HEADER TRANSFERASE 05-JAN-09 3FPD TITLE G9A-LIKE PROTEIN LYSINE METHYLTRANSFERASE INHIBITION BY BIX-01294 COMPND MOL_ID: 1; COMPND 2 MOLECULE: HISTONE-LYSINE N-METHYLTRANSFERASE, H3 LYSINE-9 SPECIFIC 5; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 975-1235, SET DOMAIN; COMPND 5 SYNONYM: HISTONE H3-K9 METHYLTRANSFERASE 5, H3-K9-HMTASE 5, COMPND 6 EUCHROMATIC HISTONE-LYSINE N-METHYLTRANSFERASE 1, EU-HMTASE1, G9A- COMPND 7 LIKE PROTEIN 1, GLP1, LYSINE N-METHYLTRANSFERASE 1D; COMPND 8 EC: 2.1.1.43; COMPND 9 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: EHMT1, EUHMTASE1, KIAA1876, KMT1D; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PXC681 KEYWDS EPIGENETICS, HISTONE LYSINE METHYLATION, CATALYTIC SET DOMAIN, KEYWDS 2 INHIBITION BY BIX-01294, ALTERNATIVE SPLICING, ANK REPEAT, CHROMATIN KEYWDS 3 REGULATOR, METAL-BINDING, METHYLTRANSFERASE, NUCLEUS, KEYWDS 4 PHOSPHOPROTEIN, POLYMORPHISM, S-ADENOSYL-L-METHIONINE, TRANSFERASE, KEYWDS 5 ZINC EXPDTA X-RAY DIFFRACTION AUTHOR Y.CHANG,X.ZHANG,J.R.HORTON,X.CHENG REVDAT 3 06-SEP-23 3FPD 1 REMARK LINK REVDAT 2 24-MAR-09 3FPD 1 JRNL REVDAT 1 17-FEB-09 3FPD 0 JRNL AUTH Y.CHANG,X.ZHANG,J.R.HORTON,A.K.UPADHYAY,A.SPANNHOFF,J.LIU, JRNL AUTH 2 J.P.SNYDER,M.T.BEDFORD,X.CHENG JRNL TITL STRUCTURAL BASIS FOR G9A-LIKE PROTEIN LYSINE JRNL TITL 2 METHYLTRANSFERASE INHIBITION BY BIX-01294. JRNL REF NAT.STRUCT.MOL.BIOL. V. 16 312 2009 JRNL REFN ISSN 1545-9993 JRNL PMID 19219047 JRNL DOI 10.1038/NSMB.1560 REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.2 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.26 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 270243.590 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 86.3 REMARK 3 NUMBER OF REFLECTIONS : 24680 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.221 REMARK 3 FREE R VALUE : 0.262 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1201 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.008 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 10 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.49 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 42.90 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 1183 REMARK 3 BIN R VALUE (WORKING SET) : 0.3980 REMARK 3 BIN FREE R VALUE : 0.4020 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.20 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 52 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.056 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4152 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 132 REMARK 3 SOLVENT ATOMS : 119 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 32.30 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 39.80 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 13.35000 REMARK 3 B22 (A**2) : -13.97000 REMARK 3 B33 (A**2) : 0.62000 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) : 0.32 REMARK 3 ESD FROM SIGMAA (A) : 0.34 REMARK 3 LOW RESOLUTION CUTOFF (A) : 30.3 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.39 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.35 