HEADER TRANSCRIPTION/TRANSFERASE 07-DEC-16 5U5T TITLE CRYSTAL STRUCTURE OF EED IN COMPLEX WITH H3K27ME3 PEPTIDE AND 3- TITLE 2 (BENZO[D][1,3]DIOXOL-4-YLMETHYL)PIPERIDINE-1-CARBOXIMIDAMIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: POLYCOMB PROTEIN EED; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 76-441; COMPND 5 SYNONYM: HEED,WD PROTEIN ASSOCIATING WITH INTEGRIN CYTOPLASMIC TAILS COMPND 6 1,WAIT-1; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: HISTONE-LYSINE N-METHYLTRANSFERASE EZH2; COMPND 10 CHAIN: C, D; COMPND 11 FRAGMENT: UNP RESIDUES 39-68; COMPND 12 SYNONYM: ENX-1,ENHANCER OF ZESTE HOMOLOG 2,LYSINE N-METHYLTRANSFERASE COMPND 13 6; COMPND 14 EC: 2.1.1.43; COMPND 15 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: EED; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI K-12; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 83333; 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 KEYWDS EED, FRAGMENT-BASED GENERATION, ONCOLOGY, TRANSCRIPTION-TRANSFERASE KEYWDS 2 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR D.BUSSIERE,W.SHU REVDAT 5 06-MAR-24 5U5T 1 LINK REVDAT 4 27-SEP-17 5U5T 1 REMARK REVDAT 3 25-JAN-17 5U5T 1 JRNL REVDAT 2 18-JAN-17 5U5T 1 JRNL REVDAT 1 11-JAN-17 5U5T 0 JRNL AUTH A.LINGEL,M.SENDZIK,Y.HUANG,M.D.SHULTZ,J.CANTWELL,M.P.DILLON, JRNL AUTH 2 X.FU,J.FULLER,T.GABRIEL,J.GU,X.JIANG,L.LI,F.LIANG,M.MCKENNA, JRNL AUTH 3 W.QI,W.RAO,X.SHENG,W.SHU,J.SUTTON,B.TAFT,L.WANG,J.ZENG, JRNL AUTH 4 H.ZHANG,M.ZHANG,K.ZHAO,M.LINDVALL,D.E.BUSSIERE JRNL TITL STRUCTURE-GUIDED DESIGN OF EED BINDERS ALLOSTERICALLY JRNL TITL 2 INHIBITING THE EPIGENETIC POLYCOMB REPRESSIVE COMPLEX 2 JRNL TITL 3 (PRC2) METHYLTRANSFERASE. JRNL REF J. MED. CHEM. V. 60 415 2017 JRNL REFN ISSN 1520-4804 JRNL PMID 27992714 JRNL DOI 10.1021/ACS.JMEDCHEM.6B01473 REMARK 2 REMARK 2 RESOLUTION. 1.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.10.2 REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SHARFF,SMART,VONRHEIN, REMARK 3 : WOMACK,MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 64.22 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 110614 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) : 0.170 REMARK 3 R VALUE (WORKING SET) : 0.168 REMARK 3 FREE R VALUE : 0.200 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.970 REMARK 3 FREE R VALUE TEST SET COUNT : 5503 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.000 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 1.60 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 1.64 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.90 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 7975 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2260 