HEADER TRANSFERASE/TRANSFERASE INHIBITOR 04-JUN-19 6P6K TITLE CO-CRYSTAL STRUCTURE OF HUMAN SMYD3 WITH ISOXAZOLE AMIDES INHIBITORS COMPND MOL_ID: 1; COMPND 2 MOLECULE: HISTONE-LYSINE N-METHYLTRANSFERASE SMYD3; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: SET AND MYND DOMAIN-CONTAINING PROTEIN 3,ZINC FINGER MYND COMPND 5 DOMAIN-CONTAINING PROTEIN 1; COMPND 6 EC: 2.1.1.43; COMPND 7 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: SMYD3, ZMYND1, ZNFN3A1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS METHYLTRANSERASE, ONCOLOGY, INHIBITOR, TRANSFERASE, TRANSFERASE- KEYWDS 2 TRANSFERASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR P.A.ELKINS,L.WANG REVDAT 3 13-MAR-24 6P6K 1 LINK REVDAT 2 11-MAR-20 6P6K 1 JRNL REVDAT 1 15-JAN-20 6P6K 0 JRNL AUTH D.S.SU,J.QU,M.SCHULZ,C.W.BLACKLEDGE,H.YU,J.ZENG,J.BURGESS, JRNL AUTH 2 A.REIF,M.STERN,R.NAGARAJAN,M.B.PAPPALARDI,K.WONG,A.P.GRAVES, JRNL AUTH 3 W.BONNETTE,L.WANG,P.ELKINS,B.KNAPP-REED,J.D.CARSON,C.MCHUGH, JRNL AUTH 4 H.MOHAMMAD,R.KRUGER,J.LUENGO,D.A.HEERDING,C.L.CREASY JRNL TITL DISCOVERY OF ISOXAZOLE AMIDES AS POTENT AND SELECTIVE SMYD3 JRNL TITL 2 INHIBITORS. JRNL REF ACS MED.CHEM.LETT. V. 11 133 2020 JRNL REFN ISSN 1948-5875 JRNL PMID 32071679 JRNL DOI 10.1021/ACSMEDCHEMLETT.9B00493 REMARK 2 REMARK 2 RESOLUTION. 1.55 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.14_3260) 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.55 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 31.52 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.9 REMARK 3 NUMBER OF REFLECTIONS : 61092 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.180 REMARK 3 R VALUE (WORKING SET) : 0.178 REMARK 3 FREE R VALUE : 0.214 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.950 REMARK 3 FREE R VALUE TEST SET COUNT : 3026 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 31.5254 - 4.3404 0.93 2688 145 0.1503 0.1882 REMARK 3 2 4.3404 - 3.4465 0.96 2647 166 0.1432 0.1771 REMARK 3 3 3.4465 - 3.0112 0.98 2655 157 0.1663 0.1973 REMARK 3 4 3.0112 - 2.7361 0.98 2672 141 0.1817 0.2192 REMARK 3 5 2.7361 - 2.5401 0.99 2682 143 0.1833 0.2258 REMARK 3 6 2.5401 - 2.3904 0.99 2664 133 0.1820 0.2418 REMARK 3 7 2.3904 - 2.2707 0.99 2673 141 0.1758 0.1807 REMARK 3 8 2.2707 - 2.1719 0.99 2674 128 0.1698 0.2252 REMARK 3 9 2.1719 - 2.0883 0.99 2664 131 0.1796 0.2094 REMARK 3 10 2.0883 - 2.0162 0.99 2669 139 0.1817 0.2218 REMARK 3 11 2.0162 - 1.9532 0.99 2615 136 0.1892 0.2319 REMARK 3 12 1.9532 - 1.8974 0.99 2628 145 0.1962 0.2289 REMARK 3 13 1.8974 - 1.8474 0.99 2642 144 0.1976 0.2392 REMARK 3 14 1.8474 - 1.8023 0.98 2651 130 0.2032 0.2423 REMARK 3 15 1.8023 - 1.7614 0.98 2619 136 