HEADER TRANSFERASE 14-MAR-19 6O9O TITLE CRYSTAL STRUCTURE OF SMYD3 WITH POTENT AND SELECTIVE ISOXAZOLE AMIDE TITLE 2 INHIBITOR 1 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 HISTONE, MYND, SET, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR P.A.ELKINS,L.WANG REVDAT 2 13-MAR-24 6O9O 1 LINK REVDAT 1 18-MAR-20 6O9O 0 JRNL AUTH D.-S.SU,P.A.ELKINS JRNL TITL DISCOVERY OF ISOXAZOLE AMIDES AS POTENT AND SELECTIVE SMYD3 JRNL TITL 2 INHIBITORS JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.59 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) : 1.59 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 56.61 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 60111 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.174 REMARK 3 R VALUE (WORKING SET) : 0.172 REMARK 3 FREE R VALUE : 0.200 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.940 REMARK 3 FREE R VALUE TEST SET COUNT : 5654 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 56.6500 - 4.9277 0.99 3584 237 0.1740 0.1885 REMARK 3 2 4.9277 - 3.9115 1.00 3618 207 0.1355 0.1492 REMARK 3 3 3.9115 - 3.4171 1.00 3659 175 0.1457 0.1712 REMARK 3 4 3.4171 - 3.1047 1.00 3666 187 0.1596 0.1879 REMARK 3 5 3.1047 - 2.8822 1.00 3626 196 0.1675 0.2092 REMARK 3 6 2.8822 - 2.7123 1.00 3683 170 0.1711 0.1774 REMARK 3 7 2.7123 - 2.5765 1.00 3615 212 0.1738 0.2015 REMARK 3 8 2.5765 - 2.4643 1.00 3668 178 0.1699 0.2066 REMARK 3 9 2.4643 - 2.3694 1.00 3640 194 0.1739 0.1847 REMARK 3 10 2.3694 - 2.2877 1.00 3650 186 0.1723 0.2225 REMARK 3 11 2.2877 - 2.2161 1.00 3645 189 0.1712 0.2237 REMARK 3 12 2.2161 - 2.1528 1.00 3662 194 0.1766 0.2150 REMARK 3 13 2.1528 - 2.0961 1.00 3657 168 0.1768 0.2258 REMARK 3 14 2.0961 - 2.0450 1.00 3639 209 0.1838 0.2072 REMARK 3 15 2.0450 - 1.9985 1.00 3651 196 0.1780 0.2559 REMARK 3 16 1.9985 - 1.9559 1.00 3632 188 0.1904 0.2580 REMARK 3 17 1.9559 - 1.9168 1.00 3664 206 0.1816 0.2047 REMARK 3 18 1.9168 - 1.8806 1.00 3697 149 0.1777 0.2046 REMARK 3 19 1.8806 - 1.8471 1.00 3653 166 0.1830 0.1995 REMARK 3 20 1.8471 - 1.8157 1.00 3622 208 0.1850 0.2090 REMARK 3 21 1.8157 - 1.7865 1.00 3690 195 0.1903 0.2340 REMARK 3 22 1.7865 - 1.7590 1.00 3613 188 0.1887 0.2164 REMARK 3 23 1.7590 - 1.7331 1.00 3666 200 0.1925 0.2528 REMARK 3 24 1.7331 - 1.7087 1.00 3590 200 0.2016 0.2326 REMARK 3 25 1.7087 - 1.6856 1.00 3687 199 0.2151 0.2340 REMARK 3 26 1.6856 - 1.6637 1.00 3609 183 0.2241 0.2287 REMARK 3 27 1.6637 - 1.6429 1.00 3696 167 0.2338 0.2455 REMARK 3 28 1.6429 - 1.6231 0.97 3583 184 0.2605 0.3414 REMARK 3 29 1.6231 - 1.6042 0.94 3472 169 0.2735 0.3225 REMARK 3 30 1.6042 - 1.5862 0.91 3291 154 0.2849 0.3146 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) : 0.190 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 20.900 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 23.71 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 : NULL 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 6O9O COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 15-MAR-19. REMARK 100 THE DEPOSITION ID IS D_1000240272. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 27-JUL-16 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 : 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97872 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX-225 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.5.27 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 60184 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.586 REMARK 200 RESOLUTION RANGE LOW (A) : 66.640 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : 6.900 REMARK 200 R MERGE (I) : 0.07100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 15.