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 7578 REMARK 3 BIN R VALUE (WORKING SET) : 0.2250 REMARK 3 BIN FREE R VALUE : 0.2480 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.98 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 397 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.000 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6064 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 40 REMARK 3 SOLVENT ATOMS : 1033 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 20.73 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.38 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -5.42520 REMARK 3 B22 (A**2) : 3.24540 REMARK 3 B33 (A**2) : 2.17980 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.210 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : 0.087 REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.087 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : 0.079 REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : 0.081 REMARK 3 REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797 REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.957 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.941 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 6280 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 8513 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 2202 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : 160 ; 2.000 ; HARMONIC REMARK 3 GENERAL PLANES : 910 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 6280 ; 20.000 ; HARMONIC REMARK 3 BAD NON-BONDED CONTACTS : 2 ; 5.000 ; SEMIHARMONIC REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : 808 ; 5.000 ; SEMIHARMONIC REMARK 3 SUM OF OCCUPANCIES : 12 ; 1.000 ; HARMONIC REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL REMARK 3 IDEAL-DIST CONTACT TERM : 8014 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 1.06 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 4.04 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 15.30 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: { A|* } REMARK 3 ORIGIN FOR THE GROUP (A): 24.9224 65.6102 0.8571 REMARK 3 T TENSOR REMARK 3 T11: -0.0783 T22: -0.0590 REMARK 3 T33: -0.0638 T12: 0.0072 REMARK 3 T13: -0.0068 T23: -0.0084 REMARK 3 L TENSOR REMARK 3 L11: 0.4855 L22: 1.7720 REMARK 3 L33: 1.3885 L12: -0.1770 REMARK 3 L13: 0.0681 L23: 0.5773 REMARK 3 S TENSOR REMARK 3 S11: 0.0168 S12: -0.0140 S13: -0.0171 REMARK 3 S21: -0.0287 S22: 0.0790 S23: -0.0514 REMARK 3 S31: -0.0516 S32: 0.0459 S33: -0.0958 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: { B|* } REMARK 3 ORIGIN FOR THE GROUP (A): 27.4570 19.3730 24.0938 REMARK 3 T TENSOR REMARK 3 T11: -0.0708 