HEADER TRANSFERASE 24-SEP-15 5ARF TITLE SMYD2 IN COMPLEX WITH SMALL MOLECULE INHIBITOR COMPOUND-2 COMPND MOL_ID: 1; COMPND 2 MOLECULE: N-LYSINE METHYLTRANSFERASE SMYD2; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: SET DOMAIN, UNP RESIDUES 2-433; COMPND 5 EC: 2.1.1.-, 2.1.1.43; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 6 EXPRESSION_SYSTEM_COMMON: FALL ARMYWORM; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 8 EXPRESSION_SYSTEM_CELL_LINE: SF9 KEYWDS TRANSFERASE, METHYLTRANSFERASE, SET DOMAIN, SMALL MOLECULE INHIBITOR, KEYWDS 2 SGC PROBE, DRUG TARGET EXPDTA X-RAY DIFFRACTION AUTHOR R.C.HILLIG,V.BADOCK,N.BARAK,T.STELLFELD,E.EGGERT,A.TER LAAK,J.WEISKE, AUTHOR 2 C.D.CHRIST,S.KOEHR,D.STOECKIGT,J.MOWAT,T.MUELLER,A.E.FERNANDEZ- AUTHOR 3 MONTALVAN,I.V.HARTUNG,C.STRESEMANN,T.BRUMBY,H.WEINMANN REVDAT 4 10-JAN-24 5ARF 1 REMARK LINK REVDAT 3 13-SEP-17 5ARF 1 REMARK REVDAT 2 08-JUN-16 5ARF 1 JRNL REVDAT 1 27-APR-16 5ARF 0 JRNL AUTH E.EGGERT,R.C.HILLIG,S.KOHR,D.STOCKIGT,J.WEISKE,N.BARAK, JRNL AUTH 2 J.MOWAT,T.BRUMBY,C.D.CHRIST,A.TER LAAK,T.LANG, JRNL AUTH 3 A.E.FERNANDEZ-MONTALVAN,V.BADOCK,H.WEINMANN,I.V.HARTUNG, JRNL AUTH 4 D.BARSYTE-LOVEJOY,M.SZEWCZYK,S.KENNEDY,F.LI,M.VEDADI, JRNL AUTH 5 P.J.BROWN,V.SANTHAKUMAR,C.H.ARROWSMITH,T.STELLFELD, JRNL AUTH 6 C.STRESEMANN JRNL TITL DISCOVERY AND CHARACTERIZATION OF A HIGHLY POTENT AND JRNL TITL 2 SELECTIVE AMINOPYRAZOLINE-BASED IN VIVO PROBE (BAY-598) FOR JRNL TITL 3 THE PROTEIN LYSINE METHYLTRANSFERASE SMYD2. JRNL REF J.MED.CHEM. V. 59 4578 2016 JRNL REFN ISSN 0022-2623 JRNL PMID 27075367 JRNL DOI 10.1021/ACS.JMEDCHEM.5B01890 REMARK 2 REMARK 2 RESOLUTION. 1.92 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0032 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.92 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.59 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 97.9 REMARK 3 NUMBER OF REFLECTIONS : 34348 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.260 REMARK 3 R VALUE (WORKING SET) : 0.257 REMARK 3 FREE R VALUE : 0.301 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1808 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.92 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.97 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2418 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.86 REMARK 3 BIN R VALUE (WORKING SET) : 0.3250 REMARK 3 BIN FREE R VALUE SET COUNT : 127 REMARK 3 BIN FREE R VALUE : 0.3670 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3419 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 64 REMARK 3 SOLVENT ATOMS : 127 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 52.97 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.22000 REMARK 3 B22 (A**2) : 0.32000 REMARK 3 B33 (A**2) : -0.10000 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 OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.215 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.191 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.917 