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.006 REMARK 3 BOND ANGLES (DEGREES) : 1.300 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 24.40 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.820 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.320 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.270 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 1.940 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.900 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.40 REMARK 3 BSOL : 38.02 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : ION.PARAM REMARK 3 PARAMETER FILE 3 : WATER.PARAM REMARK 3 PARAMETER FILE 4 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : ION.TOP REMARK 3 TOPOLOGY FILE 3 : WATER.TOP REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3FPD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 06-JAN-09. REMARK 100 THE DEPOSITION ID IS D_1000050875. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-AUG-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-BM REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 26244 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 30.260 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 91.7 REMARK 200 DATA REDUNDANCY : 4.400 REMARK 200 R MERGE (I) : 0.09700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.51 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : 3.40 REMARK 200 R MERGE FOR SHELL (I) : 0.43000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.000 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 2IGQ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 59.19 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.01 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M HEPES PH 7.5, 18-20 % REMARK 280 POLYETHYLENE GLYCOL 4000 AND 7-10 % ISOPROPANOL, IN THE ABSENCE REMARK 280 OR PRESENCE OF DMSO (6-36%), VAPOR DIFFUSION, TEMPERATURE 289K 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 37.65000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 50.85000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 47.60000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 50.85000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 37.65000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 47.60000 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2130 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 24410 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -9.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 VAL B 975 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 LYS A1055 CG CD CE NZ REMARK 470 ARG A1103 CG CD NE CZ NH1 NH2 REMARK 470 GLU A1138 CG CD OE1 OE2 REMARK 470 ASP A1147 CG OD1 OD2 REMARK 470 ASN A1148 CG OD1 ND2 REMARK 470 LYS A1149 CG CD CE NZ REMARK 470 GLU A1152 CG CD OE1 OE2 REMARK 470 GLU B 976 CG CD OE1 OE2 REMARK 470 ARG B 977 CG CD NE CZ NH1 NH2 REMARK 470 GLU B1138 CG CD OE1 OE2 REMARK 470 LYS B1149 CG CD CE NZ REMARK 470 ASP B1150 CG OD1 OD2 REMARK 470 LYS B1221 CG CD CE NZ REMARK 470 ARG B1226 CG CD NE CZ NH1 NH2 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 