T22: -0.0637 REMARK 3 T33: -0.0783 T12: -0.0196 REMARK 3 T13: 0.0213 T23: -0.0040 REMARK 3 L TENSOR REMARK 3 L11: 0.3641 L22: 2.2620 REMARK 3 L33: 1.3367 L12: -0.0256 REMARK 3 L13: -0.1431 L23: 0.9283 REMARK 3 S TENSOR REMARK 3 S11: -0.0176 S12: -0.0026 S13: 0.0066 REMARK 3 S21: -0.1155 S22: 0.1064 S23: -0.0775 REMARK 3 S31: -0.0594 S32: 0.0591 S33: -0.0889 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: { C|* } REMARK 3 ORIGIN FOR THE GROUP (A): 17.1999 55.9377 13.7880 REMARK 3 T TENSOR REMARK 3 T11: 0.0491 T22: -0.0242 REMARK 3 T33: -0.0896 T12: -0.0448 REMARK 3 T13: 0.0204 T23: 0.0361 REMARK 3 L TENSOR REMARK 3 L11: 0.9962 L22: 2.0251 REMARK 3 L33: 1.8713 L12: -1.3227 REMARK 3 L13: -0.5826 L23: 0.0559 REMARK 3 S TENSOR REMARK 3 S11: -0.0428 S12: -0.1496 S13: -0.0239 REMARK 3 S21: 0.3156 S22: 0.0370 S23: 0.2028 REMARK 3 S31: 0.3303 S32: -0.0534 S33: 0.0058 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: { D|* } REMARK 3 ORIGIN FOR THE GROUP (A): 17.2790 27.3225 11.7321 REMARK 3 T TENSOR REMARK 3 T11: 0.1510 T22: -0.0776 REMARK 3 T33: -0.1321 T12: 0.0274 REMARK 3 T13: -0.0648 T23: 0.0133 REMARK 3 L TENSOR REMARK 3 L11: 2.2465 L22: 1.9514 REMARK 3 L33: 1.2057 L12: 0.9095 REMARK 3 L13: -0.5297 L23: 0.6236 REMARK 3 S TENSOR REMARK 3 S11: -0.0390 S12: 0.0680 S13: -0.0204 REMARK 3 S21: -0.6807 S22: -0.0732 S23: 0.2994 REMARK 3 S31: -0.4436 S32: -0.1675 S33: 0.1122 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5U5T COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 08-DEC-16. REMARK 100 THE DEPOSITION ID IS D_1000225383. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-FEB-13 REMARK 200 TEMPERATURE (KELVIN) : 270 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 17-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9200 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 300K REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 110710 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 REMARK 200 RESOLUTION RANGE LOW (A) : 82.290 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.2 REMARK 200 DATA REDUNDANCY : 5.800 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.0000 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: NULL REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.42 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.25 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: USING A PEG/SALT COMBINATION AS A REMARK 280 PRECIPITANT. BRIEFLY, EED WAS INCUBATED WITH 10 MM B- REMARK 280 NICOTINAMIDE ADENINE DINUCLEOTIDE HYDRATE, 2 MM OF A TIGHTLY REMARK 280 BINDING PROPRIETARY COMPOUND, AND 0.5 MM OF A SYNTHESIZED REMARK 280 PEPTIDE WHICH COMPRISES THE HELIX ON EZH2 WHICH INTERACTS WITH