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.883 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3563 ; 0.017 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3364 ; 0.000 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4807 ; 1.986 ; 1.985 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7755 ; 3.631 ; 3.001 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 424 ; 7.438 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 166 ;38.701 ;24.217 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 642 ;19.011 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 20 ;16.685 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 510 ; 0.111 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3969 ; 0.011 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 804 ; 0.019 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1702 ; 1.255 ; 0.443 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1702 ; 1.253 ; 0.444 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2124 ; 1.854 ; 0.983 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1861 ; 2.336 ; 0.673 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 6 A 271 REMARK 3 ORIGIN FOR THE GROUP (A): 19.5220 -14.1030 -7.7270 REMARK 3 T TENSOR REMARK 3 T11: 0.2797 T22: 0.3625 REMARK 3 T33: 0.0901 T12: -0.0978 REMARK 3 T13: -0.0326 T23: 0.0087 REMARK 3 L TENSOR REMARK 3 L11: 4.4054 L22: 0.9782 REMARK 3 L33: 8.3040 L12: 0.0130 REMARK 3 L13: -3.8228 L23: 0.8657 REMARK 3 S TENSOR REMARK 3 S11: -0.3705 S12: 0.8497 S13: 0.1350 REMARK 3 S21: 0.1142 S22: 0.4131 S23: -0.0679 REMARK 3 S31: 0.9678 S32: -0.4421 S33: -0.0426 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 272 A 430 REMARK 3 ORIGIN FOR THE GROUP (A): 1.7420 -4.1050 8.2610 REMARK 3 T TENSOR REMARK 3 T11: 0.2032 T22: 0.4774 REMARK 3 T33: 0.2750 T12: 0.0397 REMARK 3 T13: -0.0059 T23: 0.1667 REMARK 3 L TENSOR REMARK 3 L11: 5.2749 L22: 0.9878 REMARK 3 L33: 7.7991 L12: -0.2432 REMARK 3 L13: -3.2838 L23: 1.0163 REMARK 3 S TENSOR REMARK 3 S11: 0.2538 S12: 0.8686 S13: 0.7892 REMARK 3 S21: -0.1589 S22: 0.0651 S23: 0.1948 REMARK 3 S31: -0.4007 S32: -1.7020 S33: -0.3188 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. B FACTORS WITH TLS ADDED. REMARK 4 REMARK 4 5ARF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 24-SEP-15. REMARK 100 THE DEPOSITION ID IS D_1290065136. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-FEB-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : BESSY REMARK 200 BEAMLINE : 14.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.918409 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 36156 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.920 REMARK 200 RESOLUTION RANGE LOW (A) : 48.110 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.9 REMARK 200 DATA REDUNDANCY : 3.690 REMARK 200 R MERGE (I) : 0.08000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.8300 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.92 