HEADER TRANSFERASE/TRANSFERASE INHIBITOR 11-JUN-19 6PAF 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: UNIDENTIFIED BACULOVIRUS; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 10469; SOURCE 8 EXPRESSION_SYSTEM_CELL_LINE: SF9; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: VIRUS KEYWDS METHYLTRANSFERASE, ONCOLOGY, INHIBITOR, TRANSFERASE, TRANSFERASE- KEYWDS 2 TRANSFERASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR P.A.ELKINS,L.WANG REVDAT 3 11-OCT-23 6PAF 1 LINK REVDAT 2 11-MAR-20 6PAF 1 JRNL REVDAT 1 15-JAN-20 6PAF 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. 1.24 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.16-3549 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.24 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 33.00 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.5 REMARK 3 NUMBER OF REFLECTIONS : 118691 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.173 REMARK 3 R VALUE (WORKING SET) : 0.172 REMARK 3 FREE R VALUE : 0.188 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 7.130 REMARK 3 FREE R VALUE TEST SET COUNT : 8461 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 50.0000 - 3.8548 0.95 3819 321 0.1573 0.1730 REMARK 3 2 3.8548 - 3.0603 0.98 3820 291 0.1629 0.1825 REMARK 3 3 3.0603 - 2.6737 0.98 3788 292 0.1775 0.1840 REMARK 3 4 2.6737 - 2.4293 0.99 3763 298 0.1721 0.1772 REMARK 3 5 2.4293 - 2.2552 0.99 3826 235 0.1645 0.1801 REMARK 3 6 2.2552 - 2.1223 0.99 3782 268 0.1597 0.1748 REMARK 3 7 2.1223 - 2.0160 0.99 3686 322 0.1643 0.1762 REMARK 3 8 2.0160 - 1.9283 0.99 3768 277 0.1723 0.1799 REMARK 3 9 1.9283 - 1.8541 0.99 3743 273 0.1689 0.1733 REMARK 3 10 1.8541 - 1.7901 0.99 3677 310 0.1659 0.2035 REMARK 3 11 1.7901 - 1.7341 0.99 3682 311 0.1686 0.1903 REMARK 3 12 1.7341 - 1.6845 0.99 3676 318 0.1623 0.1833 REMARK 3 13 1.6845 - 1.6402 0.98 3698 279 0.1664 0.1822 REMARK 3 14 1.6402 - 1.6002 0.98 3695 278 0.1689 0.2097 REMARK 3 15 1.6002 - 1.5638 0.98 3684 285 0.1668 0.1772 REMARK 3 16 1.5638 - 1.5305 0.98 3647 267 0.1731 0.1881 REMARK 3 17 1.5305 - 1.4999 0.98 3675 283 0.1721 0.1925 REMARK 3 18 1.4999 - 1.4716 0.97 3650 294 0.1751 0.1933 REMARK 3 19 1.4716 - 1.4453 0.98 3653 279 0.1826 0.2147 REMARK 3 20 1.4453 - 1.4208 0.97 3622 268 0.1868 0.2072 REMARK 3 21 1.4208 - 1.3979 0.97 3686 254 0.1935 0.1959 REMARK 3 22 1.3979 - 1.3764 0.97 3594 291 0.1888 0.2156 REMARK 3 23 1.3764 - 1.3562 0.97 3628 260 0.1984 0.2223 REMARK 3 24 1.3562 - 1.3371 0.97 3620 275 0.1996 0.2254 REMARK 3 25 1.3371 - 1.3190 0.97 3595 270 0.2069 0.2263 REMARK 3 26 1.3190 - 1.3019 0.96 3602 286 0.2058 0.2301 REMARK 3 27 1.3019 - 1.2856 0.96 3592 272 0.2142 0.2350 REMARK 3 28 1.2856 - 1.2701 0.96 3569 262 0.2194 0.2273 REMARK 3 29 1.2701 - 1.2553 0.96 3605 280 0.2252 0.2249 REMARK 3 30 1.2553 - 1.2412 0.92 3385 262 0.2439 0.2588 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL 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) : 0.110 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 18.130 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 17.34 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): 