REMARK 280 EED. THE CRYSTALS WERE GROWN USING THE VAPOR DIFFUSION METHOD. REMARK 280 ONE UL OF THE PROTEIN MIXTURE WAS COMBINED WITH 1 UL OF A REMARK 280 PRECIPITANT COMPRISED OF 20% (W/V) PEG3350, 0.2 M POTASSIUM REMARK 280 IODIDE, AND 0.1M TRIS-HCL, PH 8.5, ON A COVER SLIP WHICH WAS REMARK 280 SUSPENDED OVER A RESERVOIR COMPRISED OF 0.5 ML OF PRECIPITANT AT REMARK 280 18 CELSIUS AND SEALED. THE CRYSTALS GREW IN 4-6 DAYS AT 18 REMARK 280 CELSIUS AND THEN HARVESTED AND SOAKED IN DEFINED DROPS REMARK 280 CONSISTING OF 30 UL OF PRECIPITANT AND 2 MM OF COMPOUND FOR 24 REMARK 280 H. CRYSTALS WERE CRYOPRESERVED FOR DATA COLLECTION USING A REMARK 280 CRYOSOLUTION CONSISTING OF 30% PEG 400 (V/V), 20% (W/V) PEG 3350, REMARK 280 0.2 M POTASSIUM IODIDE, AND 0.1M TRIS-HCL, PH 8.5, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 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 46.40500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 88.95450 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 46.40500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 88.95450 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: 2690 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14880 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -17.0 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 350 REMARK 350 BIOMOLECULE: 2 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: 2900 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15090 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -19.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, 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 A 75 REMARK 465 LYS A 76 REMARK 465 LYS A 77 REMARK 465 CYS A 78 REMARK 465 ASN A 281 REMARK 465 PRO A 282 REMARK 465 ASN A 283 REMARK 465 LYS A 284 REMARK 465 THR A 285 REMARK 465 ASN A 286 REMARK 465 ARG A 287 REMARK 465 PRO A 288 REMARK 465 ASP A 395 REMARK 465 PRO A 396 REMARK 465 HIS A 397 REMARK 465 LYS A 398 REMARK 465 ALA A 399 REMARK 465 LYS A 400 REMARK 465 ARG A 441 REMARK 465 GLY B 75 REMARK 465 LYS B 76 REMARK 465 LYS B 77 REMARK 465 CYS B 78 REMARK 465 LYS B 79 REMARK 465 PRO B 282 REMARK 465 ASN B 283 REMARK 465 LYS B 284 REMARK 465 THR B 285 REMARK 465 ASN B 286 REMARK 465 ARG B 287 REMARK 465 GLU B 394 REMARK 465 ASP B 395 REMARK 465 PRO B 396 REMARK 465 HIS B 397 REMARK 465 LYS B 398 REMARK 465 ALA B 399 REMARK 465 LYS B 400 REMARK 465 ARG B 441 REMARK 465 LYS C 39 REMARK 465 SER C 40 REMARK 465 MET C 41 REMARK 465 PHE C 42 REMARK 465 LYS D 39 REMARK 465 SER D 40 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 107 CG CD OE1 OE2 REMARK 470 LYS A 275 CG CD CE NZ REMARK 470 LYS A 293 CG CD CE NZ REMARK 470 ARG A 306 