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.03 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.4 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.70000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.300 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 3TG5 REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.41 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: SMYD2 CO-CRYSTALLIZED WITH 2 MMOL SAM. REMARK 280 RESERVOIR 23% PEG 3350, 100 MMOL HEPES PH 7.0. CO-COMPLEX WITH REMARK 280 INHIBITOR FORMED BY SOAKING SMYD2-SAM CRYSTALS WITH 5 MILLIMOLAR REMARK 280 COMPOUND-2 FOR 1 HOUR. CRYO WITH ADDITIONAL 20% GLYCEROL AND 1 REMARK 280 MMOL COMPOUND-2. 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 65.24650 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 34.78400 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 25.87950 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 34.78400 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 65.24650 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 25.87950 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 1 REMARK 465 ARG A 2 REMARK 465 ALA A 3 REMARK 465 GLU A 4 REMARK 465 GLY A 5 REMARK 465 GLU A 431 REMARK 465 SER A 432 REMARK 465 HIS A 433 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O ARG A 19 N SAM A 1002 2.06 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O GLU A 60 O SER A 161 2555 2.17 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 CYS A 267 CA CYS A 267 CB 0.172 REMARK 500 CYS A 267 CB CYS A 267 SG 0.131 REMARK 500 CYS A 267 CA CYS A 267 C 0.182 REMARK 500 REMARK 500 REMARK: NULL 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 LEU A 164 CB - CG - CD1 ANGL. DEV. = -10.9 DEGREES REMARK 500 CYS A 267 CB - CA - C ANGL. DEV. = 17.5 DEGREES REMARK 500 CYS A 267 CA - CB - SG ANGL. DEV. = 14.1 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 ARG A 67 -74.26 104.30 REMARK 500 LYS A 69 16.76 47.53 REMARK 500 ASN A 75 172.34 177.64 REMARK 500 ASN A 101 49.90 -151.17 REMARK 500 HIS A 137 25.78 48.46 REMARK 500 ASP A 147 -71.18 -57.79 REMARK 500 LEU A 148 -48.11 -25.68 REMARK 500 ASP A 188 -165.71 -78.64 REMARK 500 VAL A 277 53.57 -111.98 REMARK 500 ASP A 284 62.41 -171.95 REMARK 500 GLU A 289 -33.52 131.78 REMARK 500 TYR A 311 -1.24 -160.93 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 GLY A 66 ARG A 67 42.52 REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 N-[3-(4-CHLOROPHENYL)-1-{N'-CYANO-N-[3-(DIFLUOROMETHOXY)PHENYL] REMARK 600 CARBAMIMIDOYL}-4,5-DIHYDRO-1H-PYRAZOL-4-YL]-N-ETHYL-2- REMARK 600 HYDROXYACETAMIDE 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 A1004 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 52 SG REMARK 620 2 CYS A 55 SG 109.4 REMARK 620 3 CYS A 74 SG 95.3 100.5 REMARK 620 4 CYS A 78 SG 96.7 134.2 114.