0.2059 0.2556 REMARK 3 16 1.7614 - 1.7239 0.98 2601 139 0.2027 0.2586 REMARK 3 17 1.7239 - 1.6894 0.98 2603 127 0.2105 0.2528 REMARK 3 18 1.6894 - 1.6575 0.98 2632 138 0.2250 0.2417 REMARK 3 19 1.6575 - 1.6279 0.98 2589 125 0.2224 0.2773 REMARK 3 20 1.6279 - 1.6003 0.97 2601 125 0.2341 0.3254 REMARK 3 21 1.6003 - 1.5745 0.97 2593 133 0.2527 0.2618 REMARK 3 22 1.5745 - 1.5503 0.97 2604 124 0.2662 0.3113 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.160 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 21.490 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 25.21 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ( CHAIN A AND RESID 3:93 ) REMARK 3 ORIGIN FOR THE GROUP (A): 9.767 -3.652 -4.912 REMARK 3 T TENSOR REMARK 3 T11: 0.2085 T22: 0.1814 REMARK 3 T33: 0.2256 T12: -0.0041 REMARK 3 T13: 0.0927 T23: -0.0042 REMARK 3 L TENSOR REMARK 3 L11: 0.5409 L22: 1.9045 REMARK 3 L33: 2.9086 L12: 0.2289 REMARK 3 L13: -0.1557 L23: -0.5010 REMARK 3 S TENSOR REMARK 3 S11: 0.0586 S12: -0.0824 S13: 0.0567 REMARK 3 S21: 0.4618 S22: 0.0881 S23: 0.2260 REMARK 3 S31: -0.4632 S32: 0.2152 S33: -0.1052 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: ( CHAIN A AND RESID 95:186 ) REMARK 3 ORIGIN FOR THE GROUP (A): 14.336 -17.842 -5.255 REMARK 3 T TENSOR REMARK 3 T11: 0.1145 T22: 0.1406 REMARK 3 T33: 0.1152 T12: -0.0091 REMARK 3 T13: 0.0150 T23: 0.0097 REMARK 3 L TENSOR REMARK 3 L11: 1.7394 L22: 1.9775 REMARK 3 L33: 1.8596 L12: -0.7587 REMARK 3 L13: -0.2268 L23: 0.2407 REMARK 3 S TENSOR REMARK 3 S11: -0.0632 S12: -0.1753 S13: -0.0477 REMARK 3 S21: 0.2943 S22: 0.0547 S23: 0.0822 REMARK 3 S31: 0.0831 S32: -0.0182 S33: -0.0066 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: ( CHAIN A AND RESID 187:427 ) REMARK 3 ORIGIN FOR THE GROUP (A): 22.148 7.737 -18.624 REMARK 3 T TENSOR REMARK 3 T11: 0.1221 T22: 0.1217 REMARK 3 T33: 0.1001 T12: 0.0076 REMARK 3 T13: 0.0194 T23: 0.0172 REMARK 3 L TENSOR REMARK 3 L11: 1.0049 L22: 1.8652 REMARK 3 L33: 0.4545 L12: 1.0610 REMARK 3 L13: -0.2373 L23: -0.1200 REMARK 3 S TENSOR REMARK 3 S11: 0.1049 S12: -0.0904 S13: 0.1024 REMARK 3 S21: 0.1652 S22: -0.0570 S23: 0.1421 REMARK 3 S31: -0.0931 S32: 0.0217 S33: -0.0336 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REFINED WITH PHENIX, BUILT WITH COOT REMARK 4 REMARK 4 6P6K COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 05-JUN-19. REMARK 100 THE DEPOSITION ID IS D_1000242003. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-AUG-15 REMARK 200 TEMPERATURE (KELVIN) : 100 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 : 21-ID-D REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.07805 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 61152 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.550 REMARK 200 RESOLUTION RANGE LOW (A) : 66.038 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 200 DATA REDUNDANCY : 4.900 REMARK 200 R MERGE (I) : 0.06300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.55 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.56 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.1 REMARK 200 DATA REDUNDANCY IN SHELL : 5.00 REMARK 200 R MERGE FOR SHELL (I) : 0.56400 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: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.55 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.14 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: APO CRYSTALS : ROOM TEMP, LINBRO TRAY, REMARK 280 HANGING DROP, 1+1, RESERVOIR IS 10% PEG 3350, 0.2M MGOAC SEEDING: REMARK 280 SCRATCH SEED SOAKS: 2UL OF 200MM COMPOUND IN DMSO MIXED WITH 2X REMARK 280 WELL SOLUTION (20% PEG3350, 0.4M MGOAC), VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 295K 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 30.35950 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 52.88650 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 33.01900 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 52.88650 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 30.35950 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 33.01900 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 GLY A -3 REMARK 465 SER A -2 REMARK 465 PHE A -1 REMARK 465 THR A 0 REMARK 465 MET A 1 REMARK 465 GLU A 2 REMARK 465 GLU A 57 REMARK 465 LYS A 94 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 A 5 CE NZ REMARK 470 ARG A 25 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 42 CG CD CE NZ REMARK 470 LYS A 56 CE NZ REMARK 470 LYS A 58 CG CD CE NZ REMARK 470 MET A 60 CG SD CE REMARK 470 ARG A 61 CG CD NE CZ NH1 NH2 REMARK 470 GLN A 64 CG CD OE1 NE2 REMARK 470 ARG A 66 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 74 CE NZ REMARK 470 LYS A 77 CE NZ REMARK 470 LYS A 78 CD CE NZ REMARK 470 LYS A 84 CD CE NZ REMARK 470 LYS A 88 CD CE NZ REMARK 470 LYS A 91 CE NZ REMARK 470 SER A 92 OG REMARK 470 ARG A 96 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 119 CG CD OE1 OE2 REMARK 470 LYS A 122 NZ REMARK 470 LYS A 284 CE NZ REMARK 470 LYS A 292 CD CE NZ REMARK 470 GLU A 295 CD OE1 OE2 REMARK 470 GLN A 383 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 13 17.74 -143.65 REMARK 500 LYS A 271 -4.85 78.36 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 503 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 49 SG REMARK 620 2 CYS A 52 SG 102.3 REMARK 620 3 CYS A 71 SG 109.3 106.0 REMARK 620 4 CYS A 75 SG 106.8 124.4 107.