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 344 CG CD CE NZ REMARK 470 LYS B 83 CG CD CE NZ REMARK 470 LYS B 106 CG CD CE NZ REMARK 470 LYS B 275 CG CD CE NZ REMARK 470 LYS B 293 CG CD CE NZ REMARK 470 LYS B 344 CG CD CE NZ REMARK 470 VAL B 393 CG1 CG2 REMARK 470 GLN C 47 CG CD OE1 NE2 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 93 18.95 58.06 REMARK 500 SER A 118 -141.20 53.01 REMARK 500 ASN A 191 -168.37 -160.31 REMARK 500 PHE A 299 149.20 -173.19 REMARK 500 SER A 323 -152.46 -124.11 REMARK 500 CYS A 361 53.04 -143.87 REMARK 500 TYR A 365 62.07 73.48 REMARK 500 ASN B 93 19.70 59.68 REMARK 500 SER B 118 -143.74 53.12 REMARK 500 LEU B 135 -76.81 -90.86 REMARK 500 SER B 323 -152.06 -124.73 REMARK 500 CYS B 361 53.52 -141.04 REMARK 500 TYR B 365 63.23 73.70 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 A1054 DISTANCE = 5.85 ANGSTROMS REMARK 525 HOH A1055 DISTANCE = 6.17 ANGSTROMS REMARK 525 HOH A1056 DISTANCE = 6.18 ANGSTROMS REMARK 525 HOH A1057 DISTANCE = 6.45 ANGSTROMS REMARK 525 HOH A1058 DISTANCE = 7.37 ANGSTROMS REMARK 525 HOH A1059 DISTANCE = 7.38 ANGSTROMS REMARK 525 HOH A1060 DISTANCE = 8.93 ANGSTROMS REMARK 525 HOH B1086 DISTANCE = 6.19 ANGSTROMS REMARK 525 HOH B1087 DISTANCE = 6.30 ANGSTROMS REMARK 525 HOH B1088 DISTANCE = 7.55 ANGSTROMS REMARK 525 HOH B1089 DISTANCE = 8.19 ANGSTROMS REMARK 525 HOH B1090 DISTANCE = 12.94 ANGSTROMS 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 YT3 B 501 Y REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 788 O REMARK 620 2 ARG B 269 NH1 127.1 REMARK 620 N 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 7W7 A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue YT3 B 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue YT3 B 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 7W7 B 503 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5U5H RELATED DB: PDB REMARK 900 RELATED ID: 5U5K RELATED DB: PDB REMARK 900 RELATED ID: 5U62 RELATED DB: PDB DBREF 5U5T A 76 441 UNP O75530 EED_HUMAN 76 441 DBREF 5U5T B 76 441 UNP O75530 EED_HUMAN 76 441 DBREF 5U5T C 39 68 UNP Q15910 EZH2_HUMAN 39 68 DBREF 5U5T D 39 68 UNP Q15910 EZH2_HUMAN 39 68 SEQADV 5U5T GLY A 75 UNP O75530 EXPRESSION TAG SEQADV 5U5T GLY B 75 UNP O75530 EXPRESSION TAG SEQRES 1 A 367 GLY LYS LYS CYS LYS TYR SER PHE LYS CYS VAL ASN SER SEQRES 2 A 367 LEU LYS GLU ASP HIS ASN GLN PRO LEU PHE GLY VAL GLN SEQRES 3 A 367 PHE ASN TRP HIS SER LYS GLU GLY ASP PRO LEU VAL PHE SEQRES 4 A 367 ALA THR VAL GLY SER ASN ARG VAL THR LEU TYR GLU CYS SEQRES 5 A 367 HIS SER GLN GLY GLU ILE ARG LEU LEU GLN SER TYR VAL SEQRES 6 A 367 ASP ALA ASP ALA ASP GLU ASN PHE TYR THR CYS ALA TRP SEQRES 7 A 367 THR TYR ASP SER ASN THR SER HIS PRO LEU