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1005 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 65 SG REMARK 620 2 HIS A 86 NE2 129.2 REMARK 620 3 CYS A 90 SG 115.8 105.0 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1003 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 209 SG REMARK 620 2 CYS A 262 SG 113.0 REMARK 620 3 CYS A 264 SG 110.6 124.4 REMARK 620 4 CYS A 267 SG 60.2 115.0 115.9 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 I9H A 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SAM A 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 1003 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 1004 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 1005 DBREF 5ARF A 2 433 UNP Q9NRG4 SMYD2_HUMAN 2 433 SEQADV 5ARF GLY A 1 UNP Q9NRG4 EXPRESSION TAG SEQRES 1 A 433 GLY ARG ALA GLU GLY LEU GLY GLY LEU GLU ARG PHE CYS SEQRES 2 A 433 SER PRO GLY LYS GLY ARG GLY LEU ARG ALA LEU GLN PRO SEQRES 3 A 433 PHE GLN VAL GLY ASP LEU LEU PHE SER CYS PRO ALA TYR SEQRES 4 A 433 ALA TYR VAL LEU THR VAL ASN GLU ARG GLY ASN HIS CYS SEQRES 5 A 433 GLU TYR CYS PHE THR ARG LYS GLU GLY LEU SER LYS CYS SEQRES 6 A 433 GLY ARG CYS LYS GLN ALA PHE TYR CYS ASN VAL GLU CYS SEQRES 7 A 433 GLN LYS GLU ASP TRP PRO MET HIS LYS LEU GLU CYS SER SEQRES 8 A 433 PRO MET VAL VAL PHE GLY GLU ASN TRP ASN PRO SER GLU SEQRES 9 A 433 THR VAL ARG LEU THR ALA ARG ILE LEU ALA LYS GLN LYS SEQRES 10 A 433 ILE HIS PRO GLU ARG THR PRO SER GLU LYS LEU LEU ALA SEQRES 11 A 433 VAL LYS GLU PHE GLU SER HIS LEU ASP LYS LEU ASP ASN SEQRES 12 A 433 GLU LYS LYS ASP LEU ILE GLN SER ASP ILE ALA ALA LEU SEQRES 13 A 433 HIS HIS PHE TYR SER LYS HIS LEU GLY PHE PRO ASP ASN SEQRES 14 A 433 ASP SER LEU VAL VAL LEU PHE ALA GLN VAL ASN CYS ASN SEQRES 15 A 433 GLY PHE THR ILE GLU ASP GLU GLU LEU SER HIS LEU GLY SEQRES 16 A 433 SER ALA ILE PHE PRO ASP VAL ALA LEU MET ASN HIS SER SEQRES 17 A 433 CYS CYS PRO ASN VAL ILE VAL THR TYR LYS GLY THR LEU SEQRES 18 A 433 ALA GLU VAL ARG ALA VAL GLN GLU ILE LYS PRO GLY GLU SEQRES 19 A 433 GLU VAL PHE THR SER TYR ILE ASP LEU LEU TYR PRO THR SEQRES 20 A 433 GLU ASP ARG ASN ASP ARG LEU ARG ASP SER TYR PHE PHE SEQRES 21 A 433 THR CYS GLU CYS GLN GLU CYS THR THR LYS ASP LYS ASP SEQRES 22 A 433 LYS ALA LYS VAL GLU ILE ARG LYS LEU SER ASP PRO PRO SEQRES 23 A 433 LYS ALA GLU ALA ILE ARG ASP MET VAL ARG TYR ALA ARG SEQRES 24 A 433 ASN VAL ILE GLU GLU PHE ARG ARG ALA LYS HIS TYR LYS SEQRES 25 A 433 SER PRO SER GLU LEU LEU GLU ILE CYS GLU LEU SER GLN SEQRES 26 A 433 GLU LYS MET SER SER VAL PHE GLU ASP SER ASN VAL TYR SEQRES 27 A 433 MET LEU HIS MET MET TYR GLN ALA MET GLY VAL CYS LEU SEQRES 28 A 433 TYR MET GLN ASP TRP GLU GLY ALA LEU GLN TYR GLY GLN SEQRES 29 A 433 LYS ILE ILE LYS PRO TYR SER LYS HIS TYR PRO LEU TYR SEQRES 30 A 433 SER LEU ASN VAL ALA SER MET TRP LEU LYS LEU GLY ARG SEQRES 31 A 433 LEU TYR MET GLY LEU GLU HIS LYS ALA ALA GLY GLU LYS SEQRES 32 A 433 ALA LEU LYS LYS ALA ILE ALA ILE MET GLU VAL ALA HIS SEQRES 33 A 433 GLY LYS ASP HIS PRO TYR ILE SER GLU ILE LYS GLN GLU SEQRES 34 A 433 ILE GLU SER HIS HET I9H A1001 34 HET SAM A1002 