9.882 -3.382 -4.547 REMARK 3 T TENSOR REMARK 3 T11: 0.1363 T22: 0.1208 REMARK 3 T33: 0.1471 T12: -0.0067 REMARK 3 T13: 0.0488 T23: -0.0016 REMARK 3 L TENSOR REMARK 3 L11: 0.5500 L22: 1.0768 REMARK 3 L33: 2.4283 L12: 0.0175 REMARK 3 L13: -0.2584 L23: -0.0631 REMARK 3 S TENSOR REMARK 3 S11: 0.0238 S12: -0.1084 S13: 0.0550 REMARK 3 S21: 0.3059 S22: 0.0784 S23: 0.1180 REMARK 3 S31: -0.2092 S32: 0.2340 S33: -0.0731 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: ( CHAIN A AND RESID 96:186 ) REMARK 3 ORIGIN FOR THE GROUP (A): 14.475 -17.588 -5.615 REMARK 3 T TENSOR REMARK 3 T11: 0.0746 T22: 0.0977 REMARK 3 T33: 0.0701 T12: -0.0019 REMARK 3 T13: 0.0165 T23: 0.0122 REMARK 3 L TENSOR REMARK 3 L11: 1.0442 L22: 1.1980 REMARK 3 L33: 1.3147 L12: -0.4981 REMARK 3 L13: -0.1897 L23: 0.2783 REMARK 3 S TENSOR REMARK 3 S11: -0.0559 S12: -0.1709 S13: -0.0441 REMARK 3 S21: 0.2015 S22: 0.0642 S23: 0.0517 REMARK 3 S31: 0.0979 S32: -0.0150 S33: -0.0105 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: ( CHAIN A AND RESID 187:428 ) REMARK 3 ORIGIN FOR THE GROUP (A): 22.482 7.707 -18.717 REMARK 3 T TENSOR REMARK 3 T11: 0.0839 T22: 0.0691 REMARK 3 T33: 0.0652 T12: 0.0017 REMARK 3 T13: 0.0123 T23: 0.0078 REMARK 3 L TENSOR REMARK 3 L11: 0.6703 L22: 1.0335 REMARK 3 L33: 0.4096 L12: 0.4759 REMARK 3 L13: -0.2763 L23: -0.1717 REMARK 3 S TENSOR REMARK 3 S11: 0.0758 S12: -0.0590 S13: 0.0952 REMARK 3 S21: 0.1143 S22: -0.0287 S23: 0.0748 REMARK 3 S31: -0.0962 S32: 0.0272 S33: -0.0285 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6PAF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-JUN-19. REMARK 100 THE DEPOSITION ID IS D_1000242063. 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) : 295 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 : 118748 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.240 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.0 REMARK 200 DATA REDUNDANCY : 4.800 REMARK 200 R MERGE (I) : 0.07200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.24 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.28 REMARK 200 COMPLETENESS FOR SHELL (%) : 90.5 REMARK 200 DATA REDUNDANCY IN SHELL : 4.80 REMARK 200 R MERGE FOR SHELL (I) : 0.41700 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: PHENIX REMARK 200 STARTING MODEL: 5HI7 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.14 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.16 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: SITTING DROP, LINBRO TRAY, ROOM TEMP, REMARK 280 RESERVOIR IS 10% PEG 3350, 0.2M MGOAC , PROTEIN:RESERVOIR IS 1:1, REMARK 280 STREAK SEED SOAKING: 2UL 20%PEG 3350, 0.4M MGOAC ADDED TO 2UL REMARK 280 PROTEIN, MIX AND ADD 0.3UL TO DROP, STORE AT 295, VAPOR REMARK 280 DIFFUSION, HANGING DROP 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 30.48550 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 53.27200 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 32.99550 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 53.27200 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 30.48550 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 