LEU ALA VAL SEQRES 8 A 367 ALA GLY SER ARG GLY ILE ILE ARG ILE ILE ASN PRO ILE SEQRES 9 A 367 THR MET GLN CYS ILE LYS HIS TYR VAL GLY HIS GLY ASN SEQRES 10 A 367 ALA ILE ASN GLU LEU LYS PHE HIS PRO ARG ASP PRO ASN SEQRES 11 A 367 LEU LEU LEU SER VAL SER LYS ASP HIS ALA LEU ARG LEU SEQRES 12 A 367 TRP ASN ILE GLN THR ASP THR LEU VAL ALA ILE PHE GLY SEQRES 13 A 367 GLY VAL GLU GLY HIS ARG ASP GLU VAL LEU SER ALA ASP SEQRES 14 A 367 TYR ASP LEU LEU GLY GLU LYS ILE MET SER CYS GLY MET SEQRES 15 A 367 ASP HIS SER LEU LYS LEU TRP ARG ILE ASN SER LYS ARG SEQRES 16 A 367 MET MET ASN ALA ILE LYS GLU SER TYR ASP TYR ASN PRO SEQRES 17 A 367 ASN LYS THR ASN ARG PRO PHE ILE SER GLN LYS ILE HIS SEQRES 18 A 367 PHE PRO ASP PHE SER THR ARG ASP ILE HIS ARG ASN TYR SEQRES 19 A 367 VAL ASP CYS VAL ARG TRP LEU GLY ASP LEU ILE LEU SER SEQRES 20 A 367 LYS SER CYS GLU ASN ALA ILE VAL CYS TRP LYS PRO GLY SEQRES 21 A 367 LYS MET GLU ASP ASP ILE ASP LYS ILE LYS PRO SER GLU SEQRES 22 A 367 SER ASN VAL THR ILE LEU GLY ARG PHE ASP TYR SER GLN SEQRES 23 A 367 CYS ASP ILE TRP TYR MET ARG PHE SER MET ASP PHE TRP SEQRES 24 A 367 GLN LYS MET LEU ALA LEU GLY ASN GLN VAL GLY LYS LEU SEQRES 25 A 367 TYR VAL TRP ASP LEU GLU VAL GLU ASP PRO HIS LYS ALA SEQRES 26 A 367 LYS CYS THR THR LEU THR HIS HIS LYS CYS GLY ALA ALA SEQRES 27 A 367 ILE ARG GLN THR SER PHE SER ARG ASP SER SER ILE LEU SEQRES 28 A 367 ILE ALA VAL CYS ASP ASP ALA SER ILE TRP ARG TRP ASP SEQRES 29 A 367 ARG LEU ARG SEQRES 1 B 367 GLY LYS LYS CYS LYS TYR SER PHE LYS CYS VAL ASN SER SEQRES 2 B 367 LEU LYS GLU ASP HIS ASN GLN PRO LEU PHE GLY VAL GLN SEQRES 3 B 367 PHE ASN TRP HIS SER LYS GLU GLY ASP PRO LEU VAL PHE SEQRES 4 B 367 ALA THR VAL GLY SER ASN ARG VAL THR LEU TYR GLU CYS SEQRES 5 B 367 HIS SER GLN GLY GLU ILE ARG LEU LEU GLN SER TYR VAL SEQRES 6 B 367 ASP ALA ASP ALA ASP GLU ASN PHE TYR THR CYS ALA TRP SEQRES 7 B 367 THR TYR ASP SER ASN THR SER HIS PRO LEU LEU ALA VAL SEQRES 8 B 367 ALA GLY SER ARG GLY ILE ILE ARG ILE ILE ASN PRO ILE SEQRES 9 B 367 THR MET GLN CYS ILE LYS HIS TYR VAL GLY HIS GLY ASN SEQRES 10 B 367 ALA ILE ASN GLU LEU LYS PHE HIS PRO ARG ASP PRO ASN SEQRES 11 B 367 LEU LEU LEU SER VAL SER LYS ASP HIS ALA LEU ARG LEU SEQRES 12 B 367 TRP ASN ILE GLN THR ASP THR LEU VAL ALA ILE PHE GLY SEQRES 13 B 367 GLY VAL GLU GLY HIS ARG ASP GLU VAL LEU SER ALA ASP SEQRES 14 B 367 TYR ASP LEU LEU GLY GLU LYS ILE MET SER CYS GLY MET SEQRES 15 B 367 ASP HIS SER LEU LYS LEU TRP ARG ILE ASN SER LYS ARG SEQRES 16 B 367 MET MET ASN ALA ILE LYS GLU SER TYR ASP TYR ASN PRO SEQRES 17 B 367 ASN LYS THR ASN ARG PRO PHE ILE SER GLN LYS ILE HIS SEQRES 18 B 367 PHE PRO ASP PHE SER THR ARG ASP ILE HIS ARG ASN TYR SEQRES 19 B 367 VAL