PRO B1174 C - N - CA ANGL. DEV. = 9.3 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 SER A 980 136.79 -178.05 REMARK 500 ASP A 982 108.33 179.77 REMARK 500 ALA A 997 30.10 -152.59 REMARK 500 ASP A 999 -157.16 -140.47 REMARK 500 SER A1005 6.00 -150.79 REMARK 500 ASN A1006 45.92 -87.37 REMARK 500 THR A1016 -81.06 -108.12 REMARK 500 ASN A1020 46.65 -81.14 REMARK 500 ASN A1024 105.32 -59.14 REMARK 500 ASP A1035 -152.06 -113.33 REMARK 500 MET A1049 -36.92 81.60 REMARK 500 ARG A1050 157.37 175.82 REMARK 500 GLU A1062 29.66 -77.34 REMARK 500 GLU A1067 71.12 -154.91 REMARK 500 ASN A1086 45.47 -83.24 REMARK 500 VAL A1088 -60.56 -137.77 REMARK 500 LEU A1146 55.33 -112.99 REMARK 500 LYS A1149 5.48 -65.94 REMARK 500 GLU A1152 92.59 -66.49 REMARK 500 ASN A1163 -162.43 -101.75 REMARK 500 MET A1183 -98.77 -126.55 REMARK 500 PHE A1190 63.05 -117.02 REMARK 500 CYS A1232 147.59 -39.26 REMARK 500 HIS A1234 24.34 -142.78 REMARK 500 ASP B 982 101.96 -172.63 REMARK 500 PRO B 993 171.73 -56.40 REMARK 500 VAL B 998 -94.53 -108.11 REMARK 500 SER B1005 15.67 -159.79 REMARK 500 THR B1016 -79.38 -105.22 REMARK 500 ASP B1035 -150.56 -122.48 REMARK 500 MET B1049 -45.55 77.43 REMARK 500 GLU B1067 69.28 -159.25 REMARK 500 ASN B1086 49.34 -86.96 REMARK 500 VAL B1088 -62.86 -137.73 REMARK 500 ASN B1148 66.13 150.40 REMARK 500 LYS B1149 144.84 -33.82 REMARK 500 ASP B1150 17.14 170.96 REMARK 500 ASN B1163 -169.93 -113.73 REMARK 500 MET B1183 -89.36 -132.38 REMARK 500 ALA B1203 126.62 -39.81 REMARK 500 ILE B1218 -72.49 -83.95 REMARK 500 LYS B1219 -5.89 -59.57 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 2 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A1037 SG REMARK 620 2 CYS A1074 SG 112.9 REMARK 620 3 CYS A1080 SG 118.0 103.4 REMARK 620 4 CYS A1084 SG 107.3 100.9 112.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 3 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A1031 SG REMARK 620 2 CYS A1033 SG 104.0 REMARK 620 3 CYS A1037 SG 113.8 105.5 REMARK 620 4 CYS A1042 SG 112.9 103.2 115.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 4 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A1172 SG REMARK 620 2 CYS A1225 SG 118.0 REMARK 620 3 CYS A1227 SG 108.4 114.9 REMARK 620 4 CYS A1232 SG 90.1 102.6 120.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1236 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A1031 SG REMARK 620 2 CYS A1044 SG 117.0 REMARK 620 3 CYS A1074 SG 112.1 111.5 REMARK 620 4 CYS A1078 SG 101.5 94.4 119.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 5 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B1031 SG REMARK 620 2 CYS B1044 SG 115.3 REMARK 620 3 CYS B1074 SG 114.1 109.8 REMARK 620 4 CYS B1078 SG 103.1 87.0 125.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 6 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B1037 SG REMARK 620 2 CYS B1074 SG 110.1 REMARK 620 3 CYS B1080 SG 103.1 113.4 REMARK 620 4 CYS B1084 SG 107.3 104.2 118.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 7 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B1031 SG REMARK 620 2 CYS B1033 SG 107.8 REMARK 620 3 CYS B1037 SG 105.0 103.6 REMARK 620 4 CYS B1042 SG 117.1 105.8 116.