32.99550 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 465 PRO A 95 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 ARG A 25 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 42 CD CE NZ REMARK 470 LYS A 56 CG CD CE NZ REMARK 470 LYS A 58 CG CD CE NZ REMARK 470 GLN A 64 CG CD OE1 NE2 REMARK 470 LYS A 74 NZ REMARK 470 LYS A 78 CE NZ REMARK 470 LYS A 84 CE NZ REMARK 470 LYS A 88 CG CD CE NZ REMARK 470 LYS A 91 CG CD CE NZ REMARK 470 SER A 92 OG REMARK 470 ARG A 96 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 156 CD NE CZ NH1 NH2 REMARK 470 ASP A 161 CG OD1 OD2 REMARK 470 LYS A 284 CE NZ REMARK 470 LYS A 292 CD CE NZ REMARK 470 LYS A 301 CE NZ REMARK 470 GLN A 383 CD OE1 NE2 REMARK 470 LYS A 391 NZ REMARK 470 ARG A 406 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 426 CD NE CZ NH1 NH2 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 19.34 -146.41 REMARK 500 LYS A 271 -3.13 76.12 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 106.3 REMARK 620 3 CYS A 71 SG 110.5 109.3 REMARK 620 4 CYS A 75 SG 106.2 120.3 104.1 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 110.4 REMARK 620 3 HIS A 83 NE2 112.7 100.6 REMARK 620 4 CYS A 87 SG 109.7 116.0 107.2 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 104.6 REMARK 620 3 CYS A 263 SG 103.9 111.9 REMARK 620 4 CYS A 266 SG 100.0 117.8 116.2 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 812 O REMARK 620 2 HOH A 822 O 89.6 REMARK 620 3 HOH A 832 O 86.0 97.8 REMARK 620 4 HOH A 901 O 172.6 87.8 87.6 REMARK 620 5 HOH A1044 O 91.9 172.4 89.7 91.7 REMARK 620 6 HOH A1049 O 92.5 89.7 172.3 94.4 82.8 REMARK 620 N 1 2 3 4 5 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 656 O REMARK 620 2 HOH A 719 O 174.9 REMARK 620 3 HOH A 724 O 89.9 93.5 REMARK 620 4 HOH A 767 O 87.5 88.6 92.0 REMARK 620 5 HOH A 794 O 96.2 87.7 89.1 176.2 REMARK 620 6 HOH A 974 O 86.1 90.7 174.6 91.5 87.7 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 GOL A 506 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 507 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SAM A 508 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue O6A A 509 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6P6K RELATED DB: PDB REMARK 900 RELATED ID: 6P6G RELATED DB: PDB REMARK 900 RELATED ID: 6P7Z RELATED DB: PDB DBREF 6PAF A 1 428 UNP Q9H7B4 SMYD3_HUMAN 1 428 SEQADV 6PAF GLY A -3 UNP Q9H7B4 EXPRESSION TAG SEQADV 6PAF SER A -2 UNP Q9H7B4 EXPRESSION TAG SEQADV 6PAF PHE A -1 UNP Q9H7B4 EXPRESSION TAG SEQADV 6PAF THR A 0 UNP Q9H7B4 EXPRESSION TAG SEQADV 6PAF 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 GOL A 506 6 HET GOL A 507 6 HET SAM A 508 27 HET O6A A 509 28 HETNAM ZN ZINC ION HETNAM MG MAGNESIUM ION HETNAM GOL GLYCEROL HETNAM SAM S-ADENOSYLMETHIONINE HETNAM O6A N-(1-{[4-(AMINOMETHYL)PHENYL]SULFONYL}PIPERIDIN-4-YL)- HETNAM 2 O6A 5-CYCLOPROPYL-1,2-OXAZOLE-3-CARBOXAMIDE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 ZN 3(ZN 2+) FORMUL 5 MG 2(MG 2+) FORMUL 7 GOL 2(C3 H8 O3) FORMUL 9 SAM C15 H22 N6 O5 S FORMUL 10 O6A C19 H24 N4 O4 S FORMUL 11 HOH *487(H2 O) HELIX 1 AA1 LYS