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.59 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.67 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.6 REMARK 200 DATA REDUNDANCY IN SHELL : 5.50 REMARK 200 R MERGE FOR SHELL (I) : 0.57200 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: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.53 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.22 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: LIBRO 24 WELL SITTING DROP TRAY. REMARK 280 RESERVOIR SOLUTION: 10% PEG 3350, 0.2M MGOAC DROPS COMPOSED OF REMARK 280 2UL PROTEIN + 2 UL RESERVOIR. FROZEN SEED STOCK ADDED TO ENSURE REMARK 280 NUCLEATION. CRYSTALS SHOULD GROW OVERNIGHT AT 22C AND FULLY REMARK 280 MATURE WITHIN 3 DAYS APO CRYSTALS WERE SOAKED WITH INHIBITOR AS REMARK 280 FOLLOWS: 1UL 100MM COMPOUND + 1UL WELL BUFFER ADD 0.3UL TO THE REMARK 280 DROP INCUBATE AT ROOM TEMPERATURE, VAPOR DIFFUSION, SITTING DROP, REMARK 280 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 30.71650 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 53.67000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 33.31800 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 53.67000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 30.71650 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 33.31800 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 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 CD NE CZ NH1 NH2 REMARK 470 LYS A 42 CD CE NZ REMARK 470 LYS A 56 CG CD CE NZ REMARK 470 GLU A 57 CG CD OE1 OE2 REMARK 470 LYS A 58 CG CD CE NZ REMARK 470 GLN A 64 CG CD OE1 NE2 REMARK 470 LYS A 77 CE 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 CYS A 93 SG REMARK 470 LYS A 94 CG CD CE NZ REMARK 470 ARG A 96 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 111 NZ REMARK 470 LYS A 284 CD CE NZ REMARK 470 LYS A 292 CD CE NZ REMARK 470 LYS A 301 CE NZ REMARK 470 GLU A 303 CG CD OE1 OE2 REMARK 470 GLN A 383 CD OE1 NE2 REMARK 470 LYS A 391 CE NZ REMARK 470 ARG A 401 CZ NH1 NH2 REMARK 470 ARG A 406 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 19.55 -148.37 REMARK 500 TYR A 124 137.98 -173.71 REMARK 500 LYS A 271 -3.09 76.30 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 113.4 111.8 REMARK 620 4 CYS A 75 SG 106.5 118.2 100.7 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 111.6 REMARK 620 3 HIS A 83 NE2 112.9 99.3 REMARK 620 4 CYS A 87 SG 112.0 112.3 108.1 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 111.0 REMARK 620 3 CYS A 263 SG 106.1 110.8 REMARK 620 4 CYS A 266 SG 98.2 115.6 114.0 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 696 O REMARK 620 2 HOH A 741 O 88.0 REMARK 620 3 HOH A 786 O 97.4 91.8 REMARK 620 4 HOH A 811 O 88.0 172.2 82.0 REMARK 620 5 HOH A 966 O 94.6 97.2 165.3 89.9 REMARK 620 6 HOH A 969 O 168.1 100.1 73.8 82.8 93.0 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 632 O REMARK 620 2 HOH A 643 O 86.1 REMARK 620 3 HOH A 653 O 170.7 92.4 REMARK 620 4 HOH A 670 O 95.4 178.2 86.4 REMARK 620 5 HOH A 681 O 78.2 89.8 92.7 91.5 REMARK 620 6 HOH A 871 O 93.8 91.0 95.4 87.8 171.8 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 GOL A 508 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SAH A 509 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue LUP A 510 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6NTQ RELATED DB: PDB DBREF 6O9O A 1 428 UNP Q9H7B4 SMYD3_HUMAN 1 428 SEQADV 6O9O GLY A -3 UNP