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 8 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B1172 SG REMARK 620 2 CYS B1225 SG 117.0 REMARK 620 3 CYS B1227 SG 113.5 105.4 REMARK 620 4 CYS B1232 SG 99.8 102.8 118.3 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 SAH A 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE Q4A A 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A1236 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 3 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 4 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SAH B 102 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE Q4A B 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 5 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 6 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 7 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 8 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2RFI RELATED DB: PDB REMARK 900 GLP IN COMPLEX WITH A H3 PEPTIDE SUBSTRATE DBREF 3FPD A 975 1235 UNP Q9H9B1 EHMT1_HUMAN 975 1235 DBREF 3FPD B 975 1235 UNP Q9H9B1 EHMT1_HUMAN 975 1235 SEQRES 1 A 261 VAL GLU ARG ILE VAL SER ARG ASP ILE ALA ARG GLY TYR SEQRES 2 A 261 GLU ARG ILE PRO ILE PRO CYS VAL ASN ALA VAL ASP SER SEQRES 3 A 261 GLU PRO CYS PRO SER ASN TYR LYS TYR VAL SER GLN ASN SEQRES 4 A 261 CYS VAL THR SER PRO MET ASN ILE ASP ARG ASN ILE THR SEQRES 5 A 261 HIS LEU GLN TYR CYS VAL CYS ILE ASP ASP CYS SER SER SEQRES 6 A 261 SER ASN CYS MET CYS GLY GLN LEU SER MET ARG CYS TRP SEQRES 7 A 261 TYR ASP LYS ASP GLY ARG LEU LEU PRO GLU PHE ASN MET SEQRES 8 A 261 ALA GLU PRO PRO LEU ILE PHE GLU CYS ASN HIS ALA CYS SEQRES 9 A 261 SER CYS TRP ARG ASN CYS ARG ASN ARG VAL VAL GLN ASN SEQRES 10 A 261 GLY LEU ARG ALA ARG LEU GLN LEU TYR ARG THR ARG ASP SEQRES 11 A 261 MET GLY TRP GLY VAL ARG SER LEU GLN ASP ILE PRO PRO SEQRES 12 A 261 GLY THR PHE VAL CYS GLU TYR VAL GLY GLU LEU ILE SER SEQRES 13 A 261 ASP SER GLU ALA ASP VAL ARG GLU GLU ASP SER TYR LEU SEQRES 14 A 261 PHE ASP LEU ASP ASN LYS ASP GLY GLU VAL TYR CYS ILE SEQRES 15 A 261 ASP ALA ARG PHE TYR GLY ASN VAL SER ARG PHE ILE ASN SEQRES 16 A 261 HIS HIS CYS GLU PRO ASN LEU VAL PRO VAL ARG VAL PHE SEQRES 17 A 261 MET ALA HIS GLN ASP LEU ARG PHE PRO ARG ILE ALA PHE SEQRES 18 A 261 PHE SER THR ARG LEU ILE GLU ALA GLY GLU GLN LEU GLY SEQRES 19 A 261 PHE ASP TYR GLY GLU ARG PHE TRP ASP ILE LYS GLY LYS SEQRES 20 A 261 LEU PHE SER CYS ARG CYS GLY SER PRO LYS CYS ARG HIS SEQRES 21 A 261 SER SEQRES 1 B 261 VAL GLU ARG ILE VAL SER ARG ASP ILE ALA ARG GLY TYR SEQRES 2 B 261 GLU ARG ILE PRO ILE PRO CYS VAL ASN ALA VAL ASP SER SEQRES 3 B 261 GLU PRO CYS PRO SER ASN TYR LYS TYR VAL SER GLN ASN SEQRES 4 B 261 CYS VAL THR SER PRO MET ASN ILE ASP ARG ASN ILE THR SEQRES 5 B 261 HIS LEU GLN TYR CYS VAL CYS ILE ASP ASP CYS SER SER SEQRES 6 B 261 SER ASN CYS MET CYS GLY GLN LEU SER MET ARG CYS TRP SEQRES 7 B 261 TYR ASP LYS ASP GLY ARG LEU LEU PRO GLU PHE ASN MET SEQRES 8 B 261 ALA GLU PRO PRO