ASP CYS VAL ARG TRP LEU GLY ASP LEU ILE LEU SER SEQRES 20 B 367 LYS SER CYS GLU ASN ALA ILE VAL CYS TRP LYS PRO GLY SEQRES 21 B 367 LYS MET GLU ASP ASP ILE ASP LYS ILE LYS PRO SER GLU SEQRES 22 B 367 SER ASN VAL THR ILE LEU GLY ARG PHE ASP TYR SER GLN SEQRES 23 B 367 CYS ASP ILE TRP TYR MET ARG PHE SER MET ASP PHE TRP SEQRES 24 B 367 GLN LYS MET LEU ALA LEU GLY ASN GLN VAL GLY LYS LEU SEQRES 25 B 367 TYR VAL TRP ASP LEU GLU VAL GLU ASP PRO HIS LYS ALA SEQRES 26 B 367 LYS CYS THR THR LEU THR HIS HIS LYS CYS GLY ALA ALA SEQRES 27 B 367 ILE ARG GLN THR SER PHE SER ARG ASP SER SER ILE LEU SEQRES 28 B 367 ILE ALA VAL CYS ASP ASP ALA SER ILE TRP ARG TRP ASP SEQRES 29 B 367 ARG LEU ARG SEQRES 1 C 30 LYS SER MET PHE SER SER ASN ARG GLN LYS ILE LEU GLU SEQRES 2 C 30 ARG THR GLU ILE LEU ASN GLN GLU TRP LYS GLN ARG ARG SEQRES 3 C 30 ILE GLN PRO VAL SEQRES 1 D 30 LYS SER MET PHE SER SER ASN ARG GLN LYS ILE LEU GLU SEQRES 2 D 30 ARG THR GLU ILE LEU ASN GLN GLU TRP LYS GLN ARG ARG SEQRES 3 D 30 ILE GLN PRO VAL HET 7W7 A 501 19 HET YT3 B 501 1 HET YT3 B 502 1 HET 7W7 B 503 19 HETNAM 7W7 (3R)-3-[(2H-1,3-BENZODIOXOL-4-YL)METHYL]PIPERIDINE-1- HETNAM 2 7W7 CARBOXIMIDAMIDE HETNAM YT3 YTTRIUM (III) ION FORMUL 5 7W7 2(C14 H19 N3 O2) FORMUL 6 YT3 2(Y 3+) FORMUL 9 HOH *1033(H2 O) HELIX 1 AA1 SER A 267 TYR A 280 1 14 HELIX 2 AA2 SER B 267 TYR B 280 1 14 HELIX 3 AA3 ASP B 339 ILE B 343 5 5 HELIX 4 AA4 SER C 44 ARG C 63 1 20 HELIX 5 AA5 PHE D 42 ARG D 63 1 22 SHEET 1 AA1 4 PHE A 82 LYS A 89 0 SHEET 2 AA1 4 SER A 433 ARG A 439 -1 O ARG A 436 N ASN A 86 SHEET 3 AA1 4 ILE A 424 CYS A 429 -1 N LEU A 425 O TRP A 437 SHEET 4 AA1 4 ILE A 413 PHE A 418 -1 N SER A 417 O ILE A 426 SHEET 1 AA2 4 LEU A 96 PHE A 101 0 SHEET 2 AA2 4 LEU A 111 GLY A 117 -1 O ALA A 114 N GLN A 100 SHEET 3 AA2 4 ARG A 120 CYS A 126 -1 O CYS A 126 N LEU A 111 SHEET 4 AA2 4 ILE A 132 VAL A 139 -1 O TYR A 138 N VAL A 121 SHEET 1 AA3 4 PHE A 147 TYR A 154 0 SHEET 2 AA3 4 PRO A 161 GLY A 167 -1 O ALA A 164 N ALA A 151 SHEET 3 AA3 4 ILE A 172 ASN A 176 -1 O ILE A 175 N LEU A 163 SHEET 4 AA3 4 GLN A 181 TYR A 186 -1 O ILE A 183 N ILE A 174 SHEET 1 AA4 5 ILE A 193 PHE A 198 0 SHEET 2 AA4 5 LEU A 205 SER A 210 -1 O LEU A 207 N LYS A 197 SHEET 3 AA4 5 LEU A 215 ASN A 219 -1 O TRP A 218 N LEU A 206 SHEET 4 AA4 5 THR A 224 PHE A 229 -1 O PHE A 229 N LEU A 215 SHEET 5 AA4 5 GLN A 292 ILE A 294 1 O ILE A 294 N ILE A 228 SHEET 1 AA5 4 VAL A 239 TYR A 244 0 SHEET 2 AA5 4 LYS A 250 GLY A 255 -1 O MET A 252 N ASP A 243 SHEET 3 AA5 4 LEU A 260 ARG A 264 -1 O TRP A 263 N ILE A 251 SHEET 4 AA5 4 PHE A 299 THR A 301 -1 O PHE A 299 N LEU A 262 SHEET 1 AA6 4 CYS A 311 LEU A 315 0 SHEET 2 AA6 4 LEU A 318 LYS A 322 -1 O LEU A 320 N ARG