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 502 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 62 SG REMARK 620 2 CYS A 65 SG 105.9 REMARK 620 3 HIS A 83 NE2 116.5 101.5 REMARK 620 4 CYS A 87 SG 110.7 116.9 105.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 501 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 208 SG REMARK 620 2 CYS A 261 SG 116.6 REMARK 620 3 CYS A 263 SG 108.7 109.5 REMARK 620 4 CYS A 266 SG 99.2 111.9 110.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 504 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 655 O REMARK 620 2 HOH A 687 O 88.6 REMARK 620 3 HOH A 799 O 110.7 92.1 REMARK 620 4 HOH A 845 O 89.0 176.7 86.6 REMARK 620 5 HOH A 964 O 86.3 94.1 162.1 88.0 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 505 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 610 O REMARK 620 2 HOH A 630 O 177.6 REMARK 620 3 HOH A 692 O 94.2 85.9 REMARK 620 4 HOH A 749 O 97.2 85.2 91.8 REMARK 620 5 HOH A 780 O 86.4 93.5 179.4 88.2 REMARK 620 6 HOH A 828 O 91.2 86.4 89.8 171.3 90.1 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 506 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SAM A 507 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue L0J A 508 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6P6G RELATED DB: PDB REMARK 900 SAME PROTEIN DIFFERENT INHIBITOR DBREF 6P6K A 1 428 UNP Q9H7B4 SMYD3_HUMAN 1 428 SEQADV 6P6K GLY A -3 UNP Q9H7B4 EXPRESSION TAG SEQADV 6P6K SER A -2 UNP Q9H7B4 EXPRESSION TAG SEQADV 6P6K PHE A -1 UNP Q9H7B4 EXPRESSION TAG SEQADV 6P6K THR A 0 UNP Q9H7B4 EXPRESSION TAG SEQADV 6P6K ASN A 13 UNP Q9H7B4 LYS 13 CONFLICT SEQRES 1 A 432 GLY SER PHE THR MET GLU PRO LEU LYS VAL GLU LYS PHE SEQRES 2 A 432 ALA THR ALA ASN ARG GLY ASN GLY LEU ARG ALA VAL THR SEQRES 3 A 432 PRO LEU ARG PRO GLY GLU LEU LEU PHE ARG SER ASP PRO SEQRES 4 A 432 LEU ALA TYR THR VAL CYS LYS GLY SER ARG GLY VAL VAL SEQRES 5 A 432 CYS ASP ARG CYS LEU LEU GLY LYS GLU LYS LEU MET ARG SEQRES 6 A 432 CYS SER GLN CYS ARG VAL ALA LYS TYR CYS SER ALA LYS SEQRES 7 A 432 CYS GLN LYS LYS ALA TRP PRO ASP HIS LYS ARG GLU CYS SEQRES 8 A 432 LYS CYS LEU LYS SER CYS LYS PRO ARG TYR PRO PRO ASP SEQRES 9 A 432 SER VAL ARG LEU LEU GLY ARG VAL VAL PHE LYS LEU MET SEQRES 10 A 432 ASP GLY ALA PRO SER GLU SER GLU LYS LEU TYR SER PHE SEQRES 11 A 432 TYR ASP LEU GLU SER ASN ILE ASN LYS LEU THR GLU ASP SEQRES 12 A 432 LYS LYS GLU GLY LEU ARG GLN LEU VAL MET THR PHE GLN SEQRES 13 A 432 HIS PHE MET ARG GLU GLU ILE GLN ASP ALA SER GLN LEU SEQRES 14 A 432 PRO PRO ALA PHE ASP LEU PHE GLU ALA PHE ALA LYS VAL SEQRES 15 A 432 ILE CYS ASN SER PHE THR ILE CYS ASN