LEU ILE PHE GLU CYS ASN HIS ALA CYS SEQRES 9 B 261 SER CYS TRP ARG ASN CYS ARG ASN ARG VAL VAL GLN ASN SEQRES 10 B 261 GLY LEU ARG ALA ARG LEU GLN LEU TYR ARG THR ARG ASP SEQRES 11 B 261 MET GLY TRP GLY VAL ARG SER LEU GLN ASP ILE PRO PRO SEQRES 12 B 261 GLY THR PHE VAL CYS GLU TYR VAL GLY GLU LEU ILE SER SEQRES 13 B 261 ASP SER GLU ALA ASP VAL ARG GLU GLU ASP SER TYR LEU SEQRES 14 B 261 PHE ASP LEU ASP ASN LYS ASP GLY GLU VAL TYR CYS ILE SEQRES 15 B 261 ASP ALA ARG PHE TYR GLY ASN VAL SER ARG PHE ILE ASN SEQRES 16 B 261 HIS HIS CYS GLU PRO ASN LEU VAL PRO VAL ARG VAL PHE SEQRES 17 B 261 MET ALA HIS GLN ASP LEU ARG PHE PRO ARG ILE ALA PHE SEQRES 18 B 261 PHE SER THR ARG LEU ILE GLU ALA GLY GLU GLN LEU GLY SEQRES 19 B 261 PHE ASP TYR GLY GLU ARG PHE TRP ASP ILE LYS GLY LYS SEQRES 20 B 261 LEU PHE SER CYS ARG CYS GLY SER PRO LYS CYS ARG HIS SEQRES 21 B 261 SER HET SAH A 101 26 HET Q4A A 1 36 HET ZN A1236 1 HET ZN A 2 1 HET ZN A 3 1 HET ZN A 4 1 HET SAH B 102 26 HET Q4A B 2 36 HET ZN B 5 1 HET ZN B 6 1 HET ZN B 7 1 HET ZN B 8 1 HETNAM SAH S-ADENOSYL-L-HOMOCYSTEINE HETNAM Q4A N-(1-BENZYLPIPERIDIN-4-YL)-6,7-DIMETHOXY-2-(4-METHYL-1, HETNAM 2 Q4A 4-DIAZEPAN-1-YL)QUINAZOLIN-4-AMINE HETNAM ZN ZINC ION FORMUL 3 SAH 2(C14 H20 N6 O5 S) FORMUL 4 Q4A 2(C28 H38 N6 O2) FORMUL 5 ZN 8(ZN 2+) FORMUL 15 HOH *119(H2 O) HELIX 1 1 CYS A 1042 SER A 1048 1 7 HELIX 2 2 VAL A 1088 GLY A 1092 5 5 HELIX 3 3 ASP A 1131 ASP A 1135 1 5 HELIX 4 4 VAL A 1164 ILE A 1168 5 5 HELIX 5 5 GLY A 1212 GLY A 1220 1 9 HELIX 6 6 ASN B 1024 LEU B 1028 5 5 HELIX 7 7 CYS B 1042 SER B 1048 1 7 HELIX 8 8 VAL B 1088 GLY B 1092 5 5 HELIX 9 9 ASP B 1131 ASP B 1135 1 5 HELIX 10 10 VAL B 1164 ILE B 1168 5 5 HELIX 11 11 TYR B 1211 GLY B 1220 1 10 SHEET 1 A 4 ARG A 977 SER A 980 0 SHEET 2 A 4 CYS A 994 ASN A 996 -1 O ASN A 996 N ARG A 977 SHEET 3 A 4 LEU A1097 ARG A1101 1 O LEU A1099 N VAL A 995 SHEET 4 A 4 TRP A1107 SER A1111 -1 O GLY A1108 N TYR A1100 SHEET 1 B 4 LYS A1008 TYR A1009 0 SHEET 2 B 4 TYR A1154 GLY A1162 1 O PHE A1160 N LYS A1008 SHEET 3 B 4 GLY A1126 SER A1130 -1 N GLU A1127 O ASP A1157 SHEET 4 B 4 CYS A1014 VAL A1015 1 N CYS A1014 O LEU A1128 SHEET 1 C 3 LYS A1008 TYR A1009 0 SHEET 2 C 3 TYR A1154 GLY A1162 1 O PHE A1160 N LYS A1008 SHEET 3 C 3 LEU A1143 LEU A1146 -1 N LEU A1146 O TYR A1154 SHEET 1 D 4 ILE A1071 PHE A1072 0 SHEET 2 D 4 LEU A1176 PHE A1182 1 O ARG A1180 N ILE A1071 SHEET 3 D 4 ARG A1192 SER A1197 -1 O ALA A1194 N VAL A1179 SHEET 4 D 4 PHE A1120 TYR A1124 -1 N CYS A1122 O PHE A1195 SHEET 1 E 4 ARG B 977 SER B 980 0 SHEET 2 E 4 CYS B 994 ASN B 996 -1 O ASN B 996 N ARG B 977 SHEET 3 E 4 LEU B1097 ARG B1101 1 O LEU B1099 N VAL B 995 SHEET 4 E 4 TRP B1107 SER B1111 -1 O GLY B1108 N TYR B1100 SHEET 1 F 3 LYS B1008 TYR B1009 0 SHEET 2 F 3 TYR B1154 GLY B1162 1 O PHE B1160 N LYS B1008 SHEET 3 F 3 GLY B1126 SER B1130 -1 N GLU B1127 O ASP B1157 SHEET 1 G 3 LYS B1008 TYR B1009 0 SHEET 2 G 3 TYR B1154 GLY B1162 1 O PHE B1160 N LYS B1008 SHEET 3 G 3 LEU B1143 LEU B1146 -1 N LEU B1146 O TYR B1154 SHEET 1 H 4 ILE B1071 PHE B1072 0 SHEET 2 H 4 LEU B1176 PHE B1182 1 