A 313 SHEET 3 AA6 4 ALA A 327 PRO A 333 -1 O VAL A 329 N SER A 321 SHEET 4 AA6 4 VAL A 350 ASP A 357 -1 O GLY A 354 N CYS A 330 SHEET 1 AA7 4 PHE A 368 MET A 370 0 SHEET 2 AA7 4 MET A 376 GLY A 380 -1 O ALA A 378 N SER A 369 SHEET 3 AA7 4 LEU A 386 ASP A 390 -1 O TYR A 387 N LEU A 379 SHEET 4 AA7 4 THR A 402 LEU A 404 -1 O LEU A 404 N LEU A 386 SHEET 1 AA8 4 PHE B 82 LYS B 89 0 SHEET 2 AA8 4 SER B 433 ARG B 439 -1 O ARG B 436 N ASN B 86 SHEET 3 AA8 4 ILE B 424 CYS B 429 -1 N LEU B 425 O TRP B 437 SHEET 4 AA8 4 ILE B 413 PHE B 418 -1 N SER B 417 O ILE B 426 SHEET 1 AA9 4 LEU B 96 PHE B 101 0 SHEET 2 AA9 4 LEU B 111 GLY B 117 -1 O ALA B 114 N GLN B 100 SHEET 3 AA9 4 ARG B 120 CYS B 126 -1 O CYS B 126 N LEU B 111 SHEET 4 AA9 4 ILE B 132 VAL B 139 -1 O ARG B 133 N GLU B 125 SHEET 1 AB1 4 PHE B 147 TYR B 154 0 SHEET 2 AB1 4 PRO B 161 GLY B 167 -1 O ALA B 164 N ALA B 151 SHEET 3 AB1 4 ILE B 172 ILE B 175 -1 O ILE B 175 N LEU B 163 SHEET 4 AB1 4 CYS B 182 TYR B 186 -1 O LYS B 184 N ILE B 174 SHEET 1 AB2 5 ILE B 193 PHE B 198 0 SHEET 2 AB2 5 LEU B 205 SER B 210 -1 O LEU B 207 N LYS B 197 SHEET 3 AB2 5 LEU B 215 ASN B 219 -1 O TRP B 218 N LEU B 206 SHEET 4 AB2 5 THR B 224 PHE B 229 -1 O PHE B 229 N LEU B 215 SHEET 5 AB2 5 GLN B 292 ILE B 294 1 O ILE B 294 N ILE B 228 SHEET 1 AB3 4 VAL B 239 TYR B 244 0 SHEET 2 AB3 4 LYS B 250 GLY B 255 -1 O MET B 252 N ASP B 243 SHEET 3 AB3 4 LEU B 260 ARG B 264 -1 O TRP B 263 N ILE B 251 SHEET 4 AB3 4 PHE B 299 THR B 301 -1 O THR B 301 N LEU B 260 SHEET 1 AB4 4 CYS B 311 LEU B 315 0 SHEET 2 AB4 4 LEU B 318 LYS B 322 -1 O LEU B 318 N LEU B 315 SHEET 3 AB4 4 ALA B 327 PRO B 333 -1 O TRP B 331 N ILE B 319 SHEET 4 AB4 4 VAL B 350 ASP B 357 -1 O GLY B 354 N CYS B 330 SHEET 1 AB5 4 PHE B 368 MET B 370 0 SHEET 2 AB5 4 MET B 376 GLY B 380 -1 O ALA B 378 N SER B 369 SHEET 3 AB5 4 LEU B 386 ASP B 390 -1 O TYR B 387 N LEU B 379 SHEET 4 AB5 4 THR B 402 LEU B 404 -1 O LEU B 404 N LEU B 386 LINK NH1 ARG A 269 Y YT3 B 502 1555 1554 3.46 LINK O HOH A 788 Y YT3 B 501 1556 1555 3.28 LINK NH1 ARG B 269 Y YT3 B 501 1555 1555 3.40 SITE 1 AC1 12 PHE A 97 TYR A 148 ASN A 194 GLU A 238 SITE 2 AC1 12 ASP A 310 TYR A 365 MET A 366 ARG A 367 SITE 3 AC1 12 ARG A 414 HOH A 612 HOH A 692 HOH A 731 SITE 1 AC2 3 ARG B 269 LYS B 293 HIS B 295 SITE 1 AC3 2 ARG A 269 LYS A 293 SITE 1 AC4 11 PHE B 97 TYR B 148 ASN B 194 GLU B 238 SITE 2 AC4 11 ASP B 310 TYR B 365 MET B 366 ARG B 367 SITE 3 AC4 11 ARG B 414 HOH B 673 HOH B 742 CRYST1 92.810 177.909 50.340 90.00 90.00 90.00 P 21 21 2 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 0.010775 0.000000 0.000000 0.00000 SCALE2 0.000000 0.005621 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019865 0.00000