ALA GLU MET GLN SEQRES 16 A 432 GLU VAL GLY VAL GLY LEU TYR PRO SER ILE SER LEU LEU SEQRES 17 A 432 ASN HIS SER CYS ASP PRO ASN CYS SER ILE VAL PHE ASN SEQRES 18 A 432 GLY PRO HIS LEU LEU LEU ARG ALA VAL ARG ASP ILE GLU SEQRES 19 A 432 VAL GLY GLU GLU LEU THR ILE CYS TYR LEU ASP MET LEU SEQRES 20 A 432 MET THR SER GLU GLU ARG ARG LYS GLN LEU ARG ASP GLN SEQRES 21 A 432 TYR CYS PHE GLU CYS ASP CYS PHE ARG CYS GLN THR GLN SEQRES 22 A 432 ASP LYS ASP ALA ASP MET LEU THR GLY ASP GLU GLN VAL SEQRES 23 A 432 TRP LYS GLU VAL GLN GLU SER LEU LYS LYS ILE GLU GLU SEQRES 24 A 432 LEU LYS ALA HIS TRP LYS TRP GLU GLN VAL LEU ALA MET SEQRES 25 A 432 CYS GLN ALA ILE ILE SER SER ASN SER GLU ARG LEU PRO SEQRES 26 A 432 ASP ILE ASN ILE TYR GLN LEU LYS VAL LEU ASP CYS ALA SEQRES 27 A 432 MET ASP ALA CYS ILE ASN LEU GLY LEU LEU GLU GLU ALA SEQRES 28 A 432 LEU PHE TYR GLY THR ARG THR MET GLU PRO TYR ARG ILE SEQRES 29 A 432 PHE PHE PRO GLY SER HIS PRO VAL ARG GLY VAL GLN VAL SEQRES 30 A 432 MET LYS VAL GLY LYS LEU GLN LEU HIS GLN GLY MET PHE SEQRES 31 A 432 PRO GLN ALA MET LYS ASN LEU ARG LEU ALA PHE ASP ILE SEQRES 32 A 432 MET ARG VAL THR HIS GLY ARG GLU HIS SER LEU ILE GLU SEQRES 33 A 432 ASP LEU ILE LEU LEU LEU GLU GLU CYS ASP ALA ASN ILE SEQRES 34 A 432 ARG ALA SER HET ZN A 501 1 HET ZN A 502 1 HET ZN A 503 1 HET MG A 504 1 HET MG A 505 1 HET EDO A 506 4 HET SAM A 507 27 HET L0J A 508 30 HETNAM ZN ZINC ION HETNAM MG MAGNESIUM ION HETNAM EDO 1,2-ETHANEDIOL HETNAM SAM S-ADENOSYLMETHIONINE HETNAM L0J N-{1-[(2-AMINOETHYL)SULFONYL]PIPERIDIN-4-YL}-5- HETNAM 2 L0J CYCLOPROPYL-1,2-OXAZOLE-3-CARBOXAMIDE HETSYN EDO ETHYLENE GLYCOL FORMUL 2 ZN 3(ZN 2+) FORMUL 5 MG 2(MG 2+) FORMUL 7 EDO C2 H6 O2 FORMUL 8 SAM C15 H22 N6 O5 S FORMUL 9 L0J C14 H22 N4 O4 S FORMUL 10 HOH *399(H2 O) HELIX 1 AA1 SER A 72 CYS A 93 1 22 HELIX 2 AA2 PRO A 99 GLY A 115 1 17 HELIX 3 AA3 SER A 118 LYS A 122 5 5 HELIX 4 AA4 SER A 125 LEU A 129 5 5 HELIX 5 AA5 ASN A 132 LEU A 136 5 5 HELIX 6 AA6 THR A 137 MET A 155 1 19 HELIX 7 AA7 ASP A 161 LEU A 165 5 5 HELIX 8 AA8 ASP A 170 CYS A 180 1 11 HELIX 9 AA9 SER A 200 LEU A 204 5 5 HELIX 10 AB1 THR A 245 CYS A 258 1 14 HELIX 11 AB2 CYS A 263 GLN A 269 1 7 HELIX 12 AB3 LYS A 271 LEU A 276 1 6 HELIX 13 AB4 ASP A 279 HIS A 299 1 21 HELIX 14 AB5 LYS A 301 SER A 314 1 14 HELIX 15 AB6 ASN A 324 GLY A 342 1 19 HELIX 16 AB7 LEU A 343 PHE A 362 1 20 HELIX 17 AB8 HIS A 366 GLN A 383 1 18 HELIX 18 AB9 MET A 385 HIS A 404 1 20 HELIX 19 AC1 HIS A 408 ALA A 427 1 20 SHEET 1 AA1 4 VAL A 6 ALA A 10 0 SHEET 2 AA1 4 ASN A 16 ALA A 20 -1 O GLY A 17 N PHE A 9 SHEET 3 AA1 4 GLU A 234 ILE A 237 -1 O LEU A 235 N LEU A 18 SHEET 4 AA1 4 ASN A 205 HIS A 206 1 N ASN A 