A 42 ARG A 45 5 4 HELIX 2 AA2 SER A 72 CYS A 93 1 22 HELIX 3 AA3 PRO A 99 GLY A 115 1 17 HELIX 4 AA4 SER A 118 LYS A 122 5 5 HELIX 5 AA5 SER A 125 LEU A 129 5 5 HELIX 6 AA6 ASN A 132 LEU A 136 5 5 HELIX 7 AA7 THR A 137 MET A 155 1 19 HELIX 8 AA8 ASP A 161 LEU A 165 5 5 HELIX 9 AA9 ASP A 170 SER A 182 1 13 HELIX 10 AB1 SER A 200 LEU A 204 5 5 HELIX 11 AB2 THR A 245 CYS A 258 1 14 HELIX 12 AB3 CYS A 263 GLN A 269 1 7 HELIX 13 AB4 LYS A 271 LEU A 276 1 6 HELIX 14 AB5 ASP A 279 HIS A 299 1 21 HELIX 15 AB6 LYS A 301 SER A 314 1 14 HELIX 16 AB7 ASN A 324 GLY A 342 1 19 HELIX 17 AB8 LEU A 343 PHE A 362 1 20 HELIX 18 AB9 HIS A 366 GLN A 383 1 18 HELIX 19 AC1 MET A 385 HIS A 404 1 20 HELIX 20 AC2 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 LEU A 30 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 2.45 LINK SG CYS A 52 ZN ZN A 503 1555 1555 2.20 LINK SG CYS A 62 ZN ZN A 502 1555 1555 2.30 LINK SG CYS A 65 ZN ZN A 502 1555 1555 2.30 LINK SG CYS A 71 ZN ZN A 503 1555 1555 2.31 LINK SG CYS A 75 ZN ZN A 503 1555 1555 2.26 LINK NE2 HIS A 83 ZN ZN A 502 1555 1555 2.03 LINK SG CYS A 87 ZN ZN A 502 1555 1555 2.32 LINK SG CYS A 208 ZN ZN A 501 1555 1555 2.37 LINK SG CYS A 261 ZN ZN A 501 1555 1555 2.29 LINK SG CYS A 263 ZN ZN A 501 1555 1555 2.21 LINK SG CYS A 266 ZN ZN A 501 1555 1555 2.32 LINK MG MG A 504 O HOH A 812 1555 1545 2.04 LINK MG MG A 504 O HOH A 822 1555 1555 2.00 LINK MG MG A 504 O HOH A 832 1555 1555 2.05 LINK MG MG A 504 O HOH A 901 1555 1555 2.16 LINK MG MG A 504 O HOH A1044 1555 1555 2.07 LINK MG MG A 504 O HOH A1049 1555 1545 2.07 LINK MG MG A 505 O HOH A 656 1555 1555 2.06 LINK MG MG A 505 O HOH A 719 1555 1555 2.07 LINK MG MG A 505 O HOH A 724 1555 1545 2.06 LINK MG MG A 505 O HOH A 767 1555 3644 2.04 LINK MG MG A 505 O HOH A 794 1555 1555 2.05 LINK MG MG A 505 O HOH A 974 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 6 HOH A 812 HOH A 822 HOH A 832 HOH A 901 SITE 2 AC4 6 HOH A1044 HOH A1049 SITE 1 AC5 6 HOH A 656 HOH A 719 HOH A 724 HOH A 767 SITE 2 AC5 6 HOH A 794 HOH A 974 SITE 1 AC6 9 ASP A 332 ASP A 336 TYR A 358 VAL A 368 SITE 2 AC6 9 VAL A 371 GLN A 372 LYS A 375 HOH A 632 SITE 3 AC6 9 HOH A 996 SITE 1 AC7 10 SER A 213 ILE A 214 CYS A 238 HIS A 366 SITE 2 AC7 10 PRO A 367 O6A A 509 HOH A 639 HOH A 705 SITE 3 AC7 10 HOH A 713 HOH A 739 SITE 1 AC8 24 ARG A 14 GLY A 15 ASN A 16 TYR A 124 SITE 2 AC8 24 GLU A 130 ASN A 132 CYS A 180 ASN A 181 SITE 3 AC8 24 SER A 202 LEU A 203 LEU A 204 ASN A 205 SITE 4 AC8 24 HIS A 206 TYR A 239 TYR A 257 PHE A 259 SITE 5 AC8 24 O6A A 509 HOH A 655 HOH A 672 HOH A 722 SITE 6 AC8 24 HOH A 742 HOH A 776 HOH A 835 HOH A 852 SITE 1 AC9 20 CYS A 180 ASN A 181 SER A 182 PHE A 183 SITE 2 AC9 20 THR A 184 CYS A 186 MET A 190 ILE A 237 SITE 3 AC9 20 TYR A 239 TYR A 257 HIS A 366 VAL A 368 SITE 4 AC9 20 GOL A 507 SAM A 508 HOH A 632 HOH A 639 SITE 5 AC9 20 HOH A 798 HOH A 836 HOH A 886 HOH A 996 CRYST1 60.971 65.991 106.544 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 0.016401 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015154 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009386 0.00000