O ARG B1180 N ILE B1071 SHEET 3 H 4 ARG B1192 SER B1197 -1 O ALA B1194 N VAL B1179 SHEET 4 H 4 PHE B1120 GLU B1123 -1 N CYS B1122 O PHE B1195 SHEET 1 I 2 ASN B1169 HIS B1170 0 SHEET 2 I 2 GLY B1208 PHE B1209 1 O PHE B1209 N ASN B1169 LINK ZN ZN A 2 SG CYS A1037 1555 1555 2.33 LINK ZN ZN A 2 SG CYS A1074 1555 1555 2.31 LINK ZN ZN A 2 SG CYS A1080 1555 1555 2.40 LINK ZN ZN A 2 SG CYS A1084 1555 1555 2.35 LINK ZN ZN A 3 SG CYS A1031 1555 1555 2.45 LINK ZN ZN A 3 SG CYS A1033 1555 1555 2.50 LINK ZN ZN A 3 SG CYS A1037 1555 1555 2.40 LINK ZN ZN A 3 SG CYS A1042 1555 1555 2.52 LINK ZN ZN A 4 SG CYS A1172 1555 1555 2.67 LINK ZN ZN A 4 SG CYS A1225 1555 1555 2.44 LINK ZN ZN A 4 SG CYS A1227 1555 1555 2.70 LINK ZN ZN A 4 SG CYS A1232 1555 1555 2.71 LINK SG CYS A1031 ZN ZN A1236 1555 1555 2.45 LINK SG CYS A1044 ZN ZN A1236 1555 1555 2.46 LINK SG CYS A1074 ZN ZN A1236 1555 1555 2.38 LINK SG CYS A1078 ZN ZN A1236 1555 1555 2.48 LINK ZN ZN B 5 SG CYS B1031 1555 1555 2.38 LINK ZN ZN B 5 SG CYS B1044 1555 1555 2.46 LINK ZN ZN B 5 SG CYS B1074 1555 1555 2.36 LINK ZN ZN B 5 SG CYS B1078 1555 1555 2.41 LINK ZN ZN B 6 SG CYS B1037 1555 1555 2.43 LINK ZN ZN B 6 SG CYS B1074 1555 1555 2.38 LINK ZN ZN B 6 SG CYS B1080 1555 1555 2.27 LINK ZN ZN B 6 SG CYS B1084 1555 1555 2.36 LINK ZN ZN B 7 SG CYS B1031 1555 1555 2.36 LINK ZN ZN B 7 SG CYS B1033 1555 1555 2.48 LINK ZN ZN B 7 SG CYS B1037 1555 1555 2.47 LINK ZN ZN B 7 SG CYS B1042 1555 1555 2.40 LINK ZN ZN B 8 SG CYS B1172 1555 1555 2.33 LINK ZN ZN B 8 SG CYS B1225 1555 1555 2.42 LINK ZN ZN B 8 SG CYS B1227 1555 1555 2.39 LINK ZN ZN B 8 SG CYS B1232 1555 1555 2.65 SITE 1 AC1 10 MET A1105 TRP A1107 SER A1141 TYR A1142 SITE 2 AC1 10 ARG A1166 ASN A1169 HIS A1170 TYR A1211 SITE 3 AC1 10 CYS A1225 ARG A1226 SITE 1 AC2 10 ASP A1131 ALA A1134 ASP A1135 ARG A1137 SITE 2 AC2 10 ASP A1140 LEU A1143 ASP A1145 CYS A1155 SITE 3 AC2 10 ARG A1214 PHE A1215 SITE 1 AC3 5 ZN A 3 CYS A1031 CYS A1044 CYS A1074 SITE 2 AC3 5 CYS A1078 SITE 1 AC4 5 ZN A 3 CYS A1037 CYS A1074 CYS A1080 SITE 2 AC4 5 CYS A1084 SITE 1 AC5 6 ZN A 2 CYS A1031 CYS A1033 CYS A1037 SITE 2 AC5 6 CYS A1042 ZN A1236 SITE 1 AC6 4 CYS A1172 CYS A1225 CYS A1227 CYS A1232 SITE 1 AC7 13 MET B1105 GLY B1106 TRP B1107 SER B1141 SITE 2 AC7 13 TYR B1142 ARG B1166 ASN B1169 HIS B1170 SITE 3 AC7 13 TYR B1211 PHE B1215 PHE B1223 CYS B1225 SITE 4 AC7 13 ARG B1226 SITE 1 AC8 13 ASP B1131 ALA B1134 ASP B1135 VAL B1136 SITE 2 AC8 13 ARG B1137 GLU B1138 ASP B1140 LEU B1143 SITE 3 AC8 13 ASP B1145 CYS B1155 ARG B1214 PHE B1215 SITE 4 AC8 13 LYS B1219 SITE 1 AC9 6 ZN B 6 ZN B 7 CYS B1031 CYS B1044 SITE 2 AC9 6 CYS B1074 CYS B1078 SITE 1 BC1 5 ZN B 5 CYS B1037 CYS B1074 CYS B1080 SITE 2 BC1 5 CYS B1084 SITE 1 BC2 5 ZN B 5 CYS B1031 CYS B1033 CYS B1037 SITE 2 BC2 5 CYS B1042 SITE 1 BC3 4 CYS B1172 CYS B1225 CYS B1227 CYS B1232 CRYST1 75.300 95.200 101.700 90.00 90.00 90.00 P 21 21 21 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 0.013280 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010504 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009833 0.00000