205 O ILE A 237 SHEET 1 AA2 3 LEU A 29 SER A 33 0 SHEET 2 AA2 3 HIS A 220 ALA A 225 -1 O LEU A 223 N PHE A 31 SHEET 3 AA2 3 CYS A 212 ASN A 217 -1 N ASN A 217 O HIS A 220 SHEET 1 AA3 3 ALA A 37 VAL A 40 0 SHEET 2 AA3 3 GLU A 192 LEU A 197 -1 O LEU A 197 N ALA A 37 SHEET 3 AA3 3 PHE A 183 CYS A 186 -1 N ILE A 185 O VAL A 193 SHEET 1 AA4 2 MET A 60 ARG A 61 0 SHEET 2 AA4 2 LYS A 69 TYR A 70 -1 O TYR A 70 N MET A 60 LINK SG CYS A 49 ZN ZN A 503 1555 1555 2.55 LINK SG CYS A 52 ZN ZN A 503 1555 1555 2.25 LINK SG CYS A 62 ZN ZN A 502 1555 1555 2.27 LINK SG CYS A 65 ZN ZN A 502 1555 1555 2.39 LINK SG CYS A 71 ZN ZN A 503 1555 1555 2.29 LINK SG CYS A 75 ZN ZN A 503 1555 1555 2.27 LINK NE2 HIS A 83 ZN ZN A 502 1555 1555 2.11 LINK SG CYS A 87 ZN ZN A 502 1555 1555 2.33 LINK SG CYS A 208 ZN ZN A 501 1555 1555 2.45 LINK SG CYS A 261 ZN ZN A 501 1555 1555 2.24 LINK SG CYS A 263 ZN ZN A 501 1555 1555 2.24 LINK SG CYS A 266 ZN ZN A 501 1555 1555 2.30 LINK MG MG A 504 O HOH A 655 1555 1555 2.19 LINK MG MG A 504 O HOH A 687 1555 1545 2.04 LINK MG MG A 504 O HOH A 799 1555 1555 2.16 LINK MG MG A 504 O HOH A 845 1555 1555 2.23 LINK MG MG A 504 O HOH A 964 1555 1555 2.14 LINK MG MG A 505 O HOH A 610 1555 1555 2.02 LINK MG MG A 505 O HOH A 630 1555 1555 2.24 LINK MG MG A 505 O HOH A 692 1555 1545 2.09 LINK MG MG A 505 O HOH A 749 1555 1555 2.09 LINK MG MG A 505 O HOH A 780 1555 3644 2.17 LINK MG MG A 505 O HOH A 828 1555 3644 2.07 SITE 1 AC1 4 CYS A 208 CYS A 261 CYS A 263 CYS A 266 SITE 1 AC2 4 CYS A 62 CYS A 65 HIS A 83 CYS A 87 SITE 1 AC3 4 CYS A 49 CYS A 52 CYS A 71 CYS A 75 SITE 1 AC4 5 HOH A 655 HOH A 687 HOH A 799 HOH A 845 SITE 2 AC4 5 HOH A 964 SITE 1 AC5 6 HOH A 610 HOH A 630 HOH A 692 HOH A 749 SITE 2 AC5 6 HOH A 780 HOH A 828 SITE 1 AC6 8 SER A 213 CYS A 238 HIS A 366 PRO A 367 SITE 2 AC6 8 L0J A 508 HOH A 658 HOH A 676 HOH A 805 SITE 1 AC7 23 ARG A 14 ASN A 16 TYR A 124 GLU A 130 SITE 2 AC7 23 ASN A 132 CYS A 180 ASN A 181 SER A 202 SITE 3 AC7 23 LEU A 203 LEU A 204 ASN A 205 HIS A 206 SITE 4 AC7 23 TYR A 239 TYR A 257 PHE A 259 L0J A 508 SITE 5 AC7 23 HOH A 620 HOH A 631 HOH A 712 HOH A 752 SITE 6 AC7 23 HOH A 774 HOH A 803 HOH A 850 SITE 1 AC8 19 CYS A 180 ASN A 181 SER A 182 PHE A 183 SITE 2 AC8 19 THR A 184 CYS A 186 MET A 190 ILE A 214 SITE 3 AC8 19 ILE A 237 TYR A 239 TYR A 257 HIS A 366 SITE 4 AC8 19 PRO A 367 VAL A 368 EDO A 506 SAM A 507 SITE 5 AC8 19 HOH A 663 HOH A 667 HOH A 806 CRYST1 60.719 66.038 105.773 90.00 90.00 90.00 P 21 21 21 4 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.016469 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015143 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009454 0.00000