLN GLN SER MET ARG LEU ALA ASN LEU LEU MET LEU LEU SEQRES 17 A 255 SER HIS VAL ARG HIS ALA SER ASN LYS GLY MET GLU HIS SEQRES 18 A 255 LEU LEU ASN MET LYS CYS LYS ASN VAL VAL PRO VAL TYR SEQRES 19 A 255 ASP LEU LEU LEU GLU MET LEU ASN ALA HIS VAL LEU ARG SEQRES 20 A 255 GLY CYS LYS SER SER ILE THR GLY HET GEN A 600 20 HETNAM GEN GENISTEIN HETSYN GEN 5,7-DIHYDROXY-3-(4-HYDROXYPHENYL)-4H-1-BENZOPYRAN-4- HETSYN 2 GEN ONE; 4',5,7-TRIHYDROXYISOFLAVONE; PRUNETOL; GENISTEOL FORMUL 2 GEN C15 H10 O5 FORMUL 3 HOH *139(H2 O) HELIX 1 1 LEU A 260 LEU A 263 5 4 HELIX 2 2 SER A 264 GLU A 276 1 13 HELIX 3 3 ALA A 292 ILE A 316 1 25 HELIX 4 4 GLY A 318 LEU A 322 5 5 HELIX 5 5 SER A 323 ILE A 348 1 26 HELIX 6 6 ASP A 365 VAL A 370 5 6 HELIX 7 7 GLY A 372 LEU A 390 1 19 HELIX 8 8 GLN A 393 ASN A 407 1 15 HELIX 9 9 MET A 410 VAL A 414 5 5 HELIX 10 10 ALA A 420 SER A 444 1 25 HELIX 11 11 SER A 447 ASN A 478 1 32 HELIX 12 12 LYS A 480 VAL A 484 5 5 HELIX 13 13 PRO A 486 HIS A 498 1 13 SHEET 1 A 2 LYS A 353 ALA A 357 0 SHEET 2 A 2 LEU A 360 ASP A 363 -1 N LEU A 362 O LEU A 354 SITE 1 AC1 9 MET A 295 LEU A 298 GLU A 305 MET A 336 SITE 2 AC1 9 LEU A 339 ARG A 346 ILE A 376 HIS A 475 SITE 3 AC1 9 LEU A 476 CRYST1 63.120 63.120 250.230 90.00 90.00 120.00 P 61 2 2 12 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 0.015843 0.009147 0.000000 0.00000 SCALE2 0.000000 0.018294 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003996 0.00000