Q9H7B4 EXPRESSION TAG SEQADV 6O9O SER A -2 UNP Q9H7B4 EXPRESSION TAG SEQADV 6O9O PHE A -1 UNP Q9H7B4 EXPRESSION TAG SEQADV 6O9O THR A 0 UNP Q9H7B4 EXPRESSION TAG SEQADV 6O9O 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 GOL A 508 6 HET SAH A 509 26 HET LUP A 510 37 HETNAM ZN ZINC ION HETNAM MG MAGNESIUM ION HETNAM GOL GLYCEROL HETNAM SAH S-ADENOSYL-L-HOMOCYSTEINE HETNAM LUP 5-CYCLOPROPYL-N-{1-[({TRANS-4-[(4,4,4-TRIFLUOROBUTYL) HETNAM 2 LUP AMINO]CYCLOHEXYL}METHYL)SULFONYL]PIPERIDIN-4-YL}-1,2- HETNAM 3 LUP 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 3(C3 H8 O3) FORMUL 10 SAH C14 H20 N6 O5 S FORMUL 11 LUP C23 H35 F3 N4 O4 S FORMUL 12 HOH *391(H2 O) HELIX 1 AA1 SER A 72 ALA A 79 1 8 HELIX 2 AA2 ALA A 79 LYS A 94 1 16 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 LEU A 341 1 18 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 2 VAL A 6 ALA A 10 0 SHEET 2 AA1 2 ASN A 16 ALA A 20 -1 O GLY A 17 N PHE A 9 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 PHE A 183 O GLY A 196 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 SHEET 1 AA5 2 ASN A 205 HIS A 206 0 SHEET 2 AA5 2 THR A 236 ILE A 237 1 O ILE A 237 N ASN A 205 LINK SG CYS A 49 ZN ZN A 503 1555 1555 2.45 LINK SG CYS A 52 ZN ZN A 503 1555 1555 2.26 LINK SG CYS A 62 ZN ZN A 502 1555 1555 2.25 LINK SG CYS A 65 ZN ZN A 502 1555 1555 2.40 LINK SG CYS A 71 ZN ZN A 503 1555 1555 2.27 LINK SG CYS A 75 ZN ZN A 503 1555 1555 2.23 LINK NE2 HIS A 83 ZN ZN A 502 1555 1555 2.09 LINK SG CYS A 87 ZN ZN A 502 1555 1555 2.29 LINK SG CYS A 208 ZN ZN A 501 1555 1555 2.43 LINK SG CYS A 261 ZN ZN A 501 1555 1555 2.26 LINK SG CYS A 263 ZN ZN A 501 1555 1555 2.30 LINK SG CYS A 266 ZN ZN A 501 1555 1555 2.31 LINK MG MG A 504 O HOH A 696 1555 1555 2.12 LINK MG MG A 504 O HOH A 741 1555 1555 2.25 LINK MG MG A 504 O HOH A 786 1555 1555 2.09 LINK MG MG A 504 O HOH A 811 1555 1545 2.25 LINK MG MG A 504 O HOH A 966 1555 1555 2.11 LINK MG MG A 504 O HOH A 969 1555 1545 2.23 LINK MG MG A 505 O HOH A 632 1555 1555 2.08 LINK MG MG A 505 O HOH A 643 1555 3644 2.18 LINK MG MG A 505 O HOH A 653 1555 1555 2.17 LINK MG MG A 505 O HOH A 670 1555 1555 2.11 LINK MG MG A 505 O HOH A 681 1555 3644 2.17 LINK MG MG A 505 O HOH A 871 1555 1555 2.02 CISPEP 1 LYS A 94 PRO A 95 0 3.56 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 696 HOH A 741 HOH A 786 HOH A 811 SITE 2 AC4 6 HOH A 966 HOH A 969 SITE 1 AC5 6 HOH A 632 HOH A 643 HOH A 653 HOH A 670 SITE 2 AC5 6 HOH A 681 HOH A 871 SITE 1 AC6 7 ASP A 332 ASP A 336 GLN A 372 LYS A 375 SITE 2 AC6 7 HOH A 684 HOH A 808 HOH A 823 SITE 1 AC7 9 SER A 213 ILE A 214 CYS A 238 HIS A 366 SITE 2 AC7 9 PRO A 367 LUP A 510 HOH A 648 HOH A 691 SITE 3 AC7 9 HOH A 701 SITE 1 AC8 6 PRO A 99 MET A 113 GLY A 115 GLN A 146 SITE 2 AC8 6 THR A 150 HOH A 715 SITE 1 AC9 21 ARG A 14 ASN A 16 TYR A 124 GLU A 130 SITE 2 AC9 21 ASN A 132 CYS A 180 ASN A 181 SER A 202 SITE 3 AC9 21 LEU A 204 ASN A 205 HIS A 206 TYR A 239 SITE 4 AC9 21 TYR A 257 PHE A 259 HOH A 639 HOH A 647 SITE 5 AC9 21 HOH A 680 HOH A 719 HOH A 771 HOH A 774 SITE 6 AC9 21 HOH A 793 SITE 1 AD1 20 CYS A 180 ASN A 181 SER A 182 PHE A 183 SITE 2 AD1 20 THR A 184 CYS A 186 GLU A 192 ILE A 237 SITE 3 AD1 20 TYR A 239 ASP A 241 TYR A 257 LEU A 290 SITE 4 AD1 20 GLU A 294 LYS A 329 CYS A 333 VAL A 368 SITE 5 AD1 20 GOL A 507 HOH A 602 HOH A 759 HOH A 810 CRYST1 61.433 66.636 107.340 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 0.016278 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015007 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009316 0.00000