27 HET ZN A1003 1 HET ZN A1004 1 HET ZN A1005 1 HETNAM I9H N-[3-(4-CHLOROPHENYL)-1-{N'-CYANO-N-[3- HETNAM 2 I9H (DIFLUOROMETHOXY)PHENYL]CARBAMIMIDOYL}-4,5-DIHYDRO-1H- HETNAM 3 I9H PYRAZOL-4-YL]-N-ETHYL-2-HYDROXYACETAMIDE HETNAM SAM S-ADENOSYLMETHIONINE HETNAM ZN ZINC ION FORMUL 2 I9H C22 H21 CL F2 N6 O3 FORMUL 3 SAM C15 H22 N6 O5 S FORMUL 4 ZN 3(ZN 2+) FORMUL 7 HOH *127(H2 O) HELIX 1 1 VAL A 45 GLU A 47 5 3 HELIX 2 2 ASN A 75 GLY A 97 1 23 HELIX 3 3 GLU A 98 TRP A 100 5 3 HELIX 4 4 SER A 103 HIS A 119 1 17 HELIX 5 5 ALA A 130 PHE A 134 5 5 HELIX 6 6 HIS A 137 LEU A 141 5 5 HELIX 7 7 ASP A 142 SER A 161 1 20 HELIX 8 8 ASP A 168 GLY A 183 1 16 HELIX 9 9 ASP A 201 MET A 205 5 5 HELIX 10 10 PRO A 246 PHE A 259 1 14 HELIX 11 11 CYS A 264 LYS A 270 1 7 HELIX 12 12 LYS A 272 VAL A 277 1 6 HELIX 13 13 GLU A 289 LYS A 309 1 21 HELIX 14 14 SER A 313 SER A 329 1 17 HELIX 15 15 ASN A 336 MET A 353 1 18 HELIX 16 16 ASP A 355 TYR A 374 1 20 HELIX 17 17 SER A 378 LEU A 395 1 18 HELIX 18 18 HIS A 397 HIS A 416 1 20 HELIX 19 19 HIS A 420 ILE A 430 1 11 SHEET 1 AA 2 LEU A 9 CYS A 13 0 SHEET 2 AA 2 ARG A 19 ALA A 23 -1 O GLY A 20 N PHE A 12 SHEET 1 AB 3 LEU A 32 PRO A 37 0 SHEET 2 AB 3 LEU A 221 ALA A 226 -1 O ALA A 222 N CYS A 36 SHEET 3 AB 3 VAL A 213 LYS A 218 -1 O ILE A 214 N ARG A 225 SHEET 1 AC 3 ALA A 40 LEU A 43 0 SHEET 2 AC 3 HIS A 193 ILE A 198 -1 O SER A 196 N VAL A 42 SHEET 3 AC 3 PHE A 184 GLU A 187 -1 O PHE A 184 N ALA A 197 SHEET 1 AD 2 SER A 63 LYS A 64 0 SHEET 2 AD 2 PHE A 72 TYR A 73 -1 O TYR A 73 N SER A 63 SHEET 1 AE 2 ASN A 206 HIS A 207 0 SHEET 2 AE 2 PHE A 237 THR A 238 1 N THR A 238 O ASN A 206 SSBOND 1 CYS A 68 CYS A 90 1555 1555 2.94 SSBOND 2 CYS A 209 CYS A 267 1555 1555 2.28 LINK SG CYS A 52 ZN ZN A1004 1555 1555 2.43 LINK SG CYS A 55 ZN ZN A1004 1555 1555 2.08 LINK SG CYS A 65 ZN ZN A1005 1555 1555 1.99 LINK SG CYS A 74 ZN ZN A1004 1555 1555 2.40 LINK SG CYS A 78 ZN ZN A1004 1555 1555 2.10 LINK NE2 HIS A 86 ZN ZN A1005 1555 1555 2.12 LINK SG CYS A 90 ZN ZN A1005 1555 1555 2.47 LINK SG CYS A 209 ZN ZN A1003 1555 1555 2.44 LINK SG CYS A 262 ZN ZN A1003 1555 1555 2.30 LINK SG CYS A 264 ZN ZN A1003 1555 1555 2.22 LINK SG CYS A 267 ZN ZN A1003 1555 1555 2.06 SITE 1 AC1 14 GLU A 104 THR A 105 LEU A 108 VAL A 179 SITE 2 AC1 14 ASN A 180 GLY A 183 PHE A 184 THR A 185 SITE 3 AC1 14 SER A 196 VAL A 202 MET A 205 TYR A 217 SITE 4 AC1 14 TYR A 240 TYR A 258 SITE 1 AC2 16 GLY A 16 LYS A 17 ARG A 19 GLU A 135 SITE 2 AC2 16 HIS A 137 CYS A 181 ASN A 182 ALA A 203 SITE 3 AC2 16 LEU A 204 MET A 205 ASN A 206 HIS A 207 SITE 4 AC2 16 TYR A 240 TYR A 258 PHE A 260 HOH A2040 SITE 1 AC3 4 CYS A 209 CYS A 262 CYS A 264 CYS A 267 SITE 1 AC4 4 CYS A 52 CYS A 55 CYS A 74 CYS A 78 SITE 1 AC5 4 CYS A 65 CYS A 68 HIS A 86 CYS A 90 CRYST1 130.493 51.759 69.568 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 0.007663 0.000000 0.000000 0.00000